Citrus Sinensis ID: 041505

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------25
Protein Sequence
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYGK
Secondary Structure (PSIPRED)
ccEEEcccccccccccccccccccccEEEccccccccccccccccccccEEEcccccccccccccHHccccccEEccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccEEEccccccccccHHHcccccccEEcccccccccccccccccccEEcccccccccccccccccHHHHccEEcccccccccccccHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEcccccccccccccccccccccEEEccccccccccccccccccccEEEcccccccccccHHHHcHHcccEEEcccccccccccccHcccHcccEEEccccccHccccHHcccHHHccEEEccccccccccccHcccccccEEEccccccccccHHHHccHcccEEEccccccccccccccccccEEEccccccccccccccccHHHHHHHHHHHcccHHcccccHHHHHHHHHHccEEEccccc
Coil and Loop (DISEMBL)
MKELVDDHALELFSLyafkqnnphivvlnlrdckslkslpagiHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYceslnslpsglcklkllnyltlnccsnlqRLPDELGNLEALWISREagvisrwlpenigqlsslgkldlqknnferiPESVIQLSKLGRLYLRYWERLqslpklpcklheldahhcTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNfwqlhygk
Flexible Loop (DISEMBL)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNfwqlhygk
Low Complexity Region (SEG)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGlcklkllnyltlnccSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTAleslsglfssfeARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYGK
Disordered region (IsUnstruct)
******DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHY**
Disordered Region (DISOPRED)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR*****KMLCKKLNFWQLHYG*
Disordered Region (DISEMBL)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYGK
Disordered Region (DISPRO)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLH***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYGK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	248	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.653	0.141	0.342	1e-15
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.491	0.064	0.323	2e-09
P0CB16	1201	Putative disease resistan	no	no	0.733	0.151	0.312	3e-09
Q7SXW3	601	Leucine-rich repeat-conta	yes	no	0.697	0.287	0.338	7e-09
Q9HB75	910	p53-induced protein with	yes	no	0.633	0.172	0.347	7e-09
Q9LZ25	811	Probable disease resistan	no	no	0.536	0.163	0.296	2e-08
B0M0P8	2356	Ras guanine nucleotide ex	yes	no	0.592	0.062	0.356	2e-08
Q5E9C0	277	Ras suppressor protein 1	no	no	0.604	0.541	0.365	2e-08
Q5F4C4	529	Leucine-rich repeat prote	yes	no	0.649	0.304	0.350	3e-08
Q7KRY7	1851	Protein lap4 OS=Drosophil	yes	no	0.612	0.082	0.386	3e-08

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 74/216 (34%), Positives = 102/216 (47%), Gaps = 54/216 (25%)

Query: 28  LNLRDCKSLKSLPAGIHLEFLKELDL-LNGTAIEELPSAI-ECLYKLLHLDLEYCESLNS 85
           L LR C SL+ LP  I+     E+ + + G+ I ELPS+I +    +  L L   ++L +
Sbjct: 693 LGLRSCDSLEKLPE-IYGRMKPEIQIHMQGSGIRELPSSIFQYKTHVTKLLLWNMKNLVA 751

Query: 86  LPSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISR------------------ 124
           LPS +C+LK L  L+++ CS L+ LP+E   L NL     S                   
Sbjct: 752 LPSSICRLKSLVSLSVSGCSKLESLPEEIGDLDNLRVFDASDTLILRPPSSIIRLNKLII 811

Query: 125 ------EAGV------------------------ISRWLPENIGQLSSLGKLDLQKNNFE 154
                 + GV                        I   LPE IG LSSL KLDL +NNFE
Sbjct: 812 LMFRGFKDGVHFEFPPVAEGLHSLEYLNLSYCNLIDGGLPEEIGSLSSLKKLDLSRNNFE 871

Query: 155 RIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHEL 190
            +P S+ QL  L  L L+  +RL  LP+LP +L+EL
Sbjct: 872 HLPSSIAQLGALQSLDLKDCQRLTQLPELPPELNEL 907

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 74/142 (52%), Gaps = 20/142 (14%)

Query: 25   IVVLNLRDCKSLKSLPAGIHLEFLKELDL--------------------LNGTAIEELPS 64
            +V LNL+ C  L+++P+ + LE L+ L+L                    + GT I+E+PS
Sbjct: 1307 LVFLNLKGCSKLENIPSMVDLESLEVLNLSGCSKLGNFPEISPNVKELYMGGTMIQEIPS 1366

Query: 65   AIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISR 124
            +I+ L  L  LDLE    L +LP+ + KLK L  L L+ C +L+R PD    ++ L    
Sbjct: 1367 SIKNLVLLEKLDLENSRHLKNLPTSIYKLKHLETLNLSGCISLERFPDSSRRMKCLRFLD 1426

Query: 125  EAGVISRWLPENIGQLSSLGKL 146
             +    + LP +I  L++L +L
Sbjct: 1427 LSRTDIKELPSSISYLTALDEL 1448

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|P0CB16|DRL25_ARATH Putative disease resistance protein At4g19050 OS=Arabidopsis thaliana GN=At4g19050 PE=3 SV=2

 Score = 62.4 bits (150), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 60/192 (31%), Positives = 95/192 (49%), Gaps = 10/192 (5%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTA-IEELPSAIECLYKLLHLDLEYCE 81
           P +  L LR+C  LK LP    L  L+ LD    T  +E L   +E   +L  LD+    
Sbjct: 631 PILTRLLLRNCTRLKRLPQLRPLTNLQILDACGATDLVEMLEVCLEEKKELRILDMSKT- 689

Query: 82  SLNSLPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVIS-RWLPENIG 138
           SL  L   +  +  LN L L  CS ++ LP  ++L +LE   +S   G I  + +  + G
Sbjct: 690 SLPELADTIADVVNLNKLLLRNCSLIEELPSIEKLTHLEVFDVS---GCIKLKNINGSFG 746

Query: 139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLP--CKLHELDAHHCT 196
           ++S L +++L + N   +P+ + +LS L  L +R   +L++LP L     L   D   CT
Sbjct: 747 EMSYLHEVNLSETNLSELPDKISELSNLKELIIRKCSKLKTLPNLEKLTNLEIFDVSGCT 806

Query: 197 ALESLSGLFSSF 208
            LE++ G F + 
Sbjct: 807 ELETIEGSFENL 818

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7SXW3|LRC40_DANRE Leucine-rich repeat-containing protein 40 OS=Danio rerio GN=lrrc40 PE=2 SV=1

 Score = 61.2 bits (147), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 66/195 (33%), Positives = 100/195 (51%), Gaps = 22/195 (11%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKL--LHLDLEY 79
           P +VVL++ D   L SLP  I  LE L++L +L+   + ELPS +  L  L  LHL    
Sbjct: 103 PALVVLDIHD-NQLSSLPDSIGDLEQLQKL-ILSHNKLTELPSGVWRLTNLRCLHLQQNL 160

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQ 139
            E +   P  L +L  L+ L L+  ++L  +P+ L NL+ L     +    + LP  I Q
Sbjct: 161 IEQI---PRDLGQLVNLDELDLSN-NHLIDIPESLANLQNLVKLDLSCNKLKSLPPAISQ 216

Query: 140 LSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPC------------KL 187
           + +L  LD  +N  E IP  + Q+  L +LYLR+  +L+ LP+LPC            ++
Sbjct: 217 MKNLRMLDCSRNQMESIPPVLAQMESLEQLYLRH-NKLRYLPELPCCKTLKELHCGNNQI 275

Query: 188 HELDAHHCTALESLS 202
             L+A H   L +LS
Sbjct: 276 EVLEAEHLKHLNALS 290

Danio rerio (taxid: 7955)

>sp|Q9HB75|PIDD_HUMAN p53-induced protein with a death domain OS=Homo sapiens GN=PIDD PE=1 SV=2

 Score = 60.8 bits (146), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 58/167 (34%), Positives = 79/167 (47%), Gaps = 10/167 (5%)

Query: 58  AIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTL--NCCSNLQRLPDELG 115
           A+  LP+ +  L  L HLDL +  SL +LP+ + +++ L  L L  NC   L  LP+ LG
Sbjct: 113 ALTNLPAGLSGLAHLAHLDLSF-NSLETLPACVLQMRGLGALLLSHNC---LSELPEALG 168

Query: 116 NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE 175
            L AL          + LP  +G LS+L +LDL +N  + +P  +  L  L  L L    
Sbjct: 169 ALPALTFLTVTHNRLQTLPPALGALSTLQRLDLSQNLLDTLPPEIGGLGSLLELNLAS-N 227

Query: 176 RLQSLPKLPCKLHELD--AHHCTALESLSGLFSSFEARTRYFDLRYN 220
           RLQSLP     L  L     H   L S+    +     TR  DLR N
Sbjct: 228 RLQSLPASLAGLRSLRLLVLHSNLLASVPADLARLPLLTR-LDLRDN 273

Promotes apoptosis downstream of the tumor suppressor as component of the DNA damage/stress response pathway that connects p53/TP53 to apoptosis. Associates with NEMO/IKBKG and RIP1 and enhances sumoylation and ubiquitination of NEMO/IKBKG which is important for activation of the transcription factor NF-kappa-B. Associates with CASP2/caspase-2 and CRADD/RAIDD, and induces activation of CASP2 which an important regulator in apoptotic pathways.

Homo sapiens (taxid: 9606)

>sp|Q9LZ25|DRL30_ARATH Probable disease resistance protein At5g04720 OS=Arabidopsis thaliana GN=At5g04720 PE=2 SV=1

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 48/162 (29%), Positives = 73/162 (45%), Gaps = 29/162 (17%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE 81
           P +  L +  C  L  LP+ I  +  L  + + N   I+ELP  +  L  L  L L  C 
Sbjct: 651 PKLSDLTIDHCDDLLELPSTICGITSLNSISITNCPRIKELPKNLSKLKALQLLRLYACH 710

Query: 82  SLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLS 141
            LNSLP  +C+L  L Y+ ++ C +L                         LPE IG++ 
Sbjct: 711 ELNSLPVEICELPRLKYVDISQCVSLSS-----------------------LPEKIGKVK 747

Query: 142 SLGKLDLQKNNFERIPESVIQLSKL-----GRLYLRYWERLQ 178
           +L K+D ++ +   IP SV+ L+ L      R  L  WE++Q
Sbjct: 748 TLEKIDTRECSLSSIPNSVVLLTSLRHVICDREALWMWEKVQ 789

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|B0M0P8|GEFL_DICDI Ras guanine nucleotide exchange factor L OS=Dictyostelium discoideum GN=gefL PE=2 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 87/157 (55%), Gaps = 10/157 (6%)

Query: 36  LKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES--LNSLPSGLC- 91
           LKS+P  I  +  LK+L +L+G  +E +P  I  L  L HLD   C S  L+S+P+ L  
Sbjct: 174 LKSIPTQIGQMIGLKKL-ILSGNQMESIPMEISNLKSLTHLD---CSSNILSSIPNELGN 229

Query: 92  KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKN 151
           KL  L++L L   + L+ +PDE+G  ++L   R        LP++IG+L +L +L LQ+N
Sbjct: 230 KLSQLSFLFLQH-NKLRSIPDEIGQCQSLVSLRLNNNSITLLPQSIGELENLQELYLQEN 288

Query: 152 NFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLH 188
               +P  +     L +LYL +  +L +LP    +LH
Sbjct: 289 RLNTLPSELGNCCSLKKLYLEF-NKLIALPDRFKRLH 324

Promotes the exchange of Ras-bound GDP by GTP.

Dictyostelium discoideum (taxid: 44689)

>sp|Q5E9C0|RSU1_BOVIN Ras suppressor protein 1 OS=Bos taurus GN=RSU1 PE=2 SV=1

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 84/164 (51%), Gaps = 14/164 (8%)

Query: 24  HIVVLNLRDCKSLKSLPAGIHLEFLKELDLLN--GTAIEELPSAIECLYKLLHLDLEYCE 81
           HI  L L   K L ++P  I    LK L++LN     IEELP+ I  L KL HL+L    
Sbjct: 41  HITQLVLSHNK-LTTVPPNI--AELKNLEVLNFFNNQIEELPTQISSLQKLKHLNLG-MN 96

Query: 82  SLNSLPSGLCKLKLLNYLTLNCCS-NLQRLPDE---LGNLEALWISREAGVISRWLPENI 137
            LN+LP G   L  L  L L   + N   LP     L  L AL++S     I   LP +I
Sbjct: 97  RLNTLPRGFGSLPALEVLDLTYNNLNENSLPGNFFYLTTLRALYLSDNDFEI---LPPDI 153

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP 181
           G+L+ L  L L+ N+   +P+ + +L++L  L+++   RL  LP
Sbjct: 154 GKLTKLQILSLRDNDLISLPKEIGELTQLKELHIQ-GNRLTVLP 196

Potentially plays a role in the Ras signal transduction pathway. Capable of suppressing v-Ras transformation in vitro.

Bos taurus (taxid: 9913)

>sp|Q5F4C4|SHOC2_CHICK Leucine-rich repeat protein SHOC-2 OS=Gallus gallus GN=SHOC2 PE=2 SV=1

 Score = 58.9 bits (141), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 60/171 (35%), Positives = 89/171 (52%), Gaps = 10/171 (5%)

Query: 24  HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
           ++V L L +  SL SLP  + +L+ L+ LDL +   + E+PS +  L  L  L L +   
Sbjct: 147 NLVTLALSE-NSLTSLPDSLDNLKKLRMLDLRHN-KLREIPSVVYRLTSLATLYLRF--- 201

Query: 83  LNSLPSGLCKLKLLNYLTLNCC--SNLQRLPDELGNLEALWISREAGVISRWLPENIGQL 140
            N + +    +K L+ LT+     + +++LP E+G L  L     A      LPE IG  
Sbjct: 202 -NRITTVEKDIKTLSKLTMLSIRENKIKQLPAEIGELCNLITLDVAHNQLEHLPEEIGSC 260

Query: 141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELD 191
           + +  LDLQ N    +PE++  LS L RL LRY  RL ++PK   K  ELD
Sbjct: 261 TQITNLDLQHNELLDLPETIGNLSSLSRLGLRY-NRLSAIPKSLAKCSELD 310

Regulatory subunit of protein phosphatase 1 (PP1c) that acts as a M-Ras/MRAS effector and participates in MAPK pathway activation. Upon M-Ras/MRAS activation, targets PP1c to specifically dephosphorylate the 'Ser-259' inhibitory site of RAF1 kinase and stimulate RAF1 activity at specialized signaling complexes.

Gallus gallus (taxid: 9031)

>sp|Q7KRY7|LAP4_DROME Protein lap4 OS=Drosophila melanogaster GN=scrib PE=1 SV=1

 Score = 58.9 bits (141), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 61/158 (38%), Positives = 79/158 (50%), Gaps = 6/158 (3%)

Query: 24  HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
           ++ VL L D  SL +LPA    L  L+ L+L     ++ LP  I  L KL  LDL   E 
Sbjct: 130 NLTVLGLND-MSLTTLPADFGSLTQLESLELRE-NLLKHLPETISQLTKLKRLDLGDNE- 186

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSS 142
           +  LP  L  L  L+ L L+  + LQRLP ELG L  L     +      LP  I  L S
Sbjct: 187 IEDLPPYLGYLPGLHELWLDH-NQLQRLPPELGLLTKLTYLDVSENRLEELPNEISGLVS 245

Query: 143 LGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSL 180
           L  LDL +N  E +P+ + +LS+L  L L    RLQ L
Sbjct: 246 LTDLDLAQNLLEALPDGIAKLSRLTILKLDQ-NRLQRL 282

Required for polarization of the embryonic, imaginal disk and follicular epithelia. Specifically restricts apical membrane determinants to the apical cell surface; acts to exclude crb from the basolateral domain and define adherens junction position. Regulates cellular growth and differentiation; acts as a tumor suppressor. Essential for odor guided behavior.

Drosophila melanogaster (taxid: 7227)

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	248
451799084	1514	TMV resistance protein N-like protein 1	0.806	0.132	0.352	4e-23
297741888	1186	unnamed protein product [Vitis vinifera]	0.745	0.155	0.372	5e-23
296081089	1183	unnamed protein product [Vitis vinifera]	0.806	0.169	0.339	7e-23
297741884	691	unnamed protein product [Vitis vinifera]	0.745	0.267	0.372	1e-22
359493229	1542	PREDICTED: TMV resistance protein N-like	0.806	0.129	0.339	1e-22
147821054	1530	hypothetical protein VITISV_029044 [Viti	0.782	0.126	0.344	8e-22
255537139	1137	leucine-rich repeat-containing protein,	0.75	0.163	0.383	1e-21
255563202	1158	leucine-rich repeat containing protein,	0.741	0.158	0.381	1e-21
147799796	1350	hypothetical protein VITISV_024109 [Viti	0.802	0.147	0.349	8e-20
359493227	1536	PREDICTED: TMV resistance protein N-like	0.713	0.115	0.352	1e-19

>gi|451799084|gb|AGF69238.1| TMV resistance protein N-like protein 1 [Vitis labrusca]

 Score =  114 bits (285), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 84/238 (35%), Positives = 124/238 (52%), Gaps = 38/238 (15%)

Query: 14   SLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKL 72
            S++ FK     +  L+   C  L+S P  +  +E L++L  LNGTAI+E+PS+I+ L  L
Sbjct: 1123 SIFGFKS----LATLSCSGCSQLESFPEILQDMESLRKL-YLNGTAIKEIPSSIQRLRGL 1177

Query: 73   LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL------------ 120
             +L L  C++L +LP  +C L     L ++ C N  +LPD LG L++L            
Sbjct: 1178 QYLLLRNCKNLVNLPESICNLTSFKTLVVSRCPNFNKLPDNLGRLQSLEYLFVGHLDSMN 1237

Query: 121  -WISREAGVIS-----------RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGR 168
              +   +G+ S           R  P  I  LSSL  L L  N+F RIP+ + QL  L  
Sbjct: 1238 FQLPSLSGLCSLRTLKLQGCNLREFPSEIYYLSSLVTLSLGGNHFSRIPDGISQLYNLEN 1297

Query: 169  LYLRYWERLQSLPKLPCKLHELDAHHCTALESL--------SGLFSSFEARTRYFDLR 218
            LYL + + LQ +P+LP  L  LDAHHCT+LE+L        S LF  F+++ +  + R
Sbjct: 1298 LYLGHCKMLQHIPELPSGLFCLDAHHCTSLENLSSRSNLLWSSLFKCFKSQIQGREFR 1355

Source: Vitis labrusca

Species: Vitis labrusca

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741888|emb|CBI33323.3| unnamed protein product [Vitis vinifera]

 Score =  114 bits (284), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 80/215 (37%), Positives = 115/215 (53%), Gaps = 30/215 (13%)

Query: 14   SLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKL 72
            S++ FK     +  L+   C  L+S P  +  +E L++L  LNGTAI+E+PS+I+ L  L
Sbjct: 952  SIFGFKS----LATLSCSGCSQLESFPEILQDMESLRKL-YLNGTAIKEIPSSIQRLRGL 1006

Query: 73   LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL------------ 120
             +L L  C++L +LP  +C L     L ++ C N  +LPD LG L++L            
Sbjct: 1007 QYLLLRNCKNLVNLPESICNLTSFKTLVVSRCPNFNKLPDNLGRLQSLEYLFVGHLDSMN 1066

Query: 121  -WISREAGVIS-----------RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGR 168
              +   +G+ S           R  P  I  LSSL  L L  N+F RIP+ + QL  L  
Sbjct: 1067 FQLPSLSGLCSLRTLKLQGCNLREFPSEIYYLSSLVTLSLGGNHFSRIPDGISQLYNLEN 1126

Query: 169  LYLRYWERLQSLPKLPCKLHELDAHHCTALESLSG 203
            LYL + + LQ +P+LP  L  LDAHHCT+LE+LS 
Sbjct: 1127 LYLGHCKMLQHIPELPSGLFCLDAHHCTSLENLSS 1161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081089|emb|CBI18283.3| unnamed protein product [Vitis vinifera]

 Score =  113 bits (283), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 87/256 (33%), Positives = 127/256 (49%), Gaps = 56/256 (21%)

Query: 20   QNNPHIVVLNLRDCKSLKSLPAGI---------------HLEFLKEL--DL-------LN 55
            +N   +  L LRDCK+LKSLP+ I                LE   E+  D+       L+
Sbjct: 781  ENPSELDGLCLRDCKTLKSLPSSICEFKSLTTLSCSGCSQLESFPEILEDMVVFQKLDLD 840

Query: 56   GTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG 115
            GTAI+E+PS+I+ L  L +L+L YCE+L +LP  +C L  L  L +  C  L +LP+ LG
Sbjct: 841  GTAIKEIPSSIQRLRGLQYLNLAYCENLVNLPESICNLTSLRTLIVVSCPKLNKLPENLG 900

Query: 116  NLEAL-------------WISREAGVIS-----------RWLPENIGQLSSLGKLDLQKN 151
             L++L              +   +G+ S           R +P  I  LSSL  L L+ N
Sbjct: 901  RLQSLEYLYVKDLDSMNCQLPSLSGLCSLITLQLINCGLREIPSGIWHLSSLQHLSLRGN 960

Query: 152  NFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESL--------SG 203
             F  IP+ + QL  L    L + + LQ +P+LP  L  LDAH C++LE L        S 
Sbjct: 961  RFSSIPDGINQLYNLIVFDLSHCQMLQHIPELPSSLEYLDAHQCSSLEILSSPSTLLWSS 1020

Query: 204  LFSSFEARTRYFDLRY 219
            LF  F++R + F++ +
Sbjct: 1021 LFKCFKSRIQEFEVNF 1036

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741884|emb|CBI33319.3| unnamed protein product [Vitis vinifera]

 Score =  112 bits (281), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 80/215 (37%), Positives = 112/215 (52%), Gaps = 30/215 (13%)

Query: 14  SLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKL 72
           S++ FK     +  L+   C  L+S P  +  +E L++L  LNGTAI+E+PS+IE L  L
Sbjct: 457 SIFGFKS----LATLSCSGCSQLESFPEILQDMESLRKL-YLNGTAIKEIPSSIERLRGL 511

Query: 73  LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALW----------- 121
            +L L  C++L +LP  +C L     L +  C N ++LPD LG L++L            
Sbjct: 512 QYLLLRNCKNLVNLPESICNLTSFKTLVVESCPNFKKLPDNLGRLQSLLHLSVGHLDSMN 571

Query: 122 -------------ISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGR 168
                          R  G   R  P  I  LSSL  L L+ N+F RIP+ + QL  L  
Sbjct: 572 FQLPSLSGLCSLRTLRLKGCNLREFPSEIYYLSSLVTLSLRGNHFSRIPDGISQLYNLEH 631

Query: 169 LYLRYWERLQSLPKLPCKLHELDAHHCTALESLSG 203
           L L + + LQ +P+LP  L  LDAHHCT+LE+LS 
Sbjct: 632 LDLGHCKMLQHIPELPSGLRCLDAHHCTSLENLSS 666

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493229|ref|XP_002264909.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  112 bits (281), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 87/256 (33%), Positives = 127/256 (49%), Gaps = 56/256 (21%)

Query: 20   QNNPHIVVLNLRDCKSLKSLPAGI---------------HLEFLKEL--DL-------LN 55
            +N   +  L LRDCK+LKSLP+ I                LE   E+  D+       L+
Sbjct: 1117 ENPSELDGLCLRDCKTLKSLPSSICEFKSLTTLSCSGCSQLESFPEILEDMVVFQKLDLD 1176

Query: 56   GTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG 115
            GTAI+E+PS+I+ L  L +L+L YCE+L +LP  +C L  L  L +  C  L +LP+ LG
Sbjct: 1177 GTAIKEIPSSIQRLRGLQYLNLAYCENLVNLPESICNLTSLRTLIVVSCPKLNKLPENLG 1236

Query: 116  NLEAL-------------WISREAGVIS-----------RWLPENIGQLSSLGKLDLQKN 151
             L++L              +   +G+ S           R +P  I  LSSL  L L+ N
Sbjct: 1237 RLQSLEYLYVKDLDSMNCQLPSLSGLCSLITLQLINCGLREIPSGIWHLSSLQHLSLRGN 1296

Query: 152  NFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESL--------SG 203
             F  IP+ + QL  L    L + + LQ +P+LP  L  LDAH C++LE L        S 
Sbjct: 1297 RFSSIPDGINQLYNLIVFDLSHCQMLQHIPELPSSLEYLDAHQCSSLEILSSPSTLLWSS 1356

Query: 204  LFSSFEARTRYFDLRY 219
            LF  F++R + F++ +
Sbjct: 1357 LFKCFKSRIQEFEVNF 1372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821054|emb|CAN77694.1| hypothetical protein VITISV_029044 [Vitis vinifera]

 Score =  109 bits (273), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 86/250 (34%), Positives = 123/250 (49%), Gaps = 56/250 (22%)

Query: 20   QNNPHIVVLNLRDCKSLKSLPAGI---------------HLEFLKEL--DL-------LN 55
            +N   +  L LRDCK+LKSLP+ I                LE   E+  D+       L+
Sbjct: 1117 ENPSELDGLCLRDCKTLKSLPSSICEFKSLTTLSCSGCSQLESFPEILEDMVVFQKLDLD 1176

Query: 56   GTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG 115
            GTAI+E+PS+I+ L  L +L+L YCE+L +LP  +C L  L  L +  C  L +LP+ LG
Sbjct: 1177 GTAIKEIPSSIQRLRGLQYLNLAYCENLVNLPESICNLTSLRTLIVVSCPKLNKLPENLG 1236

Query: 116  NLEAL-------------WISREAGVIS-----------RWLPENIGQLSSLGKLDLQKN 151
             L++L              +   +G+ S           R +P  I  LSSL  L L+ N
Sbjct: 1237 RLQSLEYLYVKDLDSMNCQLPSLSGLCSLITLQLINCGLREIPSGIWHLSSLQHLSLRGN 1296

Query: 152  NFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESL--------SG 203
             F  IP+ + QL  L    L + + LQ +P+LP  L  LDAH C++LE L        S 
Sbjct: 1297 RFSSIPDGINQLYNLIVFDLSHCQMLQHIPELPSSLEYLDAHQCSSLEILSSPSTLLWSS 1356

Query: 204  LFSSFEARTR 213
            LF  F++R +
Sbjct: 1357 LFKCFKSRIQ 1366

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  109 bits (272), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 79/206 (38%), Positives = 116/206 (56%), Gaps = 20/206 (9%)

Query: 28  LNLRDCKSLKSLPAGIHLEFLKELD-----LLNGTAIEELPSAIECLYKLLHLDLEYCES 82
           L+L  C +L+S P     E L+ +D     +LNGTAI+ELPS+IE L  L  + LE C +
Sbjct: 702 LSLCGCSNLQSFP-----EILESMDRLKVLVLNGTAIKELPSSIERLKGLSSIYLENCRN 756

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRW-LPENIGQLS 141
           L  LP   C LK L +L L  C  L++LP++L NL  L      GV +   LP ++  LS
Sbjct: 757 LAHLPESFCNLKALYWLFLTFCPKLEKLPEKLSNLTTLE-DLSVGVCNLLKLPSHMNHLS 815

Query: 142 SLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESL 201
            + KLDL  N F+++P S   L  L  L +    RL+SLP++P  L ++DAH C +LE++
Sbjct: 816 CISKLDLSGNYFDQLP-SFKYLLNLRCLDISSCRRLRSLPEVPHSLTDIDAHDCRSLETI 874

Query: 202 SGLFSSFEARTRYFDLRYNYNWIEMR 227
           SGL        + F L+Y + + + +
Sbjct: 875 SGL-------KQIFQLKYTHTFYDKK 893

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563202|ref|XP_002522604.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223538080|gb|EEF39691.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  109 bits (272), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 71/186 (38%), Positives = 106/186 (56%), Gaps = 2/186 (1%)

Query: 25  IVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL 83
           +VVLN+++C  L+ +P+ I  L+ L  L L     +E  P  +E    L HL L+    +
Sbjct: 746 LVVLNMKNCNELECIPSTIFKLKSLGVLILSGCKKLESFPEILETTNHLQHLSLDETAMV 805

Query: 84  NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSL 143
           N LP   C LK LN L  + CS L +LP  + NL++L   R  G     LP ++  LSS+
Sbjct: 806 N-LPDTFCNLKALNMLNFSDCSKLGKLPKNMKNLKSLAELRAGGCNLSTLPADLKYLSSI 864

Query: 144 GKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSG 203
            +L+L  +NF+ +P  + QLSKL  + +   +RLQSLP+LP ++  L+A  C +L S+SG
Sbjct: 865 VELNLSGSNFDTMPAGINQLSKLRWINVTGCKRLQSLPELPPRIRYLNARDCRSLVSISG 924

Query: 204 LFSSFE 209
           L   FE
Sbjct: 925 LKQLFE 930

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147799796|emb|CAN70507.1| hypothetical protein VITISV_024109 [Vitis vinifera]

 Score =  103 bits (256), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 80/229 (34%), Positives = 120/229 (52%), Gaps = 30/229 (13%)

Query: 14   SLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKL 72
            S++ FK     +  L+   C  L+S P  +  +E L++L  LNGTAI+E+PS+I+ L  L
Sbjct: 965  SIFGFKS----LATLSCSGCSQLESFPEILQDMESLRKL-YLNGTAIKEIPSSIQRLRGL 1019

Query: 73   LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL--WISREAGVIS 130
             +L L  C++L +LP  +C L     L ++ C N  +LPD LG L++L          ++
Sbjct: 1020 QYLLLRNCKNLVNLPESICNLTSFKTLVVSRCPNFNKLPDNLGRLQSLEYLFVGHLDSMN 1079

Query: 131  RWLPENIGQLSSLGKLDLQKNNFE-------------RIPESVIQLSKLGRLYLRYWERL 177
              LP ++  L SL  L LQ  N               RIP+ + QL  L  L L + + L
Sbjct: 1080 FQLP-SLSGLCSLRTLKLQDCNLREFPPVKSITYHQCRIPDGISQLYNLKDLDLGHCKML 1138

Query: 178  QSLPKLPCKLHELDAHHCTALESL--------SGLFSSFEARTRYFDLR 218
            Q +P+LP +L  LDAHHCT+LE+L        S LF  F++R +  + R
Sbjct: 1139 QHIPELPSRLRCLDAHHCTSLENLSSRSNLLWSSLFKCFKSRIQGREFR 1187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493227|ref|XP_002264747.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  102 bits (254), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 80/227 (35%), Positives = 111/227 (48%), Gaps = 50/227 (22%)

Query: 28   LNLRDCKSLKSLPAGI-------------------------HLEFLKELDLLNGTAIEEL 62
            L LR CK LKSLP+ I                          +E LK+LDL  G+AI+E+
Sbjct: 1091 LCLRGCKYLKSLPSSICEFKSLTTLCCEGCSQLESFPEILEDMEILKKLDL-GGSAIKEI 1149

Query: 63   PSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWI 122
            PS+I+ L  L  L+L YC++L +LP  +C L  L  LT+  C  L++LP+ LG L++L I
Sbjct: 1150 PSSIQRLRGLQDLNLAYCKNLVNLPESICNLTSLKTLTIKSCPELKKLPENLGRLQSLEI 1209

Query: 123  -------------SREAGVIS-----------RWLPENIGQLSSLGKLDLQKNNFERIPE 158
                            +G+ S           R +P  I  L+SL  L L  N F  IP+
Sbjct: 1210 LYVKDFDSMNCQFPSLSGLCSLRILRLINCGLREIPSGICHLTSLQCLVLMGNQFSSIPD 1269

Query: 159  SVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLF 205
             + QL KL  L L + + LQ +P+ P  L  L AH CT+L+  S L 
Sbjct: 1270 GISQLHKLIVLNLSHCKLLQHIPEPPSNLRTLVAHQCTSLKISSSLL 1316

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	248
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.677	0.137	0.344	4.6e-16
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.75	0.119	0.305	7.1e-13
TAIR|locus:2076043	1194	RPP1 "recognition of peronospo	0.641	0.133	0.345	8.1e-15
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.649	0.135	0.319	7.2e-14
TAIR|locus:2053405	1215	AT2G14080 [Arabidopsis thalian	0.697	0.142	0.318	2.5e-13
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.318	0.069	0.5	5.6e-13
TAIR|locus:2098110	1219	AT3G44670 [Arabidopsis thalian	0.661	0.134	0.327	6.6e-13
TAIR|locus:2153328	1231	AT5G45230 [Arabidopsis thalian	0.725	0.146	0.329	6.9e-13
TAIR|locus:2094498	1981	AT3G25510 [Arabidopsis thalian	0.681	0.085	0.310	1.8e-11
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.701	0.125	0.301	1.1e-12

TAIR|locus:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 4.6e-16, Sum P(2) = 4.6e-16
 Identities = 61/177 (34%), Positives = 87/177 (49%)

Query:    25 IVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSA---IECLYKLLHLDLEYC 80
             + +LNL++CK LK L + ++ L+ L+EL L   + +E  P     +E L  LL  D    
Sbjct:   759 LALLNLKNCKKLKHLSSDLYKLKCLQELILSGCSQLEVFPEIKEDMESLEILLMDDTSIT 818

Query:    81 ESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELG--NLEALWISREAGVISRWLPENIG 138
             E    +                   ++  +P  LG   L  L++SR   +    LP+NIG
Sbjct:   819 EMPKMMHLSNIKTFSLCGTSSHVSVSMFFMPPTLGCSRLTDLYLSR-CSLYK--LPDNIG 875

Query:   139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHC 195
              LSSL  L L  NN E +PES  QL+ L    L++ + L+SLP LP  L  LDAH C
Sbjct:   876 GLSSLQSLCLSGNNIENLPESFNQLNNLKWFDLKFCKMLKSLPVLPQNLQYLDAHEC 932

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

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

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

TAIR|locus:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 7.1e-13, Sum P(2) = 7.1e-13
 Identities = 59/193 (30%), Positives = 96/193 (49%)

Query:     1 MKELV-DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTA 58
             +KEL+ D  A+       F+     +  L+L  C+S++ LP+ + +L  L++L  L+ TA
Sbjct:   940 LKELLLDGTAISNLPYSIFRLQK--LEKLSLMGCRSIEELPSCVGYLTSLEDL-YLDDTA 996

Query:    59 IEELPSAIECLYKLLHLDLEYCESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELGNLE 118
             +  LPS+I  L  L  L L  C SL+++P                 S ++ LP E G+L 
Sbjct:   997 LRNLPSSIGDLKNLQKLHLMRCTSLSTIPE-TINKLMSLKELFINGSAVEELPIETGSLL 1055

Query:   119 ALW-ISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERL 177
              L  +S       + +P +IG L+SL +L L     E +PE +  L  + +L LR  + L
Sbjct:  1056 CLTDLSAGDCKFLKQVPSSIGGLNSLLQLQLDSTPIEALPEEIGDLHFIRQLDLRNCKSL 1115

Query:   178 QSLPKLPCKLHEL 190
             ++LPK   K+  L
Sbjct:  1116 KALPKTIGKMDTL 1128

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2076043 RPP1 "recognition of peronospora parasitica 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 8.1e-15, Sum P(2) = 8.1e-15
 Identities = 58/168 (34%), Positives = 87/168 (51%)

Query:    28 LNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL 86
             L LR+C SL  LP+ I  L  L+ LDL N +++E+LP AIE   KL  L L+ C SL  L
Sbjct:   742 LKLRNCSSLVELPSSIEKLTSLQILDLENCSSLEKLP-AIENATKLRELKLQNCSSLIEL 800

Query:    87 PSGXXXXXXXXXXXXXXXSNLQRLPDELGN---LEALWISREAGVISRWLPENIGQLSSL 143
             P                 S+L +LP  +G+   LE   +S  + +++  LP +IG L +L
Sbjct:   801 PLSIGTATNLKQLNISGCSSLVKLPSSIGDITDLEVFDLSNCSSLVT--LPSSIGNLQNL 858

Query:   144 GKLDLQK-NNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHEL 190
              KL ++  +  E +P + I L  L  L L    +L+S P++   + EL
Sbjct:   859 CKLIMRGCSKLEALPIN-INLKSLDTLNLTDCSQLKSFPEISTHISEL 905

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0002239 "response to oomycetes" evidence=IDA

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP;TAS

GO:0030275 "LRR domain binding" evidence=ISS

TAIR|locus:2147992 AT5G11250 [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 7.2e-14, Sum P(2) = 7.2e-14
 Identities = 54/169 (31%), Positives = 81/169 (47%)

Query:    28 LNLRDCKSLKSLPAGIHLEF-LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL 86
             L LR C +L  LP+ I     L+ELDL   +++  LPS+I     LL LDL  C +L  L
Sbjct:   751 LLLRYCSNLVELPSSIGNAINLRELDLYYCSSLIRLPSSIGNAINLLILDLNGCSNLLEL 810

Query:    87 PSGXXXXXXXXXXXXXXXSNLQRLPDELGN---LEALWISREAGVISRWLPENIGQLSSL 143
             PS                + L  LP  +GN   L+ L +   + ++   LP +IG  ++L
Sbjct:   811 PSSIGNAINLQKLDLRRCAKLLELPSSIGNAINLQNLLLDDCSSLLE--LPSSIGNATNL 868

Query:   144 GKLDLQK-NNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELD 191
               ++L   +N   +P S+  L KL  L L+   +L+ LP +   L  LD
Sbjct:   869 VYMNLSNCSNLVELPLSIGNLQKLQELILKGCSKLEDLP-ININLESLD 916

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2053405 AT2G14080 [Arabidopsis thaliana (taxid:3702)]

 Score = 162 (62.1 bits), Expect = 2.5e-13, Sum P(2) = 2.5e-13
 Identities = 58/182 (31%), Positives = 90/182 (49%)

Query:    21 NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
             N  ++  ++   C++L  LP+ I +   LKELDL   ++++ELPS+I     L  L L  
Sbjct:   743 NAINLQTIDFSHCENLVELPSSIGNATNLKELDLSCCSSLKELPSSIGNCTNLKKLHLIC 802

Query:    80 CESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELGN---LEALWISREAGVISRWLPEN 136
             C SL  LPS                S+L +LP  +GN   LE L ++    ++   LP  
Sbjct:   803 CSSLKELPSSIGNCTNLKELHLTCCSSLIKLPSSIGNAINLEKLILAGCESLVE--LPSF 860

Query:   137 IGQLSSLGKLDL-QKNNFERIPESVIQLSKLGRLYLRYWERLQSLP-KLPCK-LHELDAH 193
             IG+ ++L  L+L   +    +P  +  L KL  L LR  ++LQ LP  +  + L+ELD  
Sbjct:   861 IGKATNLKILNLGYLSCLVELPSFIGNLHKLSELRLRGCKKLQVLPTNINLEFLNELDLT 920

Query:   194 HC 195
              C
Sbjct:   921 DC 922

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 164 (62.8 bits), Expect = 5.6e-13, Sum P(2) = 5.6e-13
 Identities = 41/82 (50%), Positives = 52/82 (63%)

Query:   114 LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
             L +LE L +S    +I   LPE IG LSSL KLDL +NNFE +P S+ QL  L  L L+ 
Sbjct:   832 LHSLEYLNLSY-CNLIDGGLPEEIGSLSSLKKLDLSRNNFEHLPSSIAQLGALQSLDLKD 890

Query:   174 WERLQSLPKLPCKLHEL--DAH 193
              +RL  LP+LP +L+EL  D H
Sbjct:   891 CQRLTQLPELPPELNELHVDCH 912

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2098110 AT3G44670 [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 6.6e-13, Sum P(2) = 6.6e-13
 Identities = 59/180 (32%), Positives = 84/180 (46%)

Query:    28 LNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP 87
             L L +C SL+ LP  I+   L++L L+N + + ELP AIE    L  LDL  C SL  LP
Sbjct:   791 LYLENCSSLEKLPPSINANNLQQLSLINCSRVVELP-AIENATNLQKLDLGNCSSLIELP 849

Query:    88 SGXXXXXXXXXXXXXXXSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLG 144
                              S+L +LP  +G   NL+   +S  + ++   LP NI  L  L 
Sbjct:   850 LSIGTATNLKELNISGCSSLVKLPSSIGDITNLKEFDLSNCSNLVE--LPININ-LKFLD 906

Query:   145 KLDL----QKNNFERIPESVI-----QLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHC 195
              L+L    Q  +F  I   +      ++S+L  L +     L SLP+LP  L  L A +C
Sbjct:   907 TLNLAGCSQLKSFPEISTKIFTDCYQRMSRLRDLRINNCNNLVSLPQLPDSLAYLYADNC 966

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=ISS

TAIR|locus:2153328 AT5G45230 [Arabidopsis thaliana (taxid:3702)]

 Score = 184 (69.8 bits), Expect = 6.9e-13, P = 6.9e-13
 Identities = 62/188 (32%), Positives = 90/188 (47%)

Query:    12 LFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GIHLEFLKELDLLNGTAIEELPSAIECLY 70
             L SL     N+   ++L+   C S ++      HLE L     LNGT I  LP AI  L+
Sbjct:   718 LLSLPKITTNSLKTLILS--GCSSFQTFEVISEHLESL----YLNGTEINGLPPAIGNLH 771

Query:    71 KLLHLDLEYCESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELGNLEALWISREAGVIS 130
             +L+ L+L+ C++L +LP                 S L+  PD    +E+L +    G   
Sbjct:   772 RLIFLNLKDCKNLATLPDCLGELKSLQELKLSRCSKLKIFPDVTAKMESLLVLLLDGTSI 831

Query:   131 RWLPENIGQLSSLGKLDLQKN-NFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHE 189
               LP +I  LSSL +L L +N N   +   +  +  L  L L+Y + L SLP LP  L  
Sbjct:   832 AELPCSIFHLSSLRRLCLSRNDNIRTLRFDMGHMFHLKWLELKYCKNLTSLPILPPNLQC 891

Query:   190 LDAHHCTA 197
             L+AH CT+
Sbjct:   892 LNAHGCTS 899

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2094498 AT3G25510 [Arabidopsis thaliana (taxid:3702)]

 Score = 173 (66.0 bits), Expect = 1.8e-11, P = 1.8e-11
 Identities = 55/177 (31%), Positives = 86/177 (48%)

Query:    12 LFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLY 70
             L  L +F  N  ++ +L+LR C SL  +P  I H+  L  LDL   +++ ELPS++  + 
Sbjct:   842 LVKLPSFIGNATNLEILDLRKCSSLVEIPTSIGHVTNLWRLDLSGCSSLVELPSSVGNIS 901

Query:    71 KLLHLDLEYCESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELGN---LEALWISREAG 127
             +L  L+L  C +L  LPS                S+L  LP  +GN   L+ L +   + 
Sbjct:   902 ELQVLNLHNCSNLVKLPSSFGHATNLWRLDLSGCSSLVELPSSIGNITNLQELNLCNCSN 961

Query:   128 VISRWLPENIGQLSSLGKLDLQK-NNFERIPESVIQLSKLGRLYLRYWERLQSLPKL 183
             ++   LP +IG L  L  L L +    E +P + I L  L RL L    + +S P++
Sbjct:   962 LVK--LPSSIGNLHLLFTLSLARCQKLEALPSN-INLKSLERLDLTDCSQFKSFPEI 1015

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 1.1e-12, Sum P(2) = 1.1e-12
 Identities = 56/186 (30%), Positives = 94/186 (50%)

Query:     2 KELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIE 60
             K  +DD AL+  +L +   +  ++  L+L  C SL  +P  I+ L+ LK+L  +NG+A+E
Sbjct:   815 KLYLDDTALK--NLPSSIGDLKNLQDLHLVRCTSLSKIPDSINELKSLKKL-FINGSAVE 871

Query:    61 ELPSAIECLYKLLHLDLEYCESLNSLPSGXXXXXXXXXXXXXXXSNLQRLPDELGNLEAL 120
             ELP     L  L       C+ L  +PS                  ++ LP+E+G   AL
Sbjct:   872 ELPLKPSSLPSLYDFSAGDCKFLKQVPSSIGRLNSLLQLQLSSTP-IEALPEEIG---AL 927

Query:   121 WISREAGVIS----RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER 176
                RE  + +    ++LP++IG + +L  L+L+ +N E +PE   +L KL  L +   + 
Sbjct:   928 HFIRELELRNCKFLKFLPKSIGDMDTLYSLNLEGSNIEELPEEFGKLEKLVELRMSNCKM 987

Query:   177 LQSLPK 182
             L+ LP+
Sbjct:   988 LKRLPE 993

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

---

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

Fail to connect to STRING server

---

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	248
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-13
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-10
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-09
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-09
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	3e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	7e-04

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

 Score = 69.1 bits (169), Expect = 2e-13
 Identities = 62/185 (33%), Positives = 94/185 (50%), Gaps = 16/185 (8%)

Query: 28  LNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP 87
           ++LR  K+LK +P       L+ L L + +++ ELPS+I+ L KL  LD+  CE+L  LP
Sbjct: 639 IDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILP 698

Query: 88  SGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLD 147
           +G+  LK L  L L+ CS L+  PD   N+  L +   A       P N+ +L +L +L 
Sbjct: 699 TGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETA---IEEFPSNL-RLENLDELI 753

Query: 148 LQKNNFERIPESVIQLSKLGRLYLRYWERL-----QSLPKLPC------KLHELDAHHCT 196
           L +   E++ E V  L+ L  +      RL      SL +LP       KL  L+  +C 
Sbjct: 754 LCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCI 813

Query: 197 ALESL 201
            LE+L
Sbjct: 814 NLETL 818

syringae 6; Provisional. Length = 1153

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

 Score = 59.1 bits (143), Expect = 4e-10
 Identities = 44/122 (36%), Positives = 70/122 (57%), Gaps = 5/122 (4%)

Query: 48  LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNL 107
           L  L L +  ++ ELPS+I+ L+KL HL++E C +L +LP+G+  L+ L  L L+ CS L
Sbjct: 780 LTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRL 838

Query: 108 QRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQK-NNFERIPESVIQLSKL 166
           +  PD   N+  L +SR    I   +P  I + S+L  LD+   NN +R+  ++ +L  L
Sbjct: 839 RTFPDISTNISDLNLSRTG--IEE-VPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHL 895

Query: 167 GR 168
             
Sbjct: 896 ET 897

syringae 6; Provisional. Length = 1153

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

 Score = 57.6 bits (139), Expect = 2e-09
 Identities = 51/146 (34%), Positives = 72/146 (49%), Gaps = 3/146 (2%)

Query: 28  LNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP 87
           LNL +     S+P G  +  L+ LDL N     E+P+ I     L  LDL     +  +P
Sbjct: 123 LNLSNNNFTGSIPRG-SIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIP 181

Query: 88  SGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL-WISREAGVISRWLPENIGQLSSLGKL 146
           + L  L  L +LTL     + ++P ELG +++L WI      +S  +P  IG L+SL  L
Sbjct: 182 NSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHL 241

Query: 147 DLQKNNFE-RIPESVIQLSKLGRLYL 171
           DL  NN    IP S+  L  L  L+L
Sbjct: 242 DLVYNNLTGPIPSSLGNLKNLQYLFL 267

Length = 968

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

 Score = 56.0 bits (135), Expect = 4e-09
 Identities = 34/108 (31%), Positives = 50/108 (46%), Gaps = 20/108 (18%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDL--------------------LNGTAI 59
           QN   +  L + +C +L++LP GI+LE L+ LDL                    L+ T I
Sbjct: 799 QNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGI 858

Query: 60  EELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNL 107
           EE+P  IE    L  LD+  C +L  +   + KLK L  +  + C  L
Sbjct: 859 EEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGAL 906

syringae 6; Provisional. Length = 1153

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

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 41/114 (35%), Positives = 56/114 (49%), Gaps = 4/114 (3%)

Query: 61  ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL 120
           E+P  I  L  L HLDL Y      +PS L  LK L YL L        +P  + +L+ L
Sbjct: 227 EIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKL 286

Query: 121 WISREAG--VISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYL 171
            IS +     +S  +PE + QL +L  L L  NNF  +IP ++  L +L  L L
Sbjct: 287 -ISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQL 339

Length = 968

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

 Score = 40.2 bits (94), Expect = 7e-04
 Identities = 46/170 (27%), Positives = 71/170 (41%), Gaps = 27/170 (15%)

Query: 36  LKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKL 95
           L+ +P+    E L +L +  G+ +E+L   +  L  L ++DL   ++L  +P  L     
Sbjct: 601 LRCMPSNFRPENLVKLQM-QGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATN 658

Query: 96  LNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQK-NNFE 154
           L  L L+ CS+L  LP                        +I  L+ L  LD+ +  N E
Sbjct: 659 LETLKLSDCSSLVELP-----------------------SSIQYLNKLEDLDMSRCENLE 695

Query: 155 RIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGL 204
            +P + I L  L RL L    RL+S P +   +  LD       E  S L
Sbjct: 696 ILP-TGINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNL 744

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	248
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.77
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.74
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.73
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.7
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.69
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.68
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.68
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.62
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.61
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.6
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.59
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.56
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.55
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.54
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.52
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.52
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.46
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.34
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.27
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.2
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.14
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.04
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.02
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.0
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.0
PLN03150	623	hypothetical protein; Provisional	98.99
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.98
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.96
PLN03150	623	hypothetical protein; Provisional	98.91
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.89
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.85
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.82
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.74
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.7
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.69
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.66
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.61
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.58
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.44
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.42
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.4
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.39
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.32
PRK15386	426	type III secretion protein GogB; Provisional	98.27
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.22
PRK15386	426	type III secretion protein GogB; Provisional	98.12
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.03
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.93
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.88
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.8
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.75
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.69
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.61
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.6
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.57
KOG4341	483	consensus F-box protein containing LRR [General fu	97.47
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.27
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.08
KOG4341	483	consensus F-box protein containing LRR [General fu	97.05
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.03
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.63
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.39
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.3
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.09
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.73
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.71
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.64
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.59
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.57
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.1
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.84
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.8
KOG0473	326	consensus Leucine-rich repeat protein [Function un	94.05
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	93.28
smart00370	26	LRR Leucine-rich repeats, outliers.	93.28
KOG0473	326	consensus Leucine-rich repeat protein [Function un	89.83
KOG4308	478	consensus LRR-containing protein [Function unknown	89.72
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	89.64
KOG3864	221	consensus Uncharacterized conserved protein [Funct	89.41
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	84.79
KOG4308	478	consensus LRR-containing protein [Function unknown	84.41
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	82.63

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

Probab=99.88  E-value=2.9e-22  Score=187.57  Aligned_cols=206  Identities=23%  Similarity=0.255  Sum_probs=100.4

Q ss_pred             hhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCC
Q 041505           15 LYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKL   93 (248)
Q Consensus        15 l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l   93 (248)
                      +|..++.+++|++|++++|.+.+.+|..+ .+++|++|++++|.....+|..++++++|++|++++|.+.+..|..++.+
T Consensus       156 ~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l  235 (968)
T PLN00113        156 IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGL  235 (968)
T ss_pred             CChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcC
Confidence            34445555555555555555444555544 55555555555555444455555555555555555555545555555555


Q ss_pred             CCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-ccchhhhccCCccee
Q 041505           94 KLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRL  169 (248)
Q Consensus        94 ~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-~lp~~l~~~~~L~~L  169 (248)
                      ++|++|++++|.+.+.+|..++   +++.|++..  |.+.+.+|..++++++|+.|++++|.+. .+|..+..+++|+.|
T Consensus       236 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~--n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L  313 (968)
T PLN00113        236 TSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQ--NKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEIL  313 (968)
T ss_pred             CCCCEEECcCceeccccChhHhCCCCCCEEECcC--CeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEE
Confidence            5555555555554444444332   233444444  3344444555555555555555555542 344445555555555


Q ss_pred             cccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcch
Q 041505          170 YLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIE  225 (248)
Q Consensus       170 ~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~  225 (248)
                      ++++|.+....|..   +++|+.|++++|.....++..   +..+++|+.++++.|.+.
T Consensus       314 ~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~---l~~~~~L~~L~Ls~n~l~  369 (968)
T PLN00113        314 HLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKN---LGKHNNLTVLDLSTNNLT  369 (968)
T ss_pred             ECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChH---HhCCCCCcEEECCCCeeE
Confidence            55555444333322   244555555544322222221   223335555555555443

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

Probab=99.87  E-value=5e-22  Score=185.94  Aligned_cols=235  Identities=25%  Similarity=0.239  Sum_probs=166.7

Q ss_pred             hccch-HhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            8 HALEL-FSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         8 ~~~~l-~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      +.+.+ ..+|..++.+++|++|++++|.+.+.+|..+ .+++|++|++++|.....+|..++++++|++|++++|.+.+.
T Consensus       172 ~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~  251 (968)
T PLN00113        172 GGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGP  251 (968)
T ss_pred             ccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccc
Confidence            33443 4567788888999999999988778888888 888999999988887778888888899999999988888788


Q ss_pred             CCccccCCCCCcEEeccCccCCccccccc---CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-ccchhhh
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVI  161 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-~lp~~l~  161 (248)
                      +|..++.+++|++|++++|.+.+.+|..+   .+++.|+++.  |...+.+|..+.++++|+.|++++|.++ .+|..+.
T Consensus       252 ~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~--n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~  329 (968)
T PLN00113        252 IPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSD--NSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALT  329 (968)
T ss_pred             cChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcC--CeeccCCChhHcCCCCCcEEECCCCccCCcCChhHh
Confidence            88888888889999988888877777654   4566777777  5666667777888888888888888774 5667777


Q ss_pred             ccCCcceecccCccccccCCCC---Ccccceeccccccccccchhhcc---------------------ccccccccccc
Q 041505          162 QLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFS---------------------SFEARTRYFDL  217 (248)
Q Consensus       162 ~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~---------------------~l~~l~~L~~l  217 (248)
                      .+++|+.|++++|.+...+|..   .++|+.|+++++......+..+.                     .+..+++|+.+
T Consensus       330 ~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L  409 (968)
T PLN00113        330 SLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRV  409 (968)
T ss_pred             cCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEE
Confidence            8888888888888766566643   35677777766533222222111                     12245567777


Q ss_pred             ccccCcchhchHHHHHHHHhhhhheecc
Q 041505          218 RYNYNWIEMRSEEFLKMLCKKLNFWQLH  245 (248)
Q Consensus       218 ~l~~n~i~~~~~~~~~~l~~~l~~~~~~  245 (248)
                      ++.+|.+....+..+..+ +.++...+.
T Consensus       410 ~L~~n~l~~~~p~~~~~l-~~L~~L~Ls  436 (968)
T PLN00113        410 RLQDNSFSGELPSEFTKL-PLVYFLDIS  436 (968)
T ss_pred             ECcCCEeeeECChhHhcC-CCCCEEECc
Confidence            777776654433333322 334444443

>PLN03210 Resistant to P

Probab=99.77  E-value=7.6e-18  Score=159.34  Aligned_cols=212  Identities=31%  Similarity=0.399  Sum_probs=154.3

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ++.+.+..+|..+..+++|+.|+++++..++.+|....+++|++|++++|.....+|..++++++|+.|++++|.....+
T Consensus       618 L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~L  697 (1153)
T PLN03210        618 MQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEIL  697 (1153)
T ss_pred             CcCccccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCcc
Confidence            34556777777777788888888888776777775337888888888888878888888888888888888888777788


Q ss_pred             CccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccc-----------------------------
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENI-----------------------------  137 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l-----------------------------  137 (248)
                      |..+ .+++|+.|++++|...+.+|....+++.|++..  +.+. .+|..+                             
T Consensus       698 p~~i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~--n~i~-~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~  773 (1153)
T PLN03210        698 PTGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDE--TAIE-EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLM  773 (1153)
T ss_pred             CCcC-CCCCCCEEeCCCCCCccccccccCCcCeeecCC--Cccc-cccccccccccccccccccchhhccccccccchhh
Confidence            7765 678888888888877777777667777777766  3222 233221                             


Q ss_pred             -cCCCCcCeEEccCCcC-cccchhhhccCCcceecccCccccccCCCC--Ccccceeccccccccccchhhccccccccc
Q 041505          138 -GQLSSLGKLDLQKNNF-ERIPESVIQLSKLGRLYLRYWERLQSLPKL--PCKLHELDAHHCTALESLSGLFSSFEARTR  213 (248)
Q Consensus       138 -~~~~~L~~L~l~~n~l-~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~  213 (248)
                       ...++|+.|++++|.. ..+|..+.++++|+.|++++|...+.+|..  +++|+.|++++|..+..++..      ..+
T Consensus       774 ~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~~------~~n  847 (1153)
T PLN03210        774 TMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDI------STN  847 (1153)
T ss_pred             hhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCcccccccc------ccc
Confidence             1234677888888754 678888888999999999988777777753  578888899888776655432      235


Q ss_pred             ccccccccCcchhch
Q 041505          214 YFDLRYNYNWIEMRS  228 (248)
Q Consensus       214 L~~l~l~~n~i~~~~  228 (248)
                      ++.|++++|.++..+
T Consensus       848 L~~L~Ls~n~i~~iP  862 (1153)
T PLN03210        848 ISDLNLSRTGIEEVP  862 (1153)
T ss_pred             cCEeECCCCCCccCh
Confidence            666666666665443

syringae 6; Provisional

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

Probab=99.74  E-value=1.5e-19  Score=153.65  Aligned_cols=213  Identities=23%  Similarity=0.248  Sum_probs=160.2

Q ss_pred             hccchHh--hhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcCc
Q 041505            8 HALELFS--LYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         8 ~~~~l~~--l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~   83 (248)
                      +.++++.  +|..+..+..|+.||+|+|+ ..+.|..+ ..+++-.|++|+|+ +..+|. .+-++..|-+||+++| ..
T Consensus        86 R~N~LKnsGiP~diF~l~dLt~lDLShNq-L~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfinLtDLLfLDLS~N-rL  162 (1255)
T KOG0444|consen   86 RDNNLKNSGIPTDIFRLKDLTILDLSHNQ-LREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFINLTDLLFLDLSNN-RL  162 (1255)
T ss_pred             hccccccCCCCchhcccccceeeecchhh-hhhcchhhhhhcCcEEEEcccCc-cccCCchHHHhhHhHhhhccccc-hh
Confidence            3444433  67778888999999999987 88888888 88888999996655 566775 4678999999999985 67


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhh
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV  160 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l  160 (248)
                      ..+|+.+.++.+|++|++++|.+.-.-...++   +|..|++++.. .....+|.++..+.+|+.+|++.|.+..+|..+
T Consensus       163 e~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~Tq-RTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecl  241 (1255)
T KOG0444|consen  163 EMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQ-RTLDNIPTSLDDLHNLRDVDLSENNLPIVPECL  241 (1255)
T ss_pred             hhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhccccc-chhhcCCCchhhhhhhhhccccccCCCcchHHH
Confidence            78888899999999999999765432223444   44455665532 444568999999999999999999999999999


Q ss_pred             hccCCcceecccCccccccCC--CCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          161 IQLSKLGRLYLRYWERLQSLP--KLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~~~~~l~--~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      ..+++|+.|++++|.+.+.-.  +....|++|+++.+ +++.+|....   .+++|+.|..+.|.+..++
T Consensus       242 y~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrN-QLt~LP~avc---KL~kL~kLy~n~NkL~FeG  307 (1255)
T KOG0444|consen  242 YKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRN-QLTVLPDAVC---KLTKLTKLYANNNKLTFEG  307 (1255)
T ss_pred             hhhhhhheeccCcCceeeeeccHHHHhhhhhhccccc-hhccchHHHh---hhHHHHHHHhccCcccccC
Confidence            999999999999997543211  12367888888875 6677766554   4447777888888776554

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

Probab=99.73  E-value=2.5e-19  Score=150.89  Aligned_cols=222  Identities=21%  Similarity=0.185  Sum_probs=110.4

Q ss_pred             hhccchHhhh-hhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccCC--
Q 041505            7 DHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYC--   80 (248)
Q Consensus         7 ~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~--   80 (248)
                      ++.+.+..+. ..|..+..|..|.|+.|+ +..+|. .| ++++|+.|++..|.+ ..+ -..|.++++|+.+.+.+|  
T Consensus       180 La~N~It~l~~~~F~~lnsL~tlkLsrNr-ittLp~r~Fk~L~~L~~LdLnrN~i-rive~ltFqgL~Sl~nlklqrN~I  257 (873)
T KOG4194|consen  180 LASNRITTLETGHFDSLNSLLTLKLSRNR-ITTLPQRSFKRLPKLESLDLNRNRI-RIVEGLTFQGLPSLQNLKLQRNDI  257 (873)
T ss_pred             eccccccccccccccccchheeeecccCc-ccccCHHHhhhcchhhhhhccccce-eeehhhhhcCchhhhhhhhhhcCc
Confidence            3445555555 345556666666666665 444433 33 466666666644432 222 233445555555555444  


Q ss_pred             ----------------------cCcCcCCccccCCCCCcEEeccCccCCccccccc---CCCCceEecccCCcccccccc
Q 041505           81 ----------------------ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPE  135 (248)
Q Consensus        81 ----------------------~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~  135 (248)
                                            +....-..++.++++|+.|++++|.+....++.+   ++|++|+++.  |.+..--+.
T Consensus       258 ~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~--N~i~~l~~~  335 (873)
T KOG4194|consen  258 SKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSS--NRITRLDEG  335 (873)
T ss_pred             ccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccc--cccccCChh
Confidence                                  3333333444455555555555544433333321   2344555555  444433344


Q ss_pred             cccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCC------CCCcccceeccccccccccchhhcccc
Q 041505          136 NIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLP------KLPCKLHELDAHHCTALESLSGLFSSF  208 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~------~~~~~L~~L~l~~~~~l~~~~~~~~~l  208 (248)
                      ++..+..|++|++++|+++.+.. .|.++++|++||+..|.+...+-      ..+++|+.|++.++ +++.++.  ..+
T Consensus       336 sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gN-qlk~I~k--rAf  412 (873)
T KOG4194|consen  336 SFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGN-QLKSIPK--RAF  412 (873)
T ss_pred             HHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCc-eeeecch--hhh
Confidence            45555555555555555554432 44555666666666665421111      12456666666665 3333322  223


Q ss_pred             cccccccccccccCcchhchHHHHHHH
Q 041505          209 EARTRYFDLRYNYNWIEMRSEEFLKML  235 (248)
Q Consensus       209 ~~l~~L~~l~l~~n~i~~~~~~~~~~l  235 (248)
                      ++++.|+.|++..|.|.-+.++.|+.+
T Consensus       413 sgl~~LE~LdL~~NaiaSIq~nAFe~m  439 (873)
T KOG4194|consen  413 SGLEALEHLDLGDNAIASIQPNAFEPM  439 (873)
T ss_pred             ccCcccceecCCCCcceeecccccccc
Confidence            355577777777777765555444443

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

Probab=99.70  E-value=1.1e-17  Score=141.19  Aligned_cols=145  Identities=23%  Similarity=0.246  Sum_probs=69.9

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+.++. ..+.++++|+.+++.+|. ...+|... ...+|+.|++.+|.+...-.+.+.-++.|+.+|++.| .
T Consensus        83 LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~-Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN-~  160 (873)
T KOG4194|consen   83 LDLSNNKLSHIDFEFFYNLPNLQEVNLNKNE-LTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRN-L  160 (873)
T ss_pred             eeccccccccCcHHHHhcCCcceeeeeccch-hhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhc-h
Confidence            344455555544 345556666666666654 55555555 4445666666444433333344555666666666654 3


Q ss_pred             cCcCCcc-ccCCCCCcEEeccCccCCcccc---cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcC
Q 041505           83 LNSLPSG-LCKLKLLNYLTLNCCSNLQRLP---DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNF  153 (248)
Q Consensus        83 ~~~~~~~-l~~l~~L~~L~l~~~~~~~~~~---~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l  153 (248)
                      +.++|.. +..-.++++|++++|.++..-.   +.+.+|..|.++.  |.+....+..|.++++|+.|++..|++
T Consensus       161 is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsr--NrittLp~r~Fk~L~~L~~LdLnrN~i  233 (873)
T KOG4194|consen  161 ISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSR--NRITTLPQRSFKRLPKLESLDLNRNRI  233 (873)
T ss_pred             hhcccCCCCCCCCCceEEeeccccccccccccccccchheeeeccc--CcccccCHHHhhhcchhhhhhccccce
Confidence            3333322 3233456666666554433222   2222333444444  444432333444455555555555544

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

Probab=99.69  E-value=2.5e-18  Score=146.30  Aligned_cols=174  Identities=24%  Similarity=0.284  Sum_probs=131.6

Q ss_pred             cchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCc
Q 041505            4 LVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         4 l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   81 (248)
                      .++++.++++++|..+...+++-+|++|+|+ ++.+|..+  .+..|-+||+|+| ....+|+-+..+..|+.|++++|.
T Consensus       107 ~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ~RRL~~LqtL~Ls~NP  184 (1255)
T KOG0444|consen  107 ILDLSHNQLREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFINLTDLLFLDLSNN-RLEMLPPQIRRLSMLQTLKLSNNP  184 (1255)
T ss_pred             eeecchhhhhhcchhhhhhcCcEEEEcccCc-cccCCchHHHhhHhHhhhccccc-hhhhcCHHHHHHhhhhhhhcCCCh
Confidence            5788999999999999999999999999998 88888877  8999999999554 467889889999999999999886


Q ss_pred             CcCcCCccccCCCCCcEEeccCccCC-ccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc
Q 041505           82 SLNSLPSGLCKLKLLNYLTLNCCSNL-QRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP  157 (248)
Q Consensus        82 ~~~~~~~~l~~l~~L~~L~l~~~~~~-~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp  157 (248)
                      ....-...+-.|++|++|++++.+.+ ..+|.   .+.+|..++++.  |... .+|..+-.+++|+.|++++|.++++.
T Consensus       185 L~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~--N~Lp-~vPecly~l~~LrrLNLS~N~iteL~  261 (1255)
T KOG0444|consen  185 LNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSE--NNLP-IVPECLYKLRNLRRLNLSGNKITELN  261 (1255)
T ss_pred             hhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccc--cCCC-cchHHHhhhhhhheeccCcCceeeee
Confidence            65433333556777888888775443 34554   444566777776  4444 26777778888888888888887776


Q ss_pred             hhhhccCCcceecccCccccccCCCC
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPKL  183 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~~  183 (248)
                      ...+.+.++++|+++.|+ ++.+|+.
T Consensus       262 ~~~~~W~~lEtLNlSrNQ-Lt~LP~a  286 (1255)
T KOG0444|consen  262 MTEGEWENLETLNLSRNQ-LTVLPDA  286 (1255)
T ss_pred             ccHHHHhhhhhhccccch-hccchHH
Confidence            666677777777777775 3455554

>PLN03210 Resistant to P

Probab=99.68  E-value=3.9e-16  Score=147.88  Aligned_cols=196  Identities=28%  Similarity=0.366  Sum_probs=133.5

Q ss_pred             cccchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccCh-----------------
Q 041505            2 KELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPS-----------------   64 (248)
Q Consensus         2 ~~l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-----------------   64 (248)
                      +.|...+|..+..+|..++.+++|+.|++++|...+.+|..+.++.|++|++++|.....+|.                 
T Consensus       660 e~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~  739 (1153)
T PLN03210        660 ETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEE  739 (1153)
T ss_pred             cEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcCCCCCCCEEeCCCCCCccccccccCCcCeeecCCCcccc
Confidence            344445566677777777777777777777776666666655666666666666543322221                 


Q ss_pred             ---hh------------------------------hcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccc
Q 041505           65 ---AI------------------------------ECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP  111 (248)
Q Consensus        65 ---~~------------------------------~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  111 (248)
                         .+                              ...++|+.|++++|.....+|.+++.+++|+.|++++|...+.+|
T Consensus       740 lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP  819 (1153)
T PLN03210        740 FPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLP  819 (1153)
T ss_pred             ccccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeC
Confidence               10                              012356666666666666677777788888888888877777777


Q ss_pred             cc--cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCC---Ccc
Q 041505          112 DE--LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL---PCK  186 (248)
Q Consensus       112 ~~--~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~  186 (248)
                      ..  +++|+.|++++|.+.  ..+|..   .++|+.|++++|.++.+|.++..+++|+.|++.+|..+..+|..   ++.
T Consensus       820 ~~~~L~sL~~L~Ls~c~~L--~~~p~~---~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~  894 (1153)
T PLN03210        820 TGINLESLESLDLSGCSRL--RTFPDI---STNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKH  894 (1153)
T ss_pred             CCCCccccCEEECCCCCcc--cccccc---ccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccccC
Confidence            63  456777888775422  224432   35788899999999999999999999999999998777766653   467


Q ss_pred             cceeccccccccccch
Q 041505          187 LHELDAHHCTALESLS  202 (248)
Q Consensus       187 L~~L~l~~~~~l~~~~  202 (248)
                      |+.+++++|..+..++
T Consensus       895 L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        895 LETVDFSDCGALTEAS  910 (1153)
T ss_pred             CCeeecCCCccccccc
Confidence            7788889998776543

syringae 6; Provisional

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

Probab=99.68  E-value=1.3e-18  Score=125.83  Aligned_cols=173  Identities=30%  Similarity=0.407  Sum_probs=144.1

Q ss_pred             hHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccc
Q 041505           12 LFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGL   90 (248)
Q Consensus        12 l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l   90 (248)
                      ..+++ .+..+.+++.|.+++|. +..+|+.+ .+.+|+.|++ .|+.+.++|..++.+++|+.|++.-| .....|.+|
T Consensus        23 f~~~~-gLf~~s~ITrLtLSHNK-l~~vppnia~l~nlevln~-~nnqie~lp~~issl~klr~lnvgmn-rl~~lprgf   98 (264)
T KOG0617|consen   23 FEELP-GLFNMSNITRLTLSHNK-LTVVPPNIAELKNLEVLNL-SNNQIEELPTSISSLPKLRILNVGMN-RLNILPRGF   98 (264)
T ss_pred             Hhhcc-cccchhhhhhhhcccCc-eeecCCcHHHhhhhhhhhc-ccchhhhcChhhhhchhhhheecchh-hhhcCcccc
Confidence            33443 45668899999999997 88888888 9999999999 67778999999999999999999974 677899999


Q ss_pred             cCCCCCcEEeccCccCC-cccccccCCCC---ceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCc
Q 041505           91 CKLKLLNYLTLNCCSNL-QRLPDELGNLE---ALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKL  166 (248)
Q Consensus        91 ~~l~~L~~L~l~~~~~~-~~~~~~~~~l~---~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L  166 (248)
                      +.++.|++||+..|++. ..+|..+..++   .|+++.  |.+. -+|..++.+++|+.|.+.+|.+-.+|..++.+..|
T Consensus        99 gs~p~levldltynnl~e~~lpgnff~m~tlralyl~d--ndfe-~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~l  175 (264)
T KOG0617|consen   99 GSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD--NDFE-ILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRL  175 (264)
T ss_pred             CCCchhhhhhccccccccccCCcchhHHHHHHHHHhcC--CCcc-cCChhhhhhcceeEEeeccCchhhCcHHHHHHHHH
Confidence            99999999999998875 46787776655   777877  5565 47899999999999999999999999999999999


Q ss_pred             ceecccCccccccCCCCCcccceeccccc
Q 041505          167 GRLYLRYWERLQSLPKLPCKLHELDAHHC  195 (248)
Q Consensus       167 ~~L~l~~n~~~~~l~~~~~~L~~L~l~~~  195 (248)
                      ++|.+++|++ +.+|   +.|..+++.+.
T Consensus       176 relhiqgnrl-~vlp---pel~~l~l~~~  200 (264)
T KOG0617|consen  176 RELHIQGNRL-TVLP---PELANLDLVGN  200 (264)
T ss_pred             HHHhccccee-eecC---hhhhhhhhhhh
Confidence            9999999953 3444   55666666543

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

Probab=99.62  E-value=8.5e-18  Score=136.05  Aligned_cols=213  Identities=30%  Similarity=0.344  Sum_probs=154.4

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ++++.+.+.++|++++.+..++.++.++|. ...+|+++ .+..++.++- .++.+..+|..+.++.++..+++.+|. .
T Consensus        96 l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~-~~el~~~i~~~~~l~dl~~-~~N~i~slp~~~~~~~~l~~l~~~~n~-l  172 (565)
T KOG0472|consen   96 LNVSHNKLSELPEQIGSLISLVKLDCSSNE-LKELPDSIGRLLDLEDLDA-TNNQISSLPEDMVNLSKLSKLDLEGNK-L  172 (565)
T ss_pred             hhcccchHhhccHHHhhhhhhhhhhccccc-eeecCchHHHHhhhhhhhc-cccccccCchHHHHHHHHHHhhccccc-h
Confidence            345566777777777777777777777776 55566666 7777777777 444456777778888888888888754 4


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccccCCCCce---EecccCCcccccccccccCCCCcCeEEccCCcCcccchhh
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL---WISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV  160 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L---~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l  160 (248)
                      ...|+....++.|++||... +..+.+|+.++.+++|   ++..  |.+. .+| .|++|..|.++++..|.+..+|+..
T Consensus       173 ~~l~~~~i~m~~L~~ld~~~-N~L~tlP~~lg~l~~L~~LyL~~--Nki~-~lP-ef~gcs~L~Elh~g~N~i~~lpae~  247 (565)
T KOG0472|consen  173 KALPENHIAMKRLKHLDCNS-NLLETLPPELGGLESLELLYLRR--NKIR-FLP-EFPGCSLLKELHVGENQIEMLPAEH  247 (565)
T ss_pred             hhCCHHHHHHHHHHhcccch-hhhhcCChhhcchhhhHHHHhhh--cccc-cCC-CCCccHHHHHHHhcccHHHhhHHHH
Confidence            45555555588899999887 6778899888877744   4555  4444 355 7889999999999999998888754


Q ss_pred             -hccCCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhchHHH
Q 041505          161 -IQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEF  231 (248)
Q Consensus       161 -~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~  231 (248)
                       .+++++.+||+..|+ ++.+|+.   +.+|+.||++++ .+..++....   .+ .|+.+-+.+|.+...-.+.
T Consensus       248 ~~~L~~l~vLDLRdNk-lke~Pde~clLrsL~rLDlSNN-~is~Lp~sLg---nl-hL~~L~leGNPlrTiRr~i  316 (565)
T KOG0472|consen  248 LKHLNSLLVLDLRDNK-LKEVPDEICLLRSLERLDLSNN-DISSLPYSLG---NL-HLKFLALEGNPLRTIRREI  316 (565)
T ss_pred             hcccccceeeeccccc-cccCchHHHHhhhhhhhcccCC-ccccCCcccc---cc-eeeehhhcCCchHHHHHHH
Confidence             488999999999995 5567764   467888999875 5566655444   34 6888888888887664433

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

Probab=99.61  E-value=1e-17  Score=121.19  Aligned_cols=155  Identities=26%  Similarity=0.337  Sum_probs=130.8

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      -++++.+..+|+.++.+.+|++|++.+|+ ++++|..+ ++++|+.|++ +-+....+|..|+.+|.|+.||+.+|+...
T Consensus        39 tLSHNKl~~vppnia~l~nlevln~~nnq-ie~lp~~issl~klr~lnv-gmnrl~~lprgfgs~p~levldltynnl~e  116 (264)
T KOG0617|consen   39 TLSHNKLTVVPPNIAELKNLEVLNLSNNQ-IEELPTSISSLPKLRILNV-GMNRLNILPRGFGSFPALEVLDLTYNNLNE  116 (264)
T ss_pred             hcccCceeecCCcHHHhhhhhhhhcccch-hhhcChhhhhchhhhheec-chhhhhcCccccCCCchhhhhhcccccccc
Confidence            45678888999999999999999999987 99999999 9999999999 555567789999999999999999987654


Q ss_pred             -cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           85 -SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        85 -~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                       .+|..|+.++-|+.|.++.|. ...+|..+++++.|.+-.......-++|..++.++.|++|.+.+|+++.+|..++.+
T Consensus       117 ~~lpgnff~m~tlralyl~dnd-fe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vlppel~~l  195 (264)
T KOG0617|consen  117 NSLPGNFFYMTTLRALYLGDND-FEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVLPPELANL  195 (264)
T ss_pred             ccCCcchhHHHHHHHHHhcCCC-cccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeecChhhhhh
Confidence             578889999999999999954 558899999888776544322223348999999999999999999999999876553

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

Probab=99.60  E-value=6.6e-17  Score=130.95  Aligned_cols=209  Identities=28%  Similarity=0.342  Sum_probs=142.9

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhh-cccCCCEEeccCCcCcCc
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIE-CLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~   85 (248)
                      ..+.+..+|+.++.+..|..|++.+|. +..+| +| ++..|.++.+ +.+.+..+|.... .++++..||+.+| ...+
T Consensus       191 ~~N~L~tlP~~lg~l~~L~~LyL~~Nk-i~~lP-ef~gcs~L~Elh~-g~N~i~~lpae~~~~L~~l~vLDLRdN-klke  266 (565)
T KOG0472|consen  191 NSNLLETLPPELGGLESLELLYLRRNK-IRFLP-EFPGCSLLKELHV-GENQIEMLPAEHLKHLNSLLVLDLRDN-KLKE  266 (565)
T ss_pred             chhhhhcCChhhcchhhhHHHHhhhcc-cccCC-CCCccHHHHHHHh-cccHHHhhHHHHhcccccceeeecccc-cccc
Confidence            345678888889999999999999886 77777 45 7777777777 6666667776554 6778888888774 5667


Q ss_pred             CCccccCCCCCcEEeccCccCCcccccccCCCC--ceEecccC-------------------------------------
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLE--ALWISREA-------------------------------------  126 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~--~L~l~~~~-------------------------------------  126 (248)
                      +|+++..+.+|++||+++|.+ ..+|..+++++  .|.+.++.                                     
T Consensus       267 ~Pde~clLrsL~rLDlSNN~i-s~Lp~sLgnlhL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e  345 (565)
T KOG0472|consen  267 VPDEICLLRSLERLDLSNNDI-SSLPYSLGNLHLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTE  345 (565)
T ss_pred             CchHHHHhhhhhhhcccCCcc-ccCCcccccceeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCccccc
Confidence            777777777888888877443 35565555542  33333332                                     


Q ss_pred             ---------------------------------------------------------------------------Ccccc
Q 041505          127 ---------------------------------------------------------------------------GVISR  131 (248)
Q Consensus       127 ---------------------------------------------------------------------------n~~~~  131 (248)
                                                                                                 +...+
T Consensus       346 ~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~is  425 (565)
T KOG0472|consen  346 TAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKIS  425 (565)
T ss_pred             ccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccc
Confidence                                                                                       34444


Q ss_pred             cccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC---------------------------CC
Q 041505          132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK---------------------------LP  184 (248)
Q Consensus       132 ~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~---------------------------~~  184 (248)
                      .+|..+..+++|..|++++|-+..+|..++.+..|+.|+++.|++. .+|.                           ..
T Consensus       426 fv~~~l~~l~kLt~L~L~NN~Ln~LP~e~~~lv~Lq~LnlS~NrFr-~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm  504 (565)
T KOG0472|consen  426 FVPLELSQLQKLTFLDLSNNLLNDLPEEMGSLVRLQTLNLSFNRFR-MLPECLYELQTLETLLASNNQIGSVDPSGLKNM  504 (565)
T ss_pred             cchHHHHhhhcceeeecccchhhhcchhhhhhhhhheecccccccc-cchHHHhhHHHHHHHHhccccccccChHHhhhh
Confidence            5666778888888888888888888888888888888888888541 2221                           12


Q ss_pred             cccceeccccccccccchhhcccccccccccccccccCcchh
Q 041505          185 CKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEM  226 (248)
Q Consensus       185 ~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~  226 (248)
                      .+|.+|++.++ .++.+|....   ++.+|+.|++.+|.|..
T Consensus       505 ~nL~tLDL~nN-dlq~IPp~Lg---nmtnL~hLeL~gNpfr~  542 (565)
T KOG0472|consen  505 RNLTTLDLQNN-DLQQIPPILG---NMTNLRHLELDGNPFRQ  542 (565)
T ss_pred             hhcceeccCCC-chhhCChhhc---cccceeEEEecCCccCC
Confidence            45666666554 4455544444   44478888888887773

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.59  E-value=6e-15  Score=132.60  Aligned_cols=155  Identities=27%  Similarity=0.369  Sum_probs=70.2

Q ss_pred             CccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccC
Q 041505           24 HIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC  103 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  103 (248)
                      +|+.|++++|. +..+|..+ ...|+.|++++|.+ ..+|..+.  .+|++|++++|.+. .+|..+.  ++|++|++++
T Consensus       221 nL~~L~Ls~N~-LtsLP~~l-~~~L~~L~Ls~N~L-~~LP~~l~--s~L~~L~Ls~N~L~-~LP~~l~--~sL~~L~Ls~  292 (754)
T PRK15370        221 NIKTLYANSNQ-LTSIPATL-PDTIQEMELSINRI-TELPERLP--SALQSLDLFHNKIS-CLPENLP--EELRYLSVYD  292 (754)
T ss_pred             CCCEEECCCCc-cccCChhh-hccccEEECcCCcc-CcCChhHh--CCCCEEECcCCccC-ccccccC--CCCcEEECCC
Confidence            44444554444 22333322 12345555544332 24443332  34555555554332 3444332  3566666655


Q ss_pred             ccCCcccccccC-CCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC
Q 041505          104 CSNLQRLPDELG-NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK  182 (248)
Q Consensus       104 ~~~~~~~~~~~~-~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~  182 (248)
                      |++. .+|..++ ++..|+++.  |.+.. +|..+  .++|+.|++++|.++.+|..+  .++|+.|++++|.+. .+|.
T Consensus       293 N~Lt-~LP~~lp~sL~~L~Ls~--N~Lt~-LP~~l--~~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N~L~-~LP~  363 (754)
T PRK15370        293 NSIR-TLPAHLPSGITHLNVQS--NSLTA-LPETL--PPGLKTLEAGENALTSLPASL--PPELQVLDVSKNQIT-VLPE  363 (754)
T ss_pred             Cccc-cCcccchhhHHHHHhcC--Ccccc-CCccc--cccceeccccCCccccCChhh--cCcccEEECCCCCCC-cCCh
Confidence            4433 2333222 244444444  22321 23222  135566666666665555443  246666666666432 3343


Q ss_pred             -CCcccceeccccc
Q 041505          183 -LPCKLHELDAHHC  195 (248)
Q Consensus       183 -~~~~L~~L~l~~~  195 (248)
                       .+++|+.|++++|
T Consensus       364 ~lp~~L~~LdLs~N  377 (754)
T PRK15370        364 TLPPTITTLDVSRN  377 (754)
T ss_pred             hhcCCcCEEECCCC
Confidence             2345666666655

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.56  E-value=2.9e-14  Score=127.86  Aligned_cols=83  Identities=23%  Similarity=0.195  Sum_probs=48.9

Q ss_pred             CcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCCCcccceeccccccccccchhhccccccccccccccccc
Q 041505          142 SLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNY  221 (248)
Q Consensus       142 ~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~  221 (248)
                      +|+.|++++|.++.+|..   .++|+.|++++|.+ ..+|..+.+|+.|+++++ .++.+|..   +..+++|..+++++
T Consensus       383 ~L~~LdLs~N~Lt~LP~l---~s~L~~LdLS~N~L-ssIP~l~~~L~~L~Ls~N-qLt~LP~s---l~~L~~L~~LdLs~  454 (788)
T PRK15387        383 GLKELIVSGNRLTSLPVL---PSELKELMVSGNRL-TSLPMLPSGLLSLSVYRN-QLTRLPES---LIHLSSETTVNLEG  454 (788)
T ss_pred             ccceEEecCCcccCCCCc---ccCCCEEEccCCcC-CCCCcchhhhhhhhhccC-cccccChH---HhhccCCCeEECCC
Confidence            455666666666555532   24566666666643 345555556666666654 34444433   33556888888888


Q ss_pred             CcchhchHHHH
Q 041505          222 NWIEMRSEEFL  232 (248)
Q Consensus       222 n~i~~~~~~~~  232 (248)
                      |.+.......+
T Consensus       455 N~Ls~~~~~~L  465 (788)
T PRK15387        455 NPLSERTLQAL  465 (788)
T ss_pred             CCCCchHHHHH
Confidence            88876544444

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

Probab=99.55  E-value=4.9e-15  Score=122.14  Aligned_cols=218  Identities=21%  Similarity=0.177  Sum_probs=122.8

Q ss_pred             hhhhhhcCCCCccEEEccCCCCCc------ccCCcc-ccCcccEEEcCCCCCccccChhhhcccC---CCEEeccCCcCc
Q 041505           14 SLYAFKQNNPHIVVLNLRDCKSLK------SLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYK---LLHLDLEYCESL   83 (248)
Q Consensus        14 ~l~~~l~~l~~L~~L~l~~~~~~~------~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~---L~~L~l~~~~~~   83 (248)
                      .+++.+...+.++.++++++.+.+      .++..+ .+++|++|++++|......+..+..+.+   |++|++++|...
T Consensus        42 ~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~  121 (319)
T cd00116          42 ALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLG  121 (319)
T ss_pred             HHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccc
Confidence            344555566667777777765331      122233 5667777777766665544555555554   777777776544


Q ss_pred             C----cCCccccCC-CCCcEEeccCccCCccc----cc---ccCCCCceEecccCCcccc----cccccccCCCCcCeEE
Q 041505           84 N----SLPSGLCKL-KLLNYLTLNCCSNLQRL----PD---ELGNLEALWISREAGVISR----WLPENIGQLSSLGKLD  147 (248)
Q Consensus        84 ~----~~~~~l~~l-~~L~~L~l~~~~~~~~~----~~---~~~~l~~L~l~~~~n~~~~----~~~~~l~~~~~L~~L~  147 (248)
                      .    .+...+..+ ++|+.|++++|.+.+..    +.   ...+++.|++++  +.+.+    .++..+...++|+.|+
T Consensus       122 ~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~--n~l~~~~~~~l~~~l~~~~~L~~L~  199 (319)
T cd00116         122 DRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLAN--NGIGDAGIRALAEGLKANCNLEVLD  199 (319)
T ss_pred             hHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcC--CCCchHHHHHHHHHHHhCCCCCEEe
Confidence            2    122334455 67777777777665321    11   233566777766  33332    1333455556777788


Q ss_pred             ccCCcCc-----ccchhhhccCCcceecccCccccc----c----CCCCCcccceecccccccccc-chhhccccccccc
Q 041505          148 LQKNNFE-----RIPESVIQLSKLGRLYLRYWERLQ----S----LPKLPCKLHELDAHHCTALES-LSGLFSSFEARTR  213 (248)
Q Consensus       148 l~~n~l~-----~lp~~l~~~~~L~~L~l~~n~~~~----~----l~~~~~~L~~L~l~~~~~l~~-~~~~~~~l~~l~~  213 (248)
                      +++|.++     .++..+..+++|++|++++|.+..    .    ++...+.|++|++++|.-... .......+..+++
T Consensus       200 L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~  279 (319)
T cd00116         200 LNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKES  279 (319)
T ss_pred             ccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCC
Confidence            8777764     233445566778888887775432    1    111125777787777632110 0011122334467


Q ss_pred             ccccccccCcchhchHHHHH
Q 041505          214 YFDLRYNYNWIEMRSEEFLK  233 (248)
Q Consensus       214 L~~l~l~~n~i~~~~~~~~~  233 (248)
                      |+.+++++|.+...+...+.
T Consensus       280 L~~l~l~~N~l~~~~~~~~~  299 (319)
T cd00116         280 LLELDLRGNKFGEEGAQLLA  299 (319)
T ss_pred             ccEEECCCCCCcHHHHHHHH
Confidence            88888888888877654443

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).

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

Probab=99.54  E-value=2.1e-16  Score=127.72  Aligned_cols=220  Identities=20%  Similarity=0.142  Sum_probs=148.4

Q ss_pred             cchhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCC
Q 041505            4 LVDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYC   80 (248)
Q Consensus         4 l~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~   80 (248)
                      .+.+..++|+.+| .+|..+++|++|||++|.+....|++| +++.+..|-+.+++.++.+|. .|+++..++.|.+.-|
T Consensus        71 eirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan  150 (498)
T KOG4237|consen   71 EIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNAN  150 (498)
T ss_pred             EEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChh
Confidence            3456788999999 568899999999999998666778888 999999998878777888874 5777887777777666


Q ss_pred             cCcCcCCccccCCCCCcEEeccCccCCccccc----ccCCCCceEecccC------------------------------
Q 041505           81 ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD----ELGNLEALWISREA------------------------------  126 (248)
Q Consensus        81 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~l~~~~------------------------------  126 (248)
                      .+.....+.+..+++|..|.+..|.. +.++.    .+...+.+++..+.                              
T Consensus       151 ~i~Cir~~al~dL~~l~lLslyDn~~-q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~  229 (498)
T KOG4237|consen  151 HINCIRQDALRDLPSLSLLSLYDNKI-QSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPY  229 (498)
T ss_pred             hhcchhHHHHHHhhhcchhcccchhh-hhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchH
Confidence            55555455566666666655554322 11111    11111111111000                              


Q ss_pred             ----------------------------Cc-cccccc-ccccCCCCcCeEEccCCcCcccc-hhhhccCCcceecccCcc
Q 041505          127 ----------------------------GV-ISRWLP-ENIGQLSSLGKLDLQKNNFERIP-ESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus       127 ----------------------------n~-~~~~~~-~~l~~~~~L~~L~l~~n~l~~lp-~~l~~~~~L~~L~l~~n~  175 (248)
                                                  +. ....-| ..|..+++|++|++++|+++.+. .+|.+..++++|.+..|+
T Consensus       230 rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~  309 (498)
T KOG4237|consen  230 RLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNK  309 (498)
T ss_pred             HHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcch
Confidence                                        11 111112 24889999999999999998885 589999999999999997


Q ss_pred             ccc---cCCCCCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          176 RLQ---SLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       176 ~~~---~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +..   .+.+....|++|++.++......+..+..+.   .|..+.+-.|.+.-+
T Consensus       310 l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~---~l~~l~l~~Np~~Cn  361 (498)
T KOG4237|consen  310 LEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLF---SLSTLNLLSNPFNCN  361 (498)
T ss_pred             HHHHHHHhhhccccceeeeecCCeeEEEecccccccc---eeeeeehccCcccCc
Confidence            532   2334568899999988866566666666555   666667777766543

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

Probab=99.52  E-value=6.3e-15  Score=121.50  Aligned_cols=237  Identities=19%  Similarity=0.083  Sum_probs=158.3

Q ss_pred             hccchH--hhhhhhcCCCCccEEEccCCCCCc----ccCCcc-ccCcccEEEcCCCCCc------cccChhhhcccCCCE
Q 041505            8 HALELF--SLYAFKQNNPHIVVLNLRDCKSLK----SLPAGI-HLEFLKELDLLNGTAI------EELPSAIECLYKLLH   74 (248)
Q Consensus         8 ~~~~l~--~l~~~l~~l~~L~~L~l~~~~~~~----~~~~~~-~l~~L~~L~l~~~~~~------~~~~~~~~~l~~L~~   74 (248)
                      ++..+.  .....+..+..|+++++++|.+..    .++..+ ..+.+++++++++...      ..++..+..+++|++
T Consensus         6 ~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~   85 (319)
T cd00116           6 KGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQE   85 (319)
T ss_pred             ccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeE
Confidence            444443  333455667779999999998533    344445 6778999999877655      224556778899999


Q ss_pred             EeccCCcCcCcCCccccCCCC---CcEEeccCccCCcc----cc---ccc-CCCCceEecccCCcccc----cccccccC
Q 041505           75 LDLEYCESLNSLPSGLCKLKL---LNYLTLNCCSNLQR----LP---DEL-GNLEALWISREAGVISR----WLPENIGQ  139 (248)
Q Consensus        75 L~l~~~~~~~~~~~~l~~l~~---L~~L~l~~~~~~~~----~~---~~~-~~l~~L~l~~~~n~~~~----~~~~~l~~  139 (248)
                      |++++|.+....+..+..+.+   |++|++++|+..+.    +.   ... .+++.|+++++  .+.+    .++..+..
T Consensus        86 L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n--~l~~~~~~~~~~~~~~  163 (319)
T cd00116          86 LDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRN--RLEGASCEALAKALRA  163 (319)
T ss_pred             EEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCC--cCCchHHHHHHHHHHh
Confidence            999998776655555555555   99999999877631    11   233 67789999984  4442    24455777


Q ss_pred             CCCcCeEEccCCcCc-----ccchhhhccCCcceecccCcccccc-------CCCCCcccceeccccccccccc-hhhc-
Q 041505          140 LSSLGKLDLQKNNFE-----RIPESVIQLSKLGRLYLRYWERLQS-------LPKLPCKLHELDAHHCTALESL-SGLF-  205 (248)
Q Consensus       140 ~~~L~~L~l~~n~l~-----~lp~~l~~~~~L~~L~l~~n~~~~~-------l~~~~~~L~~L~l~~~~~l~~~-~~~~-  205 (248)
                      +++|+.|++++|.++     .++..+...++|++|++++|.+...       .....++|++|++++|.. ... .... 
T Consensus       164 ~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l-~~~~~~~l~  242 (319)
T cd00116         164 NRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNL-TDAGAAALA  242 (319)
T ss_pred             CCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcC-chHHHHHHH
Confidence            889999999999986     2344556677999999999975321       112347899999998743 221 1111 


Q ss_pred             ccc-cccccccccccccCcchhchHHHHHHH---HhhhhheecccC
Q 041505          206 SSF-EARTRYFDLRYNYNWIEMRSEEFLKML---CKKLNFWQLHYG  247 (248)
Q Consensus       206 ~~l-~~l~~L~~l~l~~n~i~~~~~~~~~~l---~~~l~~~~~~~~  247 (248)
                      ..+ ...+.|+.+++.+|.+...+...+...   ++.++...+.++
T Consensus       243 ~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N  288 (319)
T cd00116         243 SALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGN  288 (319)
T ss_pred             HHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCC
Confidence            111 124799999999999987665444333   345565555544

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=99.52  E-value=2.4e-14  Score=128.79  Aligned_cols=204  Identities=23%  Similarity=0.280  Sum_probs=147.5

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ++.+.++.+|..+.  ..|+.|++++|. +..+|..+. ..|++|++++|.+ ..+|..+.  ++|++|++++|.+. .+
T Consensus       227 Ls~N~LtsLP~~l~--~~L~~L~Ls~N~-L~~LP~~l~-s~L~~L~Ls~N~L-~~LP~~l~--~sL~~L~Ls~N~Lt-~L  298 (754)
T PRK15370        227 ANSNQLTSIPATLP--DTIQEMELSINR-ITELPERLP-SALQSLDLFHNKI-SCLPENLP--EELRYLSVYDNSIR-TL  298 (754)
T ss_pred             CCCCccccCChhhh--ccccEEECcCCc-cCcCChhHh-CCCCEEECcCCcc-CccccccC--CCCcEEECCCCccc-cC
Confidence            34455666665443  579999999998 557776652 4799999966654 56776553  58999999997554 56


Q ss_pred             CccccCCCCCcEEeccCccCCccccc-ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCC
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLPD-ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSK  165 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~  165 (248)
                      |..+.  ++|+.|++++|.+. .+|. ...+|+.|++..  |.+.. +|..+.  ++|+.|++++|+++.+|..+  .++
T Consensus       299 P~~lp--~sL~~L~Ls~N~Lt-~LP~~l~~sL~~L~Ls~--N~Lt~-LP~~l~--~sL~~L~Ls~N~L~~LP~~l--p~~  368 (754)
T PRK15370        299 PAHLP--SGITHLNVQSNSLT-ALPETLPPGLKTLEAGE--NALTS-LPASLP--PELQVLDVSKNQITVLPETL--PPT  368 (754)
T ss_pred             cccch--hhHHHHHhcCCccc-cCCccccccceeccccC--Ccccc-CChhhc--CcccEEECCCCCCCcCChhh--cCC
Confidence            65543  47999999997765 4554 345788999888  44543 666553  68999999999999888765  378


Q ss_pred             cceecccCccccccCCC-CCcccceeccccccccccchhhcccc-cccccccccccccCcchhchHH
Q 041505          166 LGRLYLRYWERLQSLPK-LPCKLHELDAHHCTALESLSGLFSSF-EARTRYFDLRYNYNWIEMRSEE  230 (248)
Q Consensus       166 L~~L~l~~n~~~~~l~~-~~~~L~~L~l~~~~~l~~~~~~~~~l-~~l~~L~~l~l~~n~i~~~~~~  230 (248)
                      |+.|++++|.+. .+|. .+..|+.|+++++ .+..++.....+ ..++.+..+++.+|.+......
T Consensus       369 L~~LdLs~N~Lt-~LP~~l~~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~~L~L~~Npls~~tl~  433 (754)
T PRK15370        369 ITTLDVSRNALT-NLPENLPAALQIMQASRN-NLVRLPESLPHFRGEGPQPTRIIVEYNPFSERTIQ  433 (754)
T ss_pred             cCEEECCCCcCC-CCCHhHHHHHHHHhhccC-CcccCchhHHHHhhcCCCccEEEeeCCCccHHHHH
Confidence            999999999755 5564 3467999999886 556666544333 2457888999999998754433

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

Probab=99.46  E-value=7.1e-15  Score=129.88  Aligned_cols=95  Identities=29%  Similarity=0.454  Sum_probs=61.9

Q ss_pred             hccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            8 HALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         8 ~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      +.+.+-+.| +++.+..+|++||+++|. ++.+|..+ .+++|+.|++ .++.+..+|.....+.+|+++.+.. +....
T Consensus        29 ~~N~~l~~pl~~~~~~v~L~~l~lsnn~-~~~fp~~it~l~~L~~ln~-s~n~i~~vp~s~~~~~~l~~lnL~~-n~l~~  105 (1081)
T KOG0618|consen   29 RRNSLLSRPLEFVEKRVKLKSLDLSNNQ-ISSFPIQITLLSHLRQLNL-SRNYIRSVPSSCSNMRNLQYLNLKN-NRLQS  105 (1081)
T ss_pred             cccccccCchHHhhheeeeEEeeccccc-cccCCchhhhHHHHhhccc-chhhHhhCchhhhhhhcchhheecc-chhhc
Confidence            344444434 334444457777777775 77777777 6777777777 4445566676677777777777764 46666


Q ss_pred             CCccccCCCCCcEEeccCcc
Q 041505           86 LPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~  105 (248)
                      .|.++..+++|++|++++|.
T Consensus       106 lP~~~~~lknl~~LdlS~N~  125 (1081)
T KOG0618|consen  106 LPASISELKNLQYLDLSFNH  125 (1081)
T ss_pred             CchhHHhhhcccccccchhc
Confidence            77777777777777777654

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

Probab=99.34  E-value=7.1e-14  Score=123.69  Aligned_cols=211  Identities=24%  Similarity=0.278  Sum_probs=133.2

Q ss_pred             ccchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCc
Q 041505            3 ELVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         3 ~l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   81 (248)
                      ..++.+.+.++.+|.-++.+.+|+.+++.+|. ...+|..+ ....|+.+.+..|. ...+|+...++.+|++|++..|.
T Consensus       244 ~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~-l~~lp~ri~~~~~L~~l~~~~ne-l~yip~~le~~~sL~tLdL~~N~  321 (1081)
T KOG0618|consen  244 QYLDISHNNLSNLPEWIGACANLEALNANHNR-LVALPLRISRITSLVSLSAAYNE-LEYIPPFLEGLKSLRTLDLQSNN  321 (1081)
T ss_pred             eeeecchhhhhcchHHHHhcccceEecccchh-HHhhHHHHhhhhhHHHHHhhhhh-hhhCCCcccccceeeeeeehhcc
Confidence            34566777777788777778888888888876 45555555 56666666663333 34455555566666666666643


Q ss_pred             CcCcCCccc--------------------------cCCCCCcEEeccCccCCccc-c--cccCCCCceEecccCCccccc
Q 041505           82 SLNSLPSGL--------------------------CKLKLLNYLTLNCCSNLQRL-P--DELGNLEALWISREAGVISRW  132 (248)
Q Consensus        82 ~~~~~~~~l--------------------------~~l~~L~~L~l~~~~~~~~~-~--~~~~~l~~L~l~~~~n~~~~~  132 (248)
                       +..+|+.+                          ..++.|+.|.+.+|.+.... |  ..+.+|+.|++++  |... +
T Consensus       322 -L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsy--NrL~-~  397 (1081)
T KOG0618|consen  322 -LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSY--NRLN-S  397 (1081)
T ss_pred             -ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecc--cccc-c
Confidence             33333221                          11234556666665554332 2  2555677777777  4444 2


Q ss_pred             ccc-cccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCC--Ccccceeccccccccccchhhccccc
Q 041505          133 LPE-NIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL--PCKLHELDAHHCTALESLSGLFSSFE  209 (248)
Q Consensus       133 ~~~-~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~  209 (248)
                      +|+ .+.++..|++|+++||+++.+|..+..++.|++|....|. +..+|..  .+.|+.+|++.+ +++..-.....  
T Consensus       398 fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~-l~~fPe~~~l~qL~~lDlS~N-~L~~~~l~~~~--  473 (1081)
T KOG0618|consen  398 FPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQ-LLSFPELAQLPQLKVLDLSCN-NLSEVTLPEAL--  473 (1081)
T ss_pred             CCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCc-eeechhhhhcCcceEEecccc-hhhhhhhhhhC--
Confidence            444 4777888888888888888888888888888888887774 3456653  477888888754 44443322211  


Q ss_pred             ccccccccccccCc
Q 041505          210 ARTRYFDLRYNYNW  223 (248)
Q Consensus       210 ~l~~L~~l~l~~n~  223 (248)
                      ..++|++||+++|.
T Consensus       474 p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  474 PSPNLKYLDLSGNT  487 (1081)
T ss_pred             CCcccceeeccCCc
Confidence            11689999999986

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.27  E-value=4.4e-11  Score=107.69  Aligned_cols=195  Identities=27%  Similarity=0.247  Sum_probs=118.7

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      ++++.+.++.+|+.+.  .+|+.|++++|. +..+|.  ..++|++|++++|+ +..+|..   .++|+.|++++|.+ .
T Consensus       206 LdLs~~~LtsLP~~l~--~~L~~L~L~~N~-Lt~LP~--lp~~Lk~LdLs~N~-LtsLP~l---p~sL~~L~Ls~N~L-~  275 (788)
T PRK15387        206 LNVGESGLTTLPDCLP--AHITTLVIPDNN-LTSLPA--LPPELRTLEVSGNQ-LTSLPVL---PPGLLELSIFSNPL-T  275 (788)
T ss_pred             EEcCCCCCCcCCcchh--cCCCEEEccCCc-CCCCCC--CCCCCcEEEecCCc-cCcccCc---ccccceeeccCCch-h
Confidence            4566677788887664  478899999887 556665  35788899996664 4456642   46788888888653 3


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccC----------------C-CCcCeEE
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQ----------------L-SSLGKLD  147 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~----------------~-~~L~~L~  147 (248)
                      .+|..   .++|+.|++++|.+. .+|...++|+.|++++  |.+.+ +|.....                + .+|+.|+
T Consensus       276 ~Lp~l---p~~L~~L~Ls~N~Lt-~LP~~p~~L~~LdLS~--N~L~~-Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~Ld  348 (788)
T PRK15387        276 HLPAL---PSGLCKLWIFGNQLT-SLPVLPPGLQELSVSD--NQLAS-LPALPSELCKLWAYNNQLTSLPTLPSGLQELS  348 (788)
T ss_pred             hhhhc---hhhcCEEECcCCccc-cccccccccceeECCC--Ccccc-CCCCcccccccccccCccccccccccccceEe
Confidence            45542   256888888886544 5677777888888888  54543 3331110                1 2455555


Q ss_pred             ccCCcCcccchhhhccCCcceecccCccccccCCCCCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          148 LQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       148 l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +++|+++.+|..   .++|+.|++++|.+. .+|..+.+|+.|+++++ .+..++..      .++|+.|++++|.+...
T Consensus       349 LS~N~Ls~LP~l---p~~L~~L~Ls~N~L~-~LP~l~~~L~~LdLs~N-~Lt~LP~l------~s~L~~LdLS~N~LssI  417 (788)
T PRK15387        349 VSDNQLASLPTL---PSELYKLWAYNNRLT-SLPALPSGLKELIVSGN-RLTSLPVL------PSELKELMVSGNRLTSL  417 (788)
T ss_pred             cCCCccCCCCCC---Ccccceehhhccccc-cCcccccccceEEecCC-cccCCCCc------ccCCCEEEccCCcCCCC
Confidence            555555555532   234555555555432 45555556666666655 33333321      23566677777766654

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

Probab=99.20  E-value=6.4e-13  Score=107.81  Aligned_cols=138  Identities=27%  Similarity=0.288  Sum_probs=97.2

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ...+.++|..+  ...-+.++|..|. +..+|+..  .+++|+.||+++|++...-|.+|.+++++..|-+.+++.+..+
T Consensus        55 ~~GL~eVP~~L--P~~tveirLdqN~-I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l  131 (498)
T KOG4237|consen   55 GKGLTEVPANL--PPETVEIRLDQNQ-ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDL  131 (498)
T ss_pred             CCCcccCcccC--CCcceEEEeccCC-cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhh
Confidence            34566666544  2566789999987 77777655  8999999999888877777888999999988877765566666


Q ss_pred             Ccc-ccCCCCCcEEeccCccCCcccccccCCCCce---EecccCCcccccccc-cccCCCCcCeEEccCCc
Q 041505           87 PSG-LCKLKLLNYLTLNCCSNLQRLPDELGNLEAL---WISREAGVISRWLPE-NIGQLSSLGKLDLQKNN  152 (248)
Q Consensus        87 ~~~-l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L---~l~~~~n~~~~~~~~-~l~~~~~L~~L~l~~n~  152 (248)
                      |.. |+.+..|+.|.+..|...-...+.+..+..+   .+-.  |.+. .++. ++..+..++.+.++.|.
T Consensus       132 ~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyD--n~~q-~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  132 PKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYD--NKIQ-SICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             hhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccc--hhhh-hhccccccchhccchHhhhcCc
Confidence            654 7889999999888776654444445545444   3333  3333 2444 67778888888777766

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

Probab=99.14  E-value=5e-12  Score=107.00  Aligned_cols=163  Identities=27%  Similarity=0.272  Sum_probs=106.4

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      .+..+.+..+|.+++.+..|++++++.|+ +..+|..+..--|+.|.+ .|+..+.+|+.++..+.|..+|++.|. +..
T Consensus       104 iLy~n~~r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~lpLkvli~-sNNkl~~lp~~ig~~~tl~~ld~s~ne-i~s  180 (722)
T KOG0532|consen  104 ILYHNCIRTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDLPLKVLIV-SNNKLTSLPEEIGLLPTLAHLDVSKNE-IQS  180 (722)
T ss_pred             HHHhccceecchhhhhhhHHHHhhhccch-hhcCChhhhcCcceeEEE-ecCccccCCcccccchhHHHhhhhhhh-hhh
Confidence            34455566677777777777777777776 666666664444777777 444456667767777777777777654 445


Q ss_pred             CCccccCCCCCcEEeccCccCCcccccccCCCC--ceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhh---
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLE--ALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV---  160 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~--~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l---  160 (248)
                      +|..++.+.+|+.|.+..|++. .+|.++.+|.  +|++++  |.+.. +|..|.+|+.|++|-+.+|.++.-|..+   
T Consensus       181 lpsql~~l~slr~l~vrRn~l~-~lp~El~~LpLi~lDfSc--Nkis~-iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~k  256 (722)
T KOG0532|consen  181 LPSQLGYLTSLRDLNVRRNHLE-DLPEELCSLPLIRLDFSC--NKISY-LPVDFRKMRHLQVLQLENNPLQSPPAQICEK  256 (722)
T ss_pred             chHHhhhHHHHHHHHHhhhhhh-hCCHHHhCCceeeeeccc--Cceee-cchhhhhhhhheeeeeccCCCCCChHHHHhc
Confidence            5666777777777777774433 6666666655  666666  54542 6777777777777777777777666544   


Q ss_pred             hccCCcceecccCcc
Q 041505          161 IQLSKLGRLYLRYWE  175 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~  175 (248)
                      +...-.|+|+...|+
T Consensus       257 GkVHIFKyL~~qA~q  271 (722)
T KOG0532|consen  257 GKVHIFKYLSTQACQ  271 (722)
T ss_pred             cceeeeeeecchhcc
Confidence            334555667776663

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

Probab=99.04  E-value=7.3e-11  Score=94.53  Aligned_cols=210  Identities=20%  Similarity=0.162  Sum_probs=125.1

Q ss_pred             hhhhhcCCCCccEEEccCCCCCcc----cCCcc-ccCcccEEEcCCCC---CccccChh-------hhcccCCCEEeccC
Q 041505           15 LYAFKQNNPHIVVLNLRDCKSLKS----LPAGI-HLEFLKELDLLNGT---AIEELPSA-------IECLYKLLHLDLEY   79 (248)
Q Consensus        15 l~~~l~~l~~L~~L~l~~~~~~~~----~~~~~-~l~~L~~L~l~~~~---~~~~~~~~-------~~~l~~L~~L~l~~   79 (248)
                      +-+.+..+..++.+++++|.+...    +.+.+ ..++|+..++++--   ...++|++       +-++|+|+++++|+
T Consensus        22 v~~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSD  101 (382)
T KOG1909|consen   22 VEEELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSD  101 (382)
T ss_pred             HHHHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccc
Confidence            334566788899999999885543    23333 56678888875422   22334433       45678899999998


Q ss_pred             CcCcCcCCcc----ccCCCCCcEEeccCccCCccc-------------ccccC---CCCceEecccCCcccc----cccc
Q 041505           80 CESLNSLPSG----LCKLKLLNYLTLNCCSNLQRL-------------PDELG---NLEALWISREAGVISR----WLPE  135 (248)
Q Consensus        80 ~~~~~~~~~~----l~~l~~L~~L~l~~~~~~~~~-------------~~~~~---~l~~L~l~~~~n~~~~----~~~~  135 (248)
                      |-+....+..    +.+++.|++|.+.+|.+.-.-             ....+   +|+.+..++  |....    .+..
T Consensus       102 NA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~r--Nrlen~ga~~~A~  179 (382)
T KOG1909|consen  102 NAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGR--NRLENGGATALAE  179 (382)
T ss_pred             cccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeec--cccccccHHHHHH
Confidence            7665554443    455788999988887653111             11122   344555555  33332    1334


Q ss_pred             cccCCCCcCeEEccCCcCc-----ccchhhhccCCcceecccCccccc--------cCCCCCcccceeccccccccccch
Q 041505          136 NIGQLSSLGKLDLQKNNFE-----RIPESVIQLSKLGRLYLRYWERLQ--------SLPKLPCKLHELDAHHCTALESLS  202 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~l~-----~lp~~l~~~~~L~~L~l~~n~~~~--------~l~~~~~~L~~L~l~~~~~l~~~~  202 (248)
                      .+...+.|+.+.+..|.+.     .+...+.++++|+.||+..|.+..        .++.+ +.|+.+++++|. ++.-.
T Consensus       180 ~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~-~~L~El~l~dcl-l~~~G  257 (382)
T KOG1909|consen  180 AFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSW-PHLRELNLGDCL-LENEG  257 (382)
T ss_pred             HHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhccc-chheeecccccc-ccccc
Confidence            5777788889999888872     234567788999999998886532        23333 578888888872 11110


Q ss_pred             h-h-ccccc-ccccccccccccCcchhch
Q 041505          203 G-L-FSSFE-ARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       203 ~-~-~~~l~-~l~~L~~l~l~~n~i~~~~  228 (248)
                      . . ...+. ..|.|+.+.+.+|.|..+.
T Consensus       258 a~a~~~al~~~~p~L~vl~l~gNeIt~da  286 (382)
T KOG1909|consen  258 AIAFVDALKESAPSLEVLELAGNEITRDA  286 (382)
T ss_pred             HHHHHHHHhccCCCCceeccCcchhHHHH
Confidence            0 0 01111 2455666666666665554

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

Probab=99.02  E-value=1.1e-11  Score=104.88  Aligned_cols=165  Identities=26%  Similarity=0.287  Sum_probs=124.0

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      .+++.+....+|..+..+..|..+.+.+|. +-.+|..+ .+..|++++++.|. ...+|..++.+| |+.|-+++ +..
T Consensus        80 aDlsrNR~~elp~~~~~f~~Le~liLy~n~-~r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~lp-Lkvli~sN-Nkl  155 (722)
T KOG0532|consen   80 ADLSRNRFSELPEEACAFVSLESLILYHNC-IRTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDLP-LKVLIVSN-NKL  155 (722)
T ss_pred             hhccccccccCchHHHHHHHHHHHHHHhcc-ceecchhhhhhhHHHHhhhccch-hhcCChhhhcCc-ceeEEEec-Ccc
Confidence            455666677777666666777777777775 66677777 78888888885555 456677777776 78887776 467


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccccCCCC---ceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhh
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLE---ALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV  160 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~---~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l  160 (248)
                      +.+|+.++....|..|+.+.|. ...+|..++.+.   .|.+..  |.... +|..+. .-.|..||++.|++..+|-.|
T Consensus       156 ~~lp~~ig~~~tl~~ld~s~ne-i~slpsql~~l~slr~l~vrR--n~l~~-lp~El~-~LpLi~lDfScNkis~iPv~f  230 (722)
T KOG0532|consen  156 TSLPEEIGLLPTLAHLDVSKNE-IQSLPSQLGYLTSLRDLNVRR--NHLED-LPEELC-SLPLIRLDFSCNKISYLPVDF  230 (722)
T ss_pred             ccCCcccccchhHHHhhhhhhh-hhhchHHhhhHHHHHHHHHhh--hhhhh-CCHHHh-CCceeeeecccCceeecchhh
Confidence            7888888877888888888854 446676655544   555666  55553 777777 445899999999999999999


Q ss_pred             hccCCcceecccCccccc
Q 041505          161 IQLSKLGRLYLRYWERLQ  178 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~~~~  178 (248)
                      .++++|++|-+.+|++..
T Consensus       231 r~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  231 RKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             hhhhhheeeeeccCCCCC
Confidence            999999999999998643

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

Probab=99.00  E-value=5.8e-10  Score=83.20  Aligned_cols=125  Identities=26%  Similarity=0.227  Sum_probs=38.5

Q ss_pred             CCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcccc-CCCCCcEE
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLC-KLKLLNYL   99 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~-~l~~L~~L   99 (248)
                      ..+++.|++.+|. +..+...- .+.+|+.|++++|.+ ..++ .+..+++|+.|++++|.+. .+.+.+. .+++|+.|
T Consensus        18 ~~~~~~L~L~~n~-I~~Ie~L~~~l~~L~~L~Ls~N~I-~~l~-~l~~L~~L~~L~L~~N~I~-~i~~~l~~~lp~L~~L   93 (175)
T PF14580_consen   18 PVKLRELNLRGNQ-ISTIENLGATLDKLEVLDLSNNQI-TKLE-GLPGLPRLKTLDLSNNRIS-SISEGLDKNLPNLQEL   93 (175)
T ss_dssp             -------------------S--TT-TT--EEE-TTS---S--T-T----TT--EEE--SS----S-CHHHHHH-TT--EE
T ss_pred             ccccccccccccc-cccccchhhhhcCCCEEECCCCCC-cccc-CccChhhhhhcccCCCCCC-ccccchHHhCCcCCEE
Confidence            3456677777765 44333222 456677777744443 3333 2556666777777665433 3333332 35666666


Q ss_pred             eccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch----hhhccCCcceeccc
Q 041505          100 TLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE----SVIQLSKLGRLYLR  172 (248)
Q Consensus       100 ~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~----~l~~~~~L~~L~l~  172 (248)
                      ++++|.+.                    ...  --..+..+++|+.|++.+|.+...+.    .+..+|+|+.||-.
T Consensus        94 ~L~~N~I~--------------------~l~--~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   94 YLSNNKIS--------------------DLN--ELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             E-TTS-----------------------SCC--CCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             ECcCCcCC--------------------ChH--HhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            66664332                    111  11345667778888888887754432    35567777777643

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

Probab=99.00  E-value=1.5e-10  Score=95.22  Aligned_cols=205  Identities=20%  Similarity=0.169  Sum_probs=132.2

Q ss_pred             hhcCCCCccEEEccCCCCCcccCC--cc-ccCcccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCcCcCCcc-cc
Q 041505           18 FKQNNPHIVVLNLRDCKSLKSLPA--GI-HLEFLKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESLNSLPSG-LC   91 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~~~~~~~~~--~~-~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~-l~   91 (248)
                      .-.++.+|+...+.++. ++..+.  .. .|++++.||+|.|-+..  .+......+|+|+.|+++.|......... -.
T Consensus       116 kQsn~kkL~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~  194 (505)
T KOG3207|consen  116 KQSNLKKLREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTL  194 (505)
T ss_pred             HhhhHHhhhheeecCcc-ccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchh
Confidence            34567889999998876 555442  33 89999999997775432  33444678999999999987654332222 12


Q ss_pred             CCCCCcEEeccCccCCc----ccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCC
Q 041505           92 KLKLLNYLTLNCCSNLQ----RLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSK  165 (248)
Q Consensus        92 ~l~~L~~L~l~~~~~~~----~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~  165 (248)
                      .+++|+.|.++.|.+.+    .+...++++..|++..+.+...  ......-+..|++|++++|.+-..+  ...+.++.
T Consensus       195 ~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~--~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~  272 (505)
T KOG3207|consen  195 LLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILI--KATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPG  272 (505)
T ss_pred             hhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccce--ecchhhhhhHHhhccccCCcccccccccccccccc
Confidence            46789999999998864    3445778888888888431222  2222344557888899888886665  45677888


Q ss_pred             cceecccCccccc-cCCC--------CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          166 LGRLYLRYWERLQ-SLPK--------LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       166 L~~L~l~~n~~~~-~l~~--------~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      |..|+++.|.+.. ..|+        .+++|+.|++..++-  ..+...+.+..+++|+.+.+..|.+...
T Consensus       273 L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I--~~w~sl~~l~~l~nlk~l~~~~n~ln~e  341 (505)
T KOG3207|consen  273 LNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNI--RDWRSLNHLRTLENLKHLRITLNYLNKE  341 (505)
T ss_pred             hhhhhccccCcchhcCCCccchhhhcccccceeeecccCcc--ccccccchhhccchhhhhhccccccccc
Confidence            8888888875432 1222        257788888776532  1123334444556666666666665443

>PLN03150 hypothetical protein; Provisional

Probab=98.99  E-value=1.2e-09  Score=97.69  Aligned_cols=91  Identities=30%  Similarity=0.391  Sum_probs=58.6

Q ss_pred             ccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccC
Q 041505           25 IVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC  103 (248)
Q Consensus        25 L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  103 (248)
                      ++.|+|++|.+.+.+|..+ .+++|+.|++++|.+.+.+|..++.+++|+.|++++|.+.+.+|+.++.+++|++|++++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            5566666666556666666 666666666666666556666666666666666666666666666666666666666666


Q ss_pred             ccCCcccccccC
Q 041505          104 CSNLQRLPDELG  115 (248)
Q Consensus       104 ~~~~~~~~~~~~  115 (248)
                      |++.+.+|..++
T Consensus       500 N~l~g~iP~~l~  511 (623)
T PLN03150        500 NSLSGRVPAALG  511 (623)
T ss_pred             CcccccCChHHh
Confidence            666666665443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.98  E-value=2e-10  Score=105.39  Aligned_cols=92  Identities=37%  Similarity=0.499  Sum_probs=74.0

Q ss_pred             hHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           12 LFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        12 l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      +..++ +++..++.|++||+++|...+.+|..+ .+-+|++|+++++. +..+|..++++..|.+|++..+......|..
T Consensus       559 l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~-I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i  637 (889)
T KOG4658|consen  559 LLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTG-ISHLPSGLGNLKKLIYLNLEVTGRLESIPGI  637 (889)
T ss_pred             hhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCC-ccccchHHHHHHhhheeccccccccccccch
Confidence            44555 447779999999999988788999988 79999999995444 6688999999999999999887766666666


Q ss_pred             ccCCCCCcEEeccCc
Q 041505           90 LCKLKLLNYLTLNCC  104 (248)
Q Consensus        90 l~~l~~L~~L~l~~~  104 (248)
                      ...+++|++|.+..-
T Consensus       638 ~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  638 LLELQSLRVLRLPRS  652 (889)
T ss_pred             hhhcccccEEEeecc
Confidence            666899999988653

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

Probab=98.96  E-value=5.2e-10  Score=95.13  Aligned_cols=148  Identities=36%  Similarity=0.469  Sum_probs=64.2

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-ccC-cccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-HLE-FLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~l~-~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      ...+.++.|++.+|. +..+++.. .+. +|+.|++++|. +..+|..++.+++|+.|++++|+ ..++|...+..++|+
T Consensus       113 ~~~~~l~~L~l~~n~-i~~i~~~~~~~~~nL~~L~l~~N~-i~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~~~L~  189 (394)
T COG4886         113 LELTNLTSLDLDNNN-ITDIPPLIGLLKSNLKELDLSDNK-IESLPSPLRNLPNLKNLDLSFND-LSDLPKLLSNLSNLN  189 (394)
T ss_pred             hcccceeEEecCCcc-cccCccccccchhhcccccccccc-hhhhhhhhhccccccccccCCch-hhhhhhhhhhhhhhh
Confidence            334455555555554 44444444 332 55555553333 33343345555555555555542 333344333455555


Q ss_pred             EEeccCccCCcccccc--cC-CCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCc
Q 041505           98 YLTLNCCSNLQRLPDE--LG-NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYW  174 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~~--~~-~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n  174 (248)
                      .|++++|.+ ..+|..  .. .+.++.++.  |... ..+..+..+.++..+.+.+|++..++..+..++.++.|++++|
T Consensus       190 ~L~ls~N~i-~~l~~~~~~~~~L~~l~~~~--N~~~-~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s~n  265 (394)
T COG4886         190 NLDLSGNKI-SDLPPEIELLSALEELDLSN--NSII-ELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNN  265 (394)
T ss_pred             heeccCCcc-ccCchhhhhhhhhhhhhhcC--Ccce-ecchhhhhcccccccccCCceeeeccchhccccccceeccccc
Confidence            555555332 233332  22 244444444  2111 1233333444444444444444333333444444444444444

>PLN03150 hypothetical protein; Provisional

Probab=98.91  E-value=5.3e-09  Score=93.64  Aligned_cols=103  Identities=26%  Similarity=0.343  Sum_probs=55.7

Q ss_pred             CCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCCcCeEEc
Q 041505           72 LLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDL  148 (248)
Q Consensus        72 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l  148 (248)
                      ++.|++++|.+.+.+|..+..+++|+.|++++|.+.+.+|..++   +|+.|+++.  |.+.+.+|..++++++|+.|++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~--N~lsg~iP~~l~~L~~L~~L~L  497 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSY--NSFNGSIPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCC--CCCCCCCchHHhcCCCCCEEEC
Confidence            34445555444445555555555555555555444444443222   233444444  4555556666777777777777


Q ss_pred             cCCcCc-ccchhhhcc-CCcceecccCccc
Q 041505          149 QKNNFE-RIPESVIQL-SKLGRLYLRYWER  176 (248)
Q Consensus       149 ~~n~l~-~lp~~l~~~-~~L~~L~l~~n~~  176 (248)
                      ++|.++ .+|..+... .++..+++.+|..
T Consensus       498 s~N~l~g~iP~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        498 NGNSLSGRVPAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             cCCcccccCChHHhhccccCceEEecCCcc
Confidence            777764 666655442 3455666666643

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

Probab=98.89  E-value=2.2e-09  Score=91.35  Aligned_cols=190  Identities=29%  Similarity=0.315  Sum_probs=138.2

Q ss_pred             EEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhccc-CCCEEeccCCcCcCcCCccccCCCCCcEEeccCcc
Q 041505           27 VLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLY-KLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        27 ~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  105 (248)
                      .++...+...........+..++.+++ .++.+.+++....... +|+.|++++|. ...+|..++.+++|+.|++++|+
T Consensus        97 ~l~~~~~~~~~~~~~~~~~~~l~~L~l-~~n~i~~i~~~~~~~~~nL~~L~l~~N~-i~~l~~~~~~l~~L~~L~l~~N~  174 (394)
T COG4886          97 SLDLNLNRLRSNISELLELTNLTSLDL-DNNNITDIPPLIGLLKSNLKELDLSDNK-IESLPSPLRNLPNLKNLDLSFND  174 (394)
T ss_pred             eeeccccccccCchhhhcccceeEEec-CCcccccCccccccchhhcccccccccc-hhhhhhhhhccccccccccCCch
Confidence            467776653233333336678999999 5555677777677774 99999999864 55666678899999999999976


Q ss_pred             CCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccc--cC
Q 041505          106 NLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQ--SL  180 (248)
Q Consensus       106 ~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~--~l  180 (248)
                      .. .+|.   ....+..|++++  |.+. .+|........|+++.+++|.+...+..+..+..+..+.+..|+...  ..
T Consensus       175 l~-~l~~~~~~~~~L~~L~ls~--N~i~-~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~  250 (394)
T COG4886         175 LS-DLPKLLSNLSNLNNLDLSG--NKIS-DLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPES  250 (394)
T ss_pred             hh-hhhhhhhhhhhhhheeccC--Cccc-cCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccch
Confidence            65 4444   667788899988  5555 36766667777999999999776777778888999999988887654  33


Q ss_pred             CCCCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          181 PKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       181 ~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ...+++++.|+++++ .+..++.    +..+.+++.+++++|.+...
T Consensus       251 ~~~l~~l~~L~~s~n-~i~~i~~----~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         251 IGNLSNLETLDLSNN-QISSISS----LGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             hccccccceeccccc-ccccccc----ccccCccCEEeccCcccccc
Confidence            445577999998876 4444443    44566999999999877544

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

Probab=98.85  E-value=3.7e-09  Score=78.87  Aligned_cols=129  Identities=26%  Similarity=0.263  Sum_probs=40.8

Q ss_pred             CcccCCccccCcccEEEcCCCCCccccChhhh-cccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccccc
Q 041505           36 LKSLPAGIHLEFLKELDLLNGTAIEELPSAIE-CLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDEL  114 (248)
Q Consensus        36 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  114 (248)
                      +...+.......+++|++++|.+ +.+.. ++ .+.+|+.|++++|.+. .+ +.+..+++|++|++++|          
T Consensus         9 i~~~~~~~n~~~~~~L~L~~n~I-~~Ie~-L~~~l~~L~~L~Ls~N~I~-~l-~~l~~L~~L~~L~L~~N----------   74 (175)
T PF14580_consen    9 IEQIAQYNNPVKLRELNLRGNQI-STIEN-LGATLDKLEVLDLSNNQIT-KL-EGLPGLPRLKTLDLSNN----------   74 (175)
T ss_dssp             ----------------------------S---TT-TT--EEE-TTS--S----TT----TT--EEE--SS----------
T ss_pred             ccccccccccccccccccccccc-ccccc-hhhhhcCCCEEECCCCCCc-cc-cCccChhhhhhcccCCC----------
Confidence            44444444455677777755443 33332 44 4667777777776543 23 23556677777777664          


Q ss_pred             CCCCceEecccCCcccccccccc-cCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccccccCCC-------CC
Q 041505          115 GNLEALWISREAGVISRWLPENI-GQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERLQSLPK-------LP  184 (248)
Q Consensus       115 ~~l~~L~l~~~~n~~~~~~~~~l-~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~~l~~-------~~  184 (248)
                                   .+.. +...+ ..+++|++|++++|++..+.  ..+..+++|++|++.+|+.... +.       .+
T Consensus        75 -------------~I~~-i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~l  139 (175)
T PF14580_consen   75 -------------RISS-ISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKL  139 (175)
T ss_dssp             ----------------S--CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-
T ss_pred             -------------CCCc-cccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHc
Confidence                         3332 32233 35788999999999886543  4567889999999999976532 22       13


Q ss_pred             cccceeccc
Q 041505          185 CKLHELDAH  193 (248)
Q Consensus       185 ~~L~~L~l~  193 (248)
                      |+|+.||-.
T Consensus       140 P~Lk~LD~~  148 (175)
T PF14580_consen  140 PSLKVLDGQ  148 (175)
T ss_dssp             TT-SEETTE
T ss_pred             ChhheeCCE
Confidence            556666543

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

Probab=98.82  E-value=1.4e-09  Score=85.99  Aligned_cols=127  Identities=21%  Similarity=0.161  Sum_probs=85.3

Q ss_pred             CCCcEEeccCccCCcccc---cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceec
Q 041505           94 KLLNYLTLNCCSNLQRLP---DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLY  170 (248)
Q Consensus        94 ~~L~~L~l~~~~~~~~~~---~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~  170 (248)
                      +.|+.+|+++|.+. .+.   .-+++++.|+++.  |.+.  ...+++.+++|+.||+++|.++.+..|-.++.++++|.
T Consensus       284 q~LtelDLS~N~I~-~iDESvKL~Pkir~L~lS~--N~i~--~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  284 QELTELDLSGNLIT-QIDESVKLAPKLRRLILSQ--NRIR--TVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             hhhhhccccccchh-hhhhhhhhccceeEEeccc--ccee--eehhhhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            45777777775443 222   2355666777777  5555  34557788888888888888887777777788888888


Q ss_pred             ccCccccccCCCC--CcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          171 LRYWERLQSLPKL--PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       171 l~~n~~~~~l~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +.+|.+ +.+...  +-+|..||+.++ +++.+ ...+++..+|.|..+.+.+|.+....
T Consensus       359 La~N~i-E~LSGL~KLYSLvnLDl~~N-~Ie~l-deV~~IG~LPCLE~l~L~~NPl~~~v  415 (490)
T KOG1259|consen  359 LAQNKI-ETLSGLRKLYSLVNLDLSSN-QIEEL-DEVNHIGNLPCLETLRLTGNPLAGSV  415 (490)
T ss_pred             hhhhhH-hhhhhhHhhhhheecccccc-chhhH-HHhcccccccHHHHHhhcCCCccccc
Confidence            888843 333221  356777787775 44444 34566778888888888888877653

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

Probab=98.74  E-value=2.3e-09  Score=86.04  Aligned_cols=203  Identities=17%  Similarity=0.092  Sum_probs=136.9

Q ss_pred             ccCcccEEEcCCCCCccc----cChhhhcccCCCEEeccCCcCcCcC----Cc-------cccCCCCCcEEeccCccCCc
Q 041505           44 HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYCESLNSL----PS-------GLCKLKLLNYLTLNCCSNLQ  108 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~----~~-------~l~~l~~L~~L~l~~~~~~~  108 (248)
                      ....++++++++|++..+    +...+.+.++|+..++++ -+++..    |+       .+-.+++|++++++.|.+..
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd-~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSD-MFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHh-hhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            678899999999988764    345567788999999986 556543    33       34456799999999988765


Q ss_pred             cccccc-------CCCCceEecccCCccc-cc----------ccccccCCCCcCeEEccCCcCc-----ccchhhhccCC
Q 041505          109 RLPDEL-------GNLEALWISREAGVIS-RW----------LPENIGQLSSLGKLDLQKNNFE-----RIPESVIQLSK  165 (248)
Q Consensus       109 ~~~~~~-------~~l~~L~l~~~~n~~~-~~----------~~~~l~~~~~L~~L~l~~n~l~-----~lp~~l~~~~~  165 (248)
                      ..+..+       ..|.+|++.+|+-... +.          .....+.-++|+++....|++.     .+...+...+.
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~  186 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPT  186 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccc
Confidence            555433       3455888877642111 11          1112456679999999999884     34446677899


Q ss_pred             cceecccCccccccCC-------CCCcccceeccccccccccchhh-cccccccccccccccccCcchhchH-HHHHHH-
Q 041505          166 LGRLYLRYWERLQSLP-------KLPCKLHELDAHHCTALESLSGL-FSSFEARTRYFDLRYNYNWIEMRSE-EFLKML-  235 (248)
Q Consensus       166 L~~L~l~~n~~~~~l~-------~~~~~L~~L~l~~~~~l~~~~~~-~~~l~~l~~L~~l~l~~n~i~~~~~-~~~~~l-  235 (248)
                      |+.+.+++|.+...-.       ...+.|++|++.++.--..-... -..++.++.|++++++++-++..+. .+++++ 
T Consensus       187 leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~  266 (382)
T KOG1909|consen  187 LEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALK  266 (382)
T ss_pred             cceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHh
Confidence            9999999997543211       12477888888776332222111 1333466789999999999998884 555666 


Q ss_pred             --HhhhhheecccC
Q 041505          236 --CKKLNFWQLHYG  247 (248)
Q Consensus       236 --~~~l~~~~~~~~  247 (248)
                        .+.++...|.|+
T Consensus       267 ~~~p~L~vl~l~gN  280 (382)
T KOG1909|consen  267 ESAPSLEVLELAGN  280 (382)
T ss_pred             ccCCCCceeccCcc
Confidence              556777777665

>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=98.70  E-value=2e-08  Score=61.75  Aligned_cols=57  Identities=32%  Similarity=0.392  Sum_probs=25.9

Q ss_pred             cccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           47 FLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        47 ~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      +|++|++++|.+ ..+| .+|.++++|++|++++|.+....|..+..+++|++|++++|
T Consensus         2 ~L~~L~l~~n~l-~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNNKL-TEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTE-SEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCC-CccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            344555543322 2333 33445555555555544443333344455555555555544

...

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

Probab=98.69  E-value=1.1e-08  Score=84.46  Aligned_cols=156  Identities=20%  Similarity=0.160  Sum_probs=76.0

Q ss_pred             hcCCCCccEEEccCCCCCcc--cCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcCcCc-CCccccCC
Q 041505           19 KQNNPHIVVLNLRDCKSLKS--LPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNS-LPSGLCKL   93 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~--~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~-~~~~l~~l   93 (248)
                      ...+++++.||+++|-+...  +.+.. .+|+|+.|+++.|....-... .-..+++|+.|.++.|.+.-. +......+
T Consensus       142 ~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~f  221 (505)
T KOG3207|consen  142 SKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTF  221 (505)
T ss_pred             hhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhC
Confidence            34466777777777643332  12222 667777777766654332211 122456666666666655422 11223345


Q ss_pred             CCCcEEeccCccCC--cccc-cccCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcCccc--chh-----hhc
Q 041505           94 KLLNYLTLNCCSNL--QRLP-DELGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNFERI--PES-----VIQ  162 (248)
Q Consensus        94 ~~L~~L~l~~~~~~--~~~~-~~~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l~~l--p~~-----l~~  162 (248)
                      |+|+.|.+..|...  ...+ +.+..+++|+++++  ...+ ......+.++.|+.++++.+++..+  |..     ...
T Consensus       222 Psl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N--~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~  299 (505)
T KOG3207|consen  222 PSLEVLYLEANEIILIKATSTKILQTLQELDLSNN--NLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHT  299 (505)
T ss_pred             CcHHHhhhhcccccceecchhhhhhHHhhccccCC--cccccccccccccccchhhhhccccCcchhcCCCccchhhhcc
Confidence            66666666655321  1111 12334556666652  2221 1123455566666666666655422  211     234


Q ss_pred             cCCcceecccCccc
Q 041505          163 LSKLGRLYLRYWER  176 (248)
Q Consensus       163 ~~~L~~L~l~~n~~  176 (248)
                      +++|++|++..|++
T Consensus       300 f~kL~~L~i~~N~I  313 (505)
T KOG3207|consen  300 FPKLEYLNISENNI  313 (505)
T ss_pred             cccceeeecccCcc
Confidence            56666666666654

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

Probab=98.66  E-value=2.9e-09  Score=84.25  Aligned_cols=126  Identities=25%  Similarity=0.239  Sum_probs=93.7

Q ss_pred             ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcc--cccccCCCCceE
Q 041505           44 HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQR--LPDELGNLEALW  121 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~  121 (248)
                      ....|+++|+++|. ++.+.+++.-.|+++.|++++|.+...  +++..+++|+.||+++|.+...  .-..+++.+.|.
T Consensus       282 TWq~LtelDLS~N~-I~~iDESvKL~Pkir~L~lS~N~i~~v--~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  282 TWQELTELDLSGNL-ITQIDESVKLAPKLRRLILSQNRIRTV--QNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             hHhhhhhccccccc-hhhhhhhhhhccceeEEeccccceeee--hhhhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            35678888996665 566777788889999999998765432  3377788999999998655422  234677788888


Q ss_pred             ecccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccc
Q 041505          122 ISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       122 l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~  176 (248)
                      ++.  |.+.  --+.++.+.+|..||+.+|++..+.  ..+++++.|+++.+.+|++
T Consensus       359 La~--N~iE--~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  359 LAQ--NKIE--TLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hhh--hhHh--hhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCc
Confidence            888  5555  3456788888899999999887654  4788889999988888864

>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=98.61  E-value=5.6e-08  Score=59.73  Aligned_cols=58  Identities=33%  Similarity=0.437  Sum_probs=47.7

Q ss_pred             CCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCc
Q 041505           23 PHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   81 (248)
                      ++|++|++++|. +..+|+ .+ .+++|++|++++|.+...-|..|.++++|++|++++|.
T Consensus         1 p~L~~L~l~~n~-l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSST-ESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCC-CCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            478999999997 666665 55 89999999998777654445679999999999999875

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.58  E-value=4.2e-08  Score=90.39  Aligned_cols=101  Identities=36%  Similarity=0.546  Sum_probs=73.3

Q ss_pred             CCccEEEccCCCC-CcccCCc-c-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEE
Q 041505           23 PHIVVLNLRDCKS-LKSLPAG-I-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYL   99 (248)
Q Consensus        23 ~~L~~L~l~~~~~-~~~~~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L   99 (248)
                      ++|+.|-+.+|.. ...++.. + .++.|++||+++|....++|..++++.+||+|+++++ ....+|.++++++.|.+|
T Consensus       545 ~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t-~I~~LP~~l~~Lk~L~~L  623 (889)
T KOG4658|consen  545 PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDT-GISHLPSGLGNLKKLIYL  623 (889)
T ss_pred             CccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCC-CccccchHHHHHHhhhee
Confidence            3677777777652 3444443 3 7888888888888877888888888888888888874 556888888888888888


Q ss_pred             eccCccCCccccc---ccCCCCceEecc
Q 041505          100 TLNCCSNLQRLPD---ELGNLEALWISR  124 (248)
Q Consensus       100 ~l~~~~~~~~~~~---~~~~l~~L~l~~  124 (248)
                      ++..+.....+|.   .+.+|++|.+..
T Consensus       624 nl~~~~~l~~~~~i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  624 NLEVTGRLESIPGILLELQSLRVLRLPR  651 (889)
T ss_pred             ccccccccccccchhhhcccccEEEeec
Confidence            8877665555544   355666666654

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

Probab=98.44  E-value=4.9e-09  Score=82.79  Aligned_cols=41  Identities=27%  Similarity=0.254  Sum_probs=17.6

Q ss_pred             hhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccC
Q 041505           66 IECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        66 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      +..|.+|+.|.+.++.....+...+.+-.+|+.++++.|+.
T Consensus       206 Ls~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG  246 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSG  246 (419)
T ss_pred             HHHHHhhhhccccccccCcHHHHHHhccccceeeccccccc
Confidence            34444444444444333333333344444444444444433

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

Probab=98.42  E-value=1.5e-08  Score=80.07  Aligned_cols=175  Identities=19%  Similarity=0.170  Sum_probs=121.4

Q ss_pred             CCccEEEccCCCCCcc-cCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc--cccCCCCCcE
Q 041505           23 PHIVVLNLRDCKSLKS-LPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS--GLCKLKLLNY   98 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~-~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~--~l~~l~~L~~   98 (248)
                      ..|++||++...+... +-..+ .|.+|+.|.+.++.....+...+..-.+|+.++++.|...++...  -+.+++.|+.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            3588899998654332 22333 788999999977777776777788888999999998876665432  3567899999


Q ss_pred             EeccCccCCccccc-----ccCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcC-c-ccchhhhccCCcceec
Q 041505           99 LTLNCCSNLQRLPD-----ELGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNF-E-RIPESVIQLSKLGRLY  170 (248)
Q Consensus        99 L~l~~~~~~~~~~~-----~~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l-~-~lp~~l~~~~~L~~L~  170 (248)
                      |++++|........     --..++.|+++++.-.+.. .+..-..++++|..||+++|-. + ..-..+..++.|++|.
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            99999987654322     1224668888876533322 2333467889999999998854 2 3334677889999999


Q ss_pred             ccCccccccC----CCCCcccceeccccccc
Q 041505          171 LRYWERLQSL----PKLPCKLHELDAHHCTA  197 (248)
Q Consensus       171 l~~n~~~~~l----~~~~~~L~~L~l~~~~~  197 (248)
                      ++.|..+..-    -...|+|.+|++.+|-.
T Consensus       345 lsRCY~i~p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  345 LSRCYDIIPETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             hhhhcCCChHHeeeeccCcceEEEEeccccC
Confidence            9999754210    12347888898888743

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

Probab=98.40  E-value=1.1e-07  Score=74.41  Aligned_cols=214  Identities=15%  Similarity=0.104  Sum_probs=134.6

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCC----cc-ccCcccEEEcCCCCCc---cccC-------hhhhcccCCCE
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA----GI-HLEFLKELDLLNGTAI---EELP-------SAIECLYKLLH   74 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~----~~-~l~~L~~L~l~~~~~~---~~~~-------~~~~~l~~L~~   74 (248)
                      ..++.+-..+..+..++.+++|+|.+.+....    .+ .-.+|+..++++--..   .+++       .++-+||+|+.
T Consensus        17 eDvk~v~eel~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~   96 (388)
T COG5238          17 EDVKGVVEELEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQK   96 (388)
T ss_pred             chhhHHHHHHHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCccee
Confidence            34445555566789999999999985554333    23 5567888887543211   1222       34668999999


Q ss_pred             EeccCCcCcCcCCcc----ccCCCCCcEEeccCccCCccccc-----------------ccCCCCceEecccCCccc-cc
Q 041505           75 LDLEYCESLNSLPSG----LCKLKLLNYLTLNCCSNLQRLPD-----------------ELGNLEALWISREAGVIS-RW  132 (248)
Q Consensus        75 L~l~~~~~~~~~~~~----l~~l~~L~~L~l~~~~~~~~~~~-----------------~~~~l~~L~l~~~~n~~~-~~  132 (248)
                      .++++|-+..+.|+.    +.+.+.|.+|.+++|.+ |.+..                 .-+.|.....++  |... +.
T Consensus        97 v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGl-Gp~aG~rigkal~~la~nKKaa~kp~Le~vicgr--NRlengs  173 (388)
T COG5238          97 VDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGL-GPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR--NRLENGS  173 (388)
T ss_pred             eeccccccCcccchHHHHHHhcCCCceeEEeecCCC-CccchhHHHHHHHHHHHHhhhccCCCceEEEecc--chhccCc
Confidence            999999888777754    45568999999998654 33321                 112344555555  3332 11


Q ss_pred             ---ccccccCCCCcCeEEccCCcCc-c----c-chhhhccCCcceecccCccccc--------cCCCCCcccceeccccc
Q 041505          133 ---LPENIGQLSSLGKLDLQKNNFE-R----I-PESVIQLSKLGRLYLRYWERLQ--------SLPKLPCKLHELDAHHC  195 (248)
Q Consensus       133 ---~~~~l~~~~~L~~L~l~~n~l~-~----l-p~~l~~~~~L~~L~l~~n~~~~--------~l~~~~~~L~~L~l~~~  195 (248)
                         ....+.....|.++.+..|.|. +    + -..+..+.+|+.||++.|.+..        .++.| +.|+.|.+.+|
T Consensus       174 ~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W-~~lrEL~lnDC  252 (388)
T COG5238         174 KELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEW-NLLRELRLNDC  252 (388)
T ss_pred             HHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhccc-chhhhccccch
Confidence               1223555578999999999884 1    1 1245678999999999997642        23334 45899998888


Q ss_pred             cccc-cchhhccccc--ccccccccccccCcchhc
Q 041505          196 TALE-SLSGLFSSFE--ARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       196 ~~l~-~~~~~~~~l~--~l~~L~~l~l~~n~i~~~  227 (248)
                      -.-. -...-+..++  ..|+|..|...+|.+...
T Consensus       253 lls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~  287 (388)
T COG5238         253 LLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGG  287 (388)
T ss_pred             hhccccHHHHHHHhhhhcCCCccccccchhhhcCc
Confidence            2211 1111112222  567888999999977654

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

Probab=98.39  E-value=7.2e-08  Score=82.54  Aligned_cols=101  Identities=26%  Similarity=0.196  Sum_probs=63.1

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      +..+++++.|++.+|. +..+...+ .+++|++|++++|.+.+..+  +..++.|+.|++.+|.+.. + ..+..+++|+
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~~L~  165 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNK-IEKIENLLSSLVNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGNLISD-I-SGLESLKSLK  165 (414)
T ss_pred             cccccceeeeeccccc-hhhcccchhhhhcchheeccccccccccc--hhhccchhhheeccCcchh-c-cCCccchhhh
Confidence            5667778888888876 55555534 67888888886666544322  5666668888887765432 2 2344577777


Q ss_pred             EEeccCccCCcccc---cccCCCCceEecc
Q 041505           98 YLTLNCCSNLQRLP---DELGNLEALWISR  124 (248)
Q Consensus        98 ~L~l~~~~~~~~~~---~~~~~l~~L~l~~  124 (248)
                      .++++.|.....-+   ..+.++..+++..
T Consensus       166 ~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~  195 (414)
T KOG0531|consen  166 LLDLSYNRIVDIENDELSELISLEELDLGG  195 (414)
T ss_pred             cccCCcchhhhhhhhhhhhccchHHHhccC
Confidence            88877766654444   4444555555555

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

Probab=98.32  E-value=3.5e-07  Score=71.64  Aligned_cols=211  Identities=21%  Similarity=0.148  Sum_probs=135.4

Q ss_pred             HhhhhhhcCCCCccEEEccCCCCCc----c-------cCCcc-ccCcccEEEcCCCCCccccChh----hhcccCCCEEe
Q 041505           13 FSLYAFKQNNPHIVVLNLRDCKSLK----S-------LPAGI-HLEFLKELDLLNGTAIEELPSA----IECLYKLLHLD   76 (248)
Q Consensus        13 ~~l~~~l~~l~~L~~L~l~~~~~~~----~-------~~~~~-~l~~L~~L~l~~~~~~~~~~~~----~~~l~~L~~L~   76 (248)
                      ++++..++.-++|++.++++- +++    .       +.+.+ .||.|+.+++|+|-+....|+.    +.....|.+|.
T Consensus        48 e~l~~~ia~~~~L~vvnfsd~-ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~  126 (388)
T COG5238          48 EELCNVIANVRNLRVVNFSDA-FTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLK  126 (388)
T ss_pred             HHHHHHHhhhcceeEeehhhh-hhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEE
Confidence            446667888889999999983 455    2       22234 8899999999999887776654    55677899999


Q ss_pred             ccCCcCcCcCCc-cc-------------cCCCCCcEEeccCccCCccccc--------ccCCCCceEecccCCccccc--
Q 041505           77 LEYCESLNSLPS-GL-------------CKLKLLNYLTLNCCSNLQRLPD--------ELGNLEALWISREAGVISRW--  132 (248)
Q Consensus        77 l~~~~~~~~~~~-~l-------------~~l~~L~~L~l~~~~~~~~~~~--------~~~~l~~L~l~~~~n~~~~~--  132 (248)
                      +++|. .+.+.. -+             ..-|.|++.....|++. ..+.        .-..++.+.+-.  |.+..+  
T Consensus       127 l~NnG-lGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRle-ngs~~~~a~~l~sh~~lk~vki~q--NgIrpegv  202 (388)
T COG5238         127 LNNNG-LGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLE-NGSKELSAALLESHENLKEVKIQQ--NGIRPEGV  202 (388)
T ss_pred             eecCC-CCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhc-cCcHHHHHHHHHhhcCceeEEeee--cCcCcchh
Confidence            99864 443321 12             23478999999887654 2222        223566777776  444422  


Q ss_pred             ---ccccccCCCCcCeEEccCCcCcc-----cchhhhccCCcceecccCccccccCC---------CCCcccceeccccc
Q 041505          133 ---LPENIGQLSSLGKLDLQKNNFER-----IPESVIQLSKLGRLYLRYWERLQSLP---------KLPCKLHELDAHHC  195 (248)
Q Consensus       133 ---~~~~l~~~~~L~~L~l~~n~l~~-----lp~~l~~~~~L~~L~l~~n~~~~~l~---------~~~~~L~~L~l~~~  195 (248)
                         +...+..+.+|+.||+.+|.++.     +...+..++.|+.|.+..|-+...-.         ...++|..|...++
T Consensus       203 ~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yn  282 (388)
T COG5238         203 TMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYN  282 (388)
T ss_pred             HHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhccccHHHHHHHhhhhcCCCccccccchh
Confidence               22245677899999999998853     22344567889999999884322111         12366777765544


Q ss_pred             cccc--cchhhccccc--ccccccccccccCcchhch
Q 041505          196 TALE--SLSGLFSSFE--ARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       196 ~~l~--~~~~~~~~l~--~l~~L~~l~l~~n~i~~~~  228 (248)
                      ..-.  ......+.+.  +.|-|..+.+++|+|....
T Consensus       283 e~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr~~E~~  319 (388)
T COG5238         283 ERRGGIILDISLNEFEQDAVPLLVDLERNGNRIKELA  319 (388)
T ss_pred             hhcCceeeeechhhhhhcccHHHHHHHHccCcchhHH
Confidence            1111  1111122222  7789999999999997653

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.27  E-value=5.5e-06  Score=69.58  Aligned_cols=157  Identities=22%  Similarity=0.343  Sum_probs=87.8

Q ss_pred             hcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      +..+.+++.|++++|. +..+|. + -..|++|.+++|.....+|..+  .++|++|.+++|.....+|..      |+.
T Consensus        48 ~~~~~~l~~L~Is~c~-L~sLP~-L-P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~s------Le~  116 (426)
T PRK15386         48 IEEARASGRLYIKDCD-IESLPV-L-PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPES------VRS  116 (426)
T ss_pred             HHHhcCCCEEEeCCCC-CcccCC-C-CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccccc------cce
Confidence            4456788888888885 666662 1 1258888887777777777544  257888888887555555543      555


Q ss_pred             EeccCccC--CcccccccCCCCceEecccCCcccccccccccCC-CCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505           99 LTLNCCSN--LQRLPDELGNLEALWISREAGVISRWLPENIGQL-SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus        99 L~l~~~~~--~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~-~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      |++..+..  .+.+|..   |+.|.+..........+|.   .+ ++|+.|++++|....+|..+.  .+|+.|+++.+.
T Consensus       117 L~L~~n~~~~L~~LPss---Lk~L~I~~~n~~~~~~lp~---~LPsSLk~L~Is~c~~i~LP~~LP--~SLk~L~ls~n~  188 (426)
T PRK15386        117 LEIKGSATDSIKNVPNG---LTSLSINSYNPENQARIDN---LISPSLKTLSLTGCSNIILPEKLP--ESLQSITLHIEQ  188 (426)
T ss_pred             EEeCCCCCcccccCcch---Hhheecccccccccccccc---ccCCcccEEEecCCCcccCccccc--ccCcEEEecccc
Confidence            66654222  3344443   4455553211000000111   12 478888888877655554432  577777776552


Q ss_pred             ccc---cCCCCCcccceeccccc
Q 041505          176 RLQ---SLPKLPCKLHELDAHHC  195 (248)
Q Consensus       176 ~~~---~l~~~~~~L~~L~l~~~  195 (248)
                      ...   .....++++ .|.+.+|
T Consensus       189 ~~sLeI~~~sLP~nl-~L~f~n~  210 (426)
T PRK15386        189 KTTWNISFEGFPDGL-DIDLQNS  210 (426)
T ss_pred             cccccCccccccccc-Eechhhh
Confidence            111   111233455 6666665

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

Probab=98.22  E-value=2.3e-07  Score=79.48  Aligned_cols=217  Identities=24%  Similarity=0.145  Sum_probs=133.4

Q ss_pred             cchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            4 LVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         4 l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      .+++..+.++.+...+..+++|++|++++|. ++.+...-.++.|+.|++++|.+.. +.. +..++.|+.+++++|.+.
T Consensus        99 ~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~-I~~i~~l~~l~~L~~L~l~~N~i~~-~~~-~~~l~~L~~l~l~~n~i~  175 (414)
T KOG0531|consen   99 ALDLYDNKIEKIENLLSSLVNLQVLDLSFNK-ITKLEGLSTLTLLKELNLSGNLISD-ISG-LESLKSLKLLDLSYNRIV  175 (414)
T ss_pred             eeeccccchhhcccchhhhhcchheeccccc-cccccchhhccchhhheeccCcchh-ccC-CccchhhhcccCCcchhh
Confidence            3456677788886558889999999999997 7766554477789999997777643 332 556899999999997654


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCC--CcCeEEccCCcCcccchhh
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLS--SLGKLDLQKNNFERIPESV  160 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~--~L~~L~l~~n~l~~lp~~l  160 (248)
                      ..-+.....+.+++.+.+.+|....... .....+..+.+..  |.+.  ....+....  +|+.+++++|++...+..+
T Consensus       176 ~ie~~~~~~~~~l~~l~l~~n~i~~i~~~~~~~~l~~~~l~~--n~i~--~~~~l~~~~~~~L~~l~l~~n~i~~~~~~~  251 (414)
T KOG0531|consen  176 DIENDELSELISLEELDLGGNSIREIEGLDLLKKLVLLSLLD--NKIS--KLEGLNELVMLHLRELYLSGNRISRSPEGL  251 (414)
T ss_pred             hhhhhhhhhccchHHHhccCCchhcccchHHHHHHHHhhccc--ccce--eccCcccchhHHHHHHhcccCccccccccc
Confidence            4333104678899999998865542221 1222233334444  3333  112233333  3889999999998776677


Q ss_pred             hccCCcceecccCccccccC-CCCCcccceeccccccccccc-hhhcccccccccccccccccCcchhc
Q 041505          161 IQLSKLGRLYLRYWERLQSL-PKLPCKLHELDAHHCTALESL-SGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~~~~~l-~~~~~~L~~L~l~~~~~l~~~-~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ..+..+..+++..|+....- ....+.+..+........... ..........+.+....+..|.+...
T Consensus       252 ~~~~~l~~l~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (414)
T KOG0531|consen  252 ENLKNLPVLDLSSNRISNLEGLERLPKLSELWLNDNKLALSEAISQEYITSAAPTLVTLTLELNPIRKI  320 (414)
T ss_pred             cccccccccchhhccccccccccccchHHHhccCcchhcchhhhhccccccccccccccccccCccccc
Confidence            78888889998888653211 112233344433333211111 11111133566777777777766554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.12  E-value=1.2e-05  Score=67.52  Aligned_cols=135  Identities=25%  Similarity=0.326  Sum_probs=85.2

Q ss_pred             ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEec
Q 041505           44 HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWIS  123 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~  123 (248)
                      .+.+++.|++++| .+..+|.   --.+|+.|.+++|.....+|+.+  .++|++|++++|.....+|..   ++.|++.
T Consensus        50 ~~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~s---Le~L~L~  120 (426)
T PRK15386         50 EARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPES---VRSLEIK  120 (426)
T ss_pred             HhcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccccc---cceEEeC
Confidence            4788999999777 4566662   12359999998877777777654  257999999988666666654   5555665


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcC---cccchhhhccCCcceecccCccccccCCCCCcccceeccccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNF---ERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHC  195 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l---~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~  195 (248)
                      .......+.+|.      +|+.|.+.++..   ..+|..  -.++|++|++++|.....-+..+.+|+.|.++.+
T Consensus       121 ~n~~~~L~~LPs------sLk~L~I~~~n~~~~~~lp~~--LPsSLk~L~Is~c~~i~LP~~LP~SLk~L~ls~n  187 (426)
T PRK15386        121 GSATDSIKNVPN------GLTSLSINSYNPENQARIDNL--ISPSLKTLSLTGCSNIILPEKLPESLQSITLHIE  187 (426)
T ss_pred             CCCCcccccCcc------hHhheeccccccccccccccc--cCCcccEEEecCCCcccCcccccccCcEEEeccc
Confidence            421111223443      466666644321   112211  1268999999998755422336688999998764

>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=98.03  E-value=6.1e-06  Score=46.81  Aligned_cols=36  Identities=28%  Similarity=0.387  Sum_probs=28.2

Q ss_pred             CCcCeEEccCCcCcccchhhhccCCcceecccCccc
Q 041505          141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       141 ~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      ++|+.|++++|+++.+|..++++++|++|++++|++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i   36 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPI   36 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCC
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCC
Confidence            468888888888888887788888888888888854

...

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

Probab=97.93  E-value=4.4e-07  Score=79.88  Aligned_cols=153  Identities=21%  Similarity=0.160  Sum_probs=96.1

Q ss_pred             hhhhcCCCCccEEEccCCCCCc--------------------------------ccCCccccCcccEEEcCCCCCccccC
Q 041505           16 YAFKQNNPHIVVLNLRDCKSLK--------------------------------SLPAGIHLEFLKELDLLNGTAIEELP   63 (248)
Q Consensus        16 ~~~l~~l~~L~~L~l~~~~~~~--------------------------------~~~~~~~l~~L~~L~l~~~~~~~~~~   63 (248)
                      |-.+.-++.|++|.+.+|.+..                                ++..+...-.|...+.+ +|....+.
T Consensus       102 pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fs-yN~L~~mD  180 (1096)
T KOG1859|consen  102 PISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFS-YNRLVLMD  180 (1096)
T ss_pred             CceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcc-hhhHHhHH
Confidence            3456678899999999886322                                11111122234444552 33334455


Q ss_pred             hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCC
Q 041505           64 SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQL  140 (248)
Q Consensus        64 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~  140 (248)
                      .++.-++.++.|++++|+....  +.+..+++|++||++.|.+ ..+|.   .-.+|..|.+++  |...  --..+.++
T Consensus       181 ~SLqll~ale~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN~L-~~vp~l~~~gc~L~~L~lrn--N~l~--tL~gie~L  253 (1096)
T KOG1859|consen  181 ESLQLLPALESLNLSHNKFTKV--DNLRRLPKLKHLDLSYNCL-RHVPQLSMVGCKLQLLNLRN--NALT--TLRGIENL  253 (1096)
T ss_pred             HHHHHHHHhhhhccchhhhhhh--HHHHhcccccccccccchh-ccccccchhhhhheeeeecc--cHHH--hhhhHHhh
Confidence            5677788888888888765543  2677888899999888554 34443   222355666766  4444  23457778


Q ss_pred             CCcCeEEccCCcCcccc--hhhhccCCcceecccCccc
Q 041505          141 SSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       141 ~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~  176 (248)
                      .+|+.||++.|-+....  ..++.+..|+.|.+.+|++
T Consensus       254 ksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  254 KSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             hhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            88888888888663221  3466778888888888865

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.88  E-value=2.3e-06  Score=67.96  Aligned_cols=179  Identities=19%  Similarity=0.088  Sum_probs=82.7

Q ss_pred             ccCcccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCc----ccccccCCC
Q 041505           44 HLEFLKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQ----RLPDELGNL  117 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~----~~~~~~~~l  117 (248)
                      .+..++.+|+..|.++.  ++...+.++|.|+.|+++.|.....+...-....+|++|-+.+..+.+    +..+.++.+
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~v  148 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKV  148 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhh
Confidence            45566666665554432  333445566666666666654433322111234456666555533221    222334444


Q ss_pred             CceEecccC--------Ccccc-------------------cccccccCCCCcCeEEccCCcCcccc--hhhhccCCcce
Q 041505          118 EALWISREA--------GVISR-------------------WLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGR  168 (248)
Q Consensus       118 ~~L~l~~~~--------n~~~~-------------------~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~  168 (248)
                      ++|+++.+.        +....                   .+......+++++.+.++.|.++...  .....++.+..
T Consensus       149 telHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~  228 (418)
T KOG2982|consen  149 TELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSC  228 (418)
T ss_pred             hhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchh
Confidence            444444421        00000                   01111133455555566666553322  23334555556


Q ss_pred             ecccCccccccCC-----CCCcccceeccccccccccchhhcc---cccccccccccccccCcch
Q 041505          169 LYLRYWERLQSLP-----KLPCKLHELDAHHCTALESLSGLFS---SFEARTRYFDLRYNYNWIE  225 (248)
Q Consensus       169 L~l~~n~~~~~l~-----~~~~~L~~L~l~~~~~l~~~~~~~~---~l~~l~~L~~l~l~~n~i~  225 (248)
                      |+++.+.+- .+.     ..+++|.-|.+++.+.++.+.....   -+.++++++.|+-+  .|.
T Consensus       229 LnL~~~~id-swasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs--kIs  290 (418)
T KOG2982|consen  229 LNLGANNID-SWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS--KIS  290 (418)
T ss_pred             hhhcccccc-cHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc--ccc
Confidence            666665432 111     1246667777766665554433221   12277777776644  554

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.80  E-value=4.1e-05  Score=61.08  Aligned_cols=46  Identities=20%  Similarity=0.186  Sum_probs=35.7

Q ss_pred             cccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccccccCC
Q 041505          136 NIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERLQSLP  181 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~~l~  181 (248)
                      ....++.+--|+++.+++..+.  ..+++++.|+.|.+..+++...+.
T Consensus       219 ~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~  266 (418)
T KOG2982|consen  219 GSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLR  266 (418)
T ss_pred             cCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCccccccc
Confidence            4566677778888888886554  367899999999999998876554

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

Probab=97.75  E-value=6e-06  Score=72.98  Aligned_cols=96  Identities=29%  Similarity=0.457  Sum_probs=67.0

Q ss_pred             ccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC---CCcccceeccccccccccchhhccccc
Q 041505          133 LPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFE  209 (248)
Q Consensus       133 ~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~  209 (248)
                      +-.++.-++.++.|++++|+++... .+..+++|++||+++|.+ ..+|.   .-..|..|.++++ .++.+.    .+.
T Consensus       179 mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L-~~vp~l~~~gc~L~~L~lrnN-~l~tL~----gie  251 (1096)
T KOG1859|consen  179 MDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCL-RHVPQLSMVGCKLQLLNLRNN-ALTTLR----GIE  251 (1096)
T ss_pred             HHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchh-ccccccchhhhhheeeeeccc-HHHhhh----hHH
Confidence            4445667788999999999998774 778899999999999964 34443   3356888888775 334432    244


Q ss_pred             ccccccccccccCcchhc-hHHHHHHH
Q 041505          210 ARTRYFDLRYNYNWIEMR-SEEFLKML  235 (248)
Q Consensus       210 ~l~~L~~l~l~~n~i~~~-~~~~~~~l  235 (248)
                      ++.+|.-||+++|-+..- ..+++-++
T Consensus       252 ~LksL~~LDlsyNll~~hseL~pLwsL  278 (1096)
T KOG1859|consen  252 NLKSLYGLDLSYNLLSEHSELEPLWSL  278 (1096)
T ss_pred             hhhhhhccchhHhhhhcchhhhHHHHH
Confidence            667888888888877543 23444444

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

Probab=97.69  E-value=2.7e-05  Score=70.45  Aligned_cols=133  Identities=18%  Similarity=0.116  Sum_probs=75.1

Q ss_pred             CCCcEEeccCccCCcc-cc----cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcce
Q 041505           94 KLLNYLTLNCCSNLQR-LP----DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGR  168 (248)
Q Consensus        94 ~~L~~L~l~~~~~~~~-~~----~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~  168 (248)
                      .+|++|++++...... .|    .-+|.|++|.+.+.. -..+++.....++++|..||++++.++.+ ..++++++|++
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~-~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQ-FDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCce-ecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHH
Confidence            4566666665333211 11    134556666666532 22223444566777888888888877766 56777777777


Q ss_pred             ecccCccccc--cCCC--CCcccceeccccccccccc---hhhcccccccccccccccccCcchhch
Q 041505          169 LYLRYWERLQ--SLPK--LPCKLHELDAHHCTALESL---SGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       169 L~l~~n~~~~--~l~~--~~~~L~~L~l~~~~~l~~~---~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      |.+.+-.+..  .+-+  .+.+|++||+|.-......   .+-......+|+|+.||.+++.+...-
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~  266 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEI  266 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHH
Confidence            7766543321  1111  1377788887764333222   111233336888888888887766543

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

Probab=97.61  E-value=8.5e-06  Score=57.60  Aligned_cols=82  Identities=21%  Similarity=0.333  Sum_probs=44.7

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCC
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLL   96 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L   96 (248)
                      +....+|+..++++|. ...+|+.+  .++..+.+++ .++.+.++|..+..++.|+.+++++|. ....|.-+..+.++
T Consensus        49 l~~~~el~~i~ls~N~-fk~fp~kft~kf~t~t~lNl-~~neisdvPeE~Aam~aLr~lNl~~N~-l~~~p~vi~~L~~l  125 (177)
T KOG4579|consen   49 LSKGYELTKISLSDNG-FKKFPKKFTIKFPTATTLNL-ANNEISDVPEELAAMPALRSLNLRFNP-LNAEPRVIAPLIKL  125 (177)
T ss_pred             HhCCceEEEEecccch-hhhCCHHHhhccchhhhhhc-chhhhhhchHHHhhhHHhhhcccccCc-cccchHHHHHHHhH
Confidence            3334555556666654 55555555  4456666666 333345556556666666666666543 33444445555555


Q ss_pred             cEEeccC
Q 041505           97 NYLTLNC  103 (248)
Q Consensus        97 ~~L~l~~  103 (248)
                      .+|+..+
T Consensus       126 ~~Lds~~  132 (177)
T KOG4579|consen  126 DMLDSPE  132 (177)
T ss_pred             HHhcCCC
Confidence            5555544

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

Probab=97.60  E-value=8.8e-05  Score=42.01  Aligned_cols=33  Identities=36%  Similarity=0.459  Sum_probs=13.5

Q ss_pred             cccEEEcCCCCCccccChhhhcccCCCEEeccCC
Q 041505           47 FLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC   80 (248)
Q Consensus        47 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~   80 (248)
                      +|++|++++|.+ ..+|..++++++|++|++++|
T Consensus         2 ~L~~L~l~~N~i-~~l~~~l~~l~~L~~L~l~~N   34 (44)
T PF12799_consen    2 NLEELDLSNNQI-TDLPPELSNLPNLETLNLSNN   34 (44)
T ss_dssp             T-SEEEETSSS--SSHGGHGTTCTTSSEEEETSS
T ss_pred             cceEEEccCCCC-cccCchHhCCCCCCEEEecCC
Confidence            344444433332 233433444444444444444

...

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

Probab=97.57  E-value=3e-05  Score=70.13  Aligned_cols=147  Identities=20%  Similarity=0.172  Sum_probs=81.6

Q ss_pred             CCccEEEccCCCCCcc-cCCcc--ccCcccEEEcCCCCCcc-ccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           23 PHIVVLNLRDCKSLKS-LPAGI--HLEFLKELDLLNGTAIE-ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~-~~~~~--~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      .+|+.|++++...... =|..+  .+|.|+.|.+++-.... ++-....++|+|+.||++++++. .+ .+++++++|++
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~-nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNIS-NL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCcc-Cc-HHHhccccHHH
Confidence            5788888887543321 12222  57888888885544432 22334567888888888885443 33 56778888888


Q ss_pred             EeccCccCCccc-c---cccCCCCceEecccCCccccccc----ccccCCCCcCeEEccCCcCc-c-cchhhhccCCcce
Q 041505           99 LTLNCCSNLQRL-P---DELGNLEALWISREAGVISRWLP----ENIGQLSSLGKLDLQKNNFE-R-IPESVIQLSKLGR  168 (248)
Q Consensus        99 L~l~~~~~~~~~-~---~~~~~l~~L~l~~~~n~~~~~~~----~~l~~~~~L~~L~l~~n~l~-~-lp~~l~~~~~L~~  168 (248)
                      |.+.+-.+.... -   -.+.+|+.|+++...+.....+.    +.-..+++|+.||.+++.+. . +...+..-++|+.
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~  279 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQ  279 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhh
Confidence            877653333210 0   13555666776663322111111    12234678888888877763 2 2223344455555


Q ss_pred             ecc
Q 041505          169 LYL  171 (248)
Q Consensus       169 L~l  171 (248)
                      +.+
T Consensus       280 i~~  282 (699)
T KOG3665|consen  280 IAA  282 (699)
T ss_pred             hhh
Confidence            443

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

Probab=97.47  E-value=1.2e-05  Score=66.65  Aligned_cols=215  Identities=17%  Similarity=0.161  Sum_probs=101.2

Q ss_pred             cchhhccchHhhh-hhh-cCCCCccEEEccCCCCCcc--cCCcc-ccCcccEEEcCCCCCcccc--ChhhhcccCCCEEe
Q 041505            4 LVDDHALELFSLY-AFK-QNNPHIVVLNLRDCKSLKS--LPAGI-HLEFLKELDLLNGTAIEEL--PSAIECLYKLLHLD   76 (248)
Q Consensus         4 l~~~~~~~l~~l~-~~l-~~l~~L~~L~l~~~~~~~~--~~~~~-~l~~L~~L~l~~~~~~~~~--~~~~~~l~~L~~L~   76 (248)
                      +...+|..++... +.+ ..+++|.+|++++|.-+..  +.... ++..++.+..++|.....-  -..-..++.+..++
T Consensus       195 l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~ln  274 (483)
T KOG4341|consen  195 LNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLN  274 (483)
T ss_pred             hhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccc
Confidence            3334444444433 222 2355566666666543322  11111 4444555544444332210  00112233445555


Q ss_pred             ccCCcCcCcCCc--cccCCCCCcEEeccCccCCcccc-----cccCCCCceEecccCCccccc-ccccccCCCCcCeEEc
Q 041505           77 LEYCESLNSLPS--GLCKLKLLNYLTLNCCSNLQRLP-----DELGNLEALWISREAGVISRW-LPENIGQLSSLGKLDL  148 (248)
Q Consensus        77 l~~~~~~~~~~~--~l~~l~~L~~L~l~~~~~~~~~~-----~~~~~l~~L~l~~~~n~~~~~-~~~~l~~~~~L~~L~l  148 (248)
                      +..|...++.--  .-..+..||+++.++|...+..+     +.-.+++.+.+..|.. +.+. +-.--.++..|+.+++
T Consensus       275 l~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~-fsd~~ft~l~rn~~~Le~l~~  353 (483)
T KOG4341|consen  275 LQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQ-FSDRGFTMLGRNCPHLERLDL  353 (483)
T ss_pred             hhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccch-hhhhhhhhhhcCChhhhhhcc
Confidence            445433332210  01225667777777776644332     1223455566666542 2221 1112244567777777


Q ss_pred             cCCcCc---ccchhhhccCCcceecccCccccccCC--------CCCcccceeccccccccccchhhccccccccccccc
Q 041505          149 QKNNFE---RIPESVIQLSKLGRLYLRYWERLQSLP--------KLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDL  217 (248)
Q Consensus       149 ~~n~l~---~lp~~l~~~~~L~~L~l~~n~~~~~l~--------~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l  217 (248)
                      -++...   ++.+--.+++.++.+.++.|..++..+        .....|+.+.+.+|+.+++.  ....++.+++|+.+
T Consensus       354 e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~--~Le~l~~c~~Leri  431 (483)
T KOG4341|consen  354 EECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDA--TLEHLSICRNLERI  431 (483)
T ss_pred             cccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHH--HHHHHhhCccccee
Confidence            666542   233333467778888777776654431        22355667777777665543  23334455566665


Q ss_pred             cccc
Q 041505          218 RYNY  221 (248)
Q Consensus       218 ~l~~  221 (248)
                      ++-.
T Consensus       432 ~l~~  435 (483)
T KOG4341|consen  432 ELID  435 (483)
T ss_pred             eeec
Confidence            4443

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

Probab=97.27  E-value=0.0007  Score=51.17  Aligned_cols=79  Identities=24%  Similarity=0.182  Sum_probs=43.7

Q ss_pred             ccEEEccCCCCCcccCC-ccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccC
Q 041505           25 IVVLNLRDCKSLKSLPA-GIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC  103 (248)
Q Consensus        25 L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  103 (248)
                      =+.+++.+.. +..+.. ..-+.+...+|+++|.+.. ++. +..++.|.+|.+++|.+...-|.--..+++|+.|.+.+
T Consensus        21 e~e~~LR~lk-ip~ienlg~~~d~~d~iDLtdNdl~~-l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~Ltn   97 (233)
T KOG1644|consen   21 ERELDLRGLK-IPVIENLGATLDQFDAIDLTDNDLRK-LDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTN   97 (233)
T ss_pred             cccccccccc-ccchhhccccccccceecccccchhh-ccc-CCCccccceEEecCCcceeeccchhhhccccceEEecC
Confidence            3556666654 222211 1134566677776666543 222 55677777777777655544444333456677777777


Q ss_pred             ccC
Q 041505          104 CSN  106 (248)
Q Consensus       104 ~~~  106 (248)
                      |++
T Consensus        98 Nsi  100 (233)
T KOG1644|consen   98 NSI  100 (233)
T ss_pred             cch
Confidence            543

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

Probab=97.08  E-value=0.0008  Score=50.85  Aligned_cols=79  Identities=28%  Similarity=0.284  Sum_probs=40.4

Q ss_pred             CccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhh-cccCCCEEeccCCcCcC--cCCccccCCCCCcEEe
Q 041505           24 HIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIE-CLYKLLHLDLEYCESLN--SLPSGLCKLKLLNYLT  100 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~  100 (248)
                      ....+|+++|. +..++..-.++.|.+|.+ +++.+..+.+.+. -+++|..|.+.+|.+..  ++ +-+..++.|++|.
T Consensus        43 ~~d~iDLtdNd-l~~l~~lp~l~rL~tLll-~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl-~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   43 QFDAIDLTDND-LRKLDNLPHLPRLHTLLL-NNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDL-DPLASCPKLEYLT  119 (233)
T ss_pred             ccceecccccc-hhhcccCCCccccceEEe-cCCcceeeccchhhhccccceEEecCcchhhhhhc-chhccCCccceee
Confidence            44556666665 443333225666666666 4444444443333 35556666666554321  11 2244566666666


Q ss_pred             ccCcc
Q 041505          101 LNCCS  105 (248)
Q Consensus       101 l~~~~  105 (248)
                      +-+|.
T Consensus       120 ll~Np  124 (233)
T KOG1644|consen  120 LLGNP  124 (233)
T ss_pred             ecCCc
Confidence            65543

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

Probab=97.05  E-value=2.9e-05  Score=64.44  Aligned_cols=84  Identities=15%  Similarity=0.039  Sum_probs=43.7

Q ss_pred             CCCCcCeEEccCCcC-cccc--hhhhccCCcceecccCcccccc-----CCCCCcccceeccccccccccchhhccccc-
Q 041505          139 QLSSLGKLDLQKNNF-ERIP--ESVIQLSKLGRLYLRYWERLQS-----LPKLPCKLHELDAHHCTALESLSGLFSSFE-  209 (248)
Q Consensus       139 ~~~~L~~L~l~~n~l-~~lp--~~l~~~~~L~~L~l~~n~~~~~-----l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~-  209 (248)
                      .+.+|+.++.+++.- +..+  +--.++++|+.+-+..|+..+.     +....+.|+.+++..|....+-  .+.++. 
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~  369 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDG--TLASLSR  369 (483)
T ss_pred             hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhh--hHhhhcc
Confidence            345566666655432 2211  1123556777777776654322     2233466777777666443332  122222 


Q ss_pred             ccccccccccccCcc
Q 041505          210 ARTRYFDLRYNYNWI  224 (248)
Q Consensus       210 ~l~~L~~l~l~~n~i  224 (248)
                      .++.|+.+++++.+.
T Consensus       370 ~C~~lr~lslshce~  384 (483)
T KOG4341|consen  370 NCPRLRVLSLSHCEL  384 (483)
T ss_pred             CCchhccCChhhhhh
Confidence            667777777776643

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

Probab=97.03  E-value=6.2e-05  Score=53.35  Aligned_cols=82  Identities=18%  Similarity=0.151  Sum_probs=64.8

Q ss_pred             chhhccchHhhhhhhc-CCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLYAFKQ-NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~-~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ..++.+.++++|+.+. .++.++.|++++|. +..+|.++ .++.|+.++++.|.+. ..|..+..+.++-+|+...|. 
T Consensus        58 i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE~Aam~aLr~lNl~~N~l~-~~p~vi~~L~~l~~Lds~~na-  134 (177)
T KOG4579|consen   58 ISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEELAAMPALRSLNLRFNPLN-AEPRVIAPLIKLDMLDSPENA-  134 (177)
T ss_pred             EecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHHHhhhHHhhhcccccCccc-cchHHHHHHHhHHHhcCCCCc-
Confidence            5667888899996654 46789999999997 88899989 9999999999666654 557777779999999998764 


Q ss_pred             cCcCCcc
Q 041505           83 LNSLPSG   89 (248)
Q Consensus        83 ~~~~~~~   89 (248)
                      ..++|-.
T Consensus       135 ~~eid~d  141 (177)
T KOG4579|consen  135 RAEIDVD  141 (177)
T ss_pred             cccCcHH
Confidence            3444443

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

Probab=96.63  E-value=0.0012  Score=51.77  Aligned_cols=86  Identities=23%  Similarity=0.142  Sum_probs=48.0

Q ss_pred             CCCccEEEccCCCCCcccCCccccCcccEEEcCCC--CCccccChhhhcccCCCEEeccCCcCcC-cCCccccCCCCCcE
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNG--TAIEELPSAIECLYKLLHLDLEYCESLN-SLPSGLCKLKLLNY   98 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~--~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~l~~l~~L~~   98 (248)
                      +..++.+.+.++.. ..+...-.+++|++|.++.|  .....++..+..+|+|++++++.|++.. ..-..+..+.+|..
T Consensus        42 ~~~le~ls~~n~gl-tt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~  120 (260)
T KOG2739|consen   42 FVELELLSVINVGL-TTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKS  120 (260)
T ss_pred             ccchhhhhhhccce-eecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhh
Confidence            45555566655442 22211115777888888777  3344455445566888888887765542 11112344566777


Q ss_pred             EeccCccCCc
Q 041505           99 LTLNCCSNLQ  108 (248)
Q Consensus        99 L~l~~~~~~~  108 (248)
                      |++.+|...+
T Consensus       121 Ldl~n~~~~~  130 (260)
T KOG2739|consen  121 LDLFNCSVTN  130 (260)
T ss_pred             hhcccCCccc
Confidence            7777765543

>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=96.39  E-value=0.0016  Score=30.74  Aligned_cols=21  Identities=43%  Similarity=0.574  Sum_probs=15.4

Q ss_pred             CcCeEEccCCcCcccchhhhc
Q 041505          142 SLGKLDLQKNNFERIPESVIQ  162 (248)
Q Consensus       142 ~L~~L~l~~n~l~~lp~~l~~  162 (248)
                      +|+.|++++|+++.+|..|.+
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            477888888888877766543

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

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.30  E-value=0.0018  Score=49.01  Aligned_cols=112  Identities=15%  Similarity=0.083  Sum_probs=72.1

Q ss_pred             ccccccCCCCcCeEEccCCcCc-ccchhhhccCCcceecccCcccc-----ccCCCCCcccceeccccccccccchhhcc
Q 041505          133 LPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLRYWERL-----QSLPKLPCKLHELDAHHCTALESLSGLFS  206 (248)
Q Consensus       133 ~~~~l~~~~~L~~L~l~~n~l~-~lp~~l~~~~~L~~L~l~~n~~~-----~~l~~~~~~L~~L~l~~~~~l~~~~~~~~  206 (248)
                      .|.....-..++.+|.++..|. +--..+..++.++.|.+.+|.-.     +.+....++|+.|++++|+.+++-  +..
T Consensus        93 lp~~~~~~~~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~--GL~  170 (221)
T KOG3864|consen   93 LPGPNADNVKIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDG--GLA  170 (221)
T ss_pred             CCCCCCCcceEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechh--HHH
Confidence            4444344456788888887763 22245667778888888887643     334556799999999999987764  344


Q ss_pred             cccccccccccccccCcchhchH---HHHHHHHhhhhheeccc
Q 041505          207 SFEARTRYFDLRYNYNWIEMRSE---EFLKMLCKKLNFWQLHY  246 (248)
Q Consensus       207 ~l~~l~~L~~l~l~~n~i~~~~~---~~~~~l~~~l~~~~~~~  246 (248)
                      .+.++++|+.|.+..-.......   ..++..++++++.-..+
T Consensus       171 ~L~~lknLr~L~l~~l~~v~~~e~~~~~Le~aLP~c~I~~~d~  213 (221)
T KOG3864|consen  171 CLLKLKNLRRLHLYDLPYVANLELVQRQLEEALPKCDIVGPDV  213 (221)
T ss_pred             HHHHhhhhHHHHhcCchhhhchHHHHHHHHHhCcccceechhh
Confidence            55677788888776543333222   23444467777665544

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

Probab=96.09  E-value=0.00086  Score=58.36  Aligned_cols=35  Identities=29%  Similarity=0.226  Sum_probs=15.4

Q ss_pred             cCcccEEEcCCCCCccc--cChhhhcccCCCEEeccC
Q 041505           45 LEFLKELDLLNGTAIEE--LPSAIECLYKLLHLDLEY   79 (248)
Q Consensus        45 l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~   79 (248)
                      ++.|+.+.+.++..+..  +......+++|+.|+++.
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~  223 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSG  223 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccC
Confidence            34444444444444333  223334455555555443

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

Probab=95.73  E-value=0.067  Score=37.52  Aligned_cols=56  Identities=13%  Similarity=0.214  Sum_probs=19.1

Q ss_pred             hcCCCCccEEEccCCCCCcccCCc-c-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEecc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAG-I-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLE   78 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~-~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~   78 (248)
                      +..+.+|+.+.+.. . +..++.. + .+..|+.+.+..+  ...++ ..+.++++++.+.+.
T Consensus         8 F~~~~~l~~i~~~~-~-~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~   66 (129)
T PF13306_consen    8 FYNCSNLESITFPN-T-IKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFP   66 (129)
T ss_dssp             TTT-TT--EEEETS-T---EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEET
T ss_pred             HhCCCCCCEEEECC-C-eeEeChhhccccccccccccccc--ccccceeeeeccccccccccc
Confidence            34444555555543 2 3333322 2 4445555555332  22222 234445455555554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.71  E-value=0.00091  Score=53.12  Aligned_cols=96  Identities=26%  Similarity=0.224  Sum_probs=56.8

Q ss_pred             ccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEc
Q 041505           69 LYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDL  148 (248)
Q Consensus        69 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l  148 (248)
                      +.+.+.|+.++|.+...  ....+|+.|++|.++-|                       .+.  --..+.+|++|++|++
T Consensus        18 l~~vkKLNcwg~~L~DI--sic~kMp~lEVLsLSvN-----------------------kIs--sL~pl~rCtrLkElYL   70 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI--SICEKMPLLEVLSLSVN-----------------------KIS--SLAPLQRCTRLKELYL   70 (388)
T ss_pred             HHHhhhhcccCCCccHH--HHHHhcccceeEEeecc-----------------------ccc--cchhHHHHHHHHHHHH
Confidence            45566666666543221  22445677777777663                       333  2234667777888888


Q ss_pred             cCCcCcccc--hhhhccCCcceecccCccccccCCC--------CCcccceec
Q 041505          149 QKNNFERIP--ESVIQLSKLGRLYLRYWERLQSLPK--------LPCKLHELD  191 (248)
Q Consensus       149 ~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~~l~~--------~~~~L~~L~  191 (248)
                      ..|.|..+.  ..+.++++|+.|.+..|+=.+..+.        .+|+|+.||
T Consensus        71 RkN~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   71 RKNCIESLDELEYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HhcccccHHHHHHHhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            777775553  3566777888888777754433332        246666665

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

Probab=95.64  E-value=0.011  Score=46.42  Aligned_cols=63  Identities=22%  Similarity=0.187  Sum_probs=35.3

Q ss_pred             cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccc
Q 041505          114 LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       114 ~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~  176 (248)
                      +++|+.|.++.+.-.....++.....+++|+.+++++|++..+.  ..+..+.+|..|++..|..
T Consensus        64 Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   64 LPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSV  128 (260)
T ss_pred             cchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCc
Confidence            34444555554111344445555555677888888888775321  1344566677777777753

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

Probab=95.59  E-value=0.0023  Score=55.68  Aligned_cols=106  Identities=25%  Similarity=0.258  Sum_probs=67.5

Q ss_pred             cccchhhccchHh--hhhhhcCCCCccEEEccCC-CCCcccC----Ccc-ccCcccEEEcCCCCCccccC-hhh-hcccC
Q 041505            2 KELVDDHALELFS--LYAFKQNNPHIVVLNLRDC-KSLKSLP----AGI-HLEFLKELDLLNGTAIEELP-SAI-ECLYK   71 (248)
Q Consensus         2 ~~l~~~~~~~l~~--l~~~l~~l~~L~~L~l~~~-~~~~~~~----~~~-~l~~L~~L~l~~~~~~~~~~-~~~-~~l~~   71 (248)
                      +++...+|..+..  +.+.....++|+.|+++++ ......+    ... .+++|+.++++.+..+.+.. ..+ ..+++
T Consensus       191 ~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~  270 (482)
T KOG1947|consen  191 KRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPN  270 (482)
T ss_pred             hHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCC
Confidence            3444455655555  3355667899999999873 2233222    222 67999999998888554332 223 34899


Q ss_pred             CCEEeccCCcC-cCcC-CccccCCCCCcEEeccCccCC
Q 041505           72 LLHLDLEYCES-LNSL-PSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        72 L~~L~l~~~~~-~~~~-~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      |+.|.+..|.. ...- .....++++|++|+++.|...
T Consensus       271 L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  271 LETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             cceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            99999877653 2221 222345788999999988765

>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=95.57  E-value=0.0086  Score=26.28  Aligned_cols=16  Identities=38%  Similarity=0.706  Sum_probs=8.1

Q ss_pred             CcCeEEccCCcCcccc
Q 041505          142 SLGKLDLQKNNFERIP  157 (248)
Q Consensus       142 ~L~~L~l~~n~l~~lp  157 (248)
                      +|+.|++++|+++.+|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            5667777777766554

...

>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=95.10  E-value=0.011  Score=27.78  Aligned_cols=17  Identities=29%  Similarity=0.497  Sum_probs=7.3

Q ss_pred             CcEEeccCccCCcccccc
Q 041505           96 LNYLTLNCCSNLQRLPDE  113 (248)
Q Consensus        96 L~~L~l~~~~~~~~~~~~  113 (248)
                      |++|++++|++. .+|..
T Consensus         2 L~~Ldls~n~l~-~ip~~   18 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPSS   18 (22)
T ss_dssp             ESEEEETSSEES-EEGTT
T ss_pred             ccEEECCCCcCE-eCChh
Confidence            444455444333 34433

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 ....

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.84  E-value=0.0025  Score=50.72  Aligned_cols=98  Identities=17%  Similarity=0.090  Sum_probs=65.3

Q ss_pred             CCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCC-----CCCccccee
Q 041505          116 NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP-----KLPCKLHEL  190 (248)
Q Consensus       116 ~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~-----~~~~~L~~L  190 (248)
                      +.+.|+.++|+  ..+  ......|+.|+.|.++-|+|+.+ +.+..|.+|++|.+..|.+ ..+.     ..+++|+.|
T Consensus        20 ~vkKLNcwg~~--L~D--Isic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~I-~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   20 NVKKLNCWGCG--LDD--ISICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNCI-ESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HhhhhcccCCC--ccH--HHHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhccc-ccHHHHHHHhcCchhhhH
Confidence            44566666654  221  13356789999999999999888 4578999999999999854 2222     124777888


Q ss_pred             ccccccccccchhhccccc--cccccccccc
Q 041505          191 DAHHCTALESLSGLFSSFE--ARTRYFDLRY  219 (248)
Q Consensus       191 ~l~~~~~l~~~~~~~~~l~--~l~~L~~l~l  219 (248)
                      .+..++.-...+.......  .+|+|+.||-
T Consensus        94 WL~ENPCc~~ag~nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   94 WLDENPCCGEAGQNYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             hhccCCcccccchhHHHHHHHHcccchhccC
Confidence            7777666554444332222  6778887773

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

Probab=94.80  E-value=0.14  Score=35.87  Aligned_cols=114  Identities=18%  Similarity=0.214  Sum_probs=52.7

Q ss_pred             ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc-c---cCCCC
Q 041505           44 HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD-E---LGNLE  118 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~---~~~l~  118 (248)
                      .+.+|+.+.+.. . +..++ ..|.++++|+.+.+.. .....-...+..+++++.+.+.. ... .++. .   ..+++
T Consensus        10 ~~~~l~~i~~~~-~-~~~I~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~-~~~-~i~~~~F~~~~~l~   84 (129)
T PF13306_consen   10 NCSNLESITFPN-T-IKKIGENAFSNCTSLKSINFPN-NLTSIGDNAFSNCKSLESITFPN-NLK-SIGDNAFSNCTNLK   84 (129)
T ss_dssp             T-TT--EEEETS-T---EE-TTTTTT-TT-SEEEESS-TTSCE-TTTTTT-TT-EEEEETS-TT--EE-TTTTTT-TTEC
T ss_pred             CCCCCCEEEECC-C-eeEeChhhcccccccccccccc-cccccceeeeecccccccccccc-ccc-cccccccccccccc
Confidence            677899999853 3 34444 5688898999999986 33333333466677899999965 322 2222 3   34556


Q ss_pred             ceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcc
Q 041505          119 ALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLG  167 (248)
Q Consensus       119 ~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~  167 (248)
                      .+.+..  + ....-...+.++ +++.+.+.. .+..++. .|.++++|+
T Consensus        85 ~i~~~~--~-~~~i~~~~f~~~-~l~~i~~~~-~~~~i~~~~F~~~~~l~  129 (129)
T PF13306_consen   85 NIDIPS--N-ITEIGSSSFSNC-NLKEINIPS-NITKIEENAFKNCTKLK  129 (129)
T ss_dssp             EEEETT--T--BEEHTTTTTT--T--EEE-TT-B-SS----GGG------
T ss_pred             ccccCc--c-ccEEchhhhcCC-CceEEEECC-CccEECCccccccccCC
Confidence            666654  3 221123457777 899888875 4555543 566666654

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=94.05  E-value=0.0014  Score=50.79  Aligned_cols=99  Identities=18%  Similarity=0.078  Sum_probs=77.0

Q ss_pred             hhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +++...+..+| ..++.+...+.||++.|+ ...+...+ -+..+..|+++ -+.+..+|..++....++.++... +..
T Consensus        24 ~~s~s~~s~~~v~ei~~~kr~tvld~~s~r-~vn~~~n~s~~t~~~rl~~s-knq~~~~~~d~~q~~e~~~~~~~~-n~~  100 (326)
T KOG0473|consen   24 DLSLSELSEIPVREIASFKRVTVLDLSSNR-LVNLGKNFSILTRLVRLDLS-KNQIKFLPKDAKQQRETVNAASHK-NNH  100 (326)
T ss_pred             CCCHHHhcccchhhhhccceeeeehhhhhH-HHhhccchHHHHHHHHHhcc-HhhHhhChhhHHHHHHHHHHHhhc-cch
Confidence            34445556677 568889999999999988 55555556 67788889995 444677898899999999998876 457


Q ss_pred             CcCCccccCCCCCcEEeccCccCC
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      ...|.+.+..+.+++++.-.+.+.
T Consensus       101 ~~~p~s~~k~~~~k~~e~k~~~~~  124 (326)
T KOG0473|consen  101 SQQPKSQKKEPHPKKNEQKKTEFF  124 (326)
T ss_pred             hhCCccccccCCcchhhhccCcch
Confidence            788999999999999998776543

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

Probab=93.28  E-value=0.088  Score=25.68  Aligned_cols=20  Identities=35%  Similarity=0.667  Sum_probs=16.3

Q ss_pred             CCCcCeEEccCCcCcccchh
Q 041505          140 LSSLGKLDLQKNNFERIPES  159 (248)
Q Consensus       140 ~~~L~~L~l~~n~l~~lp~~  159 (248)
                      +++|+.|++++|+++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            46788999999999888864

>smart00370 LRR Leucine-rich repeats, outliers

Probab=93.28  E-value=0.088  Score=25.68  Aligned_cols=20  Identities=35%  Similarity=0.667  Sum_probs=16.3

Q ss_pred             CCCcCeEEccCCcCcccchh
Q 041505          140 LSSLGKLDLQKNNFERIPES  159 (248)
Q Consensus       140 ~~~L~~L~l~~n~l~~lp~~  159 (248)
                      +++|+.|++++|+++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            46788999999999888864

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=89.83  E-value=0.0057  Score=47.51  Aligned_cols=77  Identities=14%  Similarity=0.031  Sum_probs=64.5

Q ss_pred             cchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            4 LVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         4 l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      .++++.+++..+...+.-++.+..|+++.|. +...|+.+ ....++.++. +++.....|.+++..+++++++.-.+.+
T Consensus        46 vld~~s~r~vn~~~n~s~~t~~~rl~~sknq-~~~~~~d~~q~~e~~~~~~-~~n~~~~~p~s~~k~~~~k~~e~k~~~~  123 (326)
T KOG0473|consen   46 VLDLSSNRLVNLGKNFSILTRLVRLDLSKNQ-IKFLPKDAKQQRETVNAAS-HKNNHSQQPKSQKKEPHPKKNEQKKTEF  123 (326)
T ss_pred             eehhhhhHHHhhccchHHHHHHHHHhccHhh-HhhChhhHHHHHHHHHHHh-hccchhhCCccccccCCcchhhhccCcc
Confidence            4567777788888777778899999999987 88899989 8899999999 6666677899999999999999877653

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=89.72  E-value=0.014  Score=50.89  Aligned_cols=184  Identities=24%  Similarity=0.152  Sum_probs=83.5

Q ss_pred             ccEEEcCCCCCcc----ccChhhhcccCCCEEeccCCcCcCcCC----ccccCC-CCCcEEeccCccCCcc----ccccc
Q 041505           48 LKELDLLNGTAIE----ELPSAIECLYKLLHLDLEYCESLNSLP----SGLCKL-KLLNYLTLNCCSNLQR----LPDEL  114 (248)
Q Consensus        48 L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~~~----~~l~~l-~~L~~L~l~~~~~~~~----~~~~~  114 (248)
                      +..+.+..|..-.    .+...+...+.|..|++++|.+...-.    ..+... ..+++|.+..|.....    +.+.+
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~~~L  168 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAVL  168 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHHH
Confidence            4555554444332    233345556666667776665543211    111111 3455566655554322    11222


Q ss_pred             C---CCCceEecccCCcccc--ccccccc----CCCCcCeEEccCCcCccc-----chhhhccCC-cceecccCcccccc
Q 041505          115 G---NLEALWISREAGVISR--WLPENIG----QLSSLGKLDLQKNNFERI-----PESVIQLSK-LGRLYLRYWERLQS  179 (248)
Q Consensus       115 ~---~l~~L~l~~~~n~~~~--~~~~~l~----~~~~L~~L~l~~n~l~~l-----p~~l~~~~~-L~~L~l~~n~~~~~  179 (248)
                      .   .++.+++..+.-...+  .++..+.    ...+++.+++++|.++..     ...+...++ +..+++..|.+...
T Consensus       169 ~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~~el~l~~n~l~d~  248 (478)
T KOG4308|consen  169 EKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLLRELDLASNKLGDV  248 (478)
T ss_pred             hcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhhHHHHHHhcCcchH
Confidence            2   2223334332100000  1222233    355677777777766411     122334444 55577777654322


Q ss_pred             --------CCCCCcccceeccccccccccchhh-cccccccccccccccccCcchhchHHH
Q 041505          180 --------LPKLPCKLHELDAHHCTALESLSGL-FSSFEARTRYFDLRYNYNWIEMRSEEF  231 (248)
Q Consensus       180 --------l~~~~~~L~~L~l~~~~~l~~~~~~-~~~l~~l~~L~~l~l~~n~i~~~~~~~  231 (248)
                              ++..-+.++++++..|+....-... ...+..++.++.+.++.|.+.......
T Consensus       249 g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~~~~~~~  309 (478)
T KOG4308|consen  249 GVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLTDYGVEL  309 (478)
T ss_pred             HHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCccccHHHHH
Confidence                    1111144566666665433222221 233335567777777777776665443

>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=89.64  E-value=0.26  Score=23.44  Aligned_cols=21  Identities=19%  Similarity=0.072  Sum_probs=14.9

Q ss_pred             ccccccccccCcchhchHHHH
Q 041505          212 TRYFDLRYNYNWIEMRSEEFL  232 (248)
Q Consensus       212 ~~L~~l~l~~n~i~~~~~~~~  232 (248)
                      ++|++|++++|.|+..+.+.+
T Consensus         2 ~~L~~L~l~~n~i~~~g~~~l   22 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEGASAL   22 (24)
T ss_dssp             TT-SEEE-TSSBEHHHHHHHH
T ss_pred             CCCCEEEccCCcCCHHHHHHh
Confidence            578889999999888776554

...

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.41  E-value=0.095  Score=39.91  Aligned_cols=80  Identities=24%  Similarity=0.218  Sum_probs=50.5

Q ss_pred             CccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhh-cccCCCEEeccCCcCcCcC-CccccCCCCCcEE
Q 041505           24 HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIE-CLYKLLHLDLEYCESLNSL-PSGLCKLKLLNYL   99 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~-~l~~L~~L~l~~~~~~~~~-~~~l~~l~~L~~L   99 (248)
                      .++.+|.+++.+-.+--+-+ .++.++.|.+.+|....... ..++ -.++|+.|+++.|..+++. ...+.++++|+.|
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L  181 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRL  181 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHH
Confidence            46677777766433322333 66777777776666554322 1122 4678888888888776654 3446778888888


Q ss_pred             eccC
Q 041505          100 TLNC  103 (248)
Q Consensus       100 ~l~~  103 (248)
                      .+.+
T Consensus       182 ~l~~  185 (221)
T KOG3864|consen  182 HLYD  185 (221)
T ss_pred             HhcC
Confidence            8765

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=84.79  E-value=0.62  Score=22.83  Aligned_cols=18  Identities=33%  Similarity=0.665  Sum_probs=13.6

Q ss_pred             CCcCeEEccCCcCcccch
Q 041505          141 SSLGKLDLQKNNFERIPE  158 (248)
Q Consensus       141 ~~L~~L~l~~n~l~~lp~  158 (248)
                      .+|+.|++++|+++.+|+
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            357788888888887775

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=84.41  E-value=0.03  Score=48.90  Aligned_cols=163  Identities=23%  Similarity=0.239  Sum_probs=97.0

Q ss_pred             hHhhhhhhcCCCCccEEEccCCCCCcc----cCCcc-cc-CcccEEEcCCCCCccc----cChhhhcccCCCEEeccCCc
Q 041505           12 LFSLYAFKQNNPHIVVLNLRDCKSLKS----LPAGI-HL-EFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus        12 l~~l~~~l~~l~~L~~L~l~~~~~~~~----~~~~~-~l-~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~   81 (248)
                      ...+...+....+|..|++++|.+...    +...+ .. +.+++|++..|.....    ++..+.....++.++++.|.
T Consensus       104 ~~~l~~~l~t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~~~L~~~~~l~~l~l~~n~  183 (478)
T KOG4308|consen  104 AEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAVLEKNEHLTELDLSLNG  183 (478)
T ss_pred             HHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHHHhcccchhHHHHHhcc
Confidence            344556677778888899999874431    12222 21 4567777766665442    34556567788888888776


Q ss_pred             CcC----cCCcccc----CCCCCcEEeccCccCCcccc----ccc---CC-CCceEecccCCccccc----ccccccCC-
Q 041505           82 SLN----SLPSGLC----KLKLLNYLTLNCCSNLQRLP----DEL---GN-LEALWISREAGVISRW----LPENIGQL-  140 (248)
Q Consensus        82 ~~~----~~~~~l~----~l~~L~~L~l~~~~~~~~~~----~~~---~~-l~~L~l~~~~n~~~~~----~~~~l~~~-  140 (248)
                      +..    ..+..+.    ...++++|++.+|.......    ..+   +. +.++++..  |...+.    +...+..+ 
T Consensus       184 l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~~el~l~~--n~l~d~g~~~L~~~l~~~~  261 (478)
T KOG4308|consen  184 LIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLLRELDLAS--NKLGDVGVEKLLPCLSVLS  261 (478)
T ss_pred             cchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhhHHHHHHh--cCcchHHHHHHHHHhcccc
Confidence            542    1122233    46678888888876553211    111   12 33555555  333322    23334555 


Q ss_pred             CCcCeEEccCCcCc-----ccchhhhccCCcceecccCccc
Q 041505          141 SSLGKLDLQKNNFE-----RIPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       141 ~~L~~L~l~~n~l~-----~lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      ..++.+++..|.++     .+...+..++.++.+.+..|++
T Consensus       262 ~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l  302 (478)
T KOG4308|consen  262 ETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPL  302 (478)
T ss_pred             hhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcc
Confidence            67788888888874     3445566777888888888764

>smart00365 LRR_SD22 Leucine-rich repeat, SDS22-like subfamily

Probab=82.63  E-value=1.2  Score=21.89  Aligned_cols=16  Identities=38%  Similarity=0.723  Sum_probs=11.5

Q ss_pred             CCcCeEEccCCcCccc
Q 041505          141 SSLGKLDLQKNNFERI  156 (248)
Q Consensus       141 ~~L~~L~l~~n~l~~l  156 (248)
                      ++|+.|++++|+|+.+
T Consensus         2 ~~L~~L~L~~NkI~~I   17 (26)
T smart00365        2 TNLEELDLSQNKIKKI   17 (26)
T ss_pred             CccCEEECCCCcccee
Confidence            5677888888877554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	248
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-26
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-17
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-18
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	5e-12
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-11
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-10
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	8e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	9e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-09
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-09
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-08
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	7e-09
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	2e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
3e6j_A	229	Variable lymphocyte receptor diversity region; var	3e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-07
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	8e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-07
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-04
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	1e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-06
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	7e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	2e-05
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	5e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	7e-05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	1e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	5e-04
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	5e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	8e-04

>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 =  103 bits (260), Expect = 2e-26
 Identities = 47/194 (24%), Positives = 77/194 (39%), Gaps = 16/194 (8%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
             P  V L LR    L   P     L  L+ + + +   + ELP  ++    L  L L  
Sbjct: 79  TQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTI-DAAGLMELPDTMQQFAGLETLTLAR 136

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVIS--------- 130
              L +LP+ +  L  L  L++  C  L  LP+ L + +A    +    +          
Sbjct: 137 N-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGI 195

Query: 131 RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCK---L 187
           R LP +I  L +L  L ++ +    +  ++  L KL  L LR    L++ P +      L
Sbjct: 196 RSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPL 255

Query: 188 HELDAHHCTALESL 201
             L    C+ L +L
Sbjct: 256 KRLILKDCSNLLTL 269

>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 = 90.0 bits (224), Expect = 2e-21
 Identities = 47/182 (25%), Positives = 76/182 (41%), Gaps = 19/182 (10%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAI---------ECLYKL 72
             +  L L     L++LPA I  L  L+EL +     + ELP  +         + L  L
Sbjct: 127 AGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNL 185

Query: 73  LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVI 129
             L LE+   + SLP+ +  L+ L  L +     L  L   +     LE L +     + 
Sbjct: 186 QSLRLEWT-GIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALR 243

Query: 130 SRWLPENIGQLSSLGKLDLQ-KNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLH 188
           +   P   G  + L +L L+  +N   +P  + +L++L +L LR    L  LP L  +L 
Sbjct: 244 N--YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLP 301

Query: 189 EL 190
             
Sbjct: 302 AN 303

>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 = 78.4 bits (194), Expect = 3e-17
 Identities = 33/195 (16%), Positives = 67/195 (34%), Gaps = 10/195 (5%)

Query: 12  LFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLY 70
           + S +    ++     L  +   +L+     +   +     D     +     ++     
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANS----- 55

Query: 71  KLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSN-LQRLPDELGNLEAL-WISREAGV 128
               ++     +L +    L        + L   S  L + PD+   L  L  ++ +A  
Sbjct: 56  NNPQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG 115

Query: 129 ISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLH 188
           +   LP+ + Q + L  L L +N    +P S+  L++L  L +R    L  LP+      
Sbjct: 116 LME-LPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTD 174

Query: 189 ELDA-HHCTALESLS 202
                     L+SL 
Sbjct: 175 ASGEHQGLVNLQSLR 189

>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 = 69.2 bits (169), Expect = 1e-13
 Identities = 47/181 (25%), Positives = 66/181 (36%), Gaps = 22/181 (12%)

Query: 27  VLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL 86
           VLN+ +   L +LP  +    +  L +     +  LP+      +L  L++     L SL
Sbjct: 44  VLNVGESG-LTTLPDCL-PAHITTLVI-PDNNLTSLPALPP---ELRTLEVSGN-QLTSL 96

Query: 87  PSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKL 146
           P     L  L+  +      L  LP     L  LWI      ++  LP     L  L   
Sbjct: 97  PVLPPGLLELSIFSNP----LTHLPALPSGLCKLWIFGNQ--LTS-LPVLPPGLQEL--- 146

Query: 147 DLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFS 206
            +  N    +P    +L KL         +L SLP LP  L EL       L SL  L S
Sbjct: 147 SVSDNQLASLPALPSELCKLWAYNN----QLTSLPMLPSGLQELSVSDN-QLASLPTLPS 201

Query: 207 S 207
            
Sbjct: 202 E 202

>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 = 66.1 bits (161), Expect = 1e-12
 Identities = 45/202 (22%), Positives = 69/202 (34%), Gaps = 27/202 (13%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             +  L   + + L SLP       L+EL + +   +  LP+    LYKL   +      
Sbjct: 161 SELCKLWAYNNQ-LTSLPMLP--SGLQELSV-SDNQLASLPTLPSELYKLWAYNN----R 212

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSN-LQRLPDELGNLEALWISREAGVISRWLPENIGQLS 141
           L SLP+    LK      L    N L  LP     L+ L +S         LP     L 
Sbjct: 213 LTSLPALPSGLK-----ELIVSGNRLTSLPVLPSELKELMVSGNR---LTSLPMLPSGLL 264

Query: 142 SLGKLDLQKNNFERIPESVIQLSKLGRLYLRY-------WERLQSLPKLPCKLHELDAHH 194
           SL    + +N   R+PES+I LS    + L          + L+ +   P     +    
Sbjct: 265 SL---SVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFD 321

Query: 195 CTALESLSGLFSSFEARTRYFD 216
                +     +   A   +  
Sbjct: 322 MAGASAPRETRALHLAAADWLV 343

>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 = 50.3 bits (120), Expect = 2e-07
 Identities = 28/120 (23%), Positives = 39/120 (32%), Gaps = 13/120 (10%)

Query: 91  CKLKLLNYLTLNCCSNLQRLPDELG-NLEALWISREAGVISRWLPENIGQLSSLGKLDLQ 149
           C       L +     L  LPD L  ++  L I          LP    +L +L   ++ 
Sbjct: 37  CLNNGNAVLNVGESG-LTTLPDCLPAHITTLVIPDNN---LTSLPALPPELRTL---EVS 89

Query: 150 KNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFE 209
            N    +P     L +L          L  LP LP  L +L       L SL  L    +
Sbjct: 90  GNQLTSLPVLPPGLLELSIFSN----PLTHLPALPSGLCKLWIFGN-QLTSLPVLPPGLQ 144

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

 Score = 68.7 bits (168), Expect = 1e-13
 Identities = 30/205 (14%), Positives = 60/205 (29%), Gaps = 30/205 (14%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             + ++   +          +     ++ +       E    +   L  L  ++L  C +
Sbjct: 448 TKLQIIYFANSP-FTYDNIAV---DWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPN 503

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSS 142
           +  LP  L  L  L  L + C            +                L ++      
Sbjct: 504 MTQLPDFLYDLPELQSLNIACN-RGISAAQLKADWTR-------------LADDEDTGPK 549

Query: 143 LGKLDLQKNNFERIPESVI--QLSKLGRLYLRYWERLQSLPKLPC--KLHELDAHHCTAL 198
           +    +  NN E  P S    ++ KLG L   +  +++ L       KL +L   +    
Sbjct: 550 IQIFYMGYNNLEEFPASASLQKMVKLGLLDCVH-NKVRHLEAFGTNVKLTDLKLDYN--- 605

Query: 199 ESLSGLFSSFEART---RYFDLRYN 220
             +  +   F A T         +N
Sbjct: 606 -QIEEIPEDFCAFTDQVEGLGFSHN 629

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

 Score = 56.8 bits (137), Expect = 2e-09
 Identities = 31/235 (13%), Positives = 68/235 (28%), Gaps = 43/235 (18%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLN--GTAIEELPSAIEC------LYK 71
                +  L     K LK +P   + + +  +  ++     I      I C         
Sbjct: 616 AFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGIN 674

Query: 72  LLHLDLEYCESLNSLPSGLC-KLKLLNYLTLNCCSNLQRLPDE-----------LGNLEA 119
              + L Y   +   P+ L      ++ + L+    +  +P+               L  
Sbjct: 675 ASTVTLSYN-EIQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTT 732

Query: 120 LWISREAGVISRWLPENI--GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERL 177
           + +      ++  L ++     L  L  +D+  N F   P   +  S+L    +R+    
Sbjct: 733 IDLRFNK--LTS-LSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDA 789

Query: 178 Q----------SLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN 222
           +           +   P  L +L          +  +      +    D+  N N
Sbjct: 790 EGNRILRQWPTGITTCP-SLIQLQIGSN----DIRKVDEKLTPQLYILDIADNPN 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 = 56.4 bits (136), Expect = 2e-09
 Identities = 31/208 (14%), Positives = 61/208 (29%), Gaps = 11/208 (5%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDL-------LNGTAIEELPSAIECLYKL 72
           NN  +  L+L    +   +P  I  L  LK L               +E  +      + 
Sbjct: 321 NNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERK 380

Query: 73  LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRW 132
             + + Y +        L    LL               D   +L+   I      I+  
Sbjct: 381 HRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITF- 439

Query: 133 LPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDA 192
           + + I +L+ L  +    + F     +V           +Y     S   L   L +++ 
Sbjct: 440 ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLK-DLTDVEL 498

Query: 193 HHCTALESLSGLFSSFEARTRYFDLRYN 220
           ++C  +  L           +  ++  N
Sbjct: 499 YNCPNMTQLPDFLYDLP-ELQSLNIACN 525

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

 Score = 51.0 bits (122), Expect = 1e-07
 Identities = 30/193 (15%), Positives = 52/193 (26%), Gaps = 43/193 (22%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDL-------LNGTAIEELPSAIECLYK 71
              +   + L   + ++  P  +      +  + L       +   +++      +  Y 
Sbjct: 671 KGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYL 729

Query: 72  LLHLDLEYCESLNSLPSGL--CKLKLLNYLTLNCCSNLQRLPDELGNLEALWI------- 122
           L  +DL +   L SL        L  L+ + ++        P +  N   L         
Sbjct: 730 LTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQR 787

Query: 123 SREAGVISRWLPENIGQL---------------------SSLGKLDLQKNNFERIPE-SV 160
             E   I R  P  I                          L  LD+  N    I   SV
Sbjct: 788 DAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKLTPQLYILDIADNPNISIDVTSV 847

Query: 161 IQLSKLGRLYLRY 173
               + G   L Y
Sbjct: 848 CPYIEAGMYVLLY 860

>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 = 63.2 bits (154), Expect = 5e-12
 Identities = 44/157 (28%), Positives = 63/157 (40%), Gaps = 15/157 (9%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             +  LNL   + L  L     L  L  LDL +   ++ LP   + L  L  LD+ +   
Sbjct: 55  TRLTQLNLDRAE-LTKLQVDGTLPVLGTLDL-SHNQLQSLPLLGQTLPALTVLDVSFNR- 111

Query: 83  LNSLPSGL-CKLKLLNYLTLNCCSN-LQRLP----DELGNLEALWISREAGVISRWLPEN 136
           L SLP G    L  L  L L    N L+ LP         LE L ++     ++  LP  
Sbjct: 112 LTSLPLGALRGLGELQELYLK--GNELKTLPPGLLTPTPKLEKLSLANNN--LTE-LPAG 166

Query: 137 I-GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLR 172
           +   L +L  L LQ+N+   IP+       L   +L 
Sbjct: 167 LLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH 203

>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 = 56.3 bits (136), Expect = 1e-09
 Identities = 42/187 (22%), Positives = 67/187 (35%), Gaps = 49/187 (26%)

Query: 32  DC--KSLKSLPAGI-----------------------HLEFLKELDLLNGTAIEELPSAI 66
           +C  ++L +LP  +                           L +L+ L+   + +L    
Sbjct: 16  NCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLN-LDRAELTKLQ-VD 73

Query: 67  ECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP----DELGNLEALWI 122
             L  L  LDL +   L SLP     L  L  L ++    L  LP      LG L+ L++
Sbjct: 74  GTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYL 131

Query: 123 SR------EAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWE 175
                     G+++            L KL L  NN   +P  ++  L  L  L L+   
Sbjct: 132 KGNELKTLPPGLLTP--------TPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQE-N 182

Query: 176 RLQSLPK 182
            L ++PK
Sbjct: 183 SLYTIPK 189

>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 = 63.9 bits (156), Expect = 6e-12
 Identities = 33/220 (15%), Positives = 74/220 (33%), Gaps = 35/220 (15%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             +    + +        A    E  +  +       +      + L  L  +++  C +
Sbjct: 206 TKLRQFYMGNSP----FVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPN 261

Query: 83  LNSLPSGLCKLKLLNYLTL--NCCSNLQRLPDELG---------NLEALWISR---EAGV 128
           L  LP+ L  L  +  + +  N   + ++L D+            ++ ++I     +   
Sbjct: 262 LTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFP 321

Query: 129 ISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK----LP 184
           +      ++ ++  LG L+   N  E    +     KL  L L Y  ++  +P       
Sbjct: 322 V----ETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAY-NQITEIPANFCGFT 376

Query: 185 CKLHELDAHHCTALESLSGLFSSFEART----RYFDLRYN 220
            ++  L   H      L  + + F+A++       D  YN
Sbjct: 377 EQVENLSFAHN----KLKYIPNIFDAKSVSVMSAIDFSYN 412

>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 = 61.6 bits (150), Expect = 4e-11
 Identities = 24/198 (12%), Positives = 51/198 (25%), Gaps = 29/198 (14%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDL----LNGTAIEELPSAIECLYKLLHL 75
           +N  +  L+L    +   +P  I  L  L+ L L             P  I         
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQK 138

Query: 76  DLEYCESLNSLPSGLCKLKLLN--YLTLNCCSNLQRLPDELGNLEAL-WISREAGVISRW 132
                    +      +    +     +N     + +            I + +  I+  
Sbjct: 139 QKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITF- 197

Query: 133 LPENIGQLSSLGKLDLQKNNF--------------------ERIPESVIQLSKLGRLYLR 172
           + + + +L+ L +  +  + F                    +        L  L  + + 
Sbjct: 198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVY 257

Query: 173 YWERLQSLPKLPCKLHEL 190
               L  LP     L E+
Sbjct: 258 NCPNLTKLPTFLKALPEM 275

>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 = 56.6 bits (137), Expect = 2e-09
 Identities = 32/234 (13%), Positives = 71/234 (30%), Gaps = 43/234 (18%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIH---LEFLKELDL-------LNGTAIEELPSAIECL 69
                +  L+    K LK +P       +  +  +D        ++G   + L       
Sbjct: 374 GFTEQVENLSFAHNK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKG 432

Query: 70  YKLLHLDLEYCESLNSLPSGLC-KLKLLNYLTLNCCS-------NLQRLPDELGN---LE 118
             +  ++L     ++  P  L      L+ + L           +L+   +   N   L 
Sbjct: 433 INVSSINLSNN-QISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLT 491

Query: 119 ALWISREAGVISRWLPENI--GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER 176
           ++ +      +++ L ++     L  L  +DL  N+F + P   +  S L    +R    
Sbjct: 492 SIDLRFNK--LTK-LSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRD 548

Query: 177 L----------QSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYN 220
                      + +   P  L +L          +  +           D++ N
Sbjct: 549 AQGNRTLREWPEGITLCP-SLTQLQIGSN----DIRKVNEKITPNISVLDIKDN 597

>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 = 47.0 bits (112), Expect = 3e-06
 Identities = 22/147 (14%), Positives = 45/147 (30%), Gaps = 15/147 (10%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI---HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDL 77
           N   +  ++LR  K L  L        L +L  +DL +  +  + P+       L    +
Sbjct: 486 NTYLLTSIDLRFNK-LTKLSDDFRATTLPYLVGIDL-SYNSFSKFPTQPLNSSTLKGFGI 543

Query: 78  EYCESLN------SLPSGLCKLKLLNYLTLNCCSNLQRLPDE-LGNLEALWISREAGVIS 130
                          P G+     L  L +    +++++ ++   N+  L I        
Sbjct: 544 RNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN-DIRKVNEKITPNISVLDIKDNP--NI 600

Query: 131 RWLPENIGQLSSLGKLDLQKNNFERIP 157
                 +      G   L  +  + I 
Sbjct: 601 SIDLSYVCPYIEAGMYMLFYDKTQDIR 627

>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 = 61.9 bits (151), Expect = 2e-11
 Identities = 36/184 (19%), Positives = 62/184 (33%), Gaps = 33/184 (17%)

Query: 40  PAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYL 99
           P  +   FL+E  L + + + E+P   E +         + E   + P G  + + +   
Sbjct: 5   PRNVSNTFLQEP-LRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVS 63

Query: 100 TLNCCS------------NLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLD 147
            L  C              L  LP+   +LE+L  S  +  ++  LPE    L SL   +
Sbjct: 64  RLRDCLDRQAHELELNNLGLSSLPELPPHLESLVASCNS--LTE-LPELPQSLKSLLVDN 120

Query: 148 LQKNNFERIPES----------------VIQLSKLGRLYLRYWERLQSLPKLPCKLHELD 191
                   +P                  +   S L  + +     L+ LP LP  L  + 
Sbjct: 121 NNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDN-NSLKKLPDLPPSLEFIA 179

Query: 192 AHHC 195
           A + 
Sbjct: 180 AGNN 183

>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 = 56.9 bits (138), Expect = 1e-09
 Identities = 48/232 (20%), Positives = 78/232 (33%), Gaps = 45/232 (19%)

Query: 10  LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECL 69
            E+         +     L L +   L SLP       L+ L   +  ++ ELP   + L
Sbjct: 58  REMAVSRLRDCLDRQAHELELNNLG-LSSLPELP--PHLESLVA-SCNSLTELPELPQSL 113

Query: 70  YKLLHLDLEYCESLNSLPSGLCKL--------------KLLNYLTLNCCSN-LQRLPDEL 114
             LL  +      L+ LP  L  L                     ++  +N L++LPD  
Sbjct: 114 KSLLVDNNNLKA-LSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLP 172

Query: 115 GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQL----------- 163
            +LE +        +   LPE +  L  L  +    N+ +++P+  + L           
Sbjct: 173 PSLEFIAAGNNQ--LEE-LPE-LQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE 228

Query: 164 --------SKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSS 207
                     L  +Y      L++LP LP  L  L+      L  L  L  S
Sbjct: 229 ELPELQNLPFLTTIYADN-NLLKTLPDLPPSLEALNVRDN-YLTDLPELPQS 278

>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 = 56.2 bits (136), Expect = 2e-09
 Identities = 42/187 (22%), Positives = 68/187 (36%), Gaps = 29/187 (15%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           N P +  +   +   LK+LP       L+ L++ +   + +LP   + L  L   +  + 
Sbjct: 235 NLPFLTTIYADNNL-LKTLPDLPPS--LEALNVRD-NYLTDLPELPQSLTFLDVSENIF- 289

Query: 81  ESLNSLPSGLCKLKLL-NYLT-----------LNCCSN-LQRLPDELGNLEALWISREAG 127
             L+ LP  L  L    N +            LN  +N L  LP     LE L  S    
Sbjct: 290 SGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIASFNH- 348

Query: 128 VISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKL 187
            ++  +PE    L  L    ++ N     P+    +       LR    L  +P+LP  L
Sbjct: 349 -LAE-VPELPQNLKQL---HVEYNPLREFPDIPESVED-----LRMNSHLAEVPELPQNL 398

Query: 188 HELDAHH 194
            +L    
Sbjct: 399 KQLHVET 405

>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 = 46.5 bits (111), Expect = 3e-06
 Identities = 31/151 (20%), Positives = 50/151 (33%), Gaps = 20/151 (13%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
           P +  LN+ + K L  LPA      L+ L       + E+P   +    L  L +EY   
Sbjct: 317 PSLEELNVSNNK-LIELPALPPR--LERLIASF-NHLAEVPELPQ---NLKQLHVEYNP- 368

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSS 142
           L   P     ++      L   S+L  +P+   NL+ L +        R  P+    +  
Sbjct: 369 LREFPDIPESVE-----DLRMNSHLAEVPELPQNLKQLHVETNP---LREFPDIPESVED 420

Query: 143 LGKLDLQKNNFERIPESVIQ-LSKLGRLYLR 172
           L    +         E   +   KL      
Sbjct: 421 L---RMNSERVVDPYEFAHETTDKLEDDVFE 448

>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 = 60.4 bits (147), Expect = 3e-11
 Identities = 40/202 (19%), Positives = 75/202 (37%), Gaps = 22/202 (10%)

Query: 23  PHIVVLNLRDCKSLKSLPAG--IHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEY 79
           P    L L +   L+++P+    +L  +  + +     +++L S +   L K+ H+++  
Sbjct: 31  PSTQTLKLIETH-LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRN 89

Query: 80  CESLNSLPSGLCK-LKLLNYLTLNCCSNLQRLPDE-----LGNLEALWISREAGVISRWL 133
             +L  +     K L LL +L +     L+  PD            L I+    + S  +
Sbjct: 90  TRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEITDNPYMTS--I 146

Query: 134 PENI--GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP-----KLPCK 186
           P N   G  +    L L  N F  +       +KL  +YL   + L  +       +   
Sbjct: 147 PVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSG 206

Query: 187 LHELDAHHCTALESL-SGLFSS 207
              LD    T++ +L S     
Sbjct: 207 PSLLDVSQ-TSVTALPSKGLEH 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 = 61.3 bits (149), Expect = 4e-11
 Identities = 51/204 (25%), Positives = 84/204 (41%), Gaps = 25/204 (12%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD 76
           ++  H+ VL L     ++ +  G    L  L  L+L     +  +PS A E L KL  L 
Sbjct: 96  RHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLEL-FDNWLTVIPSGAFEYLSKLRELW 153

Query: 77  LEYCESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISR 131
           L     + S+PS    ++  L  L L     L+ + +     L NL+ L +      I  
Sbjct: 154 LRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN--IKD 210

Query: 132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPK-----LPC 185
            +P  +  L  L +L++  N+F  I       LS L +L++    ++  + +     L  
Sbjct: 211 -MPN-LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMN-SQVSLIERNAFDGLA- 266

Query: 186 KLHELDAHHCTALESLS-GLFSSF 208
            L EL+  H   L SL   LF+  
Sbjct: 267 SLVELNLAHN-NLSSLPHDLFTPL 289

>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 = 59.6 bits (145), Expect = 1e-10
 Identities = 45/217 (20%), Positives = 80/217 (36%), Gaps = 23/217 (10%)

Query: 20  QNNPHIVVLNLRDCK-SLKSLPAG--IHLEFLKELDLLNGTAIEELPSAIECLYKLLHLD 76
                +  L+L     S K   +        LK LDL +   +  + S    L +L HLD
Sbjct: 49  DKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLD 107

Query: 77  LEYCESLNSLPSG--LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVIS 130
            ++  +L  +        L+ L YL ++   + +   +     L +LE L ++       
Sbjct: 108 FQHS-NLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAG-NSFQE 164

Query: 131 RWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPK-----LP 184
            +LP+   +L +L  LDL +   E++  +    LS L  L + +     SL       L 
Sbjct: 165 NFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH-NNFFSLDTFPYKCLN 223

Query: 185 CKLHELDAHHCTALESLS-GLFSSFEARTRYFDLRYN 220
             L  LD      + +        F +   + +L  N
Sbjct: 224 -SLQVLDYSLN-HIMTSKKQELQHFPSSLAFLNLTQN 258

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 59.2 bits (143), Expect = 2e-10
 Identities = 47/225 (20%), Positives = 71/225 (31%), Gaps = 38/225 (16%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIH-----LEFLKELDLLNGTAIEELPSAIECLYKLLH 74
            NN   +  N     ++    A         E           A+  L   +  + +   
Sbjct: 7   INNNFSLSQNSFYN-TISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECL--INQFSE 63

Query: 75  LDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLP 134
           L L    +L+SLP  L     +  L +     L  LP+   +LE L        +S  LP
Sbjct: 64  LQLNRL-NLSSLPDNLPPQ--ITVLEITQN-ALISLPELPASLEYLDACDNR--LST-LP 116

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQLSKLG-----------------RLYLRYWERL 177
           E    L     LD+  N    +PE    L  +                   L +R   +L
Sbjct: 117 ELPASLK---HLDVDNNQLTMLPELPALLEYINADNNQLTMLPELPTSLEVLSVRN-NQL 172

Query: 178 QSLPKLPCKLHELDAHHC--TALESLSGLFSSFEARTRYFDLRYN 220
             LP+LP  L  LD       +L ++       E    +F  R N
Sbjct: 173 TFLPELPESLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCREN 217

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 56.9 bits (137), Expect = 1e-09
 Identities = 32/180 (17%), Positives = 53/180 (29%), Gaps = 18/180 (10%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             +  L++ + + L  LP    L  L+ ++  +   +  LP        L  L +   + 
Sbjct: 120 ASLKHLDVDNNQ-LTMLPELPAL--LEYINA-DNNQLTMLPELPT---SLEVLSVRNNQ- 171

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSN-LQRLPDELGNLEALWISREAGVIS----RWLPENI 137
           L  LP     L+      L+  +N L+ LP           +             +PENI
Sbjct: 172 LTFLPELPESLE-----ALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENI 226

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTA 197
             L     + L+ N         +        Y                LH   A   TA
Sbjct: 227 LSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNTLHRPLADAVTA 286

>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 = 3e-10
 Identities = 47/206 (22%), Positives = 82/206 (39%), Gaps = 25/206 (12%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD 76
           ++  H+ +L L     ++++  G    L  L  L+L     +  +P+ A   L KL  L 
Sbjct: 85  KHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLEL-FDNRLTTIPNGAFVYLSKLKELW 142

Query: 77  LEYCESLNSLPSGL-CKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISR 131
           L     + S+PS    ++  L  L L     L  + +     L NL  L ++     +  
Sbjct: 143 LRNN-PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN--LRE 199

Query: 132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPK-----LPC 185
            +P  +  L  L +LDL  N+   I     Q L  L +L++    ++Q + +     L  
Sbjct: 200 -IPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQ-SQIQVIERNAFDNLQ- 255

Query: 186 KLHELDAHHCTALESLS-GLFSSFEA 210
            L E++  H   L  L   LF+    
Sbjct: 256 SLVEINLAHN-NLTLLPHDLFTPLHH 280

>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 = 56.9 bits (138), Expect = 8e-10
 Identities = 50/173 (28%), Positives = 72/173 (41%), Gaps = 17/173 (9%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD 76
           +   ++ +L L     L  + A     L  L++LDL +   +  +       L +L  L 
Sbjct: 53  RACRNLTILWLHSNV-LARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLH 111

Query: 77  LEYCESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISR 131
           L+ C  L  L  G    L  L YL L     LQ LPD+    LGNL  L++      IS 
Sbjct: 112 LDRC-GLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNR--IS- 166

Query: 132 WLPENI-GQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPK 182
            +PE     L SL +L L +N    +     + L +L  LYL     L +LP 
Sbjct: 167 SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA-NNLSALPT 218

>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 = 56.5 bits (137), Expect = 9e-10
 Identities = 44/179 (24%), Positives = 65/179 (36%), Gaps = 28/179 (15%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAI-ECLYKLLHLD 76
            + P + VL+L  C+ ++++  G    L  L  L L  G  I+ L       L  L  L 
Sbjct: 49  FSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLIL-TGNPIQSLALGAFSGLSSLQKLV 106

Query: 77  LEYCESLNSLPSGL-CKLKLLNYLTLNCCSN-LQRLP-----DELGNLEALWISR----- 124
                 L SL +     LK L  L +    N +Q          L NLE L +S      
Sbjct: 107 AVETN-LASLENFPIGHLKTLKELNVA--HNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163

Query: 125 -EAGVISRWLPENIGQLSSLG-KLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP 181
                +       + Q+  L   LDL  N    I     +  +L  L L    +L+S+P
Sbjct: 164 IYCTDLR-----VLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDT-NQLKSVP 216

>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 = 50.0 bits (120), Expect = 2e-07
 Identities = 40/183 (21%), Positives = 67/183 (36%), Gaps = 29/183 (15%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPS 88
            C   +   +P  +     K LD L+   +  L S +     +L  LDL  CE + ++  
Sbjct: 13  QCMELNFYKIPDNL-PFSTKNLD-LSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIED 69

Query: 89  GLC-KLKLLNYLTLNCCSN-LQRLP----DELGNLEALWISREAGVISRWLPENI-GQLS 141
           G    L  L+ L L    N +Q L       L +L+ L        ++  L     G L 
Sbjct: 70  GAYQSLSHLSTLILT--GNPIQSLALGAFSGLSSLQKLVAVETN--LAS-LENFPIGHLK 124

Query: 142 SLGKLDLQKNNFERIPESVI--QLSKLGRLYLRYWERLQSLP--------KLPCKLHELD 191
           +L +L++  N  +          L+ L  L L    ++QS+         ++P     LD
Sbjct: 125 TLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL-SSNKIQSIYCTDLRVLHQMPLLNLSLD 183

Query: 192 AHH 194
              
Sbjct: 184 LSL 186

>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 = 56.6 bits (137), Expect = 1e-09
 Identities = 37/172 (21%), Positives = 66/172 (38%), Gaps = 16/172 (9%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD 76
                +  L L  C  L S+P     HL  L  L L     I  +   + + LY+L  L+
Sbjct: 149 SGLNSLEQLTLEKCN-LTSIPTEALSHLHGLIVLRL-RHLNINAIRDYSFKRLYRLKVLE 206

Query: 77  LEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRW 132
           + +   L+++         L  L++  C NL  +P      L  L  L +S     IS  
Sbjct: 207 ISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYNP--IS-T 262

Query: 133 LPENI-GQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPK 182
           +  ++  +L  L ++ L       +     + L+ L  L +    +L +L +
Sbjct: 263 IEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSG-NQLTTLEE 313

>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 Length = 251

 Score = 55.5 bits (134), Expect = 2e-09
 Identities = 52/166 (31%), Positives = 75/166 (45%), Gaps = 28/166 (16%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPS 88
           DC  KSL S+P+GI  +  ++LDL   T +  L       L KL  L+L+Y   L +L +
Sbjct: 20  DCQGKSLDSVPSGIPAD-TEKLDL-QSTGLATLSDATFRGLTKLTWLNLDY-NQLQTLSA 76

Query: 89  GLCKLKLLNYLTLNCCSN-LQRLP----DELGNLEALWISR------EAGVISRWLPENI 137
           G+    L    TL   +N L  LP    D L  L+ L++         +GV  R      
Sbjct: 77  GVFD-DLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDR------ 129

Query: 138 GQLSSLGKLDLQKNNFERIPESVI-QLSKLGRLYLRYWERLQSLPK 182
             L+ L +L L  N  + IP     +L+ L  L L    +LQS+P 
Sbjct: 130 --LTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL-STNQLQSVPH 172

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.4 bits (134), Expect = 3e-09
 Identities = 24/159 (15%), Positives = 54/159 (33%), Gaps = 13/159 (8%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLE 78
              P I  L+  +   +  +      +  K + L     I  L      C  ++ +LDL+
Sbjct: 96  LVGPSIETLHAANNN-ISRVSCSR-GQGKKNIYL-ANNKITMLRDLDEGCRSRVQYLDLK 152

Query: 79  YCESLNSLPSG--LCKLKLLNYLTLNCCSNLQRLPDE--LGNLEALWISREAGVISRWLP 134
             E ++++           L +L L     +  +  +     L+ L +S     ++  + 
Sbjct: 153 LNE-IDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSNK--LAF-MG 207

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
                 + +  + L+ N    I +++     L    LR 
Sbjct: 208 PEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG 246

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 24/186 (12%), Positives = 53/186 (28%), Gaps = 28/186 (15%)

Query: 10  LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECL 69
           ++  +      ++  +  LNL+    +  +   +    LK LDL +   +  +    +  
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNF-IYDVKGQVVFAKLKTLDL-SSNKLAFMGPEFQSA 213

Query: 70  YKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVI 129
             +  + L     L  +   L   + L +  L    N        G L   +        
Sbjct: 214 AGVTWISLRNN-KLVLIEKALRFSQNLEHFDLR--GN----GFHCGTLRDFF-------- 258

Query: 130 SRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPC-KLH 188
                       +     + K   +++     +   +  L        + LP     +L 
Sbjct: 259 ----------SKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLI 308

Query: 189 ELDAHH 194
            L  HH
Sbjct: 309 ALGHHH 314

>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 = 55.4 bits (134), Expect = 4e-09
 Identities = 39/170 (22%), Positives = 67/170 (39%), Gaps = 18/170 (10%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLD 76
               H+ VL+L   +  + L       LE + E+ L +     +L  ++   +  L  L 
Sbjct: 402 SWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYL-SYNKYLQLTRNSFALVPSLQRLM 460

Query: 77  LEYC--ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISR------ 124
           L     ++++S PS    L+ L  L L+   N+  + D+    L  LE L +        
Sbjct: 461 LRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLEKLEILDLQHNNLARL 519

Query: 125 EAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRY 173
                       +  LS L  L+L+ N F+ IP  V + L +L  + L  
Sbjct: 520 WKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGL 569

>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 = 48.8 bits (117), Expect = 6e-07
 Identities = 40/162 (24%), Positives = 63/162 (38%), Gaps = 17/162 (10%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEY 79
            +I VLNL   + L+ LPA        L  LD+     I +L P   + L  L  L+L++
Sbjct: 25  TNITVLNLTHNQ-LRRLPAANFTRYSQLTSLDV-GFNTISKLEPELCQKLPMLKVLNLQH 82

Query: 80  CESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLP 134
              L+ L          L  L L    ++Q++ +       NL  L +S     +S    
Sbjct: 83  N-ELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHNG--LSSTKL 138

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVI---QLSKLGRLYLRY 173
               QL +L +L L  N  + +    +     S L +L L  
Sbjct: 139 GTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSS 180

>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 = 47.7 bits (114), Expect = 1e-06
 Identities = 31/162 (19%), Positives = 55/162 (33%), Gaps = 22/162 (13%)

Query: 18  FKQNNPHIVVLNLRDCKSLKSLP----AGIHLEFLKELDLLNGTAIEEL-PSAIECLYKL 72
            +  N  I  L+L +   L +       G+    L  LDL +   +  +   +   L +L
Sbjct: 217 LELANTSIRNLSLSNS-QLSTTSNTTFLGLKWTNLTMLDL-SYNNLNVVGNDSFAWLPQL 274

Query: 73  LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRW 132
            +  LEY    +     L  L  + YL L    +  +    L +L  +            
Sbjct: 275 EYFFLEYNNIQHLFSHSLHGLFNVRYLNLK--RSFTKQSISLASLPKI------------ 320

Query: 133 LPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRY 173
              +   L  L  L+++ N+   I  ++   L  L  L L  
Sbjct: 321 DDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSN 362

>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 = 55.0 bits (133), Expect = 6e-09
 Identities = 35/160 (21%), Positives = 57/160 (35%), Gaps = 11/160 (6%)

Query: 22  NPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
              +  +NL+      ++ +        L+ELDL   T + ELPS +  L  L  L L  
Sbjct: 253 EMSVESINLQKHY-FFNISSNTFHCFSGLQELDL-TATHLSELPSGLVGLSTLKKLVLSA 310

Query: 80  CESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLP 134
                +L          L +L++   +    L       L NL  L +S +    S    
Sbjct: 311 N-KFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCN 369

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRY 173
             +  LS L  L+L  N    +     +   +L  L L +
Sbjct: 370 LQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAF 409

>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 = 51.9 bits (125), Expect = 5e-08
 Identities = 29/162 (17%), Positives = 54/162 (33%), Gaps = 9/162 (5%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDL-LNGTAIEELPSAIECLYKLLHLD 76
                + VL+ ++   +  L       L+    L L LNG  I  +            L+
Sbjct: 150 FPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLN 208

Query: 77  LEYCESLNSLPSGLC-----KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISR 131
               ++L  +  GL       L L  +  ++       + + L  +    I+ +      
Sbjct: 209 FGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFN 268

Query: 132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
                    S L +LDL   +   +P  ++ LS L +L L  
Sbjct: 269 ISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSA 310

>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 = 46.5 bits (111), Expect = 3e-06
 Identities = 30/185 (16%), Positives = 55/185 (29%), Gaps = 23/185 (12%)

Query: 27  VLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCESLNS 85
             N  +   L  +P  +     + L+  +   +  +  +    L  L  LDL  C+    
Sbjct: 16  TYNCENL-GLNEIPGTL-PNSTECLEF-SFNVLPTIQNTTFSRLINLTFLDLTRCQIYWI 72

Query: 86  LPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPENIGQLS 141
                     L+ L L     L  + +        L+ L+  +    IS      +    
Sbjct: 73  HEDTFQSQHRLDTLVLTANP-LIFMAETALSGPKALKHLFFIQTG--ISSIDFIPLHNQK 129

Query: 142 SLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALES 200
           +L  L L  N+   I         KL  L  +              +H L     ++L+ 
Sbjct: 130 TLESLYLGSNHISSIKLPKGFPTEKLKVLDFQN-----------NAIHYLSKEDMSSLQQ 178

Query: 201 LSGLF 205
            + L 
Sbjct: 179 ATNLS 183

>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 = 42.7 bits (101), Expect = 6e-05
 Identities = 38/169 (22%), Positives = 58/169 (34%), Gaps = 24/169 (14%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL--PSAIECLYKLLHL 75
           +N  H+  LNL   +   SL          L+ LDL   T ++     S  + L+ L  L
Sbjct: 373 RNLSHLQSLNLSYNE-PLSLKTEAFKECPQLELLDL-AFTRLKVKDAQSPFQNLHLLKVL 430

Query: 76  DLEYCESLNSLP----SGLCKLKLLN-------YLTLNCCSNLQRLPDELGNLEALWISR 124
           +L +   L+        GL  L+ LN          +   ++LQ L      LE L +S 
Sbjct: 431 NLSHS-LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLG----RLEILVLSF 485

Query: 125 EAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
               +S         L  +  +DL  N         +   K   L L  
Sbjct: 486 CD--LSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLAS 532

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

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 31/144 (21%), Positives = 65/144 (45%), Gaps = 14/144 (9%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLN---GTAIEELPSAIECLYKLLH 74
           QN   + VLNL     L      +   L  L+ L+L          +  ++++ L +L  
Sbjct: 422 QNLHLLKVLNLSHSL-LDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEI 480

Query: 75  LDLEYCESLNSLP----SGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVIS 130
           L L +C  L+S+     + L  +  ++ L+ N  ++     + L +L+ ++++  +  IS
Sbjct: 481 LVLSFC-DLSSIDQHAFTSLKMMNHVD-LSHNRLTSSS--IEALSHLKGIYLNLASNHIS 536

Query: 131 RWLPENIGQLSSLGKLDLQKNNFE 154
             LP  +  LS    ++L++N  +
Sbjct: 537 IILPSLLPILSQQRTINLRQNPLD 560

>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 = 54.4 bits (131), Expect = 6e-09
 Identities = 29/167 (17%), Positives = 53/167 (31%), Gaps = 28/167 (16%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD 76
                +  + +     L+ + A +  +L  L E+ +     +  +   A + L  L +L 
Sbjct: 51  SGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL 110

Query: 77  LEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPEN 136
           +     +  LP     +  L  + L+   N+                     I   +  N
Sbjct: 111 ISNTG-IKHLPDVHK-IHSLQKVLLDIQDNIN--------------------IHT-IERN 147

Query: 137 I--GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP 181
              G       L L KN  + I  S    ++L  L L     L+ LP
Sbjct: 148 SFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELP 194

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 54.5 bits (132), Expect = 6e-09
 Identities = 36/184 (19%), Positives = 62/184 (33%), Gaps = 43/184 (23%)

Query: 23  PHIVVLNLRDCKSLK-SLPAGI-HLEFLKELDL----LNGTAIEELPSAIECLYKLLHLD 76
           P++  L +    +L   +P  I  L  L  L +    ++G     +P  +  +  L+ LD
Sbjct: 76  PYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSG----AIPDFLSQIKTLVTLD 131

Query: 77  LEYCESLN-SLPSGLCKLKLLNYLTLNC-------------CSNLQR------------L 110
             Y  +L+ +LP  +  L  L  +T +               S L              +
Sbjct: 132 FSYN-ALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKI 190

Query: 111 PDELGN--LEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLG 167
           P    N  L  + +SR    +        G   +  K+ L KN+    +   V     L 
Sbjct: 191 PPTFANLNLAFVDLSRNM--LEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLN 247

Query: 168 RLYL 171
            L L
Sbjct: 248 GLDL 251

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 53.3 bits (129), Expect = 2e-08
 Identities = 30/121 (24%), Positives = 49/121 (40%), Gaps = 13/121 (10%)

Query: 62  LPSAIECLYKLLHLDLEYCE--SLNSLPSGLCKLKLLNYLTLNCCSNLQ-RLPDELGN-- 116
           L       Y++ +LDL          +PS L  L  LN+L +   +NL   +P  +    
Sbjct: 42  LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLT 101

Query: 117 -LEALWIS--REAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLR 172
            L  L+I+    +G I    P+ + Q+ +L  LD   N     +P S+  L  L  +   
Sbjct: 102 QLHYLYITHTNVSGAI----PDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFD 157

Query: 173 Y 173
            
Sbjct: 158 G 158

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 53.9 bits (130), Expect = 7e-09
 Identities = 48/163 (29%), Positives = 77/163 (47%), Gaps = 25/163 (15%)

Query: 32  DCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLC 91
           +   +KS+    +L  ++ L L  G  + ++  A++ L  L +L L     L SLP+G+ 
Sbjct: 49  NNSDIKSVQGIQYLPNVRYLAL-GGNKLHDIS-ALKELTNLTYLILTG-NQLQSLPNGVF 105

Query: 92  KLKLLNYLTLNCCSN-LQRLP----DELGNLEALWISR------EAGVISRWLPENIGQL 140
             KL N   L    N LQ LP    D+L NL  L ++         GV  +        L
Sbjct: 106 D-KLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDK--------L 156

Query: 141 SSLGKLDLQKNNFERIPESVI-QLSKLGRLYLRYWERLQSLPK 182
           ++L +LDL  N  + +PE V  +L++L  L L    +L+S+P 
Sbjct: 157 TNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ-NQLKSVPD 198

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 49.6 bits (119), Expect = 2e-07
 Identities = 36/157 (22%), Positives = 67/157 (42%), Gaps = 18/157 (11%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG 89
                  +  P     E   + + L   ++ +  +  E L  +  +     + + S+  G
Sbjct: 4   TVSTPIKQIFPDDAFAE-TIKAN-LKKKSVTDAVTQNE-LNSIDQIIANNSD-IKSVQ-G 58

Query: 90  LCKLKLLNYLTLNCCSN-LQRLP--DELGNLEALWISREAGVISRWLPENI-GQLSSLGK 145
           +  L  + YL L    N L  +    EL NL  L ++       + LP  +  +L++L +
Sbjct: 59  IQYLPNVRYLALG--GNKLHDISALKELTNLTYLILTGNQ---LQSLPNGVFDKLTNLKE 113

Query: 146 LDLQKNNFERIPESVI-QLSKLGRLYLRYWERLQSLP 181
           L L +N  + +P+ V  +L+ L  L L +  +LQSLP
Sbjct: 114 LVLVENQLQSLPDGVFDKLTNLTYLNLAH-NQLQSLP 149

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 53.4 bits (129), Expect = 1e-08
 Identities = 52/155 (33%), Positives = 70/155 (45%), Gaps = 32/155 (20%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPS 88
           DC  K L ++P+ I  +  K+LDL     +  LPS A   L KL  L L   + L +LP+
Sbjct: 22  DCSSKKLTAIPSNIPAD-TKKLDL-QSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPA 78

Query: 89  GLC-KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLD 147
           G+  +LK L  L +     LQ LP               GV          QL +L +L 
Sbjct: 79  GIFKELKNLETLWVTDNK-LQALP--------------IGVFD--------QLVNLAELR 115

Query: 148 LQKNNFERIPESV-IQLSKLGRLYLRYWERLQSLP 181
           L +N  + +P  V   L+KL  L L Y   LQSLP
Sbjct: 116 LDRNQLKSLPPRVFDSLTKLTYLSLGY-NELQSLP 149

>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 = 53.3 bits (129), Expect = 1e-08
 Identities = 41/190 (21%), Positives = 73/190 (38%), Gaps = 17/190 (8%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           N   +  L +   K +  + A  +L  L+EL L N   I ++   +  L K+  L+L   
Sbjct: 86  NLVKLTNLYIGTNK-ITDISALQNLTNLRELYL-NEDNISDIS-PLANLTKMYSLNLGAN 142

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIG 138
               S  S L  +  LNYLT+     ++ +     L +L +L ++     I       + 
Sbjct: 143 H-NLSDLSPLSNMTGLNYLTVTES-KVKDVTPIANLTDLYSLSLNYNQ--IEDI--SPLA 196

Query: 139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHC- 195
            L+SL       N    I   V  +++L  L +       L  L  L  +L  L+     
Sbjct: 197 SLTSLHYFTAYVNQITDIT-PVANMTRLNSLKIGNNKITDLSPLANLS-QLTWLEIGTNQ 254

Query: 196 -TALESLSGL 204
            + + ++  L
Sbjct: 255 ISDINAVKDL 264

>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 = 49.8 bits (120), Expect = 2e-07
 Identities = 32/190 (16%), Positives = 71/190 (37%), Gaps = 17/190 (8%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           +    +   L+    +  +     LE + +L +  G  +  +   IE L  L +L+L   
Sbjct: 20  DLAEGIRAVLQKAS-VTDVVTQEELESITKLVV-AGEKVASIQ-GIEYLTNLEYLNLNGN 76

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIG 138
           + +  +   L  L  L  L +     +  +     L NL  L+++ +   IS      + 
Sbjct: 77  Q-ITDISP-LSNLVKLTNLYIGTN-KITDISALQNLTNLRELYLNEDN--ISD--ISPLA 129

Query: 139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHC- 195
            L+ +  L+L  N+       +  ++ L  L +     + +  +  L   L+ L  ++  
Sbjct: 130 NLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLT-DLYSLSLNYNQ 188

Query: 196 -TALESLSGL 204
              +  L+ L
Sbjct: 189 IEDISPLASL 198

>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 = 44.8 bits (107), Expect = 1e-05
 Identities = 27/156 (17%), Positives = 60/156 (38%), Gaps = 11/156 (7%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
            +   +        + +  +    ++  L  L +     I +L   +  L +L  L++  
Sbjct: 196 ASLTSLHYFTAYVNQ-ITDITPVANMTRLNSLKI-GNNKITDLS-PLANLSQLTWLEIGT 252

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCC--SNLQRLPDELGNLEALWISREAGVISRWLPENI 137
            + ++ +   +  L  L  L +     S++  L + L  L +L+++     +     E I
Sbjct: 253 NQ-ISDIN-AVKDLTKLKMLNVGSNQISDISVL-NNLSQLNSLFLNNNQ--LGNEDMEVI 307

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
           G L++L  L L +N+   I   +  LSK+       
Sbjct: 308 GGLTNLTTLFLSQNHITDIRP-LASLSKMDSADFAN 342

>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 = 53.2 bits (128), Expect = 2e-08
 Identities = 40/180 (22%), Positives = 76/180 (42%), Gaps = 16/180 (8%)

Query: 12  LFSLYAFKQNNPHIVVLNLRDCK-SLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIEC 68
             + ++   + P +  L+L     S K   +        LK LDL +   +  + S    
Sbjct: 337 GGNAFSE-VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLG 394

Query: 69  LYKLLHLDLEYCESLNSLPSG--LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWI 122
           L +L HLD ++  +L  +        L+ L YL ++   + +   +     L +LE L +
Sbjct: 395 LEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKM 452

Query: 123 SREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLP 181
           +        +LP+   +L +L  LDL +   E++  +    LS L  L +    +L+S+P
Sbjct: 453 AGN-SFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS-NQLKSVP 510

>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 = 50.5 bits (121), Expect = 2e-07
 Identities = 48/220 (21%), Positives = 74/220 (33%), Gaps = 31/220 (14%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEY 79
                L+L     L+ L +        L+ LDL +   I+ +   A + L  L  L L  
Sbjct: 28  FSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDL-SRCEIQTIEDGAYQSLSHLSTLILTG 85

Query: 80  CESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLP 134
              + SL  G    L  L  L      NL  L +     L  L+ L ++    + S  LP
Sbjct: 86  N-PIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH-NLIQSFKLP 142

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHH 194
           E    L++L  LDL  N  + I  +                 L+ L ++P     LD   
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQSIYCTD----------------LRVLHQMPLLNLSLDLSL 186

Query: 195 CTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKM 234
                   G F     R     LR N++ + +       +
Sbjct: 187 NPMNFIQPGAFKEI--RLHKLTLRNNFDSLNVMKTCIQGL 224

>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} Length = 229

 Score = 52.0 bits (125), Expect = 3e-08
 Identities = 38/160 (23%), Positives = 57/160 (35%), Gaps = 41/160 (25%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPS 88
           DC  K   S+PAGI     + L L +   I +L     + L  L  L L   + L +LP 
Sbjct: 25  DCRSKRHASVPAGIPTN-AQILYL-HDNQITKLEPGVFDSLINLKELYLGSNQ-LGALPV 81

Query: 89  GLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISR------EAGVISRWLPENIGQLSS 142
           G+                     D L  L  L +         + V  R        L  
Sbjct: 82  GV--------------------FDSLTQLTVLDLGTNQLTVLPSAVFDR--------LVH 113

Query: 143 LGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK 182
           L +L +  N    +P  + +L+ L  L L    +L+S+P 
Sbjct: 114 LKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPH 152

>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 = 52.2 bits (125), Expect = 5e-08
 Identities = 34/223 (15%), Positives = 72/223 (32%), Gaps = 18/223 (8%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLE 78
              P I  L+  +   +  +      +  K + L     I  L      C  ++ +LDL+
Sbjct: 96  LVGPSIETLHAANNN-ISRVSCSR-GQGKKNIYL-ANNKITMLRDLDEGCRSRVQYLDLK 152

Query: 79  YCESLNSLPSG--LCKLKLLNYLTLNCCSNLQRLPDE--LGNLEALWISREAGVISRWLP 134
             E ++++           L +L L     +  +  +     L+ L +S     ++ ++ 
Sbjct: 153 LNE-IDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSNK--LA-FMG 207

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDA 192
                 + +  + L+ N    I +++     L    LR   +    +L     K   +  
Sbjct: 208 PEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCG-TLRDFFSKNQRVQT 266

Query: 193 HHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKML 235
                ++ L+G   + E  T      Y     E     F   L
Sbjct: 267 VAKQTVKKLTGQ--NEEECTVPTLGHYGAYCCEDLPAPFADRL 307

>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 = 41.0 bits (96), Expect = 2e-04
 Identities = 26/159 (16%), Positives = 53/159 (33%), Gaps = 7/159 (4%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLL-NGTAIEELPSAIECLYKLLHLDL 77
           Q+   +  ++LR+ K L  +   +   + L+  DL  NG     L        ++  +  
Sbjct: 211 QSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK 269

Query: 78  EYCESLNSLPSGLCKLKLLNYLTLNCCSNLQR-LPDELGNL--EALWISREAGVISRWLP 134
           +  + L       C +  L +    CC +L     D L  L  +   +    G  +  L 
Sbjct: 270 QTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLE 329

Query: 135 ENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLR 172
                 +   ++D  K  +  + + V         L  +
Sbjct: 330 CERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQK 368

>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 = 52.0 bits (125), Expect = 5e-08
 Identities = 33/161 (20%), Positives = 66/161 (40%), Gaps = 15/161 (9%)

Query: 17  AFKQNNPHIVVLNLRDCKSLKSLPAGI----HLEFLKELDLLNGTAIEELPSAIECLYKL 72
           A K   P +  L L     L+S+         L+ L  LD+ +      +P + +   K+
Sbjct: 355 ACKGAWPSLQTLVLSQNH-LRSMQKTGEILLTLKNLTSLDI-SRNTFHPMPDSCQWPEKM 412

Query: 73  LHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRW 132
             L+L     +  + + +   + L  L ++   NL      L  L+ L+ISR    +   
Sbjct: 413 RFLNLSST-GIRVVKTCI--PQTLEVLDVSNN-NLDSFSLFLPRLQELYISRNK--LKT- 465

Query: 133 LPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLR 172
           LP+       L  + + +N  + +P+ +   L+ L +++L 
Sbjct: 466 LPDA-SLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLH 505

>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 = 46.6 bits (111), Expect = 3e-06
 Identities = 31/161 (19%), Positives = 61/161 (37%), Gaps = 10/161 (6%)

Query: 43  IHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCK-LKLLNYLTL 101
           +    ++ L +       +L +    L K+  + +E    +  +P    + LK L +L L
Sbjct: 283 VETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLVPCSFSQHLKSLEFLDL 341

Query: 102 --NCCSNLQRLP----DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFER 155
             N                 +L+ L +S+      +   E +  L +L  LD+ +N F  
Sbjct: 342 SENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHP 401

Query: 156 IPESVIQLSKLGRLYLRYWERLQSLPK-LPCKLHELDAHHC 195
           +P+S     K+  L L     ++ +   +P  L  LD  + 
Sbjct: 402 MPDSCQWPEKMRFLNLSS-TGIRVVKTCIPQTLEVLDVSNN 441

>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 = 46.3 bits (110), Expect = 4e-06
 Identities = 38/161 (23%), Positives = 58/161 (36%), Gaps = 15/161 (9%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEY 79
             +  L+L   K +  +  G       L+ L L   + I  +   A   L  L HLDL  
Sbjct: 26  AAMKSLDLSFNK-ITYIGHGDLRACANLQVLIL-KSSRINTIEGDAFYSLGSLEHLDLSD 83

Query: 80  CESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLP-----DELGNLEALWISREAGVISRWL 133
              L+SL S     L  L YL L      Q L        L NL+ L I       S   
Sbjct: 84  N-HLSSLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSLFPNLTNLQTLRIGNVET-FSEIR 140

Query: 134 PENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRY 173
             +   L+SL +L+++  +        ++ +  +  L L  
Sbjct: 141 RIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHL 181

>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 = 42.0 bits (99), Expect = 1e-04
 Identities = 32/137 (23%), Positives = 57/137 (41%), Gaps = 14/137 (10%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIH-LEFLKELDLLNGTAIEELPSAIECLYKLLHLDLE 78
               ++  L++        +P      E ++ L+L + T I  + + I     L  LD+ 
Sbjct: 384 LTLKNLTSLDISRNT-FHPMPDSCQWPEKMRFLNL-SSTGIRVVKTCI--PQTLEVLDVS 439

Query: 79  YCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE--LGNLEALWISREAGVISRWLPEN 136
              +L+S    L +L+ L Y++ N    L+ LPD      L  + ISR    +       
Sbjct: 440 NN-NLDSFSLFLPRLQEL-YISRN---KLKTLPDASLFPVLLVMKISRNQ--LKSVPDGI 492

Query: 137 IGQLSSLGKLDLQKNNF 153
             +L+SL K+ L  N +
Sbjct: 493 FDRLTSLQKIWLHTNPW 509

>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 = 51.8 bits (125), Expect = 8e-08
 Identities = 40/173 (23%), Positives = 62/173 (35%), Gaps = 31/173 (17%)

Query: 18  FKQNNPHIVVLNLRDCKSLKSLPAGI---HLEFLKELDL----LNGTAIEELPSAIECLY 70
               +  ++ L+L        +   +       L+EL L      G    ++P  +    
Sbjct: 363 LTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTG----KIPPTLSNCS 418

Query: 71  KLLHLDLEYCESLNSL----PSGLCKLKLLNYLTLNCCSNLQ-RLPDELGN---LEALWI 122
           +L+ L L    S N L    PS L  L  L  L L     L+  +P EL     LE L +
Sbjct: 419 ELVSLHL----SFNYLSGTIPSSLGSLSKLRDLKLWLN-MLEGEIPQELMYVKTLETLIL 473

Query: 123 S--REAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLR 172
                 G I    P  +   ++L  + L  N     IP+ + +L  L  L L 
Sbjct: 474 DFNDLTGEI----PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLS 522

>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 = 51.4 bits (124), Expect = 8e-08
 Identities = 45/253 (17%), Positives = 72/253 (28%), Gaps = 55/253 (21%)

Query: 11  ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDL----LNGTAIEELPSAI 66
                +        +  L +   K    +        L+ LD+     +      +P  +
Sbjct: 166 ANVVGWVLSDGCGELKHLAISGNKISGDVDVS-RCVNLEFLDVSSNNFSTG----IPF-L 219

Query: 67  ECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLN-----------CCSNLQRL----- 110
                L HLD+   +        +     L  L ++              +LQ L     
Sbjct: 220 GDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAEN 279

Query: 111 ------PDELG----NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPES 159
                 PD L      L  L +S         +P   G  S L  L L  NNF   +P  
Sbjct: 280 KFTGEIPDFLSGACDTLTGLDLSGNH--FYGAVPPFFGSCSLLESLALSSNNFSGELPMD 337

Query: 160 VI-QLSKLGRLYLRYWERLQ-----SLPKLPCKLHELDAHHCTALESLSG-----LFSSF 208
            + ++  L  L L +          SL  L   L  LD        + SG     L  + 
Sbjct: 338 TLLKMRGLKVLDLSF-NEFSGELPESLTNLSASLLTLDLSSN----NFSGPILPNLCQNP 392

Query: 209 EARTRYFDLRYNY 221
           +   +   L+ N 
Sbjct: 393 KNTLQELYLQNNG 405

>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 = 49.5 bits (119), Expect = 4e-07
 Identities = 32/163 (19%), Positives = 58/163 (35%), Gaps = 18/163 (11%)

Query: 21  NNPHIVVLNLRDCKSLKS--LPAGIHLEFLKELDL----LNGTAIEELPSAIECLYKLLH 74
           +   +  LN+          +  G+ L  L+ LDL    ++G  +       +   +L H
Sbjct: 124 SCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGW-VLSDGCGELKH 182

Query: 75  LDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQ-RLPD--ELGNLEALWISREAGVISR 131
           L +   +    +   + +   L +L ++   N    +P   +   L+ L IS     +S 
Sbjct: 183 LAISGNKISGDVD--VSRCVNLEFLDVSSN-NFSTGIPFLGDCSALQHLDISGNK--LSG 237

Query: 132 WLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLRY 173
                I   + L  L++  N F   IP     L  L  L L  
Sbjct: 238 DFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAE 278

>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 = 46.8 bits (112), Expect = 3e-06
 Identities = 27/141 (19%), Positives = 45/141 (31%), Gaps = 13/141 (9%)

Query: 38  SLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLL 96
           ++PA +         + + G     + +    + K  H      E        L +L   
Sbjct: 553 TIPAAMFKQSGKIAANFIAGKRYVYIKNDG--MKKECHGAGNLLEFQGIRSEQLNRLSTR 610

Query: 97  NYLTLNCCSNLQRLPDELGNLEALW---ISREA--GVISRWLPENIGQLSSLGKLDLQKN 151
           N   +              N  ++    +S     G I    P+ IG +  L  L+L  N
Sbjct: 611 NPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYI----PKEIGSMPYLFILNLGHN 666

Query: 152 NFE-RIPESVIQLSKLGRLYL 171
           +    IP+ V  L  L  L L
Sbjct: 667 DISGSIPDEVGDLRGLNILDL 687

>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 = 46.4 bits (111), Expect = 3e-06
 Identities = 39/166 (23%), Positives = 53/166 (31%), Gaps = 51/166 (30%)

Query: 48  LKELDL----LNGTAIEELPSAI-ECLYKLLHLDLEYCESLNSLPSGLCKLKL--LNYLT 100
           LK LDL     +G    ELP ++      LL LDL        +   LC+     L  L 
Sbjct: 345 LKVLDLSFNEFSG----ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY 400

Query: 101 LN------------C-CSNLQRL-----------PDELGNLEALWI--------SREAGV 128
           L               CS L  L           P  LG+L  L              G 
Sbjct: 401 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE---GE 457

Query: 129 ISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLRY 173
           I    P+ +  + +L  L L  N+    IP  +   + L  + L  
Sbjct: 458 I----PQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSN 499

>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 = 46.1 bits (110), Expect = 6e-06
 Identities = 46/171 (26%), Positives = 62/171 (36%), Gaps = 57/171 (33%)

Query: 38  SLPAGI-HLEFLKELDL----LNGTAIEELPSAIECLYKLLHLDLEYCESLNSL----PS 88
            +P  + +   L  L L    L+G     +PS++  L KL  L L     LN L    P 
Sbjct: 409 KIPPTLSNCSELVSLHLSFNYLSG----TIPSSLGSLSKLRDLKL----WLNMLEGEIPQ 460

Query: 89  GLCKLKLLNYLTLNC-------------CSNLQRL-----------PDELGNLEALWI-- 122
            L  +K L  L L+              C+NL  +           P  +G LE L I  
Sbjct: 461 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 520

Query: 123 ------SREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKL 166
                 S   G I    P  +G   SL  LDL  N F   IP ++ + S  
Sbjct: 521 LSNNSFS---GNI----PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGK 564

>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 = 45.7 bits (109), Expect = 8e-06
 Identities = 34/185 (18%), Positives = 55/185 (29%), Gaps = 35/185 (18%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIEC--LYKLLHLDLE 78
           +   +  L L +     S+        L  LDL   +    + +         L  L++ 
Sbjct: 75  SLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVS 134

Query: 79  YCESLNSLP-SGLCKLKLLNYLTL----------------NCCSNLQRL----------- 110
                     SG  KL  L  L L                + C  L+ L           
Sbjct: 135 SNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDV 194

Query: 111 -PDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGR 168
                 NLE L +S      S  +P  +G  S+L  LD+  N        ++   ++L  
Sbjct: 195 DVSRCVNLEFLDVSSNN--FSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKL 251

Query: 169 LYLRY 173
           L +  
Sbjct: 252 LNISS 256

>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 = 39.5 bits (93), Expect = 7e-04
 Identities = 28/134 (20%), Positives = 42/134 (31%), Gaps = 17/134 (12%)

Query: 48  LKELDL----LNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC 103
           +  +DL    LN      + S++  L  L  L L     +N   SG      L  L L+ 
Sbjct: 52  VTSIDLSSKPLNVG-FSAVSSSLLSLTGLESLFLSNS-HINGSVSGFKCSASLTSLDLSR 109

Query: 104 CSNLQRLPD--ELGNLEALWI-----SREAGVISRWLPENIGQLSSLGKLDLQKNNFE-R 155
            S    +     LG+   L       +               +L+SL  LDL  N+    
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGK---VSGGLKLNSLEVLDLSANSISGA 166

Query: 156 IPESVIQLSKLGRL 169
                +     G L
Sbjct: 167 NVVGWVLSDGCGEL 180

>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 = 49.2 bits (118), Expect = 2e-07
 Identities = 22/152 (14%), Positives = 52/152 (34%), Gaps = 10/152 (6%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             +  + L +   +  L    +   +K+L + N        + I  L  L  L +   + 
Sbjct: 44  NSLTYITLANIN-VTDLTGIEYAHNIKDLTI-NNIHATNY-NPISGLSNLERLRIMGKDV 100

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQ 139
            +     L  L  L  L ++  ++   +  ++     + ++ +S    +        +  
Sbjct: 101 TSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITD---IMPLKT 157

Query: 140 LSSLGKLDLQKNNFERIPESVIQLSKLGRLYL 171
           L  L  L++Q +        +    KL +LY 
Sbjct: 158 LPELKSLNIQFDGVHDY-RGIEDFPKLNQLYA 188

>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 = 44.9 bits (107), Expect = 5e-06
 Identities = 28/156 (17%), Positives = 53/156 (33%), Gaps = 12/156 (7%)

Query: 44  HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC 103
            +  L  + L     + +L + IE  + +  L +       +  + +  L  L  L +  
Sbjct: 42  QMNSLTYITL-ANINVTDL-TGIEYAHNIKDLTINNIH-ATNY-NPISGLSNLERLRIMG 97

Query: 104 CSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV 160
                     L    +L  L IS  A      +   I  L  +  +DL  N        +
Sbjct: 98  KDVTSDKIPNLSGLTSLTLLDISHSA--HDDSILTKINTLPKVNSIDLSYNGAITDIMPL 155

Query: 161 IQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHH 194
             L +L  L +++      + +   P KL++L A  
Sbjct: 156 KTLPELKSLNIQFDGVHDYRGIEDFP-KLNQLYAFS 190

>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 = 50.3 bits (120), Expect = 2e-07
 Identities = 40/231 (17%), Positives = 74/231 (32%), Gaps = 31/231 (13%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCESLNSLPS 88
           D   ++L  +P  +     K L L +  +I EL    I  L +L  L L +   + SL  
Sbjct: 37  DYSNRNLTHVPKDLPPR-TKALSL-SQNSISELRMPDISFLSELRVLRLSHNR-IRSLDF 93

Query: 89  GLC-KLKLLNYLTLNCCSNLQRLP-DELGNLEALWISR-------EAGVISRWLPENIGQ 139
            +    + L YL ++  + LQ +    + +L  L +S                       
Sbjct: 94  HVFLFNQDLEYLDVSH-NRLQNISCCPMASLRHLDLSFNDFDVLPVCKEFGN-------- 144

Query: 140 LSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER------LQSLPKLPCKLHELDAH 193
           L+ L  L L    F ++    +    L  + L            +SL      +  L  H
Sbjct: 145 LTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFH 204

Query: 194 HCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQL 244
             +       +  +     +  +++ N      R   FL  L +      +
Sbjct: 205 PNSLFSVQVNMSVNALGHLQLSNIKLNDENC-QRLMTFLSELTRGPTLLNV 254

>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 = 44.9 bits (106), Expect = 1e-05
 Identities = 30/165 (18%), Positives = 54/165 (32%), Gaps = 20/165 (12%)

Query: 28  LNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP 87
           L++ D   +  +           L+       + +      L +L  L L+    L +  
Sbjct: 336 LSISDTPFIHMVCPPS-PSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRN-GLKNFF 393

Query: 88  SGLCKLKLLNYLTL--NCCSNLQRLPDE-----LGNLEALWISR---EAGVISRWLPENI 137
                 K ++ L       ++L     +       ++  L +S       V  R LP   
Sbjct: 394 KVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSV-FRCLPPK- 451

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK 182
                +  LDL  N    IP+ V  L  L  L +    +L+S+P 
Sbjct: 452 -----VKVLDLHNNRIMSIPKDVTHLQALQELNVAS-NQLKSVPD 490

>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 = 50.0 bits (120), Expect = 3e-07
 Identities = 42/213 (19%), Positives = 67/213 (31%), Gaps = 20/213 (9%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEY 79
                ++L     LK L +    +   L+ LDL +   IE +   A   L+ L +L L  
Sbjct: 32  SSTKNIDLSFNP-LKILKSYSFSNFSELQWLDL-SRCEIETIEDKAWHGLHHLSNLILTG 89

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPE 135
               +  P     L  L  L       L  L       L  L+ L ++    + S  LP 
Sbjct: 90  NPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH-NFIHSCKLPA 147

Query: 136 NIGQLSSLGKLDLQKNNFERIPESVIQL-----SKLGRLYLRYWERLQSLPKLP---CKL 187
               L++L  +DL  N  + I  + +Q           L +     +  +        KL
Sbjct: 148 YFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLN-PIDFIQDQAFQGIKL 206

Query: 188 HELDAHHCTALESLSGLFSSFEARTRYFDLRYN 220
           HEL         ++        A      L   
Sbjct: 207 HELTLRGNFNSSNIMKTCLQNLAGLHVHRLILG 239

>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 = 46.2 bits (110), Expect = 5e-06
 Identities = 38/214 (17%), Positives = 66/214 (30%), Gaps = 25/214 (11%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
               ++  ++L     +K L         + L +     +++ P+    L  L  L L  
Sbjct: 282 HCLANVSAMSLAGVS-IKYLEDVPKHFKWQSLSI-IRCQLKQFPTL--DLPFLKSLTLTM 337

Query: 80  CESLNSLP-SGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPE 135
            +   S     L  L  L+ L+ N  S             +L  L +S    +I   +  
Sbjct: 338 NKGSISFKKVALPSLSYLD-LSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAII---MSA 393

Query: 136 NIGQLSSLGKLDLQKNNFERIPESVI--QLSKLGRLYLRY-------WERLQSLPKLPCK 186
           N   L  L  LD Q +  +R+ E      L KL  L + Y             L      
Sbjct: 394 NFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLT----S 449

Query: 187 LHELDAHHCTALESLSGLFSSFEARTRYFDLRYN 220
           L+ L     +  ++      +      + DL   
Sbjct: 450 LNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKC 483

>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 = 45.0 bits (107), Expect = 1e-05
 Identities = 39/182 (21%), Positives = 56/182 (30%), Gaps = 32/182 (17%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP--SAIECLYKLLHLDL 77
               +  L+L        + A    LE L+ LD    + ++ +   SA   L KLL+LD+
Sbjct: 374 GTNSLRHLDLSFNG-AIIMSANFMGLEELQHLDF-QHSTLKRVTEFSAFLSLEKLLYLDI 431

Query: 78  EYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISR------EAG 127
            Y  +          L  LN L +   S              NL  L +S+        G
Sbjct: 432 SYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWG 491

Query: 128 VIS-----RWL-----------PENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLY 170
           V       + L             +  QL SL  LD   N  E     +      L    
Sbjct: 492 VFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFN 551

Query: 171 LR 172
           L 
Sbjct: 552 LT 553

>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 = 42.7 bits (101), Expect = 6e-05
 Identities = 26/189 (13%), Positives = 61/189 (32%), Gaps = 21/189 (11%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDL------LNGTAIEELPSAIECLYKLL 73
            N  ++V ++L     ++++     L+FL+E         ++   I+ +        KL 
Sbjct: 150 SNLTNLVHVDLSYNY-IQTITVN-DLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLH 207

Query: 74  HLDLEYCESLNSLPS----GLCKLKLLN--YLTLNCCSNLQRLP----DELGNLEALWIS 123
            L L    + +++       L  L +            NL+       + L ++      
Sbjct: 208 ELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFR 267

Query: 124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL 183
                           L+++  + L   + + + +   +  K   L +    +L+  P L
Sbjct: 268 LTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVP-KHFKWQSLSIIRC-QLKQFPTL 325

Query: 184 PCK-LHELD 191
               L  L 
Sbjct: 326 DLPFLKSLT 334

>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 = 48.9 bits (116), Expect = 6e-07
 Identities = 35/221 (15%), Positives = 67/221 (30%), Gaps = 32/221 (14%)

Query: 45  LEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTL--N 102
                + +L    ++ +  +    L  +  +     + + S+  G+  L  +  L L  N
Sbjct: 20  FAETIKDNL-KKKSVTDAVT-QNELNSIDQIIANNSD-IKSV-QGIQYLPNVTKLFLNGN 75

Query: 103 CCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ 162
             ++++ L   L NL  L++      I      ++  L  L  L L+ N    I   ++ 
Sbjct: 76  KLTDIKPL-TNLKNLGWLFLDENK--IKDL--SSLKDLKKLKSLSLEHNGISDI-NGLVH 129

Query: 163 LSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHC--TALESLSGL-------------- 204
           L +L  LYL       +  L +L  KL  L       + +  L+GL              
Sbjct: 130 LPQLESLYLGNNKITDITVLSRLT-KLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHIS 188

Query: 205 -FSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQL 244
              +         L         +       L         
Sbjct: 189 DLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNT 229

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 47.3 bits (113), Expect = 8e-07
 Identities = 34/144 (23%), Positives = 52/144 (36%), Gaps = 30/144 (20%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG 89
            C  K LK LP GI  + + EL  L+G     +P  +     L  +DL     +++L + 
Sbjct: 16  RCSNKGLKVLPKGIPRD-VTELY-LDGNQFTLVPKELSNYKHLTLIDLSN-NRISTLSNQ 72

Query: 90  LC-KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDL 148
               +  L  L L+  + L+ +P                            L SL  L L
Sbjct: 73  SFSNMTQLLTLILS-YNRLRCIP--------------PRTFDG--------LKSLRLLSL 109

Query: 149 QKNNFERIPESVI-QLSKLGRLYL 171
             N+   +PE     LS L  L +
Sbjct: 110 HGNDISVVPEGAFNDLSALSHLAI 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 = 48.7 bits (115), Expect = 8e-07
 Identities = 47/248 (18%), Positives = 77/248 (31%), Gaps = 48/248 (19%)

Query: 9   ALELFSLYAFKQNNP-HIVVLNLRDCKS-------LKSLPAGIHLEFLKELDLLNGTAIE 60
           AL++   Y  +      I  LNL++C S       L+ L   I   +    D  + + I+
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD--HSSNIK 224

Query: 61  ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEAL 120
               +I+   + L     Y   L  L   +   K  N   L+C     ++         L
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVL-LNVQNAKAWNAFNLSC-----KI---------L 269

Query: 121 WISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSL 180
             +R   V           +S    LD          E    L K    YL    R Q L
Sbjct: 270 LTTRFKQVTDFLSAATTTHIS----LDHHSMTLTP-DEVKSLLLK----YL--DCRPQDL 318

Query: 181 PKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKML----C 236
           P+     +         L  ++       A    +    N + +    E  L +L     
Sbjct: 319 PREVLTTNPR------RLSIIAESIRDGLATWDNW-KHVNCDKLTTIIESSLNVLEPAEY 371

Query: 237 KKLNFWQL 244
           +K+ F +L
Sbjct: 372 RKM-FDRL 378

>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 = 42.9 bits (100), Expect = 5e-05
 Identities = 40/259 (15%), Positives = 70/259 (27%), Gaps = 85/259 (32%)

Query: 2   KELVDDHALELFSLYA----------FKQNNP---HIVVLNLRDCKSLKSLPAGIHLEFL 48
             L  D    L   Y               NP    I+  ++RD  +          +  
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA--------TWDNW 347

Query: 49  KELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQ 108
           K ++       ++L + IE              SLN L     + K+ + L++       
Sbjct: 348 KHVN------CDKLTTIIE-------------SSLNVLEPAEYR-KMFDRLSV------- 380

Query: 109 RLPDE----LGNLEALWISREAGVISRWLPENIGQLSSL-GKLDLQKNNFE---RIP--- 157
             P         L  +W               +  ++ L     ++K   E    IP   
Sbjct: 381 -FPPSAHIPTILLSLIWFDVIKSD-----VMVV--VNKLHKYSLVEKQPKESTISIPSIY 432

Query: 158 -ESVIQLSKLGRLYLRYWERLQSLPKLPCK---LHELD-------AHHCTALESLSGLFS 206
            E  ++L     L+    +                 LD        HH   +E      +
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE-HPERMT 491

Query: 207 SFEARTRYFDLRYNYNWIE 225
            F  R  + D R    ++E
Sbjct: 492 LF--RMVFLDFR----FLE 504

>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 = 48.2 bits (115), Expect = 8e-07
 Identities = 33/195 (16%), Positives = 70/195 (35%), Gaps = 25/195 (12%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI---HLEFLKELDLLNGTAIEELPS-AIECLYKLLHL 75
           +    +  LNL      K+L       HL  L+ L + N     ++       L  L  L
Sbjct: 121 KPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEEL 179

Query: 76  DLEYCESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLP----DELGNLEALWISR------ 124
           +++    L S     L  ++ +++L L+       L     D   ++E L +        
Sbjct: 180 EIDAS-DLQSYEPKSLKSIQNVSHLILHMK-QHILLLEIFVDVTSSVECLELRDTDLDTF 237

Query: 125 EAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK-- 182
               +S     ++ +  +   + +   +  ++ + + Q+S L  L      +L+S+P   
Sbjct: 238 HFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSR-NQLKSVPDGI 296

Query: 183 ---LPCKLHELDAHH 194
              L   L ++  H 
Sbjct: 297 FDRLT-SLQKIWLHT 310

>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 = 48.0 bits (115), Expect = 1e-06
 Identities = 42/190 (22%), Positives = 75/190 (39%), Gaps = 19/190 (10%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           N   +V + + + + +  +    +L  L  L L     I ++   ++ L  L  L+L   
Sbjct: 88  NLTKLVDILMNNNQ-IADITPLANLTNLTGLTL-FNNQITDID-PLKNLTNLNRLELSSN 144

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIG 138
            +++ + + L  L  L  L+      +  L     L  LE L IS     +S      + 
Sbjct: 145 -TISDISA-LSGLTSLQQLSFGN--QVTDLKPLANLTTLERLDISSNK--VSD--ISVLA 196

Query: 139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHC- 195
           +L++L  L    N    I   +  L+ L  L L     + + +L  L   L +LD  +  
Sbjct: 197 KLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLKDIGTLASLT-NLTDLDLANNQ 254

Query: 196 -TALESLSGL 204
            + L  LSGL
Sbjct: 255 ISNLAPLSGL 264

>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 = 41.1 bits (97), Expect = 2e-04
 Identities = 26/154 (16%), Positives = 51/154 (33%), Gaps = 12/154 (7%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
                +  L L   + + ++     L  L  L+L N   +E++   I  L  L +L L +
Sbjct: 262 SGLTKLTELKLGANQ-ISNISPLAGLTALTNLEL-NENQLEDISP-ISNLKNLTYLTLYF 318

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENI 137
              ++ + S +  L  L  L       +  +     L N+  L        IS      +
Sbjct: 319 NN-ISDI-SPVSSLTKLQRLFFYNN-KVSDVSSLANLTNINWLSAGHNQ--ISDL--TPL 371

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYL 171
             L+ + +L L    +   P +      +     
Sbjct: 372 ANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVK 405

>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 = 40.7 bits (96), Expect = 2e-04
 Identities = 23/153 (15%), Positives = 47/153 (30%), Gaps = 6/153 (3%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           N  ++  L L     +  +     L  L+ L       + ++ S +  L  +  L   + 
Sbjct: 307 NLKNLTYLTLYFNN-ISDISPVSSLTKLQRLFF-YNNKVSDVSS-LANLTNINWLSAGHN 363

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQL 140
           + ++ L   L  L  +  L LN        P       ++  + +    +   P  I   
Sbjct: 364 Q-ISDLTP-LANLTRITQLGLNDQ-AWTNAPVNYKANVSIPNTVKNVTGALIAPATISDG 420

Query: 141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
            S  + D+  N      E     S+   +    
Sbjct: 421 GSYTEPDITWNLPSYTNEVSYTFSQPVTIGKGT 453

>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 = 47.8 bits (114), Expect = 1e-06
 Identities = 47/231 (20%), Positives = 78/231 (33%), Gaps = 30/231 (12%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEY 79
            H+  ++L     +  L       L+ L+ L +   T    + +     L  L+ L L+Y
Sbjct: 30  AHVNYVDLSLNS-IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY 88

Query: 80  CESLNSLPSG-LCKLKLLNYLTLNCCS-NLQRLP----DELGNLEALWISREAGVISRWL 133
            +    L +G    L  L  LTL  C+ +   L       L +LE L +      I +  
Sbjct: 89  NQ-FLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNN--IKKIQ 145

Query: 134 PENI-GQLSSLGKLDLQKNNFERIPESVI---QLSKLGRLYLRYWERLQSLPKL------ 183
           P +    +     LDL  N  + I E  +   Q      L L     LQ + +       
Sbjct: 146 PASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSIT-LQDMNEYWLGWEK 204

Query: 184 ------PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS 228
                    +  LD       ES++  F    A T+   L  + ++    S
Sbjct: 205 CGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSS 255

>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 = 43.2 bits (102), Expect = 4e-05
 Identities = 34/177 (19%), Positives = 66/177 (37%), Gaps = 19/177 (10%)

Query: 7   DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA----GIHLEFLKELDLLNGTAIEEL 62
             A+    + +   +N + +  +     + K        G+    +K  DL + + I  L
Sbjct: 233 FDAIAGTKIQSLILSNSYNMGSSF-GHTNFKDPDNFTFKGLEASGVKTCDL-SKSKIFAL 290

Query: 63  PSAI-ECLYKLLHLDLEYCESLNSLPSG-LCKLKLLNYLTLNCCSNLQRLP----DELGN 116
             ++      L  L L     +N +       L  L  L L+  + L  +     + L  
Sbjct: 291 LKSVFSHFTDLEQLTLAQ-NEINKIDDNAFWGLTHLLKLNLSQ-NFLGSIDSRMFENLDK 348

Query: 117 LEALWISREAGVISRWLPENI-GQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYL 171
           LE L +S     I   L +     L +L +L L  N  + +P+ +   L+ L +++L
Sbjct: 349 LEVLDLSYNH--IRA-LGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWL 402

>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 = 40.5 bits (95), Expect = 3e-04
 Identities = 33/141 (23%), Positives = 58/141 (41%), Gaps = 16/141 (11%)

Query: 22  NPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLE 78
              +   +L     + +L   +  H   L++L L     I ++   A   L  LL L+L 
Sbjct: 274 ASGVKTCDLSK-SKIFALLKSVFSHFTDLEQLTL-AQNEINKIDDNAFWGLTHLLKLNLS 331

Query: 79  YCESLNSLPSGLC-KLKLLNYLTLNCCSNLQRLP----DELGNLEALWISREAGVISRWL 133
               L S+ S +   L  L  L L+   +++ L       L NL+ L +        + +
Sbjct: 332 QNF-LGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTNQ---LKSV 386

Query: 134 PENI-GQLSSLGKLDLQKNNF 153
           P+ I  +L+SL K+ L  N +
Sbjct: 387 PDGIFDRLTSLQKIWLHTNPW 407

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 46.6 bits (111), Expect = 1e-06
 Identities = 43/155 (27%), Positives = 65/155 (41%), Gaps = 30/155 (19%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG 89
           +C  +   S+P GI  +    LDL   +         + L  L  L L     L SLP+G
Sbjct: 13  ECYSQGRTSVPTGIPAQ-TTYLDLETNSLKSLPNGVFDELTSLTQLYLGG-NKLQSLPNG 70

Query: 90  LC-KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDL 148
           +  KL  L YL L+  + LQ LP               GV  +        L+ L +L L
Sbjct: 71  VFNKLTSLTYLNLST-NQLQSLP--------------NGVFDK--------LTQLKELAL 107

Query: 149 QKNNFERIPESVI-QLSKLGRLYLRYWERLQSLPK 182
             N  + +P+ V  +L++L  L L    +L+S+P 
Sbjct: 108 NTNQLQSLPDGVFDKLTQLKDLRLYQ-NQLKSVPD 141

>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 = 46.6 bits (111), Expect = 2e-06
 Identities = 30/159 (18%), Positives = 49/159 (30%), Gaps = 34/159 (21%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS--AIECLYKLLHLDLEYCESLNSLP 87
           DC  + L  +P  I      EL L N      L +    + L +L  ++    + +  + 
Sbjct: 17  DCSNQKLNKIPEHIPQY-TAELRL-NNNEFTVLEATGIFKKLPQLRKINFSNNK-ITDIE 73

Query: 88  SG----LCKLKLLNYLTLNCCSNLQRLP----DELGNLEALWISR------EAGVISRWL 133
            G       +  +  LT N    L+ +       L +L+ L +                 
Sbjct: 74  EGAFEGASGVNEI-LLTSN---RLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIG-- 127

Query: 134 PENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYL 171
                 LSS+  L L  N    +       L  L  L L
Sbjct: 128 ------LSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNL 160

>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 = 46.9 bits (112), Expect = 2e-06
 Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 9/136 (6%)

Query: 44  HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE-SLNSLPSGLCKLKLLNYLTLN 102
               LK LDL +   +  + S    L +L HLD ++      S  S    L+ L YL ++
Sbjct: 371 GTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429

Query: 103 CCSNLQRLPDE----LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE 158
              + +   +     L +LE L ++  +     +LP+   +L +L  LDL +   E++  
Sbjct: 430 HT-HTRVAFNGIFNGLSSLEVLKMAGNSF-QENFLPDIFTELRNLTFLDLSQCQLEQLSP 487

Query: 159 SVIQ-LSKLGRLYLRY 173
           +    LS L  L + +
Sbjct: 488 TAFNSLSSLQVLNMSH 503

>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 = 46.9 bits (112), Expect = 3e-06
 Identities = 28/131 (21%), Positives = 48/131 (36%), Gaps = 6/131 (4%)

Query: 44  HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC 103
            L  +    L++ T       +    +   HL+L  C      P+    LK L  LT   
Sbjct: 280 CLTNVSSFSLVSVTIERVKDFSY--NFGWQHLELVNC-KFGQFPTLK--LKSLKRLTFTS 334

Query: 104 CSNLQRLPD-ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ 162
                   + +L +LE L +SR          ++    +SL  LDL  N    +  + + 
Sbjct: 335 NKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 394

Query: 163 LSKLGRLYLRY 173
           L +L  L  ++
Sbjct: 395 LEQLEHLDFQH 405

>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 = 45.4 bits (108), Expect = 8e-06
 Identities = 45/219 (20%), Positives = 71/219 (32%), Gaps = 29/219 (13%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEY 79
                L+L     L+ L +        L+ LDL +   I+ +   A + L  L  L L  
Sbjct: 28  FSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDL-SRCEIQTIEDGAYQSLSHLSTLILTG 85

Query: 80  CESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPE 135
               +        L  L  L      NL  L +     L  L+ L ++    + S  LPE
Sbjct: 86  NPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHN-LIQSFKLPE 143

Query: 136 NIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHC 195
               L++L  LDL  N  + I  +                 L+ L ++P     LD    
Sbjct: 144 YFSNLTNLEHLDLSSNKIQSIYCTD----------------LRVLHQMPLLNLSLDLSLN 187

Query: 196 TALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKM 234
                  G F     R     LR N++ + +       +
Sbjct: 188 PMNFIQPGAFKEI--RLHKLTLRNNFDSLNVMKTCIQGL 224

>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 = 46.2 bits (110), Expect = 3e-06
 Identities = 36/186 (19%), Positives = 69/186 (37%), Gaps = 17/186 (9%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
            + + +       +        L+ +  L    GT +  +   ++ L  L+ L+L+  + 
Sbjct: 19  ANAIKIAAGKSN-VTDTVTQADLDGITTLSA-FGTGVTTI-EGVQYLNNLIGLELKDNQ- 74

Query: 83  LNSLPSGLCKLKLLNYLTLNCC--SNLQRLPDELGNLEALWISREAGVISRWLPENIGQL 140
           +  L + L  L  +  L L+     N+  +   L +++ L ++     I+      +  L
Sbjct: 75  ITDL-APLKNLTKITELELSGNPLKNVSAI-AGLQSIKTLDLTS--TQITDV--TPLAGL 128

Query: 141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHCTAL 198
           S+L  L L  N    I   +  L+ L  L +       L  L  L  KL  L A     +
Sbjct: 129 SNLQVLYLDLNQITNI-SPLAGLTNLQYLSIGNAQVSDLTPLANLS-KLTTLKADD-NKI 185

Query: 199 ESLSGL 204
             +S L
Sbjct: 186 SDISPL 191

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 46.6 bits (111), Expect = 3e-06
 Identities = 36/195 (18%), Positives = 68/195 (34%), Gaps = 22/195 (11%)

Query: 35  SLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPSG-LCK 92
            +      I L   K +     + + +LP+  ++   ++  L+L   + +  + +     
Sbjct: 34  DVYFGFEDITLNNQKIVTF-KNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAY 91

Query: 93  LKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPENI-GQLSSLGKLD 147
              +  L +     ++ LP      +  L  L + R    +S  LP  I      L  L 
Sbjct: 92  AHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERND--LSS-LPRGIFHNTPKLTTLS 147

Query: 148 LQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLP-KLPCKLHELDAHHCTALESLSGLF 205
           +  NN ERI +   Q  + L  L L    RL  +   L   L   +  +   L +L+   
Sbjct: 148 MSNNNLERIEDDTFQATTSLQNLQLSS-NRLTHVDLSLIPSLFHANVSYN-LLSTLAIPI 205

Query: 206 SSFEARTRYFDLRYN 220
           +         D  +N
Sbjct: 206 A-----VEELDASHN 215

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 35/196 (17%), Positives = 64/196 (32%), Gaps = 48/196 (24%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELP-------------- 63
            N P +  L++ +   L+ +          L+ L L +   +  +               
Sbjct: 138 HNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQL-SSNRLTHVDLSLIPSLFHANVSY 195

Query: 64  ---SAIECLYKLLHLDLEYCESLNSLPSGLC-KLKLL----NYLT----LNCCSNLQRL- 110
              S +     +  LD  +  S+N +   +  +L +L    N LT    L     L  + 
Sbjct: 196 NLLSTLAIPIAVEELDASHN-SINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVD 254

Query: 111 ---------PDE----LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP 157
                           +  LE L+IS     +   L      + +L  LDL  N+   + 
Sbjct: 255 LSYNELEKIMYHPFVKMQRLERLYISNNR--LVA-LNLYGQPIPTLKVLDLSHNHLLHVE 311

Query: 158 ESVIQLSKLGRLYLRY 173
            +  Q  +L  LYL +
Sbjct: 312 RNQPQFDRLENLYLDH 327

>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 = 46.4 bits (110), Expect = 3e-06
 Identities = 32/166 (19%), Positives = 61/166 (36%), Gaps = 18/166 (10%)

Query: 27  VLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC--ES 82
           + N       + +       +     LD  N    + +      L +L  L L+    + 
Sbjct: 304 IKNF-TVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKE 362

Query: 83  LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPENIG 138
           L+ +     ++K L  L ++  S              +L +L +S      S  L + I 
Sbjct: 363 LSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMS------SNILTDTIF 416

Query: 139 Q--LSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK 182
           +     +  LDL  N  + IP+ V++L  L  L +    +L+S+P 
Sbjct: 417 RCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVAS-NQLKSVPD 461

>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 = 43.3 bits (102), Expect = 4e-05
 Identities = 35/202 (17%), Positives = 68/202 (33%), Gaps = 16/202 (7%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCESLNSLPS 88
           D     L  +P  +  +    L++ +   I EL  S I  L KL  L + +   +  L  
Sbjct: 6   DRSKNGLIHVPKDL-SQKTTILNI-SQNYISELWTSDILSLSKLRILIISHNR-IQYLDI 62

Query: 89  GLC-KLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKL 146
            +    + L YL L+    L ++      NL+ L +S  A   +  + +  G +S L  L
Sbjct: 63  SVFKFNQELEYLDLSHN-KLVKISCHPTVNLKHLDLSFNA-FDALPICKEFGNMSQLKFL 120

Query: 147 DLQKNNFERIPESVIQLSKLGRLYL------RYWERLQSLPKLPCKLHELDAHHCTALES 200
            L   + E+     I    + ++ L         E  + L     +   +          
Sbjct: 121 GLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHF 180

Query: 201 LSGLFSSFEARTRYFDLRYNYN 222
           +  +     A     +++    
Sbjct: 181 ILDVSVKTVANLELSNIKCVLE 202

>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 = 45.8 bits (109), Expect = 5e-06
 Identities = 30/162 (18%), Positives = 64/162 (39%), Gaps = 21/162 (12%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDL----LNGTAIEELPSAIECLYKLLHLD 76
             +  L + + + +  +   +   L  +  ++L    L  + IE    A + + KL ++ 
Sbjct: 121 KTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIE--NGAFQGMKKLSYIR 177

Query: 77  LEYCESLNSLPSGL-CKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISR 131
           +    ++ ++P GL   L  L +L  N    + ++       L NL  L +S  +  IS 
Sbjct: 178 IADT-NITTIPQGLPPSLTEL-HLDGN---KITKVDAASLKGLNNLAKLGLSFNS--ISA 230

Query: 132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
               ++     L +L L  N   ++P  +     +  +YL  
Sbjct: 231 VDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHN 272

>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 = 45.5 bits (107), Expect = 7e-06
 Identities = 30/189 (15%), Positives = 56/189 (29%), Gaps = 33/189 (17%)

Query: 33  CKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCK 92
               +        +       L+      L S +E   +L  L+ E    L ++   +  
Sbjct: 335 KDRPECWCRDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRA 394

Query: 93  LKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLP------------------ 134
           L  L Y               L  ++ +  +    + S++L                   
Sbjct: 395 LDPLLYEK-ETLQYFS----TLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLA 449

Query: 135 -------ENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPC 185
                   ++ QL  +  LDL  N    +P ++  L  L  L       E +  +  LP 
Sbjct: 450 HKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLP- 508

Query: 186 KLHELDAHH 194
           +L EL   +
Sbjct: 509 RLQELLLCN 517

>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 = 40.9 bits (95), Expect = 2e-04
 Identities = 32/159 (20%), Positives = 53/159 (33%), Gaps = 26/159 (16%)

Query: 8   HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIE 67
            +  L      K     + VL+L     L  L     L  +  LD L+   +  LP A+ 
Sbjct: 426 RSKFLLENSVLKMEYADVRVLHLAHKD-LTVLCHLEQLLLVTHLD-LSHNRLRALPPALA 483

Query: 68  CLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAG 127
            L  L  L       L ++  G+  L  L  L L   +N       L    A+       
Sbjct: 484 ALRCLEVLQASDNA-LENVD-GVANLPRLQELLLC--NN------RLQQSAAI------- 526

Query: 128 VISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKL 166
                  + +     L  L+LQ N+  +      +L+++
Sbjct: 527 -------QPLVSCPRLVLLNLQGNSLCQEEGIQERLAEM 558

>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 = 44.4 bits (105), Expect = 2e-05
 Identities = 50/232 (21%), Positives = 75/232 (32%), Gaps = 40/232 (17%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDL------------------LNGTAI 59
              P +  ++L+    +  +       LE L+ LDL                  L+G  +
Sbjct: 335 YGLPKVAYIDLQKNH-IAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKL 393

Query: 60  EELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE-----L 114
             LP  I     L+HL     E+L+ L   L ++  L  L LN          +      
Sbjct: 394 VTLPK-INLTANLIHLSENRLENLDILYF-LLRVPHLQILILNQN-RFSSCSGDQTPSEN 450

Query: 115 GNLEALWISR---EAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLY 170
            +LE L++     +    +    +    LS L  L L  N    +P  V   L+ L  L 
Sbjct: 451 PSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLS 510

Query: 171 LRYWERLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYN 220
           L    RL  L    LP  L  LD         L              D+ +N
Sbjct: 511 LNSN-RLTVLSHNDLPANLEILDISRN----QLLAPNPDVFVSLSVLDITHN 557

>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 = 44.4 bits (105), Expect = 2e-05
 Identities = 49/232 (21%), Positives = 80/232 (34%), Gaps = 28/232 (12%)

Query: 14  SLYAFKQNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEEL-PSAIECLY 70
           +L    Q       L L     ++++ A     LE L+ L+L +      +   A   L 
Sbjct: 15  NLTQVPQVLNTTERLLLSFNY-IRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLP 73

Query: 71  KLLHLDLEYCESLNSLP----SGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWIS 123
            L  LDL     +  L      GL  L  L  L     S+          L  L  L +S
Sbjct: 74  NLRILDLGSS-KIYFLHPDAFQGLFHLFELR-LYFCGLSDAVLKDGYFRNLKALTRLDLS 131

Query: 124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE---SVIQLSKLGRLYLRYWERLQSL 180
           +   + S +L  + G+L+SL  +D   N    + E     +Q   L    L     L S 
Sbjct: 132 KN-QIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAA-NSLYSR 189

Query: 181 PKLPCK----------LHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN 222
             +             L  LD         ++G FS+  ++++ F L   ++
Sbjct: 190 VSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHH 241

>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 = 43.9 bits (104), Expect = 2e-05
 Identities = 44/178 (24%), Positives = 74/178 (41%), Gaps = 16/178 (8%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
             I  +   +   +KS+    +L  + +L L NG  + ++   +  L  L  L L+  + 
Sbjct: 46  NSIDQIIANNSD-IKSVQGIQYLPNVTKLFL-NGNKLTDI-KPLANLKNLGWLFLDENK- 101

Query: 83  LNSLPSGLCKLKLLNYLTLNCC--SNLQRLPDELGNLEALWISREAGVISRWLPENIGQL 140
           +  L S L  LK L  L+L     S++  L   L  LE+L++      I+      + +L
Sbjct: 102 VKDL-SSLKDLKKLKSLSLEHNGISDINGL-VHLPQLESLYLGNNK--ITD--ITVLSRL 155

Query: 141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY--WERLQSLPKLPCKLHELDAHHCT 196
           + L  L L+ N    I   +  L+KL  LYL       L++L  L   L  L+     
Sbjct: 156 TKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKNHISDLRALAGLK-NLDVLELFSQE 211

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 40/146 (27%), Positives = 62/146 (42%), Gaps = 33/146 (22%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPS 88
            C  K L S+P GI       L+ L    ++ LP    + L +L  L L   + + SLP 
Sbjct: 13  RCNSKGLTSVPTGIPSS-ATRLE-LESNKLQSLPHGVFDKLTQLTKLSLSQNQ-IQSLPD 69

Query: 89  GLC-KLKLLNYLTLNCCSN-LQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKL 146
           G+  KL  L  L L+   N LQ LP               GV  +        L+ L +L
Sbjct: 70  GVFDKLTKLTILYLHE--NKLQSLP--------------NGVFDK--------LTQLKEL 105

Query: 147 DLQKNNFERIPESVI-QLSKLGRLYL 171
            L  N  + +P+ +  +L+ L +++L
Sbjct: 106 ALDTNQLKSVPDGIFDRLTSLQKIWL 131

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 44.1 bits (104), Expect = 2e-05
 Identities = 35/173 (20%), Positives = 58/173 (33%), Gaps = 34/173 (19%)

Query: 82  SLNSLPSGL-CKLKLLNYLTLNCCSNLQRLPDE-----LGNLEALWISR------EAGVI 129
            L ++P  L     LL+ L+ N   NL RL  E     L NL +L +S        +   
Sbjct: 29  QLPNVPQSLPSYTALLD-LSHN---NLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAF 84

Query: 130 SRWLPENIGQLSSLGKLDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLP-----KL 183
                     + +L  LDL  N+   + E +   L  L  L L Y   +  +       +
Sbjct: 85  V--------PVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLL-YNNHIVVVDRNAFEDM 135

Query: 184 PCKLHELDAHHCTALESLS-GLFSSFEARTRYFDLRYNYNWIEMRSEEFLKML 235
             +L +L       +      L        +   L  + N ++      L+ L
Sbjct: 136 A-QLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKL 186

>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 = 43.8 bits (103), Expect = 3e-05
 Identities = 33/157 (21%), Positives = 59/157 (37%), Gaps = 21/157 (13%)

Query: 23  PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES 82
           P +   N+     L +L   I +E L      +  +I  +   +    +L  L L     
Sbjct: 192 PSLFHANVSYNL-LSTLAIPIAVEELD----ASHNSINVVRGPV--NVELTILKL----Q 240

Query: 83  LNSL--PSGLCKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPEN 136
            N+L   + L     L  + L+    L+++       +  LE L+IS     +   L   
Sbjct: 241 HNNLTDTAWLLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNR--LVA-LNLY 296

Query: 137 IGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
              + +L  LDL  N+   +  +  Q  +L  LYL +
Sbjct: 297 GQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH 333

>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 = 43.8 bits (103), Expect = 3e-05
 Identities = 34/183 (18%), Positives = 66/183 (36%), Gaps = 17/183 (9%)

Query: 33  CKSLKSLPAGIHLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSG-L 90
            + +      I L   K +     + + +LP + ++   ++  L+L   + +  + +   
Sbjct: 38  TQDVYFGFEDITLNNQKIVTF-KNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAF 95

Query: 91  CKLKLLNYLTLNCCSNLQRLPDE----LGNLEALWISREAGVISRWLPENI-GQLSSLGK 145
                +  L +     ++ LP      +  L  L + R    +S  LP  I      L  
Sbjct: 96  AYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERND--LSS-LPRGIFHNTPKLTT 151

Query: 146 LDLQKNNFERIPESVIQ-LSKLGRLYLRYWERLQSLP-KLPCKLHELDAHHCTALESLSG 203
           L +  NN ERI +   Q  + L  L L    RL  +   L   L   +  +   L +L+ 
Sbjct: 152 LSMSNNNLERIEDDTFQATTSLQNLQLSS-NRLTHVDLSLIPSLFHANVSYN-LLSTLAI 209

Query: 204 LFS 206
             +
Sbjct: 210 PIA 212

>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 = 43.1 bits (102), Expect = 5e-05
 Identities = 39/184 (21%), Positives = 56/184 (30%), Gaps = 29/184 (15%)

Query: 21  NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
            N  +  LN      +  L        L  LD  +   + E+   +  L +L + D    
Sbjct: 189 QNKLLNRLNCDTNN-ITKLDLN-QNIQLTFLDC-SSNKLTEID--VTPLTQLTYFDCSVN 243

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSN-LQRLP-DELGNLEALWISREAGVISRWLPENIG 138
             L  L             TL+C    L  +       L             +    ++ 
Sbjct: 244 -PLTELDVSTLS----KLTTLHCIQTDLLEIDLTHNTQLIYFQAEG----CRKIKELDVT 294

Query: 139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTAL 198
             + L  LD Q      +  S  Q  KL  LYL              +L ELD  H T L
Sbjct: 295 HNTQLYLLDCQAAGITELDLS--QNPKLVYLYLNN-----------TELTELDVSHNTKL 341

Query: 199 ESLS 202
           +SLS
Sbjct: 342 KSLS 345

>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 = 43.1 bits (102), Expect = 5e-05
 Identities = 37/197 (18%), Positives = 61/197 (30%), Gaps = 32/197 (16%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY 79
                +  LN    K L  L        L  L+      + E+   +    +L  LD   
Sbjct: 103 TPLTKLTYLNCDTNK-LTKLDVS-QNPLLTYLNC-ARNTLTEID--VSHNTQLTELDCHL 157

Query: 80  CESLNSLP-SGLCKLKLLN-------YLTLNCCSNLQRLPDELGNLEALWISREAGVISR 131
            + +  L  +   +L  L+        L ++    L RL  +  N+  L +++   +   
Sbjct: 158 NKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFL 217

Query: 132 WLPEN------IGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPC 185
               N      +  L+ L   D   N    +  S   LSKL  L+               
Sbjct: 218 DCSSNKLTEIDVTPLTQLTYFDCSVNPLTELDVS--TLSKLTTLHCIQ-----------T 264

Query: 186 KLHELDAHHCTALESLS 202
            L E+D  H T L    
Sbjct: 265 DLLEIDLTHNTQLIYFQ 281

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D Length = 170

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 41/133 (30%), Positives = 61/133 (45%), Gaps = 22/133 (16%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSAI-ECLYKLLHLDLEYCESLNSLPS 88
           DC  KSL S+P GI     + L  L    I +L   + + L +L  LDL     L  LP+
Sbjct: 15  DCSGKSLASVPTGIPTT-TQVLY-LYDNQITKLEPGVFDRLTQLTRLDL-DNNQLTVLPA 71

Query: 89  GLC-KLKLLNYLTLNCCSN-LQRLP----DELGNLEALWIS--------REAGVISRWLP 134
           G+  KL  L  L+LN   N L+ +P    D L +L  +W+          +   +SRW+ 
Sbjct: 72  GVFDKLTQLTQLSLN--DNQLKSIPRGAFDNLKSLTHIWLLNNPWDCACSDILYLSRWIS 129

Query: 135 ENIGQLSSLGKLD 147
           ++ G +     LD
Sbjct: 130 QHPGLVFGYLNLD 142

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 42.3 bits (100), Expect = 7e-05
 Identities = 38/162 (23%), Positives = 66/162 (40%), Gaps = 22/162 (13%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDL----LNGTAIEELPSAIECLYKLLHLD 76
             +V L + D + ++ +P G+   L  +  +++    L  +  E  P A + L KL +L 
Sbjct: 123 SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLENSGFE--PGAFDGL-KLNYLR 178

Query: 77  LEYCESLNSLPSGLCKLKLLNYLTLNCCSN-LQRLPDE----LGNLEALWISREAGVISR 131
           +     L  +P  L   + LN L L+   N +Q +  E       L  L +      I  
Sbjct: 179 ISEA-KLTGIPKDL--PETLNELHLD--HNKIQAIELEDLLRYSKLYRLGLGHNQ--IRM 231

Query: 132 WLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
               ++  L +L +L L  N   R+P  +  L  L  +YL  
Sbjct: 232 IENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHT 273

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 40.3 bits (95), Expect = 1e-04
 Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 14/99 (14%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSAI-ECLYKLLHLDLEYCESLNSLPS 88
           +C    L S+PAGI  +  + L  LN   I +L   + + L  L  L       L ++P+
Sbjct: 18  NCQNIRLASVPAGIPTD-KQRLW-LNNNQITKLEPGVFDHLVNLQQLYF-NSNKLTAIPT 74

Query: 89  GLC-KLKLLNYLTLNCCSN-LQRLP----DELGNLEALW 121
           G+  KL  L  L LN   N L+ +P    D L +L  ++
Sbjct: 75  GVFDKLTQLTQLDLN--DNHLKSIPRGAFDNLKSLTHIY 111

>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 = 38.9 bits (91), Expect = 5e-04
 Identities = 35/129 (27%), Positives = 56/129 (43%), Gaps = 11/129 (8%)

Query: 48  LKELDLLNG-TAIEELPSAIECLYKLLHLDLEYC--ESLNSLPSGLCKLKLLNYLTLNCC 104
            ++++L      IE++ + +  L    HL L     E ++SL SG+  L++L+ L  N  
Sbjct: 25  AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSL-SGMENLRILS-LGRNLI 82

Query: 105 SNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE--SVIQ 162
             ++ L      LE LWIS     I+      I +L +L  L +  N      E   +  
Sbjct: 83  KKIENLDAVADTLEELWISYNQ--IAS--LSGIEKLVNLRVLYMSNNKITNWGEIDKLAA 138

Query: 163 LSKLGRLYL 171
           L KL  L L
Sbjct: 139 LDKLEDLLL 147

>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 Length = 192

 Score = 38.8 bits (91), Expect = 5e-04
 Identities = 28/146 (19%), Positives = 45/146 (30%), Gaps = 32/146 (21%)

Query: 32  DC--KSLKSLPAGIHLEFLKELDLLNGTAIEELPSA--IECLYKLLHLDLEYCESLNSLP 87
           DC  + LK +P  I L    EL  LN   +  + S      L  L+ L+L+    L  + 
Sbjct: 14  DCTGRGLKEIPRDIPLH-TTELL-LNDNELGRISSDGLFGRLPHLVKLELKR-NQLTGIE 70

Query: 88  SGLC-KLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKL 146
                    +  L L   + ++ +                 +           L  L  L
Sbjct: 71  PNAFEGASHIQELQLG-ENKIKEIS--------------NKMFLG--------LHQLKTL 107

Query: 147 DLQKNNFERIPESVI-QLSKLGRLYL 171
           +L  N    +       L+ L  L L
Sbjct: 108 NLYDNQISCVMPGSFEHLNSLTSLNL 133

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 30/158 (18%), Positives = 56/158 (35%), Gaps = 17/158 (10%)

Query: 53  LLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC--SNLQRL 110
           +   T I ++      L   +  +L    S+  L     +L  +     +     +L  +
Sbjct: 3   IQRPTPINQV-FPDPGLANAVKQNLGKQ-SVTDL-VSQKELSGVQNFNGDNSNIQSLAGM 59

Query: 111 PDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLY 170
                NL+ L +S     IS      +  L+ L +L + +N  + +  + I  + L RL+
Sbjct: 60  -QFFTNLKELHLSHNQ--ISDL--SPLKDLTKLEELSVNRNRLKNL--NGIPSACLSRLF 112

Query: 171 LRY--WERLQSLPKLPCKLHELDAHHC--TALESLSGL 204
           L         SL  L   L  L   +    ++  L  L
Sbjct: 113 LDNNELRDTDSLIHLK-NLEILSIRNNKLKSIVMLGFL 149

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	248
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.93
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.93
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.93
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.92
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.89
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.89
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.89
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.89
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.88
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.88
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.87
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.87
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.87
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.87
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.87
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.87
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.87
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.87
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.87
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.87
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.86
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.86
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.86
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.86
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.86
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.86
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.86
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.85
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.85
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.85
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.85
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.85
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.85
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.84
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.84
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.84
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.84
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.84
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.84
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.84
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.84
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.83
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.83
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.83
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.83
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.83
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.83
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.82
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.82
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.82
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.81
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.81
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.81
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.81
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.81
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.81
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.81
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.81
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.81
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.8
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.8
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.79
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.79
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.79
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.79
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.79
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.79
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.78
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.78
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.78
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.78
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.77
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.77
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.77
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.77
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.77
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.76
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.76
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.76
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.76
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.75
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.75
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.75
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.74
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.74
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.73
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.73
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.72
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.71
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.71
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.7
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.69
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.67
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.67
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.67
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.66
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.66
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.66
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.65
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.65
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.65
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.63
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.63
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.63
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.62
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.62
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.61
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.57
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.57
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.56
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.55
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.55
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.54
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.54
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.54
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.53
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.49
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.49
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.48
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.48
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.45
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.45
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.43
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.43
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.36
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.32
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.31
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.29
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.26
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.26
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.2
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.2
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.11
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.04
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.0
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.84
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.83
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.69
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.64
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.5
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.44
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.27
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.19
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.05
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.94
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.77
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.34
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.16
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.13
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.96
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	96.84
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.71
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	96.56
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.76
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.61

>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=99.93  E-value=3.4e-25  Score=182.34  Aligned_cols=199  Identities=26%  Similarity=0.359  Sum_probs=157.7

Q ss_pred             CCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEe
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLT  100 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  100 (248)
                      ..+++.|++++|. +..+|..+ .+++|++|++++|.+. .+|..++++++|++|++++|.+. .+|..++.+++|++|+
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~~L~  156 (328)
T 4fcg_A           80 QPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELS  156 (328)
T ss_dssp             STTCCEEEEESSC-CSSCCSCGGGGTTCSEEEEESSCCC-CCCSCGGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEE
T ss_pred             ccceeEEEccCCC-chhcChhhhhCCCCCEEECCCCCcc-chhHHHhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEE
Confidence            5788889999887 55788877 8889999999777655 78888888899999999887655 7788888888999999


Q ss_pred             ccCccCCcccccc------------cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcce
Q 041505          101 LNCCSNLQRLPDE------------LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGR  168 (248)
Q Consensus       101 l~~~~~~~~~~~~------------~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~  168 (248)
                      +++|+..+.+|..            +++|+.|++++  |.+. .+|..++.+++|+.|++++|.++.+|..+..+++|++
T Consensus       157 L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~--n~l~-~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~  233 (328)
T 4fcg_A          157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRLEW--TGIR-SLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEE  233 (328)
T ss_dssp             EEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEE--ECCC-CCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCE
T ss_pred             CCCCCCccccChhHhhccchhhhccCCCCCEEECcC--CCcC-cchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCE
Confidence            9888888888764            55677888888  4455 5788888888999999999988888888888889999


Q ss_pred             ecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhchH
Q 041505          169 LYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSE  229 (248)
Q Consensus       169 L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~  229 (248)
                      |++++|.+.+.+|..   +++|++|++++|.....++..+   ..+++|+.|++++|.+...-+
T Consensus       234 L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~---~~l~~L~~L~L~~n~~~~~iP  294 (328)
T 4fcg_A          234 LDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDI---HRLTQLEKLDLRGCVNLSRLP  294 (328)
T ss_dssp             EECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTG---GGCTTCCEEECTTCTTCCCCC
T ss_pred             EECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhh---hcCCCCCEEeCCCCCchhhcc
Confidence            999888877777754   4778888888887766666543   455688888888877654433

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

Probab=99.93  E-value=5.4e-26  Score=185.96  Aligned_cols=214  Identities=20%  Similarity=0.229  Sum_probs=161.2

Q ss_pred             hccchH---hhhhhhcCCCCccEEEccC-CCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            8 HALELF---SLYAFKQNNPHIVVLNLRD-CKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         8 ~~~~l~---~l~~~l~~l~~L~~L~l~~-~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      +.+.+.   .+|+.++.+++|++|++++ |.+.+.+|..+ .+++|++|++++|.+.+.+|..+.++++|++|++++|.+
T Consensus        58 ~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l  137 (313)
T 1ogq_A           58 SGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNAL  137 (313)
T ss_dssp             ECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEE
T ss_pred             CCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCcc
Confidence            344444   4677788888888888884 77667778777 888888888877777767888888888888888888877


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCcccccccC----CCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-ccc
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG----NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIP  157 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~----~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-~lp  157 (248)
                      .+.+|..+..+++|++|++++|.+.+.+|..+.    +++.|+++.  |.+.+.+|..++.++ |+.|++++|.++ ..|
T Consensus       138 ~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~--N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~  214 (313)
T 1ogq_A          138 SGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR--NRLTGKIPPTFANLN-LAFVDLSRNMLEGDAS  214 (313)
T ss_dssp             ESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCS--SEEEEECCGGGGGCC-CSEEECCSSEEEECCG
T ss_pred             CCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcC--CeeeccCChHHhCCc-ccEEECcCCcccCcCC
Confidence            778888888888888888888887777776554    456777877  667666777788776 888888888885 456


Q ss_pred             hhhhccCCcceecccCccccccCCC--CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ..+..+++|++|++++|.+....+.  .+++|++|+++++......+..   +..+++|+.|++++|.+...
T Consensus       215 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~---l~~l~~L~~L~Ls~N~l~~~  283 (313)
T 1ogq_A          215 VLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQG---LTQLKFLHSLNVSFNNLCGE  283 (313)
T ss_dssp             GGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGG---GGGCTTCCEEECCSSEEEEE
T ss_pred             HHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCChH---HhcCcCCCEEECcCCccccc
Confidence            6778888888888888876544443  3478888888887443344433   44566888888888888744

>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=99.93  E-value=3.2e-25  Score=182.47  Aligned_cols=214  Identities=24%  Similarity=0.293  Sum_probs=181.5

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ++++.+.+..+|+.++.+++|++|++++|.+. .+|..+ .+++|++|++++|.+. .+|..++++++|++|++++|...
T Consensus        86 L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~-~lp~~~~~l~~L~~L~Ls~n~l~-~lp~~l~~l~~L~~L~L~~n~~~  163 (328)
T 4fcg_A           86 LELRSVPLPQFPDQAFRLSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIRACPEL  163 (328)
T ss_dssp             EEEESSCCSSCCSCGGGGTTCSEEEEESSCCC-CCCSCGGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEEEETTC
T ss_pred             EEccCCCchhcChhhhhCCCCCEEECCCCCcc-chhHHHhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEECCCCCCc
Confidence            35566778889988999999999999999855 899888 9999999999887765 88999999999999999999899


Q ss_pred             CcCCccccC---------CCCCcEEeccCccCCccccccc---CCCCceEecccCCcccccccccccCCCCcCeEEccCC
Q 041505           84 NSLPSGLCK---------LKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKN  151 (248)
Q Consensus        84 ~~~~~~l~~---------l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n  151 (248)
                      +.+|..++.         +++|++|++++|.+. .+|..+   ++|+.|++++  |.+.+ +|..++.+++|+.|++++|
T Consensus       164 ~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l~~L~~L~L~~--N~l~~-l~~~l~~l~~L~~L~Ls~n  239 (328)
T 4fcg_A          164 TELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRN--SPLSA-LGPAIHHLPKLEELDLRGC  239 (328)
T ss_dssp             CCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGGCTTCCEEEEES--SCCCC-CCGGGGGCTTCCEEECTTC
T ss_pred             cccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcCCCCCCEEEccC--CCCCc-CchhhccCCCCCEEECcCC
Confidence            999988765         999999999998766 777654   4677889988  55663 7778999999999999998


Q ss_pred             cC-cccchhhhccCCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          152 NF-ERIPESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       152 ~l-~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      .+ +.+|..+..+++|++|++++|...+.+|..   +++|++|++++|.....+|..+.   .+++++.+++..+.+...
T Consensus       240 ~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~---~L~~L~~l~l~~~~~~~l  316 (328)
T 4fcg_A          240 TALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIA---QLPANCIILVPPHLQAQL  316 (328)
T ss_dssp             TTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGG---GSCTTCEEECCGGGSCC-
T ss_pred             cchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHh---hccCceEEeCCHHHHHHH
Confidence            87 577888999999999999999988888864   48899999999988888876555   555889898888876554

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

Probab=99.92  E-value=2.2e-25  Score=182.29  Aligned_cols=209  Identities=18%  Similarity=0.165  Sum_probs=179.8

Q ss_pred             ccchH-hhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            9 ALELF-SLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         9 ~~~l~-~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ++.+. .+|..++.+++|++|++++|.+.+.+|..+ .+++|++|++++|.+...+|..+..+++|++|++++|.+.+.+
T Consensus        86 ~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~  165 (313)
T 1ogq_A           86 INNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAI  165 (313)
T ss_dssp             ETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEEC
T ss_pred             CCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcC
Confidence            45555 577889999999999999999777889888 9999999999888887788999999999999999999888899


Q ss_pred             CccccCCC-CCcEEeccCccCCcccccccCC--CCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           87 PSGLCKLK-LLNYLTLNCCSNLQRLPDELGN--LEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        87 ~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~--l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                      |..++.++ +|++|++++|.+.+..|..+..  ++.|++++  |.+.+..|..++.+++|+.|++++|.++..+..+..+
T Consensus       166 p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~L~~L~Ls~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l  243 (313)
T 1ogq_A          166 PDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSR--NMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLS  243 (313)
T ss_dssp             CGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCS--SEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCC
T ss_pred             CHHHhhhhhcCcEEECcCCeeeccCChHHhCCcccEEECcC--CcccCcCCHHHhcCCCCCEEECCCCceeeecCccccc
Confidence            99999998 9999999999988888876654  66899988  7787778889999999999999999998666668889


Q ss_pred             CCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCc
Q 041505          164 SKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNW  223 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~  223 (248)
                      ++|++|++++|.+.+.+|..   +++|++|+++++.....++..    ..+++|+.+++.+|.
T Consensus       244 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~----~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          244 KNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG----GNLQRFDVSAYANNK  302 (313)
T ss_dssp             TTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS----TTGGGSCGGGTCSSS
T ss_pred             CCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCC----ccccccChHHhcCCC
Confidence            99999999999887777764   478999999988544344432    567799999999997

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

Probab=99.92  E-value=1.2e-24  Score=197.78  Aligned_cols=205  Identities=20%  Similarity=0.160  Sum_probs=105.8

Q ss_pred             hhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCC
Q 041505           16 YAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLK   94 (248)
Q Consensus        16 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~   94 (248)
                      |..++.+++|++|++++|.+.+.+|..+ .++.|++|++++|.+.+.+|..+.++++|++|++++|.+.+.+|.+++.++
T Consensus       435 p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~  514 (768)
T 3rgz_A          435 PSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLE  514 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCT
T ss_pred             cHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCC
Confidence            3444444455555555554444444444 455555555555544444555555555555555555555555555555555


Q ss_pred             CCcEEeccCccCCcccccccC---CCCceEecccCCcccccccc------------------------------------
Q 041505           95 LLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPE------------------------------------  135 (248)
Q Consensus        95 ~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~------------------------------------  135 (248)
                      +|++|++++|.+.+.+|..+.   +++.|++++  |.+.+.+|.                                    
T Consensus       515 ~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~--N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  592 (768)
T 3rgz_A          515 NLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT--NLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGN  592 (768)
T ss_dssp             TCCEEECCSSCCEEECCGGGGGCTTCCEEECCS--SEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEE
T ss_pred             CCCEEECCCCcccCcCCHHHcCCCCCCEEECCC--CccCCcCChHHhcccchhhhhcccccccccccccccccccccccc
Confidence            555555555555555554333   333445544  223222222                                    


Q ss_pred             ----------------------------------cccCCCCcCeEEccCCcCc-ccchhhhccCCcceecccCccccccC
Q 041505          136 ----------------------------------NIGQLSSLGKLDLQKNNFE-RIPESVIQLSKLGRLYLRYWERLQSL  180 (248)
Q Consensus       136 ----------------------------------~l~~~~~L~~L~l~~n~l~-~lp~~l~~~~~L~~L~l~~n~~~~~l  180 (248)
                                                        .++.+++|+.|++++|+++ .+|..++.++.|+.|++++|.+.+.+
T Consensus       593 ~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~i  672 (768)
T 3rgz_A          593 LLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSI  672 (768)
T ss_dssp             EEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCC
T ss_pred             ccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCC
Confidence                                              2233445556666666653 55566666666666666666655555


Q ss_pred             CCC---CcccceeccccccccccchhhcccccccccccccccccCcch
Q 041505          181 PKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIE  225 (248)
Q Consensus       181 ~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~  225 (248)
                      |..   +++|++|+++++.-...+|..+.   .++.|+.+++++|.+.
T Consensus       673 p~~l~~L~~L~~LdLs~N~l~g~ip~~l~---~l~~L~~L~ls~N~l~  717 (768)
T 3rgz_A          673 PDEVGDLRGLNILDLSSNKLDGRIPQAMS---ALTMLTEIDLSNNNLS  717 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEECCCGGGG---GCCCCSEEECCSSEEE
T ss_pred             ChHHhCCCCCCEEECCCCcccCcCChHHh---CCCCCCEEECcCCccc
Confidence            543   25566666666543334443333   3346666666666664

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

Probab=99.91  E-value=1.5e-23  Score=190.52  Aligned_cols=233  Identities=23%  Similarity=0.237  Sum_probs=177.1

Q ss_pred             ccchH-hhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            9 ALELF-SLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         9 ~~~l~-~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      .+.+. .+|..++.+++|++|++++|.+.+.+|..+ .+++|++|++++|...+.+|..+..+++|++|++++|.+.+.+
T Consensus       403 ~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~  482 (768)
T 3rgz_A          403 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEI  482 (768)
T ss_dssp             SSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCC
T ss_pred             CCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcC
Confidence            33344 567778888999999999988777788878 8889999999888887788888888999999999988888888


Q ss_pred             CccccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-ccchhh--
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESV--  160 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-~lp~~l--  160 (248)
                      |..++.+++|++|++++|.+.+.+|..++   +++.|++++  |.+.+.+|..++.+++|+.|++++|.++ .+|..+  
T Consensus       483 p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~--N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~  560 (768)
T 3rgz_A          483 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSN--NSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFK  560 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCS--SCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGT
T ss_pred             CHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCC--CcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhc
Confidence            88888899999999999888888887544   566888888  6677778888899999999999988774 555432  


Q ss_pred             --------------------------------------------------------------------hccCCcceeccc
Q 041505          161 --------------------------------------------------------------------IQLSKLGRLYLR  172 (248)
Q Consensus       161 --------------------------------------------------------------------~~~~~L~~L~l~  172 (248)
                                                                                          ..+++|+.|+++
T Consensus       561 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs  640 (768)
T 3rgz_A          561 QSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMS  640 (768)
T ss_dssp             TTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECC
T ss_pred             ccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECc
Confidence                                                                                224677888898


Q ss_pred             CccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhhheecccC
Q 041505          173 YWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       173 ~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      +|.+.+.+|..   ++.|+.|+++++.-...+|..+.   .++.|+.|++++|.+....++.+..+ +.|+...+.|+
T Consensus       641 ~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~---~L~~L~~LdLs~N~l~g~ip~~l~~l-~~L~~L~ls~N  714 (768)
T 3rgz_A          641 YNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG---DLRGLNILDLSSNKLDGRIPQAMSAL-TMLTEIDLSNN  714 (768)
T ss_dssp             SSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGG---GCTTCCEEECCSSCCEECCCGGGGGC-CCCSEEECCSS
T ss_pred             CCcccccCCHHHhccccCCEEeCcCCccCCCCChHHh---CCCCCCEEECCCCcccCcCChHHhCC-CCCCEEECcCC
Confidence            88887777764   47788888888754445554444   55588889999998876555444333 44555555554

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

Probab=99.91  E-value=2e-24  Score=192.39  Aligned_cols=217  Identities=13%  Similarity=0.151  Sum_probs=141.1

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcc-----------------cCCcc---ccCcccEEEcCCCCCccccChhhhc
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKS-----------------LPAGI---HLEFLKELDLLNGTAIEELPSAIEC   68 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~-----------------~~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~   68 (248)
                      ++.+..+|+.++.+++|++|++++|.+.+.                 +|..+   .+++|++|++++|...+.+|..+++
T Consensus       192 ~n~l~~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~  271 (636)
T 4eco_A          192 SNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKA  271 (636)
T ss_dssp             SCEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTT
T ss_pred             cCCCccCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhc
Confidence            345556777777788888888888775553                 66665   3777888888777777777777777


Q ss_pred             ccCCCEEeccCCc-CcC-cCCccccCC------CCCcEEeccCccCCccccc--ccC---CCCceEecccCCcccccccc
Q 041505           69 LYKLLHLDLEYCE-SLN-SLPSGLCKL------KLLNYLTLNCCSNLQRLPD--ELG---NLEALWISREAGVISRWLPE  135 (248)
Q Consensus        69 l~~L~~L~l~~~~-~~~-~~~~~l~~l------~~L~~L~l~~~~~~~~~~~--~~~---~l~~L~l~~~~n~~~~~~~~  135 (248)
                      +++|++|++++|. +.+ .+|..++.+      ++|++|++++|.+. .+|.  .++   +|+.|+++.  |.+.+.+| 
T Consensus       272 l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~--N~l~g~ip-  347 (636)
T 4eco_A          272 LPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLY--NQLEGKLP-  347 (636)
T ss_dssp             CSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCS--CCCEEECC-
T ss_pred             CCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcC--CcCccchh-
Confidence            8888888887776 555 677766665      77777777776666 6665  333   455667776  55665666 


Q ss_pred             cccCCCCcCeEEccCCcCcccchhhhccCC-cceecccCccccccCCCCC-----cccceeccccccccccchhhccccc
Q 041505          136 NIGQLSSLGKLDLQKNNFERIPESVIQLSK-LGRLYLRYWERLQSLPKLP-----CKLHELDAHHCTALESLSGLFSSFE  209 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~-L~~L~l~~n~~~~~l~~~~-----~~L~~L~l~~~~~l~~~~~~~~~l~  209 (248)
                      .++.+++|+.|++++|.++.+|..+..+++ |++|++++|.+. .+|..+     ++|++|+++++......+..+....
T Consensus       348 ~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~  426 (636)
T 4eco_A          348 AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLD  426 (636)
T ss_dssp             CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTC
T ss_pred             hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc-ccchhhhhcccCccCEEECcCCcCCCcchhhhcccc
Confidence            677777777777777777777777777777 777777777644 555432     2567777766633322222221000


Q ss_pred             ----ccccccccccccCcchhchHH
Q 041505          210 ----ARTRYFDLRYNYNWIEMRSEE  230 (248)
Q Consensus       210 ----~l~~L~~l~l~~n~i~~~~~~  230 (248)
                          .+++|+.|++++|.+...+..
T Consensus       427 ~~~~~~~~L~~L~Ls~N~l~~lp~~  451 (636)
T 4eco_A          427 PTPFKGINVSSINLSNNQISKFPKE  451 (636)
T ss_dssp             SSCCCCCCEEEEECCSSCCCSCCTH
T ss_pred             cccccCCCCCEEECcCCccCcCCHH
Confidence                334556666666665544433

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

Probab=99.90  E-value=5.1e-24  Score=189.77  Aligned_cols=176  Identities=18%  Similarity=0.221  Sum_probs=144.9

Q ss_pred             hhhhhc--CCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCC-Ccc-ccChhhhcc------cCCCEEeccCCcCc
Q 041505           15 LYAFKQ--NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGT-AIE-ELPSAIECL------YKLLHLDLEYCESL   83 (248)
Q Consensus        15 l~~~l~--~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~-~~~-~~~~~~~~l------~~L~~L~l~~~~~~   83 (248)
                      +|+.++  .+++|++|++++|.+.+.+|..+ .+++|++|++++|. +.+ .+|..++.+      ++|++|++++|.+.
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~  318 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK  318 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC
Confidence            898888  99999999999999999999989 99999999999888 666 789888887      99999999998776


Q ss_pred             CcCCc--cccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCC-cCeEEccCCcCcccc
Q 041505           84 NSLPS--GLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSS-LGKLDLQKNNFERIP  157 (248)
Q Consensus        84 ~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~-L~~L~l~~n~l~~lp  157 (248)
                       .+|.  .++.+++|++|++++|.+.+.+| .++   +++.|++++  |.+. .+|..++.+++ |+.|++++|.++.+|
T Consensus       319 -~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~--N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~~lp  393 (636)
T 4eco_A          319 -TFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAY--NQIT-EIPANFCGFTEQVENLSFAHNKLKYIP  393 (636)
T ss_dssp             -SCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCS--SEEE-ECCTTSEEECTTCCEEECCSSCCSSCC
T ss_pred             -ccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCC--Cccc-cccHhhhhhcccCcEEEccCCcCcccc
Confidence             8898  89999999999999998887888 544   566888888  5555 68888888888 999999999988888


Q ss_pred             hhhhccC--CcceecccCccccccCCCCCc----------ccceeccccc
Q 041505          158 ESVIQLS--KLGRLYLRYWERLQSLPKLPC----------KLHELDAHHC  195 (248)
Q Consensus       158 ~~l~~~~--~L~~L~l~~n~~~~~l~~~~~----------~L~~L~l~~~  195 (248)
                      ..+...+  +|++|++++|.+....|..++          +|++|+++++
T Consensus       394 ~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N  443 (636)
T 4eco_A          394 NIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN  443 (636)
T ss_dssp             SCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSS
T ss_pred             hhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCC
Confidence            7665544  788888888776655544332          5666666655

>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=99.89  E-value=4.1e-23  Score=176.83  Aligned_cols=62  Identities=21%  Similarity=0.178  Sum_probs=31.1

Q ss_pred             cccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCccccccCCCC---Ccccceeccccc
Q 041505          134 PENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHC  195 (248)
Q Consensus       134 ~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~  195 (248)
                      |..++.+++|+.|++++|.++.+ |..+..+++|++|++++|.+....+..   +++|++|+++++
T Consensus       292 ~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N  357 (455)
T 3v47_A          292 KSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYN  357 (455)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSS
T ss_pred             hhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCC
Confidence            33455555666666666655443 335555555555555555443222221   245555555544

>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=99.89  E-value=5.1e-22  Score=160.11  Aligned_cols=215  Identities=20%  Similarity=0.128  Sum_probs=168.6

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCc-Cc
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE-SL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~   83 (248)
                      +.+...++.+|..+  .+++++|++++|.+.+..+..+ .+++|++|++++|.+....|..+.++++|++|++++|. +.
T Consensus        17 ~c~~~~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~   94 (285)
T 1ozn_A           17 SCPQQGLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLR   94 (285)
T ss_dssp             ECCSSCCSSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCC
T ss_pred             EcCcCCcccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCcc
Confidence            34455677777544  5799999999998544444556 89999999998887666557889999999999999987 44


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-h
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-S  159 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~  159 (248)
                      ...|..+..+++|++|++++|.+.+..|..   +++|++|++++  |.+.+..+..++.+++|+.|++++|+++.+|. .
T Consensus        95 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  172 (285)
T 1ozn_A           95 SVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD--NALQALPDDTFRDLGNLTHLFLHGNRISSVPERA  172 (285)
T ss_dssp             CCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTT
T ss_pred             ccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCC--CcccccCHhHhccCCCccEEECCCCcccccCHHH
Confidence            444778999999999999998887665654   45677889988  66665455668999999999999999988875 5


Q ss_pred             hhccCCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          160 VIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       160 l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +..+++|++|++++|.+....|..   +++|++|+++++. +...+.  ..+..+++|+.+++++|.+..+
T Consensus       173 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~--~~~~~l~~L~~L~l~~N~~~c~  240 (285)
T 1ozn_A          173 FRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANN-LSALPT--EALAPLRALQYLRLNDNPWVCD  240 (285)
T ss_dssp             TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CSCCCH--HHHTTCTTCCEEECCSSCEECS
T ss_pred             hcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCc-CCcCCH--HHcccCcccCEEeccCCCccCC
Confidence            889999999999999876554543   4789999999873 333322  2345677999999999998754

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

Probab=99.89  E-value=4.8e-23  Score=187.95  Aligned_cols=216  Identities=16%  Similarity=0.156  Sum_probs=160.0

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCc-----------------ccCCcc---ccCcccEEEcCCCCCccccChhhhcc
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLK-----------------SLPAGI---HLEFLKELDLLNGTAIEELPSAIECL   69 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~-----------------~~~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~l   69 (248)
                      +.+..+|..++.+++|++|++++|.+.+                 .+|..+   .+++|++|++++|...+.+|..++++
T Consensus       435 N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L  514 (876)
T 4ecn_A          435 NRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDL  514 (876)
T ss_dssp             CEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGC
T ss_pred             CcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCC
Confidence            4555588889999999999999998766                 278775   68999999998888888899889999


Q ss_pred             cCCCEEeccCCc-CcC-cCCccccCCC-------CCcEEeccCccCCccccc--cc---CCCCceEecccCCcccccccc
Q 041505           70 YKLLHLDLEYCE-SLN-SLPSGLCKLK-------LLNYLTLNCCSNLQRLPD--EL---GNLEALWISREAGVISRWLPE  135 (248)
Q Consensus        70 ~~L~~L~l~~~~-~~~-~~~~~l~~l~-------~L~~L~l~~~~~~~~~~~--~~---~~l~~L~l~~~~n~~~~~~~~  135 (248)
                      ++|++|++++|. +.+ .+|..++.++       +|++|++++|.+. .+|.  .+   ++|+.|+++.  |.+. .+| 
T Consensus       515 ~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L~Ls~--N~l~-~lp-  589 (876)
T 4ecn_A          515 PELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFPASASLQKMVKLGLLDCVH--NKVR-HLE-  589 (876)
T ss_dssp             SSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCHHHHTTCTTCCEEECTT--SCCC-BCC-
T ss_pred             CCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccCChhhhhcCCCCCEEECCC--CCcc-cch-
Confidence            999999999987 666 6787666655       9999999998777 7777  44   4566888888  5555 577 


Q ss_pred             cccCCCCcCeEEccCCcCcccchhhhccCC-cceecccCccccccCCCCC-----cccceeccccccccccchhhccccc
Q 041505          136 NIGQLSSLGKLDLQKNNFERIPESVIQLSK-LGRLYLRYWERLQSLPKLP-----CKLHELDAHHCTALESLSGLFSSFE  209 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~-L~~L~l~~n~~~~~l~~~~-----~~L~~L~l~~~~~l~~~~~~~~~l~  209 (248)
                      .++.+++|+.|++++|.++.+|..+..+++ |++|++++|.+. .+|..+     ++|+.|+++++......+.....+.
T Consensus       590 ~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~-~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~  668 (876)
T 4ecn_A          590 AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMD  668 (876)
T ss_dssp             CCCTTSEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCC-SCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTT
T ss_pred             hhcCCCcceEEECcCCccccchHHHhhccccCCEEECcCCCCC-cCchhhhccccCCCCEEECcCCcCCCccccchhhhc
Confidence            888899999999999999888888888888 999999998755 666543     2378888877633222221111111


Q ss_pred             --ccccccccccccCcchhchHHH
Q 041505          210 --ARTRYFDLRYNYNWIEMRSEEF  231 (248)
Q Consensus       210 --~l~~L~~l~l~~n~i~~~~~~~  231 (248)
                        ..++|+.|++++|.+...+..+
T Consensus       669 ~~~~~~L~~L~Ls~N~L~~lp~~~  692 (876)
T 4ecn_A          669 DYKGINASTVTLSYNEIQKFPTEL  692 (876)
T ss_dssp             TCCCCCEEEEECCSSCCCSCCHHH
T ss_pred             cccCCCcCEEEccCCcCCccCHHH
Confidence              2335666666666666444433

>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=99.89  E-value=1.1e-22  Score=174.24  Aligned_cols=120  Identities=18%  Similarity=0.104  Sum_probs=74.5

Q ss_pred             chhhccchHhh-hhhhcCCCCccEEEccCCCCCcccC-Ccc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCc
Q 041505            5 VDDHALELFSL-YAFKQNNPHIVVLNLRDCKSLKSLP-AGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         5 ~~~~~~~l~~l-~~~l~~l~~L~~L~l~~~~~~~~~~-~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   81 (248)
                      ++++.+.+..+ |..++.+++|++|++++|.+.+.++ ..+ .+++|++|++++|.+....|..++++++|++|++++|.
T Consensus        35 L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~  114 (455)
T 3v47_A           35 VDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCN  114 (455)
T ss_dssp             EECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSC
T ss_pred             EEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCC
Confidence            34455556665 3556777777777777776554553 334 67777777776666655556667777777777777766


Q ss_pred             CcCcCCcc--ccCCCCCcEEeccCccCCccccc----ccCCCCceEecc
Q 041505           82 SLNSLPSG--LCKLKLLNYLTLNCCSNLQRLPD----ELGNLEALWISR  124 (248)
Q Consensus        82 ~~~~~~~~--l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~l~~  124 (248)
                      +.+..+..  +..+++|++|++++|.+.+..|.    .++++++|++++
T Consensus       115 l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~  163 (455)
T 3v47_A          115 LDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTF  163 (455)
T ss_dssp             CBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTT
T ss_pred             CCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCC
Confidence            65544333  66667777777777666554443    234555666655

>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=99.88  E-value=6.5e-22  Score=170.52  Aligned_cols=217  Identities=19%  Similarity=0.119  Sum_probs=136.9

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ...+..+|..+  .+++++|++++|.+.+..+..+ .+++|++|++++|.+....|..+.++++|++|++++|.+....+
T Consensus        20 ~~~l~~ip~~~--~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~   97 (477)
T 2id5_A           20 RKRFVAVPEGI--PTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPL   97 (477)
T ss_dssp             SCCCSSCCSCC--CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCT
T ss_pred             CCCcCcCCCCC--CCCCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCc
Confidence            44566666544  3577888888877444445566 78888888887776655556777888888888888765554444


Q ss_pred             ccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhcc
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQL  163 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~  163 (248)
                      ..+..+++|++|++++|.+.+..+..   +.+|++|++..  |.+.+..+..+..+++|+.|++++|.++.+|. .+..+
T Consensus        98 ~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l  175 (477)
T 2id5_A           98 GVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD--NDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHL  175 (477)
T ss_dssp             TSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECC--TTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTC
T ss_pred             ccccCCCCCCEEECCCCccccCChhHccccccCCEEECCC--CccceeChhhccCCCCCCEEECCCCcCcccChhHhccc
Confidence            45677788888888877766554443   44566777777  55555456667777788888888887776654 56777


Q ss_pred             CCcceecccCccccccCCC---CCcccceeccccccccccchhhc---------------------cccccccccccccc
Q 041505          164 SKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLF---------------------SSFEARTRYFDLRY  219 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~---------------------~~l~~l~~L~~l~l  219 (248)
                      ++|+.|+++.|.+....+.   .+++|+.|++++|..+..++...                     ..+..+++|+.|++
T Consensus       176 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L  255 (477)
T 2id5_A          176 HGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNL  255 (477)
T ss_dssp             TTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEEC
T ss_pred             CCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeEC
Confidence            7777777777754332221   23556666666554333332211                     12234456666666


Q ss_pred             ccCcchhchH
Q 041505          220 NYNWIEMRSE  229 (248)
Q Consensus       220 ~~n~i~~~~~  229 (248)
                      ++|.+...+.
T Consensus       256 s~n~l~~~~~  265 (477)
T 2id5_A          256 SYNPISTIEG  265 (477)
T ss_dssp             CSSCCCEECT
T ss_pred             CCCcCCccCh
Confidence            6666655443

>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=99.88  E-value=4.6e-22  Score=176.15  Aligned_cols=185  Identities=21%  Similarity=0.125  Sum_probs=114.8

Q ss_pred             hccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            8 HALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         8 ~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      +.+.+..+++ .++.+++|++|++++|. +..+|..+ .+++|++|++++|.+....|..+.++++|++|++++|...+.
T Consensus       262 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~  340 (606)
T 3t6q_A          262 QKHYFFNISSNTFHCFSGLQELDLTATH-LSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLE  340 (606)
T ss_dssp             TTCCCSSCCTTTTTTCTTCSEEECTTSC-CSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCB
T ss_pred             ecCccCccCHHHhccccCCCEEeccCCc-cCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccc
Confidence            3445555553 37778888888888886 55777777 788888888877766555566677788888888887766655


Q ss_pred             CCcc-ccCCCCCcEEeccCccCCccc--cc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-c-
Q 041505           86 LPSG-LCKLKLLNYLTLNCCSNLQRL--PD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-P-  157 (248)
Q Consensus        86 ~~~~-l~~l~~L~~L~l~~~~~~~~~--~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p-  157 (248)
                      +|.. +..+++|++|++++|...+..  +.   .++++++|++++  |...+..|..++.+++|+.|++++|.++.. | 
T Consensus       341 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  418 (606)
T 3t6q_A          341 LGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSY--NEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQ  418 (606)
T ss_dssp             CCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCS--CSCEEECTTTTTTCTTCSEEECTTCCEECCTTC
T ss_pred             cchhhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCC--CcCCcCCHHHhcCCccCCeEECCCCcCCCcccc
Confidence            5544 667777777777776665433  22   344555666666  444444455566666666666666665432 2 


Q ss_pred             hhhhccCCcceecccCccccccCCCC---Ccccceeccccc
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHC  195 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~  195 (248)
                      ..+..+++|++|++++|.+....|..   +++|++|+++++
T Consensus       419 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n  459 (606)
T 3t6q_A          419 SPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGN  459 (606)
T ss_dssp             CTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTC
T ss_pred             hhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCC
Confidence            23555566666666666543333322   345555555554

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

Probab=99.87  E-value=1.5e-22  Score=184.80  Aligned_cols=175  Identities=18%  Similarity=0.212  Sum_probs=144.6

Q ss_pred             hhhhhc--CCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCC-Ccc-ccChhhhccc-------CCCEEeccCCcC
Q 041505           15 LYAFKQ--NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGT-AIE-ELPSAIECLY-------KLLHLDLEYCES   82 (248)
Q Consensus        15 l~~~l~--~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~-~~~-~~~~~~~~l~-------~L~~L~l~~~~~   82 (248)
                      +|+.++  .+++|++|++++|.+.+.+|..+ .+++|++|++++|. +.. .+|..++.++       +|++|++++|.+
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L  560 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNL  560 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcC
Confidence            888877  99999999999999899999888 99999999998887 665 6888888776       999999999877


Q ss_pred             cCcCCc--cccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccCCCC-cCeEEccCCcCccc
Q 041505           83 LNSLPS--GLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQLSS-LGKLDLQKNNFERI  156 (248)
Q Consensus        83 ~~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~-L~~L~l~~n~l~~l  156 (248)
                      . .+|.  .++.+++|++|++++|.+. .+| .++   +|+.|++++  |.+. .+|..+..+++ |+.|++++|.++.+
T Consensus       561 ~-~ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~Ls~--N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~~l  634 (876)
T 4ecn_A          561 E-EFPASASLQKMVKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKLDY--NQIE-EIPEDFCAFTDQVEGLGFSHNKLKYI  634 (876)
T ss_dssp             C-BCCCHHHHTTCTTCCEEECTTSCCC-BCC-CCCTTSEESEEECCS--SCCS-CCCTTSCEECTTCCEEECCSSCCCSC
T ss_pred             C-ccCChhhhhcCCCCCEEECCCCCcc-cch-hhcCCCcceEEECcC--Cccc-cchHHHhhccccCCEEECcCCCCCcC
Confidence            6 8898  8999999999999998876 777 555   455888888  5565 68888999998 99999999999988


Q ss_pred             chhhhccC--CcceecccCccccccCCCCC--------cccceeccccc
Q 041505          157 PESVIQLS--KLGRLYLRYWERLQSLPKLP--------CKLHELDAHHC  195 (248)
Q Consensus       157 p~~l~~~~--~L~~L~l~~n~~~~~l~~~~--------~~L~~L~l~~~  195 (248)
                      |..+...+  +|+.|++++|.+...+|..+        ++|+.|++++|
T Consensus       635 p~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N  683 (876)
T 4ecn_A          635 PNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN  683 (876)
T ss_dssp             CSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSS
T ss_pred             chhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCC
Confidence            88776654  48888888887755444322        36777777665

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.87  E-value=3.3e-22  Score=163.37  Aligned_cols=198  Identities=20%  Similarity=0.093  Sum_probs=158.4

Q ss_pred             CCCCccEEEccCCCCCcccCCcc---ccCcccEEEcCCCCCccccChhhhcc-----cCCCEEeccCCcCcCcCCccccC
Q 041505           21 NNPHIVVLNLRDCKSLKSLPAGI---HLEFLKELDLLNGTAIEELPSAIECL-----YKLLHLDLEYCESLNSLPSGLCK   92 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~~~~~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~~~~~~l~~   92 (248)
                      .+++|++|++++|.+.+.+|..+   .+++|++|++++|.+... |..++.+     ++|++|++++|.+.+..|..++.
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~  171 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRV  171 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhcc
Confidence            68999999999999777888763   799999999987776555 8778887     99999999999887777788999


Q ss_pred             CCCCcEEeccCccCCcc--cc-----cccCCCCceEecccCCcccc--ccc-ccccCCCCcCeEEccCCcCcccc--hhh
Q 041505           93 LKLLNYLTLNCCSNLQR--LP-----DELGNLEALWISREAGVISR--WLP-ENIGQLSSLGKLDLQKNNFERIP--ESV  160 (248)
Q Consensus        93 l~~L~~L~l~~~~~~~~--~~-----~~~~~l~~L~l~~~~n~~~~--~~~-~~l~~~~~L~~L~l~~n~l~~lp--~~l  160 (248)
                      +++|++|++++|.+.+.  +|     ..++++++|++++  |.+.+  .++ ..+..+++|+.|++++|.++..+  ..+
T Consensus       172 l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~  249 (312)
T 1wwl_A          172 FPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRN--AGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC  249 (312)
T ss_dssp             CSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTT--SCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCC
T ss_pred             CCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCC--CcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhh
Confidence            99999999999887654  22     4567888999998  55552  233 33568899999999999997654  456


Q ss_pred             hccCCcceecccCccccccCCCCC-cccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          161 IQLSKLGRLYLRYWERLQSLPKLP-CKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~~~~~l~~~~-~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ..+++|++|++++|.+. .+|..+ ++|++|+++++ .++..+.    +..+++|+.+++++|.+...
T Consensus       250 ~~l~~L~~L~Ls~N~l~-~ip~~~~~~L~~L~Ls~N-~l~~~p~----~~~l~~L~~L~L~~N~l~~~  311 (312)
T 1wwl_A          250 DWPSQLNSLNLSFTGLK-QVPKGLPAKLSVLDLSYN-RLDRNPS----PDELPQVGNLSLKGNPFLDS  311 (312)
T ss_dssp             CCCTTCCEEECTTSCCS-SCCSSCCSEEEEEECCSS-CCCSCCC----TTTSCEEEEEECTTCTTTCC
T ss_pred             hhcCCCCEEECCCCccC-hhhhhccCCceEEECCCC-CCCCChh----HhhCCCCCEEeccCCCCCCC
Confidence            67899999999999765 666643 68999999987 4455433    56778999999999998754

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

Probab=99.87  E-value=9.1e-22  Score=168.06  Aligned_cols=202  Identities=21%  Similarity=0.173  Sum_probs=90.5

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      +..+++|++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+....+..+..+++|+
T Consensus        84 ~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~  163 (440)
T 3zyj_A           84 FKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLR  163 (440)
T ss_dssp             TSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCC
T ss_pred             hhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccC
Confidence            4444444444444444222222233 444444444433332221122344444444444444433332233344444444


Q ss_pred             EEeccCccCCccccc----ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceeccc
Q 041505           98 YLTLNCCSNLQRLPD----ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLR  172 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~----~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~  172 (248)
                      +|++++|+..+.++.    .+.+|+.|++++  |.+. .+| .+..+++|+.|++++|.++.+ |..+..+++|+.|+++
T Consensus       164 ~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~--n~l~-~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  239 (440)
T 3zyj_A          164 RLDLGELKRLSYISEGAFEGLSNLRYLNLAM--CNLR-EIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMI  239 (440)
T ss_dssp             EEECCCCTTCCEECTTTTTTCSSCCEEECTT--SCCS-SCC-CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECT
T ss_pred             EeCCCCCCCcceeCcchhhcccccCeecCCC--CcCc-ccc-ccCCCcccCEEECCCCccCccChhhhccCccCCEEECC
Confidence            444444433333332    233344455544  2232 122 345555555555555555444 3455555666666666


Q ss_pred             CccccccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          173 YWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       173 ~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +|.+....+.   .+++|++|+++++ .+..++.  ..+..+++|+.+++++|.+.-+
T Consensus       240 ~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~--~~~~~l~~L~~L~L~~Np~~Cd  294 (440)
T 3zyj_A          240 QSQIQVIERNAFDNLQSLVEINLAHN-NLTLLPH--DLFTPLHHLERIHLHHNPWNCN  294 (440)
T ss_dssp             TCCCCEECTTSSTTCTTCCEEECTTS-CCCCCCT--TTTSSCTTCCEEECCSSCEECS
T ss_pred             CCceeEEChhhhcCCCCCCEEECCCC-CCCccCh--hHhccccCCCEEEcCCCCccCC
Confidence            5544332222   2355666666655 2232221  2233455677777777766543

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

Probab=99.87  E-value=5.4e-21  Score=169.28  Aligned_cols=232  Identities=20%  Similarity=0.154  Sum_probs=117.2

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC----------------------
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP----------------------   63 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~----------------------   63 (248)
                      ++.+.+..+|..++.+++|++|++++|.+.+..|..+ .++.|++|++++|.....+|                      
T Consensus       285 l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  364 (606)
T 3t6q_A          285 LTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIET  364 (606)
T ss_dssp             CTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCE
T ss_pred             ccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCcccc
Confidence            3444556666666666666666666665444334344 55555555555544433333                      


Q ss_pred             -----hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc----ccCCCCceEecccCCccccccc
Q 041505           64 -----SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD----ELGNLEALWISREAGVISRWLP  134 (248)
Q Consensus        64 -----~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~l~~~~n~~~~~~~  134 (248)
                           ..+.++++|++|++++|.+.+..|..+..+++|++|++++|...+..+.    .+++++.|++++  |...+..|
T Consensus       365 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~  442 (606)
T 3t6q_A          365 SDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH--SLLDISSE  442 (606)
T ss_dssp             EEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTT--CCCBTTCT
T ss_pred             ccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCC--CccCCcCH
Confidence                 3344444444444444444434444444455555555555444333222    233444555555  34444445


Q ss_pred             ccccCCCCcCeEEccCCcCcc--cc--hhhhccCCcceecccCccccccCCCC---Ccccceeccccccccccchhhccc
Q 041505          135 ENIGQLSSLGKLDLQKNNFER--IP--ESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSS  207 (248)
Q Consensus       135 ~~l~~~~~L~~L~l~~n~l~~--lp--~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~  207 (248)
                      ..++.+++|+.|++++|.++.  ++  ..+..+++|++|++++|.+....|..   +++|++|+++++......+   ..
T Consensus       443 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~---~~  519 (606)
T 3t6q_A          443 QLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSI---EA  519 (606)
T ss_dssp             TTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCGGGG---GG
T ss_pred             HHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCccCcCCh---hH
Confidence            556666666666666666542  11  34566666666666666554433332   3566667766653222222   22


Q ss_pred             ccccccccccccccCcchhchHHHHHHHHhhhhheecc
Q 041505          208 FEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLH  245 (248)
Q Consensus       208 l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~  245 (248)
                      +..++.| .+++++|.+...+++.+..+ +.++...+.
T Consensus       520 l~~l~~L-~L~L~~N~l~~~~~~~~~~l-~~L~~L~l~  555 (606)
T 3t6q_A          520 LSHLKGI-YLNLASNHISIILPSLLPIL-SQQRTINLR  555 (606)
T ss_dssp             GTTCCSC-EEECCSSCCCCCCGGGHHHH-HTSSEEECT
T ss_pred             hCccccc-EEECcCCcccccCHhhcccC-CCCCEEeCC
Confidence            3344455 66666666665544444333 334444333

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

Probab=99.87  E-value=2.7e-21  Score=162.52  Aligned_cols=181  Identities=18%  Similarity=0.107  Sum_probs=99.6

Q ss_pred             ccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChh-hhcccCCCEEeccCCcCcCc
Q 041505            9 ALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSA-IECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         9 ~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~   85 (248)
                      .+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+. .+|.. +.++++|++|++++|.+.+.
T Consensus        78 ~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l~~~  156 (390)
T 3o6n_A           78 DLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERI  156 (390)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCBC
T ss_pred             CCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccC-cCCHHHhcCCCCCcEEECCCCccCcc
Confidence            34444444 245555666666666655333333444 5666666666444433 44433 45666666666666555544


Q ss_pred             CCccccCCCCCcEEeccCccCCcccccccCCCCc----------------------------------------eEeccc
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEA----------------------------------------LWISRE  125 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~----------------------------------------L~l~~~  125 (248)
                      .+..+..+++|++|++++|.+.+.-...+++++.                                        |++++ 
T Consensus       157 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~-  235 (390)
T 3o6n_A          157 EDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQH-  235 (390)
T ss_dssp             CTTTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCS-
T ss_pred             ChhhccCCCCCCEEECCCCcCCccccccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCC-
Confidence            4555666666666666665544322222222222                                        22222 


Q ss_pred             CCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCccccccCCC---CCcccceeccccc
Q 041505          126 AGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHC  195 (248)
Q Consensus       126 ~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~  195 (248)
                       |.+.+  +..++.+++|+.|++++|.++.+ |..+..+++|++|++++|.+.. ++.   .+++|++|+++++
T Consensus       236 -n~l~~--~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-~~~~~~~l~~L~~L~L~~n  305 (390)
T 3o6n_A          236 -NNLTD--TAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHN  305 (390)
T ss_dssp             -SCCCC--CGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCE-EECSSSCCTTCCEEECCSS
T ss_pred             -CCCcc--cHHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcc-cCcccCCCCCCCEEECCCC
Confidence             11221  13466677788888888887654 5677777888888888776432 222   3467777777766

>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=99.87  E-value=7.3e-22  Score=169.20  Aligned_cols=214  Identities=22%  Similarity=0.177  Sum_probs=130.1

Q ss_pred             hhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            7 DHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         7 ~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      ++.+.+..++ ..++.+++|++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+..
T Consensus        82 L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~  161 (452)
T 3zyi_A           82 LMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIES  161 (452)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCE
T ss_pred             CcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCCcce
Confidence            3444455543 445666666666666665443334445 56666666665555433223345666666666666655443


Q ss_pred             cCCccccCCCCCcEEeccCccCCccccc----ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-chh
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPD----ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PES  159 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~  159 (248)
                      ..+..+..+++|++|++++|+..+.++.    .+.+|+.|++++  |.+.+ +| .+..+++|+.|++++|.++.+ |..
T Consensus       162 ~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~--n~l~~-~~-~~~~l~~L~~L~Ls~N~l~~~~~~~  237 (452)
T 3zyi_A          162 IPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM--CNIKD-MP-NLTPLVGLEELEMSGNHFPEIRPGS  237 (452)
T ss_dssp             ECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTT--SCCSS-CC-CCTTCTTCCEEECTTSCCSEECGGG
T ss_pred             eCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCC--Ccccc-cc-cccccccccEEECcCCcCcccCccc
Confidence            3344556666666666666555555443    344566777766  44442 33 467777888888888887655 557


Q ss_pred             hhccCCcceecccCccccccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          160 VIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       160 l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +..+++|+.|++++|.+....+.   .+++|+.|+++++ .+..++.  ..+..+++|+.+++++|.+.-+
T Consensus       238 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~--~~~~~l~~L~~L~L~~Np~~Cd  305 (452)
T 3zyi_A          238 FHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHN-NLSSLPH--DLFTPLRYLVELHLHHNPWNCD  305 (452)
T ss_dssp             GTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCT--TSSTTCTTCCEEECCSSCEECS
T ss_pred             ccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCC-cCCccCh--HHhccccCCCEEEccCCCcCCC
Confidence            77888888888888866544333   2467888888876 3343332  2344567888888888887654

>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=99.87  E-value=2.9e-21  Score=165.47  Aligned_cols=229  Identities=17%  Similarity=0.055  Sum_probs=172.7

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ...+..+|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+....+
T Consensus        63 ~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  140 (452)
T 3zyi_A           63 RRGLSEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPS  140 (452)
T ss_dssp             SSCCSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCT
T ss_pred             CCCcCccCCCCC--CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccCh
Confidence            345667776443  789999999998666667777 89999999998887766666789999999999999987766556


Q ss_pred             ccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCccccccc-ccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLP-ENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~-~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                      ..+..+++|++|++++|.+....+.   .+++|+.|+++.+.  ..+.++ ..+..+++|+.|++++|+++.+| .+..+
T Consensus       141 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~--~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l  217 (452)
T 3zyi_A          141 GAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK--KLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPL  217 (452)
T ss_dssp             TTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCT--TCCEECTTTTTTCTTCCEEECTTSCCSSCC-CCTTC
T ss_pred             hhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCC--CccccChhhccCCCCCCEEECCCCcccccc-ccccc
Confidence            6688899999999999876643333   45567788998742  333344 46899999999999999999887 47789


Q ss_pred             CCcceecccCccccccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhh
Q 041505          164 SKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLN  240 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~  240 (248)
                      ++|++|++++|.+....|.   .+++|+.|+++++......+   ..+..+++|+.|++++|.+...+.+.+..+ +.|+
T Consensus       218 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~---~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l-~~L~  293 (452)
T 3zyi_A          218 VGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIER---NAFDGLASLVELNLAHNNLSSLPHDLFTPL-RYLV  293 (452)
T ss_dssp             TTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECT---TTTTTCTTCCEEECCSSCCSCCCTTSSTTC-TTCC
T ss_pred             ccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECH---HHhcCCCCCCEEECCCCcCCccChHHhccc-cCCC
Confidence            9999999999987655444   34789999999874332222   335567799999999999987765443332 4444


Q ss_pred             heeccc
Q 041505          241 FWQLHY  246 (248)
Q Consensus       241 ~~~~~~  246 (248)
                      ...++.
T Consensus       294 ~L~L~~  299 (452)
T 3zyi_A          294 ELHLHH  299 (452)
T ss_dssp             EEECCS
T ss_pred             EEEccC
Confidence            444443

>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=99.87  E-value=8.3e-22  Score=169.85  Aligned_cols=219  Identities=19%  Similarity=0.108  Sum_probs=125.4

Q ss_pred             hhhccchHhh-hhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            6 DDHALELFSL-YAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         6 ~~~~~~l~~l-~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      +++.+.+..+ |..++.+++|++|++++|. +..+|. .+ .+++|++|++++|.+....|..+.++++|++|++++|.+
T Consensus        62 ~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l  140 (477)
T 2id5_A           62 ELNENIVSAVEPGAFNNLFNLRTLGLRSNR-LKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDL  140 (477)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTC
T ss_pred             ECCCCccCEeChhhhhCCccCCEEECCCCc-CCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCcc
Confidence            3445566666 4668888888888888887 445554 44 788888888877776666666778888888888888776


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccC----------------------Ccccccccccc
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREA----------------------GVISRWLPENI  137 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~----------------------n~~~~~~~~~l  137 (248)
                      .+..+..+..+++|++|++++|.+.+..+.   .+++|+.|++..+.                      +...+.++...
T Consensus       141 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  220 (477)
T 2id5_A          141 VYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNC  220 (477)
T ss_dssp             CEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTT
T ss_pred             ceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCccc
Confidence            666666677777777777777655433222   23334444444411                      11222223222


Q ss_pred             cCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCCC---CCcccceeccccccccccchhhccccccccc
Q 041505          138 GQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTR  213 (248)
Q Consensus       138 ~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~  213 (248)
                      ....+|+.|++++|.++.+|. .+..+++|++|++++|.+....+.   .+++|++|+++++......+   ..+..+++
T Consensus       221 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~---~~~~~l~~  297 (477)
T 2id5_A          221 LYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEP---YAFRGLNY  297 (477)
T ss_dssp             TTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECT---TTBTTCTT
T ss_pred             ccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECH---HHhcCccc
Confidence            233355555555566655553 456666777777766654322221   23456666665542211111   12223445


Q ss_pred             ccccccccCcchhch
Q 041505          214 YFDLRYNYNWIEMRS  228 (248)
Q Consensus       214 L~~l~l~~n~i~~~~  228 (248)
                      |+.|++++|.+...+
T Consensus       298 L~~L~L~~N~l~~~~  312 (477)
T 2id5_A          298 LRVLNVSGNQLTTLE  312 (477)
T ss_dssp             CCEEECCSSCCSCCC
T ss_pred             CCEEECCCCcCceeC
Confidence            555555555554443

>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=99.87  E-value=2.6e-21  Score=171.23  Aligned_cols=184  Identities=17%  Similarity=0.093  Sum_probs=103.5

Q ss_pred             hccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcCcC
Q 041505            8 HALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         8 ~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +.+.+..+++ .++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+. .+|. .++++++|++|++++|.+.+
T Consensus        83 ~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~Ls~N~l~~  161 (597)
T 3oja_B           83 NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLER  161 (597)
T ss_dssp             TTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCB
T ss_pred             CCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCC-CCCHHHhccCCCCCEEEeeCCcCCC
Confidence            3444555442 55566666666666665444334444 5666666666555443 3333 34666666666666665555


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccC--------------------------------------
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREA--------------------------------------  126 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~--------------------------------------  126 (248)
                      ..|..++.+++|++|++++|.+.+.-+..++++..|+++++.                                      
T Consensus       162 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~  241 (597)
T 3oja_B          162 IEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQH  241 (597)
T ss_dssp             CCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCS
T ss_pred             CChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCC
Confidence            555556666666666666665543322233333222222100                                      


Q ss_pred             CcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCccccccCCC---CCcccceeccccc
Q 041505          127 GVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHC  195 (248)
Q Consensus       127 n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~  195 (248)
                      |.+.  -+..++.+++|+.|++++|.++.+ |..+..+++|+.|++++|.+.. +|.   .+++|+.|++++|
T Consensus       242 n~l~--~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N  311 (597)
T 3oja_B          242 NNLT--DTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHN  311 (597)
T ss_dssp             SCCC--CCGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSS
T ss_pred             CCCC--CChhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCC
Confidence            1122  124466777788888888877544 5677777888888887776533 222   2467777777766

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

Probab=99.87  E-value=2.8e-21  Score=165.01  Aligned_cols=229  Identities=18%  Similarity=0.121  Sum_probs=172.7

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ...++.+|..+.  ++++.|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+....+
T Consensus        52 ~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~  129 (440)
T 3zyj_A           52 RKNLREVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPN  129 (440)
T ss_dssp             SCCCSSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCT
T ss_pred             CCCcCcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCH
Confidence            445677776553  789999999998555555677 89999999998887665556789999999999999987665555


Q ss_pred             ccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCccccccc-ccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLP-ENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~-~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                      ..+..+++|++|++++|.+....+.   .+++|+.|++..+  .....++ ..+.++++|+.|++++|.++.+|. +..+
T Consensus       130 ~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~--~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l  206 (440)
T 3zyj_A          130 GAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGEL--KRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPL  206 (440)
T ss_dssp             TTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCC--TTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-CTTC
T ss_pred             hHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCC--CCcceeCcchhhcccccCeecCCCCcCccccc-cCCC
Confidence            6789999999999999876644333   4567778899874  3333344 468999999999999999999874 7889


Q ss_pred             CCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhh
Q 041505          164 SKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLN  240 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~  240 (248)
                      ++|++|++++|.+....+..   +++|+.|+++++. +..+.  ...+..+++|+.|++++|.+...+.+.+..+ +.|+
T Consensus       207 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~--~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l-~~L~  282 (440)
T 3zyj_A          207 IKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQ-IQVIE--RNAFDNLQSLVEINLAHNNLTLLPHDLFTPL-HHLE  282 (440)
T ss_dssp             SSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC-CCEEC--TTSSTTCTTCCEEECTTSCCCCCCTTTTSSC-TTCC
T ss_pred             cccCEEECCCCccCccChhhhccCccCCEEECCCCc-eeEEC--hhhhcCCCCCCEEECCCCCCCccChhHhccc-cCCC
Confidence            99999999999766544443   4789999999874 33332  2345567799999999999987765444332 4444


Q ss_pred             heeccc
Q 041505          241 FWQLHY  246 (248)
Q Consensus       241 ~~~~~~  246 (248)
                      ...++.
T Consensus       283 ~L~L~~  288 (440)
T 3zyj_A          283 RIHLHH  288 (440)
T ss_dssp             EEECCS
T ss_pred             EEEcCC
Confidence            444443

>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=99.86  E-value=2e-21  Score=158.18  Aligned_cols=215  Identities=20%  Similarity=0.124  Sum_probs=140.8

Q ss_pred             hhccchHhhhhh-hcCCCCccEEEccCCCCCc--ccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            7 DHALELFSLYAF-KQNNPHIVVLNLRDCKSLK--SLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         7 ~~~~~l~~l~~~-l~~l~~L~~L~l~~~~~~~--~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++.+.+..+|.. ++.+++|++|++++|.+..  ..+..+ .+++|++|++++|.+ ..+|..+..+++|++|++++|.+
T Consensus        35 L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i-~~l~~~~~~l~~L~~L~l~~n~l  113 (306)
T 2z66_A           35 LESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGV-ITMSSNFLGLEQLEHLDFQHSNL  113 (306)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSE-EEEEEEEETCTTCCEEECTTSEE
T ss_pred             CCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCcc-ccChhhcCCCCCCCEEECCCCcc
Confidence            344555566643 5666777777777765332  123334 566777777755543 34565567777777777777655


Q ss_pred             cCcCC-ccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcCccc-
Q 041505           83 LNSLP-SGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNFERI-  156 (248)
Q Consensus        83 ~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l~~l-  156 (248)
                      .+..+ ..+..+++|++|++++|...+..+..   ++++++|++++  |.+.+ .+|..++.+++|+.|++++|.++.+ 
T Consensus       114 ~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  191 (306)
T 2z66_A          114 KQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG--NSFQENFLPDIFTELRNLTFLDLSQCQLEQLS  191 (306)
T ss_dssp             ESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTT--CEEGGGEECSCCTTCTTCCEEECTTSCCCEEC
T ss_pred             cccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCC--CccccccchhHHhhCcCCCEEECCCCCcCCcC
Confidence            44333 45777788888888887766555543   34566777777  55554 4677788888888888888888766 


Q ss_pred             chhhhccCCcceecccCccccccCCC---CCcccceeccccccccccchhhccccccc-ccccccccccCcchhc
Q 041505          157 PESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEAR-TRYFDLRYNYNWIEMR  227 (248)
Q Consensus       157 p~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l-~~L~~l~l~~n~i~~~  227 (248)
                      |..+..+++|++|++++|.+....+.   .+++|++|+++++......+.   .+..+ ++|+.+++++|.+..+
T Consensus       192 ~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~---~~~~~~~~L~~L~L~~N~~~~~  263 (306)
T 2z66_A          192 PTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQ---ELQHFPSSLAFLNLTQNDFACT  263 (306)
T ss_dssp             TTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSS---SCCCCCTTCCEEECTTCCEECS
T ss_pred             HHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCHH---HHHhhhccCCEEEccCCCeecc
Confidence            56778888888888888865433221   247788888888743332222   23344 3899999999998765

>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=99.86  E-value=4e-22  Score=162.28  Aligned_cols=213  Identities=24%  Similarity=0.191  Sum_probs=167.0

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCc-c-ccCcccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCc
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAG-I-HLEFLKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~-~-~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +...++.+|..+  .+++++|++++|. +..+|.. + .+++|++|++++|.+..  ..+..+.++++|++|++++|.+ 
T Consensus        15 ~~~~l~~ip~~~--~~~l~~L~L~~n~-l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i-   90 (306)
T 2z66_A           15 NSKGLTSVPTGI--PSSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGV-   90 (306)
T ss_dssp             CSSCCSSCCSCC--CTTCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSE-
T ss_pred             CCCCcccCCCCC--CCCCCEEECCCCc-cCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCcc-
Confidence            344577777644  3789999999998 5567665 4 89999999998877643  2367788899999999999754 


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccc----cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcc--cc
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLP----DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFER--IP  157 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~----~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~--lp  157 (248)
                      ..+|..+..+++|++|++++|.+.+..+    ..++++++|++++  |...+..+..++.+++|+.|++++|.++.  +|
T Consensus        91 ~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  168 (306)
T 2z66_A           91 ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH--THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLP  168 (306)
T ss_dssp             EEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTT--SCCEECSTTTTTTCTTCCEEECTTCEEGGGEEC
T ss_pred             ccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCC--CcCCccchhhcccCcCCCEEECCCCccccccch
Confidence            4677789999999999999987665432    3456788999998  66766677889999999999999999964  78


Q ss_pred             hhhhccCCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhchH
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSE  229 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~  229 (248)
                      ..+..+++|++|++++|.+....|..   +++|++|+++++. +...+.  ..+..+++|+.+++++|.+....+
T Consensus       169 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~--~~~~~l~~L~~L~L~~N~l~~~~~  240 (306)
T 2z66_A          169 DIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN-FFSLDT--FPYKCLNSLQVLDYSLNHIMTSKK  240 (306)
T ss_dssp             SCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CSBCCS--GGGTTCTTCCEEECTTSCCCBCSS
T ss_pred             hHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCc-cCccCh--hhccCcccCCEeECCCCCCcccCH
Confidence            88999999999999999876554543   4789999999874 333322  234567799999999999977654

>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=99.86  E-value=5.9e-21  Score=157.01  Aligned_cols=216  Identities=18%  Similarity=0.189  Sum_probs=146.0

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-------------------
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-------------------   63 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-------------------   63 (248)
                      ++++.+.+..++. .++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+. .+|                   
T Consensus        57 L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~~L~~L~l~~n~l~~  135 (330)
T 1xku_A           57 LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-ELPEKMPKTLQELRVHENEITK  135 (330)
T ss_dssp             EECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCS-BCCSSCCTTCCEEECCSSCCCB
T ss_pred             EECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCC-ccChhhcccccEEECCCCcccc
Confidence            4556667777774 67788888888888887555557777 7888888888666532 333                   


Q ss_pred             ---hhhhcccCCCEEeccCCcCcC--cCCccccCCCCCcEEeccCccCCccccc-ccCCCCceEecccCCcccccccccc
Q 041505           64 ---SAIECLYKLLHLDLEYCESLN--SLPSGLCKLKLLNYLTLNCCSNLQRLPD-ELGNLEALWISREAGVISRWLPENI  137 (248)
Q Consensus        64 ---~~~~~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~l~~~~n~~~~~~~~~l  137 (248)
                         ..+.++++|++|++++|.+..  ..+..+..+++|++|++++|.+. .+|. ...++++|++++  |.+.+..+..+
T Consensus       136 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~L~~L~l~~--n~l~~~~~~~~  212 (330)
T 1xku_A          136 VRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQGLPPSLTELHLDG--NKITKVDAASL  212 (330)
T ss_dssp             BCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCSSCCTTCSEEECTT--SCCCEECTGGG
T ss_pred             cCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccc-cCCccccccCCEEECCC--CcCCccCHHHh
Confidence               235566666666666655432  44555666777777777775544 3443 335677888877  55665556778


Q ss_pred             cCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCCCC---Ccccceeccccccccccchhh-cccc---c
Q 041505          138 GQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGL-FSSF---E  209 (248)
Q Consensus       138 ~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~-~~~l---~  209 (248)
                      +.+++|+.|++++|.++.++. .+..+++|++|++++|.+. .+|..   .++|++|+++++. ++.++.. +...   .
T Consensus       213 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~-i~~~~~~~f~~~~~~~  290 (330)
T 1xku_A          213 KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNN-ISAIGSNDFCPPGYNT  290 (330)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSSC-CCCCCTTSSSCSSCCT
T ss_pred             cCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEECCCCc-CCccChhhcCCccccc
Confidence            888899999999998876654 7788889999999988654 55543   3678888888773 3443322 2111   1


Q ss_pred             ccccccccccccCcchh
Q 041505          210 ARTRYFDLRYNYNWIEM  226 (248)
Q Consensus       210 ~l~~L~~l~l~~n~i~~  226 (248)
                      ..+.+..+++.+|.+..
T Consensus       291 ~~~~l~~l~l~~N~~~~  307 (330)
T 1xku_A          291 KKASYSGVSLFSNPVQY  307 (330)
T ss_dssp             TSCCCSEEECCSSSSCG
T ss_pred             ccccccceEeecCcccc
Confidence            34678888888888764

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

Probab=99.86  E-value=1.4e-20  Score=158.27  Aligned_cols=232  Identities=18%  Similarity=0.064  Sum_probs=157.5

Q ss_pred             hhhccchHhhhhh-hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAF-KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~-l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ..+.+.+..+|.. +..+++|++|++++|.+.+..+..+ .+++|++|++++|.+....|..++++++|++|++++|.+.
T Consensus        51 ~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~  130 (390)
T 3o6n_A           51 TFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS  130 (390)
T ss_dssp             EEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccC
Confidence            3455667788854 6789999999999998544444566 8999999999888766655677899999999999997655


Q ss_pred             CcCCcc-ccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccccccccccC--------------------
Q 041505           84 NSLPSG-LCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQ--------------------  139 (248)
Q Consensus        84 ~~~~~~-l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~--------------------  139 (248)
                       .+|.. +..+++|++|++++|.+.+..|..   +++++.|++++  |.+.+.....+..                    
T Consensus       131 -~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L  207 (390)
T 3o6n_A          131 -SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSS--NRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAV  207 (390)
T ss_dssp             -CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCS--SCCSBCCGGGCTTCSEEECCSSCCSEEECCSSC
T ss_pred             -cCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCC--CcCCccccccccccceeecccccccccCCCCcc
Confidence             55554 588999999999998877665554   45677888887  4443221111111                    


Q ss_pred             -----------------CCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC---CCcccceeccccccccc
Q 041505          140 -----------------LSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALE  199 (248)
Q Consensus       140 -----------------~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~  199 (248)
                                       .++|+.|++++|.++.. ..+..+++|++|++++|.+....|.   .+++|++|+++++ .+.
T Consensus       208 ~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n-~l~  285 (390)
T 3o6n_A          208 EELDASHNSINVVRGPVNVELTILKLQHNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNN-RLV  285 (390)
T ss_dssp             SEEECCSSCCCEEECCCCSSCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSS-CCC
T ss_pred             eEEECCCCeeeeccccccccccEEECCCCCCccc-HHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCC-cCc
Confidence                             12455555555555544 3567788888888888876554443   2478888888886 344


Q ss_pred             cchhhcccccccccccccccccCcchhchHHHHHHHHhhhhheecccC
Q 041505          200 SLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       200 ~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      .++...   ..+++|+.|++++|.+...+..+ .. ++.|+...+..+
T Consensus       286 ~~~~~~---~~l~~L~~L~L~~n~l~~~~~~~-~~-l~~L~~L~L~~N  328 (390)
T 3o6n_A          286 ALNLYG---QPIPTLKVLDLSHNHLLHVERNQ-PQ-FDRLENLYLDHN  328 (390)
T ss_dssp             EEECSS---SCCTTCCEEECCSSCCCCCGGGH-HH-HTTCSEEECCSS
T ss_pred             ccCccc---CCCCCCCEEECCCCcceecCccc-cc-cCcCCEEECCCC
Confidence            443322   35678899999999887664432 22 345555554443

>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=99.86  E-value=6e-21  Score=158.42  Aligned_cols=216  Identities=19%  Similarity=0.096  Sum_probs=144.4

Q ss_pred             hhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcC
Q 041505            6 DDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCES   82 (248)
Q Consensus         6 ~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~   82 (248)
                      +++.+.+..++. .++.+++|++|++++|.+.+..+..+ .+++|++|++++|.+. .+|. .++++++|++|++++|.+
T Consensus        58 ~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~~~~~~~~~l~~L~~L~L~~n~l  136 (353)
T 2z80_A           58 DLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS-NLSSSWFKPLSSLTFLNLLGNPY  136 (353)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCS-SCCHHHHTTCTTCSEEECTTCCC
T ss_pred             ECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCC-cCCHhHhCCCccCCEEECCCCCC
Confidence            445556666664 57777888888888877544445556 7788888888666544 4454 377788888888887654


Q ss_pred             cCcCCc--cccCCCCCcEEeccCccCCccc-ccccC---CCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc
Q 041505           83 LNSLPS--GLCKLKLLNYLTLNCCSNLQRL-PDELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI  156 (248)
Q Consensus        83 ~~~~~~--~l~~l~~L~~L~l~~~~~~~~~-~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l  156 (248)
                      . .+|.  .+..+++|++|++++|+..+.+ +..+.   ++++|++++  |.+.+..|..++.+++|+.|++++|.++.+
T Consensus       137 ~-~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~  213 (353)
T 2z80_A          137 K-TLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDA--SDLQSYEPKSLKSIQNVSHLILHMKQHILL  213 (353)
T ss_dssp             S-SSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEE--TTCCEECTTTTTTCSEEEEEEEECSCSTTH
T ss_pred             c-ccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCC--CCcCccCHHHHhccccCCeecCCCCccccc
Confidence            4 4444  5777888888888877544443 33343   455677777  556655677788888888888888888777


Q ss_pred             chh-hhccCCcceecccCccccccCCC----------------------------------CCcccceeccccccccccc
Q 041505          157 PES-VIQLSKLGRLYLRYWERLQSLPK----------------------------------LPCKLHELDAHHCTALESL  201 (248)
Q Consensus       157 p~~-l~~~~~L~~L~l~~n~~~~~l~~----------------------------------~~~~L~~L~l~~~~~l~~~  201 (248)
                      |.. +..+++|++|++++|.+....+.                                  .+++|++|+++++ .++.+
T Consensus       214 ~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N-~l~~i  292 (353)
T 2z80_A          214 LEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSV  292 (353)
T ss_dssp             HHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSS-CCCCC
T ss_pred             hhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCC-CCCcc
Confidence            654 44578888888888865432111                                  1356777887776 34444


Q ss_pred             hhhcccccccccccccccccCcchhch
Q 041505          202 SGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       202 ~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +..  .+..+++|+.+++++|.+..+.
T Consensus       293 ~~~--~~~~l~~L~~L~L~~N~~~~~~  317 (353)
T 2z80_A          293 PDG--IFDRLTSLQKIWLHTNPWDCSC  317 (353)
T ss_dssp             CTT--TTTTCTTCCEEECCSSCBCCCH
T ss_pred             CHH--HHhcCCCCCEEEeeCCCccCcC
Confidence            332  2345678888889888887664

>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=99.86  E-value=3.1e-21  Score=167.93  Aligned_cols=117  Identities=13%  Similarity=0.086  Sum_probs=78.8

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+. .+|..  .+++|++|++++|.+
T Consensus        26 L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~--~l~~L~~L~L~~N~l  102 (520)
T 2z7x_B           26 LNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLV-KISCH--PTVNLKHLDLSFNAF  102 (520)
T ss_dssp             EECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCC-EEECC--CCCCCSEEECCSSCC
T ss_pred             EECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCcee-ecCcc--ccCCccEEeccCCcc
Confidence            344555566665 467778888888888887555556666 7888888888666543 56654  778888888887766


Q ss_pred             cC-cCCccccCCCCCcEEeccCccCCcccccccCCC--CceEecc
Q 041505           83 LN-SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNL--EALWISR  124 (248)
Q Consensus        83 ~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l--~~L~l~~  124 (248)
                      .+ .+|..++.+++|++|++++|.+.+.....+.++  +.|++.+
T Consensus       103 ~~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~l~~  147 (520)
T 2z7x_B          103 DALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVL  147 (520)
T ss_dssp             SSCCCCGGGGGCTTCCEEEEEESSCCGGGGGGGTTSCEEEEEEEE
T ss_pred             ccccchhhhccCCcceEEEecCcccchhhccccccceeeEEEeec
Confidence            65 467778888888888887776654333444444  4555544

>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=99.86  E-value=1.2e-20  Score=166.90  Aligned_cols=233  Identities=16%  Similarity=0.029  Sum_probs=158.3

Q ss_pred             hhhccchHhhhhh-hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAF-KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~-l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ..+.+.+..+|+. +..+++|++|++++|.+.+..|..+ .+++|++|++++|.+....|..++++++|++|++++|.+.
T Consensus        57 ~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~  136 (597)
T 3oja_B           57 TFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS  136 (597)
T ss_dssp             EESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCC
Confidence            4455667778754 6779999999999998555555577 8999999999888766655667899999999999998666


Q ss_pred             CcCCccccCCCCCcEEeccCccCCccccccc---CCCCceEecccCCcccccccccccC----------------C----
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIGQ----------------L----  140 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~~----------------~----  140 (248)
                      +..+..++.+++|++|++++|.+.+..|..+   ++|+.|++++  |.+.+..+..+..                .    
T Consensus       137 ~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~--N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~  214 (597)
T 3oja_B          137 SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSS--NRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVE  214 (597)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTT--SCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCS
T ss_pred             CCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcC--CCCCCcChhhhhhhhhhhcccCccccccCCchhh
Confidence            4444446889999999999988877766544   4566888888  4444321111111                1    


Q ss_pred             -----------------CCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCC---Ccccceecccccccccc
Q 041505          141 -----------------SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALES  200 (248)
Q Consensus       141 -----------------~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~  200 (248)
                                       ++|+.|++++|.++.. ..+..+++|++|++++|.+....|..   +++|+.|+++++ .+..
T Consensus       215 ~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~  292 (597)
T 3oja_B          215 ELDASHNSINVVRGPVNVELTILKLQHNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNN-RLVA  292 (597)
T ss_dssp             EEECCSSCCCEEECSCCSCCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTS-CCCE
T ss_pred             eeeccCCcccccccccCCCCCEEECCCCCCCCC-hhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCC-CCCC
Confidence                             2344445555554443 45677888888888888765554432   477888888876 3344


Q ss_pred             chhhcccccccccccccccccCcchhchHHHHHHHHhhhhheecccC
Q 041505          201 LSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       201 ~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      ++...   ..+++|+.|++++|.+...+..+ .. ++.|+...+.++
T Consensus       293 l~~~~---~~l~~L~~L~Ls~N~l~~i~~~~-~~-l~~L~~L~L~~N  334 (597)
T 3oja_B          293 LNLYG---QPIPTLKVLDLSHNHLLHVERNQ-PQ-FDRLENLYLDHN  334 (597)
T ss_dssp             EECSS---SCCTTCCEEECCSSCCCCCGGGH-HH-HTTCSEEECCSS
T ss_pred             CCccc---ccCCCCcEEECCCCCCCccCccc-cc-CCCCCEEECCCC
Confidence            43322   35678999999999888664432 22 355555555443

>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=99.85  E-value=2.3e-21  Score=169.66  Aligned_cols=169  Identities=17%  Similarity=0.097  Sum_probs=102.2

Q ss_pred             hhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +++.+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+....|..++++++|++|++++|.+.
T Consensus        32 ~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~  111 (549)
T 2z81_A           32 DLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ  111 (549)
T ss_dssp             ECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCS
T ss_pred             ECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCccc
Confidence            34445555554 456677777777777776444444555 6777777777666554444445777777777777776555


Q ss_pred             C-cCCccccCCCCCcEEeccCccCCccccc-ccC---CCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch
Q 041505           84 N-SLPSGLCKLKLLNYLTLNCCSNLQRLPD-ELG---NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE  158 (248)
Q Consensus        84 ~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~---~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~  158 (248)
                      + ..|..++.+++|++|++++|...+.+|. .+.   ++++|++++  |.+.+..|..++.+++|+.|++++|.++.+|.
T Consensus       112 ~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~--n~l~~~~~~~l~~l~~L~~L~l~~n~~~~~~~  189 (549)
T 2z81_A          112 TLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKA--LSLRNYQSQSLKSIRDIHHLTLHLSESAFLLE  189 (549)
T ss_dssp             SSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEE--TTCCEECTTTTTTCSEEEEEEEECSBSTTHHH
T ss_pred             ccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccC--CcccccChhhhhccccCceEecccCcccccch
Confidence            4 3455677777777777777665555542 333   344666666  45555556666666666666666555554444


Q ss_pred             hh-hccCCcceecccCccc
Q 041505          159 SV-IQLSKLGRLYLRYWER  176 (248)
Q Consensus       159 ~l-~~~~~L~~L~l~~n~~  176 (248)
                      .+ ..+++|++|++++|.+
T Consensus       190 ~~~~~l~~L~~L~L~~n~l  208 (549)
T 2z81_A          190 IFADILSSVRYLELRDTNL  208 (549)
T ss_dssp             HHHHSTTTBSEEEEESCBC
T ss_pred             hhHhhcccccEEEccCCcc
Confidence            32 3456666666666654

>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=99.85  E-value=2e-20  Score=150.03  Aligned_cols=211  Identities=19%  Similarity=0.103  Sum_probs=162.7

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      .+..+|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+.+..+..
T Consensus        18 ~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~   95 (276)
T 2z62_A           18 NFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGA   95 (276)
T ss_dssp             CCSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTT
T ss_pred             CccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhh
Confidence            4556666443  679999999998554444466 8999999999888765555567999999999999998877777788


Q ss_pred             ccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcCcccc-hhhhccC
Q 041505           90 LCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNFERIP-ESVIQLS  164 (248)
Q Consensus        90 l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l~~~~  164 (248)
                      +..+++|++|++++|.+.+..+.   .++++++|++++  |.+.+ .+|..++.+++|+.|++++|+++.++ ..+..++
T Consensus        96 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~  173 (276)
T 2z62_A           96 FSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH--NLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLH  173 (276)
T ss_dssp             TTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS--SCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHH
T ss_pred             hcCCccccEEECCCCCccccCchhcccCCCCCEEECcC--CccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhh
Confidence            99999999999999887655443   455677999988  55654 36889999999999999999998775 4677777


Q ss_pred             Ccc----eecccCccccccCCCC--CcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          165 KLG----RLYLRYWERLQSLPKL--PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       165 ~L~----~L~l~~n~~~~~l~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +++    .|++++|.+....+..  ..+|++|+++++. ++.++.  ..+..+++|+.+++++|.+..+.
T Consensus       174 ~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~-l~~~~~--~~~~~l~~L~~L~l~~N~~~c~c  240 (276)
T 2z62_A          174 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQ-LKSVPD--GIFDRLTSLQKIWLHTNPWDCSC  240 (276)
T ss_dssp             TCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSC-CSCCCT--TTTTTCCSCCEEECCSSCBCCCT
T ss_pred             hccccceeeecCCCcccccCccccCCCcccEEECCCCc-eeecCH--hHhcccccccEEEccCCcccccC
Confidence            777    8899999765433332  2479999999874 454433  33456779999999999998664

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

Probab=99.85  E-value=1.1e-20  Score=155.50  Aligned_cols=214  Identities=18%  Similarity=0.148  Sum_probs=137.6

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+ ..+|..+.  ++|++|++++|.+
T Consensus        59 L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l-~~l~~~~~--~~L~~L~l~~n~i  135 (332)
T 2ft3_A           59 LDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHL-VEIPPNLP--SSLVELRIHDNRI  135 (332)
T ss_dssp             EECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCC-CSCCSSCC--TTCCEEECCSSCC
T ss_pred             EECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcC-CccCcccc--ccCCEEECCCCcc
Confidence            445566677775 468888899999999988555556667 788899999866654 35565443  6777777777665


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCc--cccccc-----------------------CCCCceEecccCCcccccccccc
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQ--RLPDEL-----------------------GNLEALWISREAGVISRWLPENI  137 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~~-----------------------~~l~~L~l~~~~n~~~~~~~~~l  137 (248)
                      ....+..+..+++|++|++++|....  ..+..+                       .++++|++++  |.+.+..+..+
T Consensus       136 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~--n~i~~~~~~~l  213 (332)
T 2ft3_A          136 RKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDH--NKIQAIELEDL  213 (332)
T ss_dssp             CCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCS--SCCCCCCTTSS
T ss_pred             CccCHhHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCC--CcCCccCHHHh
Confidence            54444456777777777777766532  223222                       2455555555  44554445667


Q ss_pred             cCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCCCC---Ccccceeccccccccccchhh-ccccc---
Q 041505          138 GQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGL-FSSFE---  209 (248)
Q Consensus       138 ~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~-~~~l~---  209 (248)
                      ..+++|+.|++++|.++.++. .+..+++|++|++++|.+. .+|..   +++|++|+++++. ++.++.. +....   
T Consensus       214 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~~~  291 (332)
T 2ft3_A          214 LRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGV  291 (332)
T ss_dssp             TTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCC-BCCTTGGGCTTCCEEECCSSC-CCBCCTTSSSCSSCCS
T ss_pred             cCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCe-ecChhhhcCccCCEEECCCCC-CCccChhHcccccccc
Confidence            777788888888887766653 6777788888888877544 55543   3667777777763 3333321 21111   


Q ss_pred             ccccccccccccCcch
Q 041505          210 ARTRYFDLRYNYNWIE  225 (248)
Q Consensus       210 ~l~~L~~l~l~~n~i~  225 (248)
                      ..+.|+.+++.+|.+.
T Consensus       292 ~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          292 KRAYYNGISLFNNPVP  307 (332)
T ss_dssp             SSCCBSEEECCSSSSC
T ss_pred             ccccccceEeecCccc
Confidence            2456777788887765

>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=99.85  E-value=8.9e-21  Score=165.04  Aligned_cols=76  Identities=18%  Similarity=0.079  Sum_probs=56.4

Q ss_pred             chhhccchHhh-hhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCcc-ccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSL-YAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIE-ELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..+ |..++.+++|++|++++|. +..+|.. .+++|++|++++|.+.. .+|..++++++|++|++++|.+
T Consensus        50 L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp~~-~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l  127 (520)
T 2z7x_B           50 LIISHNRIQYLDISVFKFNQELEYLDLSHNK-LVKISCH-PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHL  127 (520)
T ss_dssp             EECCSSCCCEEEGGGGTTCTTCCEEECCSSC-CCEEECC-CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSC
T ss_pred             EecCCCccCCcChHHhhcccCCCEEecCCCc-eeecCcc-ccCCccEEeccCCccccccchhhhccCCcceEEEecCccc
Confidence            34556667776 4678888899999999887 4567666 78888888887777655 4677788888888888777654

>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=99.85  E-value=1.5e-20  Score=151.48  Aligned_cols=191  Identities=23%  Similarity=0.232  Sum_probs=154.6

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccCCc
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~   81 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|..+..+ |..+..+++|++|++++|.
T Consensus        37 L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~  116 (285)
T 1ozn_A           37 IFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG  116 (285)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             EEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCc
Confidence            345667777877 468899999999999998665557777 8999999999888745555 6779999999999999988


Q ss_pred             CcCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-c
Q 041505           82 SLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-P  157 (248)
Q Consensus        82 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p  157 (248)
                      +.+..|..+..+++|++|++++|.+.+..+.   .+++++.|++++  |.+.+..+..+..+++|+.|++++|.++.+ |
T Consensus       117 l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  194 (285)
T 1ozn_A          117 LQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG--NRISSVPERAFRGLHSLDRLLLHQNRVAHVHP  194 (285)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCCEECTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             CCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCC--CcccccCHHHhcCccccCEEECCCCcccccCH
Confidence            8777788899999999999999877655444   355778999998  556654445699999999999999999766 7


Q ss_pred             hhhhccCCcceecccCccccccCCC---CCcccceeccccccc
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTA  197 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~  197 (248)
                      ..+..+++|++|++++|.+....+.   ..++|++|++++++-
T Consensus       195 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          195 HAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (285)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             hHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCc
Confidence            7899999999999999976543222   357899999988744

>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=99.85  E-value=4.3e-21  Score=159.27  Aligned_cols=234  Identities=16%  Similarity=0.198  Sum_probs=169.6

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +.+.+.++.+|..+.  ++|++|++++|. +..++. .+ .+++|++|++++|.+....|..+.++++|++|++++|.+.
T Consensus        37 ~~~~~~l~~iP~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~  113 (353)
T 2z80_A           37 KGSSGSLNSIPSGLT--EAVKSLDLSNNR-ITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS  113 (353)
T ss_dssp             ECCSTTCSSCCTTCC--TTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCS
T ss_pred             eCCCCCccccccccc--ccCcEEECCCCc-CcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCC
Confidence            445566777886554  589999999998 455554 66 8999999999888766655677999999999999998766


Q ss_pred             CcCCccccCCCCCcEEeccCccCCccccc-----ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-c
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPD-----ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-P  157 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-----~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p  157 (248)
                      +..+..+..+++|++|++++|.+.+ +|.     .++++++|+++++. ......+..++.+++|+.|++++|.++.+ |
T Consensus       114 ~~~~~~~~~l~~L~~L~L~~n~l~~-l~~~~~~~~l~~L~~L~l~~n~-~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  191 (353)
T 2z80_A          114 NLSSSWFKPLSSLTFLNLLGNPYKT-LGETSLFSHLTKLQILRVGNMD-TFTKIQRKDFAGLTFLEELEIDASDLQSYEP  191 (353)
T ss_dssp             SCCHHHHTTCTTCSEEECTTCCCSS-SCSSCSCTTCTTCCEEEEEESS-SCCEECTTTTTTCCEEEEEEEEETTCCEECT
T ss_pred             cCCHhHhCCCccCCEEECCCCCCcc-cCchhhhccCCCCcEEECCCCc-cccccCHHHccCCCCCCEEECCCCCcCccCH
Confidence            4444448899999999999977663 443     45677899998831 34443466799999999999999999765 7


Q ss_pred             hhhhccCCcceecccCccccccCCC----CCcccceeccccccccccch-hh----------------------------
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPK----LPCKLHELDAHHCTALESLS-GL----------------------------  204 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~----~~~~L~~L~l~~~~~l~~~~-~~----------------------------  204 (248)
                      ..+..+++|++|++++|.+ +.+|.    .+++|++|+++++.. ...+ ..                            
T Consensus       192 ~~l~~l~~L~~L~l~~n~l-~~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l  269 (353)
T 2z80_A          192 KSLKSIQNVSHLILHMKQH-ILLLEIFVDVTSSVECLELRDTDL-DTFHFSELSTGETNSLIKKFTFRNVKITDESLFQV  269 (353)
T ss_dssp             TTTTTCSEEEEEEEECSCS-TTHHHHHHHHTTTEEEEEEESCBC-TTCCCC------CCCCCCEEEEESCBCCHHHHHHH
T ss_pred             HHHhccccCCeecCCCCcc-ccchhhhhhhcccccEEECCCCcc-ccccccccccccccchhhccccccccccCcchhhh
Confidence            7899999999999999975 33333    257899999988732 2211 00                            


Q ss_pred             cccccccccccccccccCcchhchHHHHHHHHhhhhheecccC
Q 041505          205 FSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       205 ~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      ...+..+++|+.|++++|.+...+...+.. ++.|+...+.++
T Consensus       270 ~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~-l~~L~~L~L~~N  311 (353)
T 2z80_A          270 MKLLNQISGLLELEFSRNQLKSVPDGIFDR-LTSLQKIWLHTN  311 (353)
T ss_dssp             HHHHHTCTTCCEEECCSSCCCCCCTTTTTT-CTTCCEEECCSS
T ss_pred             HHHHhcccCCCEEECCCCCCCccCHHHHhc-CCCCCEEEeeCC
Confidence            112335678888888888887665433332 345555555443

>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=99.85  E-value=3.3e-21  Score=169.38  Aligned_cols=117  Identities=15%  Similarity=0.074  Sum_probs=78.3

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..|..+ .+++|++|++++|.+ ..+|..  .+++|++|++++|.+
T Consensus        57 L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l-~~lp~~--~l~~L~~L~Ls~N~l  133 (562)
T 3a79_B           57 LSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRL-QNISCC--PMASLRHLDLSFNDF  133 (562)
T ss_dssp             EECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCC-CEECSC--CCTTCSEEECCSSCC
T ss_pred             EECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcC-CccCcc--ccccCCEEECCCCCc
Confidence            345566666666 467778888888888887555556666 788888888866664 466664  788888888888766


Q ss_pred             cC-cCCccccCCCCCcEEeccCccCCcccccccCCC--CceEecc
Q 041505           83 LN-SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNL--EALWISR  124 (248)
Q Consensus        83 ~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l--~~L~l~~  124 (248)
                      .+ ..|..++.+++|++|++++|.+.+.....+.++  +.|++..
T Consensus       134 ~~l~~p~~~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~L~~  178 (562)
T 3a79_B          134 DVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDL  178 (562)
T ss_dssp             SBCCCCGGGGGCTTCCEEEEECSBCCTTTTGGGTTSCEEEEEEEE
T ss_pred             cccCchHhhcccCcccEEecCCCccccCchhhhhhceeeEEEeec
Confidence            55 345678888888888888876654333333334  4444433

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

Probab=99.84  E-value=9.4e-21  Score=173.78  Aligned_cols=168  Identities=20%  Similarity=0.093  Sum_probs=123.1

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +.+...++.+|.   -.+++++|++++|.+.+..|..+ .+++|++|++++|..+..+ |..+.++++|++|++++|.+.
T Consensus        10 dcs~~~L~~vP~---lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~   86 (844)
T 3j0a_A           10 FYRFCNLTQVPQ---VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIY   86 (844)
T ss_dssp             EESCCCSSCCCS---SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCC
T ss_pred             EccCCCCCCCCC---CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCc
Confidence            444556777776   35788889999888655666777 8888999999888666666 567888888999999888777


Q ss_pred             CcCCccccCCCCCcEEeccCccCCccccc-----ccCCCCceEecccCCccccccc-ccccCCCCcCeEEccCCcCcc-c
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPD-----ELGNLEALWISREAGVISRWLP-ENIGQLSSLGKLDLQKNNFER-I  156 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-----~~~~l~~L~l~~~~n~~~~~~~-~~l~~~~~L~~L~l~~n~l~~-l  156 (248)
                      +..|..++.+++|++|++++|.+.+..|.     .+++|++|++++  |.+.+..+ ..++++++|+.|++++|.++. .
T Consensus        87 ~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~--N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~  164 (844)
T 3j0a_A           87 FLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSK--NQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVC  164 (844)
T ss_dssp             EECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEES--CCCCCCCCCGGGGTCSSCCEEEEESSCCCCCC
T ss_pred             ccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCC--CcccccccchhHhhCCCCCEEECCCCcCCeeC
Confidence            77788888888899999988877765544     345667888888  55554333 568888888888888888754 3


Q ss_pred             chhhhcc--CCcceecccCccccc
Q 041505          157 PESVIQL--SKLGRLYLRYWERLQ  178 (248)
Q Consensus       157 p~~l~~~--~~L~~L~l~~n~~~~  178 (248)
                      +..+..+  ++|+.|+++.|.+..
T Consensus       165 ~~~l~~l~~~~L~~L~L~~n~l~~  188 (844)
T 3j0a_A          165 EHELEPLQGKTLSFFSLAANSLYS  188 (844)
T ss_dssp             SGGGHHHHHCSSCCCEECCSBSCC
T ss_pred             HHHcccccCCccceEECCCCcccc
Confidence            4555554  666666666665443

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

Probab=99.84  E-value=2.9e-20  Score=153.05  Aligned_cols=222  Identities=18%  Similarity=0.148  Sum_probs=116.3

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      .+..+|..+  .+++++|++++|.+.+..+..+ .+++|++|++++|.+....|..+.++++|++|++++|.+. .+|..
T Consensus        44 ~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~  120 (332)
T 2ft3_A           44 GLKAVPKEI--SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLV-EIPPN  120 (332)
T ss_dssp             CCSSCCSCC--CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCC-SCCSS
T ss_pred             CccccCCCC--CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCC-ccCcc
Confidence            344444333  2456666666665333333344 5666666666555544444555666666666666654332 44444


Q ss_pred             ccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCccc--ccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           90 LCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVIS--RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        90 l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~--~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                      +.  ++|++|++++|.+.+..+.   .+++++.|++++  |...  +..+..++.+ +|+.|++++|+++.+|..+.  +
T Consensus       121 ~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~--~  193 (332)
T 2ft3_A          121 LP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGG--NPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDLP--E  193 (332)
T ss_dssp             CC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCS--CCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSSC--S
T ss_pred             cc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCC--CccccCCCCcccccCC-ccCEEECcCCCCCccCcccc--C
Confidence            33  5566666666554432222   233445555555  3332  2334445555 66666666666665654432  5


Q ss_pred             CcceecccCccccccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhhh
Q 041505          165 KLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNF  241 (248)
Q Consensus       165 ~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~  241 (248)
                      +|++|++++|.+....+.   ..++|++|+++++. +...+  ...+..+++|+.|++++|.+...+.. +.. ++.|+.
T Consensus       194 ~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~-l~~~~--~~~~~~l~~L~~L~L~~N~l~~lp~~-l~~-l~~L~~  268 (332)
T 2ft3_A          194 TLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ-IRMIE--NGSLSFLPTLRELHLDNNKLSRVPAG-LPD-LKLLQV  268 (332)
T ss_dssp             SCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSC-CCCCC--TTGGGGCTTCCEEECCSSCCCBCCTT-GGG-CTTCCE
T ss_pred             CCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CCcCC--hhHhhCCCCCCEEECCCCcCeecChh-hhc-CccCCE
Confidence            677777777755433322   23567777777653 22222  12344566888888888888755432 111 345555


Q ss_pred             eecccC
Q 041505          242 WQLHYG  247 (248)
Q Consensus       242 ~~~~~~  247 (248)
                      ..+.++
T Consensus       269 L~l~~N  274 (332)
T 2ft3_A          269 VYLHTN  274 (332)
T ss_dssp             EECCSS
T ss_pred             EECCCC
Confidence            555443

>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=99.84  E-value=7.7e-21  Score=168.31  Aligned_cols=130  Identities=21%  Similarity=0.123  Sum_probs=59.7

Q ss_pred             ccCcccEEEcCCCCCccc--cChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccc-c---ccCCC
Q 041505           44 HLEFLKELDLLNGTAIEE--LPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP-D---ELGNL  117 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~---~~~~l  117 (248)
                      .+++|++|++++|.....  +|..+..+++|++|++++|.+ ..+|..+..+++|++|++++|...+..| .   .++++
T Consensus       348 ~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  426 (606)
T 3vq2_A          348 ALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGA-IIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKL  426 (606)
T ss_dssp             CCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSE-EEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTC
T ss_pred             cCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCcc-ccchhhccCCCCCCeeECCCCccCCccChhhhhccccC
Confidence            445555555544443322  244455555555555555432 2234445555555555555544443333 1   22334


Q ss_pred             CceEecccCCcccccccccccCCCCcCeEEccCCcCcc--cchhhhccCCcceecccCccc
Q 041505          118 EALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFER--IPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       118 ~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~--lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      +.|++++  |...+..|..++.+++|+.|++++|.++.  +|..+..+++|++|++++|.+
T Consensus       427 ~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l  485 (606)
T 3vq2_A          427 LYLDISY--TNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQL  485 (606)
T ss_dssp             CEEECTT--SCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCC
T ss_pred             CEEECcC--CCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcC
Confidence            4444444  33333344444444444444444444432  344444444444444444443

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

Probab=99.84  E-value=3.7e-21  Score=157.46  Aligned_cols=207  Identities=15%  Similarity=0.077  Sum_probs=117.7

Q ss_pred             hhhccchHhhhhh-hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAF-KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~-l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +.+...+...+.. +..+++|++|++++|.+.+..|..+ .+++|++|++++|.+....+  +..+++|++|++++|.+.
T Consensus        16 ~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n~l~   93 (317)
T 3o53_A           16 KVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQ   93 (317)
T ss_dssp             SCCTTTHHHHHHHHHTTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE--ETTCTTCCEEECCSSEEE
T ss_pred             eccccchhhhHHHHhccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh--hhhcCCCCEEECcCCccc
Confidence            3444555555533 4456688888888887544444556 78888888887776544333  778888888888887543


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc-hhh-h
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-ESV-I  161 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l-~  161 (248)
                      + ++    ..++|++|++++|.+.+..+..+++++.|++++  |.+.+..+..++.+++|+.|++++|.++.++ ..+ .
T Consensus        94 ~-l~----~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~--N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  166 (317)
T 3o53_A           94 E-LL----VGPSIETLHAANNNISRVSCSRGQGKKNIYLAN--NKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAA  166 (317)
T ss_dssp             E-EE----ECTTCCEEECCSSCCSEEEECCCSSCEEEECCS--SCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGG
T ss_pred             c-cc----CCCCcCEEECCCCccCCcCccccCCCCEEECCC--CCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhh
Confidence            2 22    235666666666665555555555666666665  4444434445555666666666666654432 222 2


Q ss_pred             ccCCcceecccCcccccc---------------------CCC---CCcccceeccccccccccchhhccccccccccccc
Q 041505          162 QLSKLGRLYLRYWERLQS---------------------LPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDL  217 (248)
Q Consensus       162 ~~~~L~~L~l~~n~~~~~---------------------l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l  217 (248)
                      .+++|++|++++|.+...                     +|.   .+++|++|+++++ .+..++..   +..+++|+.+
T Consensus       167 ~l~~L~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N-~l~~l~~~---~~~l~~L~~L  242 (317)
T 3o53_A          167 SSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA---LRFSQNLEHF  242 (317)
T ss_dssp             GTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTS-CCCEECTT---CCCCTTCCEE
T ss_pred             ccCcCCEEECCCCcCcccccccccccCCEEECCCCcCCcchhhhcccCcccEEECcCC-cccchhhH---hhcCCCCCEE
Confidence            455555555555543211                     111   1244445555444 22333222   2345577777


Q ss_pred             ccccCcch
Q 041505          218 RYNYNWIE  225 (248)
Q Consensus       218 ~l~~n~i~  225 (248)
                      ++++|.+.
T Consensus       243 ~l~~N~~~  250 (317)
T 3o53_A          243 DLRGNGFH  250 (317)
T ss_dssp             ECTTCCCB
T ss_pred             EccCCCcc
Confidence            77777776

>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=1.3e-20  Score=153.82  Aligned_cols=197  Identities=19%  Similarity=0.098  Sum_probs=154.2

Q ss_pred             CCCccEEEccCCCCCcccCCcc---ccCcccEEEcCCCCCccccC----hhhhcccCCCEEeccCCcCcCcCCccccCCC
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGI---HLEFLKELDLLNGTAIEELP----SAIECLYKLLHLDLEYCESLNSLPSGLCKLK   94 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~---~l~~L~~L~l~~~~~~~~~~----~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~   94 (248)
                      +++|++|++++|.+.+..|..+   .+++|++|++++|.+....+    ..+..+++|++|++++|.+.+..+..++.++
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            4679999999999777777764   58999999998888766544    3356799999999999988777778899999


Q ss_pred             CCcEEeccCccCCcc-------cccccCCCCceEecccCCcccccccc----cccCCCCcCeEEccCCcCccc-chhhhc
Q 041505           95 LLNYLTLNCCSNLQR-------LPDELGNLEALWISREAGVISRWLPE----NIGQLSSLGKLDLQKNNFERI-PESVIQ  162 (248)
Q Consensus        95 ~L~~L~l~~~~~~~~-------~~~~~~~l~~L~l~~~~n~~~~~~~~----~l~~~~~L~~L~l~~n~l~~l-p~~l~~  162 (248)
                      +|++|++++|.+.+.       .+..+++|++|++++  |.+.. ++.    .++.+++|+.|++++|+++.. |..+..
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~--N~l~~-l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~  246 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRN--TGMET-PTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPR  246 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCS--SCCCC-HHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSS
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCC--CCCCc-hHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHh
Confidence            999999999886542       124677888999998  54542 232    257889999999999999766 766666


Q ss_pred             c---CCcceecccCccccccCCC-CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          163 L---SKLGRLYLRYWERLQSLPK-LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       163 ~---~~L~~L~l~~n~~~~~l~~-~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      +   ++|++|++++|.+. .+|. .+++|++|+++++ .++.++.    +..+++|+.|++++|.+...
T Consensus       247 ~~~~~~L~~L~Ls~N~l~-~lp~~~~~~L~~L~Ls~N-~l~~~~~----~~~l~~L~~L~L~~N~l~~~  309 (310)
T 4glp_A          247 CMWSSALNSLNLSFAGLE-QVPKGLPAKLRVLDLSSN-RLNRAPQ----PDELPEVDNLTLDGNPFLVP  309 (310)
T ss_dssp             CCCCTTCCCEECCSSCCC-SCCSCCCSCCSCEECCSC-CCCSCCC----TTSCCCCSCEECSSTTTSCC
T ss_pred             ccCcCcCCEEECCCCCCC-chhhhhcCCCCEEECCCC-cCCCCch----hhhCCCccEEECcCCCCCCC
Confidence            5   79999999999766 5665 4579999999987 4444432    45678999999999998754

>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=99.84  E-value=2.7e-20  Score=166.96  Aligned_cols=167  Identities=23%  Similarity=0.099  Sum_probs=88.2

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +.+...++++|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+....|..++++++|++|++++|.+..
T Consensus        10 ~cs~~~L~~ip~~~~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~   87 (680)
T 1ziw_A           10 DCSHLKLTQVPDDLP--TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQ   87 (680)
T ss_dssp             ECCSSCCSSCCSCSC--TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCC
T ss_pred             ECCCCCccccccccC--CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCc
Confidence            333445555554432  566666666665333222334 56666666665555544445556666666666666654433


Q ss_pred             cCCccccCCCCCcEEeccCccCCccccccc---CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hh
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SV  160 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l  160 (248)
                      ..+..++.+++|++|++++|.+.+..|..+   .+|++|+++.  |...+..+..++++++|+.|++++|.++.++. .+
T Consensus        88 l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~--n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  165 (680)
T 1ziw_A           88 LSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH--NGLSSTKLGTQVQLENLQELLLSNNKIQALKSEEL  165 (680)
T ss_dssp             CCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCS--SCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHH
T ss_pred             cChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCC--CcccccCchhhcccccCCEEEccCCcccccCHHHh
Confidence            222345666666666666655543333332   3444555655  44444445555666666666666666654432 22


Q ss_pred             h--ccCCcceecccCccc
Q 041505          161 I--QLSKLGRLYLRYWER  176 (248)
Q Consensus       161 ~--~~~~L~~L~l~~n~~  176 (248)
                      .  .+++|++|+++.|.+
T Consensus       166 ~~~~~~~L~~L~L~~n~l  183 (680)
T 1ziw_A          166 DIFANSSLKKLELSSNQI  183 (680)
T ss_dssp             GGGTTCEESEEECTTCCC
T ss_pred             hccccccccEEECCCCcc
Confidence            2  335566666655543

>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=99.84  E-value=8.2e-20  Score=150.16  Aligned_cols=222  Identities=18%  Similarity=0.142  Sum_probs=138.2

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      .+..+|..+  .+++++|++++|.+.+..+..+ .+++|++|++++|.+....|..+.++++|++|++++|.+ ..+|..
T Consensus        42 ~l~~lp~~~--~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-~~l~~~  118 (330)
T 1xku_A           42 GLEKVPKDL--PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL-KELPEK  118 (330)
T ss_dssp             CCCSCCCSC--CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC-SBCCSS
T ss_pred             CccccCccC--CCCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcC-CccChh
Confidence            445555433  2567778888776444333355 777888888866666555566777778888888877643 355655


Q ss_pred             ccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCccc--ccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           90 LCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVIS--RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        90 l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~--~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                      +.  ++|++|++++|.+.+..+.   .+.+++.|+++.  |...  +..+..++++++|+.|++++|.++.+|..+.  +
T Consensus       119 ~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~--~  192 (330)
T 1xku_A          119 MP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGT--NPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLP--P  192 (330)
T ss_dssp             CC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCS--SCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCC--T
T ss_pred             hc--ccccEEECCCCcccccCHhHhcCCccccEEECCC--CcCCccCcChhhccCCCCcCEEECCCCccccCCcccc--c
Confidence            44  6788888877666544433   345566777777  3332  2455667778888888888888777776543  6


Q ss_pred             CcceecccCccccccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhhh
Q 041505          165 KLGRLYLRYWERLQSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNF  241 (248)
Q Consensus       165 ~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~  241 (248)
                      +|++|++++|.+....+.   .+++|++|+++++. +...+.  ..+..+++|+.|++++|.+...+..+ .. ++.|+.
T Consensus       193 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~--~~~~~l~~L~~L~L~~N~l~~lp~~l-~~-l~~L~~  267 (330)
T 1xku_A          193 SLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDN--GSLANTPHLRELHLNNNKLVKVPGGL-AD-HKYIQV  267 (330)
T ss_dssp             TCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CCEECT--TTGGGSTTCCEEECCSSCCSSCCTTT-TT-CSSCCE
T ss_pred             cCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CceeCh--hhccCCCCCCEEECCCCcCccCChhh-cc-CCCcCE
Confidence            788888888765443333   23678888887763 232221  23445668888888888887553321 11 344454


Q ss_pred             eeccc
Q 041505          242 WQLHY  246 (248)
Q Consensus       242 ~~~~~  246 (248)
                      ..+..
T Consensus       268 L~l~~  272 (330)
T 1xku_A          268 VYLHN  272 (330)
T ss_dssp             EECCS
T ss_pred             EECCC
Confidence            44443

>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=99.84  E-value=2.6e-20  Score=163.72  Aligned_cols=77  Identities=18%  Similarity=0.100  Sum_probs=57.9

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCcc-ccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIE-ELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.++.++ ..++.+++|++|++++|. +..+|.. .+++|++|++++|.+.. .+|..++++++|++|++++|.+
T Consensus        81 L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp~~-~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l  158 (562)
T 3a79_B           81 LRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR-LQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKF  158 (562)
T ss_dssp             EECCSCCCCEECTTTTTTCTTCCEEECTTSC-CCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBC
T ss_pred             EECCCCCCCcCCHHHhCCCCCCCEEECCCCc-CCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCcc
Confidence            345566777774 668888999999999987 5577766 78888999997777654 3456788888888888887755


Q ss_pred             c
Q 041505           83 L   83 (248)
Q Consensus        83 ~   83 (248)
                      .
T Consensus       159 ~  159 (562)
T 3a79_B          159 R  159 (562)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.83  E-value=1.6e-19  Score=149.24  Aligned_cols=223  Identities=19%  Similarity=0.241  Sum_probs=119.3

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      ++.+.+..++. +..+++|++|++++|. +..++ .+ .+++|++|++++|.+. .++. +..+++|++|++++|.....
T Consensus        73 l~~n~i~~~~~-~~~l~~L~~L~L~~n~-i~~~~-~~~~l~~L~~L~l~~n~i~-~~~~-~~~l~~L~~L~l~~n~~~~~  147 (347)
T 4fmz_A           73 LNGNQITDISP-LSNLVKLTNLYIGTNK-ITDIS-ALQNLTNLRELYLNEDNIS-DISP-LANLTKMYSLNLGANHNLSD  147 (347)
T ss_dssp             CCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEEECTTSCCC-CCGG-GTTCTTCCEEECTTCTTCCC
T ss_pred             ccCCccccchh-hhcCCcCCEEEccCCc-ccCch-HHcCCCcCCEEECcCCccc-Cchh-hccCCceeEEECCCCCCccc
Confidence            34445666655 6667777777777775 33343 34 6777777777555533 3333 56666666666666544433


Q ss_pred             CCccccCCCCCcEEeccCccCCcccc-cccCCCCceEecccC--------------------CcccccccccccCCCCcC
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREA--------------------GVISRWLPENIGQLSSLG  144 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~--------------------n~~~~~~~~~l~~~~~L~  144 (248)
                      .+. +..+++|++|++++|...+..+ ..++++++|+++++.                    +...+ ++. +..+++|+
T Consensus       148 ~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~-~~~-~~~~~~L~  224 (347)
T 4fmz_A          148 LSP-LSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITD-ITP-VANMTRLN  224 (347)
T ss_dssp             CGG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCC-CGG-GGGCTTCC
T ss_pred             ccc-hhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcccccccccCCCccceeecccCCCCC-Cch-hhcCCcCC
Confidence            332 4555555555555544332211 123333344443311                    22221 111 55666777


Q ss_pred             eEEccCCcCcccchhhhccCCcceecccCccccccCCC--CCcccceeccccccccccchhhcccccccccccccccccC
Q 041505          145 KLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN  222 (248)
Q Consensus       145 ~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n  222 (248)
                      .|++++|.++.++. +..+++|++|++++|.+.. ++.  .+++|++|++++| .+..+    ..+..+++|+.|++++|
T Consensus       225 ~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~-~~~~~~l~~L~~L~l~~n-~l~~~----~~~~~l~~L~~L~L~~n  297 (347)
T 4fmz_A          225 SLKIGNNKITDLSP-LANLSQLTWLEIGTNQISD-INAVKDLTKLKMLNVGSN-QISDI----SVLNNLSQLNSLFLNNN  297 (347)
T ss_dssp             EEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCC-CGGGTTCTTCCEEECCSS-CCCCC----GGGGGCTTCSEEECCSS
T ss_pred             EEEccCCccCCCcc-hhcCCCCCEEECCCCccCC-ChhHhcCCCcCEEEccCC-ccCCC----hhhcCCCCCCEEECcCC
Confidence            77777777666654 6666777777777764432 221  2366777777666 23332    12445567777777777


Q ss_pred             cchhchHHHHHHHHhhhhheecc
Q 041505          223 WIEMRSEEFLKMLCKKLNFWQLH  245 (248)
Q Consensus       223 ~i~~~~~~~~~~l~~~l~~~~~~  245 (248)
                      .+...+++.+..+ +.|+...+.
T Consensus       298 ~l~~~~~~~l~~l-~~L~~L~L~  319 (347)
T 4fmz_A          298 QLGNEDMEVIGGL-TNLTTLFLS  319 (347)
T ss_dssp             CCCGGGHHHHHTC-TTCSEEECC
T ss_pred             cCCCcChhHhhcc-ccCCEEEcc
Confidence            7665555444332 344444443

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

Probab=99.83  E-value=1.9e-19  Score=143.95  Aligned_cols=195  Identities=21%  Similarity=0.155  Sum_probs=95.5

Q ss_pred             ccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           25 IVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        25 L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      .+.++++++. +..+|..+. +.+++|++++|.+....+..+.++++|++|++++|.+....+..+..+++|++|++++|
T Consensus        18 ~~~l~~~~~~-l~~ip~~~~-~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n   95 (270)
T 2o6q_A           18 KNSVDCSSKK-LTAIPSNIP-ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN   95 (270)
T ss_dssp             TTEEECTTSC-CSSCCSCCC-TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSS
T ss_pred             CCEEEccCCC-CCccCCCCC-CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCC
Confidence            4555555554 334444332 34555555444433222234555555666665554433222223345555666665554


Q ss_pred             cCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccC
Q 041505          105 SNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSL  180 (248)
Q Consensus       105 ~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l  180 (248)
                      .+.+..+.   .+.+|++|++++  |.+....+..++.+++|+.|++++|.++.+|. .+..+++|++|++++|.+....
T Consensus        96 ~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  173 (270)
T 2o6q_A           96 KLQALPIGVFDQLVNLAELRLDR--NQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVP  173 (270)
T ss_dssp             CCCCCCTTTTTTCSSCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             cCCcCCHhHcccccCCCEEECCC--CccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeC
Confidence            44332222   233444555555  34443334445566666666666666655543 3555666666666666443222


Q ss_pred             CC---CCcccceeccccccccccchhhcccccccccccccccccCcchh
Q 041505          181 PK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEM  226 (248)
Q Consensus       181 ~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~  226 (248)
                      +.   .+++|++|+++++ .++.++.  ..+..+++|+.+++.+|.+..
T Consensus       174 ~~~~~~l~~L~~L~L~~N-~l~~~~~--~~~~~l~~L~~L~l~~N~~~c  219 (270)
T 2o6q_A          174 EGAFDKLTELKTLKLDNN-QLKRVPE--GAFDSLEKLKMLQLQENPWDC  219 (270)
T ss_dssp             TTTTTTCTTCCEEECCSS-CCSCCCT--TTTTTCTTCCEEECCSSCBCC
T ss_pred             hhHhccCCCcCEEECCCC-cCCcCCH--HHhccccCCCEEEecCCCeeC
Confidence            21   1255666666655 2232221  123344566666666666543

>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=99.83  E-value=3.9e-21  Score=158.26  Aligned_cols=212  Identities=16%  Similarity=0.106  Sum_probs=161.2

Q ss_pred             hhhcCC--CCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccc-cChhhhcccCCCEEeccCCcCcCcCCccccCC
Q 041505           17 AFKQNN--PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEE-LPSAIECLYKLLHLDLEYCESLNSLPSGLCKL   93 (248)
Q Consensus        17 ~~l~~l--~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l   93 (248)
                      ..+..+  ++++.|++++|.+.+..+..+.+++|++|++++|.+... ++..+..+++|++|++++|.+.+..+..++.+
T Consensus        62 ~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~  141 (336)
T 2ast_B           62 DVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKN  141 (336)
T ss_dssp             HHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTC
T ss_pred             HHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcC
Confidence            334444  789999999988555555544899999999988886554 77788999999999999988777788889999


Q ss_pred             CCCcEEeccCcc-CCc-cccc---ccCCCCceEecccCCccccc-ccccccCCC-CcCeEEccCCc--C--cccchhhhc
Q 041505           94 KLLNYLTLNCCS-NLQ-RLPD---ELGNLEALWISREAGVISRW-LPENIGQLS-SLGKLDLQKNN--F--ERIPESVIQ  162 (248)
Q Consensus        94 ~~L~~L~l~~~~-~~~-~~~~---~~~~l~~L~l~~~~n~~~~~-~~~~l~~~~-~L~~L~l~~n~--l--~~lp~~l~~  162 (248)
                      ++|++|++++|. ..+ .++.   .+++|++|+++++. .+.+. ++..++.++ +|+.|++++|.  +  ..+|..+..
T Consensus       142 ~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~-~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~  220 (336)
T 2ast_B          142 SNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF-DFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRR  220 (336)
T ss_dssp             TTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCT-TCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHH
T ss_pred             CCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCC-CcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhh
Confidence            999999999984 443 2443   57788999999852 44432 567788999 99999999995  4  467778889


Q ss_pred             cCCcceecccCcccc-ccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHH
Q 041505          163 LSKLGRLYLRYWERL-QSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFL  232 (248)
Q Consensus       163 ~~~L~~L~l~~n~~~-~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~  232 (248)
                      +++|++|++++|..+ ...+.   ..++|++|++++|..  ..+.....+..+++|+.|++.+| +.......+
T Consensus       221 ~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~--~~~~~~~~l~~~~~L~~L~l~~~-i~~~~~~~l  291 (336)
T 2ast_B          221 CPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYD--IIPETLLELGEIPTLKTLQVFGI-VPDGTLQLL  291 (336)
T ss_dssp             CTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTT--CCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHH
T ss_pred             CCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCC--CCHHHHHHHhcCCCCCEEeccCc-cCHHHHHHH
Confidence            999999999999843 22222   248899999999863  33333455667889999999999 555444443

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

Probab=99.83  E-value=3.7e-20  Score=169.87  Aligned_cols=119  Identities=18%  Similarity=0.152  Sum_probs=67.0

Q ss_pred             hhhccchHhhh-hhhcCCCCccEEEccCCCCCccc-CCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            6 DDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSL-PAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         6 ~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      +++.+.++.++ ..++.+++|++|++++|..++.+ |..+ .+++|++|++++|.+....|..++++++|++|++++|.+
T Consensus        30 dLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l  109 (844)
T 3j0a_A           30 LLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGL  109 (844)
T ss_dssp             EEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCC
T ss_pred             ECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCC
Confidence            44455555553 45666666666666666545555 3444 666666666666655555555666666666666666655


Q ss_pred             cCcCCcc--ccCCCCCcEEeccCccCCcccc----cccCCCCceEecc
Q 041505           83 LNSLPSG--LCKLKLLNYLTLNCCSNLQRLP----DELGNLEALWISR  124 (248)
Q Consensus        83 ~~~~~~~--l~~l~~L~~L~l~~~~~~~~~~----~~~~~l~~L~l~~  124 (248)
                      .+..|..  +..+++|++|++++|.+.+..+    ..+++|+.|+++.
T Consensus       110 ~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~  157 (844)
T 3j0a_A          110 SDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSS  157 (844)
T ss_dssp             SSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEES
T ss_pred             CcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCC
Confidence            5544443  5566666666666655544322    1233444555544

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

Probab=99.83  E-value=4.1e-20  Score=159.68  Aligned_cols=174  Identities=19%  Similarity=0.101  Sum_probs=106.6

Q ss_pred             HhhhhhhcCCC----CccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505           13 FSLYAFKQNNP----HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus        13 ~~l~~~l~~l~----~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ..+|..+..+.    +|++|++++|.+.+..|..+ .+++|++|++++|.+....|  +..+++|++|++++|.+.+ +|
T Consensus        20 ~~l~~~l~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~-l~   96 (487)
T 3oja_A           20 SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQE-LL   96 (487)
T ss_dssp             TTHHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEEEE-EE
T ss_pred             hhhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcCCC-CC
Confidence            34455554443    78888888887555555566 78888888887777654444  7888888888888875432 22


Q ss_pred             ccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcc-cchhhh-ccCC
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFER-IPESVI-QLSK  165 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~-lp~~l~-~~~~  165 (248)
                          ..++|++|++++|.+.+..+..+++++.|++++  |.+.+..|..++.+++|+.|++++|.++. .|..+. .+++
T Consensus        97 ----~~~~L~~L~L~~N~l~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~  170 (487)
T 3oja_A           97 ----VGPSIETLHAANNNISRVSCSRGQGKKNIYLAN--NKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDT  170 (487)
T ss_dssp             ----ECTTCCEEECCSSCCCCEEECCCSSCEEEECCS--SCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTT
T ss_pred             ----CCCCcCEEECcCCcCCCCCccccCCCCEEECCC--CCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCc
Confidence                226677777777666655555666666666666  45555455566666666666666666653 333443 4566


Q ss_pred             cceecccCccccccCCC-CCcccceeccccc
Q 041505          166 LGRLYLRYWERLQSLPK-LPCKLHELDAHHC  195 (248)
Q Consensus       166 L~~L~l~~n~~~~~l~~-~~~~L~~L~l~~~  195 (248)
                      |++|++++|.+....+. .+++|+.|+++++
T Consensus       171 L~~L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N  201 (487)
T 3oja_A          171 LEHLNLQYNFIYDVKGQVVFAKLKTLDLSSN  201 (487)
T ss_dssp             CCEEECTTSCCCEEECCCCCTTCCEEECCSS
T ss_pred             ccEEecCCCccccccccccCCCCCEEECCCC
Confidence            66666666654322111 1345555555544

>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=99.83  E-value=6.7e-20  Score=162.27  Aligned_cols=186  Identities=18%  Similarity=0.029  Sum_probs=136.7

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +.+...++.+|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+....|..+.++++|++|++++|.+.+
T Consensus        17 ~c~~~~l~~ip~~~~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~   94 (606)
T 3vq2_A           17 QCMDQKLSKVPDDIP--SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQS   94 (606)
T ss_dssp             ECTTSCCSSCCTTSC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCC
T ss_pred             EccCCCcccCCCCCC--CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccc
Confidence            344556778886553  789999999988555555566 89999999998887666667778999999999999988777


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcCcccc-hh
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNFERIP-ES  159 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l~~lp-~~  159 (248)
                      ..|..++.+++|++|++++|.+.+..+..   +.+|++|++++  |.+.+ .+|..++++++|+.|++++|+++.++ ..
T Consensus        95 ~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~--n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~  172 (606)
T 3vq2_A           95 FSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAH--NFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVND  172 (606)
T ss_dssp             CCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCS--SCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTT
T ss_pred             cChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCC--CcccceechHhHhhcCCCCEEEccCCcceecChhh
Confidence            77888999999999999998776554444   44566888888  55553 57888999999999999999987654 45


Q ss_pred             hhccCCcc----eecccCccccccCCCCC--cccceeccccc
Q 041505          160 VIQLSKLG----RLYLRYWERLQSLPKLP--CKLHELDAHHC  195 (248)
Q Consensus       160 l~~~~~L~----~L~l~~n~~~~~l~~~~--~~L~~L~l~~~  195 (248)
                      ++.+++++    +|+++.|.+....+..+  .+|++|+++++
T Consensus       173 ~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n  214 (606)
T 3vq2_A          173 LQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGN  214 (606)
T ss_dssp             THHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESC
T ss_pred             hhhhhccccccceeeccCCCcceeCcccccCceeeeeeccCC
Confidence            66555544    68888876543222221  35677776655

>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=99.82  E-value=1.7e-20  Score=164.15  Aligned_cols=220  Identities=18%  Similarity=0.086  Sum_probs=168.4

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +.+.+.++.+|+.+.  ++|++|++++|.+.+..|..+ .+++|++|++++|.+....|..+.++++|++|++++|.+.+
T Consensus        11 ~~~~~~l~~ip~~~~--~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~   88 (549)
T 2z81_A           11 DGRSRSFTSIPSGLT--AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSS   88 (549)
T ss_dssp             ECTTSCCSSCCSCCC--TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCS
T ss_pred             ECCCCccccccccCC--CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCc
Confidence            344567788887554  799999999998665556777 89999999998888776666789999999999999988777


Q ss_pred             cCCccccCCCCCcEEeccCccCCc-cccc---ccCCCCceEecccCCccccccc-ccccCCCCcCeEEccCCcCcc-cch
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQ-RLPD---ELGNLEALWISREAGVISRWLP-ENIGQLSSLGKLDLQKNNFER-IPE  158 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~-~~~~---~~~~l~~L~l~~~~n~~~~~~~-~~l~~~~~L~~L~l~~n~l~~-lp~  158 (248)
                      ..|..++.+++|++|++++|.+.+ ..|.   .++++++|++++  |...+.+| ..++++++|+.|++++|.++. .|.
T Consensus        89 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~--n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  166 (549)
T 2z81_A           89 LSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGN--VETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ  166 (549)
T ss_dssp             CCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEE--SSSCCEECTTTTTTCCEEEEEEEEETTCCEECTT
T ss_pred             cCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCC--CccccccCHhhhhcccccCeeeccCCcccccChh
Confidence            666679999999999999988765 3444   455677999988  54444455 579999999999999999964 678


Q ss_pred             hhhccCCcceecccCccccccCCC----CCcccceeccccccccccchh-hcccccccccccccccccCcchhchHHH
Q 041505          159 SVIQLSKLGRLYLRYWERLQSLPK----LPCKLHELDAHHCTALESLSG-LFSSFEARTRYFDLRYNYNWIEMRSEEF  231 (248)
Q Consensus       159 ~l~~~~~L~~L~l~~n~~~~~l~~----~~~~L~~L~l~~~~~l~~~~~-~~~~l~~l~~L~~l~l~~n~i~~~~~~~  231 (248)
                      .+..+++|++|+++.|... .+|.    .+++|++|+++++.. ...+. .......+++|+.+++.+|.+.......
T Consensus       167 ~l~~l~~L~~L~l~~n~~~-~~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~  242 (549)
T 2z81_A          167 SLKSIRDIHHLTLHLSESA-FLLEIFADILSSVRYLELRDTNL-ARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNE  242 (549)
T ss_dssp             TTTTCSEEEEEEEECSBST-THHHHHHHSTTTBSEEEEESCBC-TTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHH
T ss_pred             hhhccccCceEecccCccc-ccchhhHhhcccccEEEccCCcc-ccccccccchhhhhhcccceeccccccchhHHHH
Confidence            8999999999999998642 2332    357899999998733 33211 1112234678888999999887655433

>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=99.82  E-value=5.4e-20  Score=144.54  Aligned_cols=203  Identities=17%  Similarity=0.214  Sum_probs=147.0

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccC-CcC
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEY-CES   82 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~-~~~   82 (248)
                      +.|..++.+|. +  ..++++|++++|. +..+|. .+ .+++|++|++++|..++.++ ..+.++++|++|++++ |.+
T Consensus        18 v~c~~l~~ip~-~--~~~l~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l   93 (239)
T 2xwt_C           18 VTCKDIQRIPS-L--PPSTQTLKLIETH-LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNL   93 (239)
T ss_dssp             EEECSCSSCCC-C--CTTCCEEEEESCC-CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTC
T ss_pred             eEccCccccCC-C--CCcccEEEEeCCc-ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCe
Confidence            44666777876 3  3589999999998 455544 66 89999999998887455665 4688999999999998 666


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCccccc--ccCCCC---ceEecccCC-cccccccccccCCCCcC-eEEccCCcCcc
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPD--ELGNLE---ALWISREAG-VISRWLPENIGQLSSLG-KLDLQKNNFER  155 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~l~---~L~l~~~~n-~~~~~~~~~l~~~~~L~-~L~l~~n~l~~  155 (248)
                      ....+..+..+++|++|++++|.+.+ +|.  .+.+++   .|++++  | .+....+..++.+++|+ .+++++|+++.
T Consensus        94 ~~i~~~~f~~l~~L~~L~l~~n~l~~-lp~~~~l~~L~~L~~L~l~~--N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~  170 (239)
T 2xwt_C           94 TYIDPDALKELPLLKFLGIFNTGLKM-FPDLTKVYSTDIFFILEITD--NPYMTSIPVNAFQGLCNETLTLKLYNNGFTS  170 (239)
T ss_dssp             CEECTTSEECCTTCCEEEEEEECCCS-CCCCTTCCBCCSEEEEEEES--CTTCCEECTTTTTTTBSSEEEEECCSCCCCE
T ss_pred             eEcCHHHhCCCCCCCEEeCCCCCCcc-ccccccccccccccEEECCC--CcchhhcCcccccchhcceeEEEcCCCCCcc
Confidence            65555678899999999999977654 664  444555   777877  5 45543445688899999 99999999988


Q ss_pred             cchhhhccCCcceecccCccccccCCC----CC-cccceeccccccccccchhhcccccccccccccccccC
Q 041505          156 IPESVIQLSKLGRLYLRYWERLQSLPK----LP-CKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN  222 (248)
Q Consensus       156 lp~~l~~~~~L~~L~l~~n~~~~~l~~----~~-~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n  222 (248)
                      +|......++|+.|++++|+.++.++.    .. ++|++|+++++ .++.++..     .+++|+.|++.++
T Consensus       171 i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N-~l~~l~~~-----~~~~L~~L~l~~~  236 (239)
T 2xwt_C          171 VQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQT-SVTALPSK-----GLEHLKELIARNT  236 (239)
T ss_dssp             ECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTC-CCCCCCCT-----TCTTCSEEECTTC
T ss_pred             cCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCC-ccccCChh-----HhccCceeeccCc
Confidence            876544448899999999853333332    23 67888888875 34444332     3457777777665

>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=99.82  E-value=1.5e-19  Score=145.01  Aligned_cols=190  Identities=21%  Similarity=0.117  Sum_probs=148.8

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..++. .++.+++|++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+
T Consensus        33 L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  112 (276)
T 2z62_A           33 LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNL  112 (276)
T ss_dssp             EECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCc
Confidence            4556677888875 78899999999999998554444566 899999999988887666667799999999999999877


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCc-ccccc---cCCCCceEecccCCcccccccccccCCCCcC----eEEccCCcCc
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQ-RLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLG----KLDLQKNNFE  154 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~-~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~----~L~l~~n~l~  154 (248)
                      .+..+..++.+++|++|++++|.+.+ .+|..   +++++.|++++  |.+.+..+..+..+++|+    .+++++|.++
T Consensus       113 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~--N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~  190 (276)
T 2z62_A          113 ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS--NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMN  190 (276)
T ss_dssp             CCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCS--SCCCEECGGGGHHHHTCTTCCEEEECCSSCCC
T ss_pred             cccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCC--CCCCcCCHHHhhhhhhccccceeeecCCCccc
Confidence            76666678999999999999988765 35654   45677899988  666655556676666666    8999999999


Q ss_pred             ccchhhhccCCcceecccCccccccCCC---CCcccceecccccc
Q 041505          155 RIPESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       155 ~lp~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                      .++.......+|+.|++++|.+....+.   ..++|++|++++++
T Consensus       191 ~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~  235 (276)
T 2z62_A          191 FIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  235 (276)
T ss_dssp             EECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSC
T ss_pred             ccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEccCCc
Confidence            8877666667999999999975533222   24788999998653

>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=99.81  E-value=9.9e-20  Score=161.47  Aligned_cols=101  Identities=21%  Similarity=0.087  Sum_probs=64.1

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCc
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~   81 (248)
                      ++++.+.++.++ .+|..+++|++|++++|.+.+..+.++ .+++|++|++++|.+ ..+| .+|.++++|++|++++|.
T Consensus        57 LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l-~~l~~~~f~~L~~L~~L~Ls~N~  135 (635)
T 4g8a_A           57 LDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI-QSLALGAFSGLSSLQKLVAVETN  135 (635)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-CEECGGGGTTCTTCCEEECTTSC
T ss_pred             EEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcC-CCCCHHHhcCCCCCCEEECCCCc
Confidence            456667777776 357777888888888877333334445 677888888866654 3343 456777777777777765


Q ss_pred             CcCcCCccccCCCCCcEEeccCccC
Q 041505           82 SLNSLPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        82 ~~~~~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      +.+..+..++.+++|++|++++|.+
T Consensus       136 l~~l~~~~~~~L~~L~~L~Ls~N~l  160 (635)
T 4g8a_A          136 LASLENFPIGHLKTLKELNVAHNLI  160 (635)
T ss_dssp             CCCSTTCCCTTCTTCCEEECCSSCC
T ss_pred             CCCCChhhhhcCcccCeeccccCcc
Confidence            5444344456666666666665544

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

Probab=99.81  E-value=6.2e-19  Score=151.16  Aligned_cols=201  Identities=17%  Similarity=0.052  Sum_probs=124.9

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +++.+.+..+| .++.+++|++|++++|.+.+ +|  + .+++|++|++++|.+.. ++  ++++++|++|++++|.+.+
T Consensus        48 ~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~-~~--~~~l~~L~~L~Ls~N~l~~-~~--~~~l~~L~~L~L~~N~l~~  120 (457)
T 3bz5_A           48 DCHNSSITDMT-GIEKLTGLTKLICTSNNITT-LD--LSQNTNLTYLACDSNKLTN-LD--VTPLTKLTYLNCDTNKLTK  120 (457)
T ss_dssp             ECCSSCCCCCT-TGGGCTTCSEEECCSSCCSC-CC--CTTCTTCSEEECCSSCCSC-CC--CTTCTTCCEEECCSSCCSC
T ss_pred             EccCCCcccCh-hhcccCCCCEEEccCCcCCe-Ec--cccCCCCCEEECcCCCCce-ee--cCCCCcCCEEECCCCcCCe
Confidence            34445566665 56677777777777776333 43  4 67777777776665433 33  6777777777777765544


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                       ++  ++.+++|++|++++|.+.+.-...+.++++|+++.  |...+.+  .++.+++|+.|++++|+++.+|  +..++
T Consensus       121 -l~--~~~l~~L~~L~l~~N~l~~l~l~~l~~L~~L~l~~--n~~~~~~--~~~~l~~L~~L~ls~n~l~~l~--l~~l~  191 (457)
T 3bz5_A          121 -LD--VSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHL--NKKITKL--DVTPQTQLTTLDCSFNKITELD--VSQNK  191 (457)
T ss_dssp             -CC--CTTCTTCCEEECTTSCCSCCCCTTCTTCCEEECTT--CSCCCCC--CCTTCTTCCEEECCSSCCCCCC--CTTCT
T ss_pred             -ec--CCCCCcCCEEECCCCccceeccccCCcCCEEECCC--CCccccc--ccccCCcCCEEECCCCccceec--cccCC
Confidence             33  66777777777777766554333555666777766  3233333  3667777778888777777766  66677


Q ss_pred             CcceecccCccccccCCCCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          165 KLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       165 ~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +|+.|++++|.+...--..+++|++|+++++ .+..++     +..+++|+.+++++|.+...+
T Consensus       192 ~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N-~l~~ip-----~~~l~~L~~L~l~~N~l~~~~  249 (457)
T 3bz5_A          192 LLNRLNCDTNNITKLDLNQNIQLTFLDCSSN-KLTEID-----VTPLTQLTYFDCSVNPLTELD  249 (457)
T ss_dssp             TCCEEECCSSCCSCCCCTTCTTCSEEECCSS-CCSCCC-----CTTCTTCSEEECCSSCCSCCC
T ss_pred             CCCEEECcCCcCCeeccccCCCCCEEECcCC-cccccC-----ccccCCCCEEEeeCCcCCCcC
Confidence            7777777777554321223466777777665 233332     345556666666666665543

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

Probab=99.81  E-value=6.2e-20  Score=161.19  Aligned_cols=102  Identities=20%  Similarity=0.029  Sum_probs=51.4

Q ss_pred             hhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +++.+.++.++ ..++.+++|++|++++|.+.+..+..+ .+++|++|++++|......|..+.++++|++|++++|.+.
T Consensus        34 ~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~  113 (570)
T 2z63_A           34 DLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLA  113 (570)
T ss_dssp             ECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCC
T ss_pred             EccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccccccccccc
Confidence            44455555554 345666666666666665333333444 5666666666555543333344555555555555554333


Q ss_pred             CcCCccccCCCCCcEEeccCccCC
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      ...+..++.+++|++|++++|.+.
T Consensus       114 ~l~~~~~~~l~~L~~L~L~~n~l~  137 (570)
T 2z63_A          114 SLENFPIGHLKTLKELNVAHNLIQ  137 (570)
T ss_dssp             CSTTCSCTTCTTCCEEECCSSCCC
T ss_pred             cCCCccccccccccEEecCCCccc
Confidence            222223444455555555544433

>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=99.81  E-value=4.2e-19  Score=140.51  Aligned_cols=165  Identities=18%  Similarity=0.090  Sum_probs=103.1

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      +.+.+..+|..+.  ++++.|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+....
T Consensus        22 ~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~   99 (251)
T 3m19_A           22 QGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP   99 (251)
T ss_dssp             TTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCC
T ss_pred             CCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccC
Confidence            3445555655443  567777777776544444455 6777777777666655544555677777777777776655554


Q ss_pred             CccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhc
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQ  162 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~  162 (248)
                      +..+..+++|++|++++|.+.+..+.   .+.+|+.|++++  |.+.+..+..++.+++|+.|++++|+++.++. .+..
T Consensus       100 ~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~  177 (251)
T 3m19_A          100 LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT--NQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDR  177 (251)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTT
T ss_pred             hhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcC--CcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhC
Confidence            55566777777777777655533332   234555666666  44554334456677777777777777765553 5666


Q ss_pred             cCCcceecccCccc
Q 041505          163 LSKLGRLYLRYWER  176 (248)
Q Consensus       163 ~~~L~~L~l~~n~~  176 (248)
                      +++|++|++++|++
T Consensus       178 l~~L~~L~l~~N~~  191 (251)
T 3m19_A          178 LGKLQTITLFGNQF  191 (251)
T ss_dssp             CTTCCEEECCSCCB
T ss_pred             CCCCCEEEeeCCce
Confidence            67777777777654

>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=99.81  E-value=1.2e-18  Score=156.29  Aligned_cols=179  Identities=24%  Similarity=0.198  Sum_probs=93.1

Q ss_pred             cChhhhcccCCCEEeccCCcCcCcCC-ccccCCCCCcEEeccCccCCcc--------------------------ccccc
Q 041505           62 LPSAIECLYKLLHLDLEYCESLNSLP-SGLCKLKLLNYLTLNCCSNLQR--------------------------LPDEL  114 (248)
Q Consensus        62 ~~~~~~~l~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~--------------------------~~~~~  114 (248)
                      .|..+..+++|++|++++|.+.+.+| ..+..+++|++|++++|.+.+.                          .|..+
T Consensus       397 ~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~  476 (680)
T 1ziw_A          397 ESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPF  476 (680)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTT
T ss_pred             ChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCccc
Confidence            34455566666666666655554443 3455556666666655543322                          23222


Q ss_pred             ---CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch---------hhhccCCcceecccCccccccCCC
Q 041505          115 ---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE---------SVIQLSKLGRLYLRYWERLQSLPK  182 (248)
Q Consensus       115 ---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~---------~l~~~~~L~~L~l~~n~~~~~l~~  182 (248)
                         .+++.|++++  |.+.+..+..++.+++|+.|++++|.++.++.         .+.++++|++|++++|.+. .+|.
T Consensus       477 ~~l~~L~~L~Ls~--N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~  553 (680)
T 1ziw_A          477 QPLRNLTILDLSN--NNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFD-EIPV  553 (680)
T ss_dssp             TTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCC-CCCT
T ss_pred             ccCCCCCEEECCC--CCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCC-CCCH
Confidence               2333445544  33443333445555555555555555543311         2445556666666655433 3332


Q ss_pred             ----CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhhheeccc
Q 041505          183 ----LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHY  246 (248)
Q Consensus       183 ----~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~  246 (248)
                          .+++|++|+++++ .++.++.  ..+..+++|+.+++++|.+...++..+...++.++...+..
T Consensus       554 ~~~~~l~~L~~L~Ls~N-~l~~l~~--~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~l~l~~  618 (680)
T 1ziw_A          554 EVFKDLFELKIIDLGLN-NLNTLPA--SVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRF  618 (680)
T ss_dssp             TTTTTCTTCCEEECCSS-CCCCCCT--TTTTTCTTCCEEECTTSCCCBCCHHHHHHHHTTCSEEECTT
T ss_pred             HHcccccCcceeECCCC-CCCcCCH--hHhCCCCCCCEEECCCCcCCccChhHhcccccccCEEEccC
Confidence                2355666666554 3333322  22335668888888888888777666553334555555443

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

Probab=99.81  E-value=1.7e-18  Score=138.39  Aligned_cols=187  Identities=21%  Similarity=0.128  Sum_probs=144.9

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++.+.+.++.+|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+. .+| ..+.++++|++|++++|.+
T Consensus        21 l~~~~~~l~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~i~~~~~~~l~~L~~L~l~~n~l   97 (270)
T 2o6q_A           21 VDCSSKKLTAIPSNIP--ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKL   97 (270)
T ss_dssp             EECTTSCCSSCCSCCC--TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCS-CCCTTTTSSCTTCCEEECCSSCC
T ss_pred             EEccCCCCCccCCCCC--CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccC-eeChhhhcCCCCCCEEECCCCcC
Confidence            3445566777776543  689999999998544444466 8999999999777654 555 4568899999999999876


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-  158 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-  158 (248)
                      ....+..+..+++|++|++++|.+.+..+.   .+++|+.|++++  |.+.+..+..++.+++|+.|++++|.++.++. 
T Consensus        98 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~--n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  175 (270)
T 2o6q_A           98 QALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY--NELQSLPKGVFDKLTSLKELRLYNNQLKRVPEG  175 (270)
T ss_dssp             CCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             CcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCC--CcCCccCHhHccCCcccceeEecCCcCcEeChh
Confidence            665556678899999999999887765554   456778999998  66665445568999999999999999988875 


Q ss_pred             hhhccCCcceecccCccccccCCC---CCcccceecccccc
Q 041505          159 SVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       159 ~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                      .+..+++|++|++++|.+....+.   .+++|+.|++++++
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          176 AFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             HhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCC
Confidence            588899999999999976533222   24789999998864

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

Probab=99.81  E-value=4e-19  Score=142.26  Aligned_cols=173  Identities=20%  Similarity=0.114  Sum_probs=122.3

Q ss_pred             hcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      +..+++|+.|++++|. +..++....+++|++|++++|.+.. + ..+..+++|++|++++|.+.+..+..+..+++|++
T Consensus        37 ~~~l~~L~~L~l~~~~-i~~~~~l~~l~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           37 QNELNSIDQIIANNSD-IKSVQGIQYLPNVRYLALGGNKLHD-I-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             HHHHTTCCEEECTTSC-CCCCTTGGGCTTCCEEECTTSCCCC-C-GGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             cccccceeeeeeCCCC-cccccccccCCCCcEEECCCCCCCC-c-hhhcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            4456788888888876 5555432278888888887766543 3 35778888888888887766555566778888888


Q ss_pred             EeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCc
Q 041505           99 LTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYW  174 (248)
Q Consensus        99 L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n  174 (248)
                      |++++|.+.+..+.   .+++|+.|++++  |.+.+..+..++.+++|+.|++++|+++.++. .+..+++|++|++++|
T Consensus       114 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N  191 (272)
T 3rfs_A          114 LVLVENQLQSLPDGVFDKLTNLTYLNLAH--NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQN  191 (272)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             EECCCCcCCccCHHHhccCCCCCEEECCC--CccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCC
Confidence            88888776655443   345666788877  55655445557888888888888888876654 4577888888888888


Q ss_pred             cccccCCC---CCcccceecccccc
Q 041505          175 ERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       175 ~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                      .+....+.   .+++|+.|++++++
T Consensus       192 ~l~~~~~~~~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          192 QLKSVPDGVFDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cCCccCHHHHhCCcCCCEEEccCCC
Confidence            76544433   24678888877763

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

Probab=99.81  E-value=3.8e-19  Score=152.46  Aligned_cols=92  Identities=18%  Similarity=0.131  Sum_probs=51.2

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +++.+.+..++  ++.+++|++|++++|.+.+ ++  + .+++|++|++++|.+.. ++  ++.+++|++|++++|...+
T Consensus        91 ~Ls~N~l~~~~--~~~l~~L~~L~L~~N~l~~-l~--~~~l~~L~~L~l~~N~l~~-l~--l~~l~~L~~L~l~~n~~~~  162 (457)
T 3bz5_A           91 ACDSNKLTNLD--VTPLTKLTYLNCDTNKLTK-LD--VSQNPLLTYLNCARNTLTE-ID--VSHNTQLTELDCHLNKKIT  162 (457)
T ss_dssp             ECCSSCCSCCC--CTTCTTCCEEECCSSCCSC-CC--CTTCTTCCEEECTTSCCSC-CC--CTTCTTCCEEECTTCSCCC
T ss_pred             ECcCCCCceee--cCCCCcCCEEECCCCcCCe-ec--CCCCCcCCEEECCCCccce-ec--cccCCcCCEEECCCCCccc
Confidence            34445555553  6667777777777776333 43  4 66677777775555433 33  5555666666666554444


Q ss_pred             cCCccccCCCCCcEEeccCccCC
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      .+  .++.+++|++|++++|.+.
T Consensus       163 ~~--~~~~l~~L~~L~ls~n~l~  183 (457)
T 3bz5_A          163 KL--DVTPQTQLTTLDCSFNKIT  183 (457)
T ss_dssp             CC--CCTTCTTCCEEECCSSCCC
T ss_pred             cc--ccccCCcCCEEECCCCccc
Confidence            43  2444555555555554443

>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=99.81  E-value=1.2e-18  Score=143.94  Aligned_cols=223  Identities=17%  Similarity=0.155  Sum_probs=138.8

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc-
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS-   85 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-   85 (248)
                      +.+.+..++ .+..+++|++|++++|. +..++. + .+++|++|++++|.....++. +..+++|++|++++|..... 
T Consensus        96 ~~n~i~~~~-~~~~l~~L~~L~l~~n~-i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~  171 (347)
T 4fmz_A           96 GTNKITDIS-ALQNLTNLRELYLNEDN-ISDISP-LANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVKDVT  171 (347)
T ss_dssp             CSSCCCCCG-GGTTCTTCSEEECTTSC-CCCCGG-GTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSCCCCCG
T ss_pred             cCCcccCch-HHcCCCcCCEEECcCCc-ccCchh-hccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCCCcCCch
Confidence            344555554 46677777777777776 333333 4 666666666665544443332 45555555555554433221 


Q ss_pred             --------------------CCccccCCCCCcEEeccCccCCccc-ccccCCCCceEecccCCcccccccccccCCCCcC
Q 041505           86 --------------------LPSGLCKLKLLNYLTLNCCSNLQRL-PDELGNLEALWISREAGVISRWLPENIGQLSSLG  144 (248)
Q Consensus        86 --------------------~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~  144 (248)
                                          ++. +..+++|+++++++|...+.. ...++++++|++++  |.+.+ ++. +..+++|+
T Consensus       172 ~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~--n~l~~-~~~-~~~l~~L~  246 (347)
T 4fmz_A          172 PIANLTDLYSLSLNYNQIEDISP-LASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGN--NKITD-LSP-LANLSQLT  246 (347)
T ss_dssp             GGGGCTTCSEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCS--SCCCC-CGG-GTTCTTCC
T ss_pred             hhccCCCCCEEEccCCccccccc-ccCCCccceeecccCCCCCCchhhcCCcCCEEEccC--CccCC-Ccc-hhcCCCCC
Confidence                                221 344445555555554433222 23456777888888  44553 333 88999999


Q ss_pred             eEEccCCcCcccchhhhccCCcceecccCccccccCCC--CCcccceeccccccccccchhhcccccccccccccccccC
Q 041505          145 KLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN  222 (248)
Q Consensus       145 ~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n  222 (248)
                      .|++++|.++.++ .+..+++|++|++++|.+.. ++.  .+++|++|++++|......+   ..+..+++|+.+++++|
T Consensus       247 ~L~l~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~-~~~~~~l~~L~~L~L~~n~l~~~~~---~~l~~l~~L~~L~L~~n  321 (347)
T 4fmz_A          247 WLEIGTNQISDIN-AVKDLTKLKMLNVGSNQISD-ISVLNNLSQLNSLFLNNNQLGNEDM---EVIGGLTNLTTLFLSQN  321 (347)
T ss_dssp             EEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCC-CGGGGGCTTCSEEECCSSCCCGGGH---HHHHTCTTCSEEECCSS
T ss_pred             EEECCCCccCCCh-hHhcCCCcCEEEccCCccCC-ChhhcCCCCCCEEECcCCcCCCcCh---hHhhccccCCEEEccCC
Confidence            9999999998874 57889999999999996543 342  35889999999885433332   33446679999999999


Q ss_pred             cchhchHHHHHHHHhhhhheecccC
Q 041505          223 WIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       223 ~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      .+....+  +.. ++.|+...+.++
T Consensus       322 ~l~~~~~--~~~-l~~L~~L~l~~N  343 (347)
T 4fmz_A          322 HITDIRP--LAS-LSKMDSADFANQ  343 (347)
T ss_dssp             SCCCCGG--GGG-CTTCSEESSSCC
T ss_pred             ccccccC--hhh-hhccceeehhhh
Confidence            9887654  221 456666665554

>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=99.80  E-value=2e-18  Score=139.44  Aligned_cols=195  Identities=19%  Similarity=0.119  Sum_probs=104.0

Q ss_pred             hcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      +..+++++.++++++. +..+|..+. +.+++|++++|.+....+..+.++++|++|++++|.+.+ ++.. +.+++|++
T Consensus         6 ~~~l~~l~~l~~~~~~-l~~ip~~~~-~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~-~~~~-~~l~~L~~   81 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRN-LTALPPDLP-KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK-LQVD-GTLPVLGT   81 (290)
T ss_dssp             EECSTTCCEEECTTSC-CSSCCSCCC-TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE-EECC-SCCTTCCE
T ss_pred             ccccCCccEEECCCCC-CCcCCCCCC-CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCc-ccCC-CCCCcCCE
Confidence            3445566666666654 444554332 456666665555544444556666666666666654332 2221 45566666


Q ss_pred             EeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCc
Q 041505           99 LTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYW  174 (248)
Q Consensus        99 L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n  174 (248)
                      |++++|.+. .+|.   .+++++.|++++  |.+.+..+..++.+++|+.|++++|+++.+|. .+..+++|+.|++++|
T Consensus        82 L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~--N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  158 (290)
T 1p9a_G           82 LDLSHNQLQ-SLPLLGQTLPALTVLDVSF--NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN  158 (290)
T ss_dssp             EECCSSCCS-SCCCCTTTCTTCCEEECCS--SCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             EECCCCcCC-cCchhhccCCCCCEEECCC--CcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCC
Confidence            666665443 3443   233455566655  44444334456666666666666666655543 3455666666666666


Q ss_pred             cccccCCC----CCcccceeccccccccccchhhcccccccccccccccccCcch
Q 041505          175 ERLQSLPK----LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIE  225 (248)
Q Consensus       175 ~~~~~l~~----~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~  225 (248)
                      .+. .+|.    .+++|++|+++++ .++.++....   ..+.|+.+++.+|.+.
T Consensus       159 ~l~-~l~~~~~~~l~~L~~L~L~~N-~l~~ip~~~~---~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          159 NLT-ELPAGLLNGLENLDTLLLQEN-SLYTIPKGFF---GSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             CCS-CCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT---TTCCCSEEECCSCCBC
T ss_pred             cCC-ccCHHHhcCcCCCCEEECCCC-cCCccChhhc---ccccCCeEEeCCCCcc
Confidence            543 2332    2355666666654 3344433332   2335666666666554

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

Probab=99.80  E-value=1.6e-18  Score=138.77  Aligned_cols=178  Identities=20%  Similarity=0.118  Sum_probs=121.4

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      .+.+..++ .++.+++|++|++++|.+. .++ .+ .+++|++|++++|.+....+..+.++++|++|++++|.+.+..+
T Consensus        50 ~~~i~~~~-~l~~l~~L~~L~l~~n~l~-~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  126 (272)
T 3rfs_A           50 NSDIKSVQ-GIQYLPNVRYLALGGNKLH-DIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD  126 (272)
T ss_dssp             TSCCCCCT-TGGGCTTCCEEECTTSCCC-CCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             CCCccccc-ccccCCCCcEEECCCCCCC-Cch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCH
Confidence            34445443 4677888888888888743 333 44 78888888887776554444556788888888888877665555


Q ss_pred             ccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhcc
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQL  163 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~  163 (248)
                      ..+..+++|++|++++|.+.+..+.   .+++|+.|++++  |.+.+..+..++.+++|+.|++++|+++.++. .+..+
T Consensus       127 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l  204 (272)
T 3rfs_A          127 GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSY--NQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRL  204 (272)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTC
T ss_pred             HHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCC--CCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCC
Confidence            5577788888888888766644443   345666778877  55655445557788888888888888876654 46778


Q ss_pred             CCcceecccCccccccCCCCCcccceeccccc
Q 041505          164 SKLGRLYLRYWERLQSLPKLPCKLHELDAHHC  195 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~  195 (248)
                      ++|++|++++|++...    ++.|+.+++..+
T Consensus       205 ~~L~~L~l~~N~~~~~----~~~l~~l~~~~n  232 (272)
T 3rfs_A          205 TSLQYIWLHDNPWDCT----CPGIRYLSEWIN  232 (272)
T ss_dssp             TTCCEEECCSSCBCCC----TTTTHHHHHHHH
T ss_pred             cCCCEEEccCCCcccc----CcHHHHHHHHHH
Confidence            8888888888854432    345666665544

>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=99.79  E-value=2.2e-20  Score=156.82  Aligned_cols=96  Identities=19%  Similarity=0.064  Sum_probs=46.5

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcc----cCCcc-ccCcccEEEcCCCC---CccccChhh-------hcccCCCEE
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKS----LPAGI-HLEFLKELDLLNGT---AIEELPSAI-------ECLYKLLHL   75 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~----~~~~~-~l~~L~~L~l~~~~---~~~~~~~~~-------~~l~~L~~L   75 (248)
                      .+..++..+..+++|++|++++|.+...    ++..+ .+++|++|++++|.   ....+|..+       ..+++|++|
T Consensus        20 ~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L   99 (386)
T 2ca6_A           20 DEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTV   99 (386)
T ss_dssp             HHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEE
T ss_pred             HHHHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEE
Confidence            3444555555555666666666553332    22223 45556666655432   111223222       455555555


Q ss_pred             eccCCcCcC----cCCccccCCCCCcEEeccCccC
Q 041505           76 DLEYCESLN----SLPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        76 ~l~~~~~~~----~~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      ++++|.+..    .+|..+..+++|++|++++|.+
T Consensus       100 ~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l  134 (386)
T 2ca6_A          100 RLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGL  134 (386)
T ss_dssp             ECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             ECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCC
Confidence            555554443    2344455555555555555544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.79  E-value=1.6e-19  Score=147.46  Aligned_cols=184  Identities=21%  Similarity=0.179  Sum_probs=144.1

Q ss_pred             hhhccchH-hhhhhh--cCCCCccEEEccCCCCCcccCCcc-cc-----CcccEEEcCCCCCccccChhhhcccCCCEEe
Q 041505            6 DDHALELF-SLYAFK--QNNPHIVVLNLRDCKSLKSLPAGI-HL-----EFLKELDLLNGTAIEELPSAIECLYKLLHLD   76 (248)
Q Consensus         6 ~~~~~~l~-~l~~~l--~~l~~L~~L~l~~~~~~~~~~~~~-~l-----~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~   76 (248)
                      +++.+.+. .+|..+  +.+++|++|++++|.+.+. |..+ .+     ++|++|++++|.+....|..++++++|++|+
T Consensus       101 ~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  179 (312)
T 1wwl_A          101 TLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLD  179 (312)
T ss_dssp             EEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEE
T ss_pred             EccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEE
Confidence            34455565 466655  7899999999999985555 7766 66     8999999988887666668899999999999


Q ss_pred             ccCCcCcCc--CCccc--cCCCCCcEEeccCccCCc--cccc----ccCCCCceEecccCCccccccc-ccccCCCCcCe
Q 041505           77 LEYCESLNS--LPSGL--CKLKLLNYLTLNCCSNLQ--RLPD----ELGNLEALWISREAGVISRWLP-ENIGQLSSLGK  145 (248)
Q Consensus        77 l~~~~~~~~--~~~~l--~~l~~L~~L~l~~~~~~~--~~~~----~~~~l~~L~l~~~~n~~~~~~~-~~l~~~~~L~~  145 (248)
                      +++|.+.+.  .+..+  +.+++|++|++++|.+.+  .++.    .+++++.|++++  |.+.+..| ..+..+++|+.
T Consensus       180 Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~--N~l~~~~~~~~~~~l~~L~~  257 (312)
T 1wwl_A          180 LSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSH--NSLRDAAGAPSCDWPSQLNS  257 (312)
T ss_dssp             CCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTT--SCCCSSCCCSCCCCCTTCCE
T ss_pred             CCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCC--CcCCcccchhhhhhcCCCCE
Confidence            999876654  34444  789999999999987763  2332    447899999999  66776554 45677899999


Q ss_pred             EEccCCcCcccchhhhccCCcceecccCccccccCCC--CCcccceeccccc
Q 041505          146 LDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK--LPCKLHELDAHHC  195 (248)
Q Consensus       146 L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~--~~~~L~~L~l~~~  195 (248)
                      |++++|.++.+|..+.  ++|++|++++|.+.. +|.  .+++|++|+++++
T Consensus       258 L~Ls~N~l~~ip~~~~--~~L~~L~Ls~N~l~~-~p~~~~l~~L~~L~L~~N  306 (312)
T 1wwl_A          258 LNLSFTGLKQVPKGLP--AKLSVLDLSYNRLDR-NPSPDELPQVGNLSLKGN  306 (312)
T ss_dssp             EECTTSCCSSCCSSCC--SEEEEEECCSSCCCS-CCCTTTSCEEEEEECTTC
T ss_pred             EECCCCccChhhhhcc--CCceEEECCCCCCCC-ChhHhhCCCCCEEeccCC
Confidence            9999999999998765  899999999997643 354  3477888888776

>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=99.79  E-value=8.2e-19  Score=137.75  Aligned_cols=187  Identities=18%  Similarity=0.092  Sum_probs=142.1

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCC
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYC   80 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~   80 (248)
                      ++++.+.++.+++ .++.+++|++|++++|..++.++. .+ .+++|++|++++|+.+..++ ..+.++++|++|++++|
T Consensus        36 L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n  115 (239)
T 2xwt_C           36 LKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT  115 (239)
T ss_dssp             EEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEE
T ss_pred             EEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCC
Confidence            4556777888885 688999999999999964555655 56 89999999998734445555 56889999999999997


Q ss_pred             cCcCcCCccccCCCCCc---EEeccCc-cCCcccccc---cCCCC-ceEecccCCcccccccccccCCCCcCeEEccCCc
Q 041505           81 ESLNSLPSGLCKLKLLN---YLTLNCC-SNLQRLPDE---LGNLE-ALWISREAGVISRWLPENIGQLSSLGKLDLQKNN  152 (248)
Q Consensus        81 ~~~~~~~~~l~~l~~L~---~L~l~~~-~~~~~~~~~---~~~l~-~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~  152 (248)
                      .+.+ +|. +..+++|+   +|++++| .+.+..+..   +.+++ .|++++  |.+. .+|......++|+.|++++|+
T Consensus       116 ~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~--n~l~-~i~~~~~~~~~L~~L~L~~n~  190 (239)
T 2xwt_C          116 GLKM-FPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN--NGFT-SVQGYAFNGTKLDAVYLNKNK  190 (239)
T ss_dssp             CCCS-CCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCS--CCCC-EECTTTTTTCEEEEEECTTCT
T ss_pred             CCcc-ccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCC--CCCc-ccCHhhcCCCCCCEEEcCCCC
Confidence            6554 776 88888888   9999998 544333333   44566 788877  5555 466554344899999999995


Q ss_pred             -Ccccc-hhhhcc-CCcceecccCccccccCC-CCCcccceeccccccc
Q 041505          153 -FERIP-ESVIQL-SKLGRLYLRYWERLQSLP-KLPCKLHELDAHHCTA  197 (248)
Q Consensus       153 -l~~lp-~~l~~~-~~L~~L~l~~n~~~~~l~-~~~~~L~~L~l~~~~~  197 (248)
                       ++.+| ..+..+ ++|+.|++++|.+. .+| ..+++|+.|++.++..
T Consensus       191 ~l~~i~~~~~~~l~~~L~~L~l~~N~l~-~l~~~~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          191 YLTVIDKDAFGGVYSGPSLLDVSQTSVT-ALPSKGLEHLKELIARNTWT  238 (239)
T ss_dssp             TCCEECTTTTTTCSBCCSEEECTTCCCC-CCCCTTCTTCSEEECTTC--
T ss_pred             CcccCCHHHhhccccCCcEEECCCCccc-cCChhHhccCceeeccCccC
Confidence             98886 467888 99999999999765 444 4578999999887653

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.79  E-value=1.2e-19  Score=151.08  Aligned_cols=209  Identities=13%  Similarity=0.062  Sum_probs=98.8

Q ss_pred             hhcCCC-CccEEEccCCCCCcccCCcc-cc-----CcccEEEcCCCCCccccChhhh----cc-cCCCEEeccCCcCcCc
Q 041505           18 FKQNNP-HIVVLNLRDCKSLKSLPAGI-HL-----EFLKELDLLNGTAIEELPSAIE----CL-YKLLHLDLEYCESLNS   85 (248)
Q Consensus        18 ~l~~l~-~L~~L~l~~~~~~~~~~~~~-~l-----~~L~~L~l~~~~~~~~~~~~~~----~l-~~L~~L~l~~~~~~~~   85 (248)
                      .+..++ +|++|++++|.+.+..+..+ .+     +.|++|++++|.+....+..+.    .+ ++|++|++++|.+...
T Consensus        45 ~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~  124 (362)
T 3goz_A           45 AFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSK  124 (362)
T ss_dssp             HHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGS
T ss_pred             HHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcH
Confidence            344454 55555555554333222222 22     5555555555544333333222    22 5556666655544333


Q ss_pred             CCccc----cC-CCCCcEEeccCccCCccccc-------cc-CCCCceEecccCCcccccccc----cccCC-CCcCeEE
Q 041505           86 LPSGL----CK-LKLLNYLTLNCCSNLQRLPD-------EL-GNLEALWISREAGVISRWLPE----NIGQL-SSLGKLD  147 (248)
Q Consensus        86 ~~~~l----~~-l~~L~~L~l~~~~~~~~~~~-------~~-~~l~~L~l~~~~n~~~~~~~~----~l~~~-~~L~~L~  147 (248)
                      .+..+    .. .++|++|++++|.+....+.       .. .++++|++++  |.+.+..+.    .+..+ ++|+.|+
T Consensus       125 ~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~--n~l~~~~~~~l~~~l~~~~~~L~~L~  202 (362)
T 3goz_A          125 SSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRG--NNLASKNCAELAKFLASIPASVTSLD  202 (362)
T ss_dssp             CHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTT--SCGGGSCHHHHHHHHHTSCTTCCEEE
T ss_pred             HHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecC--CCCchhhHHHHHHHHHhCCCCCCEEE
Confidence            32222    22 13566666666554422211       11 2555666665  334333322    23333 3666666


Q ss_pred             ccCCcCcc-----cchhhhc-cCCcceecccCccccccCC-------CCCcccceeccccccc--cc--cchhhcccccc
Q 041505          148 LQKNNFER-----IPESVIQ-LSKLGRLYLRYWERLQSLP-------KLPCKLHELDAHHCTA--LE--SLSGLFSSFEA  210 (248)
Q Consensus       148 l~~n~l~~-----lp~~l~~-~~~L~~L~l~~n~~~~~l~-------~~~~~L~~L~l~~~~~--l~--~~~~~~~~l~~  210 (248)
                      +++|.++.     ++..+.. .++|++|++++|.+...-+       ...++|++|++++|..  +.  .+......+..
T Consensus       203 Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~  282 (362)
T 3goz_A          203 LSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPN  282 (362)
T ss_dssp             CTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTT
T ss_pred             CCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhcc
Confidence            66666644     4444444 3466666666665432111       2235566666666530  00  01111223345


Q ss_pred             cccccccccccCcchhch
Q 041505          211 RTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       211 l~~L~~l~l~~n~i~~~~  228 (248)
                      +++|+.+++++|.+....
T Consensus       283 l~~L~~LdL~~N~l~~~~  300 (362)
T 3goz_A          283 IQKIILVDKNGKEIHPSH  300 (362)
T ss_dssp             CCEEEEECTTSCBCCGGG
T ss_pred             CCceEEEecCCCcCCCcc
Confidence            667777888888776654

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

Probab=99.79  E-value=7.3e-19  Score=154.37  Aligned_cols=200  Identities=22%  Similarity=0.142  Sum_probs=147.7

Q ss_pred             CCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCcccc--ChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEE
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEEL--PSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYL   99 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L   99 (248)
                      +++|++|++++|...+..+. ..+++|++|++++|......  |..+.++++|++|++++|.+.+ .+..+..+++|++|
T Consensus       324 l~~L~~L~l~~n~~~~~~~~-~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~-~~~~~~~l~~L~~L  401 (570)
T 2z63_A          324 LKSLKRLTFTSNKGGNAFSE-VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHL  401 (570)
T ss_dssp             CSSCCEEEEESCBSCCBCCC-CBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEE-EEEEEETCTTCCEE
T ss_pred             ccccCEEeCcCCcccccccc-ccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCcccc-ccccccccCCCCEE
Confidence            34444444444442222221 36788888999777655432  6778899999999999876554 44448889999999


Q ss_pred             eccCccCCcccc----cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc--ccchhhhccCCcceecccC
Q 041505          100 TLNCCSNLQRLP----DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE--RIPESVIQLSKLGRLYLRY  173 (248)
Q Consensus       100 ~l~~~~~~~~~~----~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~--~lp~~l~~~~~L~~L~l~~  173 (248)
                      ++++|...+..|    ..++++++|++++  |...+..|..++.+++|+.|++++|.++  .+|..+..+++|++|++++
T Consensus       402 ~l~~n~l~~~~~~~~~~~l~~L~~L~l~~--n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~  479 (570)
T 2z63_A          402 DFQHSNLKQMSEFSVFLSLRNLIYLDISH--THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ  479 (570)
T ss_dssp             ECTTSEEESCTTSCTTTTCTTCCEEECTT--SCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTT
T ss_pred             EccCCccccccchhhhhcCCCCCEEeCcC--CcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCC
Confidence            999987766544    3456778999988  5666667888999999999999999985  5888899999999999999


Q ss_pred             ccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          174 WERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       174 n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      |.+....|..   +++|++|++++|. +...+  ...+..+++|+.+++.+|.+....
T Consensus       480 n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~--~~~~~~l~~L~~L~l~~N~~~~~~  534 (570)
T 2z63_A          480 CQLEQLSPTAFNSLSSLQVLNMASNQ-LKSVP--DGIFDRLTSLQKIWLHTNPWDCSC  534 (570)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSC-CSCCC--TTTTTTCTTCCEEECCSSCBCCCT
T ss_pred             CccccCChhhhhcccCCCEEeCCCCc-CCCCC--HHHhhcccCCcEEEecCCcccCCC
Confidence            9876655543   4789999999873 34332  233456779999999999987653

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.79  E-value=2e-19  Score=146.70  Aligned_cols=185  Identities=16%  Similarity=0.104  Sum_probs=143.0

Q ss_pred             hccchH-hhhhhh--cCCCCccEEEccCCCCCcccCC----cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccC
Q 041505            8 HALELF-SLYAFK--QNNPHIVVLNLRDCKSLKSLPA----GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEY   79 (248)
Q Consensus         8 ~~~~l~-~l~~~l--~~l~~L~~L~l~~~~~~~~~~~----~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~   79 (248)
                      +.+.+. ..|..+  +.+++|++|++++|.+.+..+.    .+ .+++|++|++++|.+....|..+.++++|++|++++
T Consensus        99 ~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~  178 (310)
T 4glp_A           99 EDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSD  178 (310)
T ss_dssp             ESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCS
T ss_pred             eCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCC
Confidence            344444 344555  7899999999999986664442    22 689999999988887666667889999999999999


Q ss_pred             CcCcCc--C--CccccCCCCCcEEeccCccCCc--cc----ccccCCCCceEecccCCcccccccccccCC---CCcCeE
Q 041505           80 CESLNS--L--PSGLCKLKLLNYLTLNCCSNLQ--RL----PDELGNLEALWISREAGVISRWLPENIGQL---SSLGKL  146 (248)
Q Consensus        80 ~~~~~~--~--~~~l~~l~~L~~L~l~~~~~~~--~~----~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~---~~L~~L  146 (248)
                      |.+.+.  +  +..++.+++|++|++++|.+..  ..    ...+++|++|++++  |.+.+..|..++.+   ++|+.|
T Consensus       179 N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~--N~l~~~~p~~~~~~~~~~~L~~L  256 (310)
T 4glp_A          179 NPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSH--NSLRATVNPSAPRCMWSSALNSL  256 (310)
T ss_dssp             CTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTT--SCCCCCCCSCCSSCCCCTTCCCE
T ss_pred             CCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCC--CCCCccchhhHHhccCcCcCCEE
Confidence            876542  2  2334688999999999987752  11    12458899999999  77877667777777   699999


Q ss_pred             EccCCcCcccchhhhccCCcceecccCccccc-cCCCCCcccceecccccc
Q 041505          147 DLQKNNFERIPESVIQLSKLGRLYLRYWERLQ-SLPKLPCKLHELDAHHCT  196 (248)
Q Consensus       147 ~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~-~l~~~~~~L~~L~l~~~~  196 (248)
                      ++++|+++.+|..+.  ++|++|++++|.+.. ..+..+++|+.|++++++
T Consensus       257 ~Ls~N~l~~lp~~~~--~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          257 NLSFAGLEQVPKGLP--AKLRVLDLSSNRLNRAPQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             ECCSSCCCSCCSCCC--SCCSCEECCSCCCCSCCCTTSCCCCSCEECSSTT
T ss_pred             ECCCCCCCchhhhhc--CCCCEEECCCCcCCCCchhhhCCCccEEECcCCC
Confidence            999999999988663  899999999998765 345566889999988763

>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=99.78  E-value=2.7e-18  Score=139.86  Aligned_cols=191  Identities=17%  Similarity=0.235  Sum_probs=138.1

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      ..+++|++|++++|. +..++ .+ .+++|++|++++|.+ ..++. +..+++|++|++++|.+. .++ .+..+++|++
T Consensus        38 ~~l~~L~~L~l~~~~-i~~l~-~~~~l~~L~~L~L~~n~i-~~~~~-~~~l~~L~~L~L~~n~l~-~~~-~~~~l~~L~~  111 (308)
T 1h6u_A           38 ADLDGITTLSAFGTG-VTTIE-GVQYLNNLIGLELKDNQI-TDLAP-LKNLTKITELELSGNPLK-NVS-AIAGLQSIKT  111 (308)
T ss_dssp             HHHHTCCEEECTTSC-CCCCT-TGGGCTTCCEEECCSSCC-CCCGG-GTTCCSCCEEECCSCCCS-CCG-GGTTCTTCCE
T ss_pred             HHcCCcCEEEeeCCC-ccCch-hhhccCCCCEEEccCCcC-CCChh-HccCCCCCEEEccCCcCC-Cch-hhcCCCCCCE
Confidence            446788889998886 55565 45 788899999976654 44555 888889999999887644 343 5788888999


Q ss_pred             EeccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccc
Q 041505           99 LTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus        99 L~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      |++++|.+.+ ++  ..+++|++|++++  |.+.+ ++. ++.+++|+.|++++|.++.++. +..+++|++|++++|.+
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~l  185 (308)
T 1h6u_A          112 LDLTSTQITD-VTPLAGLSNLQVLYLDL--NQITN-ISP-LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKI  185 (308)
T ss_dssp             EECTTSCCCC-CGGGTTCTTCCEEECCS--SCCCC-CGG-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC
T ss_pred             EECCCCCCCC-chhhcCCCCCCEEECCC--CccCc-Ccc-ccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCcc
Confidence            9998877654 33  2455677888887  55553 333 7888889999999888887766 77888899999988865


Q ss_pred             cccCCC--CCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          177 LQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       177 ~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      . .++.  .+++|++|++++| .+...+    .+..+++|+.+++++|.+...+
T Consensus       186 ~-~~~~l~~l~~L~~L~L~~N-~l~~~~----~l~~l~~L~~L~l~~N~i~~~~  233 (308)
T 1h6u_A          186 S-DISPLASLPNLIEVHLKNN-QISDVS----PLANTSNLFIVTLTNQTITNQP  233 (308)
T ss_dssp             C-CCGGGGGCTTCCEEECTTS-CCCBCG----GGTTCTTCCEEEEEEEEEECCC
T ss_pred             C-cChhhcCCCCCCEEEccCC-ccCccc----cccCCCCCCEEEccCCeeecCC
Confidence            3 3332  3478888888887 334333    2567778888888888886644

>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=99.78  E-value=2.4e-18  Score=147.35  Aligned_cols=156  Identities=25%  Similarity=0.305  Sum_probs=108.2

Q ss_pred             CCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEec
Q 041505           23 PHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTL  101 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l  101 (248)
                      ++|++|++++|.+. .+| .+ .+++|++|++++|.+. .+|..   .++|++|++++|.+.+ +| .++.+++|++|++
T Consensus       131 ~~L~~L~L~~n~l~-~lp-~~~~l~~L~~L~l~~N~l~-~lp~~---~~~L~~L~L~~n~l~~-l~-~~~~l~~L~~L~l  202 (454)
T 1jl5_A          131 PLLEYLGVSNNQLE-KLP-ELQNSSFLKIIDVDNNSLK-KLPDL---PPSLEFIAAGNNQLEE-LP-ELQNLPFLTAIYA  202 (454)
T ss_dssp             TTCCEEECCSSCCS-SCC-CCTTCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCSS-CC-CCTTCTTCCEEEC
T ss_pred             CCCCEEECcCCCCC-CCc-ccCCCCCCCEEECCCCcCc-ccCCC---cccccEEECcCCcCCc-Cc-cccCCCCCCEEEC
Confidence            46777777777633 466 35 7777777777666543 35543   2477778887765544 55 5788888888888


Q ss_pred             cCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCC
Q 041505          102 NCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLP  181 (248)
Q Consensus       102 ~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~  181 (248)
                      ++|.+.+ +|...++++.|++++  |... .+| .++.+++|+.|++++|+++.+|..   .++|++|++++|.+. .+|
T Consensus       203 ~~N~l~~-l~~~~~~L~~L~l~~--n~l~-~lp-~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l~~N~l~-~l~  273 (454)
T 1jl5_A          203 DNNSLKK-LPDLPLSLESIVAGN--NILE-ELP-ELQNLPFLTTIYADNNLLKTLPDL---PPSLEALNVRDNYLT-DLP  273 (454)
T ss_dssp             CSSCCSS-CCCCCTTCCEEECCS--SCCS-SCC-CCTTCTTCCEEECCSSCCSSCCSC---CTTCCEEECCSSCCS-CCC
T ss_pred             CCCcCCc-CCCCcCcccEEECcC--CcCC-ccc-ccCCCCCCCEEECCCCcCCccccc---ccccCEEECCCCccc-ccC
Confidence            8876654 666667888888888  4454 466 488888999999999988877753   367777777777543 356


Q ss_pred             CCCcccceeccccc
Q 041505          182 KLPCKLHELDAHHC  195 (248)
Q Consensus       182 ~~~~~L~~L~l~~~  195 (248)
                      ..+++|++|+++++
T Consensus       274 ~~~~~L~~L~ls~N  287 (454)
T 1jl5_A          274 ELPQSLTFLDVSEN  287 (454)
T ss_dssp             CCCTTCCEEECCSS
T ss_pred             cccCcCCEEECcCC
Confidence            55666777776665

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

Probab=99.78  E-value=9.6e-19  Score=143.10  Aligned_cols=207  Identities=17%  Similarity=0.065  Sum_probs=149.7

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-----------------h
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-----------------A   65 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-----------------~   65 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..+  + .+++|++|++++|.+.. ++.                 .
T Consensus        39 L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n~l~~-l~~~~~L~~L~l~~n~l~~~~  115 (317)
T 3o53_A           39 LDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQE-LLVGPSIETLHAANNNISRVS  115 (317)
T ss_dssp             EECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE--ETTCTTCCEEECCSSEEEE-EEECTTCCEEECCSSCCSEEE
T ss_pred             EECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh--hhhcCCCCEEECcCCcccc-ccCCCCcCEEECCCCccCCcC
Confidence            345566777776 578899999999999998544433  5 88889999987765432 110                 0


Q ss_pred             hhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc----ccCCCCceEecccCCcccccccccccCCC
Q 041505           66 IECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD----ELGNLEALWISREAGVISRWLPENIGQLS  141 (248)
Q Consensus        66 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~l~~~~n~~~~~~~~~l~~~~  141 (248)
                      ...+++|++|++++|.+.+..+..++.+++|++|++++|.+.+..+.    .+.+++.|++++  |.+.+ ++ ....++
T Consensus       116 ~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~--N~l~~-~~-~~~~l~  191 (317)
T 3o53_A          116 CSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY--NFIYD-VK-GQVVFA  191 (317)
T ss_dssp             ECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT--SCCCE-EE-CCCCCT
T ss_pred             ccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCC--CcCcc-cc-cccccc
Confidence            12356788888888776666666788889999999999887765544    346788999988  55553 33 344589


Q ss_pred             CcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCC---Ccccceecccccccc-ccchhhccccccccccccc
Q 041505          142 SLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTAL-ESLSGLFSSFEARTRYFDL  217 (248)
Q Consensus       142 ~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l-~~~~~~~~~l~~l~~L~~l  217 (248)
                      +|+.|++++|.++.+|..+..+++|++|++++|.+. .+|..   +++|+.|++++++-. ...+   ..+..+++|+.+
T Consensus       192 ~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~-~l~~~~~~l~~L~~L~l~~N~~~~~~~~---~~~~~~~~L~~l  267 (317)
T 3o53_A          192 KLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFHCGTLR---DFFSKNQRVQTV  267 (317)
T ss_dssp             TCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCC-EECTTCCCCTTCCEEECTTCCCBHHHHH---HHHHTCHHHHHH
T ss_pred             cCCEEECCCCcCCcchhhhcccCcccEEECcCCccc-chhhHhhcCCCCCEEEccCCCccCcCHH---HHHhccccceEE
Confidence            999999999999999888999999999999999765 45543   478999999987543 2222   233355677777


Q ss_pred             ccccC
Q 041505          218 RYNYN  222 (248)
Q Consensus       218 ~l~~n  222 (248)
                      ++..+
T Consensus       268 ~l~~~  272 (317)
T 3o53_A          268 AKQTV  272 (317)
T ss_dssp             HHHHH
T ss_pred             ECCCc
Confidence            77633

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

Probab=99.78  E-value=6.2e-19  Score=152.31  Aligned_cols=204  Identities=16%  Similarity=0.036  Sum_probs=156.2

Q ss_pred             chhhccchHhhh-hhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            5 VDDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         5 ~~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++++.+.+..++ ..++.+++|++|++++|.+.+..|  + .+++|++|++++|.+ ..+|    ..++|++|++++|.+
T Consensus        39 L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l-~~l~----~~~~L~~L~L~~N~l  111 (487)
T 3oja_A           39 LDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYV-QELL----VGPSIETLHAANNNI  111 (487)
T ss_dssp             EECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEE-EEEE----ECTTCCEEECCSSCC
T ss_pred             EEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcC-CCCC----CCCCcCEEECcCCcC
Confidence            445566777776 679999999999999998555544  6 899999999977764 3444    338999999999876


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCccccccc---CCCCceEecccCCccccccccccc-CCCCcCeEEccCCcCcccch
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIG-QLSSLGKLDLQKNNFERIPE  158 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~-~~~~L~~L~l~~n~l~~lp~  158 (248)
                      .+..+.   .+++|+.|++++|.+.+..|..+   ++|+.|++++  |.+.+..|..+. .+++|+.|++++|.++.+|.
T Consensus       112 ~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~--N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~  186 (487)
T 3oja_A          112 SRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKL--NEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG  186 (487)
T ss_dssp             CCEEEC---CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTT--SCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC
T ss_pred             CCCCcc---ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCC--CCCCCcChHHHhhhCCcccEEecCCCccccccc
Confidence            655443   46889999999988887766544   5666888888  677776777765 78999999999999987765


Q ss_pred             hhhccCCcceecccCccccccCCC--CCcccceeccccccccccchhhcccccccccccccccccCcch
Q 041505          159 SVIQLSKLGRLYLRYWERLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIE  225 (248)
Q Consensus       159 ~l~~~~~L~~L~l~~n~~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~  225 (248)
                      . ..+++|++|++++|.+....+.  .+++|+.|+++++ .+..++..   +..+++|+.+++++|.+.
T Consensus       187 ~-~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~---l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          187 Q-VVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA---LRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             C-CCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTS-CCCEECTT---CCCCTTCCEEECTTCCBC
T ss_pred             c-ccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCC-cCcccchh---hccCCCCCEEEcCCCCCc
Confidence            3 3689999999999976543332  2478999999987 44555443   445679999999999987

>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=99.77  E-value=1.5e-17  Score=131.53  Aligned_cols=169  Identities=20%  Similarity=0.183  Sum_probs=131.6

Q ss_pred             CCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEecc
Q 041505           23 PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLN  102 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~  102 (248)
                      ...+.++++++. +..+|..+. +.+++|++++|.+....+..+.++++|++|++++|.+.+..+..+..+++|++|+++
T Consensus        14 ~~~~~l~~~~~~-l~~~p~~~~-~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~   91 (251)
T 3m19_A           14 EGKKEVDCQGKS-LDSVPSGIP-ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLA   91 (251)
T ss_dssp             GGGTEEECTTCC-CSSCCSCCC-TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CCCeEEecCCCC-ccccCCCCC-CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECC
Confidence            356789999986 777877663 589999998888776666779999999999999988887777778999999999999


Q ss_pred             CccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccc
Q 041505          103 CCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQ  178 (248)
Q Consensus       103 ~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~  178 (248)
                      +|.+.+..+.   .+.+|+.|++++  |.+.+..+..++.+++|+.|++++|+++.+|. .+..+++|++|++++|.+..
T Consensus        92 ~n~l~~~~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~  169 (251)
T 3m19_A           92 NNQLASLPLGVFDHLTQLDKLYLGG--NQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQS  169 (251)
T ss_dssp             TSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSC
T ss_pred             CCcccccChhHhcccCCCCEEEcCC--CcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCc
Confidence            9877654444   345677888888  66665444557888999999999999988775 67888999999999987654


Q ss_pred             cCCC---CCcccceeccccc
Q 041505          179 SLPK---LPCKLHELDAHHC  195 (248)
Q Consensus       179 ~l~~---~~~~L~~L~l~~~  195 (248)
                      ..+.   .+++|++|+++++
T Consensus       170 ~~~~~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          170 VPHGAFDRLGKLQTITLFGN  189 (251)
T ss_dssp             CCTTTTTTCTTCCEEECCSC
T ss_pred             cCHHHHhCCCCCCEEEeeCC
Confidence            3332   2366777777765

>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=99.77  E-value=7.3e-18  Score=144.86  Aligned_cols=194  Identities=23%  Similarity=0.215  Sum_probs=119.3

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      ++.+++|++|++++|. +..++. + .+++|++|++++|......|  ++.+++|++|++++|.+.+ + ..+..+++|+
T Consensus       173 ~~~l~~L~~L~l~~n~-l~~~~~-l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~-~-~~l~~l~~L~  246 (466)
T 1o6v_A          173 LANLTTLERLDISSNK-VSDISV-LAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLKD-I-GTLASLTNLT  246 (466)
T ss_dssp             GTTCTTCCEEECCSSC-CCCCGG-GGGCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCCC-C-GGGGGCTTCS
T ss_pred             hccCCCCCEEECcCCc-CCCChh-hccCCCCCEEEecCCccccccc--ccccCCCCEEECCCCCccc-c-hhhhcCCCCC
Confidence            5566777777777776 333332 4 67777777776665443322  5667777777777765433 2 3466677777


Q ss_pred             EEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccc
Q 041505           98 YLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus        98 ~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      +|++++|...+..+ ..+++++.|++++  |.+.+ ++. +..+++|+.|++++|+++.++. +..+++|+.|++++|.+
T Consensus       247 ~L~l~~n~l~~~~~~~~l~~L~~L~l~~--n~l~~-~~~-~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~L~~n~l  321 (466)
T 1o6v_A          247 DLDLANNQISNLAPLSGLTKLTELKLGA--NQISN-ISP-LAGLTALTNLELNENQLEDISP-ISNLKNLTYLTLYFNNI  321 (466)
T ss_dssp             EEECCSSCCCCCGGGTTCTTCSEEECCS--SCCCC-CGG-GTTCTTCSEEECCSSCCSCCGG-GGGCTTCSEEECCSSCC
T ss_pred             EEECCCCccccchhhhcCCCCCEEECCC--CccCc-ccc-ccCCCccCeEEcCCCcccCchh-hcCCCCCCEEECcCCcC
Confidence            77777766554432 2445666777776  44443 222 6677777777777777766654 66777777777777765


Q ss_pred             cccCC-CCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          177 LQSLP-KLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       177 ~~~l~-~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      ....| ..+++|++|++++|. +...    ..+..+++|+.+++++|.+....
T Consensus       322 ~~~~~~~~l~~L~~L~l~~n~-l~~~----~~l~~l~~L~~L~l~~n~l~~~~  369 (466)
T 1o6v_A          322 SDISPVSSLTKLQRLFFYNNK-VSDV----SSLANLTNINWLSAGHNQISDLT  369 (466)
T ss_dssp             SCCGGGGGCTTCCEEECCSSC-CCCC----GGGTTCTTCCEEECCSSCCCBCG
T ss_pred             CCchhhccCccCCEeECCCCc-cCCc----hhhccCCCCCEEeCCCCccCccc
Confidence            43322 234667777777662 3332    23445667777777777766543

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.77  E-value=1.3e-19  Score=151.01  Aligned_cols=238  Identities=13%  Similarity=0.050  Sum_probs=165.4

Q ss_pred             hhhccchHhhh-hhhcCCCCccEEEccCCCCCcccC-----Ccc-ccC-cccEEEcCCCCCccccChhhhcc-----cCC
Q 041505            6 DDHALELFSLY-AFKQNNPHIVVLNLRDCKSLKSLP-----AGI-HLE-FLKELDLLNGTAIEELPSAIECL-----YKL   72 (248)
Q Consensus         6 ~~~~~~l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~-----~~~-~l~-~L~~L~l~~~~~~~~~~~~~~~l-----~~L   72 (248)
                      .++.+.+.... ..+...++|++|++++|. ++..+     ..+ .++ +|++|++++|.+....+..+..+     ++|
T Consensus         4 ~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L   82 (362)
T 3goz_A            4 KLTLHPGSNPVEEFTSIPHGVTSLDLSLNN-LYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANV   82 (362)
T ss_dssp             ECCCCTTCCHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTC
T ss_pred             ccccccchHHHHHHHhCCCCceEEEccCCC-CChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCc
Confidence            34556666544 455556679999999998 55444     445 677 89999998887766656666665     999


Q ss_pred             CEEeccCCcCcCcCCcccc----CC-CCCcEEeccCccCCcccccc--------cCCCCceEecccCCcccc----cccc
Q 041505           73 LHLDLEYCESLNSLPSGLC----KL-KLLNYLTLNCCSNLQRLPDE--------LGNLEALWISREAGVISR----WLPE  135 (248)
Q Consensus        73 ~~L~l~~~~~~~~~~~~l~----~l-~~L~~L~l~~~~~~~~~~~~--------~~~l~~L~l~~~~n~~~~----~~~~  135 (248)
                      ++|++++|.+.+..+..+.    .+ ++|++|++++|.+.+..+..        -.++++|++++  |.+.+    .++.
T Consensus        83 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~--N~l~~~~~~~l~~  160 (362)
T 3goz_A           83 TSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRG--NDLGIKSSDELIQ  160 (362)
T ss_dssp             CEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTT--SCGGGSCHHHHHH
T ss_pred             cEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccC--CcCCHHHHHHHHH
Confidence            9999999887766655443    34 89999999998876554432        24788999999  55553    2444


Q ss_pred             cccCCC-CcCeEEccCCcCcccc-h----hhhcc-CCcceecccCcccccc----CCC----CCcccceecccccccccc
Q 041505          136 NIGQLS-SLGKLDLQKNNFERIP-E----SVIQL-SKLGRLYLRYWERLQS----LPK----LPCKLHELDAHHCTALES  200 (248)
Q Consensus       136 ~l~~~~-~L~~L~l~~n~l~~lp-~----~l~~~-~~L~~L~l~~n~~~~~----l~~----~~~~L~~L~l~~~~~l~~  200 (248)
                      .+...+ +|+.|++++|+++... .    .+..+ ++|++|++++|.+...    ++.    ..++|++|+++++. +..
T Consensus       161 ~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~  239 (362)
T 3goz_A          161 ILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNC-LHG  239 (362)
T ss_dssp             HHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSC-CCC
T ss_pred             HHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCC-CCc
Confidence            556665 9999999999996543 3    33445 5999999999976542    222    23589999999873 333


Q ss_pred             chh-h-cccccccccccccccccCcchhchHHHHHHH------HhhhhheecccC
Q 041505          201 LSG-L-FSSFEARTRYFDLRYNYNWIEMRSEEFLKML------CKKLNFWQLHYG  247 (248)
Q Consensus       201 ~~~-~-~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l------~~~l~~~~~~~~  247 (248)
                      .+. . ...+..+++|+.|++++|.+.....+.+..+      ++.++...+.++
T Consensus       240 ~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N  294 (362)
T 3goz_A          240 PSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGK  294 (362)
T ss_dssp             CCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSC
T ss_pred             HHHHHHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCC
Confidence            322 1 1333467799999999999777766655555      344555555443

>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=99.77  E-value=2.1e-19  Score=150.85  Aligned_cols=224  Identities=15%  Similarity=0.058  Sum_probs=163.0

Q ss_pred             hhhhhcCCCCccEEEccCCC---CCcccCCc-------c-ccCcccEEEcCCCCCcc----ccChhhhcccCCCEEeccC
Q 041505           15 LYAFKQNNPHIVVLNLRDCK---SLKSLPAG-------I-HLEFLKELDLLNGTAIE----ELPSAIECLYKLLHLDLEY   79 (248)
Q Consensus        15 l~~~l~~l~~L~~L~l~~~~---~~~~~~~~-------~-~l~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~   79 (248)
                      ++..+..+++|++|++++|.   +.+.+|..       + .+++|++|++++|.+..    .+|..+..+++|++|++++
T Consensus        52 l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~  131 (386)
T 2ca6_A           52 LSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHN  131 (386)
T ss_dssp             HHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCS
T ss_pred             HHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcC
Confidence            34457789999999999974   22233332       3 67999999998888766    4777889999999999999


Q ss_pred             CcCcCcCCcc----ccCC---------CCCcEEeccCccCC-cccc---c---ccCCCCceEecccCCcccc-----ccc
Q 041505           80 CESLNSLPSG----LCKL---------KLLNYLTLNCCSNL-QRLP---D---ELGNLEALWISREAGVISR-----WLP  134 (248)
Q Consensus        80 ~~~~~~~~~~----l~~l---------~~L~~L~l~~~~~~-~~~~---~---~~~~l~~L~l~~~~n~~~~-----~~~  134 (248)
                      |.+....+..    +..+         ++|++|++++|.+. +.++   .   ..++|++|++++  |.+..     ..+
T Consensus       132 n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~--n~l~~~g~~~l~~  209 (386)
T 2ca6_A          132 NGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQ--NGIRPEGIEHLLL  209 (386)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCS--SCCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcC--CCCCHhHHHHHHH
Confidence            8775433333    3334         89999999998876 3444   2   456888999998  44442     234


Q ss_pred             ccccCCCCcCeEEccCCcC-----cccchhhhccCCcceecccCcccccc----CCC-----CCcccceeccccccccc-
Q 041505          135 ENIGQLSSLGKLDLQKNNF-----ERIPESVIQLSKLGRLYLRYWERLQS----LPK-----LPCKLHELDAHHCTALE-  199 (248)
Q Consensus       135 ~~l~~~~~L~~L~l~~n~l-----~~lp~~l~~~~~L~~L~l~~n~~~~~----l~~-----~~~~L~~L~l~~~~~l~-  199 (248)
                      ..+..+++|+.|++++|.+     ..+|..+..+++|++|++++|.+...    ++.     ..++|++|++++|..-. 
T Consensus       210 ~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~  289 (386)
T 2ca6_A          210 EGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELD  289 (386)
T ss_dssp             TTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHH
T ss_pred             HHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHH
Confidence            4788999999999999999     56788889999999999999976432    232     15889999999984332 


Q ss_pred             ---cchhhcccccccccccccccccCcchhchH--HHHHHHHhhhhhe
Q 041505          200 ---SLSGLFSSFEARTRYFDLRYNYNWIEMRSE--EFLKMLCKKLNFW  242 (248)
Q Consensus       200 ---~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~--~~~~~l~~~l~~~  242 (248)
                         .++...  ...+++|+.|++++|.+...+.  ..+...++.++..
T Consensus       290 g~~~l~~~l--~~~l~~L~~L~l~~N~l~~~~~~~~~l~~~l~~~~~~  335 (386)
T 2ca6_A          290 AVRTLKTVI--DEKMPDLLFLELNGNRFSEEDDVVDEIREVFSTRGRG  335 (386)
T ss_dssp             HHHHHHHHH--HHHCTTCCEEECTTSBSCTTSHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHH--HhcCCCceEEEccCCcCCcchhHHHHHHHHhhhcCcc
Confidence               133222  1346799999999999998763  5555555555543

>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=99.77  E-value=6.5e-18  Score=136.48  Aligned_cols=183  Identities=22%  Similarity=0.170  Sum_probs=140.9

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +.+.+.++.+|..+.  +++++|++++|.+.+..+..+ .+++|++|++++|.+. .++. ...+++|++|++++|. ..
T Consensus        16 ~~~~~~l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~-~~~l~~L~~L~Ls~N~-l~   90 (290)
T 1p9a_G           16 NCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQV-DGTLPVLGTLDLSHNQ-LQ   90 (290)
T ss_dssp             ECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEEC-CSCCTTCCEEECCSSC-CS
T ss_pred             ECCCCCCCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccC-cccC-CCCCCcCCEEECCCCc-CC
Confidence            334566778876553  789999999998665556667 8999999999777654 4444 3789999999999875 45


Q ss_pred             cCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hh
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SV  160 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l  160 (248)
                      .+|..+..+++|++|++++|.+.+..+.   .+++|+.|++++  |.+....+..+..+++|+.|++++|+++.+|. .+
T Consensus        91 ~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~  168 (290)
T 1p9a_G           91 SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG--NELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLL  168 (290)
T ss_dssp             SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTT--SCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTT
T ss_pred             cCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCC--CCCCccChhhcccccCCCEEECCCCcCCccCHHHh
Confidence            7888888899999999999877655444   445677888888  66665555668889999999999999988876 46


Q ss_pred             hccCCcceecccCccccccCCCC---Ccccceecccccc
Q 041505          161 IQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCT  196 (248)
Q Consensus       161 ~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~  196 (248)
                      ..+++|++|++++|.+. .+|..   ..+|+.+++.+++
T Consensus       169 ~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          169 NGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNP  206 (290)
T ss_dssp             TTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCC
T ss_pred             cCcCCCCEEECCCCcCC-ccChhhcccccCCeEEeCCCC
Confidence            78999999999999654 55543   2568888888653

>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=99.76  E-value=1.3e-19  Score=149.19  Aligned_cols=215  Identities=16%  Similarity=0.130  Sum_probs=158.7

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcc-cCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC-
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKS-LPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN-   84 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~-~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-   84 (248)
                      +.+.+...+..+..+++|++|++++|.+.+. ++..+ .+++|++|++++|......+..+..+++|++|++++|...+ 
T Consensus        78 ~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~  157 (336)
T 2ast_B           78 PRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSE  157 (336)
T ss_dssp             TTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCH
T ss_pred             CCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCH
Confidence            3444555555567789999999999985554 66666 89999999999888776778888999999999999984333 


Q ss_pred             -cCCccccCCCCCcEEeccCc-cCCcc-cc---cccC-CCCceEecccCCccc-ccccccccCCCCcCeEEccCCc-Cc-
Q 041505           85 -SLPSGLCKLKLLNYLTLNCC-SNLQR-LP---DELG-NLEALWISREAGVIS-RWLPENIGQLSSLGKLDLQKNN-FE-  154 (248)
Q Consensus        85 -~~~~~l~~l~~L~~L~l~~~-~~~~~-~~---~~~~-~l~~L~l~~~~n~~~-~~~~~~l~~~~~L~~L~l~~n~-l~-  154 (248)
                       .++..+..+++|++|++++| .+.+. ++   ..++ +|++|+++++..... ..++..++.+++|+.|++++|. ++ 
T Consensus       158 ~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~  237 (336)
T 2ast_B          158 FALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKN  237 (336)
T ss_dssp             HHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCG
T ss_pred             HHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCH
Confidence             35666888999999999998 66542 33   3567 899999998531233 4567778899999999999999 54 


Q ss_pred             ccchhhhccCCcceecccCccccccC----CCCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          155 RIPESVIQLSKLGRLYLRYWERLQSL----PKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       155 ~lp~~l~~~~~L~~L~l~~n~~~~~l----~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      ..+..+..+++|++|++++|......    -...++|++|++++|  +..  ..+..+.  ..+..|+++.|.+....
T Consensus       238 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~--i~~--~~~~~l~--~~l~~L~l~~n~l~~~~  309 (336)
T 2ast_B          238 DCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI--VPD--GTLQLLK--EALPHLQINCSHFTTIA  309 (336)
T ss_dssp             GGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS--SCT--TCHHHHH--HHSTTSEESCCCSCCTT
T ss_pred             HHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc--cCH--HHHHHHH--hhCcceEEecccCcccc
Confidence            56678889999999999999532211    123588999999988  221  1112221  24677778888887653

>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=99.76  E-value=1.1e-17  Score=143.74  Aligned_cols=91  Identities=19%  Similarity=0.200  Sum_probs=56.0

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS   88 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~   88 (248)
                      ..+..++ .+..+++|++|++++|. +..++. + .+++|++|++++|... .++. +.++++|++|++++|.+.+ ++.
T Consensus        56 ~~i~~l~-~~~~l~~L~~L~Ls~n~-l~~~~~-~~~l~~L~~L~l~~n~l~-~~~~-~~~l~~L~~L~L~~n~l~~-~~~  129 (466)
T 1o6v_A           56 LGIKSID-GVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNNQIA-DITP-LANLTNLTGLTLFNNQITD-IDP  129 (466)
T ss_dssp             SCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSSCCCC-CGG
T ss_pred             CCCccCc-chhhhcCCCEEECCCCc-cCCchh-hhccccCCEEECCCCccc-cChh-hcCCCCCCEEECCCCCCCC-ChH
Confidence            3445554 35667777777777776 333443 5 7777777777655543 3333 6777777777777764433 332


Q ss_pred             cccCCCCCcEEeccCccCC
Q 041505           89 GLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        89 ~l~~l~~L~~L~l~~~~~~  107 (248)
                       +..+++|++|++++|.+.
T Consensus       130 -~~~l~~L~~L~l~~n~l~  147 (466)
T 1o6v_A          130 -LKNLTNLNRLELSSNTIS  147 (466)
T ss_dssp             -GTTCTTCSEEEEEEEEEC
T ss_pred             -HcCCCCCCEEECCCCccC
Confidence             666677777777665543

>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=99.76  E-value=1.9e-17  Score=146.42  Aligned_cols=204  Identities=25%  Similarity=0.258  Sum_probs=121.5

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCc-------------------cccChhhh
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAI-------------------EELPSAIE   67 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-------------------~~~~~~~~   67 (248)
                      ++.+.++.+|.   .+++|++|++++|. +..+|.  .+++|++|++++|.+.                   ..+|.   
T Consensus        68 L~~N~l~~lp~---~l~~L~~L~Ls~N~-l~~lp~--~l~~L~~L~Ls~N~l~~l~~~l~~L~~L~L~~N~l~~lp~---  138 (622)
T 3g06_A           68 IPDNNLTSLPA---LPPELRTLEVSGNQ-LTSLPV--LPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPV---  138 (622)
T ss_dssp             ECSCCCSCCCC---CCTTCCEEEECSCC-CSCCCC--CCTTCCEEEECSCCCCCCCCCCTTCCEEECCSSCCSCCCC---
T ss_pred             ecCCCCCCCCC---cCCCCCEEEcCCCc-CCcCCC--CCCCCCEEECcCCcCCCCCCCCCCcCEEECCCCCCCcCCC---
Confidence            34445555554   35666666666665 344444  4455555555444322                   22232   


Q ss_pred             cccCCCEEeccCCcCcCcCCccc---cCC--------------CCCcEEeccCccCCcccccccCCCCceEecccCCccc
Q 041505           68 CLYKLLHLDLEYCESLNSLPSGL---CKL--------------KLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVIS  130 (248)
Q Consensus        68 ~l~~L~~L~l~~~~~~~~~~~~l---~~l--------------~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~  130 (248)
                      .+++|++|++++|.+.+ +|..+   ..+              ++|+.|++++|.+. .+|..+++++.|++.+  |.+.
T Consensus       139 ~l~~L~~L~Ls~N~l~~-l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~-~l~~~~~~L~~L~L~~--N~l~  214 (622)
T 3g06_A          139 LPPGLQELSVSDNQLAS-LPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLA-SLPTLPSELYKLWAYN--NRLT  214 (622)
T ss_dssp             CCTTCCEEECCSSCCSC-CCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCS-CCCCCCTTCCEEECCS--SCCS
T ss_pred             CCCCCCEEECcCCcCCC-cCCccCCCCEEECCCCCCCCCcccCCCCcEEECCCCCCC-CCCCccchhhEEECcC--Cccc
Confidence            12556666666554332 22211   111              44555555554333 3444445555555555  3233


Q ss_pred             ccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCCCcccceeccccccccccchhhcccccc
Q 041505          131 RWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEA  210 (248)
Q Consensus       131 ~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~  210 (248)
                       .+|.   .+++|+.|++++|.++.+|   ..+++|+.|++++|.+ +.+|..+++|+.|++++| .+..++.   .+..
T Consensus       215 -~l~~---~~~~L~~L~Ls~N~L~~lp---~~l~~L~~L~Ls~N~L-~~lp~~~~~L~~L~Ls~N-~L~~lp~---~l~~  282 (622)
T 3g06_A          215 -SLPA---LPSGLKELIVSGNRLTSLP---VLPSELKELMVSGNRL-TSLPMLPSGLLSLSVYRN-QLTRLPE---SLIH  282 (622)
T ss_dssp             -SCCC---CCTTCCEEECCSSCCSCCC---CCCTTCCEEECCSSCC-SCCCCCCTTCCEEECCSS-CCCSCCG---GGGG
T ss_pred             -ccCC---CCCCCCEEEccCCccCcCC---CCCCcCcEEECCCCCC-CcCCcccccCcEEeCCCC-CCCcCCH---HHhh
Confidence             1332   2367888888888888887   4568899999999854 467777889999999987 4555554   3557


Q ss_pred             cccccccccccCcchhchHHHHHHH
Q 041505          211 RTRYFDLRYNYNWIEMRSEEFLKML  235 (248)
Q Consensus       211 l~~L~~l~l~~n~i~~~~~~~~~~l  235 (248)
                      +++|+.+++++|.+....+..+..+
T Consensus       283 l~~L~~L~L~~N~l~~~~~~~l~~L  307 (622)
T 3g06_A          283 LSSETTVNLEGNPLSERTLQALREI  307 (622)
T ss_dssp             SCTTCEEECCSCCCCHHHHHHHHHH
T ss_pred             ccccCEEEecCCCCCCcCHHHHHhc
Confidence            7799999999999987777666655

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.76  E-value=3.3e-17  Score=143.45  Aligned_cols=188  Identities=22%  Similarity=0.210  Sum_probs=148.4

Q ss_pred             CCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEecc
Q 041505           23 PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLN  102 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~  102 (248)
                      .+++.|++++|. +..+|..+ .++|++|++++|.+. .+|   ..+++|++|++++|.+.+ +|. +..  +|++|+++
T Consensus        59 ~~L~~L~Ls~n~-L~~lp~~l-~~~L~~L~Ls~N~l~-~ip---~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           59 NQFSELQLNRLN-LSSLPDNL-PPQITVLEITQNALI-SLP---ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TTCSEEECCSSC-CSCCCSCC-CTTCSEEECCSSCCS-CCC---CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECC
T ss_pred             CCccEEEeCCCC-CCccCHhH-cCCCCEEECcCCCCc-ccc---cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECC
Confidence            489999999998 45577755 378999999777654 778   568999999999987665 777 655  99999999


Q ss_pred             CccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC
Q 041505          103 CCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK  182 (248)
Q Consensus       103 ~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~  182 (248)
                      +|.+.+ +|..+++|+.|++++  |.+.+ +|.   .+++|+.|++++|.++.+|. +.  ++|+.|++++|.+. .+|.
T Consensus       129 ~N~l~~-lp~~l~~L~~L~Ls~--N~l~~-lp~---~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~-~lp~  197 (571)
T 3cvr_A          129 NNQLTM-LPELPALLEYINADN--NQLTM-LPE---LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLE-SLPA  197 (571)
T ss_dssp             SSCCSC-CCCCCTTCCEEECCS--SCCSC-CCC---CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCS-SCCC
T ss_pred             CCcCCC-CCCcCccccEEeCCC--CccCc-CCC---cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCC-chhh
Confidence            987766 777778899999999  66664 665   57899999999999998988 55  99999999999654 6676


Q ss_pred             CCccc-------ceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHH
Q 041505          183 LPCKL-------HELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKML  235 (248)
Q Consensus       183 ~~~~L-------~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l  235 (248)
                      ...+|       +.|++++| .+..++....   .+++|+.|++++|.+....+..+..+
T Consensus       198 ~~~~L~~~~~~L~~L~Ls~N-~l~~lp~~l~---~l~~L~~L~L~~N~l~~~~p~~l~~l  253 (571)
T 3cvr_A          198 VPVRNHHSEETEIFFRCREN-RITHIPENIL---SLDPTCTIILEDNPLSSRIRESLSQQ  253 (571)
T ss_dssp             CC--------CCEEEECCSS-CCCCCCGGGG---GSCTTEEEECCSSSCCHHHHHHHHHH
T ss_pred             HHHhhhcccccceEEecCCC-cceecCHHHh---cCCCCCEEEeeCCcCCCcCHHHHHHh
Confidence            54578       99999987 5566655443   46799999999999988766666555

>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=99.75  E-value=1.6e-17  Score=142.25  Aligned_cols=166  Identities=23%  Similarity=0.237  Sum_probs=70.4

Q ss_pred             cccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccC
Q 041505           47 FLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREA  126 (248)
Q Consensus        47 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~  126 (248)
                      .|++|++++|... .+|. ++.+++|++|++++|.+. .+|..   +++|++|++++|.+.+ +|....+++.|++++  
T Consensus       216 ~L~~L~l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~-~l~~~---~~~L~~L~l~~N~l~~-l~~~~~~L~~L~ls~--  286 (454)
T 1jl5_A          216 SLESIVAGNNILE-ELPE-LQNLPFLTTIYADNNLLK-TLPDL---PPSLEALNVRDNYLTD-LPELPQSLTFLDVSE--  286 (454)
T ss_dssp             TCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCS-SCCSC---CTTCCEEECCSSCCSC-CCCCCTTCCEEECCS--
T ss_pred             cccEEECcCCcCC-cccc-cCCCCCCCEEECCCCcCC-ccccc---ccccCEEECCCCcccc-cCcccCcCCEEECcC--
Confidence            4444444333322 3442 455555555555554332 23321   2445555555544332 444444555555555  


Q ss_pred             Ccccc--cccccc-------------cCC-CCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCCCccccee
Q 041505          127 GVISR--WLPENI-------------GQL-SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHEL  190 (248)
Q Consensus       127 n~~~~--~~~~~l-------------~~~-~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L  190 (248)
                      |.+.+  .+|..+             ... ++|+.|++++|+++.+|..   +++|++|++++|.+. .+|..+++|++|
T Consensus       287 N~l~~l~~~~~~L~~L~l~~N~l~~i~~~~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~L~~N~l~-~lp~~l~~L~~L  362 (454)
T 1jl5_A          287 NIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPAL---PPRLERLIASFNHLA-EVPELPQNLKQL  362 (454)
T ss_dssp             SCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCS-CCCCCCTTCCEE
T ss_pred             CccCcccCcCCcCCEEECcCCcCCcccCCcCcCCEEECCCCcccccccc---CCcCCEEECCCCccc-cccchhhhccEE
Confidence            32332  111111             112 3566666666666555543   466777777776543 455556677777


Q ss_pred             ccccccccccchhhccccccc-------------ccccccccccCcchh
Q 041505          191 DAHHCTALESLSGLFSSFEAR-------------TRYFDLRYNYNWIEM  226 (248)
Q Consensus       191 ~l~~~~~l~~~~~~~~~l~~l-------------~~L~~l~l~~n~i~~  226 (248)
                      +++++.- ..++.....+..+             ++|+.|++++|.+..
T Consensus       363 ~L~~N~l-~~l~~ip~~l~~L~~n~~~~~i~~~~~~L~~L~ls~N~l~~  410 (454)
T 1jl5_A          363 HVEYNPL-REFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLRE  410 (454)
T ss_dssp             ECCSSCC-SSCCCCCTTCCEEECCC------------------------
T ss_pred             ECCCCCC-CcCCCChHHHHhhhhcccccccccccCcCCEEECCCCcCCc
Confidence            7776532 2222111222222             678888888887765

>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=99.75  E-value=9.9e-18  Score=148.29  Aligned_cols=216  Identities=25%  Similarity=0.197  Sum_probs=127.2

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      ++++.+.++.+|..+.  ++|++|++++|. +..+|.  .+++|++|++++|.+ +.+|.   .+++|++|++++|.+. 
T Consensus        45 L~ls~n~L~~lp~~l~--~~L~~L~L~~N~-l~~lp~--~l~~L~~L~Ls~N~l-~~lp~---~l~~L~~L~Ls~N~l~-  114 (622)
T 3g06_A           45 LNVGESGLTTLPDCLP--AHITTLVIPDNN-LTSLPA--LPPELRTLEVSGNQL-TSLPV---LPPGLLELSIFSNPLT-  114 (622)
T ss_dssp             EECCSSCCSCCCSCCC--TTCSEEEECSCC-CSCCCC--CCTTCCEEEECSCCC-SCCCC---CCTTCCEEEECSCCCC-
T ss_pred             EEecCCCcCccChhhC--CCCcEEEecCCC-CCCCCC--cCCCCCEEEcCCCcC-CcCCC---CCCCCCEEECcCCcCC-
Confidence            4556677788887654  789999999987 556766  678999999977764 56675   7788999999887544 


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccc---cc--------------cCCCCcCeEE
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPE---NI--------------GQLSSLGKLD  147 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~---~l--------------~~~~~L~~L~  147 (248)
                      .+|.   .+++|+.|++++|.+. .+|..+++|+.|+++.  |.+.+ +|.   .+              ..+++|+.|+
T Consensus       115 ~l~~---~l~~L~~L~L~~N~l~-~lp~~l~~L~~L~Ls~--N~l~~-l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~  187 (622)
T 3g06_A          115 HLPA---LPSGLCKLWIFGNQLT-SLPVLPPGLQELSVSD--NQLAS-LPALPSELCKLWAYNNQLTSLPMLPSGLQELS  187 (622)
T ss_dssp             CCCC---CCTTCCEEECCSSCCS-CCCCCCTTCCEEECCS--SCCSC-CCCCCTTCCEEECCSSCCSCCCCCCTTCCEEE
T ss_pred             CCCC---CCCCcCEEECCCCCCC-cCCCCCCCCCEEECcC--CcCCC-cCCccCCCCEEECCCCCCCCCcccCCCCcEEE
Confidence            3444   3456667776665433 3555556666666665  33332 221   11              1225666677


Q ss_pred             ccCCcCcccchhhhc-----------------cCCcceecccCccccccCCCCCcccceeccccccccccchhhcccccc
Q 041505          148 LQKNNFERIPESVIQ-----------------LSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEA  210 (248)
Q Consensus       148 l~~n~l~~lp~~l~~-----------------~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~  210 (248)
                      +++|.++.+|..+..                 +++|+.|++++|.+ +.+|..+++|+.|+++++ .+..++.      .
T Consensus       188 Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~L-~~lp~~l~~L~~L~Ls~N-~L~~lp~------~  259 (622)
T 3g06_A          188 VSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRL-TSLPVLPSELKELMVSGN-RLTSLPM------L  259 (622)
T ss_dssp             CCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCC-SCCCCCCTTCCEEECCSS-CCSCCCC------C
T ss_pred             CCCCCCCCCCCccchhhEEECcCCcccccCCCCCCCCEEEccCCcc-CcCCCCCCcCcEEECCCC-CCCcCCc------c
Confidence            777766655432210                 13444455554432 234444455555555554 2333322      3


Q ss_pred             cccccccccccCcchhchHHHHHHHHhhhhheecccC
Q 041505          211 RTRYFDLRYNYNWIEMRSEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       211 l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~~~~~~~  247 (248)
                      +++|+.|++++|.|...+.. +.. ++.|+...+.++
T Consensus       260 ~~~L~~L~Ls~N~L~~lp~~-l~~-l~~L~~L~L~~N  294 (622)
T 3g06_A          260 PSGLLSLSVYRNQLTRLPES-LIH-LSSETTVNLEGN  294 (622)
T ss_dssp             CTTCCEEECCSSCCCSCCGG-GGG-SCTTCEEECCSC
T ss_pred             cccCcEEeCCCCCCCcCCHH-Hhh-ccccCEEEecCC
Confidence            45777888888877755432 222 355555555544

>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=99.75  E-value=5.2e-18  Score=140.61  Aligned_cols=202  Identities=18%  Similarity=0.198  Sum_probs=120.4

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEe-ccCCcCcCc
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLD-LEYCESLNS   85 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~-l~~~~~~~~   85 (248)
                      +.++++|..+  .+++++|++++|. +..+|. .+ ++++|++|++++|.+.+.+|. +|.++++++++. +..|.+...
T Consensus        19 ~~Lt~iP~~l--~~~l~~L~Ls~N~-i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l   95 (350)
T 4ay9_X           19 SKVTEIPSDL--PRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYI   95 (350)
T ss_dssp             TTCCSCCTTC--CTTCSEEEEESCC-CSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEE
T ss_pred             CCCCccCcCc--CCCCCEEEccCCc-CCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCccccc
Confidence            3456666544  3566777777766 445554 34 677777777766665555543 456666655533 333344333


Q ss_pred             CCccccCCCCCcEEeccCccCCcc------------------------ccc-ccC----CCCceEecccCCccccccccc
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQR------------------------LPD-ELG----NLEALWISREAGVISRWLPEN  136 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~------------------------~~~-~~~----~l~~L~l~~~~n~~~~~~~~~  136 (248)
                      .|..+..+++|++|++++|.+...                        ++. .+.    .++.|++++  |.+. .++..
T Consensus        96 ~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~--N~i~-~i~~~  172 (350)
T 4ay9_X           96 NPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK--NGIQ-EIHNS  172 (350)
T ss_dssp             CTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS--SCCC-EECTT
T ss_pred             CchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccc--cccc-CCChh
Confidence            455566666666666666544322                        221 111    122445555  4343 35555


Q ss_pred             ccCCCCcCeEEccC-CcCcccch-hhhccCCcceecccCccccccCCC-CCcccceeccccccccccchhhccccccccc
Q 041505          137 IGQLSSLGKLDLQK-NNFERIPE-SVIQLSKLGRLYLRYWERLQSLPK-LPCKLHELDAHHCTALESLSGLFSSFEARTR  213 (248)
Q Consensus       137 l~~~~~L~~L~l~~-n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~~-~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~  213 (248)
                      ....++|+.+++.+ |.++.+|. .|..+++|++|++++|++ +.+|. .+.+|+.|.+.++..++.++.    +..+++
T Consensus       173 ~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l-~~lp~~~~~~L~~L~~l~~~~l~~lP~----l~~l~~  247 (350)
T 4ay9_X          173 AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRI-HSLPSYGLENLKKLRARSTYNLKKLPT----LEKLVA  247 (350)
T ss_dssp             SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCC-CCCCSSSCTTCCEEECTTCTTCCCCCC----TTTCCS
T ss_pred             hccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCc-CccChhhhccchHhhhccCCCcCcCCC----chhCcC
Confidence            55566778888764 66777775 567888888899888864 45554 567888888888877777663    445567


Q ss_pred             ccccccccC
Q 041505          214 YFDLRYNYN  222 (248)
Q Consensus       214 L~~l~l~~n  222 (248)
                      |+.+++.++
T Consensus       248 L~~l~l~~~  256 (350)
T 4ay9_X          248 LMEASLTYP  256 (350)
T ss_dssp             CCEEECSCH
T ss_pred             hhhCcCCCC
Confidence            777776543

>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=99.74  E-value=3.5e-17  Score=133.30  Aligned_cols=178  Identities=22%  Similarity=0.254  Sum_probs=138.9

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      ++.+.+..++ .+..+++|++|++++|. +..++. + .+++|++|++++|.+ ..++ .+..+++|++|++++|.+.+ 
T Consensus        48 l~~~~i~~l~-~~~~l~~L~~L~L~~n~-i~~~~~-~~~l~~L~~L~L~~n~l-~~~~-~~~~l~~L~~L~l~~n~l~~-  121 (308)
T 1h6u_A           48 AFGTGVTTIE-GVQYLNNLIGLELKDNQ-ITDLAP-LKNLTKITELELSGNPL-KNVS-AIAGLQSIKTLDLTSTQITD-  121 (308)
T ss_dssp             CTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCCSCCEEECCSCCC-SCCG-GGTTCTTCCEEECTTSCCCC-
T ss_pred             eeCCCccCch-hhhccCCCCEEEccCCc-CCCChh-HccCCCCCEEEccCCcC-CCch-hhcCCCCCCEEECCCCCCCC-
Confidence            3444566776 57889999999999998 555555 6 899999999977775 4444 58899999999999987554 


Q ss_pred             CCccccCCCCCcEEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                      ++. +..+++|++|++++|.+.+..+ ..+++|+.|++++  |.+.+ ++. +..+++|+.|++++|.++.++. +..++
T Consensus       122 ~~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~--n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~  195 (308)
T 1h6u_A          122 VTP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGN--AQVSD-LTP-LANLSKLTTLKADDNKISDISP-LASLP  195 (308)
T ss_dssp             CGG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCS--SCCCC-CGG-GTTCTTCCEEECCSSCCCCCGG-GGGCT
T ss_pred             chh-hcCCCCCCEEECCCCccCcCccccCCCCccEEEccC--CcCCC-Chh-hcCCCCCCEEECCCCccCcChh-hcCCC
Confidence            443 8899999999999987764332 3567788999998  55654 444 8999999999999999988875 78999


Q ss_pred             CcceecccCccccccCC-CCCcccceecccccc
Q 041505          165 KLGRLYLRYWERLQSLP-KLPCKLHELDAHHCT  196 (248)
Q Consensus       165 ~L~~L~l~~n~~~~~l~-~~~~~L~~L~l~~~~  196 (248)
                      +|++|++++|.+....+ ..+++|+.|+++++.
T Consensus       196 ~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          196 NLIEVHLKNNQISDVSPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             TCCEEECTTSCCCBCGGGTTCTTCCEEEEEEEE
T ss_pred             CCCEEEccCCccCccccccCCCCCCEEEccCCe
Confidence            99999999997643222 234789999988873

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.74  E-value=2.6e-17  Score=126.43  Aligned_cols=165  Identities=16%  Similarity=0.023  Sum_probs=95.1

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS   88 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~   88 (248)
                      +.+..+|..+  .+++++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+.+..+.
T Consensus        17 ~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~   94 (208)
T 2o6s_A           17 QGRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNG   94 (208)
T ss_dssp             SCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CCccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHh
Confidence            3445555433  4577888888877443333344 778888888866655433334467778888888887765544444


Q ss_pred             cccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCC
Q 041505           89 GLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSK  165 (248)
Q Consensus        89 ~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~  165 (248)
                      .+..+++|++|++++|.+.+..+.   .+++++.|++++  |.+.+..+..+..+++|+.|++++|.+.      ..+++
T Consensus        95 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~--N~l~~~~~~~~~~l~~L~~L~l~~N~~~------~~~~~  166 (208)
T 2o6s_A           95 VFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQ--NQLKSVPDGVFDRLTSLQYIWLHDNPWD------CTCPG  166 (208)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCSCCCTTTTTTCTTCCEEECCSCCBC------CCTTT
T ss_pred             HhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCC--CccceeCHHHhccCCCccEEEecCCCee------cCCCC
Confidence            567777888888877655433332   233445555555  4444333333555666666666666432      22345


Q ss_pred             cceecccCccccccCCCCC
Q 041505          166 LGRLYLRYWERLQSLPKLP  184 (248)
Q Consensus       166 L~~L~l~~n~~~~~l~~~~  184 (248)
                      ++.|++..|.+.+.+|..+
T Consensus       167 l~~L~~~~n~~~g~ip~~~  185 (208)
T 2o6s_A          167 IRYLSEWINKHSGVVRNSA  185 (208)
T ss_dssp             THHHHHHHHHCTTTBBCTT
T ss_pred             HHHHHHHHHhCCceeeccC
Confidence            5556665555555555443

>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=99.73  E-value=1.8e-17  Score=126.36  Aligned_cols=148  Identities=17%  Similarity=0.183  Sum_probs=97.0

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      +.+++|++|++++|. +..+| .+ .+++|++|++++|. +..+ ..+..+++|++|++++|.+.+..+..+..+++|++
T Consensus        41 ~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~l~~n~-~~~~-~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           41 AQMNSLTYITLANIN-VTDLT-GIEYAHNIKDLTINNIH-ATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHHTCCEEEEESSC-CSCCT-TGGGCTTCSEEEEESCC-CSCC-GGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hhcCCccEEeccCCC-ccChH-HHhcCCCCCEEEccCCC-CCcc-hhhhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            445678888888876 55666 45 78888888887663 3333 35778888888888887777667777888888888


Q ss_pred             EeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505           99 LTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus        99 L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      |++++|.+.+..|.   .+++|+.|++++  |.....++ .+..+++|+.|++++|.++.++ .+..+++|++|++++|+
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~--n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSY--NGAITDIM-PLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCS--CTBCCCCG-GGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEECBC-
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccC--CCCccccH-hhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEeeCcc
Confidence            88888766554443   333455666665  33222233 4666666666666666666554 45566666666666664

>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=99.73  E-value=1.7e-18  Score=148.35  Aligned_cols=214  Identities=20%  Similarity=0.132  Sum_probs=95.7

Q ss_pred             hhhhcCCCCccEEEccCCCCCcccCCcc--ccC----cccEEEcCCCCCcc----ccChhhhcccCCCEEeccCCcCcCc
Q 041505           16 YAFKQNNPHIVVLNLRDCKSLKSLPAGI--HLE----FLKELDLLNGTAIE----ELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus        16 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~l~----~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      +..+..+++|++|++++|.+.+..+..+  .++    +|++|++++|.+..    .++..+..+++|++|++++|.+...
T Consensus        49 ~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~  128 (461)
T 1z7x_W           49 SSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDA  128 (461)
T ss_dssp             HHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHH
T ss_pred             HHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchH
Confidence            3444444555555555554322222111  222    35555554444332    2344445555555555555443322


Q ss_pred             CCcccc-----CCCCCcEEeccCccCCccc----cc---ccCCCCceEecccCCccccccccccc-----CCCCcCeEEc
Q 041505           86 LPSGLC-----KLKLLNYLTLNCCSNLQRL----PD---ELGNLEALWISREAGVISRWLPENIG-----QLSSLGKLDL  148 (248)
Q Consensus        86 ~~~~l~-----~l~~L~~L~l~~~~~~~~~----~~---~~~~l~~L~l~~~~n~~~~~~~~~l~-----~~~~L~~L~l  148 (248)
                      .+..+.     ..++|++|++++|.+.+..    +.   ..+++++|++++  |.+.+..+..+.     ..++|+.|++
T Consensus       129 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~--n~i~~~~~~~l~~~l~~~~~~L~~L~L  206 (461)
T 1z7x_W          129 GLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSN--NDINEAGVRVLCQGLKDSPCQLEALKL  206 (461)
T ss_dssp             HHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCS--SBCHHHHHHHHHHHHHHSCCCCCEEEC
T ss_pred             HHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcC--CCcchHHHHHHHHHHhcCCCCceEEEc
Confidence            221111     1234555555554443321    11   124455555555  333322222221     2345666666


Q ss_pred             cCCcCcc-----cchhhhccCCcceecccCcccccc--------CCCCCcccceeccccccccccchh--hccccccccc
Q 041505          149 QKNNFER-----IPESVIQLSKLGRLYLRYWERLQS--------LPKLPCKLHELDAHHCTALESLSG--LFSSFEARTR  213 (248)
Q Consensus       149 ~~n~l~~-----lp~~l~~~~~L~~L~l~~n~~~~~--------l~~~~~~L~~L~l~~~~~l~~~~~--~~~~l~~l~~  213 (248)
                      ++|.++.     ++..+..+++|++|++++|.+...        +....++|++|++++| .+.....  -...+..+++
T Consensus       207 ~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~  285 (461)
T 1z7x_W          207 ESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWEC-GITAKGCGDLCRVLRAKES  285 (461)
T ss_dssp             TTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCTT
T ss_pred             cCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCC-CCCHHHHHHHHHHHhhCCC
Confidence            6666543     345555667777777776653221        1112356677777666 2222110  0111223456


Q ss_pred             ccccccccCcchhchHHHH
Q 041505          214 YFDLRYNYNWIEMRSEEFL  232 (248)
Q Consensus       214 L~~l~l~~n~i~~~~~~~~  232 (248)
                      |+.|++++|.+...+...+
T Consensus       286 L~~L~Ls~n~i~~~~~~~l  304 (461)
T 1z7x_W          286 LKELSLAGNELGDEGARLL  304 (461)
T ss_dssp             CCEEECTTCCCHHHHHHHH
T ss_pred             cceEECCCCCCchHHHHHH
Confidence            6666666666655544333

>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=5.8e-17  Score=125.69  Aligned_cols=146  Identities=21%  Similarity=0.221  Sum_probs=75.8

Q ss_pred             EEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccC
Q 041505           27 VLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        27 ~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      .++.+++. +..+|..+. +.+++|++++|.+....+..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+
T Consensus        15 ~v~c~~~~-l~~iP~~l~-~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l   92 (220)
T 2v9t_B           15 IVDCRGKG-LTEIPTNLP-ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI   92 (220)
T ss_dssp             EEECTTSC-CSSCCSSCC-TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCC
T ss_pred             EEEcCCCC-cCcCCCccC-cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcC
Confidence            34444443 333443322 3445555544433322223444555555555555444444444455555555555555443


Q ss_pred             Cccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccc
Q 041505          107 LQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       107 ~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~  176 (248)
                      ...-+.   .+.+|+.|++++  |.+.+..+..+..+++|+.|++++|.++.++. .+..+++|++|++++|++
T Consensus        93 ~~l~~~~f~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B           93 TELPKSLFEGLFSLQLLLLNA--NKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CccCHhHccCCCCCCEEECCC--CCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCc
Confidence            321111   223344444544  44554455667777778888888887776654 466777788888877754

>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=99.71  E-value=9.5e-17  Score=124.48  Aligned_cols=148  Identities=18%  Similarity=0.130  Sum_probs=97.9

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      +.+++++|. ++.+|..+ ...+++|++++|.+....+ ..+.++++|++|++++|.+.+..+..+..+++|++|++++|
T Consensus        14 ~~l~~s~n~-l~~iP~~~-~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   91 (220)
T 2v70_A           14 TTVDCSNQK-LNKIPEHI-PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSN   91 (220)
T ss_dssp             TEEECCSSC-CSSCCSCC-CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEeEeCCCC-cccCccCC-CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCC
Confidence            467777765 55566544 1235677776665444323 33667777777777776655555556777777777777776


Q ss_pred             cCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCcccc
Q 041505          105 SNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       105 ~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~  177 (248)
                      .+.+..+.   .+.+|++|++++  |.+.+..|..+..+++|+.|++++|.++.+ |..+..+++|++|++++|++.
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~Ls~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           92 RLENVQHKMFKGLESLKTLMLRS--NRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             CCCCCCGGGGTTCSSCCEEECTT--SCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             ccCccCHhHhcCCcCCCEEECCC--CcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCc
Confidence            66544443   334555666766  556655567788888888888888888766 567788888888888888653

>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=99.71  E-value=7.9e-18  Score=144.16  Aligned_cols=212  Identities=17%  Similarity=0.106  Sum_probs=100.8

Q ss_pred             hhhhcCCCCccEEEccCCCCCcccCCcc------ccCcccEEEcCCCCCccc----cChhhhcccCCCEEeccCCcCcCc
Q 041505           16 YAFKQNNPHIVVLNLRDCKSLKSLPAGI------HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus        16 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~------~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      +..+..+++|++|++++|.+.+..+..+      ..++|++|++++|.+...    ++..+..+++|++|++++|.+...
T Consensus       106 ~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  185 (461)
T 1z7x_W          106 SSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEA  185 (461)
T ss_dssp             HHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHH
T ss_pred             HHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchH
Confidence            4444445555555555554222111111      123455555544443321    233344556666666665543332


Q ss_pred             CCcccc-----CCCCCcEEeccCccCCcc----ccc---ccCCCCceEecccCCcccccc-----cccccCCCCcCeEEc
Q 041505           86 LPSGLC-----KLKLLNYLTLNCCSNLQR----LPD---ELGNLEALWISREAGVISRWL-----PENIGQLSSLGKLDL  148 (248)
Q Consensus        86 ~~~~l~-----~l~~L~~L~l~~~~~~~~----~~~---~~~~l~~L~l~~~~n~~~~~~-----~~~l~~~~~L~~L~l  148 (248)
                      .+..+.     ..++|++|++++|.+...    ++.   ..+++++|++++  |.+.+..     +.....+++|+.|++
T Consensus       186 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~--n~l~~~~~~~l~~~~~~~~~~L~~L~L  263 (461)
T 1z7x_W          186 GVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGS--NKLGDVGMAELCPGLLHPSSRLRTLWI  263 (461)
T ss_dssp             HHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCS--SBCHHHHHHHHHHHHTSTTCCCCEEEC
T ss_pred             HHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccC--CcCChHHHHHHHHHHhcCCCCceEEEC
Confidence            222221     134566666666554432    222   234566666666  3333211     112234667777777


Q ss_pred             cCCcCcc-----cchhhhccCCcceecccCcccccc--------CCCCCcccceeccccccccccchh-hcccccccccc
Q 041505          149 QKNNFER-----IPESVIQLSKLGRLYLRYWERLQS--------LPKLPCKLHELDAHHCTALESLSG-LFSSFEARTRY  214 (248)
Q Consensus       149 ~~n~l~~-----lp~~l~~~~~L~~L~l~~n~~~~~--------l~~~~~~L~~L~l~~~~~l~~~~~-~~~~l~~l~~L  214 (248)
                      ++|.++.     ++..+..+++|++|++++|.+...        +....++|++|++++|.-...... -...+..+++|
T Consensus       264 ~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  343 (461)
T 1z7x_W          264 WECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFL  343 (461)
T ss_dssp             TTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSC
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCc
Confidence            7777754     556666677777777777754221        111224677777766632111000 01122234555


Q ss_pred             cccccccCcchhchH
Q 041505          215 FDLRYNYNWIEMRSE  229 (248)
Q Consensus       215 ~~l~l~~n~i~~~~~  229 (248)
                      +.|++++|.+...+.
T Consensus       344 ~~L~Ls~n~i~~~~~  358 (461)
T 1z7x_W          344 LELQISNNRLEDAGV  358 (461)
T ss_dssp             CEEECCSSBCHHHHH
T ss_pred             cEEEccCCccccccH
Confidence            666666665555443

>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=99.70  E-value=1.9e-16  Score=127.92  Aligned_cols=163  Identities=23%  Similarity=0.246  Sum_probs=108.6

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      ..+++|+.|++++|. +..++. + .+++|++|++++|.+. .++. +.++++|++|++++|.+.+ ++ .+..+++|++
T Consensus        43 ~~l~~L~~L~l~~~~-i~~~~~-~~~l~~L~~L~L~~n~l~-~~~~-l~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~  116 (291)
T 1h6t_A           43 NELNSIDQIIANNSD-IKSVQG-IQYLPNVTKLFLNGNKLT-DIKP-LANLKNLGWLFLDENKVKD-LS-SLKDLKKLKS  116 (291)
T ss_dssp             HHHHTCCEEECTTSC-CCCCTT-GGGCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSSCCCC-GG-GGTTCTTCCE
T ss_pred             hhcCcccEEEccCCC-cccChh-HhcCCCCCEEEccCCccC-CCcc-cccCCCCCEEECCCCcCCC-Ch-hhccCCCCCE
Confidence            446677888888876 555543 4 7788888888666544 3444 7778888888888765433 33 3777788888


Q ss_pred             EeccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccc
Q 041505           99 LTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus        99 L~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~  176 (248)
                      |++++|.+.+ ++  ..+++|+.|++++  |.+.+ + ..++.+++|+.|++++|.++.++. +..+++|++|++++|.+
T Consensus       117 L~L~~n~i~~-~~~l~~l~~L~~L~l~~--n~l~~-~-~~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i  190 (291)
T 1h6t_A          117 LSLEHNGISD-INGLVHLPQLESLYLGN--NKITD-I-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHI  190 (291)
T ss_dssp             EECTTSCCCC-CGGGGGCTTCCEEECCS--SCCCC-C-GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC
T ss_pred             EECCCCcCCC-ChhhcCCCCCCEEEccC--CcCCc-c-hhhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcC
Confidence            8888766554 22  2455667777777  44543 2 567777788888888887776655 77778888888887754


Q ss_pred             cccCCC--CCcccceeccccc
Q 041505          177 LQSLPK--LPCKLHELDAHHC  195 (248)
Q Consensus       177 ~~~l~~--~~~~L~~L~l~~~  195 (248)
                      . .++.  .+++|+.|+++++
T Consensus       191 ~-~l~~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          191 S-DLRALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             C-BCGGGTTCTTCSEEEEEEE
T ss_pred             C-CChhhccCCCCCEEECcCC
Confidence            3 2332  2366777777665

>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=99.70  E-value=1.2e-16  Score=141.56  Aligned_cols=162  Identities=20%  Similarity=0.121  Sum_probs=121.4

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccC-Ccc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLP-AGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS   88 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~-~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~   88 (248)
                      .++++|+.+  .+++++|++++|. +..+| ..+ .+++|++|++++|.+....|.+|.++++|++|++++|.+.+..+.
T Consensus        42 ~l~~vP~~l--p~~~~~LdLs~N~-i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~  118 (635)
T 4g8a_A           42 NFYKIPDNL--PFSTKNLDLSFNP-LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALG  118 (635)
T ss_dssp             CCSSCCSSS--CTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGG
T ss_pred             CcCccCCCC--CcCCCEEEeeCCC-CCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHH
Confidence            566777654  2589999999998 55554 567 899999999988776544456799999999999999876555556


Q ss_pred             cccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCcCcccc-hhhhcc
Q 041505           89 GLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNNFERIP-ESVIQL  163 (248)
Q Consensus        89 ~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l~~~  163 (248)
                      .|..+++|++|++++|++.+..+.   .+++|++|++++  |.+.. ..|..++.+++|+.|++++|+++.++ ..+..+
T Consensus       119 ~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~--N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L  196 (635)
T 4g8a_A          119 AFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH--NLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVL  196 (635)
T ss_dssp             GGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS--SCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHH
T ss_pred             HhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeecccc--CccccCCCchhhccchhhhhhcccCccccccccccccch
Confidence            688999999999999877654443   345677888888  55543 46778899999999999999997664 466665


Q ss_pred             CCcc----eecccCcccc
Q 041505          164 SKLG----RLYLRYWERL  177 (248)
Q Consensus       164 ~~L~----~L~l~~n~~~  177 (248)
                      .+++    .++++.|.+.
T Consensus       197 ~~l~~~~~~~~ls~n~l~  214 (635)
T 4g8a_A          197 HQMPLLNLSLDLSLNPMN  214 (635)
T ss_dssp             HTCTTCCCEEECTTCCCC
T ss_pred             hhhhhhhhhhhcccCccc
Confidence            5544    4566666543

>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=99.70  E-value=1.5e-16  Score=124.07  Aligned_cols=146  Identities=24%  Similarity=0.242  Sum_probs=83.8

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCcc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  105 (248)
                      +.++.+++. ++.+|..+. ++|++|++++|.+....|..+.++++|++|++++|.+....+..+..+++|++|++++|.
T Consensus        22 ~~v~c~~~~-l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~   99 (229)
T 3e6j_A           22 TTVDCRSKR-HASVPAGIP-TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ   99 (229)
T ss_dssp             TEEECTTSC-CSSCCSCCC-TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEeEccCCC-cCccCCCCC-CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCc
Confidence            445555544 445554332 456666665555544445555666666666666654433223334556666666666654


Q ss_pred             CCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccc
Q 041505          106 NLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       106 ~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~  176 (248)
                      +.+..+.   .+++|+.|++++  |.+. .+|..+..+++|+.|++++|.++.+|. .+..+++|+.|++.+|++
T Consensus       100 l~~l~~~~~~~l~~L~~L~Ls~--N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  171 (229)
T 3e6j_A          100 LTVLPSAVFDRLVHLKELFMCC--NKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPW  171 (229)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCS--SCCC-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCB
T ss_pred             CCccChhHhCcchhhCeEeccC--Cccc-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCc
Confidence            4433222   233444555555  3344 466667777778888888887776663 566777788888777754

>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=99.70  E-value=2.9e-16  Score=126.86  Aligned_cols=161  Identities=25%  Similarity=0.221  Sum_probs=128.1

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      .++.+.+..++ .+..+++|++|++++|.+ ..++. + .+++|++|++++|.+ ..+|. +..+++|++|++++|.+.+
T Consensus        52 ~l~~~~i~~~~-~~~~l~~L~~L~L~~n~l-~~~~~-l~~l~~L~~L~l~~n~l-~~~~~-l~~l~~L~~L~L~~n~i~~  126 (291)
T 1h6t_A           52 IANNSDIKSVQ-GIQYLPNVTKLFLNGNKL-TDIKP-LANLKNLGWLFLDENKV-KDLSS-LKDLKKLKSLSLEHNGISD  126 (291)
T ss_dssp             ECTTSCCCCCT-TGGGCTTCCEEECCSSCC-CCCGG-GTTCTTCCEEECCSSCC-CCGGG-GTTCTTCCEEECTTSCCCC
T ss_pred             EccCCCcccCh-hHhcCCCCCEEEccCCcc-CCCcc-cccCCCCCEEECCCCcC-CCChh-hccCCCCCEEECCCCcCCC
Confidence            34455666675 478899999999999984 44544 6 899999999977765 44454 8999999999999986654


Q ss_pred             cCCccccCCCCCcEEeccCccCCccc-ccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRL-PDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                       + ..+..+++|++|++++|.+.+.- ...+++|+.|++++  |.+.+. +. +..+++|+.|++++|.++.++. +..+
T Consensus       127 -~-~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~--N~l~~~-~~-l~~l~~L~~L~L~~N~i~~l~~-l~~l  199 (291)
T 1h6t_A          127 -I-NGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLED--NQISDI-VP-LAGLTKLQNLYLSKNHISDLRA-LAGL  199 (291)
T ss_dssp             -C-GGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCS--SCCCCC-GG-GTTCTTCCEEECCSSCCCBCGG-GTTC
T ss_pred             -C-hhhcCCCCCCEEEccCCcCCcchhhccCCCCCEEEccC--Cccccc-hh-hcCCCccCEEECCCCcCCCChh-hccC
Confidence             3 46889999999999998776541 13567788999998  566653 33 8999999999999999998875 8899


Q ss_pred             CCcceecccCccccc
Q 041505          164 SKLGRLYLRYWERLQ  178 (248)
Q Consensus       164 ~~L~~L~l~~n~~~~  178 (248)
                      ++|+.|++++|++..
T Consensus       200 ~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          200 KNLDVLELFSQECLN  214 (291)
T ss_dssp             TTCSEEEEEEEEEEC
T ss_pred             CCCCEEECcCCcccC
Confidence            999999999997643

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.69  E-value=4.8e-16  Score=119.34  Aligned_cols=169  Identities=18%  Similarity=0.122  Sum_probs=124.8

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCcc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  105 (248)
                      +.++.+++. ...+|..+ .++|++|++++|.+....+..+.++++|++|++++|.+....+..+..+++|++|++++|.
T Consensus        10 ~~v~c~~~~-l~~~p~~~-~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~   87 (208)
T 2o6s_A           10 TTVECYSQG-RTSVPTGI-PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ   87 (208)
T ss_dssp             TEEECCSSC-CSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEecCCC-ccCCCCCC-CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCc
Confidence            567777765 56666544 3589999998887654444567899999999999987765555557889999999999987


Q ss_pred             CCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCC
Q 041505          106 NLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLP  181 (248)
Q Consensus       106 ~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~  181 (248)
                      +.+..+.   .+.++++|+++.  |.+.+..+..++.+++|+.|++++|.++.++. .+..+++|++|++++|.+..   
T Consensus        88 l~~~~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~---  162 (208)
T 2o6s_A           88 LQSLPNGVFDKLTQLKELALNT--NQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC---  162 (208)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCC---
T ss_pred             CCccCHhHhcCccCCCEEEcCC--CcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeec---
Confidence            7654443   355677888888  66665455568899999999999999987775 47889999999999996543   


Q ss_pred             CCCcccceeccccccccccch
Q 041505          182 KLPCKLHELDAHHCTALESLS  202 (248)
Q Consensus       182 ~~~~~L~~L~l~~~~~l~~~~  202 (248)
                       ..+.|+.|+++.+.....++
T Consensus       163 -~~~~l~~L~~~~n~~~g~ip  182 (208)
T 2o6s_A          163 -TCPGIRYLSEWINKHSGVVR  182 (208)
T ss_dssp             -CTTTTHHHHHHHHHCTTTBB
T ss_pred             -CCCCHHHHHHHHHhCCceee
Confidence             23466777666553333333

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.67  E-value=4.3e-16  Score=136.40  Aligned_cols=179  Identities=25%  Similarity=0.259  Sum_probs=134.7

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      ++++.+.+..+|..+  +++|++|++++|. +..+|  -.+++|++|++++|.+.. +|. +.+  +|++|++++|.+.+
T Consensus        64 L~Ls~n~L~~lp~~l--~~~L~~L~Ls~N~-l~~ip--~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~~  134 (571)
T 3cvr_A           64 LQLNRLNLSSLPDNL--PPQITVLEITQNA-LISLP--ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLTM  134 (571)
T ss_dssp             EECCSSCCSCCCSCC--CTTCSEEECCSSC-CSCCC--CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCSC
T ss_pred             EEeCCCCCCccCHhH--cCCCCEEECcCCC-Ccccc--cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCCC
Confidence            344556677777655  3789999999998 55777  347899999997776554 777 554  99999999986655


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                       +|.   .+++|++|++++|.+.+ +|..+++|+.|++++  |.+.+ +|. +.  ++|+.|++++|.++.+|. +..  
T Consensus       135 -lp~---~l~~L~~L~Ls~N~l~~-lp~~l~~L~~L~Ls~--N~L~~-lp~-l~--~~L~~L~Ls~N~L~~lp~-~~~--  200 (571)
T 3cvr_A          135 -LPE---LPALLEYINADNNQLTM-LPELPTSLEVLSVRN--NQLTF-LPE-LP--ESLEALDVSTNLLESLPA-VPV--  200 (571)
T ss_dssp             -CCC---CCTTCCEEECCSSCCSC-CCCCCTTCCEEECCS--SCCSC-CCC-CC--TTCCEEECCSSCCSSCCC-CC---
T ss_pred             -CCC---cCccccEEeCCCCccCc-CCCcCCCcCEEECCC--CCCCC-cch-hh--CCCCEEECcCCCCCchhh-HHH--
Confidence             666   67899999999977664 777778899999998  66665 666 65  899999999999998887 544  


Q ss_pred             Cc-------ceecccCccccccCCCC---Ccccceeccccccccccchhhccc
Q 041505          165 KL-------GRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSS  207 (248)
Q Consensus       165 ~L-------~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~  207 (248)
                      +|       +.|++++|.+. .+|..   +++|+.|+++++.-....+..+..
T Consensus       201 ~L~~~~~~L~~L~Ls~N~l~-~lp~~l~~l~~L~~L~L~~N~l~~~~p~~l~~  252 (571)
T 3cvr_A          201 RNHHSEETEIFFRCRENRIT-HIPENILSLDPTCTIILEDNPLSSRIRESLSQ  252 (571)
T ss_dssp             -------CCEEEECCSSCCC-CCCGGGGGSCTTEEEECCSSSCCHHHHHHHHH
T ss_pred             hhhcccccceEEecCCCcce-ecCHHHhcCCCCCEEEeeCCcCCCcCHHHHHH
Confidence            77       99999999654 56653   478999999988554544444433

>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=99.67  E-value=3.8e-16  Score=129.38  Aligned_cols=195  Identities=19%  Similarity=0.164  Sum_probs=113.3

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCc-cccCCCCCcEEec-c
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPS-GLCKLKLLNYLTL-N  102 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~-~l~~l~~L~~L~l-~  102 (248)
                      +.++-++++ +..+|..+ .+++++|++++|.+ +.+| .+|.++++|++|++++|.+.+.+|. .+..+++++.+.+ .
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~~~   88 (350)
T 4ay9_X           12 RVFLCQESK-VTEIPSDL-PRNAIELRFVLTKL-RVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   88 (350)
T ss_dssp             TEEEEESTT-CCSCCTTC-CTTCSEEEEESCCC-SEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEE
T ss_pred             CEEEecCCC-CCccCcCc-CCCCCEEEccCCcC-CCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhccc
Confidence            567777766 67788765 25799999977664 5666 4689999999999999988776664 4678888876554 4


Q ss_pred             CccCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccC-CcCcccch-hhhcc-CCcceecccCccc
Q 041505          103 CCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQK-NNFERIPE-SVIQL-SKLGRLYLRYWER  176 (248)
Q Consensus       103 ~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~-n~l~~lp~-~l~~~-~~L~~L~l~~n~~  176 (248)
                      .|++....|..   +++|+.|++.+  |.+....+..+....++..+++.+ +.++.++. .+..+ ..++.|++++|.+
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~l~~--n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i  166 (350)
T 4ay9_X           89 ANNLLYINPEAFQNLPNLQYLLISN--TGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGI  166 (350)
T ss_dssp             ETTCCEECTTSBCCCTTCCEEEEEE--ECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCC
T ss_pred             CCcccccCchhhhhccccccccccc--cccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccc
Confidence            44444443444   45677888877  444432333344444555555543 34444442 23333 3455566665543


Q ss_pred             cccCCC-C--CcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          177 LQSLPK-L--PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       177 ~~~l~~-~--~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      . .++. .  ..+|+++++.++..++.++..  .+..+++|+.|++++|+|+..+
T Consensus       167 ~-~i~~~~f~~~~L~~l~l~~~n~l~~i~~~--~f~~l~~L~~LdLs~N~l~~lp  218 (350)
T 4ay9_X          167 Q-EIHNSAFNGTQLDELNLSDNNNLEELPND--VFHGASGPVILDISRTRIHSLP  218 (350)
T ss_dssp             C-EECTTSSTTEEEEEEECTTCTTCCCCCTT--TTTTEECCSEEECTTSCCCCCC
T ss_pred             c-CCChhhccccchhHHhhccCCcccCCCHH--HhccCcccchhhcCCCCcCccC
Confidence            2 2222 1  134555555554444444321  1233445555555555555443

>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=99.67  E-value=1.4e-15  Score=134.30  Aligned_cols=155  Identities=26%  Similarity=0.239  Sum_probs=74.6

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS   88 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~   88 (248)
                      +.+..++ .+..+++|+.|++++|.+. .++. + .+++|++|++++|.+. .+| .+..+++|++|++++|.+.+ + .
T Consensus        53 n~i~~l~-~l~~l~~L~~L~Ls~N~l~-~~~~-l~~l~~L~~L~Ls~N~l~-~l~-~l~~l~~L~~L~Ls~N~l~~-l-~  125 (605)
T 1m9s_A           53 SDIKSVQ-GIQYLPNVTKLFLNGNKLT-DIKP-LTNLKNLGWLFLDENKIK-DLS-SLKDLKKLKSLSLEHNGISD-I-N  125 (605)
T ss_dssp             CCCCCCT-TGGGCTTCCEEECTTSCCC-CCGG-GGGCTTCCEEECCSSCCC-CCT-TSTTCTTCCEEECTTSCCCC-C-G
T ss_pred             CCCCCCh-HHccCCCCCEEEeeCCCCC-CChh-hccCCCCCEEECcCCCCC-CCh-hhccCCCCCEEEecCCCCCC-C-c
Confidence            3344443 3455555555555555422 2222 3 5555555555444332 223 35555555555555544332 2 2


Q ss_pred             cccCCCCCcEEeccCccCCccc-ccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcc
Q 041505           89 GLCKLKLLNYLTLNCCSNLQRL-PDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLG  167 (248)
Q Consensus        89 ~l~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~  167 (248)
                      .+..+++|+.|++++|.+.+.- ...+++|+.|+++.  |.+.+..|  +..+++|+.|++++|.++.+| .+..+++|+
T Consensus       126 ~l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~--N~l~~~~~--l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~  200 (605)
T 1m9s_A          126 GLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLED--NQISDIVP--LAGLTKLQNLYLSKNHISDLR-ALAGLKNLD  200 (605)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGGGGSCTTCSEEECCS--SCCCCCGG--GTTCTTCCEEECCSSCCCBCG-GGTTCTTCS
T ss_pred             cccCCCccCEEECCCCccCCchhhcccCCCCEEECcC--CcCCCchh--hccCCCCCEEECcCCCCCCCh-HHccCCCCC
Confidence            3555555555555555443320 11334445555555  33433222  555555555555555555543 345555555


Q ss_pred             eecccCccc
Q 041505          168 RLYLRYWER  176 (248)
Q Consensus       168 ~L~l~~n~~  176 (248)
                      .|++++|.+
T Consensus       201 ~L~L~~N~l  209 (605)
T 1m9s_A          201 VLELFSQEC  209 (605)
T ss_dssp             EEECCSEEE
T ss_pred             EEEccCCcC
Confidence            555555544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.66  E-value=5.6e-16  Score=128.90  Aligned_cols=166  Identities=21%  Similarity=0.155  Sum_probs=106.5

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      +.+.+.++.+|..+.  ..++.|++++|.+.+..+..+  .+++|++|++++|.+....+..+.++++|++|++++|.+.
T Consensus        24 ~c~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~  101 (361)
T 2xot_A           24 SCSKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH  101 (361)
T ss_dssp             ECCSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             EeCCCCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCC
Confidence            334455666665442  457788888877444333334  6778888888666655444456778888888888887665


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCccccccccc-c---cCCCCcCeEEccCCcCccc
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPEN-I---GQLSSLGKLDLQKNNFERI  156 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~-l---~~~~~L~~L~l~~n~l~~l  156 (248)
                      ...+..+..+++|++|++++|.+.+..|..   +.+|+.|++++  |.+.. +|.. +   ..+++|+.|++++|+++.+
T Consensus       102 ~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~--N~l~~-l~~~~~~~~~~l~~L~~L~L~~N~l~~l  178 (361)
T 2xot_A          102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQ--NQISR-FPVELIKDGNKLPKLMLLDLSSNKLKKL  178 (361)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS--SCCCS-CCGGGTC----CTTCCEEECCSSCCCCC
T ss_pred             cCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCC--CcCCe-eCHHHhcCcccCCcCCEEECCCCCCCcc
Confidence            555556777888888888887766544443   34556777777  44553 3433 3   5677788888888887777


Q ss_pred             ch-hhhccCC--cceecccCccc
Q 041505          157 PE-SVIQLSK--LGRLYLRYWER  176 (248)
Q Consensus       157 p~-~l~~~~~--L~~L~l~~n~~  176 (248)
                      |. .+..++.  ++.|++.+|++
T Consensus       179 ~~~~~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          179 PLTDLQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             CHHHHHHSCHHHHTTEECCSSCE
T ss_pred             CHHHhhhccHhhcceEEecCCCc
Confidence            63 5566665  36677777653

>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=99.66  E-value=2.5e-15  Score=117.13  Aligned_cols=147  Identities=16%  Similarity=0.034  Sum_probs=112.2

Q ss_pred             cCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceE
Q 041505           45 LEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALW  121 (248)
Q Consensus        45 l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~  121 (248)
                      ....+.++.++ +....+|..+.  ++|++|++++|.+.+..|..+..+++|++|++++|.+....+.   .+++|+.|+
T Consensus        18 ~Cs~~~v~c~~-~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           18 SCSGTTVDCRS-KRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             EEETTEEECTT-SCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             EEeCCEeEccC-CCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEE
Confidence            34577889844 44567776443  8999999999988887788899999999999999877543333   455677888


Q ss_pred             ecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC---CCcccceecccccc
Q 041505          122 ISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       122 l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                      +++  |.+....+..+..+++|+.|++++|+++.+|..+..+++|++|++++|.+....+.   .+++|+.|++++++
T Consensus        95 Ls~--N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A           95 LGT--NQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             CCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             CCC--CcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCC
Confidence            988  66765455567899999999999999999998889999999999999965432222   23667777776653

>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=99.66  E-value=1.1e-15  Score=134.98  Aligned_cols=165  Identities=23%  Similarity=0.244  Sum_probs=131.1

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      +..+.+|+.|++++|. +..++. + .+++|+.|++++|.+.. ++. +..+++|++|++++|.+.+ +| .+..+++|+
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~~L~  112 (605)
T 1m9s_A           39 QNELNSIDQIIANNSD-IKSVQG-IQYLPNVTKLFLNGNKLTD-IKP-LTNLKNLGWLFLDENKIKD-LS-SLKDLKKLK  112 (605)
T ss_dssp             HHHHTTCCCCBCTTCC-CCCCTT-GGGCTTCCEEECTTSCCCC-CGG-GGGCTTCCEEECCSSCCCC-CT-TSTTCTTCC
T ss_pred             hhcCCCCCEEECcCCC-CCCChH-HccCCCCCEEEeeCCCCCC-Chh-hccCCCCCEEECcCCCCCC-Ch-hhccCCCCC
Confidence            4567889999999987 666664 5 89999999997777544 444 8999999999999986543 44 688999999


Q ss_pred             EEeccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505           98 YLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus        98 ~L~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      .|++++|.+.+ ++  ..+++|+.|+++.  |.+.+ + ..++.+++|+.|++++|.++.++. +..+++|+.|++++|.
T Consensus       113 ~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~  186 (605)
T 1m9s_A          113 SLSLEHNGISD-INGLVHLPQLESLYLGN--NKITD-I-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH  186 (605)
T ss_dssp             EEECTTSCCCC-CGGGGGCTTCSEEECCS--SCCCC-C-GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSC
T ss_pred             EEEecCCCCCC-CccccCCCccCEEECCC--CccCC-c-hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCC
Confidence            99999987764 33  2566788999988  55664 3 678899999999999999987766 8899999999999996


Q ss_pred             ccccCCC--CCcccceecccccc
Q 041505          176 RLQSLPK--LPCKLHELDAHHCT  196 (248)
Q Consensus       176 ~~~~l~~--~~~~L~~L~l~~~~  196 (248)
                      +. .++.  .+++|+.|++++|.
T Consensus       187 i~-~l~~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          187 IS-DLRALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             CC-BCGGGTTCTTCSEEECCSEE
T ss_pred             CC-CChHHccCCCCCEEEccCCc
Confidence            54 3343  34788999988774

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.65  E-value=1.4e-15  Score=120.99  Aligned_cols=157  Identities=24%  Similarity=0.221  Sum_probs=107.5

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      ++.+.+.+++ .+..+++|++|++++|. +..++ .+ .+++|++|++++|.+ ..++. +.++++|++|++++|.+.+ 
T Consensus        26 l~~~~i~~~~-~~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~L~~N~i-~~~~~-l~~l~~L~~L~L~~N~l~~-   99 (263)
T 1xeu_A           26 LGKQSVTDLV-SQKELSGVQNFNGDNSN-IQSLA-GMQFFTNLKELHLSHNQI-SDLSP-LKDLTKLEELSVNRNRLKN-   99 (263)
T ss_dssp             HTCSCTTSEE-CHHHHTTCSEEECTTSC-CCCCT-TGGGCTTCCEEECCSSCC-CCCGG-GTTCSSCCEEECCSSCCSC-
T ss_pred             hcCCCccccc-chhhcCcCcEEECcCCC-cccch-HHhhCCCCCEEECCCCcc-CCChh-hccCCCCCEEECCCCccCC-
Confidence            3445555555 45667888888888876 55566 45 788888888866654 44454 7788888888888865443 


Q ss_pred             CCccccCCCCCcEEeccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhcc
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQL  163 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~  163 (248)
                      +|.. .. ++|++|++++|.+.+ ++  ..+++++.|++++  |.+.+ ++ .++.+++|+.|++++|.++.+ ..+..+
T Consensus       100 l~~~-~~-~~L~~L~L~~N~l~~-~~~l~~l~~L~~L~Ls~--N~i~~-~~-~l~~l~~L~~L~L~~N~i~~~-~~l~~l  171 (263)
T 1xeu_A          100 LNGI-PS-ACLSRLFLDNNELRD-TDSLIHLKNLEILSIRN--NKLKS-IV-MLGFLSKLEVLDLHGNEITNT-GGLTRL  171 (263)
T ss_dssp             CTTC-CC-SSCCEEECCSSCCSB-SGGGTTCTTCCEEECTT--SCCCB-CG-GGGGCTTCCEEECTTSCCCBC-TTSTTC
T ss_pred             cCcc-cc-CcccEEEccCCccCC-ChhhcCcccccEEECCC--CcCCC-Ch-HHccCCCCCEEECCCCcCcch-HHhccC
Confidence            4442 23 788888888876654 33  2455666777777  55553 33 577788888888888888766 567778


Q ss_pred             CCcceecccCcccc
Q 041505          164 SKLGRLYLRYWERL  177 (248)
Q Consensus       164 ~~L~~L~l~~n~~~  177 (248)
                      ++|+.|++++|.+.
T Consensus       172 ~~L~~L~l~~N~~~  185 (263)
T 1xeu_A          172 KKVNWIDLTGQKCV  185 (263)
T ss_dssp             CCCCEEEEEEEEEE
T ss_pred             CCCCEEeCCCCccc
Confidence            88888888887654

>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=99.65  E-value=3.9e-16  Score=118.88  Aligned_cols=142  Identities=15%  Similarity=0.155  Sum_probs=115.6

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      +++.+.+..++ .+..+++|++|++++|. +..++ .+ .+++|++|++++|.+....+..+..+++|++|++++|.+.+
T Consensus        50 ~l~~n~i~~l~-~l~~l~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~  126 (197)
T 4ezg_A           50 TLANINVTDLT-GIEYAHNIKDLTINNIH-ATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDD  126 (197)
T ss_dssp             EEESSCCSCCT-TGGGCTTCSEEEEESCC-CSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBG
T ss_pred             eccCCCccChH-HHhcCCCCCEEEccCCC-CCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCc
Confidence            44556777777 68889999999999995 55444 45 89999999998888777678889999999999999998888


Q ss_pred             cCCccccCCCCCcEEeccCccCCccccc--ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPD--ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE  154 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~  154 (248)
                      ..|..++.+++|++|++++|...+.+|.  .+++|+.|++++  |.+.+ ++ .+..+++|+.|++++|.++
T Consensus       127 ~~~~~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~--n~i~~-~~-~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          127 SILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQF--DGVHD-YR-GIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             GGHHHHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTT--BCCCC-CT-TGGGCSSCCEEEECBC---
T ss_pred             HhHHHHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCC--CCCcC-hH-HhccCCCCCEEEeeCcccC
Confidence            7888899999999999999875666653  566788999998  55554 44 7889999999999999875

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.65  E-value=5.9e-16  Score=123.24  Aligned_cols=163  Identities=20%  Similarity=0.149  Sum_probs=128.8

Q ss_pred             CCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEe
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLT  100 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  100 (248)
                      +.++..++++++. +..++ .+ .+++|++|++++|. +..+| .+..+++|++|++++|.+.+ ++. +..+++|++|+
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~~L~   91 (263)
T 1xeu_A           18 LANAVKQNLGKQS-VTDLV-SQKELSGVQNFNGDNSN-IQSLA-GMQFFTNLKELHLSHNQISD-LSP-LKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHHHHTCSC-TTSEE-CHHHHTTCSEEECTTSC-CCCCT-TGGGCTTCCEEECCSSCCCC-CGG-GTTCSSCCEEE
T ss_pred             HHHHHHHHhcCCC-ccccc-chhhcCcCcEEECcCCC-cccch-HHhhCCCCCEEECCCCccCC-Chh-hccCCCCCEEE
Confidence            5667788899887 55555 45 89999999997775 45666 58999999999999986554 444 88999999999


Q ss_pred             ccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccC
Q 041505          101 LNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSL  180 (248)
Q Consensus       101 l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l  180 (248)
                      +++|.+.+.-+....+++.|++++  |.+.+ + +.++.+++|+.|++++|+++.++ .+..+++|++|++++|.+... 
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~i~~~-  165 (263)
T 1xeu_A           92 VNRNRLKNLNGIPSACLSRLFLDN--NELRD-T-DSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNEITNT-  165 (263)
T ss_dssp             CCSSCCSCCTTCCCSSCCEEECCS--SCCSB-S-GGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSCCCBC-
T ss_pred             CCCCccCCcCccccCcccEEEccC--CccCC-C-hhhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCcCcch-
Confidence            999877652222227888999999  55664 3 46899999999999999999886 688999999999999976543 


Q ss_pred             CC--CCcccceecccccc
Q 041505          181 PK--LPCKLHELDAHHCT  196 (248)
Q Consensus       181 ~~--~~~~L~~L~l~~~~  196 (248)
                      +.  .+++|+.|+++++.
T Consensus       166 ~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          166 GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             TTSTTCCCCCEEEEEEEE
T ss_pred             HHhccCCCCCEEeCCCCc
Confidence            32  34789999998763

>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=1.6e-15  Score=112.47  Aligned_cols=133  Identities=25%  Similarity=0.176  Sum_probs=99.6

Q ss_pred             cCCCCccEEEccCCCCC-cccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           20 QNNPHIVVLNLRDCKSL-KSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~-~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      ...++|+.|++++|.+. +.+|..+ .+++|++|++++|.+. .+ ..+..+++|++|++++|.+.+.+|..+..+++|+
T Consensus        21 ~~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~-~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   98 (168)
T 2ell_A           21 RTPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLI-SV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLT   98 (168)
T ss_dssp             SCTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCC-CC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCC
T ss_pred             CCcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCC-Ch-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCC
Confidence            34578888888888854 4777777 7888888888777644 33 5577888888888888777666676666688888


Q ss_pred             EEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch----hhhccCCcceecccC
Q 041505           98 YLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE----SVIQLSKLGRLYLRY  173 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~----~l~~~~~L~~L~l~~  173 (248)
                      +|++++|.+.+.                    .  .+..++.+++|+.|++++|.++.+|.    .+..+++|++|+++.
T Consensus        99 ~L~Ls~N~l~~~--------------------~--~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~  156 (168)
T 2ell_A           99 HLNLSGNKLKDI--------------------S--TLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYD  156 (168)
T ss_dssp             EEECBSSSCCSS--------------------G--GGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEE
T ss_pred             EEeccCCccCcc--------------------h--hHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCC
Confidence            888887543210                    0  12567788899999999999987775    678889999999988


Q ss_pred             ccc
Q 041505          174 WER  176 (248)
Q Consensus       174 n~~  176 (248)
                      |..
T Consensus       157 n~~  159 (168)
T 2ell_A          157 RED  159 (168)
T ss_dssp             TTS
T ss_pred             CCh
Confidence            853

>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=99.63  E-value=7.7e-15  Score=113.66  Aligned_cols=144  Identities=17%  Similarity=0.130  Sum_probs=106.5

Q ss_pred             ccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccccc---CCCCceEecc
Q 041505           48 LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWISR  124 (248)
Q Consensus        48 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~~  124 (248)
                      -+.++.+++ ....+|..+.  +++++|++++|.+....+..+..+++|++|++++|.+.+..|..+   .+|+.|++++
T Consensus        13 ~~~v~c~~~-~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           13 NNIVDCRGK-GLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TTEEECTTS-CCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS
T ss_pred             CCEEEcCCC-CcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC
Confidence            357888544 4566776543  789999999987776666678999999999999988776656544   4566888888


Q ss_pred             cCCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCccccccCCC---CCcccceecccccc
Q 041505          125 EAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       125 ~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                        |.+....+..+..+++|+.|++++|+++.+ |..+..+++|++|++++|.+....+.   .+++|++|++++++
T Consensus        90 --N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B           90 --NKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             --SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             --CcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCC
Confidence              566643344578889999999999998776 45788889999999999876543332   23667777777653

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.63  E-value=1.3e-15  Score=110.68  Aligned_cols=128  Identities=21%  Similarity=0.128  Sum_probs=97.2

Q ss_pred             CCCCccEEEccCCCCC-cccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           21 NNPHIVVLNLRDCKSL-KSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~-~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      ..++++.|++++|.+. +.+|..+ .+++|++|++++|.+.. + ..+..+++|++|++++|.+.+.+|..+..+++|++
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~-~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~   92 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTS-I-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTH   92 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCC-C-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCE
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCC-c-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCE
Confidence            3477889999998855 4777777 88889999987776544 3 55778888888888887776667776767888888


Q ss_pred             EeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch----hhhccCCcceeccc
Q 041505           99 LTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE----SVIQLSKLGRLYLR  172 (248)
Q Consensus        99 L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~----~l~~~~~L~~L~l~  172 (248)
                      |++++|.+.+                    .  ..+..++.+++|+.|++++|.++.+|.    .+..+++|++|+++
T Consensus        93 L~ls~N~i~~--------------------~--~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           93 LNLSGNKIKD--------------------L--STIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EECTTSCCCS--------------------H--HHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             EECCCCcCCC--------------------h--HHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            8888754321                    0  123567888999999999999987765    67889999999875

>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=99.62  E-value=1e-14  Score=113.02  Aligned_cols=144  Identities=17%  Similarity=0.101  Sum_probs=106.0

Q ss_pred             ccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC-ccccCCCCCcEEeccCccCCcccccc---cCCCCceEec
Q 041505           48 LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP-SGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWIS  123 (248)
Q Consensus        48 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~  123 (248)
                      -+.++++++. ++.+|..+  .+.+++|++++|.+.+..+ ..+..+++|++|++++|.+.+..+..   +.+++.|+++
T Consensus        13 ~~~l~~s~n~-l~~iP~~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           13 GTTVDCSNQK-LNKIPEHI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TTEEECCSSC-CSSCCSCC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEeEeCCCC-cccCccCC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECC
Confidence            4689996555 45677644  3457899999987766544 34788999999999998776555443   4456688888


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCccccccCCCC---Ccccceecccccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCT  196 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~  196 (248)
                      +  |.+.+..+..++.+++|+.|++++|+++.+ |..+..+++|++|++++|.+....|..   +++|++|++++++
T Consensus        90 ~--N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A           90 S--NRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             S--SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             C--CccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcC
Confidence            8  667665666788889999999999988766 567888889999999888765544443   3567777777653

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.62  E-value=3.3e-15  Score=124.24  Aligned_cols=148  Identities=21%  Similarity=0.144  Sum_probs=115.7

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhh-cccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIE-CLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      +.++.+++. +..+|..+ ...++.|++++|.+....+..+. ++++|++|++++|.+....+..+..+++|++|++++|
T Consensus        21 ~~l~c~~~~-l~~iP~~~-~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   98 (361)
T 2xot_A           21 NILSCSKQQ-LPNVPQSL-PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSN   98 (361)
T ss_dssp             TEEECCSSC-CSSCCSSC-CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCC-cCccCccC-CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCC
Confidence            689999986 77788765 23589999988776554455566 8999999999998777666677999999999999998


Q ss_pred             cCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhh----hccCCcceecccCcccc
Q 041505          105 SNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESV----IQLSKLGRLYLRYWERL  177 (248)
Q Consensus       105 ~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l----~~~~~L~~L~l~~n~~~  177 (248)
                      .+....+.   .+.+|+.|++++  |.+....+..+..+++|+.|++++|+++.+|..+    ..+++|+.|++++|.+.
T Consensus        99 ~l~~~~~~~~~~l~~L~~L~L~~--N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~  176 (361)
T 2xot_A           99 HLHTLDEFLFSDLQALEVLLLYN--NHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLK  176 (361)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCS--SCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCC
T ss_pred             cCCcCCHHHhCCCcCCCEEECCC--CcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCC
Confidence            77654443   455677888888  6676656778899999999999999998888654    56889999999988643

>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=4.1e-17  Score=143.15  Aligned_cols=164  Identities=19%  Similarity=0.142  Sum_probs=84.5

Q ss_pred             hhhccchHhhhhhhcCCCCccEEEccCCC-------------CCcccCCcc-ccCcccEEE-cCCCCCccccCh------
Q 041505            6 DDHALELFSLYAFKQNNPHIVVLNLRDCK-------------SLKSLPAGI-HLEFLKELD-LLNGTAIEELPS------   64 (248)
Q Consensus         6 ~~~~~~l~~l~~~l~~l~~L~~L~l~~~~-------------~~~~~~~~~-~l~~L~~L~-l~~~~~~~~~~~------   64 (248)
                      +++.+.++.+|..++.+++|+.|++++|.             ..+..|..+ .+++|+.|+ ++.+. ...++.      
T Consensus       355 ~Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~-~~~L~~l~l~~n  433 (567)
T 1dce_A          355 ELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY-LDDLRSKFLLEN  433 (567)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHH-HHHHHHHHHHHH
T ss_pred             cCChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcc-cchhhhhhhhcc
Confidence            34455556666666666666666665442             233334444 555555555 32221 111111      


Q ss_pred             hhhc--ccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccC---CCCceEecccCCcccccccccccC
Q 041505           65 AIEC--LYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG---NLEALWISREAGVISRWLPENIGQ  139 (248)
Q Consensus        65 ~~~~--l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~l~~L~l~~~~n~~~~~~~~~l~~  139 (248)
                      .+..  ...|++|++++|.+. .+|. ++.+++|+.|++++|.+. .+|..++   +|+.|++++  |.+.+ +| .++.
T Consensus       434 ~i~~l~~~~L~~L~Ls~n~l~-~lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~--N~l~~-lp-~l~~  506 (567)
T 1dce_A          434 SVLKMEYADVRVLHLAHKDLT-VLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASD--NALEN-VD-GVAN  506 (567)
T ss_dssp             HHHHHHHTTCSEEECTTSCCS-SCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCS--SCCCC-CG-GGTT
T ss_pred             cccccCccCceEEEecCCCCC-CCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCC--CCCCC-Cc-ccCC
Confidence            1111  124666666665433 3454 666666666666665544 4554333   344555555  44443 44 5666


Q ss_pred             CCCcCeEEccCCcCccc--chhhhccCCcceecccCcccc
Q 041505          140 LSSLGKLDLQKNNFERI--PESVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       140 ~~~L~~L~l~~n~l~~l--p~~l~~~~~L~~L~l~~n~~~  177 (248)
                      +++|+.|++++|.++.+  |..+..+++|++|++++|.+.
T Consensus       507 l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~  546 (567)
T 1dce_A          507 LPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLC  546 (567)
T ss_dssp             CSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             CCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCC
Confidence            66666666666666555  556666666666666666543

>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=99.57  E-value=1.1e-14  Score=110.45  Aligned_cols=125  Identities=22%  Similarity=0.193  Sum_probs=82.5

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      +.++++++. ++.+|..+. ..+++|++++|.+....+. .+..+++|++|++++|.+.+..|..+..+++|++|++++|
T Consensus        11 ~~l~~s~~~-l~~ip~~~~-~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N   88 (192)
T 1w8a_A           11 TTVDCTGRG-LKEIPRDIP-LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSC-CSSCCSCCC-TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEcCCCC-cCcCccCCC-CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCC
Confidence            678888876 577776552 2788888866665433332 3788888888888888777777778888888888888886


Q ss_pred             cCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc
Q 041505          105 SNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE  154 (248)
Q Consensus       105 ~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~  154 (248)
                      .+.+..+..   +++|+.|++++  |.+.+..|..++.+++|+.|++++|.+.
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           89 KIKEISNKMFLGLHQLKTLNLYD--NQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCS--SCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             cCCccCHHHhcCCCCCCEEECCC--CcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            665443332   23344555555  4454444555666666666666666654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.57  E-value=3e-15  Score=135.05  Aligned_cols=149  Identities=23%  Similarity=0.211  Sum_probs=98.8

Q ss_pred             ccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccC-
Q 041505           38 SLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG-  115 (248)
Q Consensus        38 ~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-  115 (248)
                      ..+..+ .++.|+.|++++|.+ ..+|..+.++++|++|++++|.+. .+|..++.+++|++|++++|.+. .+|..++ 
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l-~~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~  291 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQI-FNISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGS  291 (727)
T ss_dssp             -------CCCCCCEEECTTSCC-SCCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCSSGGG
T ss_pred             cChhhhccCCCCcEEECCCCCC-CCCChhhcCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccChhhcC
Confidence            335555 788888888866664 477777778888888888887655 78888888888888888887766 6676544 


Q ss_pred             --CCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-ccchhhhccC-CcceecccCccccccCCCCCcccceec
Q 041505          116 --NLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-RIPESVIQLS-KLGRLYLRYWERLQSLPKLPCKLHELD  191 (248)
Q Consensus       116 --~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-~lp~~l~~~~-~L~~L~l~~n~~~~~l~~~~~~L~~L~  191 (248)
                        +|+.|+++.  |.+. .+|..++.+++|+.|++++|.++ .+|..+.... ....+++.+|.+...+|   ..|+.|+
T Consensus       292 l~~L~~L~L~~--N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p---~~l~~l~  365 (727)
T 4b8c_D          292 CFQLKYFYFFD--NMVT-TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLP---HERRFIE  365 (727)
T ss_dssp             GTTCSEEECCS--SCCC-CCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCC---CC-----
T ss_pred             CCCCCEEECCC--CCCC-ccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCc---cccceeE
Confidence              556777777  5554 58888999999999999999996 4455554432 22346788887665555   4456666


Q ss_pred             cccc
Q 041505          192 AHHC  195 (248)
Q Consensus       192 l~~~  195 (248)
                      ++.+
T Consensus       366 l~~n  369 (727)
T 4b8c_D          366 INTD  369 (727)
T ss_dssp             ----
T ss_pred             eecc
Confidence            6554

>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=99.56  E-value=3.5e-14  Score=107.63  Aligned_cols=125  Identities=20%  Similarity=0.133  Sum_probs=100.1

Q ss_pred             ccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCc-cccCCCCCcEEeccCccCCccccccc---CCCCceEec
Q 041505           48 LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPS-GLCKLKLLNYLTLNCCSNLQRLPDEL---GNLEALWIS  123 (248)
Q Consensus        48 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~---~~l~~L~l~  123 (248)
                      -++++++++.+ +.+|..+.  +++++|++++|.+.+..+. .++.+++|++|++++|.+.+..|..+   .++++|+++
T Consensus        10 ~~~l~~s~~~l-~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           10 GTTVDCTGRGL-KEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TTEEECTTSCC-SSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCEEEcCCCCc-CcCccCCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            47899966654 67786553  3899999999876555544 38899999999999988887767655   456688888


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcCccc-chhhhccCCcceecccCcccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERI-PESVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p~~l~~~~~L~~L~l~~n~~~  177 (248)
                      +  |.+.+..+..++++++|+.|++++|+++.+ |..+..+++|++|++++|.+.
T Consensus        87 ~--N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           87 E--NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             S--CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             C--CcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            8  677766667799999999999999999765 668889999999999999764

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.55  E-value=9.8e-14  Score=105.25  Aligned_cols=125  Identities=24%  Similarity=0.223  Sum_probs=86.5

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCcc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  105 (248)
                      ++++++++. +..+|..+ .+.|++|++++|.+ ..+|..+.++++|++|++++|.+.+..+..+..+++|++|++++|.
T Consensus        13 ~~l~~~~~~-l~~ip~~~-~~~l~~L~L~~n~i-~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~   89 (193)
T 2wfh_A           13 TVVRCSNKG-LKVLPKGI-PRDVTELYLDGNQF-TLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR   89 (193)
T ss_dssp             TEEECTTSC-CSSCCSCC-CTTCCEEECCSSCC-CSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEcCCCC-CCcCCCCC-CCCCCEEECCCCcC-chhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCc
Confidence            578888876 66777655 25788999966654 5778888889999999999887776666778888899999888865


Q ss_pred             CCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCccc
Q 041505          106 NLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       106 ~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~  176 (248)
                      +.+.                       .+..+..+++|+.|++++|.++.+|. .+..+++|+.|++++|++
T Consensus        90 l~~i-----------------------~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           90 LRCI-----------------------PPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CCBC-----------------------CTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             cCEe-----------------------CHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCe
Confidence            4322                       23345555666666666666655554 355566666666666543

>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=99.55  E-value=1.8e-15  Score=133.47  Aligned_cols=172  Identities=16%  Similarity=0.012  Sum_probs=92.5

Q ss_pred             hcCCCCccEEEccCCCCCcc----cCCcc-ccCcccEEEcCCCCCc----cccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           19 KQNNPHIVVLNLRDCKSLKS----LPAGI-HLEFLKELDLLNGTAI----EELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~----~~~~~-~l~~L~~L~l~~~~~~----~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      ...+++|++|++++|.+.+.    ++... .++.|++|++++|...    ..++..+.++++|++|++++|... .+|..
T Consensus       160 ~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~-~l~~~  238 (592)
T 3ogk_B          160 VTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEIL-ELVGF  238 (592)
T ss_dssp             HHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGG-GGHHH
T ss_pred             HhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHH-HHHHH
Confidence            34567777777777753332    22222 5677777777666553    234455566777777777775433 35555


Q ss_pred             ccCCCCCcEEeccCccCC---ccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc--ccchhhh
Q 041505           90 LCKLKLLNYLTLNCCSNL---QRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE--RIPESVI  161 (248)
Q Consensus        90 l~~l~~L~~L~l~~~~~~---~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~--~lp~~l~  161 (248)
                      +..+++|+.|+++.....   ...+.   ...+++.+++..+   ....+|..+..+++|+.|++++|.++  .++..+.
T Consensus       239 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~---~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~  315 (592)
T 3ogk_B          239 FKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM---GPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQ  315 (592)
T ss_dssp             HHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC---CTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHT
T ss_pred             HhhhhHHHhhcccccccccchHHHHHHhhccccccccCcccc---chhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHH
Confidence            666677777776542221   11111   2234445555442   22235556666777777777777653  2223455


Q ss_pred             ccCCcceecccCccccccCC---CCCcccceecccc
Q 041505          162 QLSKLGRLYLRYWERLQSLP---KLPCKLHELDAHH  194 (248)
Q Consensus       162 ~~~~L~~L~l~~n~~~~~l~---~~~~~L~~L~l~~  194 (248)
                      .+++|++|++..+-....++   ...++|++|++++
T Consensus       316 ~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~L~~  351 (592)
T 3ogk_B          316 KCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIER  351 (592)
T ss_dssp             TCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEEC
T ss_pred             hCcCCCEEeccCccCHHHHHHHHHhCCCCCEEEeec
Confidence            66777777666331111111   1235566666663

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.54  E-value=2.6e-14  Score=103.74  Aligned_cols=123  Identities=25%  Similarity=0.171  Sum_probs=83.5

Q ss_pred             cCcccEEEcCCCCCc-cccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEec
Q 041505           45 LEFLKELDLLNGTAI-EELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWIS  123 (248)
Q Consensus        45 l~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~  123 (248)
                      .+++++|++++|.+. +.+|..+..+++|++|++++|.+.+.  ..+..+++|++|++++|                   
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n-------------------   74 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDN-------------------   74 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSS-------------------
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCC-------------------
Confidence            356777777666654 35666666777777777777654433  45666677777777664                   


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccccccCCC-------CCcccceeccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERLQSLPK-------LPCKLHELDAH  193 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~~l~~-------~~~~L~~L~l~  193 (248)
                          .+.+.+|..++.+++|+.|++++|.++.+|  ..+..+++|++|++++|.+.. .+.       .+++|+.|+++
T Consensus        75 ----~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~-~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           75 ----RVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTN-LNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             ----CCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGG-STTHHHHHHHHCTTCCEETTB
T ss_pred             ----cccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccc-hHHHHHHHHHHCCCcccccCC
Confidence                333335666777889999999999998765  678889999999999986543 332       13556666554

>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=99.54  E-value=4.7e-14  Score=104.48  Aligned_cols=126  Identities=26%  Similarity=0.168  Sum_probs=83.9

Q ss_pred             cCcccEEEcCCCCCc-cccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEec
Q 041505           45 LEFLKELDLLNGTAI-EELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWIS  123 (248)
Q Consensus        45 l~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~  123 (248)
                      .+.|++|++++|.+. ..+|..+..+++|++|++++|.+.+.  ..+..+++|++|++++|.                  
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~------------------   82 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENR------------------   82 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCC------------------
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCc------------------
Confidence            356777777666544 35666667777777777777654433  556666777777776643                  


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccccccCC------CCCcccceeccccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERLQSLP------KLPCKLHELDAHHC  195 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~~l~------~~~~~L~~L~l~~~  195 (248)
                           +.+.+|..++.+++|+.|++++|.++.+|  ..+..+++|++|++++|.+....+      ..+++|++|++++|
T Consensus        83 -----l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n  157 (168)
T 2ell_A           83 -----IFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDR  157 (168)
T ss_dssp             -----CCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEET
T ss_pred             -----CchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCC
Confidence                 33335566667889999999999998776  678888999999999886543222      12355666666655

>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=99.54  E-value=3.3e-14  Score=106.23  Aligned_cols=130  Identities=18%  Similarity=0.124  Sum_probs=92.6

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcccc-CcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc-ccCCCCC
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGIHL-EFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG-LCKLKLL   96 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~~l-~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~-l~~l~~L   96 (248)
                      +..+.+|+.|++++|. +..++....+ ++|++|++++|.+.. + ..+..+++|++|++++|.+.+ +|.. +..+++|
T Consensus        15 ~~~~~~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           15 YTNAVRDRELDLRGYK-IPVIENLGATLDQFDAIDFSDNEIRK-L-DGFPLLRRLKTLLVNNNRICR-IGEGLDQALPDL   90 (176)
T ss_dssp             EECTTSCEEEECTTSC-CCSCCCGGGGTTCCSEEECCSSCCCE-E-CCCCCCSSCCEEECCSSCCCE-ECSCHHHHCTTC
T ss_pred             cCCcCCceEEEeeCCC-CchhHHhhhcCCCCCEEECCCCCCCc-c-cccccCCCCCEEECCCCcccc-cCcchhhcCCCC
Confidence            4567788888888887 4455543344 488888887766543 3 457778888888888876543 4433 4677888


Q ss_pred             cEEeccCccCCcccccccCCCCceEecccCCcccccccc--cccCCCCcCeEEccCCcCcccchh----hhccCCcceec
Q 041505           97 NYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPE--NIGQLSSLGKLDLQKNNFERIPES----VIQLSKLGRLY  170 (248)
Q Consensus        97 ~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~--~l~~~~~L~~L~l~~n~l~~lp~~----l~~~~~L~~L~  170 (248)
                      ++|++++|.+.                        .+|.  .++.+++|+.|++++|.++.+|..    +..+++|+.|+
T Consensus        91 ~~L~L~~N~i~------------------------~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld  146 (176)
T 1a9n_A           91 TELILTNNSLV------------------------ELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  146 (176)
T ss_dssp             CEEECCSCCCC------------------------CGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             CEEECCCCcCC------------------------cchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeC
Confidence            88888775431                        1333  577788899999999999888764    78889999999


Q ss_pred             ccCccc
Q 041505          171 LRYWER  176 (248)
Q Consensus       171 l~~n~~  176 (248)
                      ++.|..
T Consensus       147 ~~~n~~  152 (176)
T 1a9n_A          147 FQKVKL  152 (176)
T ss_dssp             TEECCH
T ss_pred             CCcCCH
Confidence            888754

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.53  E-value=4.2e-15  Score=134.05  Aligned_cols=156  Identities=19%  Similarity=0.143  Sum_probs=96.3

Q ss_pred             CCccEEEccCCCCCcccCCcc-ccCcccEEEcCC----CCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           23 PHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLN----GTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~----~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      +.++.|++.+|. +...+... ....|+.+.+..    ++.....|..+..++.|+.|++++|.+. .+|..++.+++|+
T Consensus       173 ~~~~~l~L~~n~-~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~  250 (727)
T 4b8c_D          173 PLTPKIELFANG-KDEANQALLQHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIF-NISANIFKYDFLT  250 (727)
T ss_dssp             --------------------------------------------------CCCCCCEEECTTSCCS-CCCGGGGGCCSCS
T ss_pred             CccceEEeeCCC-CCcchhhHhhcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCC-CCChhhcCCCCCC
Confidence            568889998877 54455544 444444444322    2223344677899999999999997654 8888888999999


Q ss_pred             EEeccCccCCccccccc---CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCc
Q 041505           98 YLTLNCCSNLQRLPDEL---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYW  174 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~~~---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n  174 (248)
                      +|++++|.+. .+|..+   .+|+.|++++  |.+. .+|..++.+++|+.|++++|.++.+|..++.+++|++|++++|
T Consensus       251 ~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~--N~l~-~lp~~~~~l~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N  326 (727)
T 4b8c_D          251 RLYLNGNSLT-ELPAEIKNLSNLRVLDLSH--NRLT-SLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGN  326 (727)
T ss_dssp             CCBCTTSCCS-CCCGGGGGGTTCCEEECTT--SCCS-SCCSSGGGGTTCSEEECCSSCCCCCCSSTTSCTTCCCEECTTS
T ss_pred             EEEeeCCcCc-ccChhhhCCCCCCEEeCcC--CcCC-ccChhhcCCCCCCEEECCCCCCCccChhhhcCCCccEEeCCCC
Confidence            9999998776 778754   4667888988  6666 6899999999999999999999999988999999999999999


Q ss_pred             cccccCCCCC
Q 041505          175 ERLQSLPKLP  184 (248)
Q Consensus       175 ~~~~~l~~~~  184 (248)
                      .+....|..+
T Consensus       327 ~l~~~~p~~~  336 (727)
T 4b8c_D          327 PLEKQFLKIL  336 (727)
T ss_dssp             CCCSHHHHHH
T ss_pred             ccCCCChHHH
Confidence            8766655543

>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=99.49  E-value=9.5e-15  Score=128.78  Aligned_cols=172  Identities=15%  Similarity=0.012  Sum_probs=98.1

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-c-cCc-ccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCcCc----CCccc
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-H-LEF-LKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESLNS----LPSGL   90 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~-l~~-L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~----~~~~l   90 (248)
                      ..+++|++|++++|.+.+..+..+ . ++. |++|++++|....  .++..+.++++|++|++++|.+.+.    ++..+
T Consensus       109 ~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~  188 (592)
T 3ogk_B          109 NNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELA  188 (592)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHH
T ss_pred             hhCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHH
Confidence            367788888888876554444444 2 344 7777776665322  1233344677777777777654333    22223


Q ss_pred             cCCCCCcEEeccCccCCc----ccc---cccCCCCceEecccCCccc--------------------------ccccccc
Q 041505           91 CKLKLLNYLTLNCCSNLQ----RLP---DELGNLEALWISREAGVIS--------------------------RWLPENI  137 (248)
Q Consensus        91 ~~l~~L~~L~l~~~~~~~----~~~---~~~~~l~~L~l~~~~n~~~--------------------------~~~~~~l  137 (248)
                      ..+++|++|++++|...+    .++   ...++|+.|++..+  ...                          ...+..+
T Consensus       189 ~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~--~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l  266 (592)
T 3ogk_B          189 QHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF--EILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNL  266 (592)
T ss_dssp             HHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC--BGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCC
T ss_pred             hcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc--cHHHHHHHHhhhhHHHhhcccccccccchHHHHHHh
Confidence            345666666666655431    111   13345555555552  121                          1233345


Q ss_pred             cCCCCcCeEEccCCcCcccchhhhccCCcceecccCcccccc-C---CCCCcccceeccc
Q 041505          138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQS-L---PKLPCKLHELDAH  193 (248)
Q Consensus       138 ~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~-l---~~~~~~L~~L~l~  193 (248)
                      ..+++|+.++++++....+|..+..+++|++|++++|.+... +   ...+++|++|+++
T Consensus       267 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~  326 (592)
T 3ogk_B          267 VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETR  326 (592)
T ss_dssp             CCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEE
T ss_pred             hccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEecc
Confidence            556666666666655566777777888999999988873221 1   1345788888875

>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=1.4e-13  Score=104.42  Aligned_cols=124  Identities=21%  Similarity=0.151  Sum_probs=99.6

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ++.+.+.+..+|..+  .+++++|++++|. +..+|..+ .+++|++|++++|.+....+..|.++++|++|++++|.+.
T Consensus        15 l~~~~~~l~~ip~~~--~~~l~~L~L~~n~-i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~   91 (193)
T 2wfh_A           15 VRCSNKGLKVLPKGI--PRDVTELYLDGNQ-FTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLR   91 (193)
T ss_dssp             EECTTSCCSSCCSCC--CTTCCEEECCSSC-CCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEcCCCCCCcCCCCC--CCCCCEEECCCCc-CchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccC
Confidence            455667788888654  3689999999998 66888777 8999999999888776655677999999999999999887


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE  154 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~  154 (248)
                      +..+..+..+++|++|++++|.+.                       ...+..+..+++|+.|++++|.+.
T Consensus        92 ~i~~~~f~~l~~L~~L~L~~N~l~-----------------------~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           92 CIPPRTFDGLKSLRLLSLHGNDIS-----------------------VVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             BCCTTTTTTCTTCCEEECCSSCCC-----------------------BCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             EeCHHHhCCCCCCCEEECCCCCCC-----------------------eeChhhhhcCccccEEEeCCCCee
Confidence            777778999999999999986443                       112234667788899999998874

>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=99.48  E-value=2.9e-13  Score=118.76  Aligned_cols=118  Identities=20%  Similarity=0.206  Sum_probs=65.5

Q ss_pred             ccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc--ccCCCCceEeccc
Q 041505           48 LKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD--ELGNLEALWISRE  125 (248)
Q Consensus        48 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~l~~L~l~~~  125 (248)
                      |++|++++|.+ ..+|. ++.+++|++|++++|.+. .+|..++.+++|++|++++|.+.+ +|.  .+++|+.|++++ 
T Consensus       443 L~~L~Ls~n~l-~~lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~~-lp~l~~l~~L~~L~Ls~-  517 (567)
T 1dce_A          443 VRVLHLAHKDL-TVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALEN-VDGVANLPRLQELLLCN-  517 (567)
T ss_dssp             CSEEECTTSCC-SSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC-CGGGTTCSSCCEEECCS-
T ss_pred             ceEEEecCCCC-CCCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCCCCCCC-CcccCCCCCCcEEECCC-
Confidence            44455533332 22343 444555555555544332 444444445555555555444332 331  122333444444 


Q ss_pred             CCcccccc-cccccCCCCcCeEEccCCcCcccchh----hhccCCcceecc
Q 041505          126 AGVISRWL-PENIGQLSSLGKLDLQKNNFERIPES----VIQLSKLGRLYL  171 (248)
Q Consensus       126 ~n~~~~~~-~~~l~~~~~L~~L~l~~n~l~~lp~~----l~~~~~L~~L~l  171 (248)
                       |.+.+.. |..++.+++|+.|++++|.++.+|..    +..+++|+.|++
T Consensus       518 -N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          518 -NRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             -SCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             -CCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccCC
Confidence             4555444 78899999999999999999877643    345788888753

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.48  E-value=7.6e-13  Score=98.77  Aligned_cols=126  Identities=20%  Similarity=0.195  Sum_probs=70.7

Q ss_pred             ccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           25 IVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        25 L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      .+.++++++. +..+|..+ .+.|++|++++|.+....+..+..+++|++|++++|.+.+..+..+..+++|++|++++|
T Consensus         9 ~~~l~~~~~~-l~~~p~~~-~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A            9 GTEIRCNSKG-LTSVPTGI-PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             TTEEECCSSC-CSSCCTTC-CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEecCCC-CccCCCCC-CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCC
Confidence            3567777765 55555433 256777777666544333344677777777777776555444444567777777777775


Q ss_pred             cCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchh-hhccCCcceecccCcc
Q 041505          105 SNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPES-VIQLSKLGRLYLRYWE  175 (248)
Q Consensus       105 ~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~-l~~~~~L~~L~l~~n~  175 (248)
                      .+.+.                       .+..++.+++|+.|++++|.++.+|.. +..+++|++|++++|+
T Consensus        87 ~l~~~-----------------------~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           87 KLQSL-----------------------PNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             CCCCC-----------------------CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             Ccccc-----------------------CHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCC
Confidence            44322                       122234455555555555555544432 3445555555555553

>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=99.45  E-value=1.7e-14  Score=127.23  Aligned_cols=128  Identities=17%  Similarity=0.127  Sum_probs=67.2

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccc--cChhhhcccCCCEEeccCCcCcCcCCccc----c
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEE--LPSAIECLYKLLHLDLEYCESLNSLPSGL----C   91 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~l----~   91 (248)
                      ..+++|++|++++|.+.+..+..+  .+++|++|++++|...+.  ++..+.++++|++|++++|.+.+..+..+    .
T Consensus       102 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             HhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            345667777777766444443333  466777777766643333  34444567777777777665433322222    2


Q ss_pred             CCCCCcEEeccCcc--CCcc----cccccCCCCceEecccCCcccccccccccCCCCcCeEEcc
Q 041505           92 KLKLLNYLTLNCCS--NLQR----LPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQ  149 (248)
Q Consensus        92 ~l~~L~~L~l~~~~--~~~~----~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~  149 (248)
                      .+++|++|++++|.  ....    +....++|++|++.++. ... .++..+..+++|+.+++.
T Consensus       182 ~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-~~~-~l~~~~~~~~~L~~L~l~  243 (594)
T 2p1m_B          182 TYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAV-PLE-KLATLLQRAPQLEELGTG  243 (594)
T ss_dssp             TCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTS-CHH-HHHHHHHHCTTCSEEECS
T ss_pred             cCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCC-cHH-HHHHHHhcCCcceEcccc
Confidence            45567777776654  1100    11123566666666642 122 144455555555555543

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.45  E-value=7.5e-13  Score=98.80  Aligned_cols=125  Identities=20%  Similarity=0.054  Sum_probs=93.0

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      .+.+.+..+|..+  .++|++|++++|.+.+..+..+ .+++|++|++++|.+....+..+.++++|++|++++|.+.+.
T Consensus        14 ~~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~   91 (177)
T 2o6r_A           14 CNSKGLTSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSL   91 (177)
T ss_dssp             CCSSCCSSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             ecCCCCccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCcccc
Confidence            3455677777544  4799999999998554444455 899999999987776544445578999999999999877766


Q ss_pred             CCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI  156 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l  156 (248)
                      .+..+..+++|++|++++|.+.                       +..+..+..+++|+.|++++|.+...
T Consensus        92 ~~~~~~~l~~L~~L~l~~N~l~-----------------------~~~~~~~~~l~~L~~L~l~~N~~~~~  139 (177)
T 2o6r_A           92 PNGVFDKLTQLKELALDTNQLK-----------------------SVPDGIFDRLTSLQKIWLHTNPWDCS  139 (177)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCS-----------------------CCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             CHHHhhCCcccCEEECcCCcce-----------------------EeCHHHhcCCcccCEEEecCCCeecc
Confidence            5666788999999999985432                       11223356788899999999987543

>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=4.6e-15  Score=113.02  Aligned_cols=136  Identities=18%  Similarity=0.193  Sum_probs=85.1

Q ss_pred             HhhhhhhcCCCCccEEEccCCCCCcccCC------cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505           13 FSLYAFKQNNPHIVVLNLRDCKSLKSLPA------GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus        13 ~~l~~~l~~l~~L~~L~l~~~~~~~~~~~------~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      .+.-+.+.....++.++++.+.+.+..|.      .+ .+++|++|++++|.+ ..+| .+..+++|++|++++|.+. .
T Consensus         8 ~~~~~~~~~~~~l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l-~~l~-~~~~l~~L~~L~l~~n~l~-~   84 (198)
T 1ds9_A            8 KDAIRIFEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLIK-K   84 (198)
T ss_dssp             HHHHHHHHHTTCCCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEE-SCCC-CHHHHTTCCEEEEEEEEEC-S
T ss_pred             HHHHHHHHhcccccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCC-cccc-ccccCCCCCEEECCCCCcc-c
Confidence            33333455566777777777766666655      66 788888888866654 4467 6888888888888886544 6


Q ss_pred             CCccccCCCCCcEEeccCccCCccccc--ccCCCCceEecccCCcccccc-cccccCCCCcCeEEccCCcCc
Q 041505           86 LPSGLCKLKLLNYLTLNCCSNLQRLPD--ELGNLEALWISREAGVISRWL-PENIGQLSSLGKLDLQKNNFE  154 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~l~~L~l~~~~n~~~~~~-~~~l~~~~~L~~L~l~~n~l~  154 (248)
                      +|..+..+++|++|++++|.+.+ +|.  .+++++.|++++  |.+.+.. ...+..+++|+.|++++|.+.
T Consensus        85 l~~~~~~~~~L~~L~L~~N~l~~-l~~~~~l~~L~~L~l~~--N~i~~~~~~~~l~~l~~L~~L~l~~N~l~  153 (198)
T 1ds9_A           85 IENLDAVADTLEELWISYNQIAS-LSGIEKLVNLRVLYMSN--NKITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             CSSHHHHHHHCSEEEEEEEECCC-HHHHHHHHHSSEEEESE--EECCCHHHHHHHTTTTTCSEEEECSCHHH
T ss_pred             ccchhhcCCcCCEEECcCCcCCc-CCccccCCCCCEEECCC--CcCCchhHHHHHhcCCCCCEEEecCCccc
Confidence            77766677888888888865543 331  233455555555  3333211 124555566666666666553

>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=99.43  E-value=1.7e-14  Score=127.10  Aligned_cols=220  Identities=12%  Similarity=0.021  Sum_probs=128.0

Q ss_pred             cCCCCccEEEccCCCCCcccCCc-c-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCC---------cCcCcCCc
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAG-I-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC---------ESLNSLPS   88 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~---------~~~~~~~~   88 (248)
                      ..+++|++|++++|.+.+..... + .+++|++|++++|.....++.....+++|++|++.++         .+......
T Consensus       286 ~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l~  365 (594)
T 2p1m_B          286 SVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLV  365 (594)
T ss_dssp             HHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHHH
T ss_pred             HhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCccCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHHH
Confidence            34677777788777733322222 2 6777888887665211122333445778888877332         11111111


Q ss_pred             cc-cCCCCCcEEeccCccCCcccc----cccCCCCceEecccC----Cccc-----ccccccccCCCCcCeEEccCCcCc
Q 041505           89 GL-CKLKLLNYLTLNCCSNLQRLP----DELGNLEALWISREA----GVIS-----RWLPENIGQLSSLGKLDLQKNNFE  154 (248)
Q Consensus        89 ~l-~~l~~L~~L~l~~~~~~~~~~----~~~~~l~~L~l~~~~----n~~~-----~~~~~~l~~~~~L~~L~l~~n~l~  154 (248)
                      .+ ..+++|+.|.+..+++.+..+    ...++|+.|++..+.    +.+.     ..++..+..+++|+.|++++ .++
T Consensus       366 ~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~-~l~  444 (594)
T 2p1m_B          366 SVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG-LLT  444 (594)
T ss_dssp             HHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCS-SCC
T ss_pred             HHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecC-ccc
Confidence            22 236788888776655543322    245678888887211    2222     12333367788899999977 553


Q ss_pred             -ccchhhhc-cCCcceecccCccccccCC----CCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          155 -RIPESVIQ-LSKLGRLYLRYWERLQSLP----KLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       155 -~lp~~l~~-~~~L~~L~l~~n~~~~~l~----~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                       ..+..+.. +++|++|++++|.+.....    ..+++|++|++++|.. .... ......++++|+.|++++|.+...+
T Consensus       445 ~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~-~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~  522 (594)
T 2p1m_B          445 DKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPF-GDKA-LLANASKLETMRSLWMSSCSVSFGA  522 (594)
T ss_dssp             HHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSC-CHHH-HHHTGGGGGGSSEEEEESSCCBHHH
T ss_pred             HHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCC-cHHH-HHHHHHhCCCCCEEeeeCCCCCHHH
Confidence             22334443 8899999999987532211    2358899999999864 2211 1122345789999999999986666


Q ss_pred             HHHHHHHHhhhhhe
Q 041505          229 EEFLKMLCKKLNFW  242 (248)
Q Consensus       229 ~~~~~~l~~~l~~~  242 (248)
                      .+.+..-++.+++.
T Consensus       523 ~~~l~~~lp~l~i~  536 (594)
T 2p1m_B          523 CKLLGQKMPKLNVE  536 (594)
T ss_dssp             HHHHHHHCTTEEEE
T ss_pred             HHHHHHhCCCCEEE
Confidence            65554434555443

>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=99.36  E-value=4.1e-12  Score=94.71  Aligned_cols=106  Identities=19%  Similarity=0.121  Sum_probs=76.8

Q ss_pred             ccCcccEEEcCCCCCccccChhhhcc-cCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEe
Q 041505           44 HLEFLKELDLLNGTAIEELPSAIECL-YKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWI  122 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~~~~~~~~l-~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l  122 (248)
                      .+.+|++|++++|.+. .+|. +..+ ++|++|++++|.+.+.  ..+..+++|++|++++|.+                
T Consensus        17 ~~~~L~~L~l~~n~l~-~i~~-~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l----------------   76 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIP-VIEN-LGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRI----------------   76 (176)
T ss_dssp             CTTSCEEEECTTSCCC-SCCC-GGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCC----------------
T ss_pred             CcCCceEEEeeCCCCc-hhHH-hhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCcc----------------
Confidence            6778888888666544 5554 4444 4888888888765543  4577777888888877433                


Q ss_pred             cccCCccccccc-ccccCCCCcCeEEccCCcCcccch--hhhccCCcceecccCcccc
Q 041505          123 SREAGVISRWLP-ENIGQLSSLGKLDLQKNNFERIPE--SVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       123 ~~~~n~~~~~~~-~~l~~~~~L~~L~l~~n~l~~lp~--~l~~~~~L~~L~l~~n~~~  177 (248)
                             .+ +| ..++.+++|+.|++++|.++.+|.  .+..+++|++|++++|.+.
T Consensus        77 -------~~-~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~  126 (176)
T 1a9n_A           77 -------CR-IGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVT  126 (176)
T ss_dssp             -------CE-ECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGG
T ss_pred             -------cc-cCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCC
Confidence                   22 33 334778899999999999988886  7888999999999998653

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.32  E-value=2.1e-11  Score=90.80  Aligned_cols=108  Identities=23%  Similarity=0.192  Sum_probs=71.2

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCcc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  105 (248)
                      +.+++++|. ++.+|..+. +.|++|++++|.+....|..+.++++|++|++++|.+.+..+..+..+++|++|++++|.
T Consensus        15 ~~l~~~~n~-l~~iP~~~~-~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           15 TLVNCQNIR-LASVPAGIP-TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSC-CSSCCSCCC-TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCC-CCccCCCcC-CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc
Confidence            677887776 566666553 677788886666555446667778888888887765544333345677777777777743


Q ss_pred             CCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch
Q 041505          106 NLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE  158 (248)
Q Consensus       106 ~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~  158 (248)
                      +                       .+..+..++.+++|+.|++++|.+...+.
T Consensus        93 l-----------------------~~l~~~~~~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A           93 L-----------------------KSIPRGAFDNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             C-----------------------CCCCTTTTTTCTTCSEEECCSSCBCTTBG
T ss_pred             c-----------------------ceeCHHHhccccCCCEEEeCCCCcccccc
Confidence            3                       22122346777888888888888765554

>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=99.31  E-value=2.5e-11  Score=90.04  Aligned_cols=107  Identities=22%  Similarity=0.193  Sum_probs=71.7

Q ss_pred             ccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           25 IVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        25 L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      .+.+++++|. +..+|..+. +.|++|++++|.+....|..+.++++|++|++++|.+.+..+..+..+++|++|++++|
T Consensus        11 ~~~l~~s~n~-l~~ip~~~~-~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   88 (170)
T 3g39_A           11 GTTVDCSGKS-LASVPTGIP-TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TTEEECTTSC-CSSCCSCCC-TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEeCCCC-cCccCccCC-CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            4677888876 555665542 67778888666655554666777888888888877655444445667777888777774


Q ss_pred             cCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc
Q 041505          105 SNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI  156 (248)
Q Consensus       105 ~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l  156 (248)
                      .+                       .+..+..++.+++|+.|++++|.++..
T Consensus        89 ~l-----------------------~~~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           89 QL-----------------------KSIPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             CC-----------------------CCCCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             cc-----------------------CEeCHHHhcCCCCCCEEEeCCCCCCCC
Confidence            33                       222233467778888888888877533

>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=99.29  E-value=1.1e-11  Score=91.86  Aligned_cols=102  Identities=24%  Similarity=0.076  Sum_probs=82.3

Q ss_pred             chhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505            5 VDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus         5 ~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ++.+.+.++.+|..+  .+++++|++++|.+.+..|..+ .+++|++|++++|.+....+..+.++++|++|++++|.+.
T Consensus        14 l~~s~n~l~~ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~   91 (170)
T 3g39_A           14 VDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK   91 (170)
T ss_dssp             EECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEeCCCCcCccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccC
Confidence            456677888888765  4899999999998666657777 8999999999877765444455789999999999998776


Q ss_pred             CcCCccccCCCCCcEEeccCccCCc
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQ  108 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~  108 (248)
                      +..+..+..+++|++|++++|.+..
T Consensus        92 ~~~~~~~~~l~~L~~L~L~~N~~~c  116 (170)
T 3g39_A           92 SIPRGAFDNLKSLTHIWLLNNPWDC  116 (170)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCBCT
T ss_pred             EeCHHHhcCCCCCCEEEeCCCCCCC
Confidence            6556668899999999999976643

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.26  E-value=1.7e-11  Score=91.32  Aligned_cols=101  Identities=23%  Similarity=0.149  Sum_probs=80.9

Q ss_pred             cchhhccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCc
Q 041505            4 LVDDHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCE   81 (248)
Q Consensus         4 l~~~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~   81 (248)
                      .++.+.+.+..+|..+.  ++|++|++++|.+.+..|..+ .+++|++|++++|.+. .+|. .+.++++|++|++++|.
T Consensus        16 ~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           16 LVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLT-AIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCC-ccChhHhCCcchhhEEECCCCc
Confidence            34566777888887664  899999999999666667777 8999999999777654 4554 57899999999999987


Q ss_pred             CcCcCCccccCCCCCcEEeccCccCC
Q 041505           82 SLNSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        82 ~~~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      +.+..+..+..+++|++|++++|.+.
T Consensus        93 l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           93 LKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             cceeCHHHhccccCCCEEEeCCCCcc
Confidence            66544455889999999999997654

>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=99.26  E-value=1.2e-13  Score=105.13  Aligned_cols=130  Identities=21%  Similarity=0.180  Sum_probs=100.0

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcc
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSG   89 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~   89 (248)
                      .++.+|..+..+++|++|++++|. +..+| .+ .+++|++|++++|.+ ..+|..+..+++|++|++++|.+.+ +| .
T Consensus        36 ~l~~l~~~~~~l~~L~~L~ls~n~-l~~l~-~~~~l~~L~~L~l~~n~l-~~l~~~~~~~~~L~~L~L~~N~l~~-l~-~  110 (198)
T 1ds9_A           36 PIEKMDATLSTLKACKHLALSTNN-IEKIS-SLSGMENLRILSLGRNLI-KKIENLDAVADTLEELWISYNQIAS-LS-G  110 (198)
T ss_dssp             TCCCCHHHHHHTTTCSEEECSEEE-ESCCC-CHHHHTTCCEEEEEEEEE-CSCSSHHHHHHHCSEEEEEEEECCC-HH-H
T ss_pred             cHhhhhHHHhcCCCCCEEECCCCC-Ccccc-ccccCCCCCEEECCCCCc-ccccchhhcCCcCCEEECcCCcCCc-CC-c
Confidence            456677788999999999999998 55577 66 899999999977765 4788888889999999999986654 55 5


Q ss_pred             ccCCCCCcEEeccCccCCccc----ccccCCCCceEecccCCccccccccc----------ccCCCCcCeEE
Q 041505           90 LCKLKLLNYLTLNCCSNLQRL----PDELGNLEALWISREAGVISRWLPEN----------IGQLSSLGKLD  147 (248)
Q Consensus        90 l~~l~~L~~L~l~~~~~~~~~----~~~~~~l~~L~l~~~~n~~~~~~~~~----------l~~~~~L~~L~  147 (248)
                      +..+++|++|++++|.+.+.-    ...+++++.|++++  |.+.+..|..          +..+++|+.|+
T Consensus       111 ~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~--N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          111 IEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAG--NPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECS--CHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             cccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecC--CccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            888999999999998776422    23566788999998  6565444432          55566666655

>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=99.20  E-value=2.5e-11  Score=99.47  Aligned_cols=88  Identities=19%  Similarity=0.226  Sum_probs=66.1

Q ss_pred             CCCCcCeEEccCCcCcccch-hhhccCCcceecccCccccccCCC----CCcccc-eeccccccccccchhhcccccccc
Q 041505          139 QLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERLQSLPK----LPCKLH-ELDAHHCTALESLSGLFSSFEART  212 (248)
Q Consensus       139 ~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~~~l~~----~~~~L~-~L~l~~~~~l~~~~~~~~~l~~l~  212 (248)
                      .+++|+.+++++|+++.+|. .|.++.+|+.+++..|  ++.++.    ...+|+ .+.+.+  .++.+  ....|.+++
T Consensus       224 ~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n--i~~I~~~aF~~~~~L~~~l~l~~--~l~~I--~~~aF~~c~  297 (329)
T 3sb4_A          224 YMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN--LKTIGQRVFSNCGRLAGTLELPA--SVTAI--EFGAFMGCD  297 (329)
T ss_dssp             HCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEEEECT--TCCEE--CTTTTTTCT
T ss_pred             hcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc--cceehHHHhhCChhccEEEEEcc--cceEE--chhhhhCCc
Confidence            37899999999999998875 6889999999999887  444543    246687 888876  33433  334566777


Q ss_pred             cccccccccCcchhchHHHH
Q 041505          213 RYFDLRYNYNWIEMRSEEFL  232 (248)
Q Consensus       213 ~L~~l~l~~n~i~~~~~~~~  232 (248)
                      +|+.+++..|.+...+...|
T Consensus       298 ~L~~l~l~~n~i~~I~~~aF  317 (329)
T 3sb4_A          298 NLRYVLATGDKITTLGDELF  317 (329)
T ss_dssp             TEEEEEECSSCCCEECTTTT
T ss_pred             cCCEEEeCCCccCccchhhh
Confidence            99999998998887765433

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.20  E-value=1.5e-12  Score=108.47  Aligned_cols=153  Identities=14%  Similarity=0.046  Sum_probs=91.6

Q ss_pred             CCCccEEEccCCCCCcccCCcc------ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccc----
Q 041505           22 NPHIVVLNLRDCKSLKSLPAGI------HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGL----   90 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~~~------~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l----   90 (248)
                      ++.|+.|++++|.+.......+      ..+.|++|++++|.+...-. .....+++|++|++++|.+.......+    
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            4678899999988544322222      23689999998887654332 223457788999999886654333333    


Q ss_pred             -cCCCCCcEEeccCccCCcc----cc---cccCCCCceEecccCCccccc----ccccccCCCCcCeEEccCCcCcc---
Q 041505           91 -CKLKLLNYLTLNCCSNLQR----LP---DELGNLEALWISREAGVISRW----LPENIGQLSSLGKLDLQKNNFER---  155 (248)
Q Consensus        91 -~~l~~L~~L~l~~~~~~~~----~~---~~~~~l~~L~l~~~~n~~~~~----~~~~l~~~~~L~~L~l~~n~l~~---  155 (248)
                       ...++|++|++++|.+...    ++   ...+++++|++++  |.+.+.    ++..+...++|+.|++++|.++.   
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~--N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~  228 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLH--TGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAA  228 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTT--SSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHH
T ss_pred             HhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCC--CCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHH
Confidence             2357788888888765421    11   1234566666666  333321    23445556667777777776642   


Q ss_pred             --cchhhhccCCcceecccCccc
Q 041505          156 --IPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       156 --lp~~l~~~~~L~~L~l~~n~~  176 (248)
                        ++..+...++|++|++++|.+
T Consensus       229 ~~l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          229 LALARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             HHHHHHHHHCSSCCEEECTTSSC
T ss_pred             HHHHHHHHhCCCCCEEeccCCCC
Confidence              233444556677777766653

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.11  E-value=9.6e-12  Score=103.64  Aligned_cols=132  Identities=17%  Similarity=0.077  Sum_probs=95.8

Q ss_pred             CCccEEEccCCCCCcccCCcc--ccCcccEEEcCCCCCccccChhh-----hcccCCCEEeccCCcCcC----cCCcccc
Q 041505           23 PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAI-----ECLYKLLHLDLEYCESLN----SLPSGLC   91 (248)
Q Consensus        23 ~~L~~L~l~~~~~~~~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~-----~~l~~L~~L~l~~~~~~~----~~~~~l~   91 (248)
                      .+|++|++++|.+.......+  .+++|++|++++|.+...-...+     ...++|++|++++|.+..    .++..+.
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~  180 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLA  180 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHh
Confidence            699999999998655433334  67899999998887654433333     246889999999987654    2445557


Q ss_pred             CCCCCcEEeccCccCCcc----cc---cccCCCCceEecccCCccccc----ccccccCCCCcCeEEccCCcCccc
Q 041505           92 KLKLLNYLTLNCCSNLQR----LP---DELGNLEALWISREAGVISRW----LPENIGQLSSLGKLDLQKNNFERI  156 (248)
Q Consensus        92 ~l~~L~~L~l~~~~~~~~----~~---~~~~~l~~L~l~~~~n~~~~~----~~~~l~~~~~L~~L~l~~n~l~~l  156 (248)
                      .+++|++|++++|.+...    ++   ....+++.|++++  |.+.+.    ++..+...++|+.|++++|.++..
T Consensus       181 ~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~--N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~  254 (372)
T 3un9_A          181 GNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAY--NGAGDTAALALARAAREHPSLELLHLYFNELSSE  254 (372)
T ss_dssp             TCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCS--SCCCHHHHHHHHHHHHHCSSCCEEECTTSSCCHH
T ss_pred             cCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCC--CCCCHHHHHHHHHHHHhCCCCCEEeccCCCCCHH
Confidence            789999999999876532    12   2345788999999  545432    445566788999999999998643

>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=99.06  E-value=4.9e-10  Score=92.32  Aligned_cols=98  Identities=19%  Similarity=0.111  Sum_probs=76.6

Q ss_pred             hhcc-chHhhhhhhcCCCCccEEEccC-CCCCcccC-Ccc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505            7 DHAL-ELFSLYAFKQNNPHIVVLNLRD-CKSLKSLP-AGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus         7 ~~~~-~l~~l~~~l~~l~~L~~L~l~~-~~~~~~~~-~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      .+.+ .+..+|. +..+++|+.|+|++ |. +..++ ..+ .+++|++|+|++|.+....|..|.++++|++|++++|.+
T Consensus        15 ~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~-l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l   92 (347)
T 2ifg_A           15 CTRDGALDSLHH-LPGAENLTELYIENQQH-LQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNAL   92 (347)
T ss_dssp             CCSSCCCTTTTT-SCSCSCCSEEECCSCSS-CCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCC
T ss_pred             cCCCCCCCccCC-CCCCCCeeEEEccCCCC-CCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCcc
Confidence            3444 7888998 99999999999996 77 55555 566 899999999988877666667789999999999999766


Q ss_pred             cCcCCccccCCCCCcEEeccCccCC
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      . .+|..+.....|+.|++.+|.+.
T Consensus        93 ~-~~~~~~~~~~~L~~l~l~~N~~~  116 (347)
T 2ifg_A           93 E-SLSWKTVQGLSLQELVLSGNPLH  116 (347)
T ss_dssp             S-CCCSTTTCSCCCCEEECCSSCCC
T ss_pred             c-eeCHHHcccCCceEEEeeCCCcc
Confidence            5 45544444344999999997765

>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=99.04  E-value=7e-10  Score=91.38  Aligned_cols=107  Identities=22%  Similarity=0.136  Sum_probs=77.8

Q ss_pred             cEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccC
Q 041505           26 VVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNC  103 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  103 (248)
                      ..++.+++..+..+|. + .+.+|++|++++++.+..+| ..|.++++|++|++++|.+.+..|..|..+++|++|++++
T Consensus        11 ~~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~   89 (347)
T 2ifg_A           11 SGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             SCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             CEEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            3467777623667888 8 88899999997534445554 6788999999999999887777777888899999999988


Q ss_pred             ccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc
Q 041505          104 CSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP  157 (248)
Q Consensus       104 ~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp  157 (248)
                      |.+. .+|                      +..+..+. |+.|++.+|.+....
T Consensus        90 N~l~-~~~----------------------~~~~~~~~-L~~l~l~~N~~~c~c  119 (347)
T 2ifg_A           90 NALE-SLS----------------------WKTVQGLS-LQELVLSGNPLHCSC  119 (347)
T ss_dssp             SCCS-CCC----------------------STTTCSCC-CCEEECCSSCCCCCG
T ss_pred             Cccc-eeC----------------------HHHcccCC-ceEEEeeCCCccCCC
Confidence            6543 111                      22233333 999999999986443

>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=99.00  E-value=1.1e-09  Score=89.57  Aligned_cols=148  Identities=16%  Similarity=0.160  Sum_probs=94.7

Q ss_pred             CCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC---cC------------
Q 041505           22 NPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES---LN------------   84 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~---~~------------   84 (248)
                      +++|+.+++.+ . +..+++ ++ ++++|+.+++++|.....-+.+|.++.++..+.......   ..            
T Consensus       100 ~~~L~~l~L~~-~-i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-K-IKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-T-CCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-c-ccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            88899999988 5 555554 45 889999999977665443345566666666665443110   00            


Q ss_pred             -----------cCCcc---------------------------c-cCCCCCcEEeccCccCCccccc-cc---CCCCceE
Q 041505           85 -----------SLPSG---------------------------L-CKLKLLNYLTLNCCSNLQRLPD-EL---GNLEALW  121 (248)
Q Consensus        85 -----------~~~~~---------------------------l-~~l~~L~~L~l~~~~~~~~~~~-~~---~~l~~L~  121 (248)
                                 .++..                           + ..+++|+.++++.|+.. .+|. .+   .+|++++
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~-~I~~~aF~~~~~L~~l~  256 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNAT-TIPDFTFAQKKYLLKIK  256 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCC-EECTTTTTTCTTCCEEE
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcc-eecHhhhhCCCCCCEEE
Confidence                       00000                           0 02678999999886544 4443 33   3566777


Q ss_pred             ecccCCcccccccccccCCCCcC-eEEccCCcCcccc-hhhhccCCcceecccCccc
Q 041505          122 ISREAGVISRWLPENIGQLSSLG-KLDLQKNNFERIP-ESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       122 l~~~~n~~~~~~~~~l~~~~~L~-~L~l~~n~l~~lp-~~l~~~~~L~~L~l~~n~~  176 (248)
                      +..  | ....-..+|.++++|+ .+++.+ .++.++ ..|.++++|+.+++..|.+
T Consensus       257 l~~--n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i  309 (329)
T 3sb4_A          257 LPH--N-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKI  309 (329)
T ss_dssp             CCT--T-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCC
T ss_pred             CCc--c-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCcc
Confidence            766  4 3322345688999999 999987 677775 5788899999999877753

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.84  E-value=6.3e-08  Score=81.38  Aligned_cols=150  Identities=14%  Similarity=0.094  Sum_probs=77.1

Q ss_pred             hHhhh-hhhcCCCCccEEEccCCCCCcccC-Ccc-ccCcccEEEcCCCCCccccCh-hhhcccCCCEEeccCCcCcCcCC
Q 041505           12 LFSLY-AFKQNNPHIVVLNLRDCKSLKSLP-AGI-HLEFLKELDLLNGTAIEELPS-AIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus        12 l~~l~-~~l~~l~~L~~L~l~~~~~~~~~~-~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ++.++ .++.. .+|+.+.+.. . +..++ ..+ .+++|+.+++..|. +..++. +|. +.+|+.+.+.. .....-.
T Consensus       146 i~~I~~~aF~~-~~L~~i~lp~-~-l~~I~~~aF~~c~~L~~l~l~~n~-l~~I~~~aF~-~~~L~~l~lp~-~l~~I~~  219 (401)
T 4fdw_A          146 LKSIGDMAFFN-STVQEIVFPS-T-LEQLKEDIFYYCYNLKKADLSKTK-ITKLPASTFV-YAGIEEVLLPV-TLKEIGS  219 (401)
T ss_dssp             CCEECTTTTTT-CCCCEEECCT-T-CCEECSSTTTTCTTCCEEECTTSC-CSEECTTTTT-TCCCSEEECCT-TCCEECT
T ss_pred             ccEECHHhcCC-CCceEEEeCC-C-ccEehHHHhhCcccCCeeecCCCc-ceEechhhEe-ecccCEEEeCC-chheehh
Confidence            44444 23444 3577777775 3 34443 344 67777777774444 334443 333 46677777764 3333334


Q ss_pred             ccccCCCCCcEEeccCccCCccccc-cc--CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCc-----ccc-h
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLPD-EL--GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFE-----RIP-E  158 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~~-~~--~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~-----~lp-~  158 (248)
                      ..+..+++|+.+++.. +.. .++. .+  .+++.+.+..   .....-..+|.++++|+.+.+.++.+.     .++ .
T Consensus       220 ~aF~~~~~L~~l~l~~-~l~-~I~~~aF~~~~L~~i~lp~---~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~  294 (401)
T 4fdw_A          220 QAFLKTSQLKTIEIPE-NVS-TIGQEAFRESGITTVKLPN---GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPY  294 (401)
T ss_dssp             TTTTTCTTCCCEECCT-TCC-EECTTTTTTCCCSEEEEET---TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTT
T ss_pred             hHhhCCCCCCEEecCC-Ccc-CccccccccCCccEEEeCC---CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHH
Confidence            4466666777777655 221 2221 12  2344555522   222212345666666666666655443     333 3


Q ss_pred             hhhccCCcceeccc
Q 041505          159 SVIQLSKLGRLYLR  172 (248)
Q Consensus       159 ~l~~~~~L~~L~l~  172 (248)
                      .|.++++|+.+++.
T Consensus       295 aF~~c~~L~~l~l~  308 (401)
T 4fdw_A          295 CLEGCPKLARFEIP  308 (401)
T ss_dssp             TTTTCTTCCEECCC
T ss_pred             HhhCCccCCeEEeC
Confidence            55566666666665

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.83  E-value=2e-09  Score=89.16  Aligned_cols=131  Identities=14%  Similarity=0.067  Sum_probs=66.4

Q ss_pred             cChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccc-----cccCCCCceEecccCCcccc-----
Q 041505           62 LPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP-----DELGNLEALWISREAGVISR-----  131 (248)
Q Consensus        62 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-----~~~~~l~~L~l~~~~n~~~~-----  131 (248)
                      ++..+..+|+|+.|.+++|.. ..++. + .+++|+.|++..|.+.....     ..+++|++|++....+...+     
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~-l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~  240 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNN-LSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMN  240 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBT-CBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGG
T ss_pred             HHHHHhcCCCCcEEEEeCCCC-ceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHH
Confidence            334455566666666665421 12222 2 25666666666554432211     13556666665431111110     


Q ss_pred             cccccc--cCCCCcCeEEccCCcCcc-cchhhh---ccCCcceecccCcccccc----CCC---CCcccceeccccc
Q 041505          132 WLPENI--GQLSSLGKLDLQKNNFER-IPESVI---QLSKLGRLYLRYWERLQS----LPK---LPCKLHELDAHHC  195 (248)
Q Consensus       132 ~~~~~l--~~~~~L~~L~l~~n~l~~-lp~~l~---~~~~L~~L~l~~n~~~~~----l~~---~~~~L~~L~l~~~  195 (248)
                      .+...+  ..+++|+.|++.+|.++. .+..+.   .+++|++|+++.|.+...    ++.   .+++|+.|++++|
T Consensus       241 ~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          241 VFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             GTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             HHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            111112  346778888887777642 222222   467788888877754331    222   2367777777766

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.69  E-value=2.5e-07  Score=77.74  Aligned_cols=59  Identities=19%  Similarity=0.160  Sum_probs=27.3

Q ss_pred             hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccC
Q 041505           18 FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEY   79 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~   79 (248)
                      ++..+.+|+.+++++|. +..++... .+..|+.+.+. ++ +..+ ..+|.++++|+.+++..
T Consensus       175 aF~~c~~L~~l~l~~n~-l~~I~~~aF~~~~L~~l~lp-~~-l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          175 IFYYCYNLKKADLSKTK-ITKLPASTFVYAGIEEVLLP-VT-LKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             TTTTCTTCCEEECTTSC-CSEECTTTTTTCCCSEEECC-TT-CCEECTTTTTTCTTCCCEECCT
T ss_pred             HhhCcccCCeeecCCCc-ceEechhhEeecccCEEEeC-Cc-hheehhhHhhCCCCCCEEecCC
Confidence            34445555555555544 33344333 44555555553 22 2222 23455555555555544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.64  E-value=7.7e-08  Score=79.64  Aligned_cols=167  Identities=19%  Similarity=0.122  Sum_probs=103.4

Q ss_pred             hhhcccCCCEEeccCCcCc---------CcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccc
Q 041505           65 AIECLYKLLHLDLEYCESL---------NSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPE  135 (248)
Q Consensus        65 ~~~~l~~L~~L~l~~~~~~---------~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~  135 (248)
                      +...+++|+.|.+......         +.+...+..+++|+.|++++|.....-+-..++|++|++..+  ........
T Consensus       134 s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~~~~~~L~~L~L~~~--~l~~~~l~  211 (362)
T 2ra8_A          134 NKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGKKPRPNLKSLEIISG--GLPDSVVE  211 (362)
T ss_dssp             THHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCSCBCTTCSEEEEECS--BCCHHHHH
T ss_pred             hhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceeccccCCCCcEEEEecC--CCChHHHH
Confidence            3556788888877543211         123344566799999999886322221224678899999873  33332333


Q ss_pred             ccc--CCCCcCeEEccC--Cc------Ccccchhh--hccCCcceecccCccccccC----C--CCCcccceeccccccc
Q 041505          136 NIG--QLSSLGKLDLQK--NN------FERIPESV--IQLSKLGRLYLRYWERLQSL----P--KLPCKLHELDAHHCTA  197 (248)
Q Consensus       136 ~l~--~~~~L~~L~l~~--n~------l~~lp~~l--~~~~~L~~L~l~~n~~~~~l----~--~~~~~L~~L~l~~~~~  197 (248)
                      .+.  .+++|+.|+++.  +.      +..+...+  ..+++|++|++..|.+....    .  ...++|++|+++.+ .
T Consensus       212 ~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n-~  290 (362)
T 2ra8_A          212 DILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAG-V  290 (362)
T ss_dssp             HHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSS-C
T ss_pred             HHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCC-C
Confidence            343  789999999853  11      22222222  35799999999988653211    1  23578999999765 4


Q ss_pred             cccchh--hcccccccccccccccccCcchhchHHHHHH
Q 041505          198 LESLSG--LFSSFEARTRYFDLRYNYNWIEMRSEEFLKM  234 (248)
Q Consensus       198 l~~~~~--~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~  234 (248)
                      +.....  ....+..+++|+.|+++.|.|+..+.+.+..
T Consensus       291 L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~  329 (362)
T 2ra8_A          291 LTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQK  329 (362)
T ss_dssp             CBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHH
T ss_pred             CChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHH
Confidence            443221  1223346789999999999988776665554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.50  E-value=4.7e-08  Score=73.23  Aligned_cols=64  Identities=14%  Similarity=0.254  Sum_probs=27.9

Q ss_pred             hhcCCCCccEEEccCC-CCCcc----cCCcc-ccCcccEEEcCCCCCccc----cChhhhcccCCCEEeccCCc
Q 041505           18 FKQNNPHIVVLNLRDC-KSLKS----LPAGI-HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~-~~~~~----~~~~~-~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~   81 (248)
                      .+...+.|++|++++| .+...    +...+ ..+.|++|++++|.+...    +...+...++|++|++++|.
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~  104 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF  104 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCc
Confidence            3444555666666665 42221    12222 344555555554443321    22223333445555554443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.44  E-value=1e-07  Score=71.34  Aligned_cols=114  Identities=16%  Similarity=0.037  Sum_probs=67.0

Q ss_pred             ccCcccEEEcCCC-CCccc----cChhhhcccCCCEEeccCCcCcCc----CCccccCCCCCcEEeccCccCCccccccc
Q 041505           44 HLEFLKELDLLNG-TAIEE----LPSAIECLYKLLHLDLEYCESLNS----LPSGLCKLKLLNYLTLNCCSNLQRLPDEL  114 (248)
Q Consensus        44 ~l~~L~~L~l~~~-~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  114 (248)
                      ..+.|++|++++| .+...    +...+...++|++|++++|.+...    +...+...+.|++|++++|.+...     
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~-----  108 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGS-----  108 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH-----
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHH-----
Confidence            4667777777666 44322    334455566777777777655432    223344446677777766543211     


Q ss_pred             CCCCceEecccCCcccccccccccCCCCcCeEEc--cCCcCcc-----cchhhhccCCcceecccCccc
Q 041505          115 GNLEALWISREAGVISRWLPENIGQLSSLGKLDL--QKNNFER-----IPESVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       115 ~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l--~~n~l~~-----lp~~l~~~~~L~~L~l~~n~~  176 (248)
                                    -...+...+...++|+.|++  ++|.++.     +...+...++|++|++++|.+
T Consensus       109 --------------g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          109 --------------GILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             --------------HHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             --------------HHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence                          11124455666777888888  7787742     344556667788888777753

>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=98.27  E-value=3.8e-07  Score=67.27  Aligned_cols=84  Identities=15%  Similarity=0.217  Sum_probs=51.1

Q ss_pred             CccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhhc----ccCCCEEeccCCcCcCc-CCccccCCCCC
Q 041505           24 HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIEC----LYKLLHLDLEYCESLNS-LPSGLCKLKLL   96 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~~----l~~L~~L~l~~~~~~~~-~~~~l~~l~~L   96 (248)
                      .|+.||+++|.+...--..+ ++++|++|++++|..++.-. ..+..    +++|++|++++|...++ --..+..+++|
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L  141 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNL  141 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTC
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCC
Confidence            57778888877444333334 67778888887776554321 22333    24677888877754332 23345667777


Q ss_pred             cEEeccCccCC
Q 041505           97 NYLTLNCCSNL  107 (248)
Q Consensus        97 ~~L~l~~~~~~  107 (248)
                      ++|++++|...
T Consensus       142 ~~L~L~~c~~I  152 (176)
T 3e4g_A          142 KYLFLSDLPGV  152 (176)
T ss_dssp             CEEEEESCTTC
T ss_pred             CEEECCCCCCC
Confidence            77777776544

>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=98.19  E-value=2.6e-06  Score=67.25  Aligned_cols=64  Identities=25%  Similarity=0.180  Sum_probs=30.7

Q ss_pred             cCcccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCcCcCCccccCCC--CCcEEeccCccCCccc
Q 041505           45 LEFLKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLK--LLNYLTLNCCSNLQRL  110 (248)
Q Consensus        45 l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~--~L~~L~l~~~~~~~~~  110 (248)
                      ++.|+.|++++|.+..  .+|..+..+++|+.|++++|.+.+.  ..+..+.  +|++|++.+|.+.+.+
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~~~~  236 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTF  236 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGC
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCcccc
Confidence            4555555555554433  3344445555555555555544332  1122222  5555555555554433

>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=98.05  E-value=2.4e-06  Score=62.94  Aligned_cols=15  Identities=20%  Similarity=0.164  Sum_probs=8.5

Q ss_pred             ccCCCCcCeEEccCC
Q 041505          137 IGQLSSLGKLDLQKN  151 (248)
Q Consensus       137 l~~~~~L~~L~l~~n  151 (248)
                      +.++++|+.|++++|
T Consensus       135 L~~~~~L~~L~L~~c  149 (176)
T 3e4g_A          135 LHHFRNLKYLFLSDL  149 (176)
T ss_dssp             GGGCTTCCEEEEESC
T ss_pred             HhcCCCCCEEECCCC
Confidence            445555666666555

>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=97.94  E-value=1.8e-05  Score=62.39  Aligned_cols=79  Identities=23%  Similarity=0.259  Sum_probs=56.6

Q ss_pred             hcccCCCEEeccCCcCcC--cCCccccCCCCCcEEeccCccCCcc-cccccC--CCCceEecccCCccccccc-------
Q 041505           67 ECLYKLLHLDLEYCESLN--SLPSGLCKLKLLNYLTLNCCSNLQR-LPDELG--NLEALWISREAGVISRWLP-------  134 (248)
Q Consensus        67 ~~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~-~~~~~~--~l~~L~l~~~~n~~~~~~~-------  134 (248)
                      .++++|+.|++++|.+.+  .+|..+..+++|+.|++++|.+.+. ..+.+.  +|++|++.+  |.+.+.+|       
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 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDG--NSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTT--STTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccC--CcCccccCcchhHHH
Confidence            568899999999987766  4556677889999999999877653 123344  777888888  55654443       


Q ss_pred             ccccCCCCcCeEE
Q 041505          135 ENIGQLSSLGKLD  147 (248)
Q Consensus       135 ~~l~~~~~L~~L~  147 (248)
                      ..+..+++|+.||
T Consensus       245 ~il~~~P~L~~LD  257 (267)
T 3rw6_A          245 AIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHCTTCCEES
T ss_pred             HHHHHCcccCeEC
Confidence            2367788888876

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.77  E-value=0.00056  Score=56.99  Aligned_cols=186  Identities=13%  Similarity=0.057  Sum_probs=89.7

Q ss_pred             hhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCC
Q 041505           18 FKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKL   95 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~   95 (248)
                      ++..+.+|+.+++..+  +..++. .+ .+..|+.+.+..+..  .+........+|+.+.+.. .....-...+..+.+
T Consensus       180 ~F~~c~~L~~i~l~~~--~~~I~~~~F~~~~~L~~i~~~~~~~--~i~~~~~~~~~l~~i~ip~-~~~~i~~~~f~~~~~  254 (394)
T 4fs7_A          180 LFSGCGKLKSIKLPRN--LKIIRDYCFAECILLENMEFPNSLY--YLGDFALSKTGVKNIIIPD-SFTELGKSVFYGCTD  254 (394)
T ss_dssp             TTTTCTTCCBCCCCTT--CCEECTTTTTTCTTCCBCCCCTTCC--EECTTTTTTCCCCEEEECT-TCCEECSSTTTTCSS
T ss_pred             cccCCCCceEEEcCCC--ceEeCchhhccccccceeecCCCce--EeehhhcccCCCceEEECC-Cceeccccccccccc
Confidence            4666788999998875  444443 34 778888887744321  2233334456677777654 232222334556667


Q ss_pred             CcEEeccCccCCcccccccCCCC---ceEecccCCcccccccccccCCCCcCeEEccCCcCcccc-hhhhccCCcceecc
Q 041505           96 LNYLTLNCCSNLQRLPDELGNLE---ALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-ESVIQLSKLGRLYL  171 (248)
Q Consensus        96 L~~L~l~~~~~~~~~~~~~~~l~---~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l~~~~~L~~L~l  171 (248)
                      ++.+.+..+ ........+....   ......   ...  ....+..+.+|+.+.+..+ ++.++ ..|.++.+|+.+++
T Consensus       255 l~~~~~~~~-~~~i~~~~F~~~~~l~~~~~~~---~~i--~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~l  327 (394)
T 4fs7_A          255 LESISIQNN-KLRIGGSLFYNCSGLKKVIYGS---VIV--PEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDL  327 (394)
T ss_dssp             CCEEEECCT-TCEECSCTTTTCTTCCEEEECS---SEE--CTTTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECC
T ss_pred             ceeEEcCCC-cceeeccccccccccceeccCc---eee--ccccccccccccccccccc-cceechhhhcCCCCCCEEEe
Confidence            777776552 2211112222222   222211   111  1123555666666666443 44443 24555666666665


Q ss_pred             cCccccccCCC----CCcccceeccccccccccchhhccccccccccccccccc
Q 041505          172 RYWERLQSLPK----LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNY  221 (248)
Q Consensus       172 ~~n~~~~~l~~----~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~  221 (248)
                      ..+  ++.++.    ...+|+.+.+...  ++.+  +...|.++.+|+.+++..
T Consensus       328 p~~--v~~I~~~aF~~c~~L~~i~lp~~--l~~I--~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          328 PYL--VEEIGKRSFRGCTSLSNINFPLS--LRKI--GANAFQGCINLKKVELPK  375 (394)
T ss_dssp             CTT--CCEECTTTTTTCTTCCEECCCTT--CCEE--CTTTBTTCTTCCEEEEEG
T ss_pred             CCc--ccEEhHHhccCCCCCCEEEECcc--ccEe--hHHHhhCCCCCCEEEECC
Confidence            432  222222    1244555555431  2222  223344555666666543

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.34  E-value=0.0014  Score=54.63  Aligned_cols=76  Identities=7%  Similarity=0.045  Sum_probs=45.2

Q ss_pred             CccEEEccCCCCCccc-CCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEec
Q 041505           24 HIVVLNLRDCKSLKSL-PAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTL  101 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l  101 (248)
                      .+..+.+...  +..+ ..++ .+..|+.+.+..+ ....-..++.+++.|+.+.+.. .....-...|..+.+|+.+.+
T Consensus       243 ~~~~~~ip~~--v~~i~~~aF~~c~~L~~i~lp~~-~~~I~~~aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~l  318 (394)
T 4gt6_A          243 EDPAFKIPNG--VARIETHAFDSCAYLASVKMPDS-VVSIGTGAFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDI  318 (394)
T ss_dssp             CCSEEECCTT--EEEECTTTTTTCSSCCEEECCTT-CCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEEC
T ss_pred             ccceEEcCCc--ceEcccceeeecccccEEecccc-cceecCcccccccccccccCCC-cccccCceeecCCCCcCEEEe
Confidence            4445555442  2333 3345 7788888888433 2222235577888888888864 333333344667788888877


Q ss_pred             cC
Q 041505          102 NC  103 (248)
Q Consensus       102 ~~  103 (248)
                      ..
T Consensus       319 p~  320 (394)
T 4gt6_A          319 PE  320 (394)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.16  E-value=0.0044  Score=51.51  Aligned_cols=148  Identities=9%  Similarity=0.101  Sum_probs=76.2

Q ss_pred             hhcCCCCccEEEccCCCCCcccCCcc---------------ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcC
Q 041505           18 FKQNNPHIVVLNLRDCKSLKSLPAGI---------------HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCES   82 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~~~~~~~~~~~---------------~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   82 (248)
                      ++..+..+......... .......+               ....+..+.+ .+.....-..+|.++..|+.+.+.. ..
T Consensus       200 af~~c~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-p~~v~~i~~~aF~~c~~L~~i~lp~-~~  276 (394)
T 4gt6_A          200 AFSECFALSTITSDSES-YPAIDNVLYEKSANGDYALIRYPSQREDPAFKI-PNGVARIETHAFDSCAYLASVKMPD-SV  276 (394)
T ss_dssp             TTTTCTTCCEEEECCSS-SCBSSSCEEEECTTSCEEEEECCTTCCCSEEEC-CTTEEEECTTTTTTCSSCCEEECCT-TC
T ss_pred             hhhhccccceecccccc-cccccceeecccccccccccccccccccceEEc-CCcceEcccceeeecccccEEeccc-cc
Confidence            45667778777766543 22222211               1223334444 2221112235688999999999976 34


Q ss_pred             cCcCCccccCCCCCcEEeccCccCCccccc-cc---CCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc-
Q 041505           83 LNSLPSGLCKLKLLNYLTLNCCSNLQRLPD-EL---GNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-  157 (248)
Q Consensus        83 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~---~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-  157 (248)
                      ...-...+..+++|+.+.+.. .. ..+++ .+   .+|+.+.+..  + ....-..+|.+|.+|+.+.+..+ ++.+. 
T Consensus       277 ~~I~~~aF~~c~~L~~i~l~~-~i-~~I~~~aF~~c~~L~~i~lp~--~-v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~  350 (394)
T 4gt6_A          277 VSIGTGAFMNCPALQDIEFSS-RI-TELPESVFAGCISLKSIDIPE--G-ITQILDDAFAGCEQLERIAIPSS-VTKIPE  350 (394)
T ss_dssp             CEECTTTTTTCTTCCEEECCT-TC-CEECTTTTTTCTTCCEEECCT--T-CCEECTTTTTTCTTCCEEEECTT-CCBCCG
T ss_pred             ceecCcccccccccccccCCC-cc-cccCceeecCCCCcCEEEeCC--c-ccEehHhHhhCCCCCCEEEECcc-cCEEhH
Confidence            433445577788999998864 22 22222 22   2344444433  1 11111234566666666666432 44443 


Q ss_pred             hhhhccCCcceecccCc
Q 041505          158 ESVIQLSKLGRLYLRYW  174 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n  174 (248)
                      ..|.++.+|+.+++.++
T Consensus       351 ~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          351 SAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             GGGTTCTTCCEEEESSC
T ss_pred             hHhhCCCCCCEEEECCc
Confidence            24555666666655544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.13  E-value=0.011  Score=49.18  Aligned_cols=62  Identities=15%  Similarity=0.095  Sum_probs=32.0

Q ss_pred             hhccCCcceecccCccccccCCC----CCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          160 VIQLSKLGRLYLRYWERLQSLPK----LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       160 l~~~~~L~~L~l~~n~~~~~l~~----~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +..+.+|+.+.+..+  ++.+++    ...+|+.+++.+  .++.+  +...|.++.+|+.+++..+ +...+
T Consensus       293 F~~~~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~--~v~~I--~~~aF~~c~~L~~i~lp~~-l~~I~  358 (394)
T 4fs7_A          293 FYGCSSLTEVKLLDS--VKFIGEEAFESCTSLVSIDLPY--LVEEI--GKRSFRGCTSLSNINFPLS-LRKIG  358 (394)
T ss_dssp             TTTCTTCCEEEECTT--CCEECTTTTTTCTTCCEECCCT--TCCEE--CTTTTTTCTTCCEECCCTT-CCEEC
T ss_pred             ccccccccccccccc--cceechhhhcCCCCCCEEEeCC--cccEE--hHHhccCCCCCCEEEECcc-ccEeh
Confidence            445566666655433  222222    235666666643  22322  2234556778888888765 44443

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.96  E-value=0.0087  Score=49.33  Aligned_cols=145  Identities=12%  Similarity=0.046  Sum_probs=79.8

Q ss_pred             cCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcE
Q 041505           20 QNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNY   98 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~   98 (248)
                      .....+..+.+.... .......+ .+..|+.+.+. ......-..++.++..|+.+.+..+ ....-...+..+.+|+.
T Consensus       191 ~~~~~~~~~~~~~~~-~~i~~~~f~~~~~l~~i~~~-~~~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~  267 (379)
T 4h09_A          191 PAAKTGTEFTIPSTV-KTVTAYGFSYGKNLKKITIT-SGVTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKT  267 (379)
T ss_dssp             CTTCCCSEEECCTTC-CEECTTTTTTCSSCSEEECC-TTCCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCE
T ss_pred             cccccccccccccce-eEEeecccccccccceeeec-cceeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcc
Confidence            334555666665532 33333344 67788888873 3332222355778888888888763 33333445666778888


Q ss_pred             EeccCccCCcccc----cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceeccc
Q 041505           99 LTLNCCSNLQRLP----DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLR  172 (248)
Q Consensus        99 L~l~~~~~~~~~~----~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~  172 (248)
                      +.+.. +.. .++    ....+|+.+.+..  +.....-..+|.++.+|+.+.+..+ ++.+.. .|.++.+|+.+.+.
T Consensus       268 i~l~~-~i~-~i~~~aF~~c~~L~~i~l~~--~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          268 LNFYA-KVK-TVPYLLCSGCSNLTKVVMDN--SAIETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             EEECC-CCS-EECTTTTTTCTTCCEEEECC--TTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCC
T ss_pred             ccccc-cce-eccccccccccccccccccc--cccceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEEC
Confidence            87754 221 222    1223444555543  2222212345677777777777543 555543 56667777766653

>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=96.84  E-value=0.00096  Score=49.95  Aligned_cols=13  Identities=15%  Similarity=0.158  Sum_probs=5.6

Q ss_pred             hccCCcceecccC
Q 041505          161 IQLSKLGRLYLRY  173 (248)
Q Consensus       161 ~~~~~L~~L~l~~  173 (248)
                      ...+.|+.|+++.
T Consensus       154 ~~N~tL~~L~l~~  166 (197)
T 1pgv_A          154 EENESLLRVGISF  166 (197)
T ss_dssp             HHCSSCCEEECCC
T ss_pred             HhCCCcCeEeccC
Confidence            3344444444433

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.71  E-value=0.024  Score=46.66  Aligned_cols=168  Identities=10%  Similarity=0.001  Sum_probs=101.5

Q ss_pred             hhhcCCCCccEEEccCCCCCcc------------cCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCc
Q 041505           17 AFKQNNPHIVVLNLRDCKSLKS------------LPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus        17 ~~l~~l~~L~~L~l~~~~~~~~------------~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   83 (248)
                      .++.....++...+..+.....            ....+ ....+..+.+. ..........+..+.+|+.+.+.. ...
T Consensus       152 ~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~~~~f~~~~~l~~i~~~~-~~~  229 (379)
T 4h09_A          152 GIGYKAENLEKIEVSSNNKNYVAENYVLYNKNKTILESYPAAKTGTEFTIP-STVKTVTAYGFSYGKNLKKITITS-GVT  229 (379)
T ss_dssp             CTTTTCTTCCEEEECTTCSSEEEETTEEEETTSSEEEECCTTCCCSEEECC-TTCCEECTTTTTTCSSCSEEECCT-TCC
T ss_pred             chhcccccccccccccccceeecccceecccccceeccccccccccccccc-cceeEEeecccccccccceeeecc-cee
Confidence            3466678888887766432211            11112 34455555552 222223345577888999998875 344


Q ss_pred             CcCCccccCCCCCcEEeccCccCCcccc-cc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc-h
Q 041505           84 NSLPSGLCKLKLLNYLTLNCCSNLQRLP-DE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-E  158 (248)
Q Consensus        84 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-~  158 (248)
                      ......+..+.+|+.+.+..+ .. .+. ..   ..+++.+.+..  + ....-..++..+++|+.+.+.++.++.++ .
T Consensus       230 ~i~~~~f~~~~~L~~i~lp~~-v~-~I~~~aF~~~~~l~~i~l~~--~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~  304 (379)
T 4h09_A          230 TLGDGAFYGMKALDEIAIPKN-VT-SIGSFLLQNCTALKTLNFYA--K-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPR  304 (379)
T ss_dssp             EECTTTTTTCSSCCEEEECTT-CC-EECTTTTTTCTTCCEEEECC--C-CSEECTTTTTTCTTCCEEEECCTTCCEECTT
T ss_pred             EEccccccCCccceEEEcCCC-cc-EeCccccceeehhccccccc--c-ceeccccccccccccccccccccccceehhh
Confidence            444455777899999998763 22 222 22   33455666644  2 22222346889999999999988888776 4


Q ss_pred             hhhccCCcceecccCccccccCCC----CCcccceeccc
Q 041505          159 SVIQLSKLGRLYLRYWERLQSLPK----LPCKLHELDAH  193 (248)
Q Consensus       159 ~l~~~~~L~~L~l~~n~~~~~l~~----~~~~L~~L~l~  193 (248)
                      .|.++.+|+.+.+..+  ++.++.    ...+|+.+.+.
T Consensus       305 aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          305 VFMDCVKLSSVTLPTA--LKTIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             TTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCCCCCC
T ss_pred             hhcCCCCCCEEEcCcc--ccEEHHHHhhCCCCCCEEEEC
Confidence            7888999999988644  233332    22456666554

>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=96.56  E-value=0.0014  Score=48.97  Aligned_cols=118  Identities=12%  Similarity=0.093  Sum_probs=66.2

Q ss_pred             hcCCCCccEEEccCC-CCCcc-----cCCcc-ccCcccEEEcCCCCCccc----cChhhhcccCCCEEeccCCcCcCc--
Q 041505           19 KQNNPHIVVLNLRDC-KSLKS-----LPAGI-HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYCESLNS--   85 (248)
Q Consensus        19 l~~l~~L~~L~l~~~-~~~~~-----~~~~~-~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~--   85 (248)
                      +..-+.|+.|+++++ . ++.     +.+.+ .-..|+.|++++|.+...    +...+..-+.|++|++++|.+...  
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  115 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKR-VSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELL  115 (197)
T ss_dssp             HTTCSSCCEEECTTCCS-SCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHH
T ss_pred             HhcCCCccEEECCCCCC-CCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHH
Confidence            344567888888875 4 432     22333 456788888866665432    344455566788888877765442  


Q ss_pred             --CCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcC
Q 041505           86 --LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNF  153 (248)
Q Consensus        86 --~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l  153 (248)
                        +.+.+..-+.|+.|++++|.....                .+.....+...+..-+.|+.|+++.|.+
T Consensus       116 ~ala~aL~~N~tL~~L~L~n~~~~~i----------------g~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          116 ARLLRSTLVTQSIVEFKADNQRQSVL----------------GNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHHHTTTTCCCSEEECCCCSSCCC----------------CHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHHHhhCCceeEEECCCCcCcCc----------------CHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence              223344445577777764311000                0111112445566667888888887765

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.76  E-value=0.023  Score=39.37  Aligned_cols=55  Identities=22%  Similarity=0.181  Sum_probs=33.5

Q ss_pred             cEEEccCCCCCc--ccCCccccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCc
Q 041505           26 VVLNLRDCKSLK--SLPAGIHLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESL   83 (248)
Q Consensus        26 ~~L~l~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~   83 (248)
                      ..++-+++. +.  .+|..+. ++|++|+|++|.+ ..+| ..|..+++|++|++.+|.+.
T Consensus        11 ~~v~Cs~~~-L~~~~vP~~lp-~~l~~L~Ls~N~l-~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           11 TLVDCGRRG-LTWASLPTAFP-VDTTELVLTGNNL-TALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TEEECCSSC-CCTTTSCSCCC-TTCSEEECTTSCC-SSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             CEEEeCCCC-CccccCCCCCC-cCCCEEECCCCcC-CccChhhhhhccccCEEEecCCCee
Confidence            356666655 43  5665431 2477788855554 4444 45677888888888776543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.61  E-value=0.098  Score=36.13  Aligned_cols=36  Identities=19%  Similarity=-0.022  Sum_probs=20.7

Q ss_pred             CCCEEeccCCcCcCcCCccccCCCCCcEEeccCccC
Q 041505           71 KLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        71 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      +|++|++++|.+...-+..+..+++|++|++.+|..
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            466666666554433334455566666666666543

---

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	248
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-06
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.002
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.001
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.002
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.003

>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 = 46.2 bits (108), Expect = 1e-06
 Identities = 34/214 (15%), Positives = 65/214 (30%), Gaps = 5/214 (2%)

Query: 23  PHIVVLNLRDCKSLKSLPAGI--HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC 80
           P   +L+L++ K +  +  G   +L+ L  L L+N    +  P A   L KL  L L   
Sbjct: 31  PDTALLDLQNNK-ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN 89

Query: 81  ESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQL 140
           +           L+ L           + + + L  +  + +       S         +
Sbjct: 90  QLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM 149

Query: 141 SSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALES 200
             L  + +   N   IP+ +     L  L+L   +  +        L+ L     +    
Sbjct: 150 KKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSI 207

Query: 201 LSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKM 234
            +    S        +L  N N +          
Sbjct: 208 SAVDNGSLANTPHLRELHLNNNKLVKVPGGLADH 241

>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 = 36.6 bits (83), Expect = 0.002
 Identities = 26/156 (16%), Positives = 44/156 (28%), Gaps = 4/156 (2%)

Query: 20  QNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDL--LNGTAIEELPSAIECLYKLLHLDL 77
                ++V+ L       S       + +K+L    +  T I  +P  +     L  L L
Sbjct: 121 NGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHL 178

Query: 78  EYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENI 137
           +  +      + L  L  L  L L+  S        L N   L            +P  +
Sbjct: 179 DGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGL 238

Query: 138 GQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRY 173
                +  + L  NN   I  +             Y
Sbjct: 239 ADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASY 274

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

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]

 Score = 37.1 bits (84), Expect = 0.001
 Identities = 18/81 (22%), Positives = 30/81 (37%), Gaps = 5/81 (6%)

Query: 129 ISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLH 188
            S  +        SL +L++  N    +P       +L RL   +   L  +P+LP  L 
Sbjct: 272 SSNEIRSLCDLPPSLEELNVSNNKLIELPAL---PPRLERLIASF-NHLAEVPELPQNLK 327

Query: 189 ELDAHHCTALESLSGLFSSFE 209
           +L   +   L     +  S E
Sbjct: 328 QLHVEYN-PLREFPDIPESVE 347

>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 = 36.3 bits (82), Expect = 0.002
 Identities = 13/57 (22%), Positives = 19/57 (33%)

Query: 129 ISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPC 185
           I   LP+ + QL  L  L++  NN          L +         + L   P   C
Sbjct: 256 IYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLPAC 312

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

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]

 Score = 35.2 bits (80), Expect = 0.003
 Identities = 20/107 (18%), Positives = 39/107 (36%), Gaps = 4/107 (3%)

Query: 54  LNGTAIEELPSAIECLY--KLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLP 111
           L    +E+L   +   Y      LDL+   S   L        +LN    +  + L+ + 
Sbjct: 4   LKPEQVEQLKLIMSKRYDGSQQALDLKGLRSDPDL-VAQNIDVVLN-RRSSMAATLRIIE 61

Query: 112 DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE 158
           + +  L +L +S         +   + +  +L  L+L  N  +   E
Sbjct: 62  ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE 108

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	248
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.87
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.87
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.8
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.79
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.77
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.77
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.74
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.7
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.65
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.64
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.64
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.62
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.62
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.62
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.6
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.59
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.58
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.57
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.57
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.55
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.51
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.51
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.46
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.45
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.44
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.34
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.34
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.28
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.23
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.2
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.09
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.08
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.04
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.04
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.99
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.51
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.11
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.07
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.88
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.33
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.28
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.12

>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=99.87  E-value=1.7e-22  Score=163.15  Aligned_cols=180  Identities=22%  Similarity=0.237  Sum_probs=124.9

Q ss_pred             hhhhhhcCCCCccEEEccC-CCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCcccc
Q 041505           14 SLYAFKQNNPHIVVLNLRD-CKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLC   91 (248)
Q Consensus        14 ~l~~~l~~l~~L~~L~l~~-~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~   91 (248)
                      .+|++++.+++|++|++++ |.+.+.+|..+ .+++|++|++++|.+....+..+..+++|+++++++|.....+|.+++
T Consensus        67 ~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~  146 (313)
T d1ogqa_          67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS  146 (313)
T ss_dssp             ECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGG
T ss_pred             CCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhc
Confidence            5788899999999999986 67778899888 899999999988888777777788899999999999888888899999


Q ss_pred             CCCCCcEEeccCccCCcccccccCCCC----ceEecccCCccccc-----------------------ccccccCCCCcC
Q 041505           92 KLKLLNYLTLNCCSNLQRLPDELGNLE----ALWISREAGVISRW-----------------------LPENIGQLSSLG  144 (248)
Q Consensus        92 ~l~~L~~L~l~~~~~~~~~~~~~~~l~----~L~l~~~~n~~~~~-----------------------~~~~l~~~~~L~  144 (248)
                      .+++++++++++|.+.+.+|..+..+.    .+.+..  |...+.                       +|..++.+++++
T Consensus       147 ~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~--n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~  224 (313)
T d1ogqa_         147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR--NRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQ  224 (313)
T ss_dssp             GCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCS--SEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCS
T ss_pred             cCcccceeecccccccccccccccccccccccccccc--ccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999888888887655443    334443  333333                       344444445555


Q ss_pred             eEEccCCcCcccchhhhccCCcceecccCccccccCCCC---Ccccceeccccc
Q 041505          145 KLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHC  195 (248)
Q Consensus       145 ~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~  195 (248)
                      .+++++|.+...+..+..+++++.|++++|.+.+.+|..   +++|++|+++++
T Consensus       225 ~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N  278 (313)
T d1ogqa_         225 KIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFN  278 (313)
T ss_dssp             EEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSS
T ss_pred             ccccccccccccccccccccccccccCccCeecccCChHHhCCCCCCEEECcCC
Confidence            555555554433334444555555555555444444442   244555555544

>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=99.87  E-value=1.8e-22  Score=162.99  Aligned_cols=219  Identities=18%  Similarity=0.204  Sum_probs=162.2

Q ss_pred             CCCccEEEccCCCCCc--ccCCcc-ccCcccEEEcCC-CCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           22 NPHIVVLNLRDCKSLK--SLPAGI-HLEFLKELDLLN-GTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        22 l~~L~~L~l~~~~~~~--~~~~~~-~l~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      -.+++.|+++++.+.+  .+|..+ .+++|++|++++ |++.+.+|..++++++|++|++++|.+.+..+..+..+++|+
T Consensus        49 ~~~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_          49 TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             cEEEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhc
Confidence            3479999999998766  578888 999999999987 566678999999999999999999988888888899999999


Q ss_pred             EEeccCccCCcccccccCCC---CceEecccCCcccccccccccCCCCc-CeEEccCCcCc-ccc---------------
Q 041505           98 YLTLNCCSNLQRLPDELGNL---EALWISREAGVISRWLPENIGQLSSL-GKLDLQKNNFE-RIP---------------  157 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~~~~~l---~~L~l~~~~n~~~~~~~~~l~~~~~L-~~L~l~~n~l~-~lp---------------  157 (248)
                      +++++.|...+.+|..+.++   +.+++..  |...+.+|..+..+.++ +.+++++|+++ ..|               
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~--n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~  206 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDG--NRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSR  206 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCS--SCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCS
T ss_pred             ccccccccccccCchhhccCcccceeeccc--cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999888888866655   4777777  67777788888888776 77888888763 222               


Q ss_pred             --------hhhhccCCcceecccCccccccCCCC--CcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          158 --------ESVIQLSKLGRLYLRYWERLQSLPKL--PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       158 --------~~l~~~~~L~~L~l~~n~~~~~l~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                              ..+..+++++.+++..|.+....+..  .++|+.|+++++.-...+|..   +.++++|+.|++++|+|...
T Consensus       207 ~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~---l~~L~~L~~L~Ls~N~l~g~  283 (313)
T d1ogqa_         207 NMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQG---LTQLKFLHSLNVSFNNLCGE  283 (313)
T ss_dssp             SEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGG---GGGCTTCCEEECCSSEEEEE
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccCccCeecccCChH---HhCCCCCCEEECcCCccccc
Confidence                    23334566667777777655444432  477888888887443355543   44667999999999998743


Q ss_pred             hHHHHHHHHhhhhheecccC
Q 041505          228 SEEFLKMLCKKLNFWQLHYG  247 (248)
Q Consensus       228 ~~~~~~~l~~~l~~~~~~~~  247 (248)
                      -+++ . -++.++...+..+
T Consensus       284 iP~~-~-~L~~L~~l~l~~N  301 (313)
T d1ogqa_         284 IPQG-G-NLQRFDVSAYANN  301 (313)
T ss_dssp             CCCS-T-TGGGSCGGGTCSS
T ss_pred             CCCc-c-cCCCCCHHHhCCC
Confidence            2221 1 1455555555443

>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=99.80  E-value=1.4e-18  Score=137.94  Aligned_cols=211  Identities=20%  Similarity=0.163  Sum_probs=160.3

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ..+++.+|..+.  +.+++|++++|. +..+|. ++ .++.|++|+++++.+....+..+.+++.++.+.+..+.....+
T Consensus        20 ~~~L~~iP~~ip--~~~~~L~Ls~N~-i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l   96 (284)
T d1ozna_          20 QQGLQAVPVGIP--AASQRIFLHGNR-ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV   96 (284)
T ss_dssp             SSCCSSCCTTCC--TTCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCC
T ss_pred             CCCCCccCCCCC--CCCCEEECcCCc-CCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccc
Confidence            345778886553  678999999998 556664 56 8999999999777766555666788999999987655555544


Q ss_pred             -CccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc-hhhh
Q 041505           87 -PSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-ESVI  161 (248)
Q Consensus        87 -~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l~  161 (248)
                       +..+..+++|++|++++|......+..   ..++..+++..  |.+....+..+..+++|+.|++++|.++.++ ..+.
T Consensus        97 ~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~--N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~  174 (284)
T d1ozna_          97 DPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD--NALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFR  174 (284)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS--SCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTT
T ss_pred             cchhhcccccCCEEecCCcccccccccccchhcccchhhhcc--ccccccChhHhccccchhhcccccCcccccchhhhc
Confidence             666888999999999998765444433   44566888888  6676545667889999999999999998775 5778


Q ss_pred             ccCCcceecccCccccccCCCC---CcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          162 QLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       162 ~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ++++|+.+++++|.+....|..   +++|++|+++++......+.   .+..+++|+.+++++|.+.-+
T Consensus       175 ~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~---~~~~~~~L~~L~l~~N~l~C~  240 (284)
T d1ozna_         175 GLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTE---ALAPLRALQYLRLNDNPWVCD  240 (284)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHH---HHTTCTTCCEEECCSSCEECS
T ss_pred             cccccchhhhhhccccccChhHhhhhhhccccccccccccccccc---ccccccccCEEEecCCCCCCC
Confidence            9999999999999876555544   37899999998744333222   344667999999999988754

>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=99.79  E-value=2.4e-18  Score=137.92  Aligned_cols=209  Identities=19%  Similarity=0.190  Sum_probs=141.2

Q ss_pred             cchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505           10 LELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus        10 ~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ..++++|+.+  .+++++|++++|. +..+|+ ++ .+++|++|++++|......|..+.++++|++|++++|.+.. +|
T Consensus        20 ~~L~~lP~~l--~~~l~~L~Ls~N~-i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~-l~   95 (305)
T d1xkua_          20 LGLEKVPKDL--PPDTALLDLQNNK-ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE-LP   95 (305)
T ss_dssp             SCCCSCCCSC--CTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSB-CC
T ss_pred             CCCCccCCCC--CCCCCEEECcCCc-CCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCc-Cc
Confidence            3466777655  3677888888876 555654 45 77788888887776655556667778888888777764332 11


Q ss_pred             ------------------------------------------------ccccCCCCCcEEeccCccCCcccccccCCCCc
Q 041505           88 ------------------------------------------------SGLCKLKLLNYLTLNCCSNLQRLPDELGNLEA  119 (248)
Q Consensus        88 ------------------------------------------------~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~  119 (248)
                                                                      ..+..+++|+++++++|.....-....+++++
T Consensus        96 ~~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~~~~L~~  175 (305)
T d1xkua_          96 EKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTE  175 (305)
T ss_dssp             SSCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSE
T ss_pred             cchhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCcccCCccCE
Confidence                                                            12334456666666665544322234556777


Q ss_pred             eEecccCCcccccccccccCCCCcCeEEccCCcCcccc-hhhhccCCcceecccCccccccCCCC---Ccccceeccccc
Q 041505          120 LWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP-ESVIQLSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHC  195 (248)
Q Consensus       120 L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp-~~l~~~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~  195 (248)
                      |++.+  +......+..+.+++.++.|++++|.++.++ ..+.++++|++|++++|.+ +.+|..   +++|++|+++++
T Consensus       176 L~l~~--n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L-~~lp~~l~~l~~L~~L~Ls~N  252 (305)
T d1xkua_         176 LHLDG--NKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGLADHKYIQVVYLHNN  252 (305)
T ss_dssp             EECTT--SCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCC-SSCCTTTTTCSSCCEEECCSS
T ss_pred             EECCC--CcCCCCChhHhhccccccccccccccccccccccccccccceeeecccccc-cccccccccccCCCEEECCCC
Confidence            77777  4555556777888899999999999987764 5778899999999999965 355543   478999999886


Q ss_pred             cccccchhhc----ccccccccccccccccCcchh
Q 041505          196 TALESLSGLF----SSFEARTRYFDLRYNYNWIEM  226 (248)
Q Consensus       196 ~~l~~~~~~~----~~l~~l~~L~~l~l~~n~i~~  226 (248)
                       .++.++...    ........|+.+++.+|.++.
T Consensus       253 -~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~~  286 (305)
T d1xkua_         253 -NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQY  286 (305)
T ss_dssp             -CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCG
T ss_pred             -ccCccChhhccCcchhcccCCCCEEECCCCcCcc
Confidence             456554322    233466788889999998764

>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=99.77  E-value=3.2e-18  Score=134.66  Aligned_cols=179  Identities=23%  Similarity=0.192  Sum_probs=139.8

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccC-Ccc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLP-AGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~-~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      ...++.+|+.+.  +++++|++++|. +..+| ..+ .+++|++|++++|.+ ..+|. ++.+++|++|++++|.+ ...
T Consensus        19 ~~~L~~iP~~lp--~~l~~L~Ls~N~-i~~l~~~~f~~l~~L~~L~L~~N~l-~~l~~-~~~l~~L~~L~Ls~N~l-~~~   92 (266)
T d1p9ag_          19 KRNLTALPPDLP--KDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRAEL-TKLQV-DGTLPVLGTLDLSHNQL-QSL   92 (266)
T ss_dssp             TSCCSSCCSCCC--TTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTSCC-CEEEC-CSCCTTCCEEECCSSCC-SSC
T ss_pred             CCCCCeeCcCcC--cCCCEEECcCCc-CCCcCHHHhhccccccccccccccc-ccccc-ccccccccccccccccc-ccc
Confidence            356788887653  689999999998 55554 556 899999999977765 45654 57899999999999765 455


Q ss_pred             CccccCCCCCcEEeccCccCCccccc---ccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhc
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQ  162 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~  162 (248)
                      +..+..+++|++|++++|...+..+.   .+.++..+++..  |.+....+..+..+++++.+++++|+++.++. .+..
T Consensus        93 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~--n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~  170 (266)
T d1p9ag_          93 PLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG--NELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG  170 (266)
T ss_dssp             CCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTT--SCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTT
T ss_pred             ccccccccccccccccccccceeeccccccccccccccccc--cccceeccccccccccchhcccccccccccCcccccc
Confidence            77788999999999999776654443   445566888888  55665455667889999999999999988764 6888


Q ss_pred             cCCcceecccCccccccCCCC---Ccccceecccccc
Q 041505          163 LSKLGRLYLRYWERLQSLPKL---PCKLHELDAHHCT  196 (248)
Q Consensus       163 ~~~L~~L~l~~n~~~~~l~~~---~~~L~~L~l~~~~  196 (248)
                      +++|++|++++|.+. .+|..   .++|+.|++++++
T Consensus       171 l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         171 LENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCC
T ss_pred             ccccceeecccCCCc-ccChhHCCCCCCCEEEecCCC
Confidence            999999999999754 77753   3778999998764

>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=99.77  E-value=3.5e-18  Score=134.46  Aligned_cols=197  Identities=17%  Similarity=0.065  Sum_probs=138.2

Q ss_pred             CCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEe
Q 041505           21 NNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLT  100 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  100 (248)
                      ....+..++-+++. +..+|+.+. +++++|++++|.+...-+..|.++++|++|++++|.+. .++. ++.+++|++|+
T Consensus         8 ~~~~~~~v~C~~~~-L~~iP~~lp-~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~-~l~~-~~~l~~L~~L~   83 (266)
T d1p9ag_           8 KVASHLEVNCDKRN-LTALPPDLP-KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT-KLQV-DGTLPVLGTLD   83 (266)
T ss_dssp             CSTTCCEEECTTSC-CSSCCSCCC-TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC-EEEC-CSCCTTCCEEE
T ss_pred             ccCCCeEEEccCCC-CCeeCcCcC-cCCCEEECcCCcCCCcCHHHhhcccccccccccccccc-cccc-ccccccccccc
Confidence            44556667887766 556776552 46888999776654333356888999999999887543 4443 56788899999


Q ss_pred             ccCccCCccc--ccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch-hhhccCCcceecccCcccc
Q 041505          101 LNCCSNLQRL--PDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE-SVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       101 l~~~~~~~~~--~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~-~l~~~~~L~~L~l~~n~~~  177 (248)
                      +++|++....  ...+++++.|++..  +......+..+..+.+++.+++++|.++.+|. .+..+++++.+++++|.+.
T Consensus        84 Ls~N~l~~~~~~~~~l~~L~~L~l~~--~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~  161 (266)
T d1p9ag_          84 LSHNQLQSLPLLGQTLPALTVLDVSF--NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLT  161 (266)
T ss_dssp             CCSSCCSSCCCCTTTCTTCCEEECCS--SCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             cccccccccccccccccccccccccc--cccceeeccccccccccccccccccccceeccccccccccchhccccccccc
Confidence            9887665322  23455677888877  44554455667788889999999998887764 5667888999999988765


Q ss_pred             ccCCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhc
Q 041505          178 QSLPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMR  227 (248)
Q Consensus       178 ~~l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~  227 (248)
                      ...+.   .+++|++|+++++ .++.++....   .++.|+.+++++|.+.-+
T Consensus       162 ~~~~~~~~~l~~L~~L~Ls~N-~L~~lp~~~~---~~~~L~~L~L~~Np~~Cd  210 (266)
T d1p9ag_         162 ELPAGLLNGLENLDTLLLQEN-SLYTIPKGFF---GSHLLPFAFLHGNPWLCN  210 (266)
T ss_dssp             CCCTTTTTTCTTCCEEECCSS-CCCCCCTTTT---TTCCCSEEECCSCCBCCS
T ss_pred             ccCccccccccccceeecccC-CCcccChhHC---CCCCCCEEEecCCCCCCC
Confidence            43332   3478888998887 4667766544   345888889998877543

>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=99.74  E-value=1.9e-17  Score=131.32  Aligned_cols=190  Identities=23%  Similarity=0.235  Sum_probs=150.9

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccCCc
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCE   81 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~   81 (248)
                      ++++.+.++.+|+ ++..+++|++|++++|.+....+..+ .+..++.+.+..++.+..+ +..+.++++|++|++++|.
T Consensus        37 L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~  116 (284)
T d1ozna_          37 IFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG  116 (284)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             EECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEecCCcc
Confidence            4677788999984 68999999999999998544444445 7899999988777766666 4668999999999999987


Q ss_pred             CcCcCCccccCCCCCcEEeccCccCCcccccc---cCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCccc-c
Q 041505           82 SLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDE---LGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERI-P  157 (248)
Q Consensus        82 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~l-p  157 (248)
                      .....+..+...++|+.+++++|.+.+..+..   ..+++.|++.+  |.+....+.++.++++|+.+++++|+++.+ |
T Consensus       117 ~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~--N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~  194 (284)
T d1ozna_         117 LQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG--NRISSVPERAFRGLHSLDRLLLHQNRVAHVHP  194 (284)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS--SCCCEECTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             cccccccccchhcccchhhhccccccccChhHhccccchhhccccc--CcccccchhhhccccccchhhhhhccccccCh
Confidence            66556666778899999999998776544443   44677899988  666665667889999999999999999766 6


Q ss_pred             hhhhccCCcceecccCccccccCCC---CCcccceecccccc
Q 041505          158 ESVIQLSKLGRLYLRYWERLQSLPK---LPCKLHELDAHHCT  196 (248)
Q Consensus       158 ~~l~~~~~L~~L~l~~n~~~~~l~~---~~~~L~~L~l~~~~  196 (248)
                      ..|..++++++|+++.|.+.+..+.   ..++|+++++++++
T Consensus       195 ~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         195 HAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             hHhhhhhhcccccccccccccccccccccccccCEEEecCCC
Confidence            7899999999999999976544332   34789999998763

>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=99.70  E-value=5.6e-16  Score=123.90  Aligned_cols=186  Identities=17%  Similarity=0.131  Sum_probs=141.7

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCc-----------------------
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAI-----------------------   59 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~-----------------------   59 (248)
                      ++++.+.++.+++ .+..+++|++|++++|.+....|..+ .++.|++|++++|.+.                       
T Consensus        36 L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~~~~l~~L~~~~n~l~~l  115 (305)
T d1xkua_          36 LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKV  115 (305)
T ss_dssp             EECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCCTTCCEEECCSSCCCBB
T ss_pred             EECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCcCccchhhhhhhhhccccchhhh
Confidence            5677788999985 68889999999999998665556667 8999999998765421                       


Q ss_pred             ------------------------cccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccC
Q 041505           60 ------------------------EELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELG  115 (248)
Q Consensus        60 ------------------------~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  115 (248)
                                              ...+..+..+++|+++++++|.+ ..+|..  ..++|+.|++++|...+..+..+.
T Consensus       116 ~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l-~~l~~~--~~~~L~~L~l~~n~~~~~~~~~~~  192 (305)
T d1xkua_         116 RKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNI-TTIPQG--LPPSLTELHLDGNKITKVDAASLK  192 (305)
T ss_dssp             CHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCC-CSCCSS--CCTTCSEEECTTSCCCEECTGGGT
T ss_pred             hhhhhhccccccccccccccccccCCCccccccccccCccccccCCc-cccCcc--cCCccCEEECCCCcCCCCChhHhh
Confidence                                    00122355667788888887644 345544  357899999999888777666555


Q ss_pred             C---CCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC----------
Q 041505          116 N---LEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK----------  182 (248)
Q Consensus       116 ~---l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~----------  182 (248)
                      .   ++.|++++  |.+.+..+..+.++++|++|++++|+++.+|..+..+++|++|++++|++ +.++.          
T Consensus       193 ~~~~l~~L~~s~--n~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i-~~i~~~~f~~~~~~~  269 (305)
T d1xkua_         193 GLNNLAKLGLSF--NSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNI-SAIGSNDFCPPGYNT  269 (305)
T ss_dssp             TCTTCCEEECCS--SCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCC-CCCCTTSSSCSSCCT
T ss_pred             cccccccccccc--ccccccccccccccccceeeecccccccccccccccccCCCEEECCCCcc-CccChhhccCcchhc
Confidence            4   55788877  56666567789999999999999999999999999999999999999964 34432          


Q ss_pred             CCcccceecccccc
Q 041505          183 LPCKLHELDAHHCT  196 (248)
Q Consensus       183 ~~~~L~~L~l~~~~  196 (248)
                      ...+|+.|++++++
T Consensus       270 ~~~~L~~L~L~~N~  283 (305)
T d1xkua_         270 KKASYSGVSLFSNP  283 (305)
T ss_dssp             TSCCCSEEECCSSS
T ss_pred             ccCCCCEEECCCCc
Confidence            23678999998874

>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=99.65  E-value=1.8e-15  Score=124.19  Aligned_cols=65  Identities=15%  Similarity=0.189  Sum_probs=33.6

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCC
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYC   80 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~   80 (248)
                      .++++ +.+..+++|++|++++|. +..+++ + .+++|++|++++|.+. .+++ ++++++|+.++++++
T Consensus        55 ~I~~l-~gl~~L~nL~~L~Ls~N~-l~~l~~-l~~L~~L~~L~L~~n~i~-~i~~-l~~l~~L~~L~~~~~  120 (384)
T d2omza2          55 GIKSI-DGVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNNQIA-DITP-LANLTNLTGLTLFNN  120 (384)
T ss_dssp             CCCCC-TTGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSS
T ss_pred             CCCCc-cccccCCCCCEEeCcCCc-CCCCcc-ccCCcccccccccccccc-cccc-ccccccccccccccc
Confidence            34444 245556666666666665 333432 3 5666666666555432 2222 555666666655543

>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=99.64  E-value=2.6e-15  Score=115.02  Aligned_cols=186  Identities=18%  Similarity=0.235  Sum_probs=138.0

Q ss_pred             hhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCC
Q 041505           18 FKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLL   96 (248)
Q Consensus        18 ~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L   96 (248)
                      .++.+.+|+.|++.+|. +..++ .+ .+++|++|++++|.+.. ++. +..+++++++++++|... .+ ..+..+++|
T Consensus        36 ~~~~l~~L~~L~l~~~~-i~~l~-~l~~l~~L~~L~ls~n~i~~-~~~-l~~l~~l~~l~~~~n~~~-~i-~~l~~l~~L  109 (227)
T d1h6ua2          36 TQADLDGITTLSAFGTG-VTTIE-GVQYLNNLIGLELKDNQITD-LAP-LKNLTKITELELSGNPLK-NV-SAIAGLQSI  109 (227)
T ss_dssp             CHHHHHTCCEEECTTSC-CCCCT-TGGGCTTCCEEECCSSCCCC-CGG-GTTCCSCCEEECCSCCCS-CC-GGGTTCTTC
T ss_pred             CHHHcCCcCEEECCCCC-CCcch-hHhcCCCCcEeecCCceeec-ccc-cccccccccccccccccc-cc-ccccccccc
Confidence            34567889999999997 55664 46 89999999998877544 333 889999999999987543 44 358889999


Q ss_pred             cEEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505           97 NYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus        97 ~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      +.++++.|...+..+ .....+..+.+..  +...  ....+..+++|+.+++++|.+...+. +.++++|++|++++|.
T Consensus       110 ~~l~l~~~~~~~~~~~~~~~~~~~l~~~~--~~~~--~~~~~~~~~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~Ls~n~  184 (227)
T d1h6ua2         110 KTLDLTSTQITDVTPLAGLSNLQVLYLDL--NQIT--NISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNK  184 (227)
T ss_dssp             CEEECTTSCCCCCGGGTTCTTCCEEECCS--SCCC--CCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC
T ss_pred             cccccccccccccchhccccchhhhhchh--hhhc--hhhhhccccccccccccccccccchh-hcccccceecccCCCc
Confidence            999999876654333 2344556777766  3333  23347788899999999998876643 7889999999999996


Q ss_pred             ccccCCC--CCcccceeccccccccccchhhcccccccccccccccc
Q 041505          176 RLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYN  220 (248)
Q Consensus       176 ~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~  220 (248)
                      + +.++.  .+++|++|++++| .++.++    .+..+++|+.++++
T Consensus       185 l-~~l~~l~~l~~L~~L~Ls~N-~lt~i~----~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         185 I-SDISPLASLPNLIEVHLKNN-QISDVS----PLANTSNLFIVTLT  225 (227)
T ss_dssp             C-CCCGGGGGCTTCCEEECTTS-CCCBCG----GGTTCTTCCEEEEE
T ss_pred             c-CCChhhcCCCCCCEEECcCC-cCCCCc----ccccCCCCCEEEee
Confidence            4 44553  3588999999998 566554    25677789988876

>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=99.64  E-value=4.7e-16  Score=116.21  Aligned_cols=79  Identities=18%  Similarity=0.106  Sum_probs=47.3

Q ss_pred             cEEEccCCCCCcccCCccccCcccEEEcCCCCCcccc-ChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           26 VVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEEL-PSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      +.++.++++ ...+|..+. +.+++|++++|.+...+ +..|.++++|++|++++|.+....+..+..+++|++|++++|
T Consensus        11 ~~v~Cs~~~-L~~iP~~lp-~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          11 TTVDCTGRG-LKEIPRDIP-LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSC-CSSCCSCCC-TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEeCCC-cCccCCCCC-CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            456666655 445555442 45667777666554433 344566777777777766666555666666677777777664


Q ss_pred             cC
Q 041505          105 SN  106 (248)
Q Consensus       105 ~~  106 (248)
                      .+
T Consensus        89 ~l   90 (192)
T d1w8aa_          89 KI   90 (192)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>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=99.62  E-value=6.1e-15  Score=112.90  Aligned_cols=175  Identities=21%  Similarity=0.212  Sum_probs=132.1

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCC
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLP   87 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   87 (248)
                      ..+.+++++ .+..+++|++|++++|.+ ..+++...+++++++++++|.. +.++ .+.++++|++++++++.....  
T Consensus        49 ~~~~i~~l~-~l~~l~~L~~L~ls~n~i-~~~~~l~~l~~l~~l~~~~n~~-~~i~-~l~~l~~L~~l~l~~~~~~~~--  122 (227)
T d1h6ua2          49 FGTGVTTIE-GVQYLNNLIGLELKDNQI-TDLAPLKNLTKITELELSGNPL-KNVS-AIAGLQSIKTLDLTSTQITDV--  122 (227)
T ss_dssp             TTSCCCCCT-TGGGCTTCCEEECCSSCC-CCCGGGTTCCSCCEEECCSCCC-SCCG-GGTTCTTCCEEECTTSCCCCC--
T ss_pred             CCCCCCcch-hHhcCCCCcEeecCCcee-eccccccccccccccccccccc-cccc-ccccccccccccccccccccc--
Confidence            344577774 688999999999999984 4443322899999999976654 4554 478999999999998754432  


Q ss_pred             ccccCCCCCcEEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCc
Q 041505           88 SGLCKLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKL  166 (248)
Q Consensus        88 ~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L  166 (248)
                      ..+...+.++.+.++++......+ ....+++.|++.+  +...+  ...++++++|+.|++++|+++.++. +.++++|
T Consensus       123 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~--n~~~~--~~~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L  197 (227)
T d1h6ua2         123 TPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGN--AQVSD--LTPLANLSKLTTLKADDNKISDISP-LASLPNL  197 (227)
T ss_dssp             GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCS--SCCCC--CGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTC
T ss_pred             chhccccchhhhhchhhhhchhhhhccccccccccccc--ccccc--chhhcccccceecccCCCccCCChh-hcCCCCC
Confidence            336677899999998877655433 4666788999988  44442  2348899999999999999988864 7899999


Q ss_pred             ceecccCccccccCCC--CCcccceecccc
Q 041505          167 GRLYLRYWERLQSLPK--LPCKLHELDAHH  194 (248)
Q Consensus       167 ~~L~l~~n~~~~~l~~--~~~~L~~L~l~~  194 (248)
                      ++|++++|++ +.++.  .+++|+.|++++
T Consensus       198 ~~L~Ls~N~l-t~i~~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         198 IEVHLKNNQI-SDVSPLANTSNLFIVTLTN  226 (227)
T ss_dssp             CEEECTTSCC-CBCGGGTTCTTCCEEEEEE
T ss_pred             CEEECcCCcC-CCCcccccCCCCCEEEeeC
Confidence            9999999964 44543  457788887764

>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=99.62  E-value=5.1e-15  Score=111.10  Aligned_cols=144  Identities=23%  Similarity=0.293  Sum_probs=86.5

Q ss_pred             CCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEE
Q 041505           21 NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYL   99 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L   99 (248)
                      .+.++++|++++|. +..+. .+ .+++|++|++++|.+ ..++. ++++++|++|++++|... .++ .+..+++|+.|
T Consensus        38 ~l~~l~~L~l~~~~-i~~l~-~l~~l~nL~~L~Ls~N~l-~~~~~-l~~l~~L~~L~l~~n~~~-~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          38 DLDQVTTLQADRLG-IKSID-GVEYLNNLTQINFSNNQL-TDITP-LKNLTKLVDILMNNNQIA-DIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTSC-CCCCT-TGGGCTTCCEEECCSSCC-CCCGG-GTTCTTCCEEECCSSCCC-CCG-GGTTCTTCSEE
T ss_pred             HhcCCCEEECCCCC-CCCcc-ccccCCCcCcCccccccc-cCccc-ccCCcccccccccccccc-ccc-ccccccccccc
Confidence            35677788888876 44443 34 677888888866653 34443 777788888888776433 333 36677778888


Q ss_pred             eccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505          100 TLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus       100 ~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      ++++|......+ ..+++++.+++++  |.+.  ..+.+..+++|+.+++.+|+++.++ .+.++++|++|++++|+
T Consensus       112 ~l~~~~~~~~~~~~~l~~L~~L~l~~--n~l~--~~~~l~~~~~L~~L~l~~n~l~~l~-~l~~l~~L~~L~ls~N~  183 (199)
T d2omxa2         112 TLFNNQITDIDPLKNLTNLNRLELSS--NTIS--DISALSGLTSLQQLNFSSNQVTDLK-PLANLTTLERLDISSNK  183 (199)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEECCS--SCCC--CCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECCSSC
T ss_pred             cccccccccccccchhhhhHHhhhhh--hhhc--ccccccccccccccccccccccCCc-cccCCCCCCEEECCCCC
Confidence            777755443221 2344555666655  3333  1234556666666666666665554 25566666666666664

>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=99.62  E-value=4.5e-15  Score=112.31  Aligned_cols=161  Identities=24%  Similarity=0.236  Sum_probs=122.3

Q ss_pred             CCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEE
Q 041505           21 NNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYL   99 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L   99 (248)
                      .+..|+.|++++|. +..++. + .+++|++|++++|.+ ..++. ++++++|++|++++|.+. .++ .+..+++|+.|
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~~L  117 (210)
T d1h6ta2          44 ELNSIDQIIANNSD-IKSVQG-IQYLPNVTKLFLNGNKL-TDIKP-LANLKNLGWLFLDENKVK-DLS-SLKDLKKLKSL  117 (210)
T ss_dssp             HHHTCCEEECTTSC-CCCCTT-GGGCTTCCEEECCSSCC-CCCGG-GTTCTTCCEEECCSSCCC-CGG-GGTTCTTCCEE
T ss_pred             HhcCccEEECcCCC-CCCchh-HhhCCCCCEEeCCCccc-cCccc-cccCcccccccccccccc-ccc-ccccccccccc
Confidence            35689999999987 555543 5 899999999977765 44554 788999999999997654 455 48889999999


Q ss_pred             eccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcccc
Q 041505          100 TLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       100 ~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~  177 (248)
                      ++++|.... ++  ..++.++.+++..  +...  -+..+..+++|+.+++++|+++.++. +.++++|++|++++|.+ 
T Consensus       118 ~l~~~~~~~-~~~l~~l~~l~~l~~~~--n~l~--~~~~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N~i-  190 (210)
T d1h6ta2         118 SLEHNGISD-INGLVHLPQLESLYLGN--NKIT--DITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHI-  190 (210)
T ss_dssp             ECTTSCCCC-CGGGGGCTTCCEEECCS--SCCC--CCGGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC-
T ss_pred             ccccccccc-ccccccccccccccccc--cccc--cccccccccccccccccccccccccc-ccCCCCCCEEECCCCCC-
Confidence            999976543 32  2455677888777  4454  23457788999999999999988764 78999999999999964 


Q ss_pred             ccCCC--CCcccceecccc
Q 041505          178 QSLPK--LPCKLHELDAHH  194 (248)
Q Consensus       178 ~~l~~--~~~~L~~L~l~~  194 (248)
                      +.++.  .+++|++|++++
T Consensus       191 ~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         191 SDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             CBCGGGTTCTTCSEEEEEE
T ss_pred             CCChhhcCCCCCCEEEccC
Confidence            45553  246788887754

>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=99.60  E-value=1.3e-14  Score=109.80  Aligned_cols=177  Identities=20%  Similarity=0.174  Sum_probs=127.3

Q ss_pred             EEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCC
Q 041505           28 LNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        28 L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      .++..+.+.+.++. ..+..|++|++++|.+ ..++ .+..+++|++|++++|.+.+ ++ .++.+++|++|++++|.+.
T Consensus        29 ~~l~~~~~~~~~~~-~~L~~L~~L~l~~~~i-~~l~-~l~~l~~L~~L~L~~n~i~~-l~-~~~~l~~L~~L~l~~n~i~  103 (210)
T d1h6ta2          29 DNLKKKSVTDAVTQ-NELNSIDQIIANNSDI-KSVQ-GIQYLPNVTKLFLNGNKLTD-IK-PLANLKNLGWLFLDENKVK  103 (210)
T ss_dssp             HHTTCSCTTSEECH-HHHHTCCEEECTTSCC-CCCT-TGGGCTTCCEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCC
T ss_pred             HHhCcCccCCccCH-HHhcCccEEECcCCCC-CCch-hHhhCCCCCEEeCCCccccC-cc-ccccCcccccccccccccc
Confidence            34555443333221 1577899999966654 4444 37889999999999986554 44 3678999999999997765


Q ss_pred             cccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCC--C
Q 041505          108 QRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPK--L  183 (248)
Q Consensus       108 ~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~--~  183 (248)
                       .++  ..+++++.+++..+  ...  -...+..+++++.+++++|.++..+ .+..+++|+++++++|.+. .++.  .
T Consensus       104 -~l~~l~~l~~L~~L~l~~~--~~~--~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~l~-~i~~l~~  176 (210)
T d1h6ta2         104 -DLSSLKDLKKLKSLSLEHN--GIS--DINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQIS-DIVPLAG  176 (210)
T ss_dssp             -CGGGGTTCTTCCEEECTTS--CCC--CCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCC-CCGGGTT
T ss_pred             -ccccccccccccccccccc--ccc--ccccccccccccccccccccccccc-ccccccccccccccccccc-ccccccC
Confidence             344  34567778888873  333  2346888999999999999987664 5678899999999999754 3443  3


Q ss_pred             Ccccceeccccccccccchhhccccccccccccccccc
Q 041505          184 PCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNY  221 (248)
Q Consensus       184 ~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~  221 (248)
                      +++|++|+++++ .++.++    .+.++++|+.|++++
T Consensus       177 l~~L~~L~Ls~N-~i~~l~----~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         177 LTKLQNLYLSKN-HISDLR----ALAGLKNLDVLELFS  209 (210)
T ss_dssp             CTTCCEEECCSS-CCCBCG----GGTTCTTCSEEEEEE
T ss_pred             CCCCCEEECCCC-CCCCCh----hhcCCCCCCEEEccC
Confidence            588999999987 455543    366777999998764

>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=99.59  E-value=1.3e-15  Score=120.68  Aligned_cols=215  Identities=16%  Similarity=0.124  Sum_probs=134.1

Q ss_pred             CccEEEccCCCCCcccCCccccCcccEEEcCCCCCccc-cChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEecc
Q 041505           24 HIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEE-LPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLN  102 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~  102 (248)
                      .+..+.++................|++|++++|..... ++..+..+++|++|++.+|......+..++.+++|++|+++
T Consensus        24 ~~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls  103 (284)
T d2astb2          24 GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS  103 (284)
T ss_dssp             TCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECT
T ss_pred             cceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCcccc
Confidence            34566666543222222222566788888877765443 34456778888888888876666666777788888888888


Q ss_pred             CccCCcc-----cccccCCCCceEecccCCcccccccccccC-CCCcCeEEccCCc--Cc--ccchhhhccCCcceeccc
Q 041505          103 CCSNLQR-----LPDELGNLEALWISREAGVISRWLPENIGQ-LSSLGKLDLQKNN--FE--RIPESVIQLSKLGRLYLR  172 (248)
Q Consensus       103 ~~~~~~~-----~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~-~~~L~~L~l~~n~--l~--~lp~~l~~~~~L~~L~l~  172 (248)
                      +|...+.     +....++|++|++++|.+.....+...+.. +++|+.|+++++.  ++  .+...+.++++|++|+++
T Consensus       104 ~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~  183 (284)
T d2astb2         104 GCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLS  183 (284)
T ss_dssp             TCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECT
T ss_pred             ccccccccccchhhHHHHhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccc
Confidence            8755432     224567788888887653333223333333 4678888888763  32  344445678888888888


Q ss_pred             Ccccccc-CCC---CCcccceeccccccccccchhhcccccccccccccccccCcchhchHHHHHHHHhhhhh
Q 041505          173 YWERLQS-LPK---LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRSEEFLKMLCKKLNF  241 (248)
Q Consensus       173 ~n~~~~~-l~~---~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~~~~~~~l~~~l~~  241 (248)
                      +|..++. ...   ..++|++|++++|..+...  ....+.++++|+.+++.++ +.+.+.+.+..-|+.+++
T Consensus       184 ~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~--~l~~L~~~~~L~~L~l~~~-~~d~~l~~l~~~lp~L~i  253 (284)
T d2astb2         184 DSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPE--TLLELGEIPTLKTLQVFGI-VPDGTLQLLKEALPHLQI  253 (284)
T ss_dssp             TCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGG--GGGGGGGCTTCCEEECTTS-SCTTCHHHHHHHSTTSEE
T ss_pred             cccCCCchhhhhhcccCcCCEEECCCCCCCChH--HHHHHhcCCCCCEEeeeCC-CCHHHHHHHHHhCccccc
Confidence            8764431 111   2367888888888766533  3344567788888888776 555555555444555554

>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=99.58  E-value=2.9e-14  Score=106.85  Aligned_cols=149  Identities=21%  Similarity=0.278  Sum_probs=114.4

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcC
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSL   86 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~   86 (248)
                      +.+.+.++. .++.+++|++|++++|. +..+++ + .+++|++|++++|.. ..++. +.++++|+.+++++|....  
T Consensus        48 ~~~~i~~l~-~l~~l~nL~~L~Ls~N~-l~~~~~-l~~l~~L~~L~l~~n~~-~~~~~-l~~l~~L~~L~l~~~~~~~--  120 (199)
T d2omxa2          48 DRLGIKSID-GVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNNQI-ADITP-LANLTNLTGLTLFNNQITD--  120 (199)
T ss_dssp             TTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSCC-CCCGG-GTTCTTCSEEECCSSCCCC--
T ss_pred             CCCCCCCcc-ccccCCCcCcCcccccc-ccCccc-ccCCccccccccccccc-ccccc-ccccccccccccccccccc--
Confidence            344566663 57889999999999998 444444 5 899999999976664 44443 8899999999999875543  


Q ss_pred             CccccCCCCCcEEeccCccCCcccc--cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccC
Q 041505           87 PSGLCKLKLLNYLTLNCCSNLQRLP--DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLS  164 (248)
Q Consensus        87 ~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~  164 (248)
                      .+.+..+++|+.|++++|... .++  ....+++.|++.+  |...+ + ..++++++|+.|++++|+++.++ .+++++
T Consensus       121 ~~~~~~l~~L~~L~l~~n~l~-~~~~l~~~~~L~~L~l~~--n~l~~-l-~~l~~l~~L~~L~ls~N~i~~i~-~l~~L~  194 (199)
T d2omxa2         121 IDPLKNLTNLNRLELSSNTIS-DISALSGLTSLQQLNFSS--NQVTD-L-KPLANLTTLERLDISSNKVSDIS-VLAKLT  194 (199)
T ss_dssp             CGGGTTCTTCSEEECCSSCCC-CCGGGTTCTTCSEEECCS--SCCCC-C-GGGTTCTTCCEEECCSSCCCCCG-GGGGCT
T ss_pred             ccccchhhhhHHhhhhhhhhc-cccccccccccccccccc--ccccC-C-ccccCCCCCCEEECCCCCCCCCc-cccCCC
Confidence            244788999999999998764 333  3566778999988  55553 3 35899999999999999999886 477888


Q ss_pred             Cccee
Q 041505          165 KLGRL  169 (248)
Q Consensus       165 ~L~~L  169 (248)
                      +|++|
T Consensus       195 ~L~~L  199 (199)
T d2omxa2         195 NLESL  199 (199)
T ss_dssp             TCSEE
T ss_pred             CCCcC
Confidence            88875

>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=99.57  E-value=4.7e-14  Score=115.60  Aligned_cols=190  Identities=23%  Similarity=0.219  Sum_probs=134.4

Q ss_pred             hhhcCCCCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCC
Q 041505           17 AFKQNNPHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLL   96 (248)
Q Consensus        17 ~~l~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L   96 (248)
                      .....+++++.+++++|.+. .++.....+.|+++++++|.. ..++ .+..+++|+.+++++|.+.+ ++ .++.+++|
T Consensus       191 ~~~~~l~~~~~l~l~~n~i~-~~~~~~~~~~L~~L~l~~n~l-~~~~-~l~~l~~L~~L~l~~n~l~~-~~-~~~~~~~L  265 (384)
T d2omza2         191 SVLAKLTNLESLIATNNQIS-DITPLGILTNLDELSLNGNQL-KDIG-TLASLTNLTDLDLANNQISN-LA-PLSGLTKL  265 (384)
T ss_dssp             GGGGGCTTCSEEECCSSCCC-CCGGGGGCTTCCEEECCSSCC-CCCG-GGGGCTTCSEEECCSSCCCC-CG-GGTTCTTC
T ss_pred             cccccccccceeeccCCccC-CCCcccccCCCCEEECCCCCC-CCcc-hhhcccccchhccccCccCC-CC-cccccccC
Confidence            34566788899999998744 333333678899999976654 4444 47888999999999876544 33 37788899


Q ss_pred             cEEeccCccCCcccc-cccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccchhhhccCCcceecccCcc
Q 041505           97 NYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWE  175 (248)
Q Consensus        97 ~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~  175 (248)
                      ++|+++++...+..+ ..+..+..+.+..  +...+  ...+..+++++.+++++|+++.++. +..+++|++|++++|.
T Consensus       266 ~~L~l~~~~l~~~~~~~~~~~l~~l~~~~--n~l~~--~~~~~~~~~l~~L~ls~n~l~~l~~-l~~l~~L~~L~L~~n~  340 (384)
T d2omza2         266 TELKLGANQISNISPLAGLTALTNLELNE--NQLED--ISPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFANNK  340 (384)
T ss_dssp             SEEECCSSCCCCCGGGTTCTTCSEEECCS--SCCSC--CGGGGGCTTCSEEECCSSCCSCCGG-GGGCTTCCEEECCSSC
T ss_pred             CEeeccCcccCCCCccccccccccccccc--ccccc--ccccchhcccCeEECCCCCCCCCcc-cccCCCCCEEECCCCC
Confidence            999998876654322 2444556777766  44442  3457788889999999999887753 7788999999999986


Q ss_pred             ccccCCC--CCcccceeccccccccccchhhcccccccccccccccccC
Q 041505          176 RLQSLPK--LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYN  222 (248)
Q Consensus       176 ~~~~l~~--~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n  222 (248)
                      +. .++.  .+++|++|+++++ .++.++    .+.++++|+.|+++.|
T Consensus       341 l~-~l~~l~~l~~L~~L~l~~N-~l~~l~----~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         341 VS-DVSSLANLTNINWLSAGHN-QISDLT----PLANLTRITQLGLNDQ  383 (384)
T ss_dssp             CC-CCGGGGGCTTCCEEECCSS-CCCBCG----GGTTCTTCSEEECCCE
T ss_pred             CC-CChhHcCCCCCCEEECCCC-cCCCCh----hhccCCCCCEeeCCCC
Confidence            43 3332  2478899999876 445443    2556778999988876

>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=99.57  E-value=1.5e-14  Score=111.63  Aligned_cols=206  Identities=16%  Similarity=0.144  Sum_probs=140.0

Q ss_pred             ccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCC-cCcC
Q 041505            9 ALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYC-ESLN   84 (248)
Q Consensus         9 ~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~-~~~~   84 (248)
                      ...++++|+.+  .+++++|++++|. +..+|. .+ ++++|++|++++|.....++ ..+.++++++++.+..+ ....
T Consensus        17 ~~~l~~iP~~l--~~~l~~L~Ls~n~-i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~   93 (242)
T d1xwdc1          17 ESKVTEIPSDL--PRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLY   93 (242)
T ss_dssp             SCSCSSCCSCS--CSCCSEEEEESCC-CCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCE
T ss_pred             CCCCCCcCCCC--CCCCCEEECcCCc-CCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccc
Confidence            34567788655  3689999999998 666765 45 89999999998888776554 45788999999987653 4555


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccc-cccCCCCceEecccCCcccccc-cccccCC-CCcCeEEccCCcCcccchhhh
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLP-DELGNLEALWISREAGVISRWL-PENIGQL-SSLGKLDLQKNNFERIPESVI  161 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~l~~~~n~~~~~~-~~~l~~~-~~L~~L~l~~n~l~~lp~~l~  161 (248)
                      ..+..+.++++|+++++.+|.+...-+ ..+..++.+......+.....+ +..+..+ ..++.+++.+|+++.++..+.
T Consensus        94 ~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~  173 (242)
T d1xwdc1          94 INPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAF  173 (242)
T ss_dssp             ECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTT
T ss_pred             cccccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccccccccc
Confidence            556678899999999999976653322 2444566555433323222223 3345544 478889999999988877665


Q ss_pred             ccCCcceec-ccCccccccCCC----CCcccceeccccccccccchhhccccccccccccccccc
Q 041505          162 QLSKLGRLY-LRYWERLQSLPK----LPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNY  221 (248)
Q Consensus       162 ~~~~L~~L~-l~~n~~~~~l~~----~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~  221 (248)
                      ...++..+. +..| .++.+|.    .+++|++|+++++. ++.++.  ..+.++++|+.+++..
T Consensus       174 ~~~~l~~~~~l~~n-~l~~l~~~~f~~l~~L~~L~Ls~N~-l~~l~~--~~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         174 NGTQLDELNLSDNN-NLEELPNDVFHGASGPVILDISRTR-IHSLPS--YGLENLKKLRARSTYN  234 (242)
T ss_dssp             TTCCEEEEECTTCT-TCCCCCTTTTTTSCCCSEEECTTSC-CCCCCS--SSCTTCCEEESSSEES
T ss_pred             cchhhhcccccccc-ccccccHHHhcCCCCCCEEECCCCc-CCccCH--HHHcCCcccccCcCCC
Confidence            666766664 4444 4455553    34889999998873 555443  3456667777777653

>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=99.55  E-value=1.8e-14  Score=107.39  Aligned_cols=126  Identities=21%  Similarity=0.103  Sum_probs=87.4

Q ss_pred             hhccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcC
Q 041505            7 DHALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLN   84 (248)
Q Consensus         7 ~~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~   84 (248)
                      .+.+.++.+|+.+  .+++++|++++|.+...++. .+ .+++|++|++++|.+....+..+..+++|++|++++|.+..
T Consensus        15 Cs~~~L~~iP~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~   92 (192)
T d1w8aa_          15 CTGRGLKEIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKE   92 (192)
T ss_dssp             CTTSCCSSCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCE
T ss_pred             EeCCCcCccCCCC--CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccc
Confidence            3455667777655  36788888888875554433 34 78888888887777666666777888888888888876665


Q ss_pred             cCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccc
Q 041505           85 SLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP  157 (248)
Q Consensus        85 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp  157 (248)
                      ..+..|.++++|++|++++|.+                       ....+.+|..+++|+++++++|.+...+
T Consensus        93 l~~~~F~~l~~L~~L~L~~N~l-----------------------~~i~~~~f~~l~~L~~l~L~~N~~~~~~  142 (192)
T d1w8aa_          93 ISNKMFLGLHQLKTLNLYDNQI-----------------------SCVMPGSFEHLNSLTSLNLASNPFNCNC  142 (192)
T ss_dssp             ECSSSSTTCTTCCEEECCSSCC-----------------------CEECTTSSTTCTTCCEEECTTCCBCCSG
T ss_pred             cCHHHHhCCCcccccccCCccc-----------------------cccCHHHhcCCccccccccccccccccc
Confidence            5566677788888888877433                       2223445667778888888888775443

>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=99.51  E-value=3.7e-14  Score=102.72  Aligned_cols=128  Identities=17%  Similarity=0.111  Sum_probs=89.5

Q ss_pred             hcCCCCccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCc
Q 041505           19 KQNNPHIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLN   97 (248)
Q Consensus        19 l~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~   97 (248)
                      +....+++.|++++|. +..++..+ .+++|++|++++|.+ ..++. +..+++|++|++++|.+....+..+..+++|+
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~~L~   90 (162)
T d1a9na_          14 YTNAVRDRELDLRGYK-IPVIENLGATLDQFDAIDFSDNEI-RKLDG-FPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   90 (162)
T ss_dssp             EECTTSCEEEECTTSC-CCSCCCGGGGTTCCSEEECCSSCC-CEECC-CCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             ccCcCcCcEEECCCCC-CCccCccccccccCCEEECCCCCC-CccCC-cccCcchhhhhcccccccCCCccccccccccc
Confidence            4566788889999887 66667655 788888888877664 45543 77888888888888765443333345678888


Q ss_pred             EEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcccch----hhhccCCcceecc
Q 041505           98 YLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE----SVIQLSKLGRLYL  171 (248)
Q Consensus        98 ~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~----~l~~~~~L~~L~l  171 (248)
                      +|++++|.+..                    +.  -...+..+++|+.+++++|.++..|.    .+..+++|++||-
T Consensus        91 ~L~L~~N~i~~--------------------~~--~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          91 ELILTNNSLVE--------------------LG--DLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             EEECCSCCCCC--------------------GG--GGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cceeccccccc--------------------cc--cccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            88888754321                    11  11346778889999999998877763    4677888888773

>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=99.51  E-value=8.5e-14  Score=107.26  Aligned_cols=191  Identities=16%  Similarity=0.082  Sum_probs=126.2

Q ss_pred             chhhccchHhhhh-hhcCCCCccEEEccCCCCCcccCCc-c-ccCcccEEEcCCCCCcc-ccChhhhcccCCCEEeccCC
Q 041505            5 VDDHALELFSLYA-FKQNNPHIVVLNLRDCKSLKSLPAG-I-HLEFLKELDLLNGTAIE-ELPSAIECLYKLLHLDLEYC   80 (248)
Q Consensus         5 ~~~~~~~l~~l~~-~l~~l~~L~~L~l~~~~~~~~~~~~-~-~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~   80 (248)
                      ++++.+.++.++. .+.++++|++|++++|.+...++.. + .++.++++.+..++... ..+..+.++++|+++++++|
T Consensus        34 L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~  113 (242)
T d1xwdc1          34 LRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT  113 (242)
T ss_dssp             EEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESC
T ss_pred             EECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccchh
Confidence            4566778888885 5888999999999999876666554 4 89999999886655444 44566899999999999997


Q ss_pred             cCcCcCCc-cccCCCCCcEEeccCccCCcccccccC----CCCceEecccCCcccccccccccCCCCcCeE-EccCCcCc
Q 041505           81 ESLNSLPS-GLCKLKLLNYLTLNCCSNLQRLPDELG----NLEALWISREAGVISRWLPENIGQLSSLGKL-DLQKNNFE  154 (248)
Q Consensus        81 ~~~~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~~----~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L-~l~~n~l~  154 (248)
                      .+....+. .+..+..+..+...++.....-+..+.    .+..+++..  |.... ++......+++..+ .+.+|+++
T Consensus       114 ~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~--n~l~~-i~~~~~~~~~l~~~~~l~~n~l~  190 (242)
T d1xwdc1         114 GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK--NGIQE-IHNCAFNGTQLDELNLSDNNNLE  190 (242)
T ss_dssp             CCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS--SCCCE-ECTTTTTTCCEEEEECTTCTTCC
T ss_pred             hhcccccccccccccccccccccccccccccccccccccccceeeeccc--ccccc-cccccccchhhhccccccccccc
Confidence            65433221 223344454444455333322233333    334566666  44543 55555556666655 56778899


Q ss_pred             ccch-hhhccCCcceecccCccccccCCC-CCcccceeccccccccc
Q 041505          155 RIPE-SVIQLSKLGRLYLRYWERLQSLPK-LPCKLHELDAHHCTALE  199 (248)
Q Consensus       155 ~lp~-~l~~~~~L~~L~l~~n~~~~~l~~-~~~~L~~L~l~~~~~l~  199 (248)
                      .+|. .|.++++|++|++++|++. .+|. .+.++..|...++..++
T Consensus       191 ~l~~~~f~~l~~L~~L~Ls~N~l~-~l~~~~~~~l~~L~~l~~~~l~  236 (242)
T d1xwdc1         191 ELPNDVFHGASGPVILDISRTRIH-SLPSYGLENLKKLRARSTYNLK  236 (242)
T ss_dssp             CCCTTTTTTSCCCSEEECTTSCCC-CCCSSSCTTCCEEESSSEESSS
T ss_pred             cccHHHhcCCCCCCEEECCCCcCC-ccCHHHHcCCcccccCcCCCCC
Confidence            9976 5789999999999999754 5554 45566666544444433

>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=99.46  E-value=1.8e-14  Score=114.02  Aligned_cols=175  Identities=17%  Similarity=0.157  Sum_probs=126.1

Q ss_pred             cCCCCccEEEccCCCCCccc-CCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc--CCccccCCCC
Q 041505           20 QNNPHIVVLNLRDCKSLKSL-PAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS--LPSGLCKLKL   95 (248)
Q Consensus        20 ~~l~~L~~L~l~~~~~~~~~-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~l~~l~~   95 (248)
                      ....+|++|++++|.+.+.. ...+ .+++|++|++++|......+..+..+++|++|++++|...+.  +..-...+++
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHh
Confidence            34568999999998755443 3334 899999999988877666677788899999999998765543  1222346899


Q ss_pred             CcEEeccCccCCcc--cc----cccCCCCceEecccCCcccc-cccccccCCCCcCeEEccCCc-Cc-ccchhhhccCCc
Q 041505           96 LNYLTLNCCSNLQR--LP----DELGNLEALWISREAGVISR-WLPENIGQLSSLGKLDLQKNN-FE-RIPESVIQLSKL  166 (248)
Q Consensus        96 L~~L~l~~~~~~~~--~~----~~~~~l~~L~l~~~~n~~~~-~~~~~l~~~~~L~~L~l~~n~-l~-~lp~~l~~~~~L  166 (248)
                      |++|++++|.....  +.    ...+.++.|++.++.....+ .+.....++++|++|++++|. ++ .....+..+++|
T Consensus       123 L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L  202 (284)
T d2astb2         123 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYL  202 (284)
T ss_dssp             CCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTC
T ss_pred             ccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcC
Confidence            99999999765421  11    12357889999875433332 244445778999999999875 54 455678889999


Q ss_pred             ceecccCcccccc-----CCCCCcccceeccccc
Q 041505          167 GRLYLRYWERLQS-----LPKLPCKLHELDAHHC  195 (248)
Q Consensus       167 ~~L~l~~n~~~~~-----l~~~~~~L~~L~l~~~  195 (248)
                      ++|++++|..++.     +. ..++|+.|++++|
T Consensus       203 ~~L~L~~C~~i~~~~l~~L~-~~~~L~~L~l~~~  235 (284)
T d2astb2         203 QHLSLSRCYDIIPETLLELG-EIPTLKTLQVFGI  235 (284)
T ss_dssp             CEEECTTCTTCCGGGGGGGG-GCTTCCEEECTTS
T ss_pred             CEEECCCCCCCChHHHHHHh-cCCCCCEEeeeCC
Confidence            9999999864432     22 2478999999887

>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=99.45  E-value=1.3e-12  Score=105.35  Aligned_cols=58  Identities=24%  Similarity=0.244  Sum_probs=45.1

Q ss_pred             cCCcceecccCccccccCCCCCcccceeccccccccccchhhcccccccccccccccccCcchhch
Q 041505          163 LSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGLFSSFEARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       163 ~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~~~~l~~l~~L~~l~l~~n~i~~~~  228 (248)
                      +++|++|++++|. +..+|..+++|+.|++++| .++.++.      .+++|++|++++|++...+
T Consensus       283 ~~~L~~L~Ls~N~-l~~lp~~~~~L~~L~L~~N-~L~~l~~------~~~~L~~L~L~~N~L~~lp  340 (353)
T d1jl5a_         283 PPSLEELNVSNNK-LIELPALPPRLERLIASFN-HLAEVPE------LPQNLKQLHVEYNPLREFP  340 (353)
T ss_dssp             CTTCCEEECCSSC-CSCCCCCCTTCCEEECCSS-CCSCCCC------CCTTCCEEECCSSCCSSCC
T ss_pred             CCCCCEEECCCCc-cCccccccCCCCEEECCCC-cCCcccc------ccCCCCEEECcCCcCCCCC
Confidence            4689999999996 4578888899999999887 4565543      2347899999999987653

>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=99.44  E-value=1.1e-12  Score=90.38  Aligned_cols=103  Identities=25%  Similarity=0.232  Sum_probs=59.8

Q ss_pred             cEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCc
Q 041505           26 VVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCC  104 (248)
Q Consensus        26 ~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  104 (248)
                      |+|++++|. +..++. + .++.|++|++++|. +..+|..++.+++|++|++++|.+. .+| .++.+++|++|++++|
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~~N   75 (124)
T d1dcea3           1 RVLHLAHKD-LTVLCH-LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNALE-NVD-GVANLPRLQELLLCNN   75 (124)
T ss_dssp             SEEECTTSC-CSSCCC-GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSCCC-CCG-GGTTCSSCCEEECCSS
T ss_pred             CEEEcCCCC-CCCCcc-cccCCCCCEEECCCCc-cCcchhhhhhhhccccccccccccc-ccC-ccccccccCeEECCCC
Confidence            466777766 444443 4 66677777775444 3456666666777777777765433 333 3666666777666664


Q ss_pred             cCCcccccccCCCCceEecccCCcccccccccccCCCCcCeEEccCCcCcc
Q 041505          105 SNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSSLGKLDLQKNNFER  155 (248)
Q Consensus       105 ~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~  155 (248)
                      .+..                    ..  ....++.+++|+.+++++|.++.
T Consensus        76 ~i~~--------------------~~--~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          76 RLQQ--------------------SA--AIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCCS--------------------SS--TTGGGGGCTTCCEEECTTSGGGG
T ss_pred             ccCC--------------------CC--CchhhcCCCCCCEEECCCCcCCc
Confidence            3320                    00  11335566677777777776643

>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=99.34  E-value=2.8e-12  Score=92.59  Aligned_cols=107  Identities=21%  Similarity=0.123  Sum_probs=72.8

Q ss_pred             ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEec
Q 041505           44 HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWIS  123 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~  123 (248)
                      ....+++|++++|. +..++..+..+++|++|++++|.+. .++ .+..+++|++|++++|.+                 
T Consensus        16 n~~~lr~L~L~~n~-I~~i~~~~~~l~~L~~L~Ls~N~i~-~l~-~~~~l~~L~~L~ls~N~i-----------------   75 (162)
T d1a9na_          16 NAVRDRELDLRGYK-IPVIENLGATLDQFDAIDFSDNEIR-KLD-GFPLLRRLKTLLVNNNRI-----------------   75 (162)
T ss_dssp             CTTSCEEEECTTSC-CCSCCCGGGGTTCCSEEECCSSCCC-EEC-CCCCCSSCCEEECCSSCC-----------------
T ss_pred             CcCcCcEEECCCCC-CCccCccccccccCCEEECCCCCCC-ccC-CcccCcchhhhhcccccc-----------------
Confidence            55677788885555 4455655567777888888876543 333 366677777777777433                 


Q ss_pred             ccCCcccccccccccCCCCcCeEEccCCcCcccch--hhhccCCcceecccCccc
Q 041505          124 REAGVISRWLPENIGQLSSLGKLDLQKNNFERIPE--SVIQLSKLGRLYLRYWER  176 (248)
Q Consensus       124 ~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp~--~l~~~~~L~~L~l~~n~~  176 (248)
                            ....+..+..+++|+.|++++|.++.++.  .+..+++|++|++++|++
T Consensus        76 ------~~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i  124 (162)
T d1a9na_          76 ------CRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPV  124 (162)
T ss_dssp             ------CEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGG
T ss_pred             ------cCCCccccccccccccceeccccccccccccccccccccchhhcCCCcc
Confidence                  22122334567889999999998877753  577888888888888864

>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=99.34  E-value=3.5e-12  Score=87.82  Aligned_cols=101  Identities=23%  Similarity=0.260  Sum_probs=80.7

Q ss_pred             cEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCc
Q 041505           49 KELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGV  128 (248)
Q Consensus        49 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~  128 (248)
                      |+|++++|++ +.++. +..+++|++|++++|.+ ..+|.+++.+++|++|++++|.+                      
T Consensus         1 R~L~Ls~n~l-~~l~~-l~~l~~L~~L~ls~N~l-~~lp~~~~~l~~L~~L~l~~N~i----------------------   55 (124)
T d1dcea3           1 RVLHLAHKDL-TVLCH-LEQLLLVTHLDLSHNRL-RALPPALAALRCLEVLQASDNAL----------------------   55 (124)
T ss_dssp             SEEECTTSCC-SSCCC-GGGGTTCCEEECCSSCC-CCCCGGGGGCTTCCEEECCSSCC----------------------
T ss_pred             CEEEcCCCCC-CCCcc-cccCCCCCEEECCCCcc-Ccchhhhhhhhcccccccccccc----------------------
Confidence            5789977765 45554 88999999999998754 57788888899999999988543                      


Q ss_pred             ccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCcccc
Q 041505          129 ISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERL  177 (248)
Q Consensus       129 ~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~  177 (248)
                       .. ++ .++.+++|+.+++++|+++.++  ..+..+++|++|++++|++.
T Consensus        56 -~~-l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          56 -EN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             -CC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             -cc-cC-ccccccccCeEECCCCccCCCCCchhhcCCCCCCEEECCCCcCC
Confidence             21 22 4778899999999999998776  36788999999999999764

>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=99.28  E-value=9.2e-13  Score=106.68  Aligned_cols=96  Identities=19%  Similarity=0.011  Sum_probs=51.4

Q ss_pred             chHhhhhhhcCCCCccEEEccCCCCCc----ccCCcc-ccCcccEEEcCCCCCcc---c-------cChhhhcccCCCEE
Q 041505           11 ELFSLYAFKQNNPHIVVLNLRDCKSLK----SLPAGI-HLEFLKELDLLNGTAIE---E-------LPSAIECLYKLLHL   75 (248)
Q Consensus        11 ~l~~l~~~l~~l~~L~~L~l~~~~~~~----~~~~~~-~l~~L~~L~l~~~~~~~---~-------~~~~~~~l~~L~~L   75 (248)
                      .+..+...+.....++.|++++|.+..    .+...+ ..+.|+.++++++....   .       +...+..+++|++|
T Consensus        19 ~~~~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L   98 (344)
T d2ca6a1          19 DEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTV   98 (344)
T ss_dssp             HHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEE
T ss_pred             HHHHHHHHHhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccc
Confidence            344455556666777777777765322    122233 55677777775543211   1       12224456667777


Q ss_pred             eccCCcCcCc----CCccccCCCCCcEEeccCccC
Q 041505           76 DLEYCESLNS----LPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        76 ~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      ++++|.+...    +...+...++|++|++++|.+
T Consensus        99 ~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l  133 (344)
T d2ca6a1          99 RLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGL  133 (344)
T ss_dssp             ECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             cccccccccccccchhhhhcccccchheecccccc
Confidence            7776654432    222334456677777766543

>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=99.23  E-value=1.9e-13  Score=102.19  Aligned_cols=81  Identities=15%  Similarity=0.110  Sum_probs=50.7

Q ss_pred             CCccEEEccCCC-CCcccCCcc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEe
Q 041505           23 PHIVVLNLRDCK-SLKSLPAGI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLT  100 (248)
Q Consensus        23 ~~L~~L~l~~~~-~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  100 (248)
                      ...+.+++++.. .+..++.++ .+++|++|++++|.+ ..++ .+.++++|++|++++|.+ ..+|.....+++|++|+
T Consensus        23 ~~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I-~~i~-~l~~l~~L~~L~Ls~N~i-~~i~~~~~~~~~L~~L~   99 (198)
T d1m9la_          23 TEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLI-KKIENLDAVADTLEELW   99 (198)
T ss_dssp             TTCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEEE-SCCC-CHHHHTTCCEEECCEEEE-CSCSSHHHHHHHCCEEE
T ss_pred             cccceeeeecccCchhhhhhHHhcccccceeECcccCC-CCcc-cccCCccccChhhccccc-ccccccccccccccccc
Confidence            345556665531 133444556 788888888866654 4555 377888888888887653 45554444456788887


Q ss_pred             ccCccC
Q 041505          101 LNCCSN  106 (248)
Q Consensus       101 l~~~~~  106 (248)
                      +++|.+
T Consensus       100 l~~N~i  105 (198)
T d1m9la_         100 ISYNQI  105 (198)
T ss_dssp             CSEEEC
T ss_pred             cccccc
Confidence            777544

>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=99.20  E-value=2.8e-10  Score=91.33  Aligned_cols=61  Identities=23%  Similarity=0.399  Sum_probs=51.1

Q ss_pred             CCCCcCeEEccCCcCcccchhhhccCCcceecccCccccccCCCCCcccceeccccccccccchhh
Q 041505          139 QLSSLGKLDLQKNNFERIPESVIQLSKLGRLYLRYWERLQSLPKLPCKLHELDAHHCTALESLSGL  204 (248)
Q Consensus       139 ~~~~L~~L~l~~n~l~~lp~~l~~~~~L~~L~l~~n~~~~~l~~~~~~L~~L~l~~~~~l~~~~~~  204 (248)
                      .+++|++|++++|+++.+|..   +++|+.|++++|.+ +.+|..+.+|++|++++|. ++.+|..
T Consensus       282 ~~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~L~~N~L-~~l~~~~~~L~~L~L~~N~-L~~lp~~  342 (353)
T d1jl5a_         282 LPPSLEELNVSNNKLIELPAL---PPRLERLIASFNHL-AEVPELPQNLKQLHVEYNP-LREFPDI  342 (353)
T ss_dssp             CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCC-SCCCCCCTTCCEEECCSSC-CSSCCCC
T ss_pred             cCCCCCEEECCCCccCccccc---cCCCCEEECCCCcC-CccccccCCCCEEECcCCc-CCCCCcc
Confidence            357899999999999999854   67899999999964 5788888899999999985 7777653

>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=99.09  E-value=3.5e-11  Score=97.18  Aligned_cols=213  Identities=15%  Similarity=0.029  Sum_probs=141.9

Q ss_pred             HhhhhhhcCCCCccEEEccCCCCCc---c-------cCCcc-ccCcccEEEcCCCCCccc----cChhhhcccCCCEEec
Q 041505           13 FSLYAFKQNNPHIVVLNLRDCKSLK---S-------LPAGI-HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDL   77 (248)
Q Consensus        13 ~~l~~~l~~l~~L~~L~l~~~~~~~---~-------~~~~~-~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l   77 (248)
                      ..+...+...++|+.++++++....   .       +...+ .+++|++|++++|.+...    +...+...++|++|++
T Consensus        49 ~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l  128 (344)
T d2ca6a1          49 RWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYL  128 (344)
T ss_dssp             HHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEEC
T ss_pred             HHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccccccchhhhhcccccchheec
Confidence            3455567778999999999874221   1       12223 578999999988876443    4455677899999999


Q ss_pred             cCCcCcCcCC----c---------cccCCCCCcEEeccCccCCccc----c---cccCCCCceEecccCCccccc-----
Q 041505           78 EYCESLNSLP----S---------GLCKLKLLNYLTLNCCSNLQRL----P---DELGNLEALWISREAGVISRW-----  132 (248)
Q Consensus        78 ~~~~~~~~~~----~---------~l~~l~~L~~L~l~~~~~~~~~----~---~~~~~l~~L~l~~~~n~~~~~-----  132 (248)
                      ++|.+...-.    .         .....+.|+.+++++|.+....    .   .....++.+++..  +.+...     
T Consensus       129 ~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~--n~i~~~g~~~~  206 (344)
T d2ca6a1         129 HNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQ--NGIRPEGIEHL  206 (344)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCS--SCCCHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhccccccc--ccccccccccc
Confidence            9876532111    0         1134568999999887654322    1   2345788999888  434321     


Q ss_pred             ccccccCCCCcCeEEccCCcCc-----ccchhhhccCCcceecccCcccccc--------CCC-CCcccceecccccccc
Q 041505          133 LPENIGQLSSLGKLDLQKNNFE-----RIPESVIQLSKLGRLYLRYWERLQS--------LPK-LPCKLHELDAHHCTAL  198 (248)
Q Consensus       133 ~~~~l~~~~~L~~L~l~~n~l~-----~lp~~l~~~~~L~~L~l~~n~~~~~--------l~~-~~~~L~~L~l~~~~~l  198 (248)
                      +...+..+++|+.|++++|.++     .+...+..+++|++|++++|.+...        +.. ....|++|+++++. +
T Consensus       207 l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~-i  285 (344)
T d2ca6a1         207 LLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-I  285 (344)
T ss_dssp             HHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-C
T ss_pred             hhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCc-C
Confidence            3345778899999999999884     3445677899999999999975321        111 12679999999874 3


Q ss_pred             ccchh--hccccc-ccccccccccccCcchhch
Q 041505          199 ESLSG--LFSSFE-ARTRYFDLRYNYNWIEMRS  228 (248)
Q Consensus       199 ~~~~~--~~~~l~-~l~~L~~l~l~~n~i~~~~  228 (248)
                      .....  -...+. +.+.|+.+++++|+|..++
T Consensus       286 ~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~~~  318 (344)
T d2ca6a1         286 ELDAVRTLKTVIDEKMPDLLFLELNGNRFSEED  318 (344)
T ss_dssp             BHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTS
T ss_pred             ChHHHHHHHHHHHccCCCCCEEECCCCcCCCcc
Confidence            33211  112221 5678999999999997764

>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=99.08  E-value=3e-12  Score=95.51  Aligned_cols=125  Identities=23%  Similarity=0.278  Sum_probs=90.8

Q ss_pred             cccEEEcCCC-CCccccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCCccccc---ccCCCCceEe
Q 041505           47 FLKELDLLNG-TAIEELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNLQRLPD---ELGNLEALWI  122 (248)
Q Consensus        47 ~L~~L~l~~~-~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~l~~L~l  122 (248)
                      ..+.+++++. ..+..++..+..+++|++|++++|.+. .++ .+..+++|++|++++|.+. .+|.   ..+.++.|++
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I~-~i~-~l~~l~~L~~L~Ls~N~i~-~i~~~~~~~~~L~~L~l  100 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIE-KIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWI  100 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEEES-CCC-CHHHHTTCCEEECCEEEEC-SCSSHHHHHHHCCEEEC
T ss_pred             ccceeeeecccCchhhhhhHHhcccccceeECcccCCC-Ccc-cccCCccccChhhcccccc-ccccccccccccccccc
Confidence            3455666433 234566778999999999999997654 554 5888999999999997654 4443   2346778888


Q ss_pred             cccCCcccccccccccCCCCcCeEEccCCcCcccc--hhhhccCCcceecccCccccc
Q 041505          123 SREAGVISRWLPENIGQLSSLGKLDLQKNNFERIP--ESVIQLSKLGRLYLRYWERLQ  178 (248)
Q Consensus       123 ~~~~n~~~~~~~~~l~~~~~L~~L~l~~n~l~~lp--~~l~~~~~L~~L~l~~n~~~~  178 (248)
                      .+  |.+.. + ..+..+++|+.|++++|+++.++  ..+..+++|+.|++++|++..
T Consensus       101 ~~--N~i~~-l-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_         101 SY--NQIAS-L-SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             SE--EECCC-H-HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHH
T ss_pred             cc--ccccc-c-ccccccccccccccccchhccccccccccCCCccceeecCCCcccc
Confidence            87  54552 3 34777888889999988887775  357788888888888886543

>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=99.04  E-value=6.8e-10  Score=79.25  Aligned_cols=82  Identities=17%  Similarity=0.037  Sum_probs=54.6

Q ss_pred             CccEEEccCCCCCcccCCcc-ccCcccEEEcCCCCCccccC-hhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEec
Q 041505           24 HIVVLNLRDCKSLKSLPAGI-HLEFLKELDLLNGTAIEELP-SAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTL  101 (248)
Q Consensus        24 ~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l  101 (248)
                      ....++.+++. ....|..+ .+++|++|++++++.++.++ .+|.++++|+.|++++|.+....+.++..+++|++|++
T Consensus         9 ~~~~l~c~~~~-~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L   87 (156)
T d2ifga3           9 GSSGLRCTRDG-ALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             SSSCEECCSSC-CCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             CCCeEEecCCC-CccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            34556666655 44556666 77777888776666555555 45777777777777776655555666777777777777


Q ss_pred             cCccC
Q 041505          102 NCCSN  106 (248)
Q Consensus       102 ~~~~~  106 (248)
                      ++|.+
T Consensus        88 s~N~l   92 (156)
T d2ifga3          88 SFNAL   92 (156)
T ss_dssp             CSSCC
T ss_pred             cCCCC
Confidence            77543

>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=99.04  E-value=3.2e-11  Score=100.28  Aligned_cols=101  Identities=22%  Similarity=0.207  Sum_probs=55.6

Q ss_pred             chhhccchHhhh--hhhcCCCCccEEEccCCCCCc----ccCCcc-ccCcccEEEcCCCCCccc----cChhhh-cccCC
Q 041505            5 VDDHALELFSLY--AFKQNNPHIVVLNLRDCKSLK----SLPAGI-HLEFLKELDLLNGTAIEE----LPSAIE-CLYKL   72 (248)
Q Consensus         5 ~~~~~~~l~~l~--~~l~~l~~L~~L~l~~~~~~~----~~~~~~-~l~~L~~L~l~~~~~~~~----~~~~~~-~l~~L   72 (248)
                      ++++|+++....  +-+..++++++|++++|.+..    .+...+ .+++|++|++++|.+...    +...+. ...+|
T Consensus         7 ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L   86 (460)
T d1z7xw1           7 LDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKI   86 (460)
T ss_dssp             EEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCC
T ss_pred             EEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCC
Confidence            344666664432  334556777777777776432    223334 567777777766554321    111111 12457


Q ss_pred             CEEeccCCcCcCc----CCccccCCCCCcEEeccCcc
Q 041505           73 LHLDLEYCESLNS----LPSGLCKLKLLNYLTLNCCS  105 (248)
Q Consensus        73 ~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~  105 (248)
                      ++|++++|.+...    ++..+..+++|++|++++|.
T Consensus        87 ~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          87 QKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             CEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CEEECCCCCccccccccccchhhcccccccccccccc
Confidence            7777777655432    23445666777777777654

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=1.1e-09  Score=78.01  Aligned_cols=98  Identities=16%  Similarity=0.111  Sum_probs=77.6

Q ss_pred             hccchHhhhhhhcCCCCccEEEccCCCCCcccCC-cc-ccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc
Q 041505            8 HALELFSLYAFKQNNPHIVVLNLRDCKSLKSLPA-GI-HLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS   85 (248)
Q Consensus         8 ~~~~l~~l~~~l~~l~~L~~L~l~~~~~~~~~~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~   85 (248)
                      ..+.+.+.|..+..+++|++|+++++..+..++. .+ ++++|+.|++++|.+...-|.+|.++++|++|++++|.+. .
T Consensus        16 ~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~-~   94 (156)
T d2ifga3          16 TRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALE-S   94 (156)
T ss_dssp             CSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCS-C
T ss_pred             cCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCCCc-c
Confidence            4455667777888899999999987765666654 46 8999999999777765544677999999999999997654 6


Q ss_pred             CCccccCCCCCcEEeccCccC
Q 041505           86 LPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        86 ~~~~l~~l~~L~~L~l~~~~~  106 (248)
                      +|..+....+|+.|++++|.+
T Consensus        95 l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          95 LSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CCSTTTCSCCCCEEECCSSCC
T ss_pred             cChhhhccccccccccCCCcc
Confidence            666666666899999999755

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=2.6e-08  Score=82.27  Aligned_cols=189  Identities=20%  Similarity=0.117  Sum_probs=91.0

Q ss_pred             ccCcccEEEcCCCCCccc-----cChhhhcccCCCEEeccCCcCcCc----CCccccCCCCCcEEeccCccCCccc----
Q 041505           44 HLEFLKELDLLNGTAIEE-----LPSAIECLYKLLHLDLEYCESLNS----LPSGLCKLKLLNYLTLNCCSNLQRL----  110 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~----  110 (248)
                      ..+.++.++++++.....     .+........++.+++++|.+...    ....+...+.++.+++++|.+....    
T Consensus       224 ~~~~~~~l~~~~n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l  303 (460)
T d1z7xw1         224 SKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLL  303 (460)
T ss_dssp             HCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHH
T ss_pred             ccccccccchhhccccccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccchh
Confidence            345555666644443221     112223345566666665543321    1122334455666666555432111    


Q ss_pred             ----ccccCCCCceEecccCCccccc----ccccccCCCCcCeEEccCCcCc-----ccchhhh-ccCCcceecccCccc
Q 041505          111 ----PDELGNLEALWISREAGVISRW----LPENIGQLSSLGKLDLQKNNFE-----RIPESVI-QLSKLGRLYLRYWER  176 (248)
Q Consensus       111 ----~~~~~~l~~L~l~~~~n~~~~~----~~~~l~~~~~L~~L~l~~n~l~-----~lp~~l~-~~~~L~~L~l~~n~~  176 (248)
                          ......++.+++..+  .....    +...+...++|++|++++|.++     .++..+. ..+.|++|++++|.+
T Consensus       304 ~~~l~~~~~~L~~l~l~~~--~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i  381 (460)
T d1z7xw1         304 CETLLEPGCQLESLWVKSC--SFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDV  381 (460)
T ss_dssp             HHHHTSTTCCCCEEECTTS--CCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCC
T ss_pred             hcccccccccccccccccc--chhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCC
Confidence                112223455555552  22211    1222344556777777777663     2233332 345577777777754


Q ss_pred             cc----cCCCC---Ccccceeccccccccccchh-h-ccccc-ccccccccccccCcchhchHHHHHHH
Q 041505          177 LQ----SLPKL---PCKLHELDAHHCTALESLSG-L-FSSFE-ARTRYFDLRYNYNWIEMRSEEFLKML  235 (248)
Q Consensus       177 ~~----~l~~~---~~~L~~L~l~~~~~l~~~~~-~-~~~l~-~l~~L~~l~l~~n~i~~~~~~~~~~l  235 (248)
                      ..    .++..   .++|++|+++++ .+..... . ...+. ...+|+.+++..+.+..+..+.+..+
T Consensus       382 ~~~~~~~l~~~l~~~~~L~~L~Ls~N-~i~~~g~~~l~~~l~~~~~~L~~l~l~~~~~~~~~~~~l~~l  449 (460)
T d1z7xw1         382 SDSSCSSLAATLLANHSLRELDLSNN-CLGDAGILQLVESVRQPGCLLEQLVLYDIYWSEEMEDRLQAL  449 (460)
T ss_dssp             CHHHHHHHHHHHHHCCCCCEEECCSS-SCCHHHHHHHHHHHTSTTCCCCEEECTTCCCCHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHhcCCCCCEEECCCC-cCCHHHHHHHHHHHHhCCCccCEEECCCCCCCHHHHHHHHHH
Confidence            21    11111   256777777665 2222111 0 01111 22368899999999988777777766

>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=98.11  E-value=2.6e-07  Score=65.85  Aligned_cols=94  Identities=18%  Similarity=0.082  Sum_probs=48.8

Q ss_pred             ccchHhhhhhhcCC--CCccEEEccCCCCCcccCCccccCcccEEEcCCCCCccccChhhhcccCCCEEeccCCcCcCc-
Q 041505            9 ALELFSLYAFKQNN--PHIVVLNLRDCKSLKSLPAGIHLEFLKELDLLNGTAIEELPSAIECLYKLLHLDLEYCESLNS-   85 (248)
Q Consensus         9 ~~~l~~l~~~l~~l--~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-   85 (248)
                      ...++.++..+...  ...+.|++++......+.   .+..+..++. .++....++.....+++|++|++++|.+... 
T Consensus         6 ~~~ie~l~~~l~~~~~~~~~~Ldls~l~~~~~l~---~~~~~~~l~~-~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~l~   81 (162)
T d1koha1           6 PEQVEQLKLIMSKRYDGSQQALDLKGLRSDPDLV---AQNIDVVLNR-RSSMAATLRIIEENIPELLSLNLSNNRLYRLD   81 (162)
T ss_dssp             HHHHHHHHHHHHTTBCSSSCCBCCCCCSSCTTTT---TTTCCCCTTS-HHHHHHHHHHHHHHCTTCCCCCCCSSCCCCCS
T ss_pred             HHHHHHHHHHHHhhcchhhCeeecccCCCCchhh---hccchhhcch-hhhHhhhhHHHHHhCCCCCEeeCCCccccCCc
Confidence            34556666554432  356667777654222111   2233333333 2222333344456678888888888765432 


Q ss_pred             -CCccccCCCCCcEEeccCccC
Q 041505           86 -LPSGLCKLKLLNYLTLNCCSN  106 (248)
Q Consensus        86 -~~~~l~~l~~L~~L~l~~~~~  106 (248)
                       ++..+..+++|+.|++++|.+
T Consensus        82 ~~~~~~~~l~~L~~L~Ls~N~i  103 (162)
T d1koha1          82 DMSSIVQKAPNLKILNLSGNEL  103 (162)
T ss_dssp             GGGTHHHHSTTCCCCCCTTSCC
T ss_pred             hhHHHHhhCCcccccccccCcc
Confidence             233345567777777776443

>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=98.07  E-value=8.7e-07  Score=63.02  Aligned_cols=64  Identities=22%  Similarity=0.064  Sum_probs=28.9

Q ss_pred             ccCcccEEEcCCCCCcc--ccChhhhcccCCCEEeccCCcCcCcCCccccCCCCCcEEeccCccCC
Q 041505           44 HLEFLKELDLLNGTAIE--ELPSAIECLYKLLHLDLEYCESLNSLPSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      .++.|++|++++|.+..  .++..+..+++|+.|++++|.+...-+.......+|+.+++++|...
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            35555555554444322  12233445555555555554433221111222334555555555443

>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=97.88  E-value=5.5e-06  Score=58.99  Aligned_cols=17  Identities=6%  Similarity=0.006  Sum_probs=8.3

Q ss_pred             cccCCCCcCeEEccCCc
Q 041505          136 NIGQLSSLGKLDLQKNN  152 (248)
Q Consensus       136 ~l~~~~~L~~L~l~~n~  152 (248)
                      ++...+.|++|++++|+
T Consensus        95 aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          95 STLVTQSIVEFKADNQR  111 (167)
T ss_dssp             HTTTTCCCSEEECCCCS
T ss_pred             HHHhCCcCCEEECCCCc
Confidence            34444455555555443

>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=97.33  E-value=5e-05  Score=53.68  Aligned_cols=60  Identities=15%  Similarity=0.312  Sum_probs=26.2

Q ss_pred             CCCCccEEEccCCCCCc-c----cCCcc-ccCcccEEEcCCCCCccc----cChhhhcccCCCEEeccCC
Q 041505           21 NNPHIVVLNLRDCKSLK-S----LPAGI-HLEFLKELDLLNGTAIEE----LPSAIECLYKLLHLDLEYC   80 (248)
Q Consensus        21 ~l~~L~~L~l~~~~~~~-~----~~~~~-~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~   80 (248)
                      ..+.|++|+++++.-++ .    +...+ ..++|++|++++|.....    +...+...+.++.+++++|
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~   84 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN   84 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccc
Confidence            44566666666532122 1    12222 345555555555543322    1222334444555555443

>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=97.28  E-value=6.8e-05  Score=53.08  Aligned_cols=88  Identities=16%  Similarity=0.128  Sum_probs=48.4

Q ss_pred             cccCCCEEeccCCcCcC-c----CCccccCCCCCcEEeccCccCCcccccccCCCCceEecccCCcccccccccccCCCC
Q 041505           68 CLYKLLHLDLEYCESLN-S----LPSGLCKLKLLNYLTLNCCSNLQRLPDELGNLEALWISREAGVISRWLPENIGQLSS  142 (248)
Q Consensus        68 ~l~~L~~L~l~~~~~~~-~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~l~~~~n~~~~~~~~~l~~~~~  142 (248)
                      +.++|++|+++++...+ +    +...+...+.|+.|++++|.+..                   .....+...+...+.
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~-------------------~~~~~la~~L~~n~~   73 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISD-------------------SEARGLIELIETSPS   73 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBH-------------------HHHTTHHHHHHHCSS
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccch-------------------hHHHHHhhhhhhccc
Confidence            34566666665432221 1    22234455667777776654321                   111123445566677


Q ss_pred             cCeEEccCCcCcc-----cchhhhccCCcceecccCc
Q 041505          143 LGKLDLQKNNFER-----IPESVIQLSKLGRLYLRYW  174 (248)
Q Consensus       143 L~~L~l~~n~l~~-----lp~~l~~~~~L~~L~l~~n  174 (248)
                      |+.|++++|.++.     +...+...+.|++|++.+|
T Consensus        74 L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          74 LRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             CCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             ccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            8888888887742     2234555667777777666

>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=97.12  E-value=0.00017  Score=50.77  Aligned_cols=64  Identities=16%  Similarity=0.016  Sum_probs=45.2

Q ss_pred             ccCcccEEEcCCCCCcc-----ccChhhhcccCCCEEeccCCcCcCcC----CccccCCCCCcEEeccCccCC
Q 041505           44 HLEFLKELDLLNGTAIE-----ELPSAIECLYKLLHLDLEYCESLNSL----PSGLCKLKLLNYLTLNCCSNL  107 (248)
Q Consensus        44 ~l~~L~~L~l~~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~~----~~~l~~l~~L~~L~l~~~~~~  107 (248)
                      ..+.|++|++++++.++     .+..++...++|++|++++|.+....    ...+...+.++.+++.+|...
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~   87 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFIS   87 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCC
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhcccccc
Confidence            56899999997654332     23444667899999999998665432    234455688999999887654