Citrus Sinensis ID: 040556

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------13
Protein Sequence
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
Secondary Structure (PSIPRED)
cccccEEEccccccccccccccccccccEEccccccccccccccccccccccEEEcccccccccccHHHHccccccEEccccccccccccccccccccccEEccccccccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
ccccEEEEcccccHHccccHHHcHHHccEEEcccccHHHHccHHHccHHHHHEEEcccccHHHHccccHHcHHHHHEEccccccHHHccccHHHHHHHHHEEcccccHHHHHcccHHHcHHHHHEccc
Coil and Loop (DISEMBL)
MKFLQELlldgtdikglPLSIVLLSGIVQldlkgcknisCLSNFISALKFLSTlnlsdgtaIRELSLSVELLTGLVVLNLKdwqylsslpstingLKSLKIlnlsscsklenvpenlgkvesleeldi
Flexible Loop (DISEMBL)
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSklenvpenlgkvesleeldi
Low Complexity Region (SEG)
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
Disordered region (IsUnstruct)
***LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSC*********************
Disordered Region (DISOPRED)
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
Disordered Region (DISEMBL)
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
Disordered Region (DISPRO)
*KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI
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	128	2.2.26 [Sep-21-2011]
Q9FKZ1	809	Probable disease resistan	no	no	0.804	0.127	0.295	2e-06
Q40392	1144	TMV resistance protein N	N/A	no	0.875	0.097	0.327	4e-06
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.820	0.055	0.357	4e-06
Q9LZ25	811	Probable disease resistan	no	no	0.703	0.110	0.316	5e-06
Q5M8G4	605	Leucine-rich repeat-conta	yes	no	0.929	0.196	0.373	7e-06
Q9SZA7	816	Probable disease resistan	no	no	0.773	0.121	0.323	1e-05
Q6GPJ5	605	Leucine-rich repeat-conta	N/A	no	0.929	0.196	0.357	4e-05
Q9FKZ0	815	Probable disease resistan	no	no	0.804	0.126	0.276	4e-05
Q8VZG8	1045	Probable LRR receptor-lik	no	no	0.953	0.116	0.300	4e-05
P0CB16	1201	Putative disease resistan	no	no	0.976	0.104	0.335	4e-05

>sp|Q9FKZ1|DRL42_ARATH Probable disease resistance protein At5g66900 OS=Arabidopsis thaliana GN=At5g66900 PE=3 SV=1

 Score = 51.6 bits (122), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/105 (29%), Positives = 62/105 (59%)

Query: 24  LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW 83
           LS + ++D+  C ++  L  +IS +  L TL++++   + +L  ++  L+ L VL L   
Sbjct: 648 LSKLQEIDIDYCYDLDELPYWISEIVSLKTLSITNCNKLSQLPEAIGNLSRLEVLRLCSS 707

Query: 84  QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
             LS LP    GL +L+ L++S C  L  +P+ +GK+++L+++ +
Sbjct: 708 MNLSELPEATEGLSNLRFLDISHCLGLRKLPQEIGKLQNLKKISM 752

Probable disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 67/122 (54%), Gaps = 10/122 (8%)

Query: 10  DGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSV 69
           D   +K  P   V +  +  L L+ C ++  L      +K    +++  G+ IREL  S+
Sbjct: 675 DCKSLKRFP--CVNVESLEYLGLRSCDSLEKLPEIYGRMKPEIQIHMQ-GSGIRELPSSI 731

Query: 70  ----ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEE 125
                 +T L++ N+K+   L +LPS+I  LKSL  L++S CSKLE++PE +G +++L  
Sbjct: 732 FQYKTHVTKLLLWNMKN---LVALPSSICRLKSLVSLSVSGCSKLESLPEEIGDLDNLRV 788

Query: 126 LD 127
            D
Sbjct: 789 FD 790

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 = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/109 (35%), Positives = 63/109 (57%), Gaps = 4/109 (3%)

Query: 20   SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN 79
            S+V L  +  L+L GC   S L NF      +  L +  GT I+E+  S++ L  L  L+
Sbjct: 1323 SMVDLESLEVLNLSGC---SKLGNFPEISPNVKELYMG-GTMIQEIPSSIKNLVLLEKLD 1378

Query: 80   LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
            L++ ++L +LP++I  LK L+ LNLS C  LE  P++  +++ L  LD+
Sbjct: 1379 LENSRHLKNLPTSIYKLKHLETLNLSGCISLERFPDSSRRMKCLRFLDL 1427

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

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 58/98 (59%)

Query: 30  LDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSL 89
           L +  C ++  L + I  +  L+++++++   I+EL  ++  L  L +L L     L+SL
Sbjct: 656 LTIDHCDDLLELPSTICGITSLNSISITNCPRIKELPKNLSKLKALQLLRLYACHELNSL 715

Query: 90  PSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD 127
           P  I  L  LK +++S C  L ++PE +GKV++LE++D
Sbjct: 716 PVEICELPRLKYVDISQCVSLSSLPEKIGKVKTLEKID 753

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5M8G4|LRC40_XENTR Leucine-rich repeat-containing protein 40 OS=Xenopus tropicalis GN=lrrc40 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 46/123 (37%), Positives = 71/123 (57%), Gaps = 4/123 (3%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           LQ+L +    IK LP  +  L  +  L L+  + +  L + I  L  L  L++S+   +R
Sbjct: 130 LQKLNISHNKIKQLPKELQHLQNLKSLLLQHNQ-LEELPDSIGHLSILEELDVSNN-CLR 187

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
            +S SV  LTGLV  NL     L++LP+ I  +K+LK L+ +S + LENVP ++  +ESL
Sbjct: 188 SISSSVGQLTGLVKFNLSS-NKLTALPTEIGKMKNLKQLDCTS-NLLENVPASVAGMESL 245

Query: 124 EEL 126
           E+L
Sbjct: 246 EQL 248

Xenopus tropicalis (taxid: 8364)

>sp|Q9SZA7|DRL29_ARATH Probable disease resistance protein At4g33300 OS=Arabidopsis thaliana GN=At4g33300 PE=2 SV=3

 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 54/99 (54%)

Query: 30  LDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSL 89
           L +  C ++  L + I  L  LS L++++   + EL  ++  L  L +L L     L +L
Sbjct: 661 LTIDHCDDLVALPSSICGLTSLSCLSITNCPRLGELPKNLSKLQALEILRLYACPELKTL 720

Query: 90  PSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
           P  I  L  LK L++S C  L  +PE +GK++ LE++D+
Sbjct: 721 PGEICELPGLKYLDISQCVSLSCLPEEIGKLKKLEKIDM 759

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6GPJ5|LRC40_XENLA Leucine-rich repeat-containing protein 40 OS=Xenopus laevis GN=lrrc40 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 44/123 (35%), Positives = 70/123 (56%), Gaps = 4/123 (3%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           LQ+L +    IK LP  +  L  +    L+  + +  L + I  L  L  L++S+   +R
Sbjct: 130 LQKLNISHNKIKQLPNELQHLQNLKSFLLQHNQ-LEELPDSIGHLSILEELDVSNN-CLR 187

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
            +S SV  LTGLV  NL     L++LP+ I  +K+L+ L+ +S + LENVP ++  +ESL
Sbjct: 188 SVSSSVGQLTGLVKFNLSS-NKLTALPTEIGKMKNLRQLDCTS-NLLENVPASVAGMESL 245

Query: 124 EEL 126
           E+L
Sbjct: 246 EQL 248

Xenopus laevis (taxid: 8355)

>sp|Q9FKZ0|DRL43_ARATH Probable disease resistance protein At5g66910 OS=Arabidopsis thaliana GN=At5g66910 PE=2 SV=1

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/105 (27%), Positives = 58/105 (55%)

Query: 24  LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW 83
           LS + ++D+  C ++  L  +I  +  L TL++++   + +L  ++  L+ L VL +   
Sbjct: 654 LSNLQEIDIDYCYDLDELPYWIPEVVSLKTLSITNCNKLSQLPEAIGNLSRLEVLRMCSC 713

Query: 84  QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
             LS LP     L +L+ L++S C  L  +P+ +GK++ LE + +
Sbjct: 714 MNLSELPEATERLSNLRSLDISHCLGLRKLPQEIGKLQKLENISM 758

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8VZG8|Y4885_ARATH Probable LRR receptor-like serine/threonine-protein kinase At4g08850 OS=Arabidopsis thaliana GN=At4g08850 PE=1 SV=3

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 60/123 (48%), Gaps = 1/123 (0%)

Query: 7   LLLDGTDIKG-LPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL 65
            +L    I G +P  I  ++ + QLDL   +    L   IS +  +S L L+      ++
Sbjct: 483 FILSNNSITGAIPPEIWNMTQLSQLDLSSNRITGELPESISNINRISKLQLNGNRLSGKI 542

Query: 66  SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEE 125
              + LLT L  L+L   ++ S +P T+N L  L  +NLS     + +PE L K+  L+ 
Sbjct: 543 PSGIRLLTNLEYLDLSSNRFSSEIPPTLNNLPRLYYMNLSRNDLDQTIPEGLTKLSQLQM 602

Query: 126 LDI 128
           LD+
Sbjct: 603 LDL 605

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 7

EC: .

EC: 1

EC: 1

EC: .

EC: 1

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

 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 68/128 (53%), Gaps = 3/128 (2%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           M +L E+ L  T++  LP  I  LS + +L ++ C  +  L N +  L  L   ++S  T
Sbjct: 748 MSYLHEVNLSETNLSELPDKISELSNLKELIIRKCSKLKTLPN-LEKLTNLEIFDVSGCT 806

Query: 61  AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV 120
            +  +  S E L+ L  +NL +   L  LP+ I+ L +LK L L +CSKL+ +P NL K+
Sbjct: 807 ELETIEGSFENLSCLHKVNLSETN-LGELPNKISELSNLKELILRNCSKLKALP-NLEKL 864

Query: 121 ESLEELDI 128
             L   D+
Sbjct: 865 THLVIFDV 872

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	128
147802475	1244	hypothetical protein VITISV_027841 [Viti	0.984	0.101	0.436	2e-19
224146780	540	predicted protein [Populus trichocarpa]	0.937	0.222	0.471	7e-17
224127726	1203	tir-nbs-lrr resistance protein [Populus	0.937	0.099	0.471	8e-17
359493273	1233	PREDICTED: TMV resistance protein N-like	0.984	0.102	0.42	1e-16
359496026	1250	PREDICTED: TMV resistance protein N-like	0.960	0.098	0.431	1e-16
451798990	1335	TMV resistance protein N-like protein 7	0.992	0.095	0.42	8e-16
296090591	771	unnamed protein product [Vitis vinifera]	0.945	0.156	0.430	2e-15
224114331	1119	tir-nbs-lrr resistance protein [Populus	0.929	0.106	0.454	2e-15
359493293	1640	PREDICTED: TMV resistance protein N-like	0.984	0.076	0.416	5e-15
296081002	599	unnamed protein product [Vitis vinifera]	0.890	0.190	0.416	6e-15

>gi|147802475|emb|CAN61853.1| hypothetical protein VITISV_027841 [Vitis vinifera]

 Score =  100 bits (248), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 65/149 (43%), Positives = 88/149 (59%), Gaps = 23/149 (15%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS--- 57
           M+ L EL LDGT I  LP SI  L+G++ LDL+ CK +  L + I  LK L TL LS   
Sbjct: 623 MQHLSELYLDGTAISELPFSIGYLTGLILLDLENCKRLKSLPSSICKLKSLETLILSACS 682

Query: 58  --------------------DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLK 97
                               DGTA+++L  S+E L GLV LNL+D + L++LP +I  LK
Sbjct: 683 KLESFPEIMENMEHLKKLLLDGTALKQLHPSIEHLNGLVSLNLRDCKNLATLPCSIGNLK 742

Query: 98  SLKILNLSSCSKLENVPENLGKVESLEEL 126
           SL+ L +S CSKL+ +PENLG ++ L +L
Sbjct: 743 SLETLIVSGCSKLQQLPENLGSLQCLVKL 771

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146780|ref|XP_002336335.1| predicted protein [Populus trichocarpa] gi|222834747|gb|EEE73210.1| predicted protein [Populus trichocarpa]

 Score = 92.0 bits (227), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 57/121 (47%), Positives = 76/121 (62%), Gaps = 1/121 (0%)

Query: 8   LLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSL 67
           L+D   +  LP  I  L+ + +L L GC  +          K L  L L D T+I EL  
Sbjct: 23  LMDCESLTSLPSRISGLNLLEELHLSGCSKLKEFPEIEGNKKCLRKLCL-DQTSIEELPP 81

Query: 68  SVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD 127
           S++ L GL+ L+LKD + LS LPS+INGLKSLK L+LS CS+LEN+PEN G++E L ELD
Sbjct: 82  SIQYLVGLISLSLKDCKKLSCLPSSINGLKSLKTLHLSGCSELENLPENFGQLECLNELD 141

Query: 128 I 128
           +
Sbjct: 142 V 142

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127726|ref|XP_002329162.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870943|gb|EEF08074.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score = 91.7 bits (226), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 57/121 (47%), Positives = 76/121 (62%), Gaps = 1/121 (0%)

Query: 8   LLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSL 67
           L+D   +  LP  I  L+ + +L L GC  +          K L  L L D T+I EL  
Sbjct: 696 LMDCESLTSLPSRISGLNLLEELHLSGCSKLKEFPEIEGNKKCLRKLCL-DQTSIEELPP 754

Query: 68  SVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD 127
           S++ L GL+ L+LKD + LS LPS+INGLKSLK L+LS CS+LEN+PEN G++E L ELD
Sbjct: 755 SIQYLVGLISLSLKDCKKLSCLPSSINGLKSLKTLHLSGCSELENLPENFGQLECLNELD 814

Query: 128 I 128
           +
Sbjct: 815 V 815

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493273|ref|XP_002272034.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score = 91.3 bits (225), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 63/150 (42%), Positives = 88/150 (58%), Gaps = 24/150 (16%)

Query: 1   MKFLQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS-- 57
           M  L+ L+L+G T I  LP SI  L+G++ LDL+ CK +  L + I  LK L TL LS  
Sbjct: 654 MPNLERLVLEGCTTISELPFSIGYLTGLILLDLENCKRLKSLPSSICKLKSLETLILSAC 713

Query: 58  ---------------------DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGL 96
                                DGTA+++L  S+E L GLV LNL+D + L++LP +I  L
Sbjct: 714 SKLESFPEIMENMEHLKKLLLDGTALKQLHPSIEHLNGLVSLNLRDCKNLATLPCSIGNL 773

Query: 97  KSLKILNLSSCSKLENVPENLGKVESLEEL 126
           KSL+ L +S CSKL+ +PENLG ++ L +L
Sbjct: 774 KSLETLIVSGCSKLQQLPENLGSLQCLVKL 803

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496026|ref|XP_002277166.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score = 91.3 bits (225), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 63/146 (43%), Positives = 87/146 (59%), Gaps = 23/146 (15%)

Query: 4   LQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISC--------------------LS 42
           L+ L+ +G TD++ +  S+ +LS ++ L+LK CKN+ C                    L 
Sbjct: 675 LERLIFEGCTDLREVHQSLGVLSKLIFLNLKDCKNLQCFPSSIELESLKVLILSGCSKLD 734

Query: 43  NFISALKFLSTLN--LSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLK 100
           NF   L+ +  L     DGTAI+EL LSVE L GLV+LNL++ + L +LPS+I  LKSL 
Sbjct: 735 NFPEILENMEGLRELFLDGTAIKELPLSVEHLNGLVLLNLRNCERLITLPSSICNLKSLS 794

Query: 101 ILNLSSCSKLENVPENLGKVESLEEL 126
            L LS CS+LE +PENLG +E L EL
Sbjct: 795 TLTLSGCSQLEKLPENLGNLECLVEL 820

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|451798990|gb|AGF69193.1| TMV resistance protein N-like protein 7 [Vitis labrusca]

 Score = 88.6 bits (218), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 63/150 (42%), Positives = 85/150 (56%), Gaps = 23/150 (15%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS--- 57
           M+ L  L L+GT IKGLPLSI  L+G+  L+LK CK++  L   I  LK L TL LS   
Sbjct: 747 MEHLPNLSLEGTAIKGLPLSIENLTGLALLNLKECKSLESLPRSIFKLKSLKTLILSNCT 806

Query: 58  --------------------DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLK 97
                               DG+ I EL  S+  L GLV LNLK+ + L+SLP +   L 
Sbjct: 807 RLKKLPEIQENMESLMELFLDGSGIIELPSSIGCLNGLVFLNLKNCKKLASLPQSFCELT 866

Query: 98  SLKILNLSSCSKLENVPENLGKVESLEELD 127
           SL+ L L  CS+L+++P+NLG ++ L EL+
Sbjct: 867 SLRTLTLCGCSELKDLPDNLGSLQCLTELN 896

Source: Vitis labrusca

Species: Vitis labrusca

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090591|emb|CBI40960.3| unnamed protein product [Vitis vinifera]

 Score = 87.4 bits (215), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 62/144 (43%), Positives = 80/144 (55%), Gaps = 23/144 (15%)

Query: 6   ELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCL------------------SNFISA 47
           EL L+GT I  LP SI   + +V LD++ CK    L                  + F S 
Sbjct: 183 ELHLNGTAITELPSSIGYATQLVSLDMEDCKRFKSLPCCIYKLKSLKILKLSGCAKFESF 242

Query: 48  LKFLSTLN-----LSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKIL 102
            + L  +        DGTAI+EL LSVE L GLV+LNL++ + L +LPS+I  LKSL  L
Sbjct: 243 PEILENMEGLRELFLDGTAIKELPLSVEHLNGLVLLNLRNCERLITLPSSICNLKSLSTL 302

Query: 103 NLSSCSKLENVPENLGKVESLEEL 126
            LS CS+LE +PENLG +E L EL
Sbjct: 303 TLSGCSQLEKLPENLGNLECLVEL 326

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114331|ref|XP_002332400.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222832723|gb|EEE71200.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score = 87.0 bits (214), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/121 (45%), Positives = 76/121 (62%), Gaps = 2/121 (1%)

Query: 8   LLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSL 67
           L+D   ++ LP ++ + S  V + L GC  +    + +  +  L  L L DGT I ELS 
Sbjct: 521 LMDCESVRILPSNLEMESLKVCI-LDGCSKLEKFPDIVGNMNCLMVLRL-DGTGIEELSS 578

Query: 68  SVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD 127
           S+  L GL VL++K  + L S+PS+I  LKSLK L+L  CS+ EN+PENLGKVESLEE D
Sbjct: 579 SIHHLIGLEVLSMKTCKNLKSIPSSIGCLKSLKKLDLFGCSEFENIPENLGKVESLEEFD 638

Query: 128 I 128
           +
Sbjct: 639 V 639

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493293|ref|XP_002273413.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score = 85.9 bits (211), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 62/149 (41%), Positives = 88/149 (59%), Gaps = 23/149 (15%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS--- 57
           M+ L EL L+GT I  LP S+V L  +V LD+K CKN+  L + I +LK L TL LS   
Sbjct: 717 MENLLELNLEGTAIVELPPSVVFLPRLVLLDMKNCKNLMILPSNIYSLKSLGTLVLSGCS 776

Query: 58  --------------------DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLK 97
                               DGT+I+ELS S+  L GL +LN++  + L SLP++I  L+
Sbjct: 777 GLEIFPEIMEDMECLQELLLDGTSIKELSPSIVHLKGLQLLNMRKCKNLRSLPNSICSLR 836

Query: 98  SLKILNLSSCSKLENVPENLGKVESLEEL 126
           SL+ L +S CSKL  +PE+LG+++ L +L
Sbjct: 837 SLETLIVSGCSKLSKLPEDLGRLQFLMKL 865

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081002|emb|CBI18506.3| unnamed protein product [Vitis vinifera]

 Score = 85.5 bits (210), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 57/137 (41%), Positives = 79/137 (57%), Gaps = 23/137 (16%)

Query: 14  IKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS---------------- 57
           I  LP SI  L+G++ LDL+ CK +  L + I  LK L TL LS                
Sbjct: 145 INELPFSIGYLTGLILLDLENCKRLKSLPSSICKLKSLETLILSACSKLESFPEIMENME 204

Query: 58  -------DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKL 110
                  DGTA+++L  S+E L GLV LNL+D + L++LP +I  LKSL+ L +S CSKL
Sbjct: 205 HLKKLLLDGTALKQLHPSIEHLNGLVSLNLRDCKNLATLPCSIGNLKSLETLIVSGCSKL 264

Query: 111 ENVPENLGKVESLEELD 127
           + +PENLG ++ L +L 
Sbjct: 265 QQLPENLGSLQCLVKLQ 281

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	128
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.968	0.079	0.412	1.5e-12
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.984	0.091	0.359	7.2e-12
TAIR|locus:2170333	1197	CSA1 "constitutive shade-avoid	0.914	0.097	0.423	7.7e-12
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.859	0.085	0.391	4.7e-11
TAIR|locus:2081810	1226	AT3G51570 [Arabidopsis thalian	0.890	0.092	0.413	2.5e-10
TAIR|locus:2076043	1194	RPP1 "recognition of peronospo	0.953	0.102	0.338	3.1e-10
TAIR|locus:2158475	1217	RPS4 "RESISTANT TO P. SYRINGAE	0.851	0.089	0.405	1.4e-09
TAIR|locus:2827587	526	PIRL5 "AT2G17440" [Arabidopsis	0.921	0.224	0.420	1.5e-09
TAIR|locus:2117617	549	PIRL4 "plant intracellular ras	0.960	0.224	0.392	1.6e-09
TAIR|locus:2155322	1170	LAZ5 "LAZARUS 5" [Arabidopsis	0.921	0.100	0.322	1.7e-09

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

 Score = 182 (69.1 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 52/126 (41%), Positives = 70/126 (55%)

Query:     1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
             M  L+ELLLDGT I  LP SI  L  + +L L GC++I  L + +  L  L  L L D T
Sbjct:   937 MPCLKELLLDGTAISNLPYSIFRLQKLEKLSLMGCRSIEELPSCVGYLTSLEDLYLDD-T 995

Query:    61 AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV 120
             A+R L  S+  L  L  L+L     LS++P TIN L SLK L ++  S +E +P   G +
Sbjct:   996 ALRNLPSSIGDLKNLQKLHLMRCTSLSTIPETINKLMSLKELFING-SAVEELPIETGSL 1054

Query:   121 ESLEEL 126
               L +L
Sbjct:  1055 LCLTDL 1060

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:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 175 (66.7 bits), Expect = 7.2e-12, P = 7.2e-12
 Identities = 46/128 (35%), Positives = 73/128 (57%)

Query:     1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
             +K L++L LD T +K LP SI  L  +  L L  C ++S + + I+ LK L  L ++ G+
Sbjct:   810 LKSLEKLYLDDTALKNLPSSIGDLKNLQDLHLVRCTSLSKIPDSINELKSLKKLFIN-GS 868

Query:    61 AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV 120
             A+ EL L    L  L   +  D ++L  +PS+I  L SL  L LSS + +E +PE +G +
Sbjct:   869 AVEELPLKPSSLPSLYDFSAGDCKFLKQVPSSIGRLNSLLQLQLSS-TPIEALPEEIGAL 927

Query:   121 ESLEELDI 128
               + EL++
Sbjct:   928 HFIRELEL 935

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

TAIR|locus:2170333 CSA1 "constitutive shade-avoidance1" [Arabidopsis thaliana (taxid:3702)]

 Score = 174 (66.3 bits), Expect = 7.7e-12, P = 7.7e-12
 Identities = 55/130 (42%), Positives = 72/130 (55%)

Query:     1 MKFLQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGC---KNISCLSNFISALKFLSTLNL 56
             MKFL  L L G T +K LP  I L+S +  L L GC   K    +S+ + AL +L     
Sbjct:   706 MKFLVFLNLRGCTSLKSLP-EIQLIS-LKTLILSGCSKFKTFQVISDKLEAL-YL----- 757

Query:    57 SDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN 116
              DGTAI+EL   +  L  LV+LN+K  + L  LP ++  LK+L+ L LS CSKL   PE 
Sbjct:   758 -DGTAIKELPCDIGRLQRLVMLNMKGCKKLKRLPDSLGQLKALEELILSGCSKLNEFPET 816

Query:   117 LGKVESLEEL 126
              G +  LE L
Sbjct:   817 WGNMSRLEIL 826

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:0009416 "response to light stimulus" evidence=IMP

GO:0010114 "response to red light" evidence=IMP

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

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 167 (63.8 bits), Expect = 4.7e-11, P = 4.7e-11
 Identities = 45/115 (39%), Positives = 65/115 (56%)

Query:    14 IKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLT 73
             +K +P+ I+L S +  + + GC   S L +F         L LS  T I EL  S+  L+
Sbjct:   685 LKDIPIGIILKS-LETVGMSGC---SSLKHFPEISWNTRRLYLSS-TKIEELPSSISRLS 739

Query:    74 GLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
              LV L++ D Q L +LPS +  L SLK LNL  C +LEN+P+ L  + SLE L++
Sbjct:   740 CLVKLDMSDCQRLRTLPSYLGHLVSLKSLNLDGCRRLENLPDTLQNLTSLETLEV 794

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:2081810 AT3G51570 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 50/121 (41%), Positives = 67/121 (55%)

Query:     7 LLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL 65
             L L G T +K LP  I L+S +  L L  C N   L  F    + L TL L DGT+I+EL
Sbjct:   682 LNLKGCTSLKSLP-EINLVS-LEILILSNCSN---LKEFRVISQNLETLYL-DGTSIKEL 735

Query:    66 SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEE 125
              L+  +L  LV+LN+K    L   P  ++ LK+LK L LS C KL+N P    +++ LE 
Sbjct:   736 PLNFNILQRLVILNMKGCAKLKEFPDCLDDLKALKELILSDCWKLQNFPAICERIKVLEI 795

Query:   126 L 126
             L
Sbjct:   796 L 796

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:0016020 "membrane" evidence=IDA

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

 Score = 159 (61.0 bits), Expect = 3.1e-10, P = 3.1e-10
 Identities = 42/124 (33%), Positives = 70/124 (56%)

Query:     4 LQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
             L+EL L   + +  LP SI  L+ +  LDL+ C ++  L    +A K L  L L + +++
Sbjct:   739 LEELKLRNCSSLVELPSSIEKLTSLQILDLENCSSLEKLPAIENATK-LRELKLQNCSSL 797

Query:    63 RELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES 122
              EL LS+   T L  LN+     L  LPS+I  +  L++ +LS+CS L  +P ++G +++
Sbjct:   798 IELPLSIGTATNLKQLNISGCSSLVKLPSSIGDITDLEVFDLSNCSSLVTLPSSIGNLQN 857

Query:   123 LEEL 126
             L +L
Sbjct:   858 LCKL 861

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:2158475 RPS4 "RESISTANT TO P. SYRINGAE 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 153 (58.9 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 47/116 (40%), Positives = 64/116 (55%)

Query:     1 MKFLQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDG 59
             MK L  L L G T ++ LP  + L+S +  L L GC   S    F      + TL L DG
Sbjct:   706 MKMLAFLNLKGCTSLESLP-EMNLIS-LKTLTLSGC---STFKEFPLISDNIETLYL-DG 759

Query:    60 TAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPE 115
             TAI +L +++E L  LVVLN+KD + L  +P  +  LK+L+ L LS C  L+  PE
Sbjct:   760 TAISQLPMNMEKLQRLVVLNMKDCKMLEEIPGRVGELKALQELILSDCLNLKIFPE 815

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0004872 "receptor activity" evidence=ISS

GO:0016020 "membrane" evidence=ISS

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

GO:0012505 "endomembrane system" evidence=IDA

GO:0009870 "defense response signaling pathway, resistance gene-dependent" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

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

TAIR|locus:2827587 PIRL5 "AT2G17440" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.5e-09, P = 1.5e-09
 Identities = 53/126 (42%), Positives = 74/126 (58%)

Query:     4 LQELLLDGTDIKGLPLSIVLLSGIVQLDL-KGCKNISCLSNFISALKFLSTLNLSDGTAI 62
             LQ  L+D   ++ LP S+  LS +V+LDL + C  I  L   I  L  L+ L+L     I
Sbjct:   211 LQHRLMD--QLEWLPDSLGKLSSLVRLDLSENC--IMVLPATIGGLISLTRLDLHSNR-I 265

Query:    63 RELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES 122
              +L  S+  L  LV LNL   Q LSSLPS+ N L  L+ L+LSS S L  +PE++G + S
Sbjct:   266 GQLPESIGDLLNLVNLNLSGNQ-LSSLPSSFNRLIHLEELDLSSNS-LSILPESIGSLVS 323

Query:   123 LEELDI 128
             L++LD+
Sbjct:   324 LKKLDV 329

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2117617 PIRL4 "plant intracellular ras group-related LRR 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.6e-09, P = 1.6e-09
 Identities = 51/130 (39%), Positives = 73/130 (56%)

Query:     2 KFLQELLLDG--TD-IKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSD 58
             K  QE+ L    T+ ++ LP S+  LS +  LDL    +I  L N I  L  L+ L+L  
Sbjct:   220 KATQEINLQNKLTEQLEWLPDSLGKLSSLTSLDLSE-NHIVVLPNTIGGLSSLTKLDLHS 278

Query:    59 GTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLG 118
                I +L  S+  L  LV LNL   Q LSSLPS  + L  L+ L+LS C+ L  +PE++G
Sbjct:   279 NR-IGQLPESIGELLNLVYLNLGSNQ-LSSLPSAFSRLVRLEELDLS-CNNLPILPESIG 335

Query:   119 KVESLEELDI 128
              + SL++LD+
Sbjct:   336 SLVSLKKLDV 345

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0010162 "seed dormancy process" evidence=RCA

TAIR|locus:2155322 LAZ5 "LAZARUS 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 1.7e-09, P = 1.7e-09
 Identities = 41/127 (32%), Positives = 71/127 (55%)

Query:     2 KFLQELLLDG-TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNF-ISALKFLSTLNLSDG 59
             K L+ L L+G T +  LP  +  +  +V L+++ C +++CL +  +S+LK L    LSD 
Sbjct:   724 KNLERLNLEGCTSLLKLPQEMENMKSLVFLNMRRCTSLTCLQSIKVSSLKILI---LSDC 780

Query:    60 TAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGK 119
             + + E  +  E L  L +    D   +  LP     L  L +LN+  C++LE++P+ LGK
Sbjct:   781 SKLEEFEVISENLEELYL----DGTAIKGLPPAAGDLTRLVVLNMEGCTELESLPKRLGK 836

Query:   120 VESLEEL 126
              ++L+EL
Sbjct:   837 QKALQEL 843

GO:0005622 "intracellular" evidence=IEA

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

GO:0051607 "defense response to virus" evidence=IMP

---

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	128
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-08
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-05
PLN03210	1153	PLN03210, PLN03210, Resistant to P	9e-05
PLN03210	1153	PLN03210, PLN03210, Resistant to P	5e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001

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

 Score = 49.8 bits (119), Expect = 4e-08
 Identities = 31/91 (34%), Positives = 49/91 (53%), Gaps = 2/91 (2%)

Query: 28  VQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLS 87
           + LD +G +    + N IS L+ L ++NLS  +    +  S+  +T L VL+L    +  
Sbjct: 423 LGLDNQGLRGF--IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNG 480

Query: 88  SLPSTINGLKSLKILNLSSCSKLENVPENLG 118
           S+P ++  L SL+ILNL+  S    VP  LG
Sbjct: 481 SIPESLGQLTSLRILNLNGNSLSGRVPAALG 511

Length = 623

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

 Score = 42.9 bits (101), Expect = 1e-05
 Identities = 32/111 (28%), Positives = 50/111 (45%), Gaps = 11/111 (9%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           + +L L  T I+ +P  I   S +  LD+ GC N+  +S  IS LK L T++ SD  A+ 
Sbjct: 848 ISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALT 907

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVP 114
           E S +         + +      S LPST+        +N  +C  L+   
Sbjct: 908 EASWN----GSPSEVAMATDNIHSKLPSTVC-------INFINCFNLDQEA 947

syringae 6; Provisional. Length = 1153

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

 Score = 40.2 bits (94), Expect = 9e-05
 Identities = 40/127 (31%), Positives = 66/127 (51%), Gaps = 9/127 (7%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDL------KGCKNISCLSNFISALK-FLSTLNL 56
           +  L LD T I+  P S + L  + +L L      K  + +  L+  ++ L   L+ L L
Sbjct: 727 ISWLDLDETAIEEFP-SNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFL 785

Query: 57  SDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN 116
           SD  ++ EL  S++ L  L  L +++   L +LP+ IN L+SL+ L+LS CS+L   P+ 
Sbjct: 786 SDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGIN-LESLESLDLSGCSRLRTFPDI 844

Query: 117 LGKVESL 123
              +  L
Sbjct: 845 STNISDL 851

syringae 6; Provisional. Length = 1153

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

 Score = 38.3 bits (89), Expect = 5e-04
 Identities = 35/125 (28%), Positives = 64/125 (51%), Gaps = 4/125 (3%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           L+ L  D   ++ +P S      +V+L ++G K +  L + + +L  L  ++L     ++
Sbjct: 591 LRLLRWDKYPLRCMP-SNFRPENLVKLQMQGSK-LEKLWDGVHSLTGLRNIDLRGSKNLK 648

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
           E+   + + T L  L L D   L  LPS+I  L  L+ L++S C  LE +P  +  ++SL
Sbjct: 649 EIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSL 706

Query: 124 EELDI 128
             L++
Sbjct: 707 YRLNL 711

syringae 6; Provisional. Length = 1153

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

 Score = 36.8 bits (85), Expect = 0.001
 Identities = 53/176 (30%), Positives = 72/176 (40%), Gaps = 53/176 (30%)

Query: 4   LQELLL-DGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS----- 57
           L+ L L D + +  LP SI  L+ +  LD+  C+N+  L   I+ LK L  LNLS     
Sbjct: 659 LETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGIN-LKSLYRLNLSGCSRL 717

Query: 58  ---------------DGTAIRE----------------------LSLSVELLTGLVV--- 77
                          D TAI E                      L   V+ LT L+    
Sbjct: 718 KSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLS 777

Query: 78  -----LNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
                L L D   L  LPS+I  L  L+ L + +C  LE +P  +  +ESLE LD+
Sbjct: 778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDL 832

syringae 6; Provisional. Length = 1153

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

 Score = 36.8 bits (85), Expect = 0.001
 Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 5/105 (4%)

Query: 12  TDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVEL 71
            +++ LP  I L S +  LDL GC  +    +  + +   S LNL   T I E+   +E 
Sbjct: 813 INLETLPTGINLES-LESLDLSGCSRLRTFPDISTNI---SDLNL-SRTGIEEVPWWIEK 867

Query: 72  LTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN 116
            + L  L++     L  +   I+ LK L+ ++ S C  L     N
Sbjct: 868 FSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWN 912

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	128
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.78
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.76
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.64
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.6
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.51
PLN03150	623	hypothetical protein; Provisional	99.48
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.44
PLN03150	623	hypothetical protein; Provisional	99.44
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.43
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.37
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.34
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.29
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.26
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.26
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.25
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.24
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.22
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.18
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.16
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.16
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.14
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.08
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.08
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.99
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.98
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.93
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.89
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.86
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.78
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.75
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.74
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.71
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.7
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.68
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.65
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.65
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.57
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.55
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.55
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.4
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.36
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.35
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.34
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.29
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.28
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.28
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.25
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.25
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.24
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.18
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.18
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.13
PRK15386	426	type III secretion protein GogB; Provisional	98.07
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.0
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.83
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.79
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.64
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.64
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.46
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.46
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.32
PRK15386	426	type III secretion protein GogB; Provisional	97.29
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.15
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.15
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	97.06
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.03
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.98
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.6
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.43
smart00370	26	LRR Leucine-rich repeats, outliers.	96.13
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	96.13
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.01
KOG4341	483	consensus F-box protein containing LRR [General fu	94.65
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.51
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.23
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	93.79
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.88
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	91.7
KOG0473	326	consensus Leucine-rich repeat protein [Function un	90.14
KOG4341	483	consensus F-box protein containing LRR [General fu	88.41
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	85.01
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	84.15
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	83.16

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

Probab=99.78  E-value=1.2e-18  Score=127.24  Aligned_cols=126  Identities=24%  Similarity=0.303  Sum_probs=77.2

Q ss_pred             CCCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+. .+|..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|..++.+++|+++++
T Consensus       140 ~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  219 (968)
T PLN00113        140 PNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYL  219 (968)
T ss_pred             CCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEEC
Confidence            34555555555554 44555666666666666666665666666666666666666666665555666666666666666


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+.+.+|..++++++|++|++++|.+.+.+|..++.+++|++++
T Consensus       220 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  266 (968)
T PLN00113        220 GYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLF  266 (968)
T ss_pred             cCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEE
Confidence            66665555666666666666666666665555555566666655554

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

Probab=99.76  E-value=3.4e-18  Score=124.90  Aligned_cols=127  Identities=23%  Similarity=0.262  Sum_probs=80.3

Q ss_pred             CCCCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+. .+|..+..+++|++|++++|.+.+..|..+..+.+|+.|++++|.+.+..|..++.+++|++++
T Consensus       163 l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  242 (968)
T PLN00113        163 FSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLD  242 (968)
T ss_pred             CCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEE
Confidence            356677777777665 5566666677777777777766666666666666666666666666666666666666666666


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +++|.+.+.+|..++++++|++|++++|.+.+.+|..++.+++|++++
T Consensus       243 L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~  290 (968)
T PLN00113        243 LVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLD  290 (968)
T ss_pred             CcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEE
Confidence            666665555565566666666666666655555555555555555544

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

Probab=99.64  E-value=2.4e-18  Score=101.43  Aligned_cols=122  Identities=26%  Similarity=0.314  Sum_probs=79.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++.|.++.|++..+|+.+..+.+|+.|++.+|+ ....|..++++++|+.|+++.|+.. ..|.+||.++.|+.+++.
T Consensus        33 s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnq-ie~lp~~issl~klr~lnvgmnrl~-~lprgfgs~p~levldlt  110 (264)
T KOG0617|consen   33 SNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQ-IEELPTSISSLPKLRILNVGMNRLN-ILPRGFGSFPALEVLDLT  110 (264)
T ss_pred             hhhhhhhcccCceeecCCcHHHhhhhhhhhcccch-hhhcChhhhhchhhhheecchhhhh-cCccccCCCchhhhhhcc
Confidence            34556677777777777777777777777777777 5556666777777777777765543 456777777777777777


Q ss_pred             CCcccC-cchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           82 DWQYLS-SLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        82 ~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      .|++.. .+|..+..+..|+.+++++|. ...+|+.++++++|+.+
T Consensus       111 ynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~dvg~lt~lqil  155 (264)
T KOG0617|consen  111 YNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPDVGKLTNLQIL  155 (264)
T ss_pred             ccccccccCCcchhHHHHHHHHHhcCCC-cccCChhhhhhcceeEE
Confidence            766554 345555556666666666655 33455556666665554

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

Probab=99.60  E-value=1.2e-17  Score=98.48  Aligned_cols=105  Identities=27%  Similarity=0.312  Sum_probs=62.5

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcc-cchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR-ELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~l~l   80 (128)
                      .+|+.|+++.|.++++|.++..+++|+.|++..|+ ....|..|++++.|+.|++..|+... .+|..|..+..|+.+.+
T Consensus        56 ~nlevln~~nnqie~lp~~issl~klr~lnvgmnr-l~~lprgfgs~p~levldltynnl~e~~lpgnff~m~tlralyl  134 (264)
T KOG0617|consen   56 KNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNR-LNILPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYL  134 (264)
T ss_pred             hhhhhhhcccchhhhcChhhhhchhhhheecchhh-hhcCccccCCCchhhhhhccccccccccCCcchhHHHHHHHHHh
Confidence            45777778888887777777777777777777776 55666677777777777777766643 23433434444444444


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      +.|. ...+|+.++.+++|+.+.+.+|.
T Consensus       135 ~dnd-fe~lp~dvg~lt~lqil~lrdnd  161 (264)
T KOG0617|consen  135 GDND-FEILPPDVGKLTNLQILSLRDND  161 (264)
T ss_pred             cCCC-cccCChhhhhhcceeEEeeccCc
Confidence            4433 22333344444444444444443

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

Probab=99.51  E-value=2.3e-15  Score=102.78  Aligned_cols=47  Identities=26%  Similarity=0.274  Sum_probs=18.5

Q ss_pred             cCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcC
Q 040556           72 LTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLG  118 (128)
Q Consensus        72 l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~  118 (128)
                      +++|+.|++.+|++...-.+++.++..|++|++++|.+...-+.+|.
T Consensus       391 l~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe  437 (873)
T KOG4194|consen  391 LPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFE  437 (873)
T ss_pred             chhhhheeecCceeeecchhhhccCcccceecCCCCcceeecccccc
Confidence            34444444444443322223344444444444444443333333333

>PLN03150 hypothetical protein; Provisional

Probab=99.48  E-value=4.2e-13  Score=94.50  Aligned_cols=108  Identities=21%  Similarity=0.274  Sum_probs=78.7

Q ss_pred             CcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            4 LQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         4 L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      ++.|++++|.+. .+|..+..+++|+.|++++|.+.+..|..+..+++|+.|++++|.+.+.+|..++.+++|+.|++++
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            456777777776 5677777777888888888777777777777777888888888777777777777777888888887


Q ss_pred             CcccCcchHHhhcC-CCCcEEeeecCCCCC
Q 040556           83 WQYLSSLPSTINGL-KSLKILNLSSCSKLE  111 (128)
Q Consensus        83 ~~~~~~~~~~~~~~-~~L~~l~l~~n~~~~  111 (128)
                      |.+.+.+|..++.. ..+..+++.+|....
T Consensus       500 N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc  529 (623)
T PLN03150        500 NSLSGRVPAALGGRLLHRASFNFTDNAGLC  529 (623)
T ss_pred             CcccccCChHHhhccccCceEEecCCcccc
Confidence            77777777766543 345667777666433

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

Probab=99.44  E-value=1.2e-13  Score=82.60  Aligned_cols=122  Identities=25%  Similarity=0.191  Sum_probs=47.9

Q ss_pred             CCcEEEecCCCCCCcchhhh-ccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIV-LLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~-~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .+++|++.+|.++.+- .+. .+.+|+.|++++|.+....  .+..++.|+.|++++|.+....+.....+++|+.|+++
T Consensus        20 ~~~~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~L~   96 (175)
T PF14580_consen   20 KLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLE--GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLS   96 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS--S--T--T----TT--EEE--SS---S-CHHHHHH-TT--EEE-T
T ss_pred             cccccccccccccccc-chhhhhcCCCEEECCCCCCcccc--CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECc
Confidence            4678899999888654 344 5788999999999966553  36778999999999988876433222468899999999


Q ss_pred             CCcccCc-chHHhhcCCCCcEEeeecCCCCCCC---CcCcCCCCCCCccc
Q 040556           82 DWQYLSS-LPSTINGLKSLKILNLSSCSKLENV---PENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~~~---~~~~~~~~~L~~l~  127 (128)
                      +|++... .-..+..+++|++|++.+|++...-   ...+..+|+|+.||
T Consensus        97 ~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD  146 (175)
T PF14580_consen   97 NNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLD  146 (175)
T ss_dssp             TS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEET
T ss_pred             CCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeC
Confidence            9986542 2245678899999999999876431   12356777777765

>PLN03150 hypothetical protein; Provisional

Probab=99.44  E-value=5.2e-13  Score=94.05  Aligned_cols=94  Identities=33%  Similarity=0.388  Sum_probs=87.6

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeee
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLS  105 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~  105 (128)
                      .++.|++++|.+.+..|..+..+++|+.|++++|.+.+.+|..++.+++|+.|++++|.+.+.+|..++++++|++|+++
T Consensus       419 ~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  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            37789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCcCcCC
Q 040556          106 SCSKLENVPENLGK  119 (128)
Q Consensus       106 ~n~~~~~~~~~~~~  119 (128)
                      +|.+.+.+|..++.
T Consensus       499 ~N~l~g~iP~~l~~  512 (623)
T PLN03150        499 GNSLSGRVPAALGG  512 (623)
T ss_pred             CCcccccCChHHhh
Confidence            99999999887654

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

Probab=99.43  E-value=9e-14  Score=95.15  Aligned_cols=128  Identities=24%  Similarity=0.199  Sum_probs=82.3

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|+++++.+|.++.+|..-....+++.|++..|.+.......+..++.|+.||++.|.+...--+.+..-.++++|++
T Consensus       101 l~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~L  180 (873)
T KOG4194|consen  101 LPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNL  180 (873)
T ss_pred             CCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEee
Confidence            35666677777766666654444555777777777666666666667777777777776665543344444456777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|++...-...+..+.+|..+.++.|.++...+..|+++++|+.|+|
T Consensus       181 a~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdL  228 (873)
T KOG4194|consen  181 ASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDL  228 (873)
T ss_pred             ccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhc
Confidence            777665544445556666777777777766655556666777776654

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

Probab=99.37  E-value=2.2e-14  Score=99.21  Aligned_cols=125  Identities=20%  Similarity=0.286  Sum_probs=95.7

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcc----------------------cchhhhcccccCCEEecCCC
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNIS----------------------CLSNFISALKFLSTLNLSDG   59 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~----------------------~~~~~~~~l~~L~~L~l~~~   59 (128)
                      .+|..++++.|.+..+|.++..+++|+.|++++|.+..                      .+|..++.++.|+.|.+.+|
T Consensus       222 ~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~N  301 (1255)
T KOG0444|consen  222 HNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNN  301 (1255)
T ss_pred             hhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccC
Confidence            45667777777777777777777777777777776543                      35666777777777777777


Q ss_pred             CCcc-cchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           60 TAIR-ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        60 ~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++.. .+|.++|.+..|+.+.+++|. ...+|+.+++|..|++|.++.|.+.. +|.++.-++.|+.||+
T Consensus       302 kL~FeGiPSGIGKL~~Levf~aanN~-LElVPEglcRC~kL~kL~L~~NrLiT-LPeaIHlL~~l~vLDl  369 (1255)
T KOG0444|consen  302 KLTFEGIPSGIGKLIQLEVFHAANNK-LELVPEGLCRCVKLQKLKLDHNRLIT-LPEAIHLLPDLKVLDL  369 (1255)
T ss_pred             cccccCCccchhhhhhhHHHHhhccc-cccCchhhhhhHHHHHhcccccceee-chhhhhhcCCcceeec
Confidence            7654 467888888888888888775 66789999999999999999888655 5788888888887764

>PLN03210 Resistant to P

Probab=99.34  E-value=7.5e-12  Score=93.44  Aligned_cols=111  Identities=36%  Similarity=0.542  Sum_probs=77.4

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .+|+.|++.++.+..+|..+..+++|+.++++++...+..|. ++.+++|+.|++.+|.....+|..++.+++|+.+++.
T Consensus       611 ~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~  689 (1153)
T PLN03210        611 ENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMS  689 (1153)
T ss_pred             cCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCC
Confidence            356777777777777776667777788888877765566654 6667778888887777666777777777788888887


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVP  114 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~  114 (128)
                      +|...+.+|..+ ++++|++|++++|...+.+|
T Consensus       690 ~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p  721 (1153)
T PLN03210        690 RCENLEILPTGI-NLKSLYRLNLSGCSRLKSFP  721 (1153)
T ss_pred             CCCCcCccCCcC-CCCCCCEEeCCCCCCccccc
Confidence            776666666544 56667777777665444333

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.29  E-value=2.9e-11  Score=90.36  Aligned_cols=121  Identities=28%  Similarity=0.431  Sum_probs=93.9

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|+.|.+.++.++.+|..+ ...+|+.|++.++.+. ..+..+..+++|+.++++++.....+| .++.+++|+.|++.+
T Consensus       590 ~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~-~L~~~~~~l~~Lk~L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~  666 (1153)
T PLN03210        590 KLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLE-KLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSD  666 (1153)
T ss_pred             ccEEEEecCCCCCCCCCcC-CccCCcEEECcCcccc-ccccccccCCCCCEEECCCCCCcCcCC-ccccCCcccEEEecC
Confidence            3566666666666666655 4578889999988844 455556788999999999877666665 467789999999999


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      |.....+|..++++++|+.|++++|...+.+|..+ ++++|+.++
T Consensus       667 c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~  710 (1153)
T PLN03210        667 CSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLN  710 (1153)
T ss_pred             CCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEe
Confidence            98888899999999999999999988777777654 566776654

syringae 6; Provisional

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

Probab=99.26  E-value=3.6e-12  Score=84.10  Aligned_cols=107  Identities=21%  Similarity=0.231  Sum_probs=70.7

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|..|++++|.+.++|..+..+..|+.++++.|+ -...|........++.+-.++|++....+.+++.+.+|..+++.
T Consensus       435 ~kLt~L~L~NN~Ln~LP~e~~~lv~Lq~LnlS~Nr-Fr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~  513 (565)
T KOG0472|consen  435 QKLTFLDLSNNLLNDLPEEMGSLVRLQTLNLSFNR-FRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQ  513 (565)
T ss_pred             hcceeeecccchhhhcchhhhhhhhhheecccccc-cccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccC
Confidence            45556666666666666666666666666666665 34445444444445554444455555555667888888888888


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      +|. ...+|+.+++|++|++|++++|++.
T Consensus       514 nNd-lq~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  514 NND-LQQIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             CCc-hhhCChhhccccceeEEEecCCccC
Confidence            776 4457778888888888888888875

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

Probab=99.26  E-value=1.2e-11  Score=80.74  Aligned_cols=15  Identities=47%  Similarity=0.618  Sum_probs=6.9

Q ss_pred             cCCCCcEEeeecCCC
Q 040556           95 GLKSLKILNLSSCSK  109 (128)
Q Consensus        95 ~~~~L~~l~l~~n~~  109 (128)
                      .+++|+++++++|.+
T Consensus       219 ~~~~L~~L~ls~n~l  233 (319)
T cd00116         219 SLKSLEVLNLGDNNL  233 (319)
T ss_pred             ccCCCCEEecCCCcC
Confidence            344444444444443

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).

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

Probab=99.25  E-value=3.4e-11  Score=72.19  Aligned_cols=104  Identities=25%  Similarity=0.171  Sum_probs=52.2

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc-chhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE-LSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~l~   79 (128)
                      +.+|+.|++++|.++.+. .+..+++|++|++++|++....+.....+++|+.|++++|++... .-..+..+++|+.++
T Consensus        41 l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~  119 (175)
T PF14580_consen   41 LDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLS  119 (175)
T ss_dssp             -TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE
T ss_pred             hcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceee
Confidence            357899999999999775 577899999999999997766443334689999999999998652 235677899999999


Q ss_pred             ecCCcccCcc---hHHhhcCCCCcEEeee
Q 040556           80 LKDWQYLSSL---PSTINGLKSLKILNLS  105 (128)
Q Consensus        80 l~~~~~~~~~---~~~~~~~~~L~~l~l~  105 (128)
                      +.+|++...-   ...+..+++|+.||-.
T Consensus       120 L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen  120 LEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             ccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            9999876531   2245678999998864

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

Probab=99.24  E-value=7.5e-13  Score=94.23  Aligned_cols=123  Identities=28%  Similarity=0.239  Sum_probs=81.7

Q ss_pred             CCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .|+.|++.+|.++ .+.+.+..+++|+.|++++|++.......+.++..|+.|++++|... .+|..+..|..|+.+...
T Consensus       360 ~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~-~Lp~tva~~~~L~tL~ah  438 (1081)
T KOG0618|consen  360 ALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLT-TLPDTVANLGRLHTLRAH  438 (1081)
T ss_pred             HHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhh-hhhHHHHhhhhhHHHhhc
Confidence            3556677777777 55566777888888888888755555556677888888888886654 355666677777777777


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+. .+| .+..++.|+.+|++.|++.....++....++|++||+
T Consensus       439 sN~l~-~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~p~p~LkyLdl  483 (1081)
T KOG0618|consen  439 SNQLL-SFP-ELAQLPQLKVLDLSCNNLSEVTLPEALPSPNLKYLDL  483 (1081)
T ss_pred             CCcee-ech-hhhhcCcceEEecccchhhhhhhhhhCCCcccceeec
Confidence            76643 355 5667777777777777765433222222366666664

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

Probab=99.22  E-value=2e-11  Score=79.58  Aligned_cols=126  Identities=26%  Similarity=0.267  Sum_probs=71.1

Q ss_pred             CCCcEEEecCCCCC-----CcchhhhccCcccEEeccCCCCccc----chhhhcccccCCEEecCCCCCccc----chhh
Q 040556            2 KFLQELLLDGTDIK-----GLPLSIVLLSGIVQLDLKGCKNISC----LSNFISALKFLSTLNLSDGTAIRE----LSLS   68 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-----~~~~~~~~l~~L~~l~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~   68 (128)
                      ++|+.+++++|.+.     .+...+..+++++.+++++|.+.+.    .+..+..+++|+.|++++|.+...    +...
T Consensus       137 ~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~  216 (319)
T cd00116         137 PALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAET  216 (319)
T ss_pred             CCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHH
Confidence            46677777777766     1233445556777777777765532    223344455777777777766432    2334


Q ss_pred             hhhcCCCcEEeecCCcccCcchHHhh-c----CCCCcEEeeecCCCCC----CCCcCcCCCCCCCccc
Q 040556           69 VELLTGLVVLNLKDWQYLSSLPSTIN-G----LKSLKILNLSSCSKLE----NVPENLGKVESLEELD  127 (128)
Q Consensus        69 ~~~l~~L~~l~l~~~~~~~~~~~~~~-~----~~~L~~l~l~~n~~~~----~~~~~~~~~~~L~~l~  127 (128)
                      +..+++|+++++++|.+.......+. .    .+.|+++++++|.+..    .++..+..+++|++++
T Consensus       217 ~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~  284 (319)
T cd00116         217 LASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELD  284 (319)
T ss_pred             hcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEE
Confidence            44566777787777765542222221 1    2567777777777642    1222334445555554

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).

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

Probab=99.18  E-value=4.3e-11  Score=59.91  Aligned_cols=57  Identities=28%  Similarity=0.303  Sum_probs=26.3

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCC
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDG   59 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~   59 (128)
                      +|++|++++|.++.++. .|..+++|+++++++|.+....+..|..+++|+++++++|
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 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            34445555554444432 3344444555555544444333344444444444444444

...

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

Probab=99.16  E-value=7.6e-12  Score=87.01  Aligned_cols=84  Identities=20%  Similarity=0.158  Sum_probs=58.6

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ..|++++++.|.++++|..+...+++..|+++.|++-+...+-|-+++.|-+|+++.|++. .+|+.+..+..|+.|.++
T Consensus       103 ~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe-~LPPQ~RRL~~LqtL~Ls  181 (1255)
T KOG0444|consen  103 KDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLE-MLPPQIRRLSMLQTLKLS  181 (1255)
T ss_pred             ccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhh-hcCHHHHHHhhhhhhhcC
Confidence            4567778888888888877777777888888877744443344566777777788776543 456666677777777777


Q ss_pred             CCccc
Q 040556           82 DWQYL   86 (128)
Q Consensus        82 ~~~~~   86 (128)
                      +|.+.
T Consensus       182 ~NPL~  186 (1255)
T KOG0444|consen  182 NNPLN  186 (1255)
T ss_pred             CChhh
Confidence            77543

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

Probab=99.16  E-value=5.1e-12  Score=83.39  Aligned_cols=104  Identities=27%  Similarity=0.288  Sum_probs=62.0

Q ss_pred             hccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcE
Q 040556           22 VLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKI  101 (128)
Q Consensus        22 ~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~  101 (128)
                      ..++++..|++++|. ....|..++.+..||.++++.|++. ..|.....+..++.+-.+.|++....++.+.++.+|..
T Consensus       432 ~~l~kLt~L~L~NN~-Ln~LP~e~~~lv~Lq~LnlS~NrFr-~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~t  509 (565)
T KOG0472|consen  432 SQLQKLTFLDLSNNL-LNDLPEEMGSLVRLQTLNLSFNRFR-MLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTT  509 (565)
T ss_pred             Hhhhcceeeecccch-hhhcchhhhhhhhhheecccccccc-cchHHHhhHHHHHHHHhccccccccChHHhhhhhhcce
Confidence            344455555555443 3344444444555555555554322 23433333334444444444544444556888999999


Q ss_pred             EeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556          102 LNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus       102 l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ||+..|.+ ..+|+.+|++.+|+++++
T Consensus       510 LDL~nNdl-q~IPp~LgnmtnL~hLeL  535 (565)
T KOG0472|consen  510 LDLQNNDL-QQIPPILGNMTNLRHLEL  535 (565)
T ss_pred             eccCCCch-hhCChhhccccceeEEEe
Confidence            99998885 557889999999999874

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

Probab=99.14  E-value=6.8e-11  Score=59.19  Aligned_cols=59  Identities=25%  Similarity=0.213  Sum_probs=33.8

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      +|+++++++|.+....+..|..+++|+++++++|.+....+..|..+++|+++++++|+
T Consensus         2 ~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    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45666666665444444455556666666666655555444555556666666665554

...

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

Probab=99.08  E-value=1.5e-11  Score=80.92  Aligned_cols=124  Identities=19%  Similarity=0.130  Sum_probs=98.5

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCC-CCCcccchhhhhhcCCCcEEee
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSD-GTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ..+.+++..|.|+.+|+ .|..+++|+++|++.|.+....|+.|..+.++..|-+.+ |++.......|+.+..++.|.+
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLll  147 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLL  147 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhc
Confidence            34678899999999976 688899999999999999999999999999987777666 6666655677888999999888


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      .-|.+.....+++..++++..|.+.+|.+...-...+..+..++++
T Consensus       148 Nan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tl  193 (498)
T KOG4237|consen  148 NANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTL  193 (498)
T ss_pred             ChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchH
Confidence            8888777777889999999999998888644322245555555544

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

Probab=99.08  E-value=3.9e-11  Score=85.77  Aligned_cols=106  Identities=24%  Similarity=0.297  Sum_probs=84.3

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +.+|++|++++|+++.+|. .+..+..|+.|++++|. .+.+|.....+..|++|....|.+.. .| .+..++.|+.+|
T Consensus       382 ~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~tva~~~~L~tL~ahsN~l~~-fP-e~~~l~qL~~lD  458 (1081)
T KOG0618|consen  382 FKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNK-LTTLPDTVANLGRLHTLRAHSNQLLS-FP-ELAQLPQLKVLD  458 (1081)
T ss_pred             ccceeeeeecccccccCCHHHHhchHHhHHHhcccch-hhhhhHHHHhhhhhHHHhhcCCceee-ch-hhhhcCcceEEe
Confidence            3679999999999999986 56789999999999999 77777888888999999888876654 44 566788999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~  109 (128)
                      ++.|++.....+.....++|++||++||..
T Consensus       459 lS~N~L~~~~l~~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  459 LSCNNLSEVTLPEALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             cccchhhhhhhhhhCCCcccceeeccCCcc
Confidence            998887654333333447899999998873

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

Probab=98.99  E-value=1.1e-10  Score=74.94  Aligned_cols=120  Identities=26%  Similarity=0.199  Sum_probs=83.8

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      .|+++++++|.++.+..++.-.|+++.|+++.|++.....  +..+++|+.||+++|.... +..+--.+.+++.+.+++
T Consensus       285 ~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N~Ls~-~~Gwh~KLGNIKtL~La~  361 (490)
T KOG1259|consen  285 ELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGNLLAE-CVGWHLKLGNIKTLKLAQ  361 (490)
T ss_pred             hhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccchhHh-hhhhHhhhcCEeeeehhh
Confidence            4678899999999888888888999999999998665533  7788999999999976543 333444556677777777


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~  127 (128)
                      |.+..  ...++.+-+|..||+.+|++.. +....+|+++.|+++.
T Consensus       362 N~iE~--LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~  405 (490)
T KOG1259|consen  362 NKIET--LSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLR  405 (490)
T ss_pred             hhHhh--hhhhHhhhhheeccccccchhhHHHhcccccccHHHHHh
Confidence            64322  1335566677778887777543 1233466777666543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.98  E-value=6.3e-10  Score=81.01  Aligned_cols=104  Identities=31%  Similarity=0.353  Sum_probs=57.0

Q ss_pred             CCcEEEecCCC--CCCcchh-hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            3 FLQELLLDGTD--IKGLPLS-IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         3 ~L~~l~l~~~~--~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      .|++|.+.+|.  +..++.. |..++.|+.||+++|.-.+..|..++.+.+|++|++++..+. .+|.+++++..|.+|+
T Consensus       546 ~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~-~LP~~l~~Lk~L~~Ln  624 (889)
T KOG4658|consen  546 KLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGIS-HLPSGLGNLKKLIYLN  624 (889)
T ss_pred             ccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCcc-ccchHHHHHHhhheec
Confidence            34455555553  3333332 444566666666666555566666666666666666664433 4566666666666666


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSC  107 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n  107 (128)
                      +..+.....+|.....+.+|+++.+...
T Consensus       625 l~~~~~l~~~~~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  625 LEVTGRLESIPGILLELQSLRVLRLPRS  652 (889)
T ss_pred             cccccccccccchhhhcccccEEEeecc
Confidence            6655444444444445666666666543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.93  E-value=2.3e-09  Score=78.17  Aligned_cols=123  Identities=28%  Similarity=0.347  Sum_probs=95.4

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCC--CcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCK--NISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~--~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .+.+.+.+|.+..++.. ..++++++|-+.+|.  +....+..|..++.|+.||+++|.-.+.+|..++.+.+|++|++.
T Consensus       525 ~rr~s~~~~~~~~~~~~-~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~  603 (889)
T KOG4658|consen  525 VRRMSLMNNKIEHIAGS-SENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLS  603 (889)
T ss_pred             eeEEEEeccchhhccCC-CCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhccccc
Confidence            34455556666544432 345689999998886  344444567889999999999988888999999999999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +..+. .+|..+++++.|.+|++..+.....++.....+.+|+++.+
T Consensus       604 ~t~I~-~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l  649 (889)
T KOG4658|consen  604 DTGIS-HLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRL  649 (889)
T ss_pred             CCCcc-ccchHHHHHHhhheeccccccccccccchhhhcccccEEEe
Confidence            98744 78999999999999999887755555666666888887753

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

Probab=98.89  E-value=1.3e-10  Score=79.71  Aligned_cols=103  Identities=23%  Similarity=0.330  Sum_probs=53.5

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      +.+-+++|+++.+|..+....+|..+|.+.|. ....|..++.+.+|+.|++.+|+... +|+.+..++ |..+|++.|+
T Consensus       146 kvli~sNNkl~~lp~~ig~~~tl~~ld~s~ne-i~slpsql~~l~slr~l~vrRn~l~~-lp~El~~Lp-Li~lDfScNk  222 (722)
T KOG0532|consen  146 KVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNE-IQSLPSQLGYLTSLRDLNVRRNHLED-LPEELCSLP-LIRLDFSCNK  222 (722)
T ss_pred             eeEEEecCccccCCcccccchhHHHhhhhhhh-hhhchHHhhhHHHHHHHHHhhhhhhh-CCHHHhCCc-eeeeecccCc
Confidence            34444445555455444444555555555555 22333335555555555555544332 344444333 6666666655


Q ss_pred             ccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           85 YLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        85 ~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      + ..+|-.+.+|+.|+++-+..|++..
T Consensus       223 i-s~iPv~fr~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  223 I-SYLPVDFRKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             e-eecchhhhhhhhheeeeeccCCCCC
Confidence            3 3456566666666666666666544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.86  E-value=1.4e-08  Score=73.14  Aligned_cols=97  Identities=21%  Similarity=0.275  Sum_probs=54.4

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +++.|++++|.++.+|..+.  .+|++|++++|.+. .+|..+  ..+|+.|++++|.+. .+|..+.  .+|+.|++++
T Consensus       200 ~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~Lt-sLP~~l--~~~L~~L~Ls~N~L~-~LP~~l~--s~L~~L~Ls~  271 (754)
T PRK15370        200 QITTLILDNNELKSLPENLQ--GNIKTLYANSNQLT-SIPATL--PDTIQEMELSINRIT-ELPERLP--SALQSLDLFH  271 (754)
T ss_pred             CCcEEEecCCCCCcCChhhc--cCCCEEECCCCccc-cCChhh--hccccEEECcCCccC-cCChhHh--CCCCEEECcC
Confidence            45667777777766665443  46777777776644 334322  235666666666554 3444432  3566666666


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      |++. .+|..+.  ..|+.|++++|.+.
T Consensus       272 N~L~-~LP~~l~--~sL~~L~Ls~N~Lt  296 (754)
T PRK15370        272 NKIS-CLPENLP--EELRYLSVYDNSIR  296 (754)
T ss_pred             CccC-ccccccC--CCCcEEECCCCccc
Confidence            6544 3444332  35666666666544

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.78  E-value=8e-09  Score=74.37  Aligned_cols=42  Identities=26%  Similarity=0.286  Sum_probs=26.7

Q ss_pred             CCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcC
Q 040556           74 GLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN  116 (128)
Q Consensus        74 ~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~  116 (128)
                      +|+.+++++|.+. .+|..+.+++.|+.+++++|++.+..+..
T Consensus       423 ~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~~~~~  464 (788)
T PRK15387        423 GLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQA  464 (788)
T ss_pred             hhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCchHHHH
Confidence            3555566665533 46666777777777777777776654443

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

Probab=98.75  E-value=2.7e-09  Score=71.19  Aligned_cols=110  Identities=17%  Similarity=0.141  Sum_probs=60.0

Q ss_pred             CCCCcEEEecCCCCCCc---chhhhccCcccEEeccCCCCcccchhhh-cccccCCEEecCCCCCccc-chhhhhhcCCC
Q 040556            1 MKFLQELLLDGTDIKGL---PLSIVLLSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTAIRE-LSLSVELLTGL   75 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~---~~~~~~l~~L~~l~l~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L   75 (128)
                      |++++.|+++.|-+..+   ......+++|+.|+++.|++........ ..+++++.|.++.|.+++. +......+|++
T Consensus       145 ~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl  224 (505)
T KOG3207|consen  145 LPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSL  224 (505)
T ss_pred             CCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcH
Confidence            45666777777665432   3334566777777777776554333221 2456677777777776652 23334456666


Q ss_pred             cEEeecCCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           76 VVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        76 ~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      ..+++..|............+..|+.|++++|++.
T Consensus       225 ~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li  259 (505)
T KOG3207|consen  225 EVLYLEANEIILIKATSTKILQTLQELDLSNNNLI  259 (505)
T ss_pred             HHhhhhcccccceecchhhhhhHHhhccccCCccc
Confidence            66666666322211112233445666666666643

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

Probab=98.74  E-value=2.5e-09  Score=68.88  Aligned_cols=107  Identities=23%  Similarity=0.247  Sum_probs=83.6

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      .+.++.|++++|.+..+.+ +..+++|+.||+++|.+.... ..--.+.+++.|.+++|.+..  ..+++.+-+|..+++
T Consensus       306 ~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N~Ls~~~-Gwh~KLGNIKtL~La~N~iE~--LSGL~KLYSLvnLDl  381 (490)
T KOG1259|consen  306 APKLRRLILSQNRIRTVQN-LAELPQLQLLDLSGNLLAECV-GWHLKLGNIKTLKLAQNKIET--LSGLRKLYSLVNLDL  381 (490)
T ss_pred             ccceeEEeccccceeeehh-hhhcccceEeecccchhHhhh-hhHhhhcCEeeeehhhhhHhh--hhhhHhhhhheeccc
Confidence            3678999999999998775 788999999999999855432 222467889999999976543  256677888999999


Q ss_pred             cCCcccCc-chHHhhcCCCCcEEeeecCCCCC
Q 040556           81 KDWQYLSS-LPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        81 ~~~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      ++|++... -.+.++++++|+++.+.+|++.+
T Consensus       382 ~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~  413 (490)
T KOG1259|consen  382 SSNQIEELDEVNHIGNLPCLETLRLTGNPLAG  413 (490)
T ss_pred             cccchhhHHHhcccccccHHHHHhhcCCCccc
Confidence            99986652 23467889999999999998654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.71  E-value=1.8e-07  Score=67.57  Aligned_cols=111  Identities=22%  Similarity=0.217  Sum_probs=82.0

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +...|++.++.++.+|..+.  +.++.|++++|.+. .+|..+  ..+|+.|++++|.+. .+|..+.  .+|+.+++++
T Consensus       179 ~~~~L~L~~~~LtsLP~~Ip--~~L~~L~Ls~N~Lt-sLP~~l--~~nL~~L~Ls~N~Lt-sLP~~l~--~~L~~L~Ls~  250 (754)
T PRK15370        179 NKTELRLKILGLTTIPACIP--EQITTLILDNNELK-SLPENL--QGNIKTLYANSNQLT-SIPATLP--DTIQEMELSI  250 (754)
T ss_pred             CceEEEeCCCCcCcCCcccc--cCCcEEEecCCCCC-cCChhh--ccCCCEEECCCCccc-cCChhhh--ccccEEECcC
Confidence            45678999988888886553  57999999999866 455543  358999999998876 4565543  4799999999


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      |.+. .+|..+.  ..|+.|++++|.+. .+|..+.  ++|+.|+
T Consensus       251 N~L~-~LP~~l~--s~L~~L~Ls~N~L~-~LP~~l~--~sL~~L~  289 (754)
T PRK15370        251 NRIT-ELPERLP--SALQSLDLFHNKIS-CLPENLP--EELRYLS  289 (754)
T ss_pred             CccC-cCChhHh--CCCCEEECcCCccC-ccccccC--CCCcEEE
Confidence            9865 6676554  57999999999876 4565443  3555554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.70  E-value=3.4e-08  Score=71.25  Aligned_cols=30  Identities=20%  Similarity=0.251  Sum_probs=17.9

Q ss_pred             CCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           98 SLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        98 ~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .|+.|++++|.+. .+|..++.+++|+.+++
T Consensus       423 ~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdL  452 (788)
T PRK15387        423 GLLSLSVYRNQLT-RLPESLIHLSSETTVNL  452 (788)
T ss_pred             hhhhhhhccCccc-ccChHHhhccCCCeEEC
Confidence            3455566655543 45666677777776654

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

Probab=98.68  E-value=1.2e-08  Score=67.63  Aligned_cols=89  Identities=26%  Similarity=0.179  Sum_probs=47.3

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .|..+++|+.+++++|.+....+..|....+++.|.+.+|++.......|.++..|+.|++.+|++....|.++....+|
T Consensus       269 cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l  348 (498)
T KOG4237|consen  269 CFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSL  348 (498)
T ss_pred             HHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEeccccccccee
Confidence            34455555555555555555555555555555555555555544444445555555555555555555555555555555


Q ss_pred             cEEeeecCC
Q 040556          100 KILNLSSCS  108 (128)
Q Consensus       100 ~~l~l~~n~  108 (128)
                      ..+++-+|+
T Consensus       349 ~~l~l~~Np  357 (498)
T KOG4237|consen  349 STLNLLSNP  357 (498)
T ss_pred             eeeehccCc
Confidence            555554444

>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=98.65  E-value=7.9e-08  Score=44.70  Aligned_cols=38  Identities=29%  Similarity=0.336  Sum_probs=26.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcc
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNIS   39 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~   39 (128)
                      ++|++|++++|.+++++..+..+++|++|++++|.+..
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCC
Confidence            46777888888887777667778888888888777543

...

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

Probab=98.65  E-value=8.2e-09  Score=71.11  Aligned_cols=121  Identities=25%  Similarity=0.308  Sum_probs=99.5

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ..|++++++.|.+..+|..++.|+ |+.+-+++|+ .+..|..++...+|..|+.+.|.+.. +|..++++.+|+.+.+.
T Consensus       121 ~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNk-l~~lp~~ig~~~tl~~ld~s~nei~s-lpsql~~l~slr~l~vr  197 (722)
T KOG0532|consen  121 EALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNK-LTSLPEEIGLLPTLAHLDVSKNEIQS-LPSQLGYLTSLRDLNVR  197 (722)
T ss_pred             hHHHHhhhccchhhcCChhhhcCc-ceeEEEecCc-cccCCcccccchhHHHhhhhhhhhhh-chHHhhhHHHHHHHHHh
Confidence            356778999999999998888877 8889999998 67777778888899999999987654 67788899999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+. .+|+++..+ .|..||++.|++ ..+|-.|.+++.|+++-|
T Consensus       198 Rn~l~-~lp~El~~L-pLi~lDfScNki-s~iPv~fr~m~~Lq~l~L  241 (722)
T KOG0532|consen  198 RNHLE-DLPEELCSL-PLIRLDFSCNKI-SYLPVDFRKMRHLQVLQL  241 (722)
T ss_pred             hhhhh-hCCHHHhCC-ceeeeecccCce-eecchhhhhhhhheeeee
Confidence            99844 577777744 489999998884 557888999999988753

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

Probab=98.57  E-value=6.8e-08  Score=65.08  Aligned_cols=79  Identities=33%  Similarity=0.407  Sum_probs=42.5

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|+.++++.|.+..++..+..++.|+.|++++|. ....|......+.|+.|++++|++.. +|..+.....|+.+.+++
T Consensus       141 nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~-l~~l~~~~~~~~~L~~L~ls~N~i~~-l~~~~~~~~~L~~l~~~~  218 (394)
T COG4886         141 NLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND-LSDLPKLLSNLSNLNNLDLSGNKISD-LPPEIELLSALEELDLSN  218 (394)
T ss_pred             hcccccccccchhhhhhhhhccccccccccCCch-hhhhhhhhhhhhhhhheeccCCcccc-CchhhhhhhhhhhhhhcC
Confidence            5666666666666665556666667777776666 33333323355566666666655443 222222223344444444


Q ss_pred             C
Q 040556           83 W   83 (128)
Q Consensus        83 ~   83 (128)
                      |
T Consensus       219 N  219 (394)
T COG4886         219 N  219 (394)
T ss_pred             C
Confidence            4

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

Probab=98.55  E-value=2.5e-08  Score=66.71  Aligned_cols=88  Identities=25%  Similarity=0.229  Sum_probs=43.2

Q ss_pred             hccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEeecCCcccCc-chHH-----hh
Q 040556           22 VLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLNLKDWQYLSS-LPST-----IN   94 (128)
Q Consensus        22 ~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~-~~~~-----~~   94 (128)
                      ..+|++..|++..|...........-+..|+.|++++|++.... -...+.++.|+.++++.+.+... .|+.     .-
T Consensus       219 ~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~  298 (505)
T KOG3207|consen  219 LTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTH  298 (505)
T ss_pred             HhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhc
Confidence            34455555555554322222222223445666666666554422 13445566666666666554331 2222     23


Q ss_pred             cCCCCcEEeeecCCC
Q 040556           95 GLKSLKILNLSSCSK  109 (128)
Q Consensus        95 ~~~~L~~l~l~~n~~  109 (128)
                      .+.+|++|++..|++
T Consensus       299 ~f~kL~~L~i~~N~I  313 (505)
T KOG3207|consen  299 TFPKLEYLNISENNI  313 (505)
T ss_pred             ccccceeeecccCcc
Confidence            345677777777765

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

Probab=98.55  E-value=5.3e-08  Score=65.60  Aligned_cols=103  Identities=33%  Similarity=0.355  Sum_probs=62.5

Q ss_pred             CCcEEEecCCCCCCcchhhhccC-cccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLS-GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~-~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .++.+.+.+|.+.+++....... +|+.+++++|.+ ...|..+..++.|+.|+++.|++.. .+...+..+.++.++++
T Consensus       117 ~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i-~~l~~~~~~l~~L~~L~l~~N~l~~-l~~~~~~~~~L~~L~ls  194 (394)
T COG4886         117 NLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKI-ESLPSPLRNLPNLKNLDLSFNDLSD-LPKLLSNLSNLNNLDLS  194 (394)
T ss_pred             ceeEEecCCcccccCccccccchhhcccccccccch-hhhhhhhhccccccccccCCchhhh-hhhhhhhhhhhhheecc
Confidence            45667777777777766655563 777777777773 3333335667777777777766554 33333356677777777


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      +|++ ..+|........|.++.+++|.
T Consensus       195 ~N~i-~~l~~~~~~~~~L~~l~~~~N~  220 (394)
T COG4886         195 GNKI-SDLPPEIELLSALEELDLSNNS  220 (394)
T ss_pred             CCcc-ccCchhhhhhhhhhhhhhcCCc
Confidence            7763 3345444444456666666653

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

Probab=98.40  E-value=3.4e-07  Score=59.80  Aligned_cols=37  Identities=19%  Similarity=0.097  Sum_probs=20.4

Q ss_pred             CCCcEEEecCCCCC-Ccchh----hhccCcccEEeccCCCCc
Q 040556            2 KFLQELLLDGTDIK-GLPLS----IVLLSGIVQLDLKGCKNI   38 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~----~~~l~~L~~l~l~~~~~~   38 (128)
                      ++|++++++.|.+. ..++.    +..+..|+.|.+.+|.+.
T Consensus        92 ~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg  133 (382)
T KOG1909|consen   92 PKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLG  133 (382)
T ss_pred             CceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCC
Confidence            45667777777665 32222    234556666666666544

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

Probab=98.36  E-value=1.2e-08  Score=72.36  Aligned_cols=102  Identities=21%  Similarity=0.149  Sum_probs=50.7

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchh-hhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSN-FISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      +++.|+++.|++.++. .+..|++|+.||++.|. ....|. ....+ .|+.|++.+|.+.+.  .++.++.+|+.||++
T Consensus       188 ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~-L~~vp~l~~~gc-~L~~L~lrnN~l~tL--~gie~LksL~~LDls  262 (1096)
T KOG1859|consen  188 ALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNC-LRHVPQLSMVGC-KLQLLNLRNNALTTL--RGIENLKSLYGLDLS  262 (1096)
T ss_pred             HhhhhccchhhhhhhH-HHHhcccccccccccch-hccccccchhhh-hheeeeecccHHHhh--hhHHhhhhhhccchh
Confidence            4555566666555444 44555566666666655 222222 11222 255555555443321  344455666666666


Q ss_pred             CCcccCcc-hHHhhcCCCCcEEeeecCCC
Q 040556           82 DWQYLSSL-PSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        82 ~~~~~~~~-~~~~~~~~~L~~l~l~~n~~  109 (128)
                      .|-+.+.- -..++.+..|++|.+.||++
T Consensus       263 yNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  263 YNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             HhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            65443321 11244455566666666654

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

Probab=98.35  E-value=5e-07  Score=64.81  Aligned_cols=104  Identities=23%  Similarity=0.348  Sum_probs=48.9

Q ss_pred             CCcEEEecCCCC-C-Ccchhh-hccCcccEEeccCCCCccc-chhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEE
Q 040556            3 FLQELLLDGTDI-K-GLPLSI-VLLSGIVQLDLKGCKNISC-LSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         3 ~L~~l~l~~~~~-~-~~~~~~-~~l~~L~~l~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      +|++|+++|... . .++..+ ..+|.|+.|.+.+-.+... ......++++|..||+++.++...  .+++.+++|+.|
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq~L  200 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQVL  200 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc--HHHhccccHHHH
Confidence            355555555322 1 333333 2356666666655443322 222334556666666666554432  445555555555


Q ss_pred             eecCCcccC-cchHHhhcCCCCcEEeeecCC
Q 040556           79 NLKDWQYLS-SLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        79 ~l~~~~~~~-~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      .+.+-.+.. ..-..+.++++|+.||++...
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~  231 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDK  231 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccc
Confidence            554433322 112234455555555555433

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

Probab=98.34  E-value=1.7e-07  Score=60.45  Aligned_cols=125  Identities=28%  Similarity=0.271  Sum_probs=66.2

Q ss_pred             CCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccch--hhhcccccCCEEecCCCCCcc----------------
Q 040556            3 FLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLS--NFISALKFLSTLNLSDGTAIR----------------   63 (128)
Q Consensus         3 ~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~--~~~~~l~~L~~L~l~~~~~~~----------------   63 (128)
                      +|+-+.+.++.+. .+-..+..-.+|+.+++++++-.+...  --+.++..|..|++++|....                
T Consensus       211 kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~  290 (419)
T KOG2120|consen  211 KLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQ  290 (419)
T ss_pred             hhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhh
Confidence            4444555555554 333444455556666666654333222  123455666666666554421                


Q ss_pred             -------------cchhhhhhcCCCcEEeecCCcccC-cchHHhhcCCCCcEEeeecCCCCCC-CCcCcCCCCCCCccc
Q 040556           64 -------------ELSLSVELLTGLVVLNLKDWQYLS-SLPSTINGLKSLKILNLSSCSKLEN-VPENLGKVESLEELD  127 (128)
Q Consensus        64 -------------~~~~~~~~l~~L~~l~l~~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~~-~~~~~~~~~~L~~l~  127 (128)
                                   .+.--...++++.+||++.|.... ....++..+..|+++.++.|....+ .--.++..++|.+||
T Consensus       291 LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLd  369 (419)
T KOG2120|consen  291 LNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLD  369 (419)
T ss_pred             hhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHeeeeccCcceEEEE
Confidence                         111112356788888887765443 3344566777788888887764221 111355556666655

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

Probab=98.29  E-value=2.3e-07  Score=63.02  Aligned_cols=103  Identities=27%  Similarity=0.223  Sum_probs=55.2

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++.+++.+|.+..+...+..+++|+++++++|.+....+  +..++.|+.|++.+|.+...  ..+..+..|+.++++
T Consensus        95 ~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~--l~~l~~L~~L~l~~N~i~~~--~~~~~l~~L~~l~l~  170 (414)
T KOG0531|consen   95 KSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGNLISDI--SGLESLKSLKLLDLS  170 (414)
T ss_pred             cceeeeeccccchhhcccchhhhhcchheeccccccccccc--hhhccchhhheeccCcchhc--cCCccchhhhcccCC
Confidence            34556666666666555435556666666666666555443  34445566666666655432  223335566666666


Q ss_pred             CCcccCcch-HHhhcCCCCcEEeeecCCC
Q 040556           82 DWQYLSSLP-STINGLKSLKILNLSSCSK  109 (128)
Q Consensus        82 ~~~~~~~~~-~~~~~~~~L~~l~l~~n~~  109 (128)
                      +|.+...-+ . ...+..++.+++.+|.+
T Consensus       171 ~n~i~~ie~~~-~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  171 YNRIVDIENDE-LSELISLEELDLGGNSI  198 (414)
T ss_pred             cchhhhhhhhh-hhhccchHHHhccCCch
Confidence            665433222 1 24445555555555543

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

Probab=98.28  E-value=8.8e-07  Score=57.95  Aligned_cols=90  Identities=22%  Similarity=0.189  Sum_probs=40.0

Q ss_pred             hhhccCcccEEeccCCCCccc----chhhhcccccCCEEecCCCCCcccchhhh-----hhcCCCcEEeecCCcccCcc-
Q 040556           20 SIVLLSGIVQLDLKGCKNISC----LSNFISALKFLSTLNLSDGTAIRELSLSV-----ELLTGLVVLNLKDWQYLSSL-   89 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~~~~~-----~~l~~L~~l~l~~~~~~~~~-   89 (128)
                      .+..|++|+.||+++|.++..    +...++.+++|+.+++++|.+...-...+     ...++|+.+.+.+|.+..+- 
T Consensus       208 al~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~  287 (382)
T KOG1909|consen  208 ALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAA  287 (382)
T ss_pred             HHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHH
Confidence            344455555555555554432    23334445555555555555433211111     12345555555555444321 


Q ss_pred             ---hHHhhcCCCCcEEeeecCCC
Q 040556           90 ---PSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        90 ---~~~~~~~~~L~~l~l~~n~~  109 (128)
                         ...+...+.|.+|++++|.+
T Consensus       288 ~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  288 LALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHHHHHhcchhhHHhcCCcccc
Confidence               11223344555555555554

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

Probab=98.28  E-value=1e-07  Score=64.76  Aligned_cols=104  Identities=30%  Similarity=0.233  Sum_probs=73.3

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      ++.+.+..|.+...-..+..+.+++.+++.+|.+..... .+..+++|++|++++|.+...  .++..++.|+.|++.+|
T Consensus        74 l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~-~l~~~~~L~~L~ls~N~I~~i--~~l~~l~~L~~L~l~~N  150 (414)
T KOG0531|consen   74 LKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIEN-LLSSLVNLQVLDLSFNKITKL--EGLSTLTLLKELNLSGN  150 (414)
T ss_pred             HHhhccchhhhhhhhcccccccceeeeeccccchhhccc-chhhhhcchheeccccccccc--cchhhccchhhheeccC
Confidence            344455556665544457788899999999998555443 256788999999999887764  34456677899999998


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      .+...  ..+..+..|+.+++++|.+...
T Consensus       151 ~i~~~--~~~~~l~~L~~l~l~~n~i~~i  177 (414)
T KOG0531|consen  151 LISDI--SGLESLKSLKLLDLSYNRIVDI  177 (414)
T ss_pred             cchhc--cCCccchhhhcccCCcchhhhh
Confidence            75542  2344578888999988886543

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

Probab=98.25  E-value=5e-08  Score=69.29  Aligned_cols=103  Identities=27%  Similarity=0.180  Sum_probs=72.3

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      |...++++|++..+..++.-++.++.|+++.|.+.+..  ++..+++|++||++.|.+.....-....|. |+.|.+++|
T Consensus       166 L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN  242 (1096)
T KOG1859|consen  166 LATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNN  242 (1096)
T ss_pred             HhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccchhccccccchhhhh-heeeeeccc
Confidence            44556777777766667777888888899888866654  577888899999988776543222233444 888888887


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      .+.. + ..+.++++|+.||+++|-+.+
T Consensus       243 ~l~t-L-~gie~LksL~~LDlsyNll~~  268 (1096)
T KOG1859|consen  243 ALTT-L-RGIENLKSLYGLDLSYNLLSE  268 (1096)
T ss_pred             HHHh-h-hhHHhhhhhhccchhHhhhhc
Confidence            5433 2 346678888888988886543

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

Probab=98.25  E-value=1.3e-06  Score=62.77  Aligned_cols=110  Identities=19%  Similarity=0.163  Sum_probs=79.3

Q ss_pred             CCCCcEEEecCCCCC--CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcc-cchhhhhhcCCCcE
Q 040556            1 MKFLQELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR-ELSLSVELLTGLVV   77 (128)
Q Consensus         1 l~~L~~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~   77 (128)
                      ||.|+.|.+.+-.+.  ++...+..+++|..||++++.+...  ..++++.+|+.|.+.+=.+.. ..-..+..+.+|+.
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl--~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~v  224 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL--SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRV  224 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc--HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCe
Confidence            688999999997664  5566778899999999999986666  447889999988776544432 22345668999999


Q ss_pred             EeecCCcccCcc--hH----HhhcCCCCcEEeeecCCCCCC
Q 040556           78 LNLKDWQYLSSL--PS----TINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        78 l~l~~~~~~~~~--~~----~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      ||+++.......  ..    .-..+++|+.||.+++.+...
T Consensus       225 LDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~  265 (699)
T KOG3665|consen  225 LDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEE  265 (699)
T ss_pred             eeccccccccchHHHHHHHHhcccCccccEEecCCcchhHH
Confidence            999986533321  11    112478999999998876543

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

Probab=98.24  E-value=2.2e-06  Score=52.39  Aligned_cols=78  Identities=18%  Similarity=0.086  Sum_probs=35.9

Q ss_pred             EEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEeecCCcc
Q 040556            7 LLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLNLKDWQY   85 (128)
Q Consensus         7 l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~l~~~~~   85 (128)
                      +++++|.+...+ .|..++.|.+|.+..|++....|.--..++.++.|.+.+|++.... -..+..|+.|+++.+.+|++
T Consensus        47 iDLtdNdl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv  125 (233)
T KOG1644|consen   47 IDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNPV  125 (233)
T ss_pred             ecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCch
Confidence            344444443322 2344555555555555544444443333445555555555443211 12233455555555555543

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

Probab=98.18  E-value=5.2e-06  Score=50.79  Aligned_cols=102  Identities=22%  Similarity=0.102  Sum_probs=73.2

Q ss_pred             cCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCc-chHHhhcCCCCcEE
Q 040556           24 LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSS-LPSTINGLKSLKIL  102 (128)
Q Consensus        24 l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~-~~~~~~~~~~L~~l  102 (128)
                      ..+...+|+++|.+...  ..|..++.|.+|.+++|+++...|.--..++++..|.+.+|++... .-..+..+++|++|
T Consensus        41 ~d~~d~iDLtdNdl~~l--~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~L  118 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKL--DNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYL  118 (233)
T ss_pred             ccccceecccccchhhc--ccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCcccee
Confidence            34677789999984443  2367889999999999998876665555678899999999885431 11236678899999


Q ss_pred             eeecCCCCCCC---CcCcCCCCCCCccc
Q 040556          103 NLSSCSKLENV---PENLGKVESLEELD  127 (128)
Q Consensus       103 ~l~~n~~~~~~---~~~~~~~~~L~~l~  127 (128)
                      .+-+|+...+-   --.+..+++|+.||
T Consensus       119 tll~Npv~~k~~YR~yvl~klp~l~~LD  146 (233)
T KOG1644|consen  119 TLLGNPVEHKKNYRLYVLYKLPSLRTLD  146 (233)
T ss_pred             eecCCchhcccCceeEEEEecCcceEee
Confidence            99888865431   12355677777766

>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=98.18  E-value=5e-06  Score=38.59  Aligned_cols=36  Identities=33%  Similarity=0.357  Sum_probs=17.7

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCc
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI   62 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~   62 (128)
                      +|++|++++|.+.. +|..+..+++|+.|++++|.+.
T Consensus         2 ~L~~L~l~~N~i~~-l~~~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    2 NLEELDLSNNQITD-LPPELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             T-SEEEETSSS-SS-HGGHGTTCTTSSEEEETSSCCS
T ss_pred             cceEEEccCCCCcc-cCchHhCCCCCCEEEecCCCCC
Confidence            45555555555332 3333555555555555555443

...

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

Probab=98.13  E-value=8.2e-07  Score=51.22  Aligned_cols=100  Identities=17%  Similarity=0.142  Sum_probs=54.8

Q ss_pred             EEecCCCCCCcch---hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            7 LLLDGTDIKGLPL---SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         7 l~l~~~~~~~~~~---~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      ++++.+.+-.+++   .+.....|+..++++|.+-...++.-..++..+.++++.|.+.. +|.-+..++.|+.++++.|
T Consensus        32 ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisd-vPeE~Aam~aLr~lNl~~N  110 (177)
T KOG4579|consen   32 LDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISD-VPEELAAMPALRSLNLRFN  110 (177)
T ss_pred             cccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhh-chHHHhhhHHhhhcccccC
Confidence            4444444433333   23344556666777776433333322345566777777665443 4544666777777777776


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      .+.. .|+.+..+.++..|+..+|.
T Consensus       111 ~l~~-~p~vi~~L~~l~~Lds~~na  134 (177)
T KOG4579|consen  111 PLNA-EPRVIAPLIKLDMLDSPENA  134 (177)
T ss_pred             cccc-chHHHHHHHhHHHhcCCCCc
Confidence            6443 45555556666666665554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.07  E-value=2.2e-05  Score=53.20  Aligned_cols=60  Identities=22%  Similarity=0.428  Sum_probs=38.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccch
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELS   66 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~   66 (128)
                      .+++.|++++|.++.+|. +  -.+|+.|.+++|......|..+  ..+|+.|++.+|.....+|
T Consensus        52 ~~l~~L~Is~c~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV-L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             cCCCEEEeCCCCCcccCC-C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc
Confidence            567888899888887772 1  2358888888776556666433  2467777777764333333

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

Probab=98.00  E-value=1.2e-06  Score=50.59  Aligned_cols=81  Identities=21%  Similarity=0.231  Sum_probs=56.9

Q ss_pred             CCcEEEecCCCCCCcchhhhc-cCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVL-LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~-l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      +|+.+++++|.++++|+.|.. ++..++++++.|. ....|..+..++.|+.+++..|.+... |..+..+.++.+|+..
T Consensus        54 el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE~Aam~aLr~lNl~~N~l~~~-p~vi~~L~~l~~Lds~  131 (177)
T KOG4579|consen   54 ELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEELAAMPALRSLNLRFNPLNAE-PRVIAPLIKLDMLDSP  131 (177)
T ss_pred             eEEEEecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHHHhhhHHhhhcccccCccccc-hHHHHHHHhHHHhcCC
Confidence            355677888888888877654 4578888888887 445555577788888888888776643 4444457777788777


Q ss_pred             CCcc
Q 040556           82 DWQY   85 (128)
Q Consensus        82 ~~~~   85 (128)
                      +|..
T Consensus       132 ~na~  135 (177)
T KOG4579|consen  132 ENAR  135 (177)
T ss_pred             CCcc
Confidence            7653

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

Probab=97.83  E-value=0.00011  Score=41.75  Aligned_cols=117  Identities=14%  Similarity=0.095  Sum_probs=57.1

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|+.+.+.. .+..+.. .|..+++++.+.+..+ +.......|..+.+++.+.+.. .........+..+..++.+.+
T Consensus        12 ~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~   88 (129)
T PF13306_consen   12 SNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDI   88 (129)
T ss_dssp             TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEE
T ss_pred             CCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccccccc
Confidence            4677777764 4555543 5777888999998775 4555555677787889888865 443333456667888999988


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLE  124 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~  124 (128)
                      ..+ +...-...+.+. .++.+.+.. .+.......|.++++|+
T Consensus        89 ~~~-~~~i~~~~f~~~-~l~~i~~~~-~~~~i~~~~F~~~~~l~  129 (129)
T PF13306_consen   89 PSN-ITEIGSSSFSNC-NLKEINIPS-NITKIEENAFKNCTKLK  129 (129)
T ss_dssp             TTT--BEEHTTTTTT--T--EEE-TT-B-SS----GGG------
T ss_pred             Ccc-ccEEchhhhcCC-CceEEEECC-CccEECCccccccccCC
Confidence            764 232223345565 788887764 33333344566666653

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

Probab=97.79  E-value=2.3e-06  Score=55.38  Aligned_cols=83  Identities=29%  Similarity=0.201  Sum_probs=58.9

Q ss_pred             CcEEEecCCCCC--CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc--chhhhhhcCCCcEEe
Q 040556            4 LQELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE--LSLSVELLTGLVVLN   79 (128)
Q Consensus         4 L~~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~l~   79 (128)
                      +++++++...++  .+...+..|.+|+.+.+.++++.+.....+..-..|+.+++++|.-.+.  ..-.+.+|..|..|+
T Consensus       187 lq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LN  266 (419)
T KOG2120|consen  187 LQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELN  266 (419)
T ss_pred             hHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcC
Confidence            667778877776  3455567788899999999987777777777788899999988764332  223455677777777


Q ss_pred             ecCCccc
Q 040556           80 LKDWQYL   86 (128)
Q Consensus        80 l~~~~~~   86 (128)
                      ++-|...
T Consensus       267 lsWc~l~  273 (419)
T KOG2120|consen  267 LSWCFLF  273 (419)
T ss_pred             chHhhcc
Confidence            7665433

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

Probab=97.64  E-value=3.5e-05  Score=48.75  Aligned_cols=63  Identities=21%  Similarity=0.169  Sum_probs=27.7

Q ss_pred             ccCcccEEeccCC--CCcccchhhhcccccCCEEecCCCCCcc-cchhhhhhcCCCcEEeecCCcc
Q 040556           23 LLSGIVQLDLKGC--KNISCLSNFISALKFLSTLNLSDGTAIR-ELSLSVELLTGLVVLNLKDWQY   85 (128)
Q Consensus        23 ~l~~L~~l~l~~~--~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~l~l~~~~~   85 (128)
                      .+++|+.|.+++|  ++.+.++...-.+++|+++++++|++.. ..-.....+.+|..|++..|..
T Consensus        63 ~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   63 KLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSV  128 (260)
T ss_pred             CcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCc
Confidence            3445555555555  3333333323334555555555554432 1112233444455555555443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=4.3e-06  Score=53.70  Aligned_cols=98  Identities=17%  Similarity=0.054  Sum_probs=61.5

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~l~   81 (128)
                      +.+.|+..|+.+.++. .+..++.|+.|.++-|.+++..|  +..|+.|+.|.+-.|.+.... ..-+.++++|+.|=+.
T Consensus        20 ~vkKLNcwg~~L~DIs-ic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~   96 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDDIS-ICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLD   96 (388)
T ss_pred             HhhhhcccCCCccHHH-HHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhc
Confidence            3455677777776554 23566777888888887666554  567777777777777665422 2345667777777777


Q ss_pred             CCcccCcchHH-----hhcCCCCcEEe
Q 040556           82 DWQYLSSLPST-----INGLKSLKILN  103 (128)
Q Consensus        82 ~~~~~~~~~~~-----~~~~~~L~~l~  103 (128)
                      .|...+.-+..     +.-+++|++||
T Consensus        97 ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   97 ENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             cCCcccccchhHHHHHHHHcccchhcc
Confidence            77666644332     33455565554

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

Probab=97.46  E-value=0.00046  Score=44.57  Aligned_cols=40  Identities=20%  Similarity=0.174  Sum_probs=20.5

Q ss_pred             hccCcccEEeccCCCCcccch----hhhcccccCCEEecCCCCC
Q 040556           22 VLLSGIVQLDLKGCKNISCLS----NFISALKFLSTLNLSDGTA   61 (128)
Q Consensus        22 ~~l~~L~~l~l~~~~~~~~~~----~~~~~l~~L~~L~l~~~~~   61 (128)
                      .+|++++.+++++|.+....|    ..+++.+.+.+|.+.+|.+
T Consensus        89 lkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGl  132 (388)
T COG5238          89 LKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGL  132 (388)
T ss_pred             hcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCC
Confidence            345566666666655544333    2234445555555555544

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

Probab=97.46  E-value=0.00011  Score=46.50  Aligned_cols=87  Identities=25%  Similarity=0.244  Sum_probs=61.6

Q ss_pred             hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCC--CCcccchhhhhhcCCCcEEeecCCcccC--cchHHhhcC
Q 040556           21 IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDG--TAIRELSLSVELLTGLVVLNLKDWQYLS--SLPSTINGL   96 (128)
Q Consensus        21 ~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~--~~~~~~~~~~~~l~~L~~l~l~~~~~~~--~~~~~~~~~   96 (128)
                      ...+..|+.+++.+..+++..  .+..+++|+.|.+++|  +..+.++...-.+++|+++++++|++.-  .+ ..+..+
T Consensus        39 ~d~~~~le~ls~~n~gltt~~--~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl-~pl~~l  115 (260)
T KOG2739|consen   39 TDEFVELELLSVINVGLTTLT--NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTL-RPLKEL  115 (260)
T ss_pred             cccccchhhhhhhccceeecc--cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcccccccc-chhhhh
Confidence            345667777788777755442  2567889999999999  6666666666677999999999997553  12 224556


Q ss_pred             CCCcEEeeecCCCC
Q 040556           97 KSLKILNLSSCSKL  110 (128)
Q Consensus        97 ~~L~~l~l~~n~~~  110 (128)
                      .+|..|++..|.-.
T Consensus       116 ~nL~~Ldl~n~~~~  129 (260)
T KOG2739|consen  116 ENLKSLDLFNCSVT  129 (260)
T ss_pred             cchhhhhcccCCcc
Confidence            67788888877643

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.32  E-value=3.8e-05  Score=49.48  Aligned_cols=78  Identities=23%  Similarity=0.236  Sum_probs=61.9

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccch-hhhcccccCCEEecCCCCCcccchh-----hhhhcCC
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLS-NFISALKFLSTLNLSDGTAIRELSL-----SVELLTG   74 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~-----~~~~l~~   74 (128)
                      |+.|++|.++-|+++.+. .+..|++|++|+++.|.+..... ..+.++++|+.|.+..|...+....     .+.-+|+
T Consensus        40 Mp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPn  118 (388)
T KOG2123|consen   40 MPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPN  118 (388)
T ss_pred             cccceeEEeeccccccch-hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccCCcccccchhHHHHHHHHccc
Confidence            567899999999998664 36789999999999999776543 4578899999999999888765442     3556788


Q ss_pred             CcEEe
Q 040556           75 LVVLN   79 (128)
Q Consensus        75 L~~l~   79 (128)
                      |+.||
T Consensus       119 LkKLD  123 (388)
T KOG2123|consen  119 LKKLD  123 (388)
T ss_pred             chhcc
Confidence            88876

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.29  E-value=0.00085  Score=45.78  Aligned_cols=65  Identities=23%  Similarity=0.296  Sum_probs=46.4

Q ss_pred             hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchH
Q 040556           21 IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPS   91 (128)
Q Consensus        21 ~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~   91 (128)
                      +..+.++..|++++|. ...+|.   -..+|+.|.+.+|.....+|..+.  .+|+.|++.+|.....+|.
T Consensus        48 ~~~~~~l~~L~Is~c~-L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~  112 (426)
T PRK15386         48 IEEARASGRLYIKDCD-IESLPV---LPNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPE  112 (426)
T ss_pred             HHHhcCCCEEEeCCCC-CcccCC---CCCCCcEEEccCCCCcccCCchhh--hhhhheEccCccccccccc
Confidence            4457899999999996 455552   224699999998777666665543  5799999998854445554

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.00059  Score=44.63  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=11.4

Q ss_pred             HhhcCCCCcEEeeecCCCCC
Q 040556           92 TINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        92 ~~~~~~~L~~l~l~~n~~~~  111 (128)
                      ++.+++.|+-+.+.++++..
T Consensus       244 ~Ln~f~~l~dlRv~~~Pl~d  263 (418)
T KOG2982|consen  244 ALNGFPQLVDLRVSENPLSD  263 (418)
T ss_pred             HHcCCchhheeeccCCcccc
Confidence            34455666666666665543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.00017  Score=46.99  Aligned_cols=81  Identities=22%  Similarity=0.158  Sum_probs=38.3

Q ss_pred             CCcEEEecCCCCCCcch---hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc-chhhhhhcCCCcEE
Q 040556            3 FLQELLLDGTDIKGLPL---SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE-LSLSVELLTGLVVL   78 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~---~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~l   78 (128)
                      .++.+++.+|.+.++..   .+..+|.+++|+++.|++...+....-...+|+.+-+.+....|. ....+..+|.++.+
T Consensus        72 ~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtel  151 (418)
T KOG2982|consen   72 DVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTEL  151 (418)
T ss_pred             hhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhh
Confidence            34555666666654322   234456666666666654443322112234555555555444332 22333444455555


Q ss_pred             eecCC
Q 040556           79 NLKDW   83 (128)
Q Consensus        79 ~l~~~   83 (128)
                      .++.|
T Consensus       152 HmS~N  156 (418)
T KOG2982|consen  152 HMSDN  156 (418)
T ss_pred             hhccc
Confidence            44444

>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=97.06  E-value=0.00026  Score=27.63  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=10.3

Q ss_pred             CcEEeeecCCCCCCCCcCcC
Q 040556           99 LKILNLSSCSKLENVPENLG  118 (128)
Q Consensus        99 L~~l~l~~n~~~~~~~~~~~  118 (128)
                      |++|++++|.+. .+|+.++
T Consensus         2 L~~Ldls~n~l~-~ip~~~~   20 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPSSFS   20 (22)
T ss_dssp             ESEEEETSSEES-EEGTTTT
T ss_pred             ccEEECCCCcCE-eCChhhc
Confidence            556666666544 4555444

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 ....

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

Probab=97.03  E-value=0.0022  Score=36.39  Aligned_cols=102  Identities=13%  Similarity=0.092  Sum_probs=56.3

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .|..+++++.+.+.. .+.......|..+.+++.+.+..+ +.......+..+..++.+.+.. .....-...+..++.+
T Consensus         7 ~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l   83 (129)
T PF13306_consen    7 AFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNL   83 (129)
T ss_dssp             TTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTE
T ss_pred             HHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccccccc
Confidence            467788999999885 445555567888889999999874 5544456677887899999965 3232223456678899


Q ss_pred             cEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556          100 KILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus       100 ~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +.+.+..+ +...-...+.++ +++.+
T Consensus        84 ~~i~~~~~-~~~i~~~~f~~~-~l~~i  108 (129)
T PF13306_consen   84 KNIDIPSN-ITEIGSSSFSNC-NLKEI  108 (129)
T ss_dssp             CEEEETTT--BEEHTTTTTT--T--EE
T ss_pred             cccccCcc-ccEEchhhhcCC-CceEE
Confidence            99998654 332223345554 55443

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

Probab=96.98  E-value=0.0027  Score=41.21  Aligned_cols=110  Identities=14%  Similarity=0.036  Sum_probs=50.0

Q ss_pred             CCCCcEEEecCCCCC-Ccchhh----hccCcccEEeccCCCCcccchhhh-------------cccccCCEEecCCCCCc
Q 040556            1 MKFLQELLLDGTDIK-GLPLSI----VLLSGIVQLDLKGCKNISCLSNFI-------------SALKFLSTLNLSDGTAI   62 (128)
Q Consensus         1 l~~L~~l~l~~~~~~-~~~~~~----~~l~~L~~l~l~~~~~~~~~~~~~-------------~~l~~L~~L~l~~~~~~   62 (128)
                      |++|+.++++.|.+. ..|..+    ..-+.+..|.+.+|.+.......+             .+-|.|+....++|++.
T Consensus        91 cp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRle  170 (388)
T COG5238          91 CPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLE  170 (388)
T ss_pred             CCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhc
Confidence            455666666666665 333322    334556666666665332211111             12345566666555542


Q ss_pred             cc----chhhhhhcCCCcEEeecCCcccCc-----chHHhhcCCCCcEEeeecCCCC
Q 040556           63 RE----LSLSVELLTGLVVLNLKDWQYLSS-----LPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        63 ~~----~~~~~~~l~~L~~l~l~~~~~~~~-----~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      ..    ....+..-..|+...+.+|.+...     .-..+..+.+|..|++.+|-++
T Consensus       171 ngs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft  227 (388)
T COG5238         171 NGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFT  227 (388)
T ss_pred             cCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchh
Confidence            21    111222223455555555543321     0111234456666666666543

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

Probab=96.60  E-value=0.0016  Score=44.96  Aligned_cols=92  Identities=25%  Similarity=0.270  Sum_probs=51.3

Q ss_pred             hhhhccCcccEEeccCC-CCcccch----hhhcccccCCEEecCCCC-Ccccchhhhh-hcCCCcEEeecCCcc-cC-cc
Q 040556           19 LSIVLLSGIVQLDLKGC-KNISCLS----NFISALKFLSTLNLSDGT-AIRELSLSVE-LLTGLVVLNLKDWQY-LS-SL   89 (128)
Q Consensus        19 ~~~~~l~~L~~l~l~~~-~~~~~~~----~~~~~l~~L~~L~l~~~~-~~~~~~~~~~-~l~~L~~l~l~~~~~-~~-~~   89 (128)
                      .....+++|+.++++++ ......+    .....+..++.++++.+. ++...-..+. .|++|+.+.+.+|.. .. .+
T Consensus       208 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl  287 (482)
T KOG1947|consen  208 ALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGL  287 (482)
T ss_pred             HHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHH
Confidence            34456777888887762 2222211    122345677777777766 3333323332 367788887666652 22 12


Q ss_pred             hHHhhcCCCCcEEeeecCCCC
Q 040556           90 PSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        90 ~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      ......++.|+++++++|...
T Consensus       288 ~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  288 VSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             HHHHHhcCcccEEeeecCccc
Confidence            233345677888888877653

>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=96.43  E-value=0.0031  Score=22.88  Aligned_cols=14  Identities=21%  Similarity=0.257  Sum_probs=5.7

Q ss_pred             CCcEEEecCCCCCC
Q 040556            3 FLQELLLDGTDIKG   16 (128)
Q Consensus         3 ~L~~l~l~~~~~~~   16 (128)
                      +|+.|++++|.+++
T Consensus         2 ~L~~L~l~~n~L~~   15 (17)
T PF13504_consen    2 NLRTLDLSNNRLTS   15 (17)
T ss_dssp             T-SEEEETSS--SS
T ss_pred             ccCEEECCCCCCCC
Confidence            45555555555443

...

>smart00370 LRR Leucine-rich repeats, outliers

Probab=96.13  E-value=0.0073  Score=24.31  Aligned_cols=21  Identities=29%  Similarity=0.425  Sum_probs=14.3

Q ss_pred             CCCCcEEEecCCCCCCcchhh
Q 040556            1 MKFLQELLLDGTDIKGLPLSI   21 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~   21 (128)
                      +++|++|++++|.++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            456777777777777776543

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

Probab=96.13  E-value=0.0073  Score=24.31  Aligned_cols=21  Identities=29%  Similarity=0.425  Sum_probs=14.3

Q ss_pred             CCCCcEEEecCCCCCCcchhh
Q 040556            1 MKFLQELLLDGTDIKGLPLSI   21 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~   21 (128)
                      +++|++|++++|.++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            456777777777777776543

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.01  E-value=0.0083  Score=37.12  Aligned_cols=81  Identities=17%  Similarity=0.167  Sum_probs=46.6

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc-chhhhh-hcCCCcEEeecCCcccCc-chHHhhcCCCCcEE
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE-LSLSVE-LLTGLVVLNLKDWQYLSS-LPSTINGLKSLKIL  102 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~-~l~~L~~l~l~~~~~~~~-~~~~~~~~~~L~~l  102 (128)
                      .++.++-+++.+..+.-..+..+.+++.|.+.+|...+. ....++ -.++|+.|++++|.-... -...+..+++|+.|
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            466677777766655555666777777777777655331 111122 346777888877653332 22334566666666


Q ss_pred             eeec
Q 040556          103 NLSS  106 (128)
Q Consensus       103 ~l~~  106 (128)
                      .+.+
T Consensus       182 ~l~~  185 (221)
T KOG3864|consen  182 HLYD  185 (221)
T ss_pred             HhcC
Confidence            6643

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

Probab=94.65  E-value=0.01  Score=40.53  Aligned_cols=87  Identities=23%  Similarity=0.364  Sum_probs=40.7

Q ss_pred             ccCcccEEeccCCCCcccch-hhh-cccccCCEEecCCCCCccc--chhhhhhcCCCcEEeecCCcccCcc-----hHHh
Q 040556           23 LLSGIVQLDLKGCKNISCLS-NFI-SALKFLSTLNLSDGTAIRE--LSLSVELLTGLVVLNLKDWQYLSSL-----PSTI   93 (128)
Q Consensus        23 ~l~~L~~l~l~~~~~~~~~~-~~~-~~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~l~l~~~~~~~~~-----~~~~   93 (128)
                      .+.+|+.+.+..|+..+... ..+ .++++|+.+++.++.....  +.....+++.|+.+.++.|......     ...-
T Consensus       318 ~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~  397 (483)
T KOG4341|consen  318 HCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSS  397 (483)
T ss_pred             CCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhcc
Confidence            34566666666665322211 111 2355666666666544322  1222235666666666655433321     1111


Q ss_pred             hcCCCCcEEeeecCCC
Q 040556           94 NGLKSLKILNLSSCSK  109 (128)
Q Consensus        94 ~~~~~L~~l~l~~n~~  109 (128)
                      ..+..+..+.+++++.
T Consensus       398 c~~~~l~~lEL~n~p~  413 (483)
T KOG4341|consen  398 CSLEGLEVLELDNCPL  413 (483)
T ss_pred             ccccccceeeecCCCC
Confidence            2334555666665554

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

Probab=94.51  E-value=0.021  Score=39.52  Aligned_cols=106  Identities=25%  Similarity=0.277  Sum_probs=66.7

Q ss_pred             ccCcccEEeccCCCCccc--chhhhcccccCCEEecCCC-CCcccc----hhhhhhcCCCcEEeecCCc-ccCcchHHhh
Q 040556           23 LLSGIVQLDLKGCKNISC--LSNFISALKFLSTLNLSDG-TAIREL----SLSVELLTGLVVLNLKDWQ-YLSSLPSTIN   94 (128)
Q Consensus        23 ~l~~L~~l~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~-~~~~~~----~~~~~~l~~L~~l~l~~~~-~~~~~~~~~~   94 (128)
                      .++.++.+.+.++.....  .-.....++.|+.|+++++ ......    ......+..++.++++.+. +....-..+.
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            468888888888865554  3344567889999999873 222111    2234456889999999887 3333223333


Q ss_pred             -cCCCCcEEeeecCC-CCCC-CCcCcCCCCCCCcccC
Q 040556           95 -GLKSLKILNLSSCS-KLEN-VPENLGKVESLEELDI  128 (128)
Q Consensus        95 -~~~~L~~l~l~~n~-~~~~-~~~~~~~~~~L~~l~l  128 (128)
                       .+++|+++.+.+|. +++. +......++.|+++++
T Consensus       266 ~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l  302 (482)
T KOG1947|consen  266 SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDL  302 (482)
T ss_pred             hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEee
Confidence             47899999987777 3332 2223445667777764

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.23  E-value=0.0094  Score=36.89  Aligned_cols=78  Identities=23%  Similarity=0.335  Sum_probs=51.9

Q ss_pred             ccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcc-hHHhhc-CCCCcEEeeecCCCCCCC-CcCcCCCCCCCc
Q 040556           49 KFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSL-PSTING-LKSLKILNLSSCSKLENV-PENLGKVESLEE  125 (128)
Q Consensus        49 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~-~~~~~~-~~~L~~l~l~~n~~~~~~-~~~~~~~~~L~~  125 (128)
                      ..++.++.++..+..+-...+..++.++.+.+.+|...... -+-+++ ..+|+.|++++|.-.++- -..+.++++|+.
T Consensus       101 ~~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~  180 (221)
T KOG3864|consen  101 VKIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRR  180 (221)
T ss_pred             ceEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHH
Confidence            34678888887777666677788889999999988755532 122333 468999999999854332 222445555554


Q ss_pred             c
Q 040556          126 L  126 (128)
Q Consensus       126 l  126 (128)
                      +
T Consensus       181 L  181 (221)
T KOG3864|consen  181 L  181 (221)
T ss_pred             H
Confidence            4

>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=93.79  E-value=0.04  Score=21.59  Aligned_cols=7  Identities=57%  Similarity=0.824  Sum_probs=2.2

Q ss_pred             CEEecCC
Q 040556           52 STLNLSD   58 (128)
Q Consensus        52 ~~L~l~~   58 (128)
                      +.|++++
T Consensus         5 ~~L~l~~   11 (24)
T PF13516_consen    5 ETLDLSN   11 (24)
T ss_dssp             SEEE-TS
T ss_pred             CEEEccC
Confidence            3333333

...

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

Probab=92.88  E-value=0.0011  Score=41.93  Aligned_cols=89  Identities=18%  Similarity=0.072  Sum_probs=62.5

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .+..+...+.+|++.|+. ......|+.++.+..++++.|.+. ..|..++....+++++...|. +...|...+..+.+
T Consensus        37 ei~~~kr~tvld~~s~r~-vn~~~n~s~~t~~~rl~~sknq~~-~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~~k~~~~  113 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNRL-VNLGKNFSILTRLVRLDLSKNQIK-FLPKDAKQQRETVNAASHKNN-HSQQPKSQKKEPHP  113 (326)
T ss_pred             hhhccceeeeehhhhhHH-HhhccchHHHHHHHHHhccHhhHh-hChhhHHHHHHHHHHHhhccc-hhhCCccccccCCc
Confidence            456677888888888873 334455777788888888876543 456777777777777776654 55667777778888


Q ss_pred             cEEeeecCCCCC
Q 040556          100 KILNLSSCSKLE  111 (128)
Q Consensus       100 ~~l~l~~n~~~~  111 (128)
                      ++++.-++++..
T Consensus       114 k~~e~k~~~~~~  125 (326)
T KOG0473|consen  114 KKNEQKKTEFFR  125 (326)
T ss_pred             chhhhccCcchH
Confidence            888877776543

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

Probab=91.70  E-value=0.18  Score=20.42  Aligned_cols=14  Identities=43%  Similarity=0.430  Sum_probs=8.1

Q ss_pred             CCCcEEEecCCCCC
Q 040556            2 KFLQELLLDGTDIK   15 (128)
Q Consensus         2 ~~L~~l~l~~~~~~   15 (128)
                      ++|++|+++.|+++
T Consensus         2 ~~L~~L~L~~NkI~   15 (26)
T smart00365        2 TNLEELDLSQNKIK   15 (26)
T ss_pred             CccCEEECCCCccc
Confidence            45556666666554

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

Probab=90.14  E-value=0.006  Score=38.80  Aligned_cols=81  Identities=15%  Similarity=0.091  Sum_probs=53.6

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      .+.|+++.|+.-.....|..++.+..++++.|. ....|..+.....+..+++..|. ....|.+++..+.+++++.-.+
T Consensus        44 ~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq-~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~~k~~~~k~~e~k~~  121 (326)
T KOG0473|consen   44 VTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQ-IKFLPKDAKQQRETVNAASHKNN-HSQQPKSQKKEPHPKKNEQKKT  121 (326)
T ss_pred             eeeehhhhhHHHhhccchHHHHHHHHHhccHhh-HhhChhhHHHHHHHHHHHhhccc-hhhCCccccccCCcchhhhccC
Confidence            345666666655555556667778888888776 55566666666666666666644 3446667777788888877776


Q ss_pred             ccc
Q 040556           84 QYL   86 (128)
Q Consensus        84 ~~~   86 (128)
                      .+.
T Consensus       122 ~~~  124 (326)
T KOG0473|consen  122 EFF  124 (326)
T ss_pred             cch
Confidence            643

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

Probab=88.41  E-value=0.084  Score=36.37  Aligned_cols=85  Identities=27%  Similarity=0.353  Sum_probs=53.5

Q ss_pred             CcccEEeccCCCCcccch--hhhcccccCCEEecCCCCCccc--chhhhhhcCCCcEEeecCCcccCc-chH-HhhcCCC
Q 040556           25 SGIVQLDLKGCKNISCLS--NFISALKFLSTLNLSDGTAIRE--LSLSVELLTGLVVLNLKDWQYLSS-LPS-TINGLKS   98 (128)
Q Consensus        25 ~~L~~l~l~~~~~~~~~~--~~~~~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~l~l~~~~~~~~-~~~-~~~~~~~   98 (128)
                      ..|+.+.+++++-.+..+  ..-..+++++.|++.+|...+.  ....-..|+.++++++..|..... .-+ ....+++
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            357778888887555443  2335678888888888764432  123334677888888887543332 222 2346778


Q ss_pred             CcEEeeecCCC
Q 040556           99 LKILNLSSCSK  109 (128)
Q Consensus        99 L~~l~l~~n~~  109 (128)
                      |.++++++|..
T Consensus       218 L~~lNlSwc~q  228 (483)
T KOG4341|consen  218 LKYLNLSWCPQ  228 (483)
T ss_pred             HHHhhhccCch
Confidence            88888888764

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=85.01  E-value=0.71  Score=18.80  Aligned_cols=10  Identities=40%  Similarity=0.571  Sum_probs=4.4

Q ss_pred             ccEEeccCCC
Q 040556           27 IVQLDLKGCK   36 (128)
Q Consensus        27 L~~l~l~~~~   36 (128)
                      |++|++++|.
T Consensus         4 L~~LdL~~N~   13 (28)
T smart00368        4 LRELDLSNNK   13 (28)
T ss_pred             cCEEECCCCC
Confidence            4444444444

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=84.15  E-value=0.82  Score=18.52  Aligned_cols=16  Identities=31%  Similarity=0.549  Sum_probs=7.7

Q ss_pred             CCcEEEecCCCCCCcc
Q 040556            3 FLQELLLDGTDIKGLP   18 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~   18 (128)
                      +|+.|+.++|.++.+|
T Consensus         3 ~L~~L~vs~N~Lt~LP   18 (26)
T smart00364        3 SLKELNVSNNQLTSLP   18 (26)
T ss_pred             ccceeecCCCccccCc
Confidence            3444555555544444

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

Probab=83.16  E-value=1.2  Score=17.68  Aligned_cols=10  Identities=40%  Similarity=0.371  Sum_probs=4.7

Q ss_pred             cCCEEecCCC
Q 040556           50 FLSTLNLSDG   59 (128)
Q Consensus        50 ~L~~L~l~~~   59 (128)
                      +|+.|++++|
T Consensus         3 ~L~~L~l~~C   12 (26)
T smart00367        3 NLRELDLSGC   12 (26)
T ss_pred             CCCEeCCCCC
Confidence            4444444444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	128
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		9e-05

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 38/132 (28%), Positives = 63/132 (47%), Gaps = 11/132 (8%)
Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISA---------LKFLSTL 54
           L+ L L    ++ LP SI  L+ + +L ++ C  ++ L   +++         L  L +L
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 55  NLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVP 114
            L + T IR L  S+  L  L  L +++   LS+L   I+ L  L+ L+L  C+ L N P
Sbjct: 189 RL-EWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPKLEELDLRGCTALRNYP 246
Query: 115 ENLGKVESLEEL 126
              G    L+ L
Sbjct: 247 PIFGGRAPLKRL 258

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	128
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	5e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	8e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	9e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-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 = 77.3 bits (191), Expect = 4e-18
 Identities = 38/125 (30%), Positives = 57/125 (45%), Gaps = 1/125 (0%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           LQ L L+ T I+ LP SI  L  +  L ++    +S L   I  L  L  L+L   TA+R
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALR 243

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
                      L  L LKD   L +LP  I+ L  L+ L+L  C  L  +P  + ++ + 
Sbjct: 244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN 303

Query: 124 EELDI 128
             + +
Sbjct: 304 CIILV 308

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 63.4 bits (155), Expect = 3e-13
 Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 1/117 (0%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           ++ L+ L +  + +  L  +I  L  + +LDL+GC  +            L  L L D +
Sbjct: 205 LQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS 264

Query: 61  AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENL 117
            +  L L +  LT L  L+L+    LS LPS I  L +  I+ +        + ++ 
Sbjct: 265 NLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHL-QAQLDQHR 320

>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 = 62.3 bits (152), Expect = 8e-13
 Identities = 28/126 (22%), Positives = 52/126 (41%), Gaps = 5/126 (3%)

Query: 4   LQELLLDGTDIKGLPLSIVLLS--GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTA 61
            Q     G  +K     +   +  G V L+L+    +    +    L  L  + +     
Sbjct: 58  PQIETRTGRALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTID-AAG 115

Query: 62  IRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE 121
           + EL  +++   GL  L L     L +LP++I  L  L+ L++ +C +L  +PE L   +
Sbjct: 116 LMELPDTMQQFAGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTD 174

Query: 122 SLEELD 127
           +  E  
Sbjct: 175 ASGEHQ 180

>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 = 61.9 bits (151), Expect = 1e-12
 Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 12/137 (8%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           +  LQ + +D   +  LP ++   +G+  L L     +  L   I++L  L  L++    
Sbjct: 103 LSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP-LRALPASIASLNRLRELSIRACP 161

Query: 61  AIREL---------SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLE 111
            + EL         S   + L  L  L L +W  + SLP++I  L++LK L + +   L 
Sbjct: 162 ELTELPEPLASTDASGEHQGLVNLQSLRL-EWTGIRSLPASIANLQNLKSLKIRNS-PLS 219

Query: 112 NVPENLGKVESLEELDI 128
            +   +  +  LEELD+
Sbjct: 220 ALGPAIHHLPKLEELDL 236

>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 = 43.8 bits (104), Expect = 2e-06
 Identities = 22/126 (17%), Positives = 43/126 (34%), Gaps = 23/126 (18%)

Query: 24  LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLS-------------------DGTAIRE 64
            SG   L  +G   +    + +S  +     + +                    G A++ 
Sbjct: 11  SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKA 70

Query: 65  LSLSVELLT--GLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES 122
            +  +E  T  G V L L+    L   P     L  L+ + + +   L  +P+ + +   
Sbjct: 71  TADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLMELPDTMQQFAG 128

Query: 123 LEELDI 128
           LE L +
Sbjct: 129 LETLTL 134

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

 Score = 49.9 bits (119), Expect = 2e-08
 Identities = 21/126 (16%), Positives = 49/126 (38%), Gaps = 6/126 (4%)

Query: 3   FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
            LQ+ +    ++K +     +     Q+       I+ +S  I  L  L  +  +  +  
Sbjct: 403 LLQDAINRNPEMKPIKKDSRISLKDTQIGNLTN-RITFISKAIQRLTKLQIIYFA-NSPF 460

Query: 63  RELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES 122
              +++V+        N    +   +   + + LK L  + L +C  +  +P+ L  +  
Sbjct: 461 TYDNIAVDWED----ANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPE 516

Query: 123 LEELDI 128
           L+ L+I
Sbjct: 517 LQSLNI 522

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

 Score = 47.6 bits (113), Expect = 1e-07
 Identities = 23/139 (16%), Positives = 45/139 (32%), Gaps = 16/139 (11%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           +  LQ +    +      +++         +    K         S LK L+ + L +  
Sbjct: 447 LTKLQIIYFANSPFTYDNIAVDWE----DANSDYAKQYENEELSWSNLKDLTDVELYNCP 502

Query: 61  AIRELSLSVELLTGLVVLNL---------KDWQYLSSLPSTINGLKSLKILNLSSCSKLE 111
            + +L   +  L  L  LN+         +     + L    +    ++I  +     LE
Sbjct: 503 NMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLE 561

Query: 112 NVPEN--LGKVESLEELDI 128
             P +  L K+  L  LD 
Sbjct: 562 EFPASASLQKMVKLGLLDC 580

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

 Score = 45.6 bits (108), Expect = 7e-07
 Identities = 16/132 (12%), Positives = 40/132 (30%), Gaps = 14/132 (10%)

Query: 6   ELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL 65
           ++      I  +  +I  L+ +  +           +    A+      N          
Sbjct: 429 QIGNLTNRITFISKAIQRLTKLQIIYFANSP----FTYDNIAV-DWEDANSDYAKQYENE 483

Query: 66  SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSS---------CSKLENVPEN 116
            LS   L  L  + L +   ++ LP  +  L  L+ LN++           +    + ++
Sbjct: 484 ELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADD 543

Query: 117 LGKVESLEELDI 128
                 ++   +
Sbjct: 544 EDTGPKIQIFYM 555

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

 Score = 39.1 bits (91), Expect = 2e-04
 Identities = 25/144 (17%), Positives = 49/144 (34%), Gaps = 21/144 (14%)

Query: 1   MKFLQELLLDGTDIKGLP--------LSIVLLSGIVQLDLKGCKNISCLSN--FISALKF 50
              +  ++L    +  +P         +      +  +DL+  K ++ LS+    + L +
Sbjct: 696 GSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNK-LTSLSDDFRATTLPY 754

Query: 51  LSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSS------LPSTINGLKSLKILNL 104
           LS +++S               + L    ++  +           P+ I    SL  L +
Sbjct: 755 LSNMDVS-YNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQI 813

Query: 105 SSCSKLENVPENLGKVESLEELDI 128
            S   +  V E L     L  LDI
Sbjct: 814 GSN-DIRKVDEKLT--PQLYILDI 834

>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 = 46.6 bits (111), Expect = 4e-07
 Identities = 16/125 (12%), Positives = 41/125 (32%), Gaps = 6/125 (4%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           +++ +      K +  S  +     Q+      NI+ +S  +  L  L    + +   + 
Sbjct: 162 IKDCINSDPQQKSIKKSSRITLKDTQIGQLSN-NITFVSKAVMRLTKLRQFYMGNSPFVA 220

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
           E                       +     + LK L  + + +C  L  +P  L  +  +
Sbjct: 221 ENICEAWENENSEYAQQ-----YKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEM 275

Query: 124 EELDI 128
           + +++
Sbjct: 276 QLINV 280

>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 = 42.3 bits (100), Expect = 1e-05
 Identities = 12/123 (9%), Positives = 45/123 (36%), Gaps = 6/123 (4%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
             ++     +I  +  +++ L+ + Q  +     ++         +             +
Sbjct: 185 DTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQY-----K 239

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
              L  + L  L  + + +   L+ LP+ +  L  ++++N++   +  +  +     ++L
Sbjct: 240 TEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN-RGISGEQLKDDWQAL 298

Query: 124 EEL 126
            + 
Sbjct: 299 ADA 301

>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 = 39.6 bits (93), Expect = 1e-04
 Identities = 24/132 (18%), Positives = 48/132 (36%), Gaps = 10/132 (7%)

Query: 6   ELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSD--GTAIR 63
           E        K   L    L  +  +++  C N++ L  F+ AL  +  +N++   G +  
Sbjct: 230 ENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGE 289

Query: 64  ELSLSVELLTGLVVLNLKDWQYLS-------SLPSTINGLKSLKILNLSSCSKLENVPEN 116
           +L    + L    V       Y+         + +++  +K L +L      +LE     
Sbjct: 290 QLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYN-QLEGKLPA 348

Query: 117 LGKVESLEELDI 128
            G    L  L++
Sbjct: 349 FGSEIKLASLNL 360

>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 = 36.9 bits (86), Expect = 7e-04
 Identities = 22/123 (17%), Positives = 46/123 (37%), Gaps = 13/123 (10%)

Query: 14  IKGLPLSIVLLSGIVQLDLKGCKNISCLSN--FISALKFLSTLNLSDGTAIRELSLSVEL 71
           +K    +      +  +DL+  K ++ LS+    + L +L  ++LS   +  +       
Sbjct: 477 LKDENENFKNTYLLTSIDLRFNK-LTKLSDDFRATTLPYLVGIDLSY-NSFSKFPTQPLN 534

Query: 72  LTGLVVLNLKDWQYLS------SLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEE 125
            + L    +++ +           P  I    SL  L + S   +  V E +    ++  
Sbjct: 535 SSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN-DIRKVNEKITP--NISV 591

Query: 126 LDI 128
           LDI
Sbjct: 592 LDI 594

>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 = 44.4 bits (104), Expect = 2e-06
 Identities = 28/135 (20%), Positives = 51/135 (37%), Gaps = 12/135 (8%)

Query: 3   FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
            L  ++L    +  L      L     L        + L +  S     +++   +   +
Sbjct: 384 CLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADV 443

Query: 63  RELSLS---------VELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENV 113
           R L L+         +E L  +  L+L     L +LP  +  L+ L++L  S    LENV
Sbjct: 444 RVLHLAHKDLTVLCHLEQLLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDN-ALENV 501

Query: 114 PENLGKVESLEELDI 128
              +  +  L+EL +
Sbjct: 502 D-GVANLPRLQELLL 515

>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 = 43.2 bits (101), Expect = 5e-06
 Identities = 23/117 (19%), Positives = 48/117 (41%), Gaps = 8/117 (6%)

Query: 14  IKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLT 73
           +    +  +  + +  L L    +++ L + +  L  ++ L+LS    +R L  ++  L 
Sbjct: 430 LLENSVLKMEYADVRVLHLAHK-DLTVLCH-LEQLLLVTHLDLS-HNRLRALPPALAALR 486

Query: 74  GLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPE--NLGKVESLEELDI 128
            L VL   D   L ++   +  L  L+ L L +  +L+       L     L  L++
Sbjct: 487 CLEVLQASDNA-LENVDG-VANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNL 540

>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 = 42.6 bits (100), Expect = 9e-06
 Identities = 33/125 (26%), Positives = 54/125 (43%), Gaps = 19/125 (15%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           L +L + G  +  LP   VL  G+ +L +   + ++ L    S L  L   N      + 
Sbjct: 123 LCKLWIFGNQLTSLP---VLPPGLQELSVSDNQ-LASLPALPSELCKLWAYNNQ----LT 174

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
            L     L +GL  L++ D Q L+SLP+  + L  L   N     +L ++P        L
Sbjct: 175 SLP---MLPSGLQELSVSDNQ-LASLPTLPSELYKLWAYNN----RLTSLPALPS---GL 223

Query: 124 EELDI 128
           +EL +
Sbjct: 224 KELIV 228

>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 = 38.3 bits (89), Expect = 3e-04
 Identities = 30/125 (24%), Positives = 47/125 (37%), Gaps = 19/125 (15%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           L+ L + G  +  LP+    L  +             L    S L     L +  G  + 
Sbjct: 83  LRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTH----LPALPSGLC---KLWIF-GNQLT 134

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL 123
            L     L  GL  L++ D Q L+SLP+  + L  L   N     +L ++P        L
Sbjct: 135 SLP---VLPPGLQELSVSDNQ-LASLPALPSELCKLWAYNN----QLTSLPMLPS---GL 183

Query: 124 EELDI 128
           +EL +
Sbjct: 184 QELSV 188

>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 = 37.2 bits (86), Expect = 7e-04
 Identities = 28/138 (20%), Positives = 49/138 (35%), Gaps = 19/138 (13%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNL------S 57
           LQEL +    +  LP     L  +   + +    ++ L    S LK L            
Sbjct: 183 LQELSVSDNQLASLPTLPSELYKLWAYNNR----LTSLPALPSGLKELIVSGNRLTSLPV 238

Query: 58  DGTAIRELSLSV-------ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKL 110
             + ++EL +S         L +GL+ L++   Q L+ LP ++  L S   +NL     L
Sbjct: 239 LPSELKELMVSGNRLTSLPMLPSGLLSLSVYRNQ-LTRLPESLIHLSSETTVNLEGN-PL 296

Query: 111 ENVPENLGKVESLEELDI 128
                   +  +      
Sbjct: 297 SERTLQALREITSAPGYS 314

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

 Score = 42.3 bits (100), Expect = 9e-06
 Identities = 27/131 (20%), Positives = 52/131 (39%), Gaps = 8/131 (6%)

Query: 1   MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSN--FISALKFLSTLNLS 57
            +  + + L    I  L  L     S +  LDLK  + I  ++     ++   L  LNL 
Sbjct: 119 GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDTVNFAELAASSDTLEHLNLQ 177

Query: 58  DGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENL 117
               I ++   V +   L  L+L   + L+ +         +  ++L +  KL  + + L
Sbjct: 178 -YNFIYDVKGQV-VFAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRNN-KLVLIEKAL 233

Query: 118 GKVESLEELDI 128
              ++LE  D+
Sbjct: 234 RFSQNLEHFDL 244

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

 Score = 37.7 bits (88), Expect = 4e-04
 Identities = 21/129 (16%), Positives = 40/129 (31%), Gaps = 8/129 (6%)

Query: 2   KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTA 61
             ++ L     +I  +  S     G   + L   K              +  L+L     
Sbjct: 99  PSIETLHAANNNISRVSCSR--GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLK-LNE 155

Query: 62  IRELSLS--VELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGK 119
           I  ++ +        L  LNL+    +  +   +     LK L+LSS  KL  +      
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNF-IYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQS 212

Query: 120 VESLEELDI 128
              +  + +
Sbjct: 213 AAGVTWISL 221

>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-05
 Identities = 37/131 (28%), Positives = 53/131 (40%), Gaps = 3/131 (2%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
              LQEL L  T +  LP  +V LS + +L L   K  +      S    L+ L++   T
Sbjct: 277 FSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNT 336

Query: 61  AIREL-SLSVELLTGLVVLNLKD--WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENL 117
              EL +  +E L  L  L+L     +        +  L  L+ LNLS    L    E  
Sbjct: 337 KRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAF 396

Query: 118 GKVESLEELDI 128
            +   LE LD+
Sbjct: 397 KECPQLELLDL 407

>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 = 37.3 bits (87), Expect = 6e-04
 Identities = 23/129 (17%), Positives = 48/129 (37%), Gaps = 5/129 (3%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKF--LSTLNLSD--G 59
              L L+G DI G+       +    L+  G +N+  +   +       L      D   
Sbjct: 181 NLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDD 240

Query: 60  TAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGK 119
             I            +  +NL+   + +   +T +    L+ L+L++   L  +P  L  
Sbjct: 241 EDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTAT-HLSELPSGLVG 299

Query: 120 VESLEELDI 128
           + +L++L +
Sbjct: 300 LSTLKKLVL 308

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 40.8 bits (96), Expect = 4e-05
 Identities = 24/127 (18%), Positives = 53/127 (41%), Gaps = 8/127 (6%)

Query: 3   FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
            ++EL      I  +     +   +  L L+   N++  +  ++    L  ++LS    +
Sbjct: 206 AVEELDASHNSINVVRGP--VNVELTILKLQHN-NLTDTAWLLN-YPGLVEVDLSY-NEL 260

Query: 63  RELSLSV-ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE 121
            ++       +  L  L + + + L +L      + +LK+L+LS    L +V  N  + +
Sbjct: 261 EKIMYHPFVKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFD 318

Query: 122 SLEELDI 128
            LE L +
Sbjct: 319 RLENLYL 325

>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 = 40.4 bits (95), Expect = 5e-05
 Identities = 26/125 (20%), Positives = 43/125 (34%), Gaps = 11/125 (8%)

Query: 2   KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSD--G 59
            FLQE L   +++  +P+    +    +      +            + ++   L D   
Sbjct: 11  TFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLD 70

Query: 60  TAIRELSLSV-------ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLEN 112
               EL L+        EL   L  L       L+ LP     LKSL + N  +   L +
Sbjct: 71  RQAHELELNNLGLSSLPELPPHLESLVASCNS-LTELPELPQSLKSLLVDNN-NLKALSD 128

Query: 113 VPENL 117
           +P  L
Sbjct: 129 LPPLL 133

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

 Score = 40.0 bits (93), Expect = 8e-05
 Identities = 24/129 (18%), Positives = 49/129 (37%), Gaps = 17/129 (13%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR 63
           L+ L +D   +  LP    LL     ++    + ++ L    ++L+ LS  N      + 
Sbjct: 122 LKHLDVDNNQLTMLPELPALLE---YINADNNQ-LTMLPELPTSLEVLSVRNNQ----LT 173

Query: 64  ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLK----ILNLSSCSKLENVPENLGK 119
            L    EL   L  L++     L SLP+        +            ++ ++PEN+  
Sbjct: 174 FLP---ELPESLEALDVSTNL-LESLPAVPVRNHHSEETEIFFRCREN-RITHIPENILS 228

Query: 120 VESLEELDI 128
           ++    + +
Sbjct: 229 LDPTCTIIL 237

>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 = 39.5 bits (92), Expect = 9e-05
 Identities = 24/127 (18%), Positives = 53/127 (41%), Gaps = 8/127 (6%)

Query: 3   FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
            ++EL      I  +   +     +  L L+   N++  +  ++    L  ++LS    +
Sbjct: 212 AVEELDASHNSINVVRGPV--NVELTILKLQHN-NLTDTAWLLN-YPGLVEVDLSY-NEL 266

Query: 63  RELSLSV-ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE 121
            ++       +  L  L + + + L +L      + +LK+L+LS    L +V  N  + +
Sbjct: 267 EKIMYHPFVKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFD 324

Query: 122 SLEELDI 128
            LE L +
Sbjct: 325 RLENLYL 331

>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 = 39.2 bits (92), Expect = 1e-04
 Identities = 25/131 (19%), Positives = 45/131 (34%), Gaps = 8/131 (6%)

Query: 4   LQELLLDGTDIKGLP---LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           L  L L    +        S +  + +  LDL        +S     L+ L  L+    +
Sbjct: 352 LSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AIIMSANFMGLEELQHLDFQ-HS 409

Query: 61  AIRELSLSVEL--LTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN-L 117
            ++ ++       L  L+ L++              GL SL  L ++  S  +N   N  
Sbjct: 410 TLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVF 469

Query: 118 GKVESLEELDI 128
               +L  LD+
Sbjct: 470 ANTTNLTFLDL 480

>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 = 38.5 bits (90), Expect = 2e-04
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 5/128 (3%)

Query: 4   LQELLLDGTDIKGLPLSI-VLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
           L+ L +   D+  +       L+ + QL L+ C   S  +  +S L  L  L L     I
Sbjct: 130 LKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRH-LNI 188

Query: 63  RELSLSV-ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN-LGKV 120
             +     + L  L VL +  W YL ++        +L  L+++ C  L  VP   +  +
Sbjct: 189 NAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHL 247

Query: 121 ESLEELDI 128
             L  L++
Sbjct: 248 VYLRFLNL 255

>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 = 38.7 bits (90), Expect = 2e-04
 Identities = 26/130 (20%), Positives = 51/130 (39%), Gaps = 6/130 (4%)

Query: 1   MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCK-NISCLSNFISALKFLSTLNLSD 58
            +  + + L    I  L  L     S +  LDLK  + +    +   ++   L  LNL  
Sbjct: 119 GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY 178

Query: 59  GTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLG 118
              I ++   V +   L  L+L   + L+ +         +  ++L +  KL  + + L 
Sbjct: 179 -NFIYDVKGQV-VFAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRNN-KLVLIEKALR 234

Query: 119 KVESLEELDI 128
             ++LE  D+
Sbjct: 235 FSQNLEHFDL 244

>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 = 38.0 bits (89), Expect = 2e-04
 Identities = 16/111 (14%), Positives = 47/111 (42%), Gaps = 4/111 (3%)

Query: 18  PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVV 77
            ++   ++ +  + L    N++ L+  I     +  L +++       +  +  L+ L  
Sbjct: 37  NITEAQMNSLTYITLANI-NVTDLTG-IEYAHNIKDLTINN-IHATNYN-PISGLSNLER 92

Query: 78  LNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
           L +      S     ++GL SL +L++S  +  +++   +  +  +  +D+
Sbjct: 93  LRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDL 143

>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 = 38.0 bits (89), Expect = 3e-04
 Identities = 26/128 (20%), Positives = 51/128 (39%), Gaps = 4/128 (3%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           M  L  + L   ++  L   I     I  L +      +  +  IS L  L  L +    
Sbjct: 43  MNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIH-ATNYNP-ISGLSNLERLRIMGKD 99

Query: 61  AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV 120
              +   ++  LT L +L++    +  S+ + IN L  +  ++LS    + ++   L  +
Sbjct: 100 VTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDI-MPLKTL 158

Query: 121 ESLEELDI 128
             L+ L+I
Sbjct: 159 PELKSLNI 166

>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 = 38.5 bits (89), Expect = 2e-04
 Identities = 27/128 (21%), Positives = 58/128 (45%), Gaps = 9/128 (7%)

Query: 1   MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT 60
           +  + +L L+G  +  +   +  L  +  L L   K I  LS+ +  LK L +L+L    
Sbjct: 64  LPNVTKLFLNGNKLTDIK-PLTNLKNLGWLFLDENK-IKDLSS-LKDLKKLKSLSLE-HN 119

Query: 61  AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV 120
            I +++  +  L  L  L L +   ++ + + ++ L  L  L+L    ++ ++   L  +
Sbjct: 120 GISDIN-GLVHLPQLESLYLGN-NKITDI-TVLSRLTKLDTLSLEDN-QISDI-VPLAGL 174

Query: 121 ESLEELDI 128
             L+ L +
Sbjct: 175 TKLQNLYL 182

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

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 34/136 (25%), Positives = 51/136 (37%), Gaps = 11/136 (8%)

Query: 4   LQELLLDGTDI--KGLPLSIVLLSGIVQLDLKGCKNISC--LSNFISALKFLSTLNLS-- 57
           L+E+ L    +    L L          L L  C+  S   L+   +  + L  L+L   
Sbjct: 107 LEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRES 166

Query: 58  --DGTAIRELSLSVELLTGLVVLNLKDWQYL---SSLPSTINGLKSLKILNLSSCSKLEN 112
             D  +   LS   +  T LV LN+         S+L   +    +LK L L+    LE 
Sbjct: 167 DVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEK 226

Query: 113 VPENLGKVESLEELDI 128
           +   L +   LEEL  
Sbjct: 227 LATLLQRAPQLEELGT 242

>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 = 37.4 bits (87), Expect = 5e-04
 Identities = 32/128 (25%), Positives = 57/128 (44%), Gaps = 8/128 (6%)

Query: 4   LQELLLDGTDIKGLPLSI-VLLSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTA 61
           L+EL L    I+ +P      +  +++LDL   K +  +S      L  L  LNL     
Sbjct: 149 LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM-CN 207

Query: 62  IRELSLSVELLTGLVVLNLKDWQYLSSLPS-TINGLKSLKILNLSSCSKLENVPEN-LGK 119
           I+++  ++  L GL  L +        +   + +GL SLK L + +  ++  +  N    
Sbjct: 208 IKDMP-NLTPLVGLEELEMSGNH-FPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFDG 264

Query: 120 VESLEELD 127
           + SL EL+
Sbjct: 265 LASLVELN 272

>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 = 37.1 bits (86), Expect = 6e-04
 Identities = 36/129 (27%), Positives = 57/129 (44%), Gaps = 7/129 (5%)

Query: 4   LQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSN--FISALKFLSTLNLSDGT 60
           LQ LL+  T IK LP +  +     V LD++   NI  +    F+        L L+   
Sbjct: 106 LQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLN-KN 164

Query: 61  AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTI-NGLKSLKILNLSSCSKLENVPEN-LG 118
            I+E+  S    T L  LNL D   L  LP+ + +G     IL++S   ++ ++P   L 
Sbjct: 165 GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPSYGLE 223

Query: 119 KVESLEELD 127
            ++ L    
Sbjct: 224 NLKKLRARS 232

>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 = 36.7 bits (85), Expect = 9e-04
 Identities = 24/103 (23%), Positives = 41/103 (39%), Gaps = 5/103 (4%)

Query: 4   LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTAI 62
              L L+   I+ +  S    + + +L+L    N+  L N +         L++S  T I
Sbjct: 156 SVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR-TRI 214

Query: 63  RELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLS 105
              SL    L  L  L  +    L  LP+ +  L +L   +L+
Sbjct: 215 H--SLPSYGLENLKKLRARSTYNLKKLPT-LEKLVALMEASLT 254

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 30/130 (23%), Positives = 53/130 (40%), Gaps = 8/130 (6%)

Query: 4   LQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTA 61
            + L L    I+ +   S   L  +  L L     I  +     + L  L+TL L D   
Sbjct: 66  TRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFD-NR 123

Query: 62  IRELSLSV-ELLTGLVVLNLKDWQYLSSLPS-TINGLKSLKILNLSSCSKLENVPEN-LG 118
           +  +       L+ L  L L++   + S+PS   N + SL+ L+L    +L  + E    
Sbjct: 124 LTTIPNGAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFE 182

Query: 119 KVESLEELDI 128
            + +L  L++
Sbjct: 183 GLSNLRYLNL 192

>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 = 36.9 bits (86), Expect = 9e-04
 Identities = 35/128 (27%), Positives = 55/128 (42%), Gaps = 4/128 (3%)

Query: 4   LQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI 62
            + L L    ++ L   S      +  LDL  C+  +       +L  LSTL L+ G  I
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILT-GNPI 88

Query: 63  RELSLSV-ELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCS-KLENVPENLGKV 120
           + L+L     L+ L  L   +    S     I  LK+LK LN++    +   +PE    +
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNL 148

Query: 121 ESLEELDI 128
            +LE LD+
Sbjct: 149 TNLEHLDL 156

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	128
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.86
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.85
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.84
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.84
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.83
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.83
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.83
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.83
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.82
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.82
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.82
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.82
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.81
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.81
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.81
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.81
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.81
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.81
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.8
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.8
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.8
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.8
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.8
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.8
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.8
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.79
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.78
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.77
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.77
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.77
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.77
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.77
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.77
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.76
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.76
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.76
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.76
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.76
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.76
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.76
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.76
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.76
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.76
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.75
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.75
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.75
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.75
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.75
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.75
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.75
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.75
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.75
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.74
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.74
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.74
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.73
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.73
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.73
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.73
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.72
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.72
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.72
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.72
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.72
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.72
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.72
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.71
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.71
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.71
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.71
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.71
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.7
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.7
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.7
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.7
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.7
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.7
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.7
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.7
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.7
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.69
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.69
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.69
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.69
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.68
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.68
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.68
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.68
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.67
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.67
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.67
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.67
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.66
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.66
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.66
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.66
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.65
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.65
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.65
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.65
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.63
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.63
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.63
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.63
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.61
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.6
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.6
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.58
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.56
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.56
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.55
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.55
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.54
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.54
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.53
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.53
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.52
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.49
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.48
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.46
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.45
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.45
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.38
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.36
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.36
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.34
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.33
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.33
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.29
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.27
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.23
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.23
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.22
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.13
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.1
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.07
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	99.07
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.94
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.93
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.89
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.85
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.82
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.77
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.74
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.63
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.61
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.25
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.19
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.0
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.93
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.92
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.89
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.84
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.55
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.54
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.94
2lz0_A	100	Uncharacterized protein; hypothetical leucine rich	84.86
2lz0_A	100	Uncharacterized protein; hypothetical leucine rich	81.71

>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=99.86  E-value=2.7e-21  Score=125.59  Aligned_cols=127  Identities=29%  Similarity=0.347  Sum_probs=114.3

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.+|..+..+++|++|++++|.+.+ .|..+..+++|+.|++++|.+.+..|..++.+++|+.+++
T Consensus       182 l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~-l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L  260 (328)
T 4fcg_A          182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSA-LGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL  260 (328)
T ss_dssp             STTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCC-CCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEEC
T ss_pred             CCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCc-CchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEEC
Confidence            467889999999999888889999999999999999665 5556889999999999999999988988999999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+.+|..+.++++|+++++++|++.+.+|..++++++++.+++
T Consensus       261 ~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l  308 (328)
T 4fcg_A          261 KDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILV  308 (328)
T ss_dssp             TTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEEC
T ss_pred             CCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeC
Confidence            999999999988999999999999999999999999999999887753

>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=99.85  E-value=1.7e-20  Score=115.72  Aligned_cols=127  Identities=16%  Similarity=0.172  Sum_probs=112.2

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .+..+++|+.|++++|.+.+..|..|..+++|++|++++|.+....+..+..+++|+.+++
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L  111 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLL  111 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEEC
Confidence            468999999999997765 6788999999999999988888888999999999999999988766666788999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+++++
T Consensus       112 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B          112 NANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEe
Confidence            999988877888999999999999999988877777888999988764

>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=99.84  E-value=3e-20  Score=114.63  Aligned_cols=126  Identities=16%  Similarity=0.159  Sum_probs=111.0

Q ss_pred             CCcEEEecCCCCCCcc--hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            3 FLQELLLDGTDIKGLP--LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~--~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      .+++|++++|.++.++  ..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|++|++
T Consensus        33 ~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  112 (220)
T 2v70_A           33 YTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLML  112 (220)
T ss_dssp             TCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEEC
T ss_pred             CCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEEC
Confidence            5678999999998763  34788999999999999988877778999999999999999998877778889999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..|..+..+++|++|++++|.+.+..|..++.+++|+++++
T Consensus       113 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  160 (220)
T 2v70_A          113 RSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNL  160 (220)
T ss_dssp             TTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEe
Confidence            999988877888889999999999999988877888999999998865

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

Probab=99.84  E-value=2.1e-20  Score=121.42  Aligned_cols=124  Identities=27%  Similarity=0.388  Sum_probs=65.1

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcc---------cccCCEEecCCCCCcccchhhhhhc
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISA---------LKFLSTLNLSDGTAIRELSLSVELL   72 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~---------l~~L~~L~l~~~~~~~~~~~~~~~l   72 (128)
                      ++|++|++++|.+..+|..+..+++|++|++++|...+..|..+..         +++|+.|++++|.+. .+|..++.+
T Consensus       127 ~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l  205 (328)
T 4fcg_A          127 AGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANL  205 (328)
T ss_dssp             TTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGGC
T ss_pred             CCCCEEECCCCccccCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcCC
Confidence            3455555555555555555555555555555555444444433322         444445544444443 344445555


Q ss_pred             CCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           73 TGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        73 ~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|+++++++|.+.+ +|..++.+++|++|++++|++.+.+|..++.+++|++++
T Consensus       206 ~~L~~L~L~~N~l~~-l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~  259 (328)
T 4fcg_A          206 QNLKSLKIRNSPLSA-LGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI  259 (328)
T ss_dssp             TTCCEEEEESSCCCC-CCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEE
T ss_pred             CCCCEEEccCCCCCc-CchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEE
Confidence            556666665555442 344455555566666665555555555555555555554

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.83  E-value=9.5e-20  Score=114.26  Aligned_cols=127  Identities=21%  Similarity=0.134  Sum_probs=74.1

Q ss_pred             CCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+..++ ..+..+++|++|++++|.+....+..+..+++|+.|++++|.+.+..+..+..+++|+.|++
T Consensus        59 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  138 (251)
T 3m19_A           59 TKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRL  138 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             ccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEEC
Confidence            45556666666555443 23455566666666666655544455556666666666666555444444556666666666


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.+++
T Consensus       139 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  186 (251)
T 3m19_A          139 NTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL  186 (251)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             cCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEe
Confidence            666655444445666666666666666665554445666666666543

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

Probab=99.83  E-value=1e-19  Score=115.39  Aligned_cols=127  Identities=23%  Similarity=0.170  Sum_probs=80.0

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..++.+++|+.+++
T Consensus        85 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  164 (272)
T 3rfs_A           85 TNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDL  164 (272)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEEC
Confidence            456666666666665543 3456666666666666655555555666666777777766666544455566667777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|+++++++|.+.+..+..++.+++|+++++
T Consensus       165 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  212 (272)
T 3rfs_A          165 SYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWL  212 (272)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEc
Confidence            777665544445566677777777777766655555666677766653

>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=99.83  E-value=1.3e-19  Score=112.30  Aligned_cols=126  Identities=21%  Similarity=0.128  Sum_probs=109.0

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+..+ +..+..+++|+.|++++|.+....+..+..+++|+.|++++|.+....+..+..+++|+.+++
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L  119 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM  119 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEec
Confidence            4689999999999976 567889999999999999986666667889999999999999988766667888999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+. .+|..+..+++|++|++++|.+.+..+..+..+++|+.+++
T Consensus       120 s~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  166 (229)
T 3e6j_A          120 CCNKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYL  166 (229)
T ss_dssp             CSSCCC-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cCCccc-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEe
Confidence            999866 67888899999999999999987765567888999988764

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

Probab=99.83  E-value=2.1e-20  Score=120.66  Aligned_cols=124  Identities=16%  Similarity=0.200  Sum_probs=58.2

Q ss_pred             CCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcC-CCcEEee
Q 040556            3 FLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLT-GLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~l~l   80 (128)
                      +|++|++++|.+. .+|..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|..++.++ .|+++++
T Consensus       102 ~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L  181 (313)
T 1ogq_A          102 QLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI  181 (313)
T ss_dssp             TCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEEC
T ss_pred             CCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEEC
Confidence            4444444444444 3344444444444444444444444444444444555555555444444444444444 4455555


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+.+..|..+..++ |+++++++|.+.+..+..++.+++|+.++
T Consensus       182 ~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  227 (313)
T 1ogq_A          182 SRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIH  227 (313)
T ss_dssp             CSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEE
T ss_pred             cCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEE
Confidence            44444444444444443 44444444444444444445555555443

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.83  E-value=3.1e-20  Score=108.12  Aligned_cols=125  Identities=22%  Similarity=0.165  Sum_probs=108.2

Q ss_pred             CCCcEEEecCCCCC--CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++++|++++|.+.  .+|..+..+++|++|++++|.+.+.  ..+..+++|+.|++++|.+.+..|..++.+++|++++
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEE
Confidence            46899999999998  7888888999999999999997766  6688899999999999999887888888899999999


Q ss_pred             ecCCcccCc-chHHhhcCCCCcEEeeecCCCCCCCC---cCcCCCCCCCcccC
Q 040556           80 LKDWQYLSS-LPSTINGLKSLKILNLSSCSKLENVP---ENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~~~~---~~~~~~~~L~~l~l  128 (128)
                      +++|.+.+. .+..++.+++|+++++++|.+.+..+   ..++.+++|+.+++
T Consensus        95 ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           95 LSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             CTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             CCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            999987663 34778999999999999999776544   36888999998875

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

Probab=99.83  E-value=1.8e-19  Score=114.23  Aligned_cols=127  Identities=22%  Similarity=0.207  Sum_probs=104.9

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.+..++ .+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|+++++
T Consensus        62 l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  140 (272)
T 3rfs_A           62 LPNVRYLALGGNKLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL  140 (272)
T ss_dssp             CTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCcEEECCCCCCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEEC
Confidence            467888999998888764 6778889999999999877777777788999999999999888766667888899999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|+++++
T Consensus       141 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L  188 (272)
T 3rfs_A          141 AHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL  188 (272)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEEC
Confidence            999877665666788899999999999887766666788888888764

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.82  E-value=3e-19  Score=109.10  Aligned_cols=127  Identities=25%  Similarity=0.161  Sum_probs=106.6

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .+..+++|++|++++|.+....+..+..+++|++|++++|.+.+..+..+..+++|+++++
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  107 (208)
T 2o6s_A           28 AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL  107 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEc
Confidence            468999999999997765 4678999999999999987766666788999999999999888766666788999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|+++++++|.+.+..+..++.+++|+++++
T Consensus       108 ~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l  155 (208)
T 2o6s_A          108 NTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWL  155 (208)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEe
Confidence            999877666666788999999999999987765556888889888764

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

Probab=99.82  E-value=3.7e-20  Score=119.50  Aligned_cols=126  Identities=18%  Similarity=0.253  Sum_probs=91.4

Q ss_pred             CCcEEEecCCCCC---CcchhhhccCcccEEeccC-CCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEE
Q 040556            3 FLQELLLDGTDIK---GLPLSIVLLSGIVQLDLKG-CKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         3 ~L~~l~l~~~~~~---~~~~~~~~l~~L~~l~l~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      +++.|+++++.+.   .+|..+..+++|++|++++ |.+.+..|..+..+++|++|++++|.+.+..|..++.+++|+++
T Consensus        51 ~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L  130 (313)
T 1ogq_A           51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTL  130 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEE
T ss_pred             eEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEE
Confidence            5667777777776   3567777777777777774 66666777777777777777777777776677777777777777


Q ss_pred             eecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCC-CCCcccC
Q 040556           79 NLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE-SLEELDI  128 (128)
Q Consensus        79 ~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~-~L~~l~l  128 (128)
                      ++++|.+.+.+|..+..+++|++|++++|.+.+.+|..++.++ +|+++++
T Consensus       131 ~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L  181 (313)
T 1ogq_A          131 DFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTI  181 (313)
T ss_dssp             ECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEEC
T ss_pred             eCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEEC
Confidence            7777777766777777777777777777777666677777666 6666653

>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=99.82  E-value=9.9e-20  Score=129.24  Aligned_cols=126  Identities=28%  Similarity=0.235  Sum_probs=74.3

Q ss_pred             CCCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+. .+|..+..+++|+.|++++|.+.+..|..+..+++|+.|++++|.+.+..|..++.+++|+++++
T Consensus       418 ~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L  497 (768)
T 3rgz_A          418 SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISL  497 (768)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             CCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEc
Confidence            44555555555554 34555555555666666655555555555555666666666666555555555666666666666


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+.+.+|..++.+++|+++++++|.+.+.+|..++.+++|+.++
T Consensus       498 ~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~  544 (768)
T 3rgz_A          498 SNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLD  544 (768)
T ss_dssp             CSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEE
T ss_pred             cCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEE
Confidence            66665555565566666666666666666555566666666665554

>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=99.82  E-value=3.4e-19  Score=111.75  Aligned_cols=127  Identities=21%  Similarity=0.147  Sum_probs=109.5

Q ss_pred             CCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++++.|++++|.+..++ ..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+....+..+..+++|++|++
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  114 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYL  114 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEc
Confidence            45889999999998664 46888999999999999988888888899999999999999988777777889999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|++|++
T Consensus       115 ~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  162 (251)
T 3m19_A          115 GGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL  162 (251)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEEC
Confidence            999877665666788999999999999987766667889999998875

>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=1.4e-19  Score=125.28  Aligned_cols=126  Identities=25%  Similarity=0.212  Sum_probs=108.9

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.++.++. .|..+++|++|++++|.+.+..+..|..+++|++|++++|++.+..+..|..+++|++|+++
T Consensus        53 ~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls  132 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAV  132 (635)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEECT
T ss_pred             CCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEECC
Confidence            68999999999998864 78999999999999999887777789999999999999999887767788999999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+.+..+..++++++|++|++++|.+.+ ..|..++.+++|+++++
T Consensus       133 ~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L  180 (635)
T 4g8a_A          133 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL  180 (635)
T ss_dssp             TSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEEC
T ss_pred             CCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcc
Confidence            998776555568899999999999999765 45777888899888764

>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=99.81  E-value=1.8e-19  Score=106.77  Aligned_cols=125  Identities=23%  Similarity=0.217  Sum_probs=107.2

Q ss_pred             CCCcEEEecCCCCC--CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++++|++++|.+.  .+|..+..+++|++|++++|.+...  ..+..+++|++|++++|.+.+..|..+..+++|++++
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            57899999999998  7888888999999999999997766  6688899999999999999887788888899999999


Q ss_pred             ecCCcccCc-chHHhhcCCCCcEEeeecCCCCCCCC---cCcCCCCCCCcccC
Q 040556           80 LKDWQYLSS-LPSTINGLKSLKILNLSSCSKLENVP---ENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~~~~---~~~~~~~~L~~l~l  128 (128)
                      +++|.+... .+..+..+++|+++++++|.+.+..+   ..+..+++|+++++
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  154 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDG  154 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETT
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecC
Confidence            999987653 22678899999999999999776543   36888999998874

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

Probab=99.81  E-value=6e-19  Score=111.68  Aligned_cols=124  Identities=22%  Similarity=0.154  Sum_probs=50.0

Q ss_pred             CCcEEEecCCCCCCcchh-hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLS-IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      +|++|++++|.++.++.. +..+++|++|++++|.+....+..+..+++|+.|++++|.+....+..++.+++|++++++
T Consensus        62 ~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls  141 (270)
T 2o6q_A           62 KLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLG  141 (270)
T ss_dssp             TCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECC
Confidence            444444444444443332 2334444444444444333333333444444444444444433333333344444444444


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +|.+....+..+..+++|+++++++|.+.+..+..+..+++|+++
T Consensus       142 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  186 (270)
T 2o6q_A          142 YNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTL  186 (270)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEE
T ss_pred             CCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEE
Confidence            443332222223334444444444444333222233333444333

>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=99.81  E-value=4.4e-19  Score=112.96  Aligned_cols=105  Identities=22%  Similarity=0.146  Sum_probs=40.0

Q ss_pred             hccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcE
Q 040556           22 VLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKI  101 (128)
Q Consensus        22 ~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~  101 (128)
                      ..+++|++|++++|.+.+..+..+..+++|++|++++|.+....+..++.+++|+.+++++|.+....+..+..+++|++
T Consensus       102 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  181 (285)
T 1ozn_A          102 HGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDR  181 (285)
T ss_dssp             TTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCE
T ss_pred             cCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCE
Confidence            33333444444443333333333333444444444443333322223333444444444444333222222333444444


Q ss_pred             EeeecCCCCCCCCcCcCCCCCCCcc
Q 040556          102 LNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus       102 l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +++++|.+.+..|..++.+++|+++
T Consensus       182 L~l~~n~l~~~~~~~~~~l~~L~~L  206 (285)
T 1ozn_A          182 LLLHQNRVAHVHPHAFRDLGRLMTL  206 (285)
T ss_dssp             EECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             EECCCCcccccCHhHccCcccccEe
Confidence            4444444333333334444444433

>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=99.81  E-value=5.9e-19  Score=107.09  Aligned_cols=122  Identities=17%  Similarity=0.189  Sum_probs=74.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.+..++ .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..++.+++|++++++
T Consensus        66 ~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~  144 (197)
T 4ezg_A           66 HNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLS  144 (197)
T ss_dssp             TTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECC
T ss_pred             CCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEcc
Confidence            45666666666544433 45556666666666666555555556666667777777666666556666666677777776


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +|...+.++ .+..+++|+++++++|.+.+ ++ .+..+++|++++
T Consensus       145 ~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~-~~-~l~~l~~L~~L~  187 (197)
T 4ezg_A          145 YNGAITDIM-PLKTLPELKSLNIQFDGVHD-YR-GIEDFPKLNQLY  187 (197)
T ss_dssp             SCTBCCCCG-GGGGCSSCCEEECTTBCCCC-CT-TGGGCSSCCEEE
T ss_pred             CCCCccccH-hhcCCCCCCEEECCCCCCcC-hH-HhccCCCCCEEE
Confidence            665344444 46666667777777666544 22 456666666654

>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=99.81  E-value=2.9e-19  Score=126.84  Aligned_cols=127  Identities=22%  Similarity=0.263  Sum_probs=114.2

Q ss_pred             CCCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+. .+|..+..+++|++|++++|.+.+..|..+..+++|+.|++.+|.+.+..|..++.+++|+.+++
T Consensus       394 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  473 (768)
T 3rgz_A          394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL  473 (768)
T ss_dssp             CCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             CCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEe
Confidence            46788888888887 67888889999999999999988888888999999999999999998888999999999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+.+|..+.++++|+++++++|.+.+.+|.+++.+++|+++++
T Consensus       474 ~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L  521 (768)
T 3rgz_A          474 DFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL  521 (768)
T ss_dssp             CSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             cCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEEC
Confidence            999988888999999999999999999999899999999999998875

>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=99.80  E-value=3e-19  Score=108.06  Aligned_cols=122  Identities=20%  Similarity=0.180  Sum_probs=74.4

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchh-hhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSN-FISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      ++++++++.++++|..+.  .++++|++++|.+.+..+. .+..+++|++|++++|.+.+..|..+..+++|+++++++|
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 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEcCCCCcCcCccCCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCC
Confidence            456666666666665332  2666666666665544443 3556666666666666666655666666666666666666


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+.+..+..+.++++|++|++++|.+.+..|..++.+++|+++++
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  133 (192)
T 1w8a_A           89 KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNL  133 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEEC
T ss_pred             cCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEe
Confidence            655555555566666666666666666655666666666666543

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

Probab=99.80  E-value=1.2e-18  Score=110.25  Aligned_cols=128  Identities=21%  Similarity=0.209  Sum_probs=110.1

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..++. .+..+++|++|++++|.+....+..+..+++|+.|++++|.+....+..+..+++|+.++
T Consensus        84 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  163 (270)
T 2o6q_A           84 LKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELR  163 (270)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeE
Confidence            4689999999999998765 567899999999999998888877888999999999999988876666688899999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|.+....+..+..+++|+++++++|.+.+..+..+..+++|+.+++
T Consensus       164 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  212 (270)
T 2o6q_A          164 LYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQL  212 (270)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             ecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEe
Confidence            9999877766667888999999999999987765556888899988764

>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=99.80  E-value=7e-19  Score=112.04  Aligned_cols=125  Identities=21%  Similarity=0.184  Sum_probs=60.1

Q ss_pred             CCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCC-CcccchhhhhhcCCCcEEee
Q 040556            3 FLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT-AIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++++|++++|.++.++ ..+..+++|++|++++|.+.+..+..+..+++|++|++++|. +....+..+..+++|+++++
T Consensus        33 ~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l  112 (285)
T 1ozn_A           33 ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHL  112 (285)
T ss_dssp             TCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEEC
T ss_pred             CceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEEC
Confidence            4555555555555443 234455555555555555444444445555555555555554 33333444444555555555


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+.+..+..+..+++|+++++++|.+.+..+..++.+++|++++
T Consensus       113 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  159 (285)
T 1ozn_A          113 DRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLF  159 (285)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEE
Confidence            55544443344444445555555555444433333344444444443

>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=1.1e-18  Score=111.65  Aligned_cols=126  Identities=21%  Similarity=0.130  Sum_probs=90.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.+..+|..+..+++|++|++++|.+.+..+..|..+++|+.|++++|.+....+..+..+++|+.++++
T Consensus        77 ~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  156 (290)
T 1p9a_G           77 PVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLA  156 (290)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CcCCEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECC
Confidence            56777777777777777667777788888888887766666667778888888888877776555566777788888888


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+....+..+..+++|+++++++|.+. .+|..+....+|+.+++
T Consensus       157 ~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L  202 (290)
T 1p9a_G          157 NNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFL  202 (290)
T ss_dssp             TSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEEC
T ss_pred             CCcCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhcccccCCeEEe
Confidence            88766544445567778888888887765 45666666666666543

>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=99.80  E-value=4.2e-19  Score=122.88  Aligned_cols=127  Identities=23%  Similarity=0.156  Sum_probs=104.5

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .+..+++|++|++++|.+.+..|..|..+++|++|++++|.+.+..|..++.+++|+++++
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L  111 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVA  111 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEEC
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEc
Confidence            467888999988886654 7788889999999998877777777888889999999988887777888888889999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..++++++|++|++++|.+.+ .+|..++++++|+++++
T Consensus       112 ~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~L  160 (606)
T 3vq2_A          112 VETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDL  160 (606)
T ss_dssp             TTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEEC
T ss_pred             cCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEc
Confidence            9888766555668888889999998888765 56788888888888764

>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=99.80  E-value=5.5e-19  Score=107.21  Aligned_cols=123  Identities=21%  Similarity=0.266  Sum_probs=107.0

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|+++++++|.+..++ .+..+++|++|++++|.+.. . ..+..+++|++|++++|.+.+..+..++.+++|++++++
T Consensus        44 ~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~~~-~-~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls  120 (197)
T 4ezg_A           44 NSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHATN-Y-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDIS  120 (197)
T ss_dssp             HTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCCSC-C-GGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECC
T ss_pred             CCccEEeccCCCccChH-HHhcCCCCCEEEccCCCCCc-c-hhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEec
Confidence            57899999999999888 78899999999999996433 3 357889999999999999988778888999999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+....+..+..+++|++|++++|...+.++ .++.+++|+++++
T Consensus       121 ~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l  166 (197)
T 4ezg_A          121 HSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNI  166 (197)
T ss_dssp             SSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEEC
T ss_pred             CCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEEC
Confidence            999888788889999999999999998455555 5888999998875

>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=99.80  E-value=1e-18  Score=117.32  Aligned_cols=127  Identities=22%  Similarity=0.101  Sum_probs=110.7

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|+++++++|.+... +..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+..+..++.+++|+++++
T Consensus       275 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  354 (455)
T 3v47_A          275 SGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDL  354 (455)
T ss_dssp             SCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEEC
T ss_pred             cCceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEEC
Confidence            4688999999998854 667888999999999999988888888899999999999999988777888899999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..|..+..+++|+++++++|.+.+..+..++.+++|+++++
T Consensus       355 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  402 (455)
T 3v47_A          355 SYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWL  402 (455)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcccccChhhccccccccEEECCCCccccCCHhHhccCCcccEEEc
Confidence            999987777888899999999999999987765556788999988875

>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=99.79  E-value=7.2e-19  Score=111.50  Aligned_cols=126  Identities=25%  Similarity=0.212  Sum_probs=94.0

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|++++++
T Consensus        29 ~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  108 (276)
T 2z62_A           29 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAV  108 (276)
T ss_dssp             TCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECC
Confidence            57788888888876654 67778888888888888766666677778888888888887777666677778888888888


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+.+..+..+.++++|++|++++|.+.+ .+|..++.+++|+++++
T Consensus       109 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~L  156 (276)
T 2z62_A          109 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL  156 (276)
T ss_dssp             TSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEEC
T ss_pred             CCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEEC
Confidence            877665544456777788888888877665 35667777777777654

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

Probab=99.79  E-value=1.6e-19  Score=125.97  Aligned_cols=126  Identities=15%  Similarity=0.277  Sum_probs=112.4

Q ss_pred             CCCCcEEEecCCCCCC------------------cchhhh--ccCcccEEeccCCCCcccchhhhcccccCCEEecCCCC
Q 040556            1 MKFLQELLLDGTDIKG------------------LPLSIV--LLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT   60 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~------------------~~~~~~--~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   60 (128)
                      +++|++|++++|.+..                  +|..+.  .+++|++|++++|.+.+..|..+..+++|+.|++++|.
T Consensus       205 l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~  284 (636)
T 4eco_A          205 LTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNR  284 (636)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCT
T ss_pred             ccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCC
Confidence            4689999999999997                  898888  99999999999999999999999999999999999998


Q ss_pred             -Ccc-cchhhhhhc------CCCcEEeecCCcccCcchH--HhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           61 -AIR-ELSLSVELL------TGLVVLNLKDWQYLSSLPS--TINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        61 -~~~-~~~~~~~~l------~~L~~l~l~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                       +.+ .+|..++.+      ++|+++++++|.+. .+|.  .++++++|++|++++|.+.+.+| .++.+++|+++++
T Consensus       285 ~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L  360 (636)
T 4eco_A          285 GISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNL  360 (636)
T ss_dssp             TSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEEC
T ss_pred             CCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEEC
Confidence             777 788888876      89999999999877 7887  89999999999999999887888 7888888887764

>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=99.78  E-value=1.6e-18  Score=111.28  Aligned_cols=127  Identities=22%  Similarity=0.209  Sum_probs=77.9

Q ss_pred             CCCcEEEecCCCCCC-cchhhhccCcccEEeccCCCCcc-cchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKG-LPLSIVLLSGIVQLDLKGCKNIS-CLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~-~~~~~~~l~~L~~l~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++|++|++++|.+.. .+..+..+++|++|++++|.+.+ ..|..+..+++|+.|++++|.+.+..+..+..+++|+.++
T Consensus       126 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  205 (306)
T 2z66_A          126 RNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN  205 (306)
T ss_dssp             TTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEE
T ss_pred             cCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEE
Confidence            445555555555552 23345556666666666666544 3455556666666666666666665566666666777777


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCC-CCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE-SLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~-~L~~l~l  128 (128)
                      +++|.+.+..+..+..+++|+++++++|.+.+..+..+..++ +|+++++
T Consensus       206 L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L  255 (306)
T 2z66_A          206 MSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL  255 (306)
T ss_dssp             CTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEEC
T ss_pred             CCCCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEc
Confidence            777665554444566667777777777776666666666663 6666653

>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=99.78  E-value=8.1e-19  Score=112.70  Aligned_cols=127  Identities=21%  Similarity=0.264  Sum_probs=81.9

Q ss_pred             CCCcEEEecCCCCCCcc--hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcc-cchhhhhhcCCCcEE
Q 040556            2 KFLQELLLDGTDIKGLP--LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR-ELSLSVELLTGLVVL   78 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~--~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~l   78 (128)
                      ++|++|++++|.+..++  ..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+ ..|..+..+++|+++
T Consensus       101 ~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  180 (306)
T 2z66_A          101 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL  180 (306)
T ss_dssp             TTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEE
T ss_pred             CCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEE
Confidence            45566666666655443  245566666667776666655555556666777777777766654 355566667777777


Q ss_pred             eecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           79 NLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        79 ~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++++|.+.+..|..+..+++|+++++++|.+.+..+..+..+++|+++++
T Consensus       181 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  230 (306)
T 2z66_A          181 DLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY  230 (306)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEEC
T ss_pred             ECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeEC
Confidence            77777666555666667777777777777766554445666677776654

>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=99.78  E-value=3.9e-18  Score=105.18  Aligned_cols=122  Identities=18%  Similarity=0.138  Sum_probs=106.8

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      +.++..++.++.+|..+.  ++++.|++++|.+....+..+..+++|+.|++++|.+.+..+..+..+++|++|++++|.
T Consensus        14 ~~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~   91 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNK   91 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCc
Confidence            467888888988887554  689999999999887777788999999999999999988888899999999999999999


Q ss_pred             ccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           85 YLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        85 ~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +....+..+..+++|++|++++|.+.+..+..+..+++|++|++
T Consensus        92 l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  135 (220)
T 2v9t_B           92 ITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSL  135 (220)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEEC
Confidence            77655555788999999999999998887888999999998875

>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=99.77  E-value=3e-18  Score=115.08  Aligned_cols=127  Identities=20%  Similarity=0.162  Sum_probs=104.3

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccc-hhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCL-SNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++++|++++|.++.+ +..+..+++|++|++++|.+.+.. +..+..+++|++|++++|.+.+..|..++.+++|++|+
T Consensus        30 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  109 (455)
T 3v47_A           30 AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLT  109 (455)
T ss_dssp             TTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEE
T ss_pred             CccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEe
Confidence            4688999999999865 667888999999999999876554 45688899999999999988887788888899999999


Q ss_pred             ecCCcccCcchHH--hhcCCCCcEEeeecCCCCCCCCcC-cCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPST--INGLKSLKILNLSSCSKLENVPEN-LGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~--~~~~~~L~~l~l~~n~~~~~~~~~-~~~~~~L~~l~l  128 (128)
                      +++|.+.+..+..  +..+++|++|++++|.+.+..|.. ++.+++|+++++
T Consensus       110 L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L  161 (455)
T 3v47_A          110 LTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDL  161 (455)
T ss_dssp             CTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEEC
T ss_pred             CCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeC
Confidence            9999877755554  778889999999999887766655 778888888764

>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=4.2e-18  Score=108.95  Aligned_cols=124  Identities=23%  Similarity=0.159  Sum_probs=77.3

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.++.++.. ..+++|++|++++|.+. ..|..+..+++|+.|++++|.+.+..+..+..+++|+++++++
T Consensus        56 ~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~  133 (290)
T 1p9a_G           56 RLTQLNLDRAELTKLQVD-GTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG  133 (290)
T ss_dssp             TCCEEECTTSCCCEEECC-SCCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTT
T ss_pred             CCCEEECCCCccCcccCC-CCCCcCCEEECCCCcCC-cCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCC
Confidence            344444444444433322 34455555555555533 3444556677777777777777665556677777788888887


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+....+..+..+++|++|++++|.+.+..+..+..+++|+++++
T Consensus       134 N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  179 (290)
T 1p9a_G          134 NELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLL  179 (290)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEEC
Confidence            7766555555667777888888877766544445666777777654

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

Probab=99.77  E-value=1.9e-18  Score=123.84  Aligned_cols=125  Identities=16%  Similarity=0.261  Sum_probs=105.7

Q ss_pred             CCCCcEEEecCCCCCC------------------cchhhh--ccCcccEEeccCCCCcccchhhhcccccCCEEecCCCC
Q 040556            1 MKFLQELLLDGTDIKG------------------LPLSIV--LLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT   60 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~------------------~~~~~~--~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~   60 (128)
                      +++|++|++++|.+..                  +|..+.  .+++|+.|++++|.+.+..|..+..+++|+.|++++|+
T Consensus       447 L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~  526 (876)
T 4ecn_A          447 LTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNR  526 (876)
T ss_dssp             CTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCT
T ss_pred             CCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCC
Confidence            4688999999999887                  888766  89999999999999888889889999999999999987


Q ss_pred             -Ccc-cchhhhhhcC-------CCcEEeecCCcccCcchH--HhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           61 -AIR-ELSLSVELLT-------GLVVLNLKDWQYLSSLPS--TINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        61 -~~~-~~~~~~~~l~-------~L~~l~l~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                       +.+ .+|..++.++       +|++|++++|.+. .+|.  .++++++|++|++++|.+. .+| .++.+++|+.|++
T Consensus       527 ~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~L  602 (876)
T 4ecn_A          527 GISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFPASASLQKMVKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKL  602 (876)
T ss_dssp             TSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCHHHHTTCTTCCEEECTTSCCC-BCC-CCCTTSEESEEEC
T ss_pred             CcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccCChhhhhcCCCCCEEECCCCCcc-cch-hhcCCCcceEEEC
Confidence             776 7787777766       8999999998877 7777  7888899999999988876 667 7788888887764

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.77  E-value=8.7e-18  Score=101.74  Aligned_cols=119  Identities=24%  Similarity=0.260  Sum_probs=57.3

Q ss_pred             EEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcc
Q 040556            6 ELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQY   85 (128)
Q Consensus         6 ~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~   85 (128)
                      +++++++.++.+|..+  .+++++|++++|.+. ..|..+..+++|+.|++++|.+.+..+..+..+++|++|++++|.+
T Consensus        14 ~l~~~~~~l~~ip~~~--~~~l~~L~L~~n~i~-~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l   90 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKGI--PRDVTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL   90 (193)
T ss_dssp             EEECTTSCCSSCCSCC--CTTCCEEECCSSCCC-SCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEcCCCCCCcCCCCC--CCCCCEEECCCCcCc-hhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCcc
Confidence            3444555555444332  234555555555533 3334445555555555555555444444455555555555555554


Q ss_pred             cCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           86 LSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        86 ~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ....+..+..+++|++|++++|.+....+..+..+++|+.++
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  132 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLA  132 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEE
T ss_pred             CEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEE
Confidence            444444455555555555555554433333344455554443

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

Probab=99.77  E-value=3.8e-18  Score=112.83  Aligned_cols=127  Identities=13%  Similarity=0.078  Sum_probs=87.6

Q ss_pred             CCCcEEEecCCCCCCcchh-hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLS-IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++++++++.++.++.+|.. +..+++|++|++++|.+....+..+..+++|++|++++|.+.+..+..++.+++|+++++
T Consensus        45 ~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  124 (390)
T 3o6n_A           45 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVL  124 (390)
T ss_dssp             CCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCceEEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEEC
Confidence            4567777777777766654 466777777777777766666666777777777777777776666666777777777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+....+..+.++++|++|++++|.+.+..+..++.+++|+++++
T Consensus       125 ~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  172 (390)
T 3o6n_A          125 ERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQL  172 (390)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEEC
T ss_pred             CCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEEC
Confidence            777655333333466777777777777766655556777777776653

>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=99.77  E-value=6.8e-18  Score=118.23  Aligned_cols=127  Identities=20%  Similarity=0.151  Sum_probs=107.9

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .+..+++|++|++++|.+.+..|..+..+++|++|++++|.+....+..++.+++|+++++
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L  104 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHL  104 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEEC
Confidence            468899999999987764 6888999999999999988888888889999999999998877655557888999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..++++++|+++++++|.+.+..+..++.+++|+++++
T Consensus       105 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  152 (680)
T 1ziw_A          105 MSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLL  152 (680)
T ss_dssp             CSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEEC
T ss_pred             CCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEc
Confidence            999877666677888999999999999988877777888888888764

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.76  E-value=7.9e-18  Score=101.92  Aligned_cols=109  Identities=20%  Similarity=0.176  Sum_probs=98.9

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      +++++|++++|.++.+|..+..+++|+.|++++|.+.+..+..|..+++|+.|++++|.+....+..+..+++|++++++
T Consensus        31 ~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~  110 (193)
T 2wfh_A           31 RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLH  110 (193)
T ss_dssp             TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECC
T ss_pred             CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECC
Confidence            46899999999999999899999999999999999888888889999999999999999988877889999999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      +|.+....+..+..+++|+++++++|++.
T Consensus       111 ~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A          111 GNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             SSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            99977655556888999999999999864

>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=99.76  E-value=4.2e-18  Score=103.02  Aligned_cols=110  Identities=25%  Similarity=0.242  Sum_probs=100.1

Q ss_pred             CCcEEEecCCCCCCcchh--hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            3 FLQELLLDGTDIKGLPLS--IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~--~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++++|++++|.++.++..  +..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+..+..+..+++|+++++
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  109 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL  109 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEEC
Confidence            689999999999987653  889999999999999998888888999999999999999998887777889999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      ++|.+.+..|..+..+++|+++++++|.+...
T Consensus       110 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~  141 (192)
T 1w8a_A          110 YDNQISCVMPGSFEHLNSLTSLNLASNPFNCN  141 (192)
T ss_dssp             CSSCCCEECTTSSTTCTTCCEEECTTCCBCCS
T ss_pred             CCCcCCeeCHHHhhcCCCCCEEEeCCCCccCc
Confidence            99998888888899999999999999997654

>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=99.76  E-value=4.8e-18  Score=101.40  Aligned_cols=123  Identities=20%  Similarity=0.112  Sum_probs=100.8

Q ss_pred             CCCCcEEEecCCCCCCcchhhhcc-CcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLL-SGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l-~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++.++. +..+ ++|++|++++|.+.+.  ..+..+++|+.|++++|.+.+..+..++.+++|++++
T Consensus        18 ~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~   94 (176)
T 1a9n_A           18 AVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   94 (176)
T ss_dssp             TTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             cCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEE
Confidence            3578999999999998764 4444 4999999999997765  5688899999999999998865445568999999999


Q ss_pred             ecCCcccCcchH--HhhcCCCCcEEeeecCCCCCCCCcC----cCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPS--TINGLKSLKILNLSSCSKLENVPEN----LGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~~~~----~~~~~~L~~l~l  128 (128)
                      +++|.+ +.+|.  .+..+++|+++++++|.+.. +|..    ++.+++|+.+|+
T Consensus        95 L~~N~i-~~~~~~~~l~~l~~L~~L~l~~N~i~~-~~~~~~~~~~~l~~L~~Ld~  147 (176)
T 1a9n_A           95 LTNNSL-VELGDLDPLASLKSLTYLCILRNPVTN-KKHYRLYVIYKVPQVRVLDF  147 (176)
T ss_dssp             CCSCCC-CCGGGGGGGGGCTTCCEEECCSSGGGG-STTHHHHHHHHCTTCSEETT
T ss_pred             CCCCcC-CcchhhHhhhcCCCCCEEEecCCCCCC-cHhHHHHHHHHCCccceeCC
Confidence            999986 45565  68899999999999999764 4553    788899988874

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.76  E-value=5.2e-18  Score=111.37  Aligned_cols=126  Identities=20%  Similarity=0.095  Sum_probs=93.7

Q ss_pred             CCcEEEecCCCCCCcchh-hh-ccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            3 FLQELLLDGTDIKGLPLS-IV-LLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~-~~-~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      .++.|++++|.++.++.. +. .+++|+.|++++|.+....+..|..+++|+.|++++|.+....+..+..+++|+.|++
T Consensus        40 ~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  119 (361)
T 2xot_A           40 YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLL  119 (361)
T ss_dssp             TCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEEC
Confidence            467888888888866543 44 7888888888888877776677888888888888888877666667778888888888


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCc---CCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENL---GKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~---~~~~~L~~l~l  128 (128)
                      ++|.+....+..+..+++|++|++++|.+.+..+..+   ..+++|+.|++
T Consensus       120 ~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L  170 (361)
T 2xot_A          120 YNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDL  170 (361)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEEC
T ss_pred             CCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEEC
Confidence            8888776667777888888888888888665333333   45777777654

>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=99.76  E-value=6.5e-18  Score=104.17  Aligned_cols=111  Identities=21%  Similarity=0.168  Sum_probs=101.1

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|++++
T Consensus        56 l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  135 (220)
T 2v70_A           56 LPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLS  135 (220)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEE
T ss_pred             CCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEE
Confidence            4689999999999997755 788999999999999998888888899999999999999999988888899999999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +++|.+.+..|..+..+++|+++++++|.+..
T Consensus       136 L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A          136 LYDNQITTVAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             CTTSCCCCBCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             CCCCcCCEECHHHhcCCCCCCEEEecCcCCcC
Confidence            99999888778889999999999999998753

>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=99.76  E-value=3.3e-18  Score=115.66  Aligned_cols=124  Identities=19%  Similarity=0.112  Sum_probs=57.5

Q ss_pred             CCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.++.+ +..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+....+..+..+++|++++++
T Consensus        33 ~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls  112 (477)
T 2id5_A           33 ETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDIS  112 (477)
T ss_dssp             TCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECT
T ss_pred             CCcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECC
Confidence            344555555555533 2344455555555555555444444445555555555555544443333334444455555555


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +|.+....+..+..+++|++|++++|.+.+..+..++.+++|+++
T Consensus       113 ~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  157 (477)
T 2id5_A          113 ENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQL  157 (477)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEE
T ss_pred             CCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEE
Confidence            444444334444444444444444444433333334444444433

>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=99.76  E-value=2.1e-18  Score=119.40  Aligned_cols=125  Identities=22%  Similarity=0.220  Sum_probs=54.4

Q ss_pred             CCcEEEecCCCCCCcc--hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc-chhhhhhcCCCcEEe
Q 040556            3 FLQELLLDGTDIKGLP--LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE-LSLSVELLTGLVVLN   79 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~--~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~l~   79 (128)
                      +|++|++++|.+...+  ..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+. .|..++.+++|+.++
T Consensus       400 ~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  479 (606)
T 3vq2_A          400 ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLD  479 (606)
T ss_dssp             TCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEE
T ss_pred             CCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEE
Confidence            3444444444443221  2333444444444444444444444444444444444444444331 333344444444444


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +++|.+.+..|..+.++++|+++++++|.+.+..|..++.+++|++++
T Consensus       480 Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  527 (606)
T 3vq2_A          480 LSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLD  527 (606)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEE
T ss_pred             CCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEE
Confidence            444444443344444444444444444444444344444444444443

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

Probab=99.76  E-value=1.3e-18  Score=121.49  Aligned_cols=112  Identities=14%  Similarity=0.195  Sum_probs=101.6

Q ss_pred             CcchhhhccCcccEEeccCCCCccc-----------------chhhhc--ccccCCEEecCCCCCcccchhhhhhcCCCc
Q 040556           16 GLPLSIVLLSGIVQLDLKGCKNISC-----------------LSNFIS--ALKFLSTLNLSDGTAIRELSLSVELLTGLV   76 (128)
Q Consensus        16 ~~~~~~~~l~~L~~l~l~~~~~~~~-----------------~~~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~   76 (128)
                      .+|..+..+++|++|++++|.+.+.                 .|..+.  .+++|++|++++|.+.+..|..++.+++|+
T Consensus       197 ~ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~  276 (636)
T 4eco_A          197 FVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQ  276 (636)
T ss_dssp             EECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCC
T ss_pred             cCCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCC
Confidence            4677888999999999999998875                 888888  999999999999999999999999999999


Q ss_pred             EEeecCCc-ccC-cchHHhhcC------CCCcEEeeecCCCCCCCCc--CcCCCCCCCcccC
Q 040556           77 VLNLKDWQ-YLS-SLPSTINGL------KSLKILNLSSCSKLENVPE--NLGKVESLEELDI  128 (128)
Q Consensus        77 ~l~l~~~~-~~~-~~~~~~~~~------~~L~~l~l~~n~~~~~~~~--~~~~~~~L~~l~l  128 (128)
                      ++++++|. +.+ .+|..++.+      ++|++|++++|.+. .+|.  .++.+++|+++++
T Consensus       277 ~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L  337 (636)
T 4eco_A          277 LINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLEC  337 (636)
T ss_dssp             EEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEEC
T ss_pred             EEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeC
Confidence            99999998 777 789888876      89999999999987 7888  8999999998875

>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=99.76  E-value=5.4e-18  Score=114.58  Aligned_cols=128  Identities=22%  Similarity=0.260  Sum_probs=111.1

Q ss_pred             CCCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..+ |..+..+++|++|++++|.+....+..+..+++|+.|++++|.+....+..+..+++|++++
T Consensus        55 l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~  134 (477)
T 2id5_A           55 FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLE  134 (477)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEE
Confidence            46899999999999866 67889999999999999997766666788899999999999999888888899999999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|.+....+..+..+++|++|++++|.+.+..+..+..+++|+.+++
T Consensus       135 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l  183 (477)
T 2id5_A          135 VGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRL  183 (477)
T ss_dssp             ECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEE
T ss_pred             CCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeC
Confidence            9999887777778889999999999999987765566888888888763

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.76  E-value=2.3e-17  Score=98.49  Aligned_cols=121  Identities=21%  Similarity=0.206  Sum_probs=62.5

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      +.++++++.++.+|..+  .++++.|++++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|+.+++++|.
T Consensus        10 ~~l~~~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~   87 (177)
T 2o6r_A           10 TEIRCNSKGLTSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK   87 (177)
T ss_dssp             TEEECCSSCCSSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEecCCCCccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCC
Confidence            34555555555555322  2455566666555444444444555556666666555554433444555556666666555


Q ss_pred             ccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           85 YLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        85 ~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +.+..+..+..+++|+++++++|.+.+..+..+..+++|++++
T Consensus        88 l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~  130 (177)
T 2o6r_A           88 LQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIW  130 (177)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEE
T ss_pred             ccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEE
Confidence            4443333445555566666665555433333345555555544

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.75  E-value=1e-17  Score=108.06  Aligned_cols=128  Identities=20%  Similarity=0.170  Sum_probs=91.2

Q ss_pred             CCCCcEEEecCCCCCCcchhhhcc-----CcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc--chhhh--hh
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLL-----SGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE--LSLSV--EL   71 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l-----~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~~--~~   71 (128)
                      +++|++|++++|.+...|..+..+     ++|++|++++|.+.+..+..+..+++|+.|++++|.+.+.  .+..+  +.
T Consensus       120 l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~  199 (312)
T 1wwl_A          120 GPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLK  199 (312)
T ss_dssp             SCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTS
T ss_pred             CCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhcc
Confidence            356777888888777666666655     7888888888887777767788888888888888876654  23343  67


Q ss_pred             cCCCcEEeecCCcccC--cch-HHhhcCCCCcEEeeecCCCCCCCC-cCcCCCCCCCcccC
Q 040556           72 LTGLVVLNLKDWQYLS--SLP-STINGLKSLKILNLSSCSKLENVP-ENLGKVESLEELDI  128 (128)
Q Consensus        72 l~~L~~l~l~~~~~~~--~~~-~~~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l~l  128 (128)
                      +++|+++++++|.+..  .++ ..+..+++|++|++++|.+.+..| ..+..+++|+++++
T Consensus       200 l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L  260 (312)
T 1wwl_A          200 FPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNL  260 (312)
T ss_dssp             CTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEEC
T ss_pred             CCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEEC
Confidence            7888888888887663  223 233567888888888888777653 34556677777764

>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=99.75  E-value=8.7e-18  Score=116.35  Aligned_cols=127  Identities=18%  Similarity=0.042  Sum_probs=102.0

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +.+++|++++|.++.+ +..+..+++|++|++++|.+.+..|..|..+++|++|++++|.+.+..|..++.+++|+++++
T Consensus        33 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  112 (606)
T 3t6q_A           33 NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFF  112 (606)
T ss_dssp             TTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEEC
T ss_pred             CcCcEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccccEeec
Confidence            3578889999988866 557888899999999999888877888888999999999998888777888888889999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..++++++|++|++++|.+.+..++.+..+++|+++++
T Consensus       113 ~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  160 (606)
T 3t6q_A          113 IQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDF  160 (606)
T ss_dssp             TTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEEC
T ss_pred             cccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEc
Confidence            988877655666788888999999888877633333444788877764

>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=99.75  E-value=8.3e-18  Score=116.61  Aligned_cols=127  Identities=13%  Similarity=0.078  Sum_probs=81.8

Q ss_pred             CCCcEEEecCCCCCCcchh-hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLS-IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~-~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      .+++.+++.++.+..+|.. +..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..++.+++|++|++
T Consensus        51 ~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  130 (597)
T 3oja_B           51 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVL  130 (597)
T ss_dssp             CCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEe
Confidence            3456666766666666543 455677777777777766655556666777777777777666655556666777777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+....+..++++++|++|++++|.+.+..|..++.+++|++|++
T Consensus       131 ~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  178 (597)
T 3oja_B          131 ERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQL  178 (597)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEEC
T ss_pred             eCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEEC
Confidence            776655433333466677777777777666655556666666666653

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

Probab=99.75  E-value=8.5e-18  Score=115.51  Aligned_cols=127  Identities=24%  Similarity=0.208  Sum_probs=99.9

Q ss_pred             CCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++ ..+..+++|++|++++|.+.+..+..+..+++|++|++++|.+....+..++.+++|+++++
T Consensus        28 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  107 (570)
T 2z63_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  107 (570)
T ss_dssp             SSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             ccccEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccccc
Confidence            35788888888888664 46788888999999888877777777888888999999888877776777888888888888


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+....+..++++++|++|++++|.+.+ .+|..++++++|+++++
T Consensus       108 ~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l  156 (570)
T 2z63_A          108 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL  156 (570)
T ss_dssp             TTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEEC
T ss_pred             cccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeC
Confidence            8887655433357788888888888888766 46777888888887764

>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=99.75  E-value=1.5e-17  Score=103.05  Aligned_cols=122  Identities=18%  Similarity=0.124  Sum_probs=104.9

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      -+.++.+++.+..+|..+.  +++++|++++|.+.+..|..+..+++|+.|++++|.+....+..+..+++|++|++++|
T Consensus        21 ~~~v~c~~~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TTEEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEeEccCCCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC
Confidence            3567888888888886543  88999999999988888888999999999999999987665667789999999999999


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+....+..+..+++|++|++++|.+. .+|..+..+++|++|++
T Consensus        99 ~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L  142 (229)
T 3e6j_A           99 QLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLAL  142 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCC-SCCTTGGGCTTCSEEEC
T ss_pred             cCCccChhHhCcchhhCeEeccCCccc-ccCcccccCCCCCEEEC
Confidence            987766666789999999999999976 67888899999998875

>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=99.75  E-value=4.1e-18  Score=108.05  Aligned_cols=124  Identities=23%  Similarity=0.159  Sum_probs=96.2

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..++. .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..++.+++|++++
T Consensus        51 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  130 (276)
T 2z62_A           51 FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELN  130 (276)
T ss_dssp             CTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEE
T ss_pred             ccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEE
Confidence            4678899999998886654 677888999999999987777777788888999999988887766555677888889999


Q ss_pred             ecCCcccC-cchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCC
Q 040556           80 LKDWQYLS-SLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLE  124 (128)
Q Consensus        80 l~~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~  124 (128)
                      +++|.+.. .+|..+..+++|+++++++|.+.+..+..+..+++++
T Consensus       131 l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  176 (276)
T 2z62_A          131 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMP  176 (276)
T ss_dssp             CCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCT
T ss_pred             CcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhcc
Confidence            98888765 3577888888888888888887665444454444444

>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=99.75  E-value=5.6e-18  Score=116.06  Aligned_cols=126  Identities=21%  Similarity=0.209  Sum_probs=87.1

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.+ +..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..+..++.+++|+++++
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  105 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL  105 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEEC
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEEC
Confidence            3577778888777754 456777777888888887777666667777777888888777777666666777777777777


Q ss_pred             cCCcccC-cchHHhhcCCCCcEEeeecCCCCCCCC-cCcCCCCCCCccc
Q 040556           81 KDWQYLS-SLPSTINGLKSLKILNLSSCSKLENVP-ENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l~  127 (128)
                      ++|.+.+ ..|..++++++|++|++++|...+.++ ..++.+++|++++
T Consensus       106 s~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~  154 (549)
T 2z81_A          106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELE  154 (549)
T ss_dssp             TTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE
T ss_pred             CCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeee
Confidence            7776654 344556667777777777776444444 3466666666554

>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=99.75  E-value=1.5e-17  Score=114.76  Aligned_cols=122  Identities=22%  Similarity=0.154  Sum_probs=105.9

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      .|+.|++++|.++.+|. +..+++|+.|++++|.+. .+|..+..+++|+.|++++|.+.+ +| .++.+++|+.|++++
T Consensus       442 ~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          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQELLLCN  517 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCS
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCCCCCCC-Cc-ccCCCCCCcEEECCC
Confidence            57899999999999986 899999999999999966 778889999999999999999886 56 889999999999999


Q ss_pred             CcccCcc-hHHhhcCCCCcEEeeecCCCCCCCCcC---cCCCCCCCcccC
Q 040556           83 WQYLSSL-PSTINGLKSLKILNLSSCSKLENVPEN---LGKVESLEELDI  128 (128)
Q Consensus        83 ~~~~~~~-~~~~~~~~~L~~l~l~~n~~~~~~~~~---~~~~~~L~~l~l  128 (128)
                      |.+.+.. |..++.+++|++|++++|.+.+..+..   +..+++|+.|++
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            9988766 889999999999999999987654321   234788888864

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

Probab=99.75  E-value=6.7e-18  Score=116.03  Aligned_cols=128  Identities=20%  Similarity=0.277  Sum_probs=97.0

Q ss_pred             CCCCcEEEecCCCCCCcc--hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCc-ccchhhhhhcCCCcE
Q 040556            1 MKFLQELLLDGTDIKGLP--LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAI-RELSLSVELLTGLVV   77 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~--~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~   77 (128)
                      +++|++|++++|.+...+  ..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+. +..|..+..+++|+.
T Consensus       395 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~  474 (570)
T 2z63_A          395 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF  474 (570)
T ss_dssp             CTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCE
T ss_pred             cCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCE
Confidence            356667777777666442  25667778888888888777777777777888888888888776 456777788888888


Q ss_pred             EeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           78 LNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        78 l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++++|.+.+..|..+..+++|+++++++|.+.+..+..++.+++|+.+++
T Consensus       475 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  525 (570)
T 2z63_A          475 LDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWL  525 (570)
T ss_dssp             EECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             EECCCCccccCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEe
Confidence            888888877766777888888888888888877766666788888887764

>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=99.74  E-value=1.6e-17  Score=114.99  Aligned_cols=126  Identities=30%  Similarity=0.242  Sum_probs=74.3

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchh-hhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSL-SVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.++.+|..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+..+. .++.+++|+++++
T Consensus       278 ~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l  357 (606)
T 3t6q_A          278 SGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDL  357 (606)
T ss_dssp             TTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEEC
T ss_pred             cCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEEC
Confidence            466777777777776666666677777777777766655555566666666666666655543332 3555556666666


Q ss_pred             cCCcccCcc--hHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSL--PSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~--~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+.+..  +..+..+++|+++++++|.+.+..+..++.+++|++++
T Consensus       358 ~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  406 (606)
T 3t6q_A          358 SHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLD  406 (606)
T ss_dssp             CSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEE
T ss_pred             CCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEE
Confidence            655544432  34455555555555555555444444455555555443

>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=99.74  E-value=1.1e-17  Score=109.41  Aligned_cols=124  Identities=22%  Similarity=0.171  Sum_probs=70.8

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|++++++
T Consensus        53 ~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  132 (353)
T 2z80_A           53 AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL  132 (353)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECT
T ss_pred             cCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECC
Confidence            46666666666665544 55666666666666666555555556666666666666666554444445566666666666


Q ss_pred             CCcccCcchH--HhhcCCCCcEEeeecCC-CCCCCCcCcCCCCCCCccc
Q 040556           82 DWQYLSSLPS--TINGLKSLKILNLSSCS-KLENVPENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~~~~--~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~~~L~~l~  127 (128)
                      +|.+.. +|.  .+..+++|+++++++|. +....+..++.+++|++++
T Consensus       133 ~n~l~~-l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~  180 (353)
T 2z80_A          133 GNPYKT-LGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELE  180 (353)
T ss_dssp             TCCCSS-SCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEE
T ss_pred             CCCCcc-cCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEE
Confidence            665443 332  44555666666666553 2222233455555555443

>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=99.74  E-value=5.6e-18  Score=116.06  Aligned_cols=127  Identities=23%  Similarity=0.254  Sum_probs=109.6

Q ss_pred             CCCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcc-cchhhhhhcCCCcEE
Q 040556            1 MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIR-ELSLSVELLTGLVVL   78 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~l   78 (128)
                      +++|++|++++|.+..++ ..+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+ ..+..++.+++|+++
T Consensus        49 l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L  128 (549)
T 2z81_A           49 CANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTL  128 (549)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEE
T ss_pred             CCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEE
Confidence            478999999999999664 678999999999999999888888789999999999999998876 356778899999999


Q ss_pred             eecCCcccCcch-HHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           79 NLKDWQYLSSLP-STINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        79 ~l~~~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++++|...+.++ ..+.++++|+++++++|.+.+..|..++.+++|++++
T Consensus       129 ~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~  178 (549)
T 2z81_A          129 RIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLT  178 (549)
T ss_dssp             EEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEE
T ss_pred             ECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEe
Confidence            999998666665 5788999999999999999888888888877776654

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

Probab=99.73  E-value=8e-18  Score=110.04  Aligned_cols=128  Identities=21%  Similarity=0.208  Sum_probs=105.5

Q ss_pred             CCCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccch-hhhhhcCCCcEE
Q 040556            1 MKFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELS-LSVELLTGLVVL   78 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~l   78 (128)
                      +++|++|++++|.++.+ +..+..+++|++|++++|.+.+..+..+..+++|++|++++|.+....+ ..+..+++|+++
T Consensus        75 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L  154 (353)
T 2z80_A           75 CVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQIL  154 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEE
T ss_pred             CCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEE
Confidence            46899999999999866 4568889999999999999777666668889999999999998775433 467889999999


Q ss_pred             eecCCcccCc-chHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           79 NLKDWQYLSS-LPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        79 ~l~~~~~~~~-~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++++|..... .+..+..+++|+++++++|.+.+..|..++.+++|+++++
T Consensus       155 ~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l  205 (353)
T 2z80_A          155 RVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLIL  205 (353)
T ss_dssp             EEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEE
T ss_pred             ECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecC
Confidence            9999853444 4567888999999999999988877888888888887753

>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=99.73  E-value=1.9e-17  Score=112.91  Aligned_cols=106  Identities=19%  Similarity=0.099  Sum_probs=66.4

Q ss_pred             CCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.+..++ ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.. +|..  .+++|++++++
T Consensus        22 ~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-lp~~--~l~~L~~L~L~   98 (520)
T 2z7x_B           22 KTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVK-ISCH--PTVNLKHLDLS   98 (520)
T ss_dssp             TCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCCCE-EECC--CCCCCSEEECC
T ss_pred             cccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCceee-cCcc--ccCCccEEecc
Confidence            4666666666666553 456666666666666666666556666666666666666666553 3333  56666666666


Q ss_pred             CCcccC-cchHHhhcCCCCcEEeeecCCCCC
Q 040556           82 DWQYLS-SLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        82 ~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +|.+.+ .+|..++++++|++|++++|.+.+
T Consensus        99 ~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~  129 (520)
T 2z7x_B           99 FNAFDALPICKEFGNMSQLKFLGLSTTHLEK  129 (520)
T ss_dssp             SSCCSSCCCCGGGGGCTTCCEEEEEESSCCG
T ss_pred             CCccccccchhhhccCCcceEEEecCcccch
Confidence            666555 355666666666666666666544

>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=99.73  E-value=1.3e-16  Score=103.87  Aligned_cols=121  Identities=23%  Similarity=0.230  Sum_probs=98.9

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.+..++. +..+++|++|++++|.+...  +.+..+++|+.|++++|.+.+.  +.+..+++|+.+++
T Consensus       220 ~~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~L  294 (347)
T 4fmz_A          220 MTRLNSLKIGNNKITDLSP-LANLSQLTWLEIGTNQISDI--NAVKDLTKLKMLNVGSNQISDI--SVLNNLSQLNSLFL  294 (347)
T ss_dssp             CTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEEC
T ss_pred             CCcCCEEEccCCccCCCcc-hhcCCCCCEEECCCCccCCC--hhHhcCCCcCEEEccCCccCCC--hhhcCCCCCCEEEC
Confidence            3578888888888887665 77888899999988886654  3477888999999999887664  45778899999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+..+..+++|+++++++|.+.+..|  ++.+++|+++++
T Consensus       295 ~~n~l~~~~~~~l~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l  340 (347)
T 4fmz_A          295 NNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRP--LASLSKMDSADF  340 (347)
T ss_dssp             CSSCCCGGGHHHHHTCTTCSEEECCSSSCCCCGG--GGGCTTCSEESS
T ss_pred             cCCcCCCcChhHhhccccCCEEEccCCccccccC--hhhhhccceeeh
Confidence            9999888888888999999999999999776544  778889988875

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

Probab=99.73  E-value=1.5e-17  Score=119.09  Aligned_cols=127  Identities=21%  Similarity=0.170  Sum_probs=94.9

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccc-hhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCL-SNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++++|++++|.++.+ +..+..+++|++|++++|...+.. |..+..+++|++|++++|.+.+..|..++.+++|++|+
T Consensus        24 ~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~  103 (844)
T 3j0a_A           24 NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELR  103 (844)
T ss_dssp             TTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEE
T ss_pred             CCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEee
Confidence            5678888888888754 567778888888888888555544 56677888888888888887777777788888888888


Q ss_pred             ecCCcccCcchHH--hhcCCCCcEEeeecCCCCCCCC-cCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPST--INGLKSLKILNLSSCSKLENVP-ENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~--~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l~l  128 (128)
                      +++|.+.+..+..  +.++++|++|++++|.+.+..+ ..++++++|++|++
T Consensus       104 Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~L  155 (844)
T 3j0a_A          104 LYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDF  155 (844)
T ss_dssp             CTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEE
T ss_pred             CcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEEC
Confidence            8888776655544  6777888888888887766543 45777788777653

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

Probab=99.72  E-value=5.8e-17  Score=107.18  Aligned_cols=123  Identities=16%  Similarity=0.065  Sum_probs=102.0

Q ss_pred             CCCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..++ ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+....+..++.+++|++++
T Consensus        68 l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~  147 (390)
T 3o6n_A           68 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLS  147 (390)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEE
Confidence            478999999999999765 4788999999999999998888888889999999999999988765445568899999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +++|.+.+..+..+..+++|++|++++|.+.+..   ++.+++|+.+
T Consensus       148 L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~---~~~l~~L~~L  191 (390)
T 3o6n_A          148 MSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD---LSLIPSLFHA  191 (390)
T ss_dssp             CCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC---GGGCTTCSEE
T ss_pred             CCCCccCccChhhccCCCCCCEEECCCCcCCccc---ccccccccee
Confidence            9999987777777889999999999999876542   3444555443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.72  E-value=1.1e-16  Score=97.69  Aligned_cols=111  Identities=23%  Similarity=0.173  Sum_probs=94.8

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|++++
T Consensus        51 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  130 (208)
T 2o6s_A           51 LTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLR  130 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEE
Confidence            4689999999999998765 467899999999999998877666788999999999999998876666688899999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +++|.+.+..+..+..+++|+++++++|.+.+
T Consensus       131 l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~  162 (208)
T 2o6s_A          131 LYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDC  162 (208)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSCCBCC
T ss_pred             CCCCccceeCHHHhccCCCccEEEecCCCeec
Confidence            99998776555567889999999999987643

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

Probab=99.72  E-value=5e-17  Score=109.40  Aligned_cols=106  Identities=23%  Similarity=0.083  Sum_probs=62.5

Q ss_pred             CCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.++.+ +..+..+++|+.|++++|.+.+..+..+..+++|++|++++|.+....+..+..+++|++|+++
T Consensus        76 ~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  155 (452)
T 3zyi_A           76 NTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLR  155 (452)
T ss_dssp             TCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECC
T ss_pred             CccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECC
Confidence            466666766666644 4456666666666666666665555566666666666666666555444445566666666666


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      +|.+....+..+.++++|++|++++|+
T Consensus       156 ~N~l~~~~~~~~~~l~~L~~L~l~~~~  182 (452)
T 3zyi_A          156 NNPIESIPSYAFNRVPSLMRLDLGELK  182 (452)
T ss_dssp             SCCCCEECTTTTTTCTTCCEEECCCCT
T ss_pred             CCCcceeCHhHHhcCCcccEEeCCCCC
Confidence            665443333344445555555555433

>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=99.72  E-value=2.8e-16  Score=100.49  Aligned_cols=102  Identities=22%  Similarity=0.200  Sum_probs=49.2

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.++.++. +..+++|++|++++|.+.+ .+ .+..+++|+.|++++|.+.+.  +.+..+++|+.++++
T Consensus        68 ~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~L~~n~i~~~--~~l~~l~~L~~L~l~  142 (291)
T 1h6t_A           68 PNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKD-LS-SLKDLKKLKSLSLEHNGISDI--NGLVHLPQLESLYLG  142 (291)
T ss_dssp             TTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCC-GG-GGTTCTTCCEEECTTSCCCCC--GGGGGCTTCCEEECC
T ss_pred             CCCCEEEccCCccCCCcc-cccCCCCCEEECCCCcCCC-Ch-hhccCCCCCEEECCCCcCCCC--hhhcCCCCCCEEEcc
Confidence            455555555555554443 4555555555555555333 22 144455555555555544432  234444555555555


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      +|.+...  ..+..+++|++|++++|.+.
T Consensus       143 ~n~l~~~--~~l~~l~~L~~L~L~~N~l~  169 (291)
T 1h6t_A          143 NNKITDI--TVLSRLTKLDTLSLEDNQIS  169 (291)
T ss_dssp             SSCCCCC--GGGGGCTTCSEEECCSSCCC
T ss_pred             CCcCCcc--hhhccCCCCCEEEccCCccc
Confidence            5443332  23444444555555544443

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

Probab=99.72  E-value=1e-16  Score=107.89  Aligned_cols=125  Identities=22%  Similarity=0.181  Sum_probs=77.8

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCc-------------------------ccEEeccCCCCcccchhhhcccccCCEEe
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSG-------------------------IVQLDLKGCKNISCLSNFISALKFLSTLN   55 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~-------------------------L~~l~l~~~~~~~~~~~~~~~l~~L~~L~   55 (128)
                      ++|++|++++|.+..++. .+..+++                         |++|++++|.+.+. | .+..+++|+.|+
T Consensus       147 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~-~-~~~~l~~L~~L~  224 (452)
T 3zyi_A          147 SKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDM-P-NLTPLVGLEELE  224 (452)
T ss_dssp             TTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSC-C-CCTTCTTCCEEE
T ss_pred             CCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccc-c-cccccccccEEE
Confidence            466777777776665443 3444444                         44445544443322 2 244555666666


Q ss_pred             cCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           56 LSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        56 l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|.+.+..+..+..+++|+.+++++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.+++
T Consensus       225 Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  297 (452)
T 3zyi_A          225 MSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHL  297 (452)
T ss_dssp             CTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEEC
T ss_pred             CcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEc
Confidence            6666666666666777777777777777766666666777777777777777766555555667777776654

>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=99.72  E-value=6.5e-17  Score=112.15  Aligned_cols=123  Identities=16%  Similarity=0.065  Sum_probs=103.5

Q ss_pred             CCCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..++ ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+....+..++.+++|++|+
T Consensus        74 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~  153 (597)
T 3oja_B           74 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLS  153 (597)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEE
Confidence            468999999999999765 4788999999999999998888888889999999999999988865555678999999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +++|.+.+..|..++.+++|++|++++|.+.+..   ++.+++|+.+
T Consensus       154 Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~---~~~l~~L~~L  197 (597)
T 3oja_B          154 MSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD---LSLIPSLFHA  197 (597)
T ss_dssp             CCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC---GGGCTTCSEE
T ss_pred             eeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC---hhhhhhhhhh
Confidence            9999988877778999999999999999876642   3344555444

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

Probab=99.72  E-value=7e-17  Score=108.36  Aligned_cols=104  Identities=22%  Similarity=0.112  Sum_probs=51.7

Q ss_pred             CCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      +++.|++++|.++.++ ..+..+++|++|++++|.+....+..|..+++|+.|++++|.+....+..+..+++|++|+++
T Consensus        65 ~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  144 (440)
T 3zyj_A           65 NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLR  144 (440)
T ss_dssp             TCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECC
T ss_pred             CCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCC
Confidence            3455555555555432 345555555555555555544444455555555555555555444333344455555555555


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeec
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSS  106 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~  106 (128)
                      +|.+....+..+..+++|++|++++
T Consensus       145 ~N~i~~~~~~~~~~l~~L~~L~l~~  169 (440)
T 3zyj_A          145 NNPIESIPSYAFNRIPSLRRLDLGE  169 (440)
T ss_dssp             SCCCCEECTTTTTTCTTCCEEECCC
T ss_pred             CCcccccCHHHhhhCcccCEeCCCC
Confidence            5544333233344444444444444

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.71  E-value=2.6e-17  Score=108.06  Aligned_cols=122  Identities=23%  Similarity=0.162  Sum_probs=100.4

Q ss_pred             CCCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.+..++ ..+..+++|++|++++|.+....+..|..+++|+.|++++|.+....+..+..+++|+.|+
T Consensus        63 l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~  142 (361)
T 2xot_A           63 LTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLY  142 (361)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             ccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEE
Confidence            468999999999999776 4688999999999999998877777889999999999999999888788899999999999


Q ss_pred             ecCCcccCcchHHh---hcCCCCcEEeeecCCCCCCCCcCcCCCCC
Q 040556           80 LKDWQYLSSLPSTI---NGLKSLKILNLSSCSKLENVPENLGKVES  122 (128)
Q Consensus        80 l~~~~~~~~~~~~~---~~~~~L~~l~l~~n~~~~~~~~~~~~~~~  122 (128)
                      +++|.+....+..+   ..+++|++|++++|.+.+..+..+..++.
T Consensus       143 L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~  188 (361)
T 2xot_A          143 LSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPA  188 (361)
T ss_dssp             CCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCH
T ss_pred             CCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccH
Confidence            99998766433334   56899999999999987644344555543

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

Probab=99.71  E-value=2.9e-17  Score=117.85  Aligned_cols=124  Identities=17%  Similarity=0.135  Sum_probs=105.9

Q ss_pred             CCCCcEEEecCCCCC-CcchhhhccCcccEEeccCCC-Ccc-cchhhhcccc-------cCCEEecCCCCCcccchh--h
Q 040556            1 MKFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCK-NIS-CLSNFISALK-------FLSTLNLSDGTAIRELSL--S   68 (128)
Q Consensus         1 l~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~-~~~-~~~~~~~~l~-------~L~~L~l~~~~~~~~~~~--~   68 (128)
                      +++|++|++++|.+. .+|..+..+++|+.|++++|. +.+ ..|..+..++       +|+.|++++|.+. .+|.  .
T Consensus       490 L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~  568 (876)
T 4ecn_A          490 LKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFPASAS  568 (876)
T ss_dssp             CTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCHHH
T ss_pred             CCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccCChhh
Confidence            468999999999876 789889999999999999998 777 7787776665       9999999999888 6777  8


Q ss_pred             hhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCC-CCcccC
Q 040556           69 VELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVES-LEELDI  128 (128)
Q Consensus        69 ~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~-L~~l~l  128 (128)
                      ++.+++|+.|++++|.+. .+| .++.+++|++|++++|.+. .+|..++.+++ |+.|++
T Consensus       569 l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~Ls~N~l~-~lp~~l~~l~~~L~~L~L  626 (876)
T 4ecn_A          569 LQKMVKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKLDYNQIE-EIPEDFCAFTDQVEGLGF  626 (876)
T ss_dssp             HTTCTTCCEEECTTSCCC-BCC-CCCTTSEESEEECCSSCCS-CCCTTSCEECTTCCEEEC
T ss_pred             hhcCCCCCEEECCCCCcc-cch-hhcCCCcceEEECcCCccc-cchHHHhhccccCCEEEC
Confidence            889999999999999876 777 7888899999999999877 77878888888 887764

>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=99.71  E-value=2e-17  Score=102.95  Aligned_cols=123  Identities=14%  Similarity=0.060  Sum_probs=89.1

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCC-CcccchhhhcccccCCEEecCC-CCCcccchhhhhhcCCCcEEe
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCK-NISCLSNFISALKFLSTLNLSD-GTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~-~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++++|++++|.++.++. .+..+++|++|++++|. +....+..|..+++|+.|++++ |.+....+..+..+++|++++
T Consensus        32 ~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~  111 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLG  111 (239)
T ss_dssp             TCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEE
T ss_pred             cccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEe
Confidence            57888888888887765 67778888888888886 5555555677888888888887 777665556677788888888


Q ss_pred             ecCCcccCcchHHhhcCCCCc---EEeeecC-CCCCCCCcCcCCCCCCC-ccc
Q 040556           80 LKDWQYLSSLPSTINGLKSLK---ILNLSSC-SKLENVPENLGKVESLE-ELD  127 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~---~l~l~~n-~~~~~~~~~~~~~~~L~-~l~  127 (128)
                      +++|.+.+ +|. +..+++|+   ++++++| .+.+..+..++.+++|+ +++
T Consensus       112 l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~  162 (239)
T 2xwt_C          112 IFNTGLKM-FPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLK  162 (239)
T ss_dssp             EEEECCCS-CCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEE
T ss_pred             CCCCCCcc-ccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEE
Confidence            88877554 554 66666666   7788777 55444444566777776 655

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.71  E-value=1.5e-16  Score=94.88  Aligned_cols=112  Identities=21%  Similarity=0.135  Sum_probs=96.0

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+++++
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l  107 (177)
T 2o6r_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELAL  107 (177)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEEC
Confidence            578999999999997765 4678999999999999987777677889999999999999988776667888999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENV  113 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~  113 (128)
                      ++|.+.+..+..+..+++|+++++++|.+.+..
T Consensus       108 ~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A          108 DTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             CSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             cCCcceEeCHHHhcCCcccCEEEecCCCeeccC
Confidence            999877655555678999999999999987643

>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=99.71  E-value=7.7e-17  Score=110.98  Aligned_cols=106  Identities=21%  Similarity=0.137  Sum_probs=56.2

Q ss_pred             CCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++++|++++|.+..++ ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.. +|..  .+++|++++++
T Consensus        53 ~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-lp~~--~l~~L~~L~Ls  129 (562)
T 3a79_B           53 RTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQN-ISCC--PMASLRHLDLS  129 (562)
T ss_dssp             TCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSCCCE-ECSC--CCTTCSEEECC
T ss_pred             CcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCcCCc-cCcc--ccccCCEEECC
Confidence            4555555555555443 345555555555555555555545555555555555555555442 3322  45555555555


Q ss_pred             CCcccC-cchHHhhcCCCCcEEeeecCCCCC
Q 040556           82 DWQYLS-SLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        82 ~~~~~~-~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +|.+.+ ..|..++++++|++|++++|.+.+
T Consensus       130 ~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~  160 (562)
T 3a79_B          130 FNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ  160 (562)
T ss_dssp             SSCCSBCCCCGGGGGCTTCCEEEEECSBCCT
T ss_pred             CCCccccCchHhhcccCcccEEecCCCcccc
Confidence            555443 233455555556666665555443

>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=110.76  Aligned_cols=127  Identities=22%  Similarity=0.203  Sum_probs=104.4

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcc-cchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNIS-CLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++++.++++.|.+... +..+..++.++.+++++|.... ..|..+..+++|+.|++++|++.+..|..++.+++|+.|+
T Consensus       445 ~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~  524 (635)
T 4g8a_A          445 RNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN  524 (635)
T ss_dssp             TTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEE
T ss_pred             cccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEE
Confidence            4567777888877743 5566778899999999887544 4566788899999999999998888888899999999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCC-CCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKV-ESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~-~~L~~l~l  128 (128)
                      +++|++.+..+..+.++++|++|++++|.+.+..|..+.++ ++|+++++
T Consensus       525 Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L  574 (635)
T 4g8a_A          525 MSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL  574 (635)
T ss_dssp             CTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEEC
T ss_pred             CCCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEe
Confidence            99998877777778889999999999999988888888887 57887764

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

Probab=99.70  E-value=1.1e-16  Score=107.36  Aligned_cols=35  Identities=26%  Similarity=0.247  Sum_probs=14.8

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCC
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKN   37 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~   37 (128)
                      +|++|++++|.++.++. .+..+++|++|++++|.+
T Consensus       113 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i  148 (440)
T 3zyj_A          113 NLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPI  148 (440)
T ss_dssp             SCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCC
T ss_pred             cCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcc
Confidence            34444444444443332 233444444444444443

>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=99.70  E-value=3e-16  Score=101.71  Aligned_cols=85  Identities=19%  Similarity=0.185  Sum_probs=41.5

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeee
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLS  105 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~  105 (128)
                      +|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.+++++|.+. .+|..+..+++|++++++
T Consensus       193 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~  271 (330)
T 1xku_A          193 SLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLH  271 (330)
T ss_dssp             TCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECC
T ss_pred             cCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEECC
Confidence            4444444444444443444445555555555555544444444445555555555555433 344444455555555555


Q ss_pred             cCCCCC
Q 040556          106 SCSKLE  111 (128)
Q Consensus       106 ~n~~~~  111 (128)
                      +|.+.+
T Consensus       272 ~N~i~~  277 (330)
T 1xku_A          272 NNNISA  277 (330)
T ss_dssp             SSCCCC
T ss_pred             CCcCCc
Confidence            555443

>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=99.70  E-value=1e-16  Score=109.29  Aligned_cols=125  Identities=18%  Similarity=0.214  Sum_probs=67.5

Q ss_pred             CCCcEEEecCCCCCC-cchhhhccCcccEEeccCCCCcc--cchhhhcccccCCEEecCCCCCcccchhh-hhhc-----
Q 040556            2 KFLQELLLDGTDIKG-LPLSIVLLSGIVQLDLKGCKNIS--CLSNFISALKFLSTLNLSDGTAIRELSLS-VELL-----   72 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~-~~~~~~~l~~L~~l~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~-~~~l-----   72 (128)
                      ++|++|++++|.+.+ .|..+..+++|++|++++|.+.+  ..|..+..+++|+.|++++|.+.+.+|.. +..+     
T Consensus       324 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~  403 (520)
T 2z7x_B          324 SPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLS  403 (520)
T ss_dssp             CCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCE
T ss_pred             CcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCE
Confidence            344555555555542 34444445555555555555443  23333444445555555544444322221 2222     


Q ss_pred             -----------------CCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcC-cCCCCCCCcccC
Q 040556           73 -----------------TGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPEN-LGKVESLEELDI  128 (128)
Q Consensus        73 -----------------~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~-~~~~~~L~~l~l  128 (128)
                                       ++|+.+++++|.+. .+|..+..+++|+++++++|.+.. +|.. +..+++|+++++
T Consensus       404 L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~-l~~~~~~~l~~L~~L~l  475 (520)
T 2z7x_B          404 LNMSSNILTDTIFRCLPPRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLKS-VPDGIFDRLTSLQKIWL  475 (520)
T ss_dssp             EECCSSCCCGGGGGSCCTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEEC
T ss_pred             EECcCCCCCcchhhhhcccCCEEECCCCccc-ccchhhhcCCCCCEEECCCCcCCc-cCHHHhccCCcccEEEC
Confidence                             45666666666644 566666677778888888777653 4544 677777777654

>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=99.70  E-value=5.6e-17  Score=113.66  Aligned_cols=111  Identities=19%  Similarity=0.066  Sum_probs=66.6

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+..+ +..+..+++|++|++++|.+....+..+..+++|++|++++|.+.+..+..++.+++|+++++
T Consensus        49 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  128 (680)
T 1ziw_A           49 SQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDL  128 (680)
T ss_dssp             TTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEEC
T ss_pred             CcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEEC
Confidence            4566666666666644 445566666666666666655444445666666666666666655544455666666666666


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      ++|.+.+..+..++++++|+++++++|.+.+.
T Consensus       129 s~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~  160 (680)
T 1ziw_A          129 SHNGLSSTKLGTQVQLENLQELLLSNNKIQAL  160 (680)
T ss_dssp             CSSCCSCCCCCSSSCCTTCCEEECCSSCCCCB
T ss_pred             CCCcccccCchhhcccccCCEEEccCCccccc
Confidence            66665555455555566666666666655443

>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=99.70  E-value=1.7e-16  Score=94.29  Aligned_cols=106  Identities=21%  Similarity=0.117  Sum_probs=91.5

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      .++++++++.++.+|..+  .+++++|++++|.+.+..|..+..+++|++|++++|.+.+..+..+..+++|+++++++|
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 GTTVDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEeCCCCcCccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            467899999999888765  378999999999988888888999999999999999988766667788999999999999


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      .+.+..+..+..+++|+++++++|.+..
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N~~~c  116 (170)
T 3g39_A           89 QLKSIPRGAFDNLKSLTHIWLLNNPWDC  116 (170)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCBCT
T ss_pred             ccCEeCHHHhcCCCCCCEEEeCCCCCCC
Confidence            8776656678899999999999998754

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.70  E-value=2.4e-17  Score=116.58  Aligned_cols=107  Identities=21%  Similarity=0.175  Sum_probs=55.0

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      .|+.|++++|.+..++..+..+++|++|++++|.+. .+|..+..+++|+.|++++|.+. .+|..++.+++|++|++++
T Consensus       225 ~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L~~  302 (727)
T 4b8c_D          225 LWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSCFQLKYFYFFD  302 (727)
T ss_dssp             CCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCSSGGGGTTCSEEECCS
T ss_pred             CCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccChhhcCCCCCCEEECCC
Confidence            445555555555555544445555555555555543 44444555555555555555544 3444555555555555555


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      |.+. .+|..++.+++|++|++++|.+.+.
T Consensus       303 N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~  331 (727)
T 4b8c_D          303 NMVT-TLPWEFGNLCNLQFLGVEGNPLEKQ  331 (727)
T ss_dssp             SCCC-CCCSSTTSCTTCCCEECTTSCCCSH
T ss_pred             CCCC-ccChhhhcCCCccEEeCCCCccCCC
Confidence            5432 3444455555555555555555443

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.70  E-value=9.8e-18  Score=108.10  Aligned_cols=127  Identities=20%  Similarity=0.261  Sum_probs=99.8

Q ss_pred             CCCCcEEEecCCCCC-Ccchhh--hccCcccEEeccCCCCcccchhhhccc-----ccCCEEecCCCCCcccchhhhhhc
Q 040556            1 MKFLQELLLDGTDIK-GLPLSI--VLLSGIVQLDLKGCKNISCLSNFISAL-----KFLSTLNLSDGTAIRELSLSVELL   72 (128)
Q Consensus         1 l~~L~~l~l~~~~~~-~~~~~~--~~l~~L~~l~l~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~~~~~~~~~l   72 (128)
                      +++|++|++++|.+. .+|..+  ..+++|++|++++|.+.+. |..+..+     ++|++|++++|.+.+..+..++.+
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l  172 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVF  172 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCC
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccC
Confidence            467899999999988 567665  7889999999999997776 6667666     889999999999888777888899


Q ss_pred             CCCcEEeecCCcccCc--chHHh--hcCCCCcEEeeecCCCCC--CCC-cCcCCCCCCCcccC
Q 040556           73 TGLVVLNLKDWQYLSS--LPSTI--NGLKSLKILNLSSCSKLE--NVP-ENLGKVESLEELDI  128 (128)
Q Consensus        73 ~~L~~l~l~~~~~~~~--~~~~~--~~~~~L~~l~l~~n~~~~--~~~-~~~~~~~~L~~l~l  128 (128)
                      ++|+++++++|.+.+.  .+..+  ..+++|++|++++|.+.+  .++ ..+..+++|+++++
T Consensus       173 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~L  235 (312)
T 1wwl_A          173 PALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDL  235 (312)
T ss_dssp             SSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEEC
T ss_pred             CCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEEC
Confidence            9999999999987654  34444  788999999999998763  222 22346678877764

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

Probab=99.70  E-value=7.1e-17  Score=115.69  Aligned_cols=126  Identities=21%  Similarity=0.127  Sum_probs=96.9

Q ss_pred             CCCCcEEEecCCCCC-Cc-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhh--hhhcCCCc
Q 040556            1 MKFLQELLLDGTDIK-GL-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLS--VELLTGLV   76 (128)
Q Consensus         1 l~~L~~l~l~~~~~~-~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~--~~~l~~L~   76 (128)
                      +++|++|++++|... .+ +..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..+..  ++.+++|+
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~  126 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALT  126 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCC
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCC
Confidence            467888999988544 55 567888899999999999888887888888999999999998887755544  77888899


Q ss_pred             EEeecCCcccCcch-HHhhcCCCCcEEeeecCCCCCCCCcCcCCC--CCCCcc
Q 040556           77 VLNLKDWQYLSSLP-STINGLKSLKILNLSSCSKLENVPENLGKV--ESLEEL  126 (128)
Q Consensus        77 ~l~l~~~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~--~~L~~l  126 (128)
                      +|++++|.+.+..+ ..++++++|++|++++|.+.+..+..++.+  ++|+.+
T Consensus       127 ~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L  179 (844)
T 3j0a_A          127 RLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFF  179 (844)
T ss_dssp             EEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCC
T ss_pred             EEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceE
Confidence            99999888766543 567888889999998888776655555444  444443

>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=6.3e-16  Score=98.87  Aligned_cols=119  Identities=27%  Similarity=0.296  Sum_probs=97.7

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.++. +..+++|++|++++|.+.+.  ..+..+++|+.|++++|.+.+.  +.++.+++|+++++
T Consensus        89 l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~n~i~~~--~~l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L  163 (291)
T 1h6t_A           89 LKNLGWLFLDENKVKDLSS-LKDLKKLKSLSLEHNGISDI--NGLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSL  163 (291)
T ss_dssp             CTTCCEEECCSSCCCCGGG-GTTCTTCCEEECTTSCCCCC--GGGGGCTTCCEEECCSSCCCCC--GGGGGCTTCSEEEC
T ss_pred             CCCCCEEECCCCcCCCChh-hccCCCCCEEECCCCcCCCC--hhhcCCCCCCEEEccCCcCCcc--hhhccCCCCCEEEc
Confidence            4689999999999988664 78899999999999987664  3478899999999999987765  56788999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+..+  +..+++|++|++++|.+.+ ++ .+..+++|+.+++
T Consensus       164 ~~N~l~~~~~--l~~l~~L~~L~L~~N~i~~-l~-~l~~l~~L~~L~l  207 (291)
T 1h6t_A          164 EDNQISDIVP--LAGLTKLQNLYLSKNHISD-LR-ALAGLKNLDVLEL  207 (291)
T ss_dssp             CSSCCCCCGG--GTTCTTCCEEECCSSCCCB-CG-GGTTCTTCSEEEE
T ss_pred             cCCccccchh--hcCCCccCEEECCCCcCCC-Ch-hhccCCCCCEEEC
Confidence            9998766444  8889999999999998765 34 4788888887763

>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=99.70  E-value=6e-17  Score=105.03  Aligned_cols=126  Identities=24%  Similarity=0.324  Sum_probs=61.2

Q ss_pred             CCCcEEEecCCCCC-CcchhhhccCcccEEeccCC-CCcc-cchhhhcccccCCEEecCCC-CCccc-chhhhhhcC-CC
Q 040556            2 KFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGC-KNIS-CLSNFISALKFLSTLNLSDG-TAIRE-LSLSVELLT-GL   75 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~-~~~~-~~~~~~~~l~~L~~L~l~~~-~~~~~-~~~~~~~l~-~L   75 (128)
                      ++|++|++++|.+. ..+..+..+++|++|++++| .+.+ ..+..+..+++|+.|++++| .+.+. ++..+..++ +|
T Consensus       118 ~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L  197 (336)
T 2ast_B          118 SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETI  197 (336)
T ss_dssp             CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTC
T ss_pred             CCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCC
Confidence            34555555555544 33444445555555555555 2332 13333444555555555555 44332 334444555 55


Q ss_pred             cEEeecCCc--cc-CcchHHhhcCCCCcEEeeecCC-CCCCCCcCcCCCCCCCccc
Q 040556           76 VVLNLKDWQ--YL-SSLPSTINGLKSLKILNLSSCS-KLENVPENLGKVESLEELD  127 (128)
Q Consensus        76 ~~l~l~~~~--~~-~~~~~~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~~~L~~l~  127 (128)
                      +++++++|.  +. ..++..+.++++|++|++++|. +.+..+..++.+++|++|+
T Consensus       198 ~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~  253 (336)
T 2ast_B          198 TQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLS  253 (336)
T ss_dssp             CEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEE
T ss_pred             CEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEee
Confidence            555555552  22 2334444555555666665555 3334444455555555554

>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=99.69  E-value=5.6e-16  Score=99.79  Aligned_cols=119  Identities=20%  Similarity=0.208  Sum_probs=54.6

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccch---------------
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELS---------------   66 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~---------------   66 (128)
                      ++|++|++++|.++.++ .+..+++|++|++++|.+.+. +. +..+++|+.|++++|.+.+..+               
T Consensus        85 ~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n  161 (308)
T 1h6u_A           85 TKITELELSGNPLKNVS-AIAGLQSIKTLDLTSTQITDV-TP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNA  161 (308)
T ss_dssp             CSCCEEECCSCCCSCCG-GGTTCTTCCEEECTTSCCCCC-GG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSS
T ss_pred             CCCCEEEccCCcCCCch-hhcCCCCCCEEECCCCCCCCc-hh-hcCCCCCCEEECCCCccCcCccccCCCCccEEEccCC
Confidence            44555555555555443 344455555555555543332 11 3444444444444444332211               


Q ss_pred             -----hhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           67 -----LSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        67 -----~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                           +.+..+++|+.+++++|.+.+. +. +..+++|+++++++|.+.+..  .+..+++|+.++
T Consensus       162 ~l~~~~~l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~L~~N~l~~~~--~l~~l~~L~~L~  223 (308)
T 1h6u_A          162 QVSDLTPLANLSKLTTLKADDNKISDI-SP-LASLPNLIEVHLKNNQISDVS--PLANTSNLFIVT  223 (308)
T ss_dssp             CCCCCGGGTTCTTCCEEECCSSCCCCC-GG-GGGCTTCCEEECTTSCCCBCG--GGTTCTTCCEEE
T ss_pred             cCCCChhhcCCCCCCEEECCCCccCcC-hh-hcCCCCCCEEEccCCccCccc--cccCCCCCCEEE
Confidence                 0144445555555555543332 21 445555555555555544322  245555555543

>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=99.69  E-value=8.6e-16  Score=98.95  Aligned_cols=119  Identities=24%  Similarity=0.297  Sum_probs=74.2

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.+..++. +..+++|++|++++|.+.+. + .+..+++|+.|++++|.+.+. + .+..+++|+++++
T Consensus        62 l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~~-~-~~~~l~~L~~L~l~~n~l~~~-~-~l~~l~~L~~L~l  136 (308)
T 1h6u_A           62 LNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKNV-S-AIAGLQSIKTLDLTSTQITDV-T-PLAGLSNLQVLYL  136 (308)
T ss_dssp             CTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCC-G-GGTTCTTCCEEECTTSCCCCC-G-GGTTCTTCCEEEC
T ss_pred             cCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCcCCCc-h-hhcCCCCCCEEECCCCCCCCc-h-hhcCCCCCCEEEC
Confidence            3556667777776666554 66667777777777764443 2 356677777777777766543 2 2666777777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+. +. +..+++|++|++++|.+.+. +. ++.+++|+.+++
T Consensus       137 ~~n~l~~~-~~-l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~l  180 (308)
T 1h6u_A          137 DLNQITNI-SP-LAGLTNLQYLSIGNAQVSDL-TP-LANLSKLTTLKA  180 (308)
T ss_dssp             CSSCCCCC-GG-GGGCTTCCEEECCSSCCCCC-GG-GTTCTTCCEEEC
T ss_pred             CCCccCcC-cc-ccCCCCccEEEccCCcCCCC-hh-hcCCCCCCEEEC
Confidence            77765443 22 66667777777777765542 32 566666666543

>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=99.69  E-value=2.2e-16  Score=93.37  Aligned_cols=113  Identities=20%  Similarity=0.150  Sum_probs=95.4

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++.+ ..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+.. +..+..+++|++++
T Consensus        48 l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~  126 (168)
T 2ell_A           48 FVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLD  126 (168)
T ss_dssp             GGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEE
T ss_pred             CCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEE
Confidence            36799999999999977 67888999999999999988877877778999999999999887642 36788999999999


Q ss_pred             ecCCcccCcch---HHhhcCCCCcEEeeecCCCCCCCCc
Q 040556           80 LKDWQYLSSLP---STINGLKSLKILNLSSCSKLENVPE  115 (128)
Q Consensus        80 l~~~~~~~~~~---~~~~~~~~L~~l~l~~n~~~~~~~~  115 (128)
                      +++|.+.+..+   ..+..+++|+++++++|.... +|.
T Consensus       127 l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~~~  164 (168)
T 2ell_A          127 LFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQE-APD  164 (168)
T ss_dssp             CCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCB-CCS
T ss_pred             eeCCcCcchHHHHHHHHHhCccCcEecCCCCChhh-ccc
Confidence            99998776544   478899999999999998533 343

>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=99.69  E-value=5.5e-16  Score=100.48  Aligned_cols=125  Identities=18%  Similarity=0.164  Sum_probs=82.2

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcc--cchhhhccc---------------------ccCCEEecCC
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNIS--CLSNFISAL---------------------KFLSTLNLSD   58 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~--~~~~~~~~l---------------------~~L~~L~l~~   58 (128)
                      +|++|++++|.+..++. .+..+++|+++++++|.+..  ..+..+..+                     ++|+.|++++
T Consensus       122 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~  201 (330)
T 1xku_A          122 TLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDG  201 (330)
T ss_dssp             TCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTT
T ss_pred             cccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCC
Confidence            45666666666654432 34555555555555555432  223333333                     4556666666


Q ss_pred             CCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           59 GTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        59 ~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+.+..+..+..+++|+.+++++|.+.+..+..+..+++|+++++++|.+. .+|..+..+++|+++++
T Consensus       202 n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l  270 (330)
T 1xku_A          202 NKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYL  270 (330)
T ss_dssp             SCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEEC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEEC
Confidence            6666655677778888888888888877666667788888889999888865 56777888888887764

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.68  E-value=8.1e-16  Score=97.12  Aligned_cols=115  Identities=21%  Similarity=0.255  Sum_probs=60.1

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.+..++. +..+++|+.|++++|.+.+. +. +.. ++|+.|++++|.+.+.  +.+..+++|+.+++++
T Consensus        64 ~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N~l~~l-~~-~~~-~~L~~L~L~~N~l~~~--~~l~~l~~L~~L~Ls~  137 (263)
T 1xeu_A           64 NLKELHLSHNQISDLSP-LKDLTKLEELSVNRNRLKNL-NG-IPS-ACLSRLFLDNNELRDT--DSLIHLKNLEILSIRN  137 (263)
T ss_dssp             TCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSCCSCC-TT-CCC-SSCCEEECCSSCCSBS--GGGTTCTTCCEEECTT
T ss_pred             CCCEEECCCCccCCChh-hccCCCCCEEECCCCccCCc-Cc-ccc-CcccEEEccCCccCCC--hhhcCcccccEEECCC
Confidence            34444444444444433 44444444444444443322 11 111 4445555555444432  2456667777777777


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      |.+.+ ++ .+..+++|++|++++|.+.+.  ..+..+++|+.++
T Consensus       138 N~i~~-~~-~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L~~L~  178 (263)
T 1xeu_A          138 NKLKS-IV-MLGFLSKLEVLDLHGNEITNT--GGLTRLKKVNWID  178 (263)
T ss_dssp             SCCCB-CG-GGGGCTTCCEEECTTSCCCBC--TTSTTCCCCCEEE
T ss_pred             CcCCC-Ch-HHccCCCCCEEECCCCcCcch--HHhccCCCCCEEe
Confidence            76544 33 466677777777777776554  4466666666654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.68  E-value=3.5e-16  Score=90.84  Aligned_cols=104  Identities=17%  Similarity=0.116  Sum_probs=90.3

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc-chhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE-LSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++.+ ..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+. .+..++.+++|++++
T Consensus        41 l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~  119 (149)
T 2je0_A           41 FEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLD  119 (149)
T ss_dssp             CTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEE
T ss_pred             cCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEe
Confidence            46899999999999977 6788899999999999998887888788899999999999998774 347788999999999


Q ss_pred             ecCCcccCcch---HHhhcCCCCcEEeee
Q 040556           80 LKDWQYLSSLP---STINGLKSLKILNLS  105 (128)
Q Consensus        80 l~~~~~~~~~~---~~~~~~~~L~~l~l~  105 (128)
                      +++|.+.+..+   ..+..+++|++++++
T Consensus       120 l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          120 LFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            99998776544   468889999999875

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

Probab=99.68  E-value=4.2e-16  Score=100.69  Aligned_cols=123  Identities=16%  Similarity=0.101  Sum_probs=91.9

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhh-cccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++|++|++++|.+..++. .+..+++|++|++++|.+.+..+..+ ..+++|+.|++++|.+... + ....+++|++++
T Consensus       120 ~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~-~-~~~~l~~L~~L~  197 (317)
T 3o53_A          120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV-K-GQVVFAKLKTLD  197 (317)
T ss_dssp             SSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE-E-CCCCCTTCCEEE
T ss_pred             CCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccc-c-cccccccCCEEE
Confidence            467777777777776543 66778888888888888777666655 3678888888888877654 2 223478889999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|.+.+ +|..+..+++|+++++++|.+. .+|..+..+++|+.+++
T Consensus       198 Ls~N~l~~-l~~~~~~l~~L~~L~L~~N~l~-~l~~~~~~l~~L~~L~l  244 (317)
T 3o53_A          198 LSSNKLAF-MGPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDL  244 (317)
T ss_dssp             CCSSCCCE-ECGGGGGGTTCSEEECTTSCCC-EECTTCCCCTTCCEEEC
T ss_pred             CCCCcCCc-chhhhcccCcccEEECcCCccc-chhhHhhcCCCCCEEEc
Confidence            98887654 5555888889999999998876 46777888888888764

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

Probab=99.68  E-value=3e-16  Score=106.67  Aligned_cols=123  Identities=17%  Similarity=0.117  Sum_probs=89.3

Q ss_pred             CCCcEEEecCCCCCCc-chhhhccCcccEEeccCCCCcccchhhhc-ccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNISCLSNFIS-ALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++|+.|++++|.+..+ +..+..+++|++|++++|.+.+..|..+. .+++|+.|++++|.+.+..  ....+++|+.++
T Consensus       120 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~--~~~~l~~L~~L~  197 (487)
T 3oja_A          120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVK--GQVVFAKLKTLD  197 (487)
T ss_dssp             SSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEE--CCCCCTTCCEEE
T ss_pred             CCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCcccccc--ccccCCCCCEEE
Confidence            4567777777777754 44666778888888888887776666664 6778888888887776542  223577888888


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|.+.+ +|+.+..+++|+.+++++|.+.+ +|..++.+++|+.+++
T Consensus       198 Ls~N~l~~-~~~~~~~l~~L~~L~Ls~N~l~~-lp~~l~~l~~L~~L~l  244 (487)
T 3oja_A          198 LSSNKLAF-MGPEFQSAAGVTWISLRNNKLVL-IEKALRFSQNLEHFDL  244 (487)
T ss_dssp             CCSSCCCE-ECGGGGGGTTCSEEECTTSCCCE-ECTTCCCCTTCCEEEC
T ss_pred             CCCCCCCC-CCHhHcCCCCccEEEecCCcCcc-cchhhccCCCCCEEEc
Confidence            88887665 44557788888899998888764 6777788888887764

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.68  E-value=4.8e-16  Score=92.66  Aligned_cols=105  Identities=18%  Similarity=0.097  Sum_probs=88.5

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      +.++++++.++.+|..+.  +++++|++++|.+.+..|..+..+++|+.|++++|++.+..+..+..+++|+++++++|.
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 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc
Confidence            578889999988887653  789999999999888888888999999999999998887655567889999999999998


Q ss_pred             ccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           85 YLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        85 ~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +.+..+..+..+++|+++++++|.+..
T Consensus        93 l~~l~~~~~~~l~~L~~L~L~~N~~~c  119 (174)
T 2r9u_A           93 LKSIPRGAFDNLKSLTHIYLYNNPWDC  119 (174)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSSCBCT
T ss_pred             cceeCHHHhccccCCCEEEeCCCCccc
Confidence            776555558889999999999998654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.67  E-value=2.1e-16  Score=111.83  Aligned_cols=108  Identities=24%  Similarity=0.231  Sum_probs=91.6

Q ss_pred             cchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcC
Q 040556           17 LPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGL   96 (128)
Q Consensus        17 ~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~   96 (128)
                      .+..+..++.|+.|++++|.+. .+|..+..+++|+.|++++|.+. .+|..++.+++|++|++++|.+. .+|..++.+
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l  292 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSC  292 (727)
T ss_dssp             ------CCCCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCS-SCCSSGGGG
T ss_pred             ChhhhccCCCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCC-ccChhhcCC
Confidence            3556778899999999999966 66666778999999999999888 78888999999999999999977 779889999


Q ss_pred             CCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           97 KSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        97 ~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|++|++++|.+. .+|..++.+++|++|++
T Consensus       293 ~~L~~L~L~~N~l~-~lp~~~~~l~~L~~L~L  323 (727)
T 4b8c_D          293 FQLKYFYFFDNMVT-TLPWEFGNLCNLQFLGV  323 (727)
T ss_dssp             TTCSEEECCSSCCC-CCCSSTTSCTTCCCEEC
T ss_pred             CCCCEEECCCCCCC-ccChhhhcCCCccEEeC
Confidence            99999999999865 77888999999999875

>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=1.2e-15  Score=106.04  Aligned_cols=119  Identities=25%  Similarity=0.260  Sum_probs=54.3

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc----------------
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL----------------   65 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~----------------   65 (128)
                      ++|+.|++++|.+..++. +..+++|+.|++++|.+... + .+..+++|+.|++++|.+....                
T Consensus        65 ~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l-~-~l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N  141 (605)
T 1m9s_A           65 PNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDENKIKDL-S-SLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNN  141 (605)
T ss_dssp             TTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCC-T-TSTTCTTCCEEECTTSCCCCCGGGGGCTTCSEEECCSS
T ss_pred             CCCCEEEeeCCCCCCChh-hccCCCCCEEECcCCCCCCC-h-hhccCCCCCEEEecCCCCCCCccccCCCccCEEECCCC
Confidence            445555555555554443 44455555555555543321 1 2344444444444444433210                


Q ss_pred             ----hhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           66 ----SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        66 ----~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                          ...+..+++|+.|++++|.+.+..|  +..+++|++|++++|.+.+.  +.+..+++|+.|+
T Consensus       142 ~l~~l~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~i~~l--~~l~~l~~L~~L~  203 (605)
T 1m9s_A          142 KITDITVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISDL--RALAGLKNLDVLE  203 (605)
T ss_dssp             CCCCCGGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCBC--GGGTTCTTCSEEE
T ss_pred             ccCCchhhcccCCCCEEECcCCcCCCchh--hccCCCCCEEECcCCCCCCC--hHHccCCCCCEEE
Confidence                0234444455555555544433322  44455555555555554332  2345555555544

>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=1.2e-15  Score=106.06  Aligned_cols=105  Identities=30%  Similarity=0.319  Sum_probs=86.0

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.+..++ .+..+++|+.|++++|.+.+.  ..+..+++|+.|++++|.+.+..+  +..+++|+.|++
T Consensus       108 l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~l~~l--~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~L  182 (605)
T 1m9s_A          108 LKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYL  182 (605)
T ss_dssp             CTTCCEEECTTSCCCCCG-GGGGCTTCSEEECCSSCCCCC--GGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCCEEEC
T ss_pred             CCCCCEEEecCCCCCCCc-cccCCCccCEEECCCCccCCc--hhhcccCCCCEEECcCCcCCCchh--hccCCCCCEEEC
Confidence            456778888888777654 577788899999998887665  457889999999999998877555  889999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      ++|.+.. ++ .+..+++|+.|++++|.+.+.
T Consensus       183 s~N~i~~-l~-~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          183 SKNHISD-LR-ALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             CSSCCCB-CG-GGTTCTTCSEEECCSEEEECC
T ss_pred             cCCCCCC-Ch-HHccCCCCCEEEccCCcCcCC
Confidence            9998665 44 588999999999999997664

>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=99.67  E-value=6e-16  Score=106.58  Aligned_cols=120  Identities=18%  Similarity=0.084  Sum_probs=104.5

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      .++++++++.++++|..+.  +++++|++++|.+.+..+..+..+++|++|++++|.+.+..|..++.+++|++|++++|
T Consensus        33 ~~~l~ls~~~L~~ip~~~~--~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N  110 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDLP--PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHN  110 (562)
T ss_dssp             CCEEECTTSCCCSCCTTSC--TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTS
T ss_pred             CcEEEcCCCCCccCCCCCC--CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCC
Confidence            4689999999999987654  79999999999988888888999999999999999998887888999999999999999


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCC-CCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLE-NVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~-~~~~~~~~~~~L~~l~l  128 (128)
                      .+. .+|..  .+++|++|++++|.+.+ ..|..++++++|+++++
T Consensus       111 ~l~-~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L  153 (562)
T 3a79_B          111 RLQ-NISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGL  153 (562)
T ss_dssp             CCC-EECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEE
T ss_pred             cCC-ccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEec
Confidence            865 56665  78999999999999876 45678999999998864

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.66  E-value=8.9e-17  Score=100.00  Aligned_cols=125  Identities=14%  Similarity=0.077  Sum_probs=64.8

Q ss_pred             CCCcEEEecCCC-CCCcch-hhhccCcccEEeccC-CCCcccchhhhcccccCCEEecCCCCCc----------------
Q 040556            2 KFLQELLLDGTD-IKGLPL-SIVLLSGIVQLDLKG-CKNISCLSNFISALKFLSTLNLSDGTAI----------------   62 (128)
Q Consensus         2 ~~L~~l~l~~~~-~~~~~~-~~~~l~~L~~l~l~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~~----------------   62 (128)
                      ++|++|++++|. ++.++. .+..+++|++|++++ |.+....+..+..+++|+.|++++|.+.                
T Consensus        55 ~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~  134 (239)
T 2xwt_C           55 PNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFI  134 (239)
T ss_dssp             TTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEE
T ss_pred             CCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCccccccccccccccccE
Confidence            456666666664 555543 455566666666665 5544444444555555555555555443                


Q ss_pred             ----------ccchhhhhhcCCCc-EEeecCCcccCcchHHhhcCCCCcEEeeecCC-CCCCCCcCcCCC-CCCCccc
Q 040556           63 ----------RELSLSVELLTGLV-VLNLKDWQYLSSLPSTINGLKSLKILNLSSCS-KLENVPENLGKV-ESLEELD  127 (128)
Q Consensus        63 ----------~~~~~~~~~l~~L~-~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~-~~L~~l~  127 (128)
                                ...+..+..+++|+ .+++++|.+. .+|......++|+++++++|. +.+..+..++.+ ++|+.++
T Consensus       135 L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~-~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~  211 (239)
T 2xwt_C          135 LEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFT-SVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLD  211 (239)
T ss_dssp             EEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCC-EECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEE
T ss_pred             EECCCCcchhhcCcccccchhcceeEEEcCCCCCc-ccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEE
Confidence                      32233345555555 5555555543 333322222556666666653 443333445555 5565554

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

Probab=99.66  E-value=1.3e-15  Score=98.90  Aligned_cols=122  Identities=19%  Similarity=0.184  Sum_probs=77.1

Q ss_pred             CCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.+..++ ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.. +|..+.  ++|+++++
T Consensus        54 ~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-l~~~~~--~~L~~L~l  130 (332)
T 2ft3_A           54 PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVE-IPPNLP--SSLVELRI  130 (332)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCCS-CCSSCC--TTCCEEEC
T ss_pred             CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCCc-cCcccc--ccCCEEEC
Confidence            35667777777776553 356677777777777777666666667777777777777766553 333332  56777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCC--CCCcCcCCCCCCCccc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLE--NVPENLGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~--~~~~~~~~~~~L~~l~  127 (128)
                      ++|.+....+..+.++++|+++++++|.+..  ..+..++.+ +|++++
T Consensus       131 ~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~  178 (332)
T 2ft3_A          131 HDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLR  178 (332)
T ss_dssp             CSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCB
T ss_pred             CCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEE
Confidence            7776555444556677777777777777642  334444444 444443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.66  E-value=1.5e-15  Score=95.94  Aligned_cols=118  Identities=19%  Similarity=0.211  Sum_probs=97.4

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.++ .+..+++|++|++++|.+.+..+  +..+++|+.|++++|.+.+. +. +.. ++|+++++
T Consensus        40 l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~N~l~~l-~~-~~~-~~L~~L~L  113 (263)
T 1xeu_A           40 LSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNRNRLKNL-NG-IPS-ACLSRLFL  113 (263)
T ss_dssp             HTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCSSCCSCC-TT-CCC-SSCCEEEC
T ss_pred             cCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCCCccCCc-Cc-ccc-CcccEEEc
Confidence            367899999999999887 78889999999999999766555  88999999999999988763 32 223 88999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+ ++ .+..+++|++|++++|.+.+. + .++.+++|+.+++
T Consensus       114 ~~N~l~~-~~-~l~~l~~L~~L~Ls~N~i~~~-~-~l~~l~~L~~L~L  157 (263)
T 1xeu_A          114 DNNELRD-TD-SLIHLKNLEILSIRNNKLKSI-V-MLGFLSKLEVLDL  157 (263)
T ss_dssp             CSSCCSB-SG-GGTTCTTCCEEECTTSCCCBC-G-GGGGCTTCCEEEC
T ss_pred             cCCccCC-Ch-hhcCcccccEEECCCCcCCCC-h-HHccCCCCCEEEC
Confidence            9998665 34 588999999999999997664 3 5788899988865

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.66  E-value=3.4e-16  Score=100.80  Aligned_cols=124  Identities=20%  Similarity=0.193  Sum_probs=59.4

Q ss_pred             CCcEEEecCCCCCC-cc----hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc--ch--hhhhhcC
Q 040556            3 FLQELLLDGTDIKG-LP----LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE--LS--LSVELLT   73 (128)
Q Consensus         3 ~L~~l~l~~~~~~~-~~----~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~~--~~~~~l~   73 (128)
                      +|++|++++|.+.. .+    ..+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+.  .+  ..++.++
T Consensus       118 ~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~  197 (310)
T 4glp_A          118 ALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFP  197 (310)
T ss_dssp             CCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSC
T ss_pred             CCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCC
Confidence            44555555555442 11    1223355556666665555454445555555666666666554331  11  1123455


Q ss_pred             CCcEEeecCCcccCcchH----HhhcCCCCcEEeeecCCCCCCCCcCcCCC---CCCCccc
Q 040556           74 GLVVLNLKDWQYLSSLPS----TINGLKSLKILNLSSCSKLENVPENLGKV---ESLEELD  127 (128)
Q Consensus        74 ~L~~l~l~~~~~~~~~~~----~~~~~~~L~~l~l~~n~~~~~~~~~~~~~---~~L~~l~  127 (128)
                      +|+++++++|.+.. ++.    .+..+++|++|++++|.+.+..|..++.+   ++|++++
T Consensus       198 ~L~~L~Ls~N~l~~-l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~  257 (310)
T 4glp_A          198 AIQNLALRNTGMET-PTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLN  257 (310)
T ss_dssp             CCCSCBCCSSCCCC-HHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEE
T ss_pred             CCCEEECCCCCCCc-hHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEE
Confidence            55555555555431 121    13445555666666555555444444444   3555444

>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=99.65  E-value=3.4e-15  Score=100.84  Aligned_cols=116  Identities=22%  Similarity=0.220  Sum_probs=57.8

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.+..++. +..+++|+.|++++|.+.+..+  +..+++|+.|++++|.+.+..+  +..+++|+.+++++
T Consensus       266 ~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~  340 (466)
T 1o6v_A          266 KLTELKLGANQISNISP-LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYN  340 (466)
T ss_dssp             TCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCSCCGG--GGGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCS
T ss_pred             CCCEEECCCCccCcccc-ccCCCccCeEEcCCCcccCchh--hcCCCCCCEEECcCCcCCCchh--hccCccCCEeECCC
Confidence            34444444444443332 3444455555555554333322  4445555555555555444322  44555555555555


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      |.+.+.  ..+..+++|+++++++|.+.+..|  +..+++|+.++
T Consensus       341 n~l~~~--~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~  381 (466)
T 1o6v_A          341 NKVSDV--SSLANLTNINWLSAGHNQISDLTP--LANLTRITQLG  381 (466)
T ss_dssp             SCCCCC--GGGTTCTTCCEEECCSSCCCBCGG--GTTCTTCCEEE
T ss_pred             CccCCc--hhhccCCCCCEEeCCCCccCccch--hhcCCCCCEEe
Confidence            554432  235556666666666666555433  55566665554

>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=99.65  E-value=7.3e-16  Score=99.94  Aligned_cols=128  Identities=24%  Similarity=0.267  Sum_probs=101.2

Q ss_pred             CCCCcEEEecCC-CCC--CcchhhhccCcccEEeccCC-CCccc-chhhhcccc-cCCEEecCCC--CCc-ccchhhhhh
Q 040556            1 MKFLQELLLDGT-DIK--GLPLSIVLLSGIVQLDLKGC-KNISC-LSNFISALK-FLSTLNLSDG--TAI-RELSLSVEL   71 (128)
Q Consensus         1 l~~L~~l~l~~~-~~~--~~~~~~~~l~~L~~l~l~~~-~~~~~-~~~~~~~l~-~L~~L~l~~~--~~~-~~~~~~~~~   71 (128)
                      +++|++|++++| .++  .++..+..+++|++|++++| .+.+. .+..+..++ +|+.|++++|  .+. ..++..+..
T Consensus       141 ~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~  220 (336)
T 2ast_B          141 NSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRR  220 (336)
T ss_dssp             CTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHH
T ss_pred             CCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhh
Confidence            478999999999 677  36667888999999999999 76654 566678899 9999999998  444 456677788


Q ss_pred             cCCCcEEeecCCc-ccCcchHHhhcCCCCcEEeeecCC-CCCCCCcCcCCCCCCCcccC
Q 040556           72 LTGLVVLNLKDWQ-YLSSLPSTINGLKSLKILNLSSCS-KLENVPENLGKVESLEELDI  128 (128)
Q Consensus        72 l~~L~~l~l~~~~-~~~~~~~~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++|+.+++++|. +....+..+..+++|++|++++|. +.......++.+++|+.+++
T Consensus       221 ~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l  279 (336)
T 2ast_B          221 CPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQV  279 (336)
T ss_dssp             CTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEEC
T ss_pred             CCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEec
Confidence            9999999999998 555667788899999999999985 22222235778888888864

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

Probab=99.65  E-value=9.9e-16  Score=99.39  Aligned_cols=121  Identities=15%  Similarity=0.169  Sum_probs=103.3

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +++.++++++.++.+|..+  .++++.|++++|.+.+..+..+..+++|++|++++|.+.+..+..++.+++|+++++++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  111 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI--SPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISK  111 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC--CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCS
T ss_pred             cCCEEECCCCCccccCCCC--CCCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCC
Confidence            5788999999998888655  36899999999998877777899999999999999999888888999999999999999


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+. .+|..+.  ++|+++++++|.+.+..+..++.+++|+++++
T Consensus       112 n~l~-~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l  154 (332)
T 2ft3_A          112 NHLV-EIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEM  154 (332)
T ss_dssp             SCCC-SCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEEC
T ss_pred             CcCC-ccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEEC
Confidence            9865 5555443  78999999999987765666889999998864

>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=99.65  E-value=2e-15  Score=98.30  Aligned_cols=118  Identities=20%  Similarity=0.172  Sum_probs=72.0

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      |+.+++++|.+..++. +..+++|++|++++|.+....+  +..+++|+.|++++|.+...  +.+..+++|+++++++|
T Consensus       201 L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~l~~n  275 (347)
T 4fmz_A          201 LHYFTAYVNQITDITP-VANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISDI--NAVKDLTKLKMLNVGSN  275 (347)
T ss_dssp             CCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSS
T ss_pred             cceeecccCCCCCCch-hhcCCcCCEEEccCCccCCCcc--hhcCCCCCEEECCCCccCCC--hhHhcCCCcCEEEccCC
Confidence            3444444444443322 4555666666666666444333  55666777777776665542  34566777777777777


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+...  +.+..+++|+++++++|.+.+..+..++.+++|+++++
T Consensus       276 ~l~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L  318 (347)
T 4fmz_A          276 QISDI--SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFL  318 (347)
T ss_dssp             CCCCC--GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEEC
T ss_pred             ccCCC--hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEc
Confidence            65443  34667777777777777776666666777777777654

>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=99.63  E-value=8.8e-15  Score=98.83  Aligned_cols=117  Identities=19%  Similarity=0.196  Sum_probs=64.0

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.+..++. +..+++|+.|++++|.+.+..+  +..+++|+.|++++|.+.+..+  ++.+++|+.+++++
T Consensus       244 ~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~L~~  318 (466)
T 1o6v_A          244 NLTDLDLANNQISNLAP-LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYF  318 (466)
T ss_dssp             TCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG--GGGCTTCSEEECCS
T ss_pred             CCCEEECCCCccccchh-hhcCCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh--hcCCCCCCEEECcC
Confidence            44445555544443332 4445555555555555443322  4455566666666655544322  45566666666666


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+.+..|  +..+++|+++++++|.+.+.  +.++.+++|+.+++
T Consensus       319 n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~l  360 (466)
T 1o6v_A          319 NNISDISP--VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLSA  360 (466)
T ss_dssp             SCCSCCGG--GGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEEC
T ss_pred             CcCCCchh--hccCccCCEeECCCCccCCc--hhhccCCCCCEEeC
Confidence            66554433  55666677777776665543  34666677766653

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.63  E-value=7.9e-16  Score=99.09  Aligned_cols=125  Identities=17%  Similarity=0.139  Sum_probs=86.3

Q ss_pred             CCCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCccc--ch--hhhcccccCCEEecCCCCCccc--chh-hhhhc
Q 040556            1 MKFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISC--LS--NFISALKFLSTLNLSDGTAIRE--LSL-SVELL   72 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~--~~--~~~~~l~~L~~L~l~~~~~~~~--~~~-~~~~l   72 (128)
                      +++|++|++++|.+..++ ..+..+++|++|++++|.+.+.  .+  ..+..+++|++|++++|.+...  .+. .++.+
T Consensus       144 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l  223 (310)
T 4glp_A          144 KPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAG  223 (310)
T ss_dssp             CSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHT
T ss_pred             ccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcC
Confidence            467889999999988654 5677888999999999986543  22  2235678888888888877532  111 24567


Q ss_pred             CCCcEEeecCCcccCcchHHhhcC---CCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           73 TGLVVLNLKDWQYLSSLPSTINGL---KSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        73 ~~L~~l~l~~~~~~~~~~~~~~~~---~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|+++++++|.+.+..|..+..+   ++|++|++++|.+. .+|..+.  ++|+++++
T Consensus       224 ~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~L  279 (310)
T 4glp_A          224 VQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDL  279 (310)
T ss_dssp             CCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEEC
T ss_pred             CCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc--CCCCEEEC
Confidence            888888888888776666666655   57888888877765 4555443  56665553

>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=99.63  E-value=8.1e-18  Score=102.12  Aligned_cols=123  Identities=22%  Similarity=0.232  Sum_probs=87.6

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.+| .+..+++|++|++++|.+. ..|..+..+++|+.|++++|.+.+ ++ .++.+++|+++++
T Consensus        47 l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~L~~N~l~~-l~-~~~~l~~L~~L~l  122 (198)
T 1ds9_A           47 LKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIAS-LS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             TTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEEC-SCSSHHHHHHHCSEEEEEEEECCC-HH-HHHHHHHSSEEEE
T ss_pred             CCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcc-cccchhhcCCcCCEEECcCCcCCc-CC-ccccCCCCCEEEC
Confidence            356788888888887777 7777888888888888754 456556667788888888877665 33 5777788888888


Q ss_pred             cCCcccCcch-HHhhcCCCCcEEeeecCCCCCCCCcC----------cCCCCCCCccc
Q 040556           81 KDWQYLSSLP-STINGLKSLKILNLSSCSKLENVPEN----------LGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~----------~~~~~~L~~l~  127 (128)
                      ++|.+....+ ..+..+++|+++++++|.+.+..|..          +..+++|+.+|
T Consensus       123 ~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          123 SNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             SEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             CCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            8887554222 35777888888888888765554432          56677777664

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

Probab=99.63  E-value=1.1e-15  Score=103.82  Aligned_cols=122  Identities=14%  Similarity=-0.019  Sum_probs=94.3

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhh-hcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVE-LLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~l~l   80 (128)
                      ++|++|++++|.+..++.  ..+++|+.|++++|.+.+..|..+..+++|+.|++++|.+.+..|..+. .+++|+.|++
T Consensus        99 ~~L~~L~L~~N~l~~~~~--~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~L  176 (487)
T 3oja_A           99 PSIETLHAANNNISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL  176 (487)
T ss_dssp             TTCCEEECCSSCCCCEEE--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEEC
T ss_pred             CCcCEEECcCCcCCCCCc--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEec
Confidence            345666666666665443  2467889999999998888787888899999999999998887777765 6889999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+.+. +. ...+++|++|++++|.+.+ +|+.++.+++|+.+++
T Consensus       177 s~N~l~~~-~~-~~~l~~L~~L~Ls~N~l~~-~~~~~~~l~~L~~L~L  221 (487)
T 3oja_A          177 QYNFIYDV-KG-QVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISL  221 (487)
T ss_dssp             TTSCCCEE-EC-CCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEEC
T ss_pred             CCCccccc-cc-cccCCCCCEEECCCCCCCC-CCHhHcCCCCccEEEe
Confidence            99986654 32 3468899999999999776 4555888888888775

>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=99.61  E-value=8.7e-16  Score=101.48  Aligned_cols=16  Identities=13%  Similarity=0.067  Sum_probs=6.7

Q ss_pred             hhccCcccEEeccCCC
Q 040556           21 IVLLSGIVQLDLKGCK   36 (128)
Q Consensus        21 ~~~l~~L~~l~l~~~~   36 (128)
                      +..+++|++|++++|.
T Consensus       118 l~~~~~L~~L~L~~n~  133 (386)
T 2ca6_A          118 LSKHTPLEHLYLHNNG  133 (386)
T ss_dssp             HHHCTTCCEEECCSSC
T ss_pred             HHhCCCCCEEECcCCC
Confidence            3334444444444444

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

Probab=99.60  E-value=3.5e-15  Score=96.39  Aligned_cols=122  Identities=14%  Similarity=-0.019  Sum_probs=92.1

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhh-hhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSV-ELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~-~~l~~L~~l~l   80 (128)
                      ++|++|++++|.+..++.  ..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+ ..+++|+++++
T Consensus        99 ~~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L  176 (317)
T 3o53_A           99 PSIETLHAANNNISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL  176 (317)
T ss_dssp             TTCCEEECCSSCCSEEEE--CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEEC
T ss_pred             CCcCEEECCCCccCCcCc--cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEEC
Confidence            356666666666664432  236788999999998877777778888999999999998887666655 36889999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|.+... +. ...+++|+++++++|.+.+ ++..+..+++|+.+++
T Consensus       177 ~~N~l~~~-~~-~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~L  221 (317)
T 3o53_A          177 QYNFIYDV-KG-QVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISL  221 (317)
T ss_dssp             TTSCCCEE-EC-CCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEEC
T ss_pred             CCCcCccc-cc-ccccccCCEEECCCCcCCc-chhhhcccCcccEEEC
Confidence            99986554 32 3357889999999998765 4556888888888875

>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=99.60  E-value=6.4e-15  Score=87.79  Aligned_cols=105  Identities=15%  Similarity=0.164  Sum_probs=88.9

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchh--hhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSL--SVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~--~~~~l~~L~~l~   79 (128)
                      ++|++|++++|.++.+ ..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.. .+.  .+..+++|+.++
T Consensus        42 ~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~-~~~~~~l~~l~~L~~L~  119 (176)
T 1a9n_A           42 DQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVE-LGDLDPLASLKSLTYLC  119 (176)
T ss_dssp             TCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCC-GGGGGGGGGCTTCCEEE
T ss_pred             CCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCcCCc-chhhHhhhcCCCCCEEE
Confidence            4799999999999977 578889999999999999776655556889999999999998854 444  788899999999


Q ss_pred             ecCCcccCcchH----HhhcCCCCcEEeeecCCC
Q 040556           80 LKDWQYLSSLPS----TINGLKSLKILNLSSCSK  109 (128)
Q Consensus        80 l~~~~~~~~~~~----~~~~~~~L~~l~l~~n~~  109 (128)
                      +++|.+.. +|.    .+..+++|+++++++|..
T Consensus       120 l~~N~i~~-~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A          120 ILRNPVTN-KKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             CCSSGGGG-STTHHHHHHHHCTTCSEETTEECCH
T ss_pred             ecCCCCCC-cHhHHHHHHHHCCccceeCCCcCCH
Confidence            99998764 455    488999999999998875

>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=99.58  E-value=2.2e-15  Score=99.53  Aligned_cols=127  Identities=14%  Similarity=0.113  Sum_probs=84.0

Q ss_pred             CCCcEEEecCCCCC--Ccc---hhhhccCcccEEeccCCCCcc-----cchhhhcccccCCEEecCCCCCc----ccchh
Q 040556            2 KFLQELLLDGTDIK--GLP---LSIVLLSGIVQLDLKGCKNIS-----CLSNFISALKFLSTLNLSDGTAI----RELSL   67 (128)
Q Consensus         2 ~~L~~l~l~~~~~~--~~~---~~~~~l~~L~~l~l~~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~----~~~~~   67 (128)
                      ++|++|++++|.+.  .++   ..+..+++|++|++++|.+..     ..+..+..+++|+.|++++|.+.    ..++.
T Consensus       159 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~  238 (386)
T 2ca6_A          159 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAI  238 (386)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHH
T ss_pred             CCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHH
Confidence            56777777777775  233   345567778888888777652     23325667777888888887764    44566


Q ss_pred             hhhhcCCCcEEeecCCcccCc----chHHhhc--CCCCcEEeeecCCCCC----CCCcCc-CCCCCCCcccC
Q 040556           68 SVELLTGLVVLNLKDWQYLSS----LPSTING--LKSLKILNLSSCSKLE----NVPENL-GKVESLEELDI  128 (128)
Q Consensus        68 ~~~~l~~L~~l~l~~~~~~~~----~~~~~~~--~~~L~~l~l~~n~~~~----~~~~~~-~~~~~L~~l~l  128 (128)
                      .+..+++|++|++++|.+...    ++..+..  +++|++|++++|.+.+    .+|..+ .++++|+++++
T Consensus       239 ~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l  310 (386)
T 2ca6_A          239 ALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLEL  310 (386)
T ss_dssp             HGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEEC
T ss_pred             HHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEc
Confidence            677777788888887776554    4455533  6778888888777665    355555 45677776653

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

Probab=99.56  E-value=4.2e-14  Score=95.53  Aligned_cols=113  Identities=22%  Similarity=0.184  Sum_probs=76.2

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.++++| .+..+++|++|++++|.+.+. |  +..+++|++|++++|.+.+. +  ++.+++|++++++
T Consensus        42 ~~L~~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~~-~--~~~l~~L~~L~Ls~N~l~~~-~--~~~l~~L~~L~L~  114 (457)
T 3bz5_A           42 ATLTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTL-D--LSQNTNLTYLACDSNKLTNL-D--VTPLTKLTYLNCD  114 (457)
T ss_dssp             TTCCEEECCSSCCCCCT-TGGGCTTCSEEECCSSCCSCC-C--CTTCTTCSEEECCSSCCSCC-C--CTTCTTCCEEECC
T ss_pred             CCCCEEEccCCCcccCh-hhcccCCCCEEEccCCcCCeE-c--cccCCCCCEEECcCCCCcee-e--cCCCCcCCEEECC
Confidence            56788888888887765 577778888888888876554 3  66777788888877776653 2  5667777777777


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +|.+.+ ++  ++.+++|+++++++|.+.+. +  ++.+++|++++
T Consensus       115 ~N~l~~-l~--~~~l~~L~~L~l~~N~l~~l-~--l~~l~~L~~L~  154 (457)
T 3bz5_A          115 TNKLTK-LD--VSQNPLLTYLNCARNTLTEI-D--VSHNTQLTELD  154 (457)
T ss_dssp             SSCCSC-CC--CTTCTTCCEEECTTSCCSCC-C--CTTCTTCCEEE
T ss_pred             CCcCCe-ec--CCCCCcCCEEECCCCcccee-c--cccCCcCCEEE
Confidence            776554 33  56667777777777765542 2  44455555443

>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=99.56  E-value=2.1e-15  Score=101.37  Aligned_cols=126  Identities=17%  Similarity=0.118  Sum_probs=61.3

Q ss_pred             CCCcEEEecCCCCCC-----cchhhhccCcccEEeccCCCCcccchhhhcc-----cccCCEEecCCCCCccc----chh
Q 040556            2 KFLQELLLDGTDIKG-----LPLSIVLLSGIVQLDLKGCKNISCLSNFISA-----LKFLSTLNLSDGTAIRE----LSL   67 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~-----~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~-----l~~L~~L~l~~~~~~~~----~~~   67 (128)
                      ++|++|++++|.++.     ++..+..+++|++|++++|.+....+..+..     .++|+.|++++|.+...    ++.
T Consensus       256 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~  335 (461)
T 1z7x_W          256 SRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSS  335 (461)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHH
T ss_pred             CCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHH
Confidence            355666666665553     3444555666666666666544332222221     13555555555554432    233


Q ss_pred             hhhhcCCCcEEeecCCcccCcchHHhhc-----CCCCcEEeeecCCCCC----CCCcCcCCCCCCCccc
Q 040556           68 SVELLTGLVVLNLKDWQYLSSLPSTING-----LKSLKILNLSSCSKLE----NVPENLGKVESLEELD  127 (128)
Q Consensus        68 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~-----~~~L~~l~l~~n~~~~----~~~~~~~~~~~L~~l~  127 (128)
                      .+..+++|+++++++|.+....+..+..     .++|++|++++|.+.+    .++..+..+++|++++
T Consensus       336 ~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~  404 (461)
T 1z7x_W          336 VLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELD  404 (461)
T ss_dssp             HHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEE
Confidence            3444555555655555544332222221     3455555555555443    3444444455555544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.55  E-value=1.1e-14  Score=95.52  Aligned_cols=84  Identities=18%  Similarity=0.120  Sum_probs=38.8

Q ss_pred             CcEEEecCCCCCCcc-----hhhhccC-cccEEeccCCCCcccchhhhccc-----ccCCEEecCCCCCcccchhhhhh-
Q 040556            4 LQELLLDGTDIKGLP-----LSIVLLS-GIVQLDLKGCKNISCLSNFISAL-----KFLSTLNLSDGTAIRELSLSVEL-   71 (128)
Q Consensus         4 L~~l~l~~~~~~~~~-----~~~~~l~-~L~~l~l~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~~~~~~~~~-   71 (128)
                      |++|++++|.++..+     ..+..++ +|++|++++|.+....+..+..+     ++|+.|++++|.+.+..+..+.. 
T Consensus        24 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  103 (362)
T 3goz_A           24 VTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKT  103 (362)
T ss_dssp             CCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHH
T ss_pred             ceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHH
Confidence            555555555555332     3334444 45555555555444444333332     45555555555544433332222 


Q ss_pred             ---c-CCCcEEeecCCcccC
Q 040556           72 ---L-TGLVVLNLKDWQYLS   87 (128)
Q Consensus        72 ---l-~~L~~l~l~~~~~~~   87 (128)
                         + ++|+++++++|.+..
T Consensus       104 l~~~~~~L~~L~Ls~N~l~~  123 (362)
T 3goz_A          104 LAAIPFTITVLDLGWNDFSS  123 (362)
T ss_dssp             HHTSCTTCCEEECCSSCGGG
T ss_pred             HHhCCCCccEEECcCCcCCc
Confidence               2 445555555544433

>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=99.55  E-value=3.4e-14  Score=92.66  Aligned_cols=103  Identities=17%  Similarity=0.033  Sum_probs=86.5

Q ss_pred             EEEecCC-CCCCcchhhhccCcccEEeccC-CCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            6 ELLLDGT-DIKGLPLSIVLLSGIVQLDLKG-CKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         6 ~l~l~~~-~~~~~~~~~~~l~~L~~l~l~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      .++.+++ .++.+|. +..+++|+.|++++ |.+.+..+..|..+++|+.|++++|.+.+..+..|..+++|++|++++|
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N   90 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCC
Confidence            4677777 8889998 88899999999996 8877777788999999999999999988888888899999999999999


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      .+.+..+..+..+. |++|++.+|.+.
T Consensus        91 ~l~~~~~~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           91 ALESLSWKTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             CCSCCCSTTTCSCC-CCEEECCSSCCC
T ss_pred             ccceeCHHHcccCC-ceEEEeeCCCcc
Confidence            87654444444444 999999999875

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

Probab=99.54  E-value=7.5e-14  Score=94.28  Aligned_cols=113  Identities=17%  Similarity=0.147  Sum_probs=68.6

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.++  +..+++|++|++++|.+.+. +  +..+++|++|++++|.+.+. +  ++.+++|+++++
T Consensus        63 l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~-~--~~~l~~L~~L~L~~N~l~~l-~--~~~l~~L~~L~l  134 (457)
T 3bz5_A           63 LTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNL-D--VTPLTKLTYLNCDTNKLTKL-D--VSQNPLLTYLNC  134 (457)
T ss_dssp             CTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCC-C--CTTCTTCCEEECCSSCCSCC-C--CTTCTTCCEEEC
T ss_pred             cCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCcee-e--cCCCCcCCEEECCCCcCCee-c--CCCCCcCCEEEC
Confidence            456777788777777664  66677777777777775553 2  56677777777777766552 2  556667777777


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      ++|.+.+. +  ++.+++|+++++++|...+.+  .++.+++|+++
T Consensus       135 ~~N~l~~l-~--l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L  175 (457)
T 3bz5_A          135 ARNTLTEI-D--VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTL  175 (457)
T ss_dssp             TTSCCSCC-C--CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEE
T ss_pred             CCCcccee-c--cccCCcCCEEECCCCCccccc--ccccCCcCCEE
Confidence            77665442 2  445555555555555433333  23444444444

>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=99.54  E-value=6e-14  Score=83.24  Aligned_cols=100  Identities=19%  Similarity=0.114  Sum_probs=83.9

Q ss_pred             cccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeee
Q 040556           26 GIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLS  105 (128)
Q Consensus        26 ~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~  105 (128)
                      ..+.++++++.+.. .|..+  ..+++.|++++|.+.+..+..+..+++|+++++++|.+.+..+..+..+++|++|+++
T Consensus        10 ~~~~l~~s~n~l~~-ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           10 SGTTVDCSGKSLAS-VPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             ETTEEECTTSCCSS-CCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEeCCCCcCc-cCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            35789999998544 55433  3789999999999998888889999999999999999876666667899999999999


Q ss_pred             cCCCCCCCCcCcCCCCCCCcccC
Q 040556          106 SCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus       106 ~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.+.+..+..++.+++|+++++
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L  109 (170)
T 3g39_A           87 DNQLKSIPRGAFDNLKSLTHIWL  109 (170)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCccCEeCHHHhcCCCCCCEEEe
Confidence            99988766667899999998875

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.53  E-value=1.3e-14  Score=95.31  Aligned_cols=109  Identities=17%  Similarity=0.131  Sum_probs=53.4

Q ss_pred             CCcEEEecCCCCCCc-chhhhcc-----CcccEEeccCCCCcccchhhhcc----c-ccCCEEecCCCCCcccchhhhhh
Q 040556            3 FLQELLLDGTDIKGL-PLSIVLL-----SGIVQLDLKGCKNISCLSNFISA----L-KFLSTLNLSDGTAIRELSLSVEL   71 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~-~~~~~~l-----~~L~~l~l~~~~~~~~~~~~~~~----l-~~L~~L~l~~~~~~~~~~~~~~~   71 (128)
                      +|++|++++|.++.. +..+..+     ++|++|++++|.+.+..+..+..    + ++|+.|++++|.+....+..+..
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  131 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQ  131 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHH
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHH
Confidence            566666666666532 3333332     56666666666655444432222    2 55666666666554433333222


Q ss_pred             -----cCCCcEEeecCCcccC----cchHHhhcCC-CCcEEeeecCCCCC
Q 040556           72 -----LTGLVVLNLKDWQYLS----SLPSTINGLK-SLKILNLSSCSKLE  111 (128)
Q Consensus        72 -----l~~L~~l~l~~~~~~~----~~~~~~~~~~-~L~~l~l~~n~~~~  111 (128)
                           ..+|+++++++|.+..    .++..+.... +|++|++++|.+.+
T Consensus       132 ~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  181 (362)
T 3goz_A          132 AFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLAS  181 (362)
T ss_dssp             HHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGG
T ss_pred             HHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCch
Confidence                 1355566665555443    2222333333 55555555555443

>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=99.53  E-value=1.2e-13  Score=95.43  Aligned_cols=102  Identities=17%  Similarity=0.133  Sum_probs=88.3

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~   79 (128)
                      +++|+.|++++|.++.+|..+..+++|+.|++++|.+.+ +| .+..+++|+.|++++|.+.+.. |..++.+++|+.++
T Consensus       462 l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~  539 (567)
T 1dce_A          462 LLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLN  539 (567)
T ss_dssp             GTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEE
T ss_pred             cccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEE
Confidence            468999999999999999999999999999999999776 56 6899999999999999998876 89999999999999


Q ss_pred             ecCCcccCcch---HHhhcCCCCcEEee
Q 040556           80 LKDWQYLSSLP---STINGLKSLKILNL  104 (128)
Q Consensus        80 l~~~~~~~~~~---~~~~~~~~L~~l~l  104 (128)
                      +++|.+.+..+   ..+..+++|+.|++
T Consensus       540 L~~N~l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          540 LQGNSLCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             CTTSGGGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             ecCCcCCCCccHHHHHHHHCcccCccCC
Confidence            99999776533   23445788888863

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.52  E-value=1.1e-13  Score=82.46  Aligned_cols=99  Identities=12%  Similarity=0.071  Sum_probs=82.2

Q ss_pred             ccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeec
Q 040556           27 IVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSS  106 (128)
Q Consensus        27 L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~  106 (128)
                      -+.++++++.+ +..|..+  .++++.|++++|.+.+..+..++.+++|++|++++|.+.+..+..+..+++|++|++++
T Consensus        14 ~~~l~~~~n~l-~~iP~~~--~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           14 QTLVNCQNIRL-ASVPAGI--PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SSEEECCSSCC-SSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CcEEEeCCCCC-CccCCCc--CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            46789999985 5566544  37899999999999888788899999999999999987765555568899999999999


Q ss_pred             CCCCCCCCcCcCCCCCCCcccC
Q 040556          107 CSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus       107 n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+.+..+..++.+++|+++++
T Consensus        91 N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           91 NHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             SCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CccceeCHHHhccccCCCEEEe
Confidence            9987655556899999998875

>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=99.49  E-value=1.3e-15  Score=92.40  Aligned_cols=111  Identities=21%  Similarity=0.196  Sum_probs=90.4

Q ss_pred             CCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHH
Q 040556           13 DIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPST   92 (128)
Q Consensus        13 ~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~   92 (128)
                      .++.+|..+..+++|++|++++|.+.+ .| .+..+++|+.|++++|.+. .+|..+..+++|+.+++++|.+.+ +| .
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 PIEKMDATLSTLKACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIAS-LS-G  110 (198)
T ss_dssp             TCCCCHHHHHHTTTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEEC-SCSSHHHHHHHCSEEEEEEEECCC-HH-H
T ss_pred             cHhhhhHHHhcCCCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcc-cccchhhcCCcCCEEECcCCcCCc-CC-c
Confidence            344556689999999999999998666 55 7888999999999998876 567777778999999999998665 55 5


Q ss_pred             hhcCCCCcEEeeecCCCCCCCC-cCcCCCCCCCcccC
Q 040556           93 INGLKSLKILNLSSCSKLENVP-ENLGKVESLEELDI  128 (128)
Q Consensus        93 ~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l~l  128 (128)
                      +..+++|+++++++|.+.+..+ ..++.+++|+++++
T Consensus       111 ~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l  147 (198)
T 1ds9_A          111 IEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLL  147 (198)
T ss_dssp             HHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEE
T ss_pred             cccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEe
Confidence            8888999999999999765322 35788899988763

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

Probab=99.48  E-value=4e-13  Score=92.87  Aligned_cols=93  Identities=22%  Similarity=0.211  Sum_probs=40.3

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      |++|++++|.++.+|   ..+++|+.|++++|.+.+ +|. +..  +|+.|++++|.+.+ +|.   .+++|+.|++++|
T Consensus        82 L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N  150 (571)
T 3cvr_A           82 ITVLEITQNALISLP---ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLTM-LPE---LPALLEYINADNN  150 (571)
T ss_dssp             CSEEECCSSCCSCCC---CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCSC-CCC---CCTTCCEEECCSS
T ss_pred             CCEEECcCCCCcccc---cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCCC-CCC---cCccccEEeCCCC
Confidence            444444444444444   223444455555444333 332 222  44445554444433 222   2344555555554


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      .+.+ +|.   .+++|++|++++|.+.+
T Consensus       151 ~l~~-lp~---~l~~L~~L~Ls~N~L~~  174 (571)
T 3cvr_A          151 QLTM-LPE---LPTSLEVLSVRNNQLTF  174 (571)
T ss_dssp             CCSC-CCC---CCTTCCEEECCSSCCSC
T ss_pred             ccCc-CCC---cCCCcCEEECCCCCCCC
Confidence            4333 332   33445555555554433

>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=99.46  E-value=5.2e-14  Score=94.63  Aligned_cols=83  Identities=17%  Similarity=0.086  Sum_probs=40.3

Q ss_pred             CCcEEEecCCCCCC-----cchhhhccCcccEEeccCCCCcccch-----hhhcccccCCEEecCCCCCccc----chhh
Q 040556            3 FLQELLLDGTDIKG-----LPLSIVLLSGIVQLDLKGCKNISCLS-----NFISALKFLSTLNLSDGTAIRE----LSLS   68 (128)
Q Consensus         3 ~L~~l~l~~~~~~~-----~~~~~~~l~~L~~l~l~~~~~~~~~~-----~~~~~l~~L~~L~l~~~~~~~~----~~~~   68 (128)
                      +|++|++++|.++.     ++..+..+++|+.|++++|.+.....     ..+..+++|+.|++++|.+...    ++..
T Consensus       200 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~  279 (461)
T 1z7x_W          200 QLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRV  279 (461)
T ss_dssp             CCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHH
T ss_pred             CceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHH
Confidence            45555555555543     24444455556666666555443211     1112345555555555554432    3334


Q ss_pred             hhhcCCCcEEeecCCcc
Q 040556           69 VELLTGLVVLNLKDWQY   85 (128)
Q Consensus        69 ~~~l~~L~~l~l~~~~~   85 (128)
                      +..+++|+++++++|.+
T Consensus       280 l~~~~~L~~L~Ls~n~i  296 (461)
T 1z7x_W          280 LRAKESLKELSLAGNEL  296 (461)
T ss_dssp             HHHCTTCCEEECTTCCC
T ss_pred             HhhCCCcceEECCCCCC
Confidence            44455555555555544

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

Probab=99.45  E-value=3e-13  Score=93.51  Aligned_cols=109  Identities=17%  Similarity=0.177  Sum_probs=49.7

Q ss_pred             CcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            4 LQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         4 L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      |++|++++|.++.+|.   .+++|+.|++++|.+.+ .|.   .+++|+.|++++|.+.+ +|. ++  ++|+.|++++|
T Consensus       122 L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N~L~~-lp~-l~--~~L~~L~Ls~N  190 (571)
T 3cvr_A          122 LKHLDVDNNQLTMLPE---LPALLEYINADNNQLTM-LPE---LPTSLEVLSVRNNQLTF-LPE-LP--ESLEALDVSTN  190 (571)
T ss_dssp             CCEEECCSSCCSCCCC---CCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCSC-CCC-CC--TTCCEEECCSS
T ss_pred             CCEEECCCCcCCCCCC---cCccccEEeCCCCccCc-CCC---cCCCcCEEECCCCCCCC-cch-hh--CCCCEEECcCC
Confidence            3334444444433332   33444444444444332 222   23455555555554443 333 32  45555555555


Q ss_pred             cccCcchHHhhcCCCC-------cEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSL-------KILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L-------~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+. .+|. +..  +|       ++|++++|.+. .+|..+..+++|+.+++
T Consensus       191 ~L~-~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~-~lp~~l~~l~~L~~L~L  237 (571)
T 3cvr_A          191 LLE-SLPA-VPV--RNHHSEETEIFFRCRENRIT-HIPENILSLDPTCTIIL  237 (571)
T ss_dssp             CCS-SCCC-CC----------CCEEEECCSSCCC-CCCGGGGGSCTTEEEEC
T ss_pred             CCC-chhh-HHH--hhhcccccceEEecCCCcce-ecCHHHhcCCCCCEEEe
Confidence            543 3333 222  44       66666666544 34555555666665543

>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=99.45  E-value=6.5e-13  Score=89.66  Aligned_cols=112  Identities=16%  Similarity=0.157  Sum_probs=58.2

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.++.+| .+..+++|++|++++|.+.+ .|..   ..+|++|++++|.+.+ +| .++.+++|+++++++
T Consensus       132 ~L~~L~L~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~-lp~~---~~~L~~L~L~~n~l~~-l~-~~~~l~~L~~L~l~~  204 (454)
T 1jl5_A          132 LLEYLGVSNNQLEKLP-ELQNSSFLKIIDVDNNSLKK-LPDL---PPSLEFIAAGNNQLEE-LP-ELQNLPFLTAIYADN  204 (454)
T ss_dssp             TCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSC-CCCC---CTTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCS
T ss_pred             CCCEEECcCCCCCCCc-ccCCCCCCCEEECCCCcCcc-cCCC---cccccEEECcCCcCCc-Cc-cccCCCCCCEEECCC
Confidence            4556666666665555 35556666666666665443 2321   2355566666555444 23 355566666666666


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      |.+.+ +|..   ..+|+++++++|.+. .+| .++.+++|++++
T Consensus       205 N~l~~-l~~~---~~~L~~L~l~~n~l~-~lp-~~~~l~~L~~L~  243 (454)
T 1jl5_A          205 NSLKK-LPDL---PLSLESIVAGNNILE-ELP-ELQNLPFLTTIY  243 (454)
T ss_dssp             SCCSS-CCCC---CTTCCEEECCSSCCS-SCC-CCTTCTTCCEEE
T ss_pred             CcCCc-CCCC---cCcccEEECcCCcCC-ccc-ccCCCCCCCEEE
Confidence            55443 2221   134555555555543 344 255555555554

>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=99.38  E-value=1.1e-12  Score=85.85  Aligned_cols=105  Identities=10%  Similarity=0.000  Sum_probs=55.4

Q ss_pred             CCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccch-hhhcccccCCE-EecCCCCCcccchhhhhhcCCCcEEe
Q 040556            3 FLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLS-NFISALKFLST-LNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~-~~~~~l~~L~~-L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      ++++|++++|.++.+|. .|..+++|++|++++|.+.+..| ..|..++++.. +.+..|++....+..+..+++|++++
T Consensus        31 ~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~  110 (350)
T 4ay9_X           31 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL  110 (350)
T ss_dssp             TCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEE
T ss_pred             CCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccccccc
Confidence            45566666666665554 35556666666666666544443 24455555543 33344444444455555666666666


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSC  107 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n  107 (128)
                      +++|.+....+..+.+...+..+++.++
T Consensus       111 l~~n~l~~~~~~~~~~~~~l~~l~l~~~  138 (350)
T 4ay9_X          111 ISNTGIKHLPDVHKIHSLQKVLLDIQDN  138 (350)
T ss_dssp             EEEECCSSCCCCTTCCBSSCEEEEEESC
T ss_pred             ccccccccCCchhhcccchhhhhhhccc
Confidence            6666544433333334444555555543

>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=99.36  E-value=4.1e-12  Score=82.83  Aligned_cols=97  Identities=16%  Similarity=0.067  Sum_probs=79.3

Q ss_pred             EEeccCC-CCcccchhhhcccccCCEEecCC-CCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeec
Q 040556           29 QLDLKGC-KNISCLSNFISALKFLSTLNLSD-GTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSS  106 (128)
Q Consensus        29 ~l~l~~~-~~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~  106 (128)
                      .++.+++ . ...+|. +..+++|+.|++++ |.+.+..+..++.+++|++|++++|.+.+..|..+.++++|++|++++
T Consensus        12 ~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           12 GLRCTRDGA-LDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF   89 (347)
T ss_dssp             CEECCSSCC-CTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS
T ss_pred             EEEcCCCCC-CCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC
Confidence            4577777 5 445777 88899999999996 888877778899999999999999998887788899999999999999


Q ss_pred             CCCCCCCCcCcCCCCCCCcccC
Q 040556          107 CSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus       107 n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      |.+.+..+..+..++ |+.|++
T Consensus        90 N~l~~~~~~~~~~~~-L~~l~l  110 (347)
T 2ifg_A           90 NALESLSWKTVQGLS-LQELVL  110 (347)
T ss_dssp             SCCSCCCSTTTCSCC-CCEEEC
T ss_pred             CccceeCHHHcccCC-ceEEEe
Confidence            998765444455444 777654

>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=99.36  E-value=5.5e-12  Score=85.17  Aligned_cols=109  Identities=17%  Similarity=0.225  Sum_probs=47.3

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecC
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKD   82 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~   82 (128)
                      +|++|++++|.++++|..   .++|++|++++|.+.+. +.   ..++|++|++++|.+.+ +| .++.+++|+++++++
T Consensus        92 ~L~~L~l~~n~l~~lp~~---~~~L~~L~l~~n~l~~l-~~---~~~~L~~L~L~~n~l~~-lp-~~~~l~~L~~L~l~~  162 (454)
T 1jl5_A           92 HLESLVASCNSLTELPEL---PQSLKSLLVDNNNLKAL-SD---LPPLLEYLGVSNNQLEK-LP-ELQNSSFLKIIDVDN  162 (454)
T ss_dssp             TCSEEECCSSCCSSCCCC---CTTCCEEECCSSCCSCC-CS---CCTTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCS
T ss_pred             CCCEEEccCCcCCccccc---cCCCcEEECCCCccCcc-cC---CCCCCCEEECcCCCCCC-Cc-ccCCCCCCCEEECCC
Confidence            345555555555444421   23444444444443221 11   01345555555554443 33 345555555555555


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      |.+.+ +|..   ..+|+++++++|.+.+ +| .++.+++|+++
T Consensus       163 N~l~~-lp~~---~~~L~~L~L~~n~l~~-l~-~~~~l~~L~~L  200 (454)
T 1jl5_A          163 NSLKK-LPDL---PPSLEFIAAGNNQLEE-LP-ELQNLPFLTAI  200 (454)
T ss_dssp             SCCSC-CCCC---CTTCCEEECCSSCCSS-CC-CCTTCTTCCEE
T ss_pred             CcCcc-cCCC---cccccEEECcCCcCCc-Cc-cccCCCCCCEE
Confidence            54332 2321   1245555555554433 23 34444444444

>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=99.34  E-value=1.1e-11  Score=86.65  Aligned_cols=71  Identities=23%  Similarity=0.172  Sum_probs=44.4

Q ss_pred             ccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           49 KFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        49 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++|+.|++++|.+.+ +|   ..+++|+.+++++|.+. .+|.   .+++|++|++++|.+. .+|..++.+++|+.+++
T Consensus       221 ~~L~~L~Ls~N~L~~-lp---~~l~~L~~L~Ls~N~L~-~lp~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L  291 (622)
T 3g06_A          221 SGLKELIVSGNRLTS-LP---VLPSELKELMVSGNRLT-SLPM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNL  291 (622)
T ss_dssp             TTCCEEECCSSCCSC-CC---CCCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEEC
T ss_pred             CCCCEEEccCCccCc-CC---CCCCcCcEEECCCCCCC-cCCc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEe
Confidence            456666666665544 23   23456777777776644 3443   4566777777777765 55666777777777654

>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=99.33  E-value=2.6e-12  Score=83.99  Aligned_cols=117  Identities=14%  Similarity=0.065  Sum_probs=86.6

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccch-hhhhhcCCCcE-EeecC
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELS-LSVELLTGLVV-LNLKD   82 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~-l~l~~   82 (128)
                      ++++.+++.++++|..+  .+++++|++++|.+....+..|..+++|++|++++|.+.+.++ ..|..+++++. +.+..
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~~~~   89 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   89 (350)
T ss_dssp             TEEEEESTTCCSCCTTC--CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEE
T ss_pred             CEEEecCCCCCccCcCc--CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccC
Confidence            46777888888888765  3679999999999776666678999999999999998877655 45677887775 44455


Q ss_pred             CcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCC
Q 040556           83 WQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL  123 (128)
Q Consensus        83 ~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L  123 (128)
                      |++....|..+..+++|+++++++|.+....+..+....++
T Consensus        90 N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l  130 (350)
T 4ay9_X           90 NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQK  130 (350)
T ss_dssp             TTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSC
T ss_pred             CcccccCchhhhhccccccccccccccccCCchhhcccchh
Confidence            66665556778889999999999998765443333333333

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.33  E-value=6.4e-13  Score=87.66  Aligned_cols=125  Identities=18%  Similarity=0.101  Sum_probs=61.9

Q ss_pred             CCcEEEecCCCCCC--cchhhhccCcccEEeccCCCCcccchhhh-----cccccCCEEecCCCCCccc----chhhhhh
Q 040556            3 FLQELLLDGTDIKG--LPLSIVLLSGIVQLDLKGCKNISCLSNFI-----SALKFLSTLNLSDGTAIRE----LSLSVEL   71 (128)
Q Consensus         3 ~L~~l~l~~~~~~~--~~~~~~~l~~L~~l~l~~~~~~~~~~~~~-----~~l~~L~~L~l~~~~~~~~----~~~~~~~   71 (128)
                      +|++|++++|.++.  +......+++|+.|++++|.+.......+     ...++|+.|++++|.+...    ++..+..
T Consensus       102 ~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~  181 (372)
T 3un9_A          102 ALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAG  181 (372)
T ss_dssp             CEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHT
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhc
Confidence            45566666665542  11122234556666666665544332222     1235566666666665431    2233345


Q ss_pred             cCCCcEEeecCCcccCc----chHHhhcCCCCcEEeeecCCCCCC----CCcCcCCCCCCCccc
Q 040556           72 LTGLVVLNLKDWQYLSS----LPSTINGLKSLKILNLSSCSKLEN----VPENLGKVESLEELD  127 (128)
Q Consensus        72 l~~L~~l~l~~~~~~~~----~~~~~~~~~~L~~l~l~~n~~~~~----~~~~~~~~~~L~~l~  127 (128)
                      .++|++|++++|.+...    ++..+...++|++|++++|.+.+.    ++..+...++|++++
T Consensus       182 ~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~  245 (372)
T 3un9_A          182 NTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLH  245 (372)
T ss_dssp             CSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEE
T ss_pred             CCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEe
Confidence            56666666666654431    233444555666666666665432    222233345555554

>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=99.29  E-value=4e-12  Score=88.75  Aligned_cols=82  Identities=27%  Similarity=0.288  Sum_probs=65.5

Q ss_pred             CcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEee
Q 040556           25 SGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNL  104 (128)
Q Consensus        25 ~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l  104 (128)
                      ++|+.|++++|.+.+ .|   ..+++|+.|++++|.+.. +|.   .+++|+.+++++|.+. .+|..+.++++|+.+++
T Consensus       221 ~~L~~L~Ls~N~L~~-lp---~~l~~L~~L~Ls~N~L~~-lp~---~~~~L~~L~Ls~N~L~-~lp~~l~~l~~L~~L~L  291 (622)
T 3g06_A          221 SGLKELIVSGNRLTS-LP---VLPSELKELMVSGNRLTS-LPM---LPSGLLSLSVYRNQLT-RLPESLIHLSSETTVNL  291 (622)
T ss_dssp             TTCCEEECCSSCCSC-CC---CCCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCC-SCCGGGGGSCTTCEEEC
T ss_pred             CCCCEEEccCCccCc-CC---CCCCcCcEEECCCCCCCc-CCc---ccccCcEEeCCCCCCC-cCCHHHhhccccCEEEe
Confidence            667888888887554 34   456889999999998774 444   5688999999999866 67888999999999999


Q ss_pred             ecCCCCCCCCc
Q 040556          105 SSCSKLENVPE  115 (128)
Q Consensus       105 ~~n~~~~~~~~  115 (128)
                      ++|.+.+..+.
T Consensus       292 ~~N~l~~~~~~  302 (622)
T 3g06_A          292 EGNPLSERTLQ  302 (622)
T ss_dssp             CSCCCCHHHHH
T ss_pred             cCCCCCCcCHH
Confidence            99998765544

>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=99.27  E-value=4.4e-11  Score=77.54  Aligned_cols=102  Identities=13%  Similarity=0.050  Sum_probs=73.6

Q ss_pred             cCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCc-EEeecCCcccCcchHHhhcCCCCcEE
Q 040556           24 LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLV-VLNLKDWQYLSSLPSTINGLKSLKIL  102 (128)
Q Consensus        24 l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~-~l~l~~~~~~~~~~~~~~~~~~L~~l  102 (128)
                      +++|+.+++++|.+....+..|..+.+|+.+++..| +....+..|..|.+|+ .+.+.. .+...-+.++.++++|+.+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l  302 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYV  302 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEE
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEE
Confidence            567777777777766555566777888888888775 5555556677888888 888876 4444445677788888888


Q ss_pred             eeecCCCCCCCCcCcCCCCCCCccc
Q 040556          103 NLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus       103 ~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++.+|.+....+.+|..+++|+.+.
T Consensus       303 ~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          303 LATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             EECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             EeCCCccCccchhhhcCCcchhhhc
Confidence            8877776665566788888887764

>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=99.23  E-value=5.5e-12  Score=87.16  Aligned_cols=92  Identities=11%  Similarity=0.019  Sum_probs=55.9

Q ss_pred             hhccCcccEEeccCCC--Ccccchhhhc-ccccCCEEecCCCCCccc-chhhhhhcCCCcEEeecCCcccCc-chHHhhc
Q 040556           21 IVLLSGIVQLDLKGCK--NISCLSNFIS-ALKFLSTLNLSDGTAIRE-LSLSVELLTGLVVLNLKDWQYLSS-LPSTING   95 (128)
Q Consensus        21 ~~~l~~L~~l~l~~~~--~~~~~~~~~~-~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~l~l~~~~~~~~-~~~~~~~   95 (128)
                      +..+++|++|+++.|.  +.+.....+. .+++|+.|++++|.+.+. ++..+..+++|+.|++++|.+... ++.....
T Consensus       432 ~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~  511 (592)
T 3ogk_B          432 LIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTK  511 (592)
T ss_dssp             HHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHHHHTCCTTCCEEEEESCCCBHHHHHHHHHH
T ss_pred             HHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHHHHhcCcccCeeeccCCCCcHHHHHHHHHh
Confidence            4456666666665443  3333333332 366777777777776552 344455677788888887775433 3344456


Q ss_pred             CCCCcEEeeecCCCCCC
Q 040556           96 LKSLKILNLSSCSKLEN  112 (128)
Q Consensus        96 ~~~L~~l~l~~n~~~~~  112 (128)
                      +++|++|++++|.+++.
T Consensus       512 l~~L~~L~ls~n~it~~  528 (592)
T 3ogk_B          512 LPSLRYLWVQGYRASMT  528 (592)
T ss_dssp             CSSCCEEEEESCBCCTT
T ss_pred             cCccCeeECcCCcCCHH
Confidence            77788888888776554

>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=99.23  E-value=1.1e-11  Score=85.59  Aligned_cols=34  Identities=18%  Similarity=0.055  Sum_probs=15.2

Q ss_pred             hhcCCCCcEEeeecCCCCCCCC-cCcCCCCCCCcc
Q 040556           93 INGLKSLKILNLSSCSKLENVP-ENLGKVESLEEL  126 (128)
Q Consensus        93 ~~~~~~L~~l~l~~n~~~~~~~-~~~~~~~~L~~l  126 (128)
                      +..+++|++|++++|.+.+... ..++.+++|++|
T Consensus       289 ~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L  323 (592)
T 3ogk_B          289 FPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVL  323 (592)
T ss_dssp             GGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEE
T ss_pred             HhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEE
Confidence            3444555555555555332211 123445555544

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.22  E-value=4.7e-12  Score=83.58  Aligned_cols=127  Identities=16%  Similarity=0.168  Sum_probs=92.6

Q ss_pred             CCCcEEEecCCCCCCc-chhhhc-----cCcccEEeccCCCCcccchhhh-cccccCCEEecCCCCCcccchhhhh----
Q 040556            2 KFLQELLLDGTDIKGL-PLSIVL-----LSGIVQLDLKGCKNISCLSNFI-SALKFLSTLNLSDGTAIRELSLSVE----   70 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~-~~~~~~-----l~~L~~l~l~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~----   70 (128)
                      ++++.+++++|.++.. ...+..     .++|+.|++++|.+.......+ ..+.+|+.|++++|.+.......+.    
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            5789999999999832 233332     2689999999999766544433 3467899999999988764443332    


Q ss_pred             -hcCCCcEEeecCCcccC----cchHHhhcCCCCcEEeeecCCCCCC----CCcCcCCCCCCCcccC
Q 040556           71 -LLTGLVVLNLKDWQYLS----SLPSTINGLKSLKILNLSSCSKLEN----VPENLGKVESLEELDI  128 (128)
Q Consensus        71 -~l~~L~~l~l~~~~~~~----~~~~~~~~~~~L~~l~l~~n~~~~~----~~~~~~~~~~L~~l~l  128 (128)
                       ..+.|+.|++++|.+..    .++..+...+.|++|++++|.+.+.    ++..+...++|++|++
T Consensus       152 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~L  218 (372)
T 3un9_A          152 HDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNV  218 (372)
T ss_dssp             STTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEEC
T ss_pred             hcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEEC
Confidence             35789999999998654    2455567889999999999997643    2445666778888765

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

Probab=99.13  E-value=2.4e-11  Score=83.96  Aligned_cols=105  Identities=21%  Similarity=0.228  Sum_probs=42.8

Q ss_pred             CCcEEEecCCCCC-Ccchhhh-ccCcccEEeccCCCCccc--chhhhcccccCCEEecCCCCCcccchhhhh----hcCC
Q 040556            3 FLQELLLDGTDIK-GLPLSIV-LLSGIVQLDLKGCKNISC--LSNFISALKFLSTLNLSDGTAIRELSLSVE----LLTG   74 (128)
Q Consensus         3 ~L~~l~l~~~~~~-~~~~~~~-~l~~L~~l~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~----~l~~   74 (128)
                      +|++|+++++.+. ..+..+. .+++|+.|++++|...+.  .+.....+++|++|++++|.+.+..+..+.    .+++
T Consensus       106 ~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~  185 (594)
T 2p1m_B          106 WLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTS  185 (594)
T ss_dssp             TCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCC
T ss_pred             CCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCc
Confidence            4555555555444 2222222 345555555555521211  222223455555555555543332222111    3345


Q ss_pred             CcEEeecCCc--ccC-cchHHhhcCCCCcEEeeecC
Q 040556           75 LVVLNLKDWQ--YLS-SLPSTINGLKSLKILNLSSC  107 (128)
Q Consensus        75 L~~l~l~~~~--~~~-~~~~~~~~~~~L~~l~l~~n  107 (128)
                      |+.+++++|.  +.. .++....++++|++|++++|
T Consensus       186 L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          186 LVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRA  221 (594)
T ss_dssp             CCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTT
T ss_pred             CcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCC
Confidence            5555555443  110 11112233455555555554

>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=99.10  E-value=3.6e-10  Score=73.25  Aligned_cols=102  Identities=13%  Similarity=-0.025  Sum_probs=86.6

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCC-EEecCCCCCcccchhhhhhcCCCcEE
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLS-TLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~-~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      |++|+.+++++|.++.++. .|..|++|+.+++..| +....+..|..+.+|+ .+++.. .+....+..|..|++|+.+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l  302 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYV  302 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEE
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEE
Confidence            4689999999999998875 6889999999999988 5666667899999999 999988 6666667889999999999


Q ss_pred             eecCCcccCcchHHhhcCCCCcEEee
Q 040556           79 NLKDWQYLSSLPSTINGLKSLKILNL  104 (128)
Q Consensus        79 ~l~~~~~~~~~~~~~~~~~~L~~l~l  104 (128)
                      ++..+++...-+.++.++++|+.++.
T Consensus       303 ~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          303 LATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             EECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             EeCCCccCccchhhhcCCcchhhhcc
Confidence            99888766655668889999998763

>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=99.07  E-value=1.3e-10  Score=80.33  Aligned_cols=82  Identities=18%  Similarity=0.139  Sum_probs=42.3

Q ss_pred             hcccccCCEEecCCCCCcccchhhhhh-cCCCcEEeecCCcccCcchHHh-hcCCCCcEEeeecCCCCCCCCc-CcCCCC
Q 040556           45 ISALKFLSTLNLSDGTAIRELSLSVEL-LTGLVVLNLKDWQYLSSLPSTI-NGLKSLKILNLSSCSKLENVPE-NLGKVE  121 (128)
Q Consensus        45 ~~~l~~L~~L~l~~~~~~~~~~~~~~~-l~~L~~l~l~~~~~~~~~~~~~-~~~~~L~~l~l~~n~~~~~~~~-~~~~~~  121 (128)
                      +..+++|+.|++++ .+.......++. +++|+.+++++|.+.......+ ..+++|++|++++|.+.+.... .+..++
T Consensus       428 ~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~  506 (594)
T 2p1m_B          428 VEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLE  506 (594)
T ss_dssp             HHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGG
T ss_pred             HhhCCCccEEeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCC
Confidence            34455666666654 344333333333 5666666666666544333333 4566677777776665332221 233455


Q ss_pred             CCCccc
Q 040556          122 SLEELD  127 (128)
Q Consensus       122 ~L~~l~  127 (128)
                      +|+.++
T Consensus       507 ~L~~L~  512 (594)
T 2p1m_B          507 TMRSLW  512 (594)
T ss_dssp             GSSEEE
T ss_pred             CCCEEe
Confidence            555554

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=99.07  E-value=5.5e-10  Score=67.01  Aligned_cols=108  Identities=12%  Similarity=0.140  Sum_probs=71.2

Q ss_pred             CCCcEEEecCC-CCCC-----cchhhhccCcccEEeccCCCCcccc----hhhhcccccCCEEecCCCCCccc----chh
Q 040556            2 KFLQELLLDGT-DIKG-----LPLSIVLLSGIVQLDLKGCKNISCL----SNFISALKFLSTLNLSDGTAIRE----LSL   67 (128)
Q Consensus         2 ~~L~~l~l~~~-~~~~-----~~~~~~~l~~L~~l~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~~~----~~~   67 (128)
                      +.|++|++++| .+..     +...+...++|++|++++|.+....    ...+...++|++|++++|.+...    +..
T Consensus        36 ~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l~~  115 (185)
T 1io0_A           36 PDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVE  115 (185)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHH
T ss_pred             CCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHHHH
Confidence            46778888887 7762     2344555677888888888766432    33344556788888888877653    234


Q ss_pred             hhhhcCCCcEEee--cCCcccCc----chHHhhcCCCCcEEeeecCCC
Q 040556           68 SVELLTGLVVLNL--KDWQYLSS----LPSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        68 ~~~~l~~L~~l~l--~~~~~~~~----~~~~~~~~~~L~~l~l~~n~~  109 (128)
                      .+...+.|+++++  .+|.+...    +.+.+...+.|++|++++|.+
T Consensus       116 ~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          116 ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            4555677888888  66765543    334455667788888887764

>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=98.94  E-value=3.1e-10  Score=71.66  Aligned_cols=79  Identities=27%  Similarity=0.292  Sum_probs=44.8

Q ss_pred             ccccCCEEecCCCCCcc--cchhhhhhcCCCcEEeecCCcccCcchHHhhcCC--CCcEEeeecCCCCCCCCc-------
Q 040556           47 ALKFLSTLNLSDGTAIR--ELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLK--SLKILNLSSCSKLENVPE-------  115 (128)
Q Consensus        47 ~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~--~L~~l~l~~n~~~~~~~~-------  115 (128)
                      .+++|+.|++++|.+.+  .++..+..+++|+.|++++|.+.+.  ..+..++  .|++|++.+|++.+.+|.       
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            45667777777766655  3344555666777777776665543  1222233  667777777766554331       


Q ss_pred             CcCCCCCCCccc
Q 040556          116 NLGKVESLEELD  127 (128)
Q Consensus       116 ~~~~~~~L~~l~  127 (128)
                      .+..+++|+.||
T Consensus       246 il~~~P~L~~LD  257 (267)
T 3rw6_A          246 IRERFPKLLRLD  257 (267)
T ss_dssp             HHHHCTTCCEES
T ss_pred             HHHHCcccCeEC
Confidence            244555555554

>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=98.93  E-value=2.9e-09  Score=63.19  Aligned_cols=88  Identities=11%  Similarity=0.096  Sum_probs=65.4

Q ss_pred             cCcccEEeccCCCCcccchhhhcccccCCEEecCCCC-Ccccchhhhhh----cCCCcEEeecCCc-ccCcchHHhhcCC
Q 040556           24 LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT-AIRELSLSVEL----LTGLVVLNLKDWQ-YLSSLPSTINGLK   97 (128)
Q Consensus        24 l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~----l~~L~~l~l~~~~-~~~~~~~~~~~~~   97 (128)
                      -.+|+.+|+++|.++...-..+..+++|+.|++++|. ++...-..+..    +++|++|++++|. ++..--..+.+++
T Consensus        60 ~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~  139 (176)
T 3e4g_A           60 KYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFR  139 (176)
T ss_dssp             CCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCT
T ss_pred             CceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCC
Confidence            3479999999999776655667889999999999996 44443344444    3479999999986 4433334567889


Q ss_pred             CCcEEeeecCCCCC
Q 040556           98 SLKILNLSSCSKLE  111 (128)
Q Consensus        98 ~L~~l~l~~n~~~~  111 (128)
                      +|++|++++|...+
T Consensus       140 ~L~~L~L~~c~~It  153 (176)
T 3e4g_A          140 NLKYLFLSDLPGVK  153 (176)
T ss_dssp             TCCEEEEESCTTCC
T ss_pred             CCCEEECCCCCCCC
Confidence            99999999987443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.89  E-value=2.3e-09  Score=64.29  Aligned_cols=110  Identities=14%  Similarity=0.079  Sum_probs=80.9

Q ss_pred             hhhhccCcccEEeccCC-CCccc----chhhhcccccCCEEecCCCCCccc----chhhhhhcCCCcEEeecCCcccCc-
Q 040556           19 LSIVLLSGIVQLDLKGC-KNISC----LSNFISALKFLSTLNLSDGTAIRE----LSLSVELLTGLVVLNLKDWQYLSS-   88 (128)
Q Consensus        19 ~~~~~l~~L~~l~l~~~-~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~l~l~~~~~~~~-   88 (128)
                      ..+...+.|++|++++| .+...    +...+...++|++|++++|.+...    +...+...+.|++|++++|.+... 
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g  109 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSG  109 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHH
T ss_pred             HHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHH
Confidence            34556789999999999 86653    344456678999999999998653    334555668999999999987653 


Q ss_pred             ---chHHhhcCCCCcEEee--ecCCCCCC----CCcCcCCCCCCCcccC
Q 040556           89 ---LPSTINGLKSLKILNL--SSCSKLEN----VPENLGKVESLEELDI  128 (128)
Q Consensus        89 ---~~~~~~~~~~L~~l~l--~~n~~~~~----~~~~~~~~~~L~~l~l  128 (128)
                         +...+...+.|++|++  ++|.+..+    +...+...++|+++++
T Consensus       110 ~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L  158 (185)
T 1io0_A          110 ILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGY  158 (185)
T ss_dssp             HHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEEC
T ss_pred             HHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEec
Confidence               4556677789999999  88887654    3334455577777764

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.85  E-value=3e-08  Score=66.07  Aligned_cols=56  Identities=23%  Similarity=0.178  Sum_probs=29.6

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCC
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSD   58 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~   58 (128)
                      ++|+.+++..|.++.++.....+.+|+.+.+..+ +.......|..+.+|+.+.+..
T Consensus       180 ~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          180 YNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             TTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCT
T ss_pred             ccCCeeecCCCcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCC
Confidence            4555666665555555443333455555555533 3333444556666666666654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.82  E-value=3.5e-09  Score=69.68  Aligned_cols=40  Identities=15%  Similarity=0.125  Sum_probs=19.0

Q ss_pred             cCCCcEEeecCCcccCcchHHhh---cCCCCcEEeeecCCCCC
Q 040556           72 LTGLVVLNLKDWQYLSSLPSTIN---GLKSLKILNLSSCSKLE  111 (128)
Q Consensus        72 l~~L~~l~l~~~~~~~~~~~~~~---~~~~L~~l~l~~n~~~~  111 (128)
                      +++|++|++.+|.+....+..+.   .+++|++|+++.|.+.+
T Consensus       251 ~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d  293 (362)
T 2ra8_A          251 FPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTD  293 (362)
T ss_dssp             CTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBH
T ss_pred             CCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCCh
Confidence            45555555555544332222222   24456666665555433

>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=98.77  E-value=4e-08  Score=62.09  Aligned_cols=80  Identities=18%  Similarity=0.171  Sum_probs=62.9

Q ss_pred             hccCcccEEeccCCCCcc--cchhhhcccccCCEEecCCCCCcccchhhhhhcC--CCcEEeecCCcccCcch-------
Q 040556           22 VLLSGIVQLDLKGCKNIS--CLSNFISALKFLSTLNLSDGTAIRELSLSVELLT--GLVVLNLKDWQYLSSLP-------   90 (128)
Q Consensus        22 ~~l~~L~~l~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~--~L~~l~l~~~~~~~~~~-------   90 (128)
                      ..+++|+.|++++|.+.+  ..+..+..+++|+.|++++|.+.+.  ..+..+.  +|+.|++.+|.+.+.+|       
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 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            458899999999999887  4456677899999999999998764  2233344  89999999999876444       


Q ss_pred             HHhhcCCCCcEEe
Q 040556           91 STINGLKSLKILN  103 (128)
Q Consensus        91 ~~~~~~~~L~~l~  103 (128)
                      ..+..+++|+.||
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            3467889999886

>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=98.74  E-value=2.1e-08  Score=59.55  Aligned_cols=86  Identities=15%  Similarity=0.072  Sum_probs=65.0

Q ss_pred             CCcEEEecCCCCCC-cchhhhccCcccEEeccCCCCcc-cchhhhccc----ccCCEEecCCCC-CcccchhhhhhcCCC
Q 040556            3 FLQELLLDGTDIKG-LPLSIVLLSGIVQLDLKGCKNIS-CLSNFISAL----KFLSTLNLSDGT-AIRELSLSVELLTGL   75 (128)
Q Consensus         3 ~L~~l~l~~~~~~~-~~~~~~~l~~L~~l~l~~~~~~~-~~~~~~~~l----~~L~~L~l~~~~-~~~~~~~~~~~l~~L   75 (128)
                      .|+.|+++++.++. --..+..+++|+.|++++|...+ ..-..+..+    ++|+.|++++|. ++...-..+..+++|
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            47899999999873 34467889999999999997443 333345543    479999999986 555545567789999


Q ss_pred             cEEeecCCcccCc
Q 040556           76 VVLNLKDWQYLSS   88 (128)
Q Consensus        76 ~~l~l~~~~~~~~   88 (128)
                      ++|++++|.-...
T Consensus       142 ~~L~L~~c~~Itd  154 (176)
T 3e4g_A          142 KYLFLSDLPGVKE  154 (176)
T ss_dssp             CEEEEESCTTCCC
T ss_pred             CEEECCCCCCCCc
Confidence            9999999974443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.63  E-value=3e-07  Score=61.31  Aligned_cols=114  Identities=6%  Similarity=-0.021  Sum_probs=72.8

Q ss_pred             CcEEEecCCCCCCc-chhhhccCcccEEeccCCCCc-----ccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcE
Q 040556            4 LQELLLDGTDIKGL-PLSIVLLSGIVQLDLKGCKNI-----SCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVV   77 (128)
Q Consensus         4 L~~l~l~~~~~~~~-~~~~~~l~~L~~l~l~~~~~~-----~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~   77 (128)
                      |+.+.+. +.++.+ ...|..|++|+.+.+.++...     ...+..|..+++|+.+.+.. .+.......|..|.+|+.
T Consensus       250 L~~i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i~~I~~~aF~~c~~L~~  327 (401)
T 4fdw_A          250 ITTVKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SIRILGQGLLGGNRKVTQ  327 (401)
T ss_dssp             CSEEEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCCSCCE
T ss_pred             ccEEEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ceEEEhhhhhcCCCCccE
Confidence            4444442 234444 335677888888888776543     24445677888888888874 455555667778888888


Q ss_pred             EeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCC
Q 040556           78 LNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE  121 (128)
Q Consensus        78 l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~  121 (128)
                      +.+..+ +...-..++.++ .|+.+.+.+|.........+..++
T Consensus       328 l~lp~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~  369 (401)
T 4fdw_A          328 LTIPAN-VTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFP  369 (401)
T ss_dssp             EEECTT-CCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSC
T ss_pred             EEECcc-ccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCC
Confidence            888654 343334567777 888888888765444444455553

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.61  E-value=9.9e-08  Score=62.84  Aligned_cols=111  Identities=14%  Similarity=0.115  Sum_probs=66.6

Q ss_pred             CCCcEEEecCCCCC-Ccchhhh--ccCcccEEeccCC--CCcc-----cchhhh--cccccCCEEecCCCCCcccchhhh
Q 040556            2 KFLQELLLDGTDIK-GLPLSIV--LLSGIVQLDLKGC--KNIS-----CLSNFI--SALKFLSTLNLSDGTAIRELSLSV   69 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~--~l~~L~~l~l~~~--~~~~-----~~~~~~--~~l~~L~~L~l~~~~~~~~~~~~~   69 (128)
                      ++|+.|.+..+.++ +....+.  .+++|+.|+++.+  ...+     .+...+  ..+++|+.|++.+|.+....+..+
T Consensus       193 ~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~l  272 (362)
T 2ra8_A          193 PNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMF  272 (362)
T ss_dssp             TTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHH
T ss_pred             CCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHH
Confidence            34555555555444 1122232  5788888887532  1111     111122  247889999998888765433333


Q ss_pred             h---hcCCCcEEeecCCcccCc----chHHhhcCCCCcEEeeecCCCCCC
Q 040556           70 E---LLTGLVVLNLKDWQYLSS----LPSTINGLKSLKILNLSSCSKLEN  112 (128)
Q Consensus        70 ~---~l~~L~~l~l~~~~~~~~----~~~~~~~~~~L~~l~l~~n~~~~~  112 (128)
                      .   .+++|++|+++.|.+...    ++..+.++++|+.|++++|.+...
T Consensus       273 a~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~  322 (362)
T 2ra8_A          273 LESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDE  322 (362)
T ss_dssp             HHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHH
T ss_pred             HhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHH
Confidence            2   467899999988876553    333345678899999998876543

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=98.25  E-value=1.6e-05  Score=52.37  Aligned_cols=103  Identities=12%  Similarity=0.032  Sum_probs=43.4

Q ss_pred             hhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCc
Q 040556           21 IVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLK  100 (128)
Q Consensus        21 ~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~  100 (128)
                      +..+..|+.+.+..+ +.......|..+.+++.+.+.. .+.......+..|.+|+.+.+..+.+...-..++.++.+|+
T Consensus       236 f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~  313 (379)
T 4h09_A          236 FYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLS  313 (379)
T ss_dssp             TTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCC
T ss_pred             ccCCccceEEEcCCC-ccEeCccccceeehhccccccc-cceeccccccccccccccccccccccceehhhhhcCCCCCC
Confidence            344555555555433 2222233344444555554433 22222233444555555555544332222233444555555


Q ss_pred             EEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556          101 ILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus       101 ~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      .+.+..+ +...-..+|.+|.+|+.+
T Consensus       314 ~i~lp~~-l~~I~~~aF~~C~~L~~i  338 (379)
T 4h09_A          314 SVTLPTA-LKTIQVYAFKNCKALSTI  338 (379)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCCC
T ss_pred             EEEcCcc-ccEEHHHHhhCCCCCCEE
Confidence            5555422 122122334445555443

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.19  E-value=1.2e-05  Score=53.24  Aligned_cols=86  Identities=7%  Similarity=0.076  Sum_probs=48.4

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .|..+..|+.+.+.. .+.......|..+.+|+.+.+.. .+.......|.+|.+|+.+.+..+ +...-..++.++++|
T Consensus       283 aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L  359 (394)
T 4gt6_A          283 AFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPE-GITQILDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTAL  359 (394)
T ss_dssp             TTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTC
T ss_pred             ccccccccccccCCC-cccccCceeecCCCCcCEEEeCC-cccEehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCC
Confidence            344556666666642 22333344566667777777665 333334456666777777777543 233223456677777


Q ss_pred             cEEeeecCC
Q 040556          100 KILNLSSCS  108 (128)
Q Consensus       100 ~~l~l~~n~  108 (128)
                      +.+++.++.
T Consensus       360 ~~i~~~~~~  368 (394)
T 4gt6_A          360 NNIEYSGSR  368 (394)
T ss_dssp             CEEEESSCH
T ss_pred             CEEEECCce
Confidence            777776543

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.00  E-value=3.5e-05  Score=51.10  Aligned_cols=102  Identities=13%  Similarity=0.013  Sum_probs=68.1

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .+..+.+|+.+.+..+ +.......|..+.+|+.+++.. .+.......|.+|.+|+.+.+..+ +...-..++.++.+|
T Consensus       292 ~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L  368 (394)
T 4fs7_A          292 TFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINL  368 (394)
T ss_dssp             TTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTC
T ss_pred             cccccccccccccccc-cceechhhhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCC
Confidence            3456777777777654 3444455677888888888865 344444567778888888888664 333334567788888


Q ss_pred             cEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556          100 KILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus       100 ~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      +.+++..+-  ..+..++.++++|+.+
T Consensus       369 ~~i~lp~~~--~~~~~~F~~c~~L~~I  393 (394)
T 4fs7_A          369 KKVELPKRL--EQYRYDFEDTTKFKWI  393 (394)
T ss_dssp             CEEEEEGGG--GGGGGGBCTTCEEEEE
T ss_pred             CEEEECCCC--EEhhheecCCCCCcEE
Confidence            888887542  2334567778877654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.93  E-value=5.9e-05  Score=49.99  Aligned_cols=81  Identities=16%  Similarity=0.078  Sum_probs=57.4

Q ss_pred             hhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCC
Q 040556           44 FISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL  123 (128)
Q Consensus        44 ~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L  123 (128)
                      .+..+.+|+.+.+.. .+.......|..|.+|+.+++..+ +...-..++.++++|+.+.+..+ +...-..+|..|++|
T Consensus       292 ~F~~~~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L  368 (394)
T 4fs7_A          292 TFYGCSSLTEVKLLD-SVKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINL  368 (394)
T ss_dssp             TTTTCTTCCEEEECT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTC
T ss_pred             ccccccccccccccc-ccceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCC
Confidence            456677888888765 344444567888999999998653 33333457888999999999765 444445678889999


Q ss_pred             Cccc
Q 040556          124 EELD  127 (128)
Q Consensus       124 ~~l~  127 (128)
                      +.++
T Consensus       369 ~~i~  372 (394)
T 4fs7_A          369 KKVE  372 (394)
T ss_dssp             CEEE
T ss_pred             CEEE
Confidence            8765

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.92  E-value=0.0001  Score=48.87  Aligned_cols=104  Identities=9%  Similarity=0.082  Sum_probs=76.7

Q ss_pred             hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCC
Q 040556           20 SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSL   99 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L   99 (128)
                      .|..+..|+.+.+..+. .......|..+..|+.+.+.. .+.......|..|.+|+.+.+..+ +...-..++.++.+|
T Consensus       260 aF~~c~~L~~i~lp~~~-~~I~~~aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L  336 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSV-VSIGTGAFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQL  336 (394)
T ss_dssp             TTTTCSSCCEEECCTTC-CEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTC
T ss_pred             eeeecccccEEeccccc-ceecCcccccccccccccCCC-cccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCCC
Confidence            56678889999887654 444556688899999999875 455555677889999999999764 333334578899999


Q ss_pred             cEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556          100 KILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus       100 ~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +.+.+..+ +...-..+|.+|++|+.++
T Consensus       337 ~~i~ip~s-v~~I~~~aF~~C~~L~~i~  363 (394)
T 4gt6_A          337 ERIAIPSS-VTKIPESAFSNCTALNNIE  363 (394)
T ss_dssp             CEEEECTT-CCBCCGGGGTTCTTCCEEE
T ss_pred             CEEEECcc-cCEEhHhHhhCCCCCCEEE
Confidence            99999754 3443355788999998764

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=97.89  E-value=9.3e-05  Score=44.70  Aligned_cols=80  Identities=16%  Similarity=0.115  Sum_probs=37.0

Q ss_pred             CCcEEEecCC-CCCC-----cchhhhccCcccEEeccCCCCcccc----hhhhcccccCCEEecCCCCCcccc----hhh
Q 040556            3 FLQELLLDGT-DIKG-----LPLSIVLLSGIVQLDLKGCKNISCL----SNFISALKFLSTLNLSDGTAIREL----SLS   68 (128)
Q Consensus         3 ~L~~l~l~~~-~~~~-----~~~~~~~l~~L~~l~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~~~~----~~~   68 (128)
                      .|++|+++++ .+..     +...+..-..|+.|++++|.+....    ...+..-.+|+.|+++.|.+....    ...
T Consensus        42 ~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~a  121 (197)
T 1pgv_A           42 DLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRS  121 (197)
T ss_dssp             SCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHH
T ss_pred             CccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHH
Confidence            3555566553 4441     2223333445666666666554322    222233445666666665554321    122


Q ss_pred             hhhcCCCcEEeecC
Q 040556           69 VELLTGLVVLNLKD   82 (128)
Q Consensus        69 ~~~l~~L~~l~l~~   82 (128)
                      +..-..|+.|++.+
T Consensus       122 L~~N~tL~~L~L~n  135 (197)
T 1pgv_A          122 TLVTQSIVEFKADN  135 (197)
T ss_dssp             TTTTCCCSEEECCC
T ss_pred             HhhCCceeEEECCC
Confidence            22334466666653

>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=97.84  E-value=0.00012  Score=48.08  Aligned_cols=116  Identities=9%  Similarity=-0.001  Sum_probs=75.4

Q ss_pred             CCCcEEEecCCCCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ..|+.+.+..+ ++.+. ..+..+.+++.+.+..+ +.......|..+.+|+.+.+..+.+.......|.+|.+|+.+.+
T Consensus       240 ~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~l  317 (379)
T 4h09_A          240 KALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTL  317 (379)
T ss_dssp             SSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEEC
T ss_pred             ccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCCEEEc
Confidence            34555555543 44443 35667888888888754 34444556888899999999877666666677888999999998


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVE  121 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~  121 (128)
                      ..+ +...-..++.++++|+.+.+..+ +...-..+|..++
T Consensus       318 p~~-l~~I~~~aF~~C~~L~~i~ip~~-v~~I~~~aF~~c~  356 (379)
T 4h09_A          318 PTA-LKTIQVYAFKNCKALSTISYPKS-ITLIESGAFEGSS  356 (379)
T ss_dssp             CTT-CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTSS
T ss_pred             Ccc-ccEEHHHHhhCCCCCCEEEECCc-cCEEchhHhhCCC
Confidence            754 33323456778888888887643 2222233455443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.55  E-value=0.00028  Score=39.76  Aligned_cols=54  Identities=19%  Similarity=0.172  Sum_probs=34.7

Q ss_pred             EEEecCCCCC--CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCC
Q 040556            6 ELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTA   61 (128)
Q Consensus         6 ~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   61 (128)
                      +++.+++.++  .+|..+  -++++.|++++|.+....+..|..+++|+.|++.+|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF--PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC--CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCC--CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            4556666666  666432  23577777777776666566666777777777777654

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=97.54  E-value=0.00043  Score=41.80  Aligned_cols=85  Identities=13%  Similarity=0.075  Sum_probs=62.5

Q ss_pred             ccCcccEEeccCC-CCccc----chhhhcccccCCEEecCCCCCccc----chhhhhhcCCCcEEeecCCcccCc----c
Q 040556           23 LLSGIVQLDLKGC-KNISC----LSNFISALKFLSTLNLSDGTAIRE----LSLSVELLTGLVVLNLKDWQYLSS----L   89 (128)
Q Consensus        23 ~l~~L~~l~l~~~-~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~l~l~~~~~~~~----~   89 (128)
                      .-+.|+.|+++++ .+...    +...+..-++|+.|++++|.+...    +...+..-..|++|+++.|.+...    +
T Consensus        39 ~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~al  118 (197)
T 1pgv_A           39 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL  118 (197)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             cCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHH
Confidence            4578999999986 65543    344556667899999999998753    334455668899999999987653    3


Q ss_pred             hHHhhcCCCCcEEeeecC
Q 040556           90 PSTINGLKSLKILNLSSC  107 (128)
Q Consensus        90 ~~~~~~~~~L~~l~l~~n  107 (128)
                      .+++..-+.|++|++++|
T Consensus       119 a~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          119 LRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             HHHTTTTCCCSEEECCCC
T ss_pred             HHHHhhCCceeEEECCCC
Confidence            445556678999999854

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.94  E-value=0.0028  Score=35.62  Aligned_cols=58  Identities=12%  Similarity=-0.019  Sum_probs=43.3

Q ss_pred             cEEeccCCCCc-ccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccC
Q 040556           28 VQLDLKGCKNI-SCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLS   87 (128)
Q Consensus        28 ~~l~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~   87 (128)
                      ..++-+++.+. ...|..+  ..+++.|++++|.+....+..+..+++|+.+++.+|.+.-
T Consensus        11 ~~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~C   69 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAF--PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWRC   69 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCC--CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCBC
T ss_pred             CEEEeCCCCCccccCCCCC--CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCeec
Confidence            36677777643 2555422  2469999999999887667778889999999999998764

>2lz0_A Uncharacterized protein; hypothetical leucine rich repeat protein, structural genomic unknown function; NMR {Bacteroides capillosus}

Probab=84.86  E-value=1.2  Score=23.59  Aligned_cols=46  Identities=13%  Similarity=0.042  Sum_probs=29.1

Q ss_pred             CCCCcc-hhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCC
Q 040556           13 DIKGLP-LSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDG   59 (128)
Q Consensus        13 ~~~~~~-~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~   59 (128)
                      .++.+. ..|.+|.+|+.+.+..+ +.......|..+.+|+.+.+...
T Consensus         7 ~vt~I~~~aF~~c~~L~~i~iP~~-v~~Ig~~aF~~C~~L~~i~~~~~   53 (100)
T 2lz0_A            7 PVVGMDKSLFAGNTVIREITVQPN-IGLLYDGMFSGCTALEKLILTGE   53 (100)
T ss_dssp             CCCSSCSCTTTTCTTCCCEEECTT-SSCCCTTSSTTCTTCCCEEECCS
T ss_pred             ccCEecHHHhcCCCCCcEEEcCCc-hheEcHHHHhccCCccEEEEcCC
Confidence            344443 35667777877777755 24455556777777777776653

>2lz0_A Uncharacterized protein; hypothetical leucine rich repeat protein, structural genomic unknown function; NMR {Bacteroides capillosus}

Probab=81.71  E-value=4.2  Score=21.44  Aligned_cols=47  Identities=9%  Similarity=-0.072  Sum_probs=33.8

Q ss_pred             CCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556           36 KNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus        36 ~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      .+.......|..+.+|+.+.+.. .+...-...|..|.+|+.+.+...
T Consensus         7 ~vt~I~~~aF~~c~~L~~i~iP~-~v~~Ig~~aF~~C~~L~~i~~~~~   53 (100)
T 2lz0_A            7 PVVGMDKSLFAGNTVIREITVQP-NIGLLYDGMFSGCTALEKLILTGE   53 (100)
T ss_dssp             CCCSSCSCTTTTCTTCCCEEECT-TSSCCCTTSSTTCTTCCCEEECCS
T ss_pred             ccCEecHHHhcCCCCCcEEEcCC-chheEcHHHHhccCCccEEEEcCC
Confidence            33444456688888888888877 455555677888888888888654

---

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	128
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	8e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.003

>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 = 35.5 bits (80), Expect = 8e-04
 Identities = 11/50 (22%), Positives = 24/50 (48%), Gaps = 1/50 (2%)

Query: 79  NLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI 128
           +L++ +   +LP  +  LK L  LN+S  +    +P+  G ++  +    
Sbjct: 250 DLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAY 298

>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 = 34.0 bits (76), Expect = 0.003
 Identities = 19/76 (25%), Positives = 30/76 (39%), Gaps = 9/76 (11%)

Query: 48  LKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSC 107
              L  LN+S    + EL     L   L  L    + +L+ +P      ++LK L++   
Sbjct: 283 PPSLEELNVS-NNKLIELP---ALPPRLERLIA-SFNHLAEVPEL---PQNLKQLHVEYN 334

Query: 108 SKLENVPENLGKVESL 123
             L   P+    VE L
Sbjct: 335 -PLREFPDIPESVEDL 349

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	128
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.78
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.77
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.73
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.71
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.71
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.71
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.68
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.63
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.61
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.61
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.6
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.6
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.59
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.56
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.55
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.55
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.54
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.54
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.53
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.41
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.41
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.4
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.39
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.35
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.32
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.28
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.17
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.14
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.08
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.86
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.86
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.75
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.73
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.7
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.69
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.54
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.49
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.34
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	98.14
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.82

>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=99.78  E-value=1.1e-18  Score=104.15  Aligned_cols=122  Identities=20%  Similarity=0.170  Sum_probs=75.8

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccc-hhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCC
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCL-SNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDW   83 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~   83 (128)
                      ++++.+++.++.+|..+.  +++++|++++|.+.... +..|..+++|+.|++++|.+....+..+..++.|+++++++|
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 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEeCCCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            455666666666665432  45666777777665433 344566667777777666666655666666666777777766


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++....+..+.++++|++|++++|.+.+..+.+|..+++|+++++
T Consensus        89 ~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L  133 (192)
T d1w8aa_          89 KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNL  133 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEEC
T ss_pred             cccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccc
Confidence            655544555666666777777766666555555666666666553

>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=99.77  E-value=1.4e-18  Score=101.09  Aligned_cols=124  Identities=20%  Similarity=0.068  Sum_probs=100.7

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ..+++|++++|.++.++..+..+++|+.|++++|.+... + .+..+++|+.|++++|.+....+..+..++++++++++
T Consensus        18 ~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l-~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~   95 (162)
T d1a9na_          18 VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL-D-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILT   95 (162)
T ss_dssp             TSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE-C-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECC
T ss_pred             CcCcEEECCCCCCCccCccccccccCCEEECCCCCCCcc-C-CcccCcchhhhhcccccccCCCccccccccccccceec
Confidence            468899999999999887778899999999999997654 3 37889999999999999887656666789999999999


Q ss_pred             CCcccCcc-hHHhhcCCCCcEEeeecCCCCCCC---CcCcCCCCCCCccc
Q 040556           82 DWQYLSSL-PSTINGLKSLKILNLSSCSKLENV---PENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~~-~~~~~~~~~L~~l~l~~n~~~~~~---~~~~~~~~~L~~l~  127 (128)
                      +|.+...- ...+..+++|+++++++|++....   +..++.+++|+.+|
T Consensus        96 ~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          96 NNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             SCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             cccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            99865421 245788999999999999875431   12467788888876

>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=99.75  E-value=1.3e-17  Score=103.90  Aligned_cols=126  Identities=21%  Similarity=0.130  Sum_probs=81.8

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.+...+..+..+++|++++++++.+....+..+..+.+++.+++.+|.+....+..+..++.++.++++
T Consensus        77 ~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~  156 (266)
T d1p9ag_          77 PVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLA  156 (266)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             ccccccccccccccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccc
Confidence            34455555555554444444455555555555555444444444555566666666665555445556667888888888


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|++.+..+..+..+++|++|++++|.+. .+|..+..+++|+.+++
T Consensus       157 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L  202 (266)
T d1p9ag_         157 NNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFL  202 (266)
T ss_dssp             TSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEEC
T ss_pred             cccccccCccccccccccceeecccCCCc-ccChhHCCCCCCCEEEe
Confidence            88877666666778888889999888866 67777777888887764

>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=99.73  E-value=6.6e-18  Score=107.31  Aligned_cols=121  Identities=19%  Similarity=0.256  Sum_probs=108.3

Q ss_pred             CCcEEEecCCCCC---CcchhhhccCcccEEeccC-CCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEE
Q 040556            3 FLQELLLDGTDIK---GLPLSIVLLSGIVQLDLKG-CKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         3 ~L~~l~l~~~~~~---~~~~~~~~l~~L~~l~l~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      +++.|+++++.+.   .+|..+..+++|++|++++ |.+.+.+|..+.++++|++|++++|++.+..+..+..+..|+++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l  130 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTL  130 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhccc
Confidence            4788999998887   4788999999999999987 77788899999999999999999999988888888899999999


Q ss_pred             eecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCC
Q 040556           79 NLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESL  123 (128)
Q Consensus        79 ~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L  123 (128)
                      ++..|.+...+|..+.+++.++++++++|.+.+.+|..++.+.++
T Consensus       131 ~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l  175 (313)
T d1ogqa_         131 DFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL  175 (313)
T ss_dssp             ECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTT
T ss_pred             ccccccccccCchhhccCcccceeecccccccccccccccccccc
Confidence            999999888899999999999999999999888888887777765

>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=99.71  E-value=3.9e-17  Score=102.50  Aligned_cols=128  Identities=20%  Similarity=0.111  Sum_probs=100.1

Q ss_pred             CCCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++|+++++++|.+..++. .+....+|+.+++++|.+.+..+..+..+++|+.|++++|++....+..+..+++|+.++
T Consensus       104 l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~  183 (284)
T d1ozna_         104 LGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLL  183 (284)
T ss_dssp             CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             cccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhh
Confidence            4678888888888775543 455677888888888887766666777788888888888887776667777888888888


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +.+|++.+..|..+..+++|+++++++|.+.+..+..++.+++|+++++
T Consensus       184 l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         184 LHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             hhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            8888877777777888888888888888887766667788888887764

>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=99.71  E-value=3.1e-17  Score=97.76  Aligned_cols=110  Identities=25%  Similarity=0.192  Sum_probs=97.7

Q ss_pred             CCCcEEEecCCCCCC-c-chhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEe
Q 040556            2 KFLQELLLDGTDIKG-L-PLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLN   79 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~-~-~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~   79 (128)
                      +++++|++++|.++. + +..|..+++|+.|++++|.+....+..+..+++|+.|++++|++....+..|..+++|++|+
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~  108 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccc
Confidence            468999999999974 4 34678899999999999998888888899999999999999999887778899999999999


Q ss_pred             ecCCcccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           80 LKDWQYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        80 l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +++|.+....+.++..+++|+++++++|.+..
T Consensus       109 L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_         109 LYDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             cCCccccccCHHHhcCCccccccccccccccc
Confidence            99999877767778899999999999998753

>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=99.71  E-value=5.8e-17  Score=90.29  Aligned_cols=118  Identities=23%  Similarity=0.178  Sum_probs=93.6

Q ss_pred             cEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCc
Q 040556            5 QELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQ   84 (128)
Q Consensus         5 ~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~   84 (128)
                      ++|++++|.++.++ .+..+++|++|++++|.+. ..|..+..+++|+.|++++|.+...  +.++.+++|+++++++|.
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~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALENV--DGVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCCC--GGGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCc-ccccCCCCCEEECCCCccC-cchhhhhhhhccccccccccccccc--CccccccccCeEECCCCc
Confidence            57999999999887 4789999999999999965 5666789999999999999988753  358899999999999998


Q ss_pred             ccCcc-hHHhhcCCCCcEEeeecCCCCCC--CC-cCcCCCCCCCcc
Q 040556           85 YLSSL-PSTINGLKSLKILNLSSCSKLEN--VP-ENLGKVESLEEL  126 (128)
Q Consensus        85 ~~~~~-~~~~~~~~~L~~l~l~~n~~~~~--~~-~~~~~~~~L~~l  126 (128)
                      +.... ...+..+++|+++++++|++...  .+ .....+++++.+
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             cCCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcceE
Confidence            76532 35678899999999999997542  12 223345665543

>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=99.68  E-value=1.9e-16  Score=98.53  Aligned_cols=124  Identities=23%  Similarity=0.206  Sum_probs=80.7

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++|++++|.++.++. .|..+++|++|++++|.+.. ++. +..+++|+.|++++|++... +..+..++.|+.+++
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~-l~~-~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~L~~L~l  107 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK-LQV-DGTLPVLGTLDLSHNQLQSL-PLLGQTLPALTVLDV  107 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE-EEC-CSCCTTCCEEECCSSCCSSC-CCCTTTCTTCCEEEC
T ss_pred             cCCCEEECcCCcCCCcCHHHhhccccccccccccccccc-ccc-cccccccccccccccccccc-ccccccccccccccc
Confidence            357788888888887753 56778888888888887553 332 45667777777777665432 333444555555555


Q ss_pred             cCC------------------------cccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDW------------------------QYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~------------------------~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +++                        .+....+..+..++.++++++++|.+.+..+..++.+++|++|++
T Consensus       108 ~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~L  179 (266)
T d1p9ag_         108 SFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLL  179 (266)
T ss_dssp             CSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             cccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCccccccccccceeec
Confidence            544                        333333334455677888888888877666666777888887764

>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=99.63  E-value=3.4e-16  Score=99.33  Aligned_cols=120  Identities=19%  Similarity=0.339  Sum_probs=103.3

Q ss_pred             CCCCcEEEecC-CCCC-CcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEE
Q 040556            1 MKFLQELLLDG-TDIK-GLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         1 l~~L~~l~l~~-~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      +++|++|++++ |.+. .+|..+..+++|++|++++|.+.+..+..+..+.+|+.++++.|......|..++.++.++.+
T Consensus        75 L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l  154 (313)
T d1ogqa_          75 LPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGI  154 (313)
T ss_dssp             CTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEE
T ss_pred             CccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCccccee
Confidence            57899999987 7777 789999999999999999999888888888899999999999999888889999999999999


Q ss_pred             eecCCcccCcchHHhhcCCCC-cEEeeecCCCCCCCCcCcCCC
Q 040556           79 NLKDWQYLSSLPSTINGLKSL-KILNLSSCSKLENVPENLGKV  120 (128)
Q Consensus        79 ~l~~~~~~~~~~~~~~~~~~L-~~l~l~~n~~~~~~~~~~~~~  120 (128)
                      ++++|.+.+.+|..+..+..+ +.+++++|.+.+..+..++.+
T Consensus       155 ~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l  197 (313)
T d1ogqa_         155 TFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL  197 (313)
T ss_dssp             ECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGC
T ss_pred             ecccccccccccccccccccccccccccccccccccccccccc
Confidence            999999888888888887765 788888887766655555443

>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=99.61  E-value=4.4e-15  Score=93.03  Aligned_cols=109  Identities=21%  Similarity=0.191  Sum_probs=98.6

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      ++|+.+++++|.++.++. .+..+++++.|++++|.+....+..+..+++|+.+++++|++.+..|..+..+++++++++
T Consensus       129 ~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l  208 (284)
T d1ozna_         129 AALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYL  208 (284)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             cccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhcccccc
Confidence            578999999999998864 5778899999999999988777788899999999999999999888899999999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      ++|.+.+..+..++.+.+|+++++++|++.
T Consensus       209 ~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         209 FANNLSALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             CSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             cccccccccccccccccccCEEEecCCCCC
Confidence            999988888888999999999999999865

>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=99.61  E-value=1.1e-14  Score=91.96  Aligned_cols=60  Identities=20%  Similarity=0.053  Sum_probs=47.9

Q ss_pred             CCCcEEEecCCCCCCcch-hhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCC
Q 040556            2 KFLQELLLDGTDIKGLPL-SIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTA   61 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~-~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   61 (128)
                      +++++|++++|.++++++ .|..+++|+++++++|.+....|..|..+++|+.+++++|++
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l   91 (305)
T d1xkua_          31 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL   91 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCcc
Confidence            467888898888888875 577888888888888887777777788888888888876544

>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=99.60  E-value=2.4e-14  Score=85.47  Aligned_cols=117  Identities=21%  Similarity=0.276  Sum_probs=52.9

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.++.++. +..+++|+++++++|.+... +. +..+++|+.+++++|.....  ..+..+++|+.++++
T Consensus        62 ~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~-~~-l~~l~~L~~L~l~~~~~~~~--~~~~~l~~L~~L~l~  136 (199)
T d2omxa2          62 NNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADI-TP-LANLTNLTGLTLFNNQITDI--DPLKNLTNLNRLELS  136 (199)
T ss_dssp             TTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCC-GG-GTTCTTCSEEECCSSCCCCC--GGGTTCTTCSEEECC
T ss_pred             CCcCcCccccccccCccc-ccCCcccccccccccccccc-cc-cccccccccccccccccccc--cccchhhhhHHhhhh
Confidence            456666666666555442 55556666666665553322 11 34444455555444433321  123344555555555


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      +|.+.. ++ .+..+++++++++.+|.+.+. + .++.+++|++|+
T Consensus       137 ~n~l~~-~~-~l~~~~~L~~L~l~~n~l~~l-~-~l~~l~~L~~L~  178 (199)
T d2omxa2         137 SNTISD-IS-ALSGLTSLQQLNFSSNQVTDL-K-PLANLTTLERLD  178 (199)
T ss_dssp             SSCCCC-CG-GGTTCTTCSEEECCSSCCCCC-G-GGTTCTTCCEEE
T ss_pred             hhhhcc-cc-cccccccccccccccccccCC-c-cccCCCCCCEEE
Confidence            544322 21 233444444444444443321 1 234444444443

>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=99.60  E-value=3.3e-17  Score=98.13  Aligned_cols=123  Identities=20%  Similarity=0.196  Sum_probs=92.5

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.++.++ .+..+++|+.|++++|.+. ..+.....+++|+.|++++|.+...  +.+..+++|+.+++
T Consensus        47 L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~-~i~~~~~~~~~L~~L~l~~N~i~~l--~~~~~l~~L~~L~L  122 (198)
T d1m9la_          47 LKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIASL--SGIEKLVNLRVLYM  122 (198)
T ss_dssp             TTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEEC-SCSSHHHHHHHCCEEECSEEECCCH--HHHHHHHHSSEEEE
T ss_pred             ccccceeECcccCCCCcc-cccCCccccChhhcccccc-ccccccccccccccccccccccccc--cccccccccccccc
Confidence            467899999999998875 5788999999999999854 4454445567899999999877653  45778899999999


Q ss_pred             cCCcccCcc-hHHhhcCCCCcEEeeecCCCCCCCCcC----------cCCCCCCCccc
Q 040556           81 KDWQYLSSL-PSTINGLKSLKILNLSSCSKLENVPEN----------LGKVESLEELD  127 (128)
Q Consensus        81 ~~~~~~~~~-~~~~~~~~~L~~l~l~~n~~~~~~~~~----------~~~~~~L~~l~  127 (128)
                      ++|.+.... ...+..+++|+++++++|++....+..          +.++++|+.||
T Consensus       123 ~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         123 SNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             SEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEES
T ss_pred             ccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCcCEeC
Confidence            998865432 245788999999999999865433221          45677777765

>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=99.59  E-value=2.7e-14  Score=85.96  Aligned_cols=121  Identities=25%  Similarity=0.284  Sum_probs=83.4

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCccc----------------
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRE----------------   64 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~----------------   64 (128)
                      +++|++|++++|.++.++ .+..+++|++|++++|++.. .+ .+..+++|+.+++.+|.....                
T Consensus        67 l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n~i~~-l~-~l~~l~~L~~L~l~~~~~~~~~~l~~l~~l~~l~~~~  143 (210)
T d1h6ta2          67 LPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKVKD-LS-SLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGN  143 (210)
T ss_dssp             CTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCC-GG-GGTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCS
T ss_pred             CCCCCEEeCCCccccCcc-ccccCccccccccccccccc-cc-ccccccccccccccccccccccccccccccccccccc
Confidence            467888888888877665 35667788888888887544 33 356677777777776654321                


Q ss_pred             ----chhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           65 ----LSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        65 ----~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                          .+..+..+++|+++++.+|++.+ ++ .+.++++|++|++++|.+.+ ++ .+..+++|++|++
T Consensus       144 n~l~~~~~~~~l~~L~~l~l~~n~l~~-i~-~l~~l~~L~~L~Ls~N~i~~-l~-~l~~l~~L~~L~L  207 (210)
T d1h6ta2         144 NKITDITVLSRLTKLDTLSLEDNQISD-IV-PLAGLTKLQNLYLSKNHISD-LR-ALAGLKNLDVLEL  207 (210)
T ss_dssp             SCCCCCGGGGGCTTCSEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCCB-CG-GGTTCTTCSEEEE
T ss_pred             ccccccccccccccccccccccccccc-cc-cccCCCCCCEEECCCCCCCC-Ch-hhcCCCCCCEEEc
Confidence                11234567788888888887654 33 37788889999999888654 44 4788888888764

>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=99.56  E-value=5.6e-14  Score=78.01  Aligned_cols=100  Identities=17%  Similarity=0.167  Sum_probs=80.6

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~   79 (128)
                      +++|++|++++|.++++|..+..+++|+.|++++|.+... | .+..+++|+.+++++|.+.... ...++.+++|+.++
T Consensus        19 l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l-~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~   96 (124)
T d1dcea3          19 LLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV-D-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLN   96 (124)
T ss_dssp             GTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCC-G-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEE
T ss_pred             CCCCCEEECCCCccCcchhhhhhhhccccccccccccccc-C-ccccccccCeEECCCCccCCCCCchhhcCCCCCCEEE
Confidence            4679999999999999998899999999999999996654 4 3889999999999999887543 35688899999999


Q ss_pred             ecCCcccCc--ch-HHhhcCCCCcEE
Q 040556           80 LKDWQYLSS--LP-STINGLKSLKIL  102 (128)
Q Consensus        80 l~~~~~~~~--~~-~~~~~~~~L~~l  102 (128)
                      +++|++...  .+ .....+++++.+
T Consensus        97 l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          97 LQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCCCcCCcCccHHHHHHHHCcCcceE
Confidence            999987542  22 233456666654

>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=99.55  E-value=6.4e-14  Score=88.36  Aligned_cols=106  Identities=20%  Similarity=0.219  Sum_probs=63.0

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|+.+++.+|.+..++..+  +++++.+++++|......+..+..++.++.|++++|.+.+..+..+..+++|+.|+++
T Consensus       150 ~~L~~l~l~~n~l~~l~~~~--~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~  227 (305)
T d1xkua_         150 KKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLN  227 (305)
T ss_dssp             TTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECC
T ss_pred             cccCccccccCCccccCccc--CCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeecc
Confidence            44566666666665554332  4566666666666555555556666666666666666655555555666666666666


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      +|.+. .+|.++..+++|++|++++|.+.
T Consensus       228 ~N~L~-~lp~~l~~l~~L~~L~Ls~N~i~  255 (305)
T d1xkua_         228 NNKLV-KVPGGLADHKYIQVVYLHNNNIS  255 (305)
T ss_dssp             SSCCS-SCCTTTTTCSSCCEEECCSSCCC
T ss_pred             ccccc-ccccccccccCCCEEECCCCccC
Confidence            66533 34555666666666666666544

>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=99.55  E-value=1.3e-13  Score=82.86  Aligned_cols=120  Identities=23%  Similarity=0.283  Sum_probs=87.2

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      .+++.++++++.++.++ .+..+++|++|++++|.+.+..+  +..+++|+.|++++|++.. ++ .+..+++|+.+++.
T Consensus        46 ~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~L~~n~i~~l~~--~~~l~~L~~L~l~~n~i~~-l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKD-LS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCC-GG-GGTTCTTCCEEECT
T ss_pred             cCccEEECcCCCCCCch-hHhhCCCCCEEeCCCccccCccc--cccCccccccccccccccc-cc-cccccccccccccc
Confidence            46889999999998765 47889999999999999766443  6789999999999998765 33 57778889999998


Q ss_pred             CCcccCc--------------------chHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           82 DWQYLSS--------------------LPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~--------------------~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +|.....                    .+..+..+++|+++++++|.+.+ ++ .++.+++|+.+++
T Consensus       121 ~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~l~~-i~-~l~~l~~L~~L~L  185 (210)
T d1h6ta2         121 HNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISD-IV-PLAGLTKLQNLYL  185 (210)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCC-CG-GGTTCTTCCEEEC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc-cc-cccCCCCCCEEEC
Confidence            8754321                    01123445667777777776544 33 3667777777654

>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=99.55  E-value=3.9e-14  Score=81.59  Aligned_cols=106  Identities=15%  Similarity=-0.070  Sum_probs=85.3

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCC-CcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCK-NISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~-~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ..+.++..++.+.++|..+..+++++.|++++++ +....+..|..+++|+.|++++|++....+..|..+++|++++++
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~Ls   88 (156)
T d2ifga3           9 GSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            3456777888787888888889999999998765 555556678889999999999999888777888899999999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~  109 (128)
                      +|++. .+|..+.....|+++++++|++
T Consensus        89 ~N~l~-~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          89 FNALE-SLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             SSCCS-CCCSTTTCSCCCCEEECCSSCC
T ss_pred             CCCCc-ccChhhhccccccccccCCCcc
Confidence            99866 4554444445799999999986

>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=99.54  E-value=1.6e-13  Score=81.89  Aligned_cols=117  Identities=25%  Similarity=0.298  Sum_probs=95.0

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++|++|++++|.+..++ .+..+++|+.++++++......  .+..+++|+.+++++|.+...  +.+..+++++.+++
T Consensus        83 l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~~~~~~~~--~~~~l~~L~~L~l~~n~l~~~--~~l~~~~~L~~L~l  157 (199)
T d2omxa2          83 LTKLVDILMNNNQIADIT-PLANLTNLTGLTLFNNQITDID--PLKNLTNLNRLELSSNTISDI--SALSGLTSLQQLNF  157 (199)
T ss_dssp             CTTCCEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCCCCG--GGTTCTTCSEEECCSSCCCCC--GGGTTCTTCSEEEC
T ss_pred             Cccccccccccccccccc-cccccccccccccccccccccc--ccchhhhhHHhhhhhhhhccc--cccccccccccccc
Confidence            468999999999988776 4788999999999999865543  367899999999999987542  45778999999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcc
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEEL  126 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l  126 (128)
                      .+|.+.. ++ .++++++|++|++++|.+.+ ++ .++.+++|+.|
T Consensus       158 ~~n~l~~-l~-~l~~l~~L~~L~ls~N~i~~-i~-~l~~L~~L~~L  199 (199)
T d2omxa2         158 SSNQVTD-LK-PLANLTTLERLDISSNKVSD-IS-VLAKLTNLESL  199 (199)
T ss_dssp             CSSCCCC-CG-GGTTCTTCCEEECCSSCCCC-CG-GGGGCTTCSEE
T ss_pred             ccccccC-Cc-cccCCCCCCEEECCCCCCCC-Cc-cccCCCCCCcC
Confidence            9998654 43 48899999999999998755 43 47788888764

>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=99.54  E-value=2.7e-14  Score=82.73  Aligned_cols=103  Identities=15%  Similarity=0.137  Sum_probs=84.1

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEe
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLN   79 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~   79 (128)
                      +++|+.|++++|.++.++ .+..+++|++|++++|.+....+..+..+++|+.|++++|.+.... ...+..+++|++++
T Consensus        40 l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~  118 (162)
T d1a9na_          40 LDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLC  118 (162)
T ss_dssp             TTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEE
T ss_pred             cccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCccccccccccccceeccccccccccccccccccccchhh
Confidence            467999999999999875 5788999999999999977766666678999999999999886532 25678899999999


Q ss_pred             ecCCcccCcc---hHHhhcCCCCcEEee
Q 040556           80 LKDWQYLSSL---PSTINGLKSLKILNL  104 (128)
Q Consensus        80 l~~~~~~~~~---~~~~~~~~~L~~l~l  104 (128)
                      +.+|.+....   +..+..+++|++||-
T Consensus       119 l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_         119 ILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             CCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cCCCccccccchHHHHHHHCCCcCeeCC
Confidence            9999865431   235778999999874

>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=99.53  E-value=1.9e-13  Score=88.15  Aligned_cols=120  Identities=21%  Similarity=0.208  Sum_probs=76.1

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccc--------------------hhhhcccccCCEEecCCCCC
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCL--------------------SNFISALKFLSTLNLSDGTA   61 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~--------------------~~~~~~l~~L~~L~l~~~~~   61 (128)
                      ++++.+++.+|.+..++ .+..+++|+.++++++.+.+..                    ...+..+++++.+++++|++
T Consensus       241 ~~L~~L~l~~n~l~~~~-~~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l  319 (384)
T d2omza2         241 TNLTDLDLANNQISNLA-PLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNI  319 (384)
T ss_dssp             TTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCC
T ss_pred             cccchhccccCccCCCC-cccccccCCEeeccCcccCCCCccccccccccccccccccccccccchhcccCeEECCCCCC
Confidence            34455555555544433 2444555555555555433211                    12245566777777777766


Q ss_pred             cccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           62 IRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        62 ~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+..  .+..+++|+.+++++|.+.. ++ .+.++++|+++++++|.+.+..|  ++++++|+.|++
T Consensus       320 ~~l~--~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~--l~~l~~L~~L~L  380 (384)
T d2omza2         320 SDIS--PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTP--LANLTRITQLGL  380 (384)
T ss_dssp             SCCG--GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGG--GTTCTTCSEEEC
T ss_pred             CCCc--ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChh--hccCCCCCEeeC
Confidence            5532  36778889999999887543 44 57888999999999888766433  788888888875

>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=99.41  E-value=4.2e-12  Score=81.78  Aligned_cols=120  Identities=21%  Similarity=0.252  Sum_probs=90.5

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc----------------
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL----------------   65 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~----------------   65 (128)
                      ++|+++++.+|.++.++ .+..+++++.+++++|.+.+..+  +..+++|+.++++++.+.+..                
T Consensus       219 ~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n  295 (384)
T d2omza2         219 TNLDELSLNGNQLKDIG-TLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNEN  295 (384)
T ss_dssp             TTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSS
T ss_pred             CCCCEEECCCCCCCCcc-hhhcccccchhccccCccCCCCc--ccccccCCEeeccCcccCCCCcccccccccccccccc
Confidence            56788888888888765 56788899999999998665543  677888999998887664321                


Q ss_pred             ----hhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           66 ----SLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        66 ----~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                          ...+..+++++++++++|++.+. + .+..+++|++|++++|.+.+ ++ .++.+++|+++++
T Consensus       296 ~l~~~~~~~~~~~l~~L~ls~n~l~~l-~-~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l  358 (384)
T d2omza2         296 QLEDISPISNLKNLTYLTLYFNNISDI-S-PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSA  358 (384)
T ss_dssp             CCSCCGGGGGCTTCSEEECCSSCCSCC-G-GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEEC
T ss_pred             ccccccccchhcccCeEECCCCCCCCC-c-ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEEC
Confidence                12355667888888888876553 3 37788999999999998754 33 5788999998875

>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=99.41  E-value=5.2e-12  Score=76.49  Aligned_cols=55  Identities=18%  Similarity=0.216  Sum_probs=33.3

Q ss_pred             hhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           69 VELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        69 ~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      ++.+++|+.+++++|.+.. ++. +.++++|++|++++|++.+ +++ ++++++|+.++
T Consensus       169 l~~l~~L~~L~Ls~n~l~~-l~~-l~~l~~L~~L~Ls~N~lt~-i~~-l~~l~~L~~L~  223 (227)
T d1h6ua2         169 LANLSKLTTLKADDNKISD-ISP-LASLPNLIEVHLKNNQISD-VSP-LANTSNLFIVT  223 (227)
T ss_dssp             GTTCTTCCEEECCSSCCCC-CGG-GGGCTTCCEEECTTSCCCB-CGG-GTTCTTCCEEE
T ss_pred             hcccccceecccCCCccCC-Chh-hcCCCCCCEEECcCCcCCC-Ccc-cccCCCCCEEE
Confidence            5556667777776665433 332 5666777777777776543 332 56667776665

>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=99.40  E-value=6e-12  Score=76.22  Aligned_cols=119  Identities=22%  Similarity=0.257  Sum_probs=90.8

Q ss_pred             CCCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEee
Q 040556            1 MKFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNL   80 (128)
Q Consensus         1 l~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l   80 (128)
                      +++++++.+++|.++.++ .+..+++|+.++++++......+  +...+.++.+.++.+.+...  ..+..+++++.+++
T Consensus        84 l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~--~~~~~~~~L~~L~l  158 (227)
T d1h6ua2          84 LTKITELELSGNPLKNVS-AIAGLQSIKTLDLTSTQITDVTP--LAGLSNLQVLYLDLNQITNI--SPLAGLTNLQYLSI  158 (227)
T ss_dssp             CCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTTSCCCCCGG--GTTCTTCCEEECCSSCCCCC--GGGGGCTTCCEEEC
T ss_pred             cccccccccccccccccc-cccccccccccccccccccccch--hccccchhhhhchhhhhchh--hhhccccccccccc
Confidence            467888999999888765 57788999999999887554433  56678888998888776543  23567788999999


Q ss_pred             cCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCcccC
Q 040556           81 KDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      .+|.+....  .+.++++|+++++++|.+.+ ++ .++.+++|++|++
T Consensus       159 ~~n~~~~~~--~l~~l~~L~~L~Ls~n~l~~-l~-~l~~l~~L~~L~L  202 (227)
T d1h6ua2         159 GNAQVSDLT--PLANLSKLTTLKADDNKISD-IS-PLASLPNLIEVHL  202 (227)
T ss_dssp             CSSCCCCCG--GGTTCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEEC
T ss_pred             cccccccch--hhcccccceecccCCCccCC-Ch-hhcCCCCCCEEEC
Confidence            988755432  37788999999999998654 43 3788889988875

>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=99.39  E-value=1.3e-12  Score=81.73  Aligned_cols=58  Identities=26%  Similarity=0.308  Sum_probs=30.4

Q ss_pred             hhcCCCcEEeecCCc-ccCcchHHhhcCCCCcEEeeecCC-CCCCCCcCcCCCCCCCccc
Q 040556           70 ELLTGLVVLNLKDWQ-YLSSLPSTINGLKSLKILNLSSCS-KLENVPENLGKVESLEELD  127 (128)
Q Consensus        70 ~~l~~L~~l~l~~~~-~~~~~~~~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~~~L~~l~  127 (128)
                      ..+++|+++++++|. +.......+.++++|++|++++|. +.+.....++++++|++++
T Consensus       172 ~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~  231 (284)
T d2astb2         172 RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQ  231 (284)
T ss_dssp             HHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEE
T ss_pred             cccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEe
Confidence            345666666666543 232334445566666666666643 3333333455556666554

>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=99.35  E-value=2.3e-12  Score=80.61  Aligned_cols=127  Identities=24%  Similarity=0.324  Sum_probs=70.1

Q ss_pred             CCCcEEEecCCCCC-CcchhhhccCcccEEeccCCCCccc--chhhhcccccCCEEecCCCCC-ccc-chhhhhh-cCCC
Q 040556            2 KFLQELLLDGTDIK-GLPLSIVLLSGIVQLDLKGCKNISC--LSNFISALKFLSTLNLSDGTA-IRE-LSLSVEL-LTGL   75 (128)
Q Consensus         2 ~~L~~l~l~~~~~~-~~~~~~~~l~~L~~l~l~~~~~~~~--~~~~~~~l~~L~~L~l~~~~~-~~~-~~~~~~~-l~~L   75 (128)
                      ++|++|.+.++.+. ..+..+..+++|+.|++++|...+.  .......+++|++|++++|.. ... ....+.. ++.|
T Consensus        71 ~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L  150 (284)
T d2astb2          71 SKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETI  150 (284)
T ss_dssp             CCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTC
T ss_pred             CCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchhhhccccccc
Confidence            45666666666555 3344555566666666666532221  112223456666666666532 221 1222222 3567


Q ss_pred             cEEeecCCc--ccC-cchHHhhcCCCCcEEeeecCC-CCCCCCcCcCCCCCCCcccC
Q 040556           76 VVLNLKDWQ--YLS-SLPSTINGLKSLKILNLSSCS-KLENVPENLGKVESLEELDI  128 (128)
Q Consensus        76 ~~l~l~~~~--~~~-~~~~~~~~~~~L~~l~l~~n~-~~~~~~~~~~~~~~L~~l~l  128 (128)
                      +.+++.++.  +.. .+.....++++|++|++++|. +.+.....++.+++|+++++
T Consensus       151 ~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L  207 (284)
T d2astb2         151 TQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSL  207 (284)
T ss_dssp             CEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEEC
T ss_pred             chhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCEEEC
Confidence            777766542  111 123334567889999998875 44455666778888888764

>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=99.32  E-value=5.6e-14  Score=83.89  Aligned_cols=120  Identities=22%  Similarity=0.205  Sum_probs=91.1

Q ss_pred             CcEEEecCC--CCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            4 LQELLLDGT--DIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         4 L~~l~l~~~--~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++.+.+.+.  .++.++..+..+++|++|++++|.+... + .+..+++|+.|++++|.+.. ++.....++.|+.++++
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I~~i-~-~l~~l~~L~~L~Ls~N~i~~-i~~~~~~~~~L~~L~l~  101 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKI-S-SLSGMENLRILSLGRNLIKK-IENLDAVADTLEELWIS  101 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEEESCC-C-CHHHHTTCCEEECCEEEECS-CSSHHHHHHHCCEEECS
T ss_pred             cceeeeecccCchhhhhhHHhcccccceeECcccCCCCc-c-cccCCccccChhhccccccc-ccccccccccccccccc
Confidence            344555553  3556778899999999999999996654 3 47889999999999988654 45455556789999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCCCC-CcCcCCCCCCCcccC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLENV-PENLGKVESLEELDI  128 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~-~~~~~~~~~L~~l~l  128 (128)
                      +|.+.. + +.+..+++|+++++++|.+.... ...++.+++|+.+++
T Consensus       102 ~N~i~~-l-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L  147 (198)
T d1m9la_         102 YNQIAS-L-SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLL  147 (198)
T ss_dssp             EEECCC-H-HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEE
T ss_pred             cccccc-c-ccccccccccccccccchhccccccccccCCCccceeec
Confidence            998664 3 34778899999999999876531 135788899988763

>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=99.28  E-value=1.8e-11  Score=70.26  Aligned_cols=103  Identities=17%  Similarity=-0.007  Sum_probs=78.5

Q ss_pred             cCcccEEeccCCCCcccchhhhcccccCCEEecCCCC-CcccchhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEE
Q 040556           24 LSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGT-AIRELSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKIL  102 (128)
Q Consensus        24 l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l  102 (128)
                      +.....++.+++. ....|..+..+++++.|++.+++ +....+..|..+++|+.+++++|.+....+.++..+++|+++
T Consensus         7 c~~~~~l~c~~~~-~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L   85 (156)
T d2ifga3           7 PHGSSGLRCTRDG-ALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRL   85 (156)
T ss_dssp             CSSSSCEECCSSC-CCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEE
T ss_pred             cCCCCeEEecCCC-CccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccce
Confidence            3445667777776 44456667888999999998765 555556778899999999999999877667889999999999


Q ss_pred             eeecCCCCCCCCcCcCCCCCCCcccC
Q 040556          103 NLSSCSKLENVPENLGKVESLEELDI  128 (128)
Q Consensus       103 ~l~~n~~~~~~~~~~~~~~~L~~l~l  128 (128)
                      ++++|.+....+..+. ..+++.+++
T Consensus        86 ~Ls~N~l~~l~~~~~~-~~~l~~L~L  110 (156)
T d2ifga3          86 NLSFNALESLSWKTVQ-GLSLQELVL  110 (156)
T ss_dssp             ECCSSCCSCCCSTTTC-SCCCCEEEC
T ss_pred             eccCCCCcccChhhhc-ccccccccc
Confidence            9999997754333344 346777654

>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=99.17  E-value=6.3e-11  Score=72.10  Aligned_cols=102  Identities=15%  Similarity=0.178  Sum_probs=46.9

Q ss_pred             EEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccc-hhhhhhcCCCcEEeecCC-
Q 040556            6 ELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIREL-SLSVELLTGLVVLNLKDW-   83 (128)
Q Consensus         6 ~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~l~l~~~-   83 (128)
                      .++..+..++.+|..+.  +++++|++++|.+....+..|.++++|++|++++|.+.+.+ +..+..++.++.+.+.++ 
T Consensus        12 ~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n   89 (242)
T d1xwdc1          12 VFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN   89 (242)
T ss_dssp             EEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCT
T ss_pred             EEEEeCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccc
Confidence            34444444444443321  34555555555544333334555555555555555444332 223444555555554432 


Q ss_pred             cccCcchHHhhcCCCCcEEeeecCCC
Q 040556           84 QYLSSLPSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        84 ~~~~~~~~~~~~~~~L~~l~l~~n~~  109 (128)
                      .+....+..+..+++|+++++.+|.+
T Consensus        90 ~l~~~~~~~~~~l~~L~~l~l~~~~l  115 (242)
T d1xwdc1          90 NLLYINPEAFQNLPNLQYLLISNTGI  115 (242)
T ss_dssp             TCCEECTTSEECCTTCCEEEEESCCC
T ss_pred             cccccccccccccccccccccchhhh
Confidence            22223333344555555555555543

>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=99.14  E-value=1.5e-10  Score=70.36  Aligned_cols=124  Identities=23%  Similarity=0.138  Sum_probs=68.9

Q ss_pred             CCCcEEEecCCCCCCcch--hhhccCcccEEeccCCCCcccchhhhcccc-cCCEEecCCCCCcccchhhhhhcCCCcEE
Q 040556            2 KFLQELLLDGTDIKGLPL--SIVLLSGIVQLDLKGCKNISCLSNFISALK-FLSTLNLSDGTAIRELSLSVELLTGLVVL   78 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~--~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~l~~L~~l   78 (128)
                      ++|+++++.++.+...+.  .+..+..+..+...++.+....+..+..++ .++.+++.+|.+....+ ......+++.+
T Consensus       103 ~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~-~~~~~~~l~~~  181 (242)
T d1xwdc1         103 PNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHN-CAFNGTQLDEL  181 (242)
T ss_dssp             TTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECT-TTTTTCCEEEE
T ss_pred             ccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeeccccccccccc-ccccchhhhcc
Confidence            445555555555543221  122233333333444443333333444443 56677777766654333 33344555555


Q ss_pred             ee-cCCcccCcch-HHhhcCCCCcEEeeecCCCCCCCCcCcCCCCCCCccc
Q 040556           79 NL-KDWQYLSSLP-STINGLKSLKILNLSSCSKLENVPENLGKVESLEELD  127 (128)
Q Consensus        79 ~l-~~~~~~~~~~-~~~~~~~~L~~l~l~~n~~~~~~~~~~~~~~~L~~l~  127 (128)
                      .. .+|. ...+| ..+.++++|+++++++|.+....+..+.++++|++++
T Consensus       182 ~~l~~n~-l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~  231 (242)
T d1xwdc1         182 NLSDNNN-LEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARS  231 (242)
T ss_dssp             ECTTCTT-CCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSS
T ss_pred             ccccccc-cccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCc
Confidence            44 4444 44454 4577889999999999997654445678888887765

>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=99.08  E-value=1.1e-10  Score=76.21  Aligned_cols=109  Identities=20%  Similarity=0.138  Sum_probs=83.0

Q ss_pred             CCCcEEEecCCCCC--CcchhhhccCcccEEeccCCCCccc----chhhhcccccCCEEecCCCCCcccchhhhh-----
Q 040556            2 KFLQELLLDGTDIK--GLPLSIVLLSGIVQLDLKGCKNISC----LSNFISALKFLSTLNLSDGTAIRELSLSVE-----   70 (128)
Q Consensus         2 ~~L~~l~l~~~~~~--~~~~~~~~l~~L~~l~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~-----   70 (128)
                      .+|+.|+++++.++  .+..-+..+++++++++++|.+...    ++..+..+++|+.|++++|.+.......+.     
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            36889999999998  3455677889999999999987643    345567889999999999987543222222     


Q ss_pred             hcCCCcEEeecCCcccCc----chHHhhcCCCCcEEeeecCCCC
Q 040556           71 LLTGLVVLNLKDWQYLSS----LPSTINGLKSLKILNLSSCSKL  110 (128)
Q Consensus        71 ~l~~L~~l~l~~~~~~~~----~~~~~~~~~~L~~l~l~~n~~~  110 (128)
                      ...+|+.+++++|.+...    ++.++..++.|+++++++|.+.
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCCEEECCCCCccccccccccchhhccccccccccccccch
Confidence            124799999999987543    4556677899999999998864

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.86  E-value=2.4e-09  Score=68.21  Aligned_cols=35  Identities=14%  Similarity=0.018  Sum_probs=18.0

Q ss_pred             CCCcEEEecCCCCCC-----cchhhhccCcccEEeccCCC
Q 040556            2 KFLQELLLDGTDIKG-----LPLSIVLLSGIVQLDLKGCK   36 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~-----~~~~~~~l~~L~~l~l~~~~   36 (128)
                      ++|+.|++++|.+..     +...+..+++|+.+++++|.
T Consensus        93 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1          93 PKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             TTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSC
T ss_pred             CCcccccccccccccccccchhhhhcccccchheeccccc
Confidence            345666666665542     12233345556666665554

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.86  E-value=6.4e-09  Score=66.17  Aligned_cols=84  Identities=14%  Similarity=0.095  Sum_probs=37.2

Q ss_pred             CCcEEEecCCCCCC-----cchhhhccCcccEEeccCCCCccc-----chhhhcccccCCEEecCCCCCccc----chhh
Q 040556            3 FLQELLLDGTDIKG-----LPLSIVLLSGIVQLDLKGCKNISC-----LSNFISALKFLSTLNLSDGTAIRE----LSLS   68 (128)
Q Consensus         3 ~L~~l~l~~~~~~~-----~~~~~~~l~~L~~l~l~~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~   68 (128)
                      .++.+.++++.++.     +...+..++.++.++++.|.+...     ....+..+++|+.|++++|.+...    +...
T Consensus       159 ~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~  238 (344)
T d2ca6a1         159 PLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIA  238 (344)
T ss_dssp             CCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHH
T ss_pred             ccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccccccccccc
Confidence            34455555554431     122233445555555555554321     112233445555555555544321    2233


Q ss_pred             hhhcCCCcEEeecCCccc
Q 040556           69 VELLTGLVVLNLKDWQYL   86 (128)
Q Consensus        69 ~~~l~~L~~l~l~~~~~~   86 (128)
                      +..+++|+++++++|.+.
T Consensus       239 l~~~~~L~~L~Ls~n~i~  256 (344)
T d2ca6a1         239 LKSWPNLRELGLNDCLLS  256 (344)
T ss_dssp             GGGCTTCCEEECTTCCCC
T ss_pred             ccccccchhhhhhcCccC
Confidence            344455555555555443

>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=98.75  E-value=7.2e-10  Score=63.76  Aligned_cols=82  Identities=24%  Similarity=0.148  Sum_probs=48.2

Q ss_pred             cccccCCEEecCCCCCccc--chhhhhhcCCCcEEeecCCcccCcchHHhhcCCCCcEEeeecCCCCCCCCc-------C
Q 040556           46 SALKFLSTLNLSDGTAIRE--LSLSVELLTGLVVLNLKDWQYLSSLPSTINGLKSLKILNLSSCSKLENVPE-------N  116 (128)
Q Consensus        46 ~~l~~L~~L~l~~~~~~~~--~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~~~~~-------~  116 (128)
                      ..+++|+.|++++|++...  .+..+..+++|+.+++++|.+...-+-.......|+++++.+|++......       .
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i  141 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAI  141 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHH
Confidence            4567777777777776543  234456677777777777765543222223344577777777776543321       2


Q ss_pred             cCCCCCCCccc
Q 040556          117 LGKVESLEELD  127 (128)
Q Consensus       117 ~~~~~~L~~l~  127 (128)
                      +..+|+|+.||
T Consensus       142 ~~~~P~L~~LD  152 (162)
T d1koha1         142 RERFPKLLRLD  152 (162)
T ss_dssp             HTTSTTCCEET
T ss_pred             HHHCCCCCEEC
Confidence            44566666654

>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=98.73  E-value=6e-08  Score=61.17  Aligned_cols=95  Identities=21%  Similarity=0.162  Sum_probs=71.3

Q ss_pred             CCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhc-CCCcEEeec
Q 040556            3 FLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELL-TGLVVLNLK   81 (128)
Q Consensus         3 ~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l-~~L~~l~l~   81 (128)
                      ++++|+++++.++.+|..   .++|++|++++|.+. .+|..   ..+|+.|++.+|.+... +    .+ +.|++++++
T Consensus        39 ~l~~LdLs~~~L~~lp~~---~~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~l~~n~l~~l-~----~lp~~L~~L~L~  106 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL---PPHLESLVASCNSLT-ELPEL---PQSLKSLLVDNNNLKAL-S----DLPPLLEYLGVS  106 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC---CTTCSEEECCSSCCS-SCCCC---CTTCCEEECCSSCCSCC-C----SCCTTCCEEECC
T ss_pred             CCCEEEeCCCCCCCCCCC---CCCCCEEECCCCCCc-ccccc---hhhhhhhhhhhcccchh-h----hhcccccccccc
Confidence            578999999999888853   568999999999855 55543   45789999998876542 2    22 368999999


Q ss_pred             CCcccCcchHHhhcCCCCcEEeeecCCCCC
Q 040556           82 DWQYLSSLPSTINGLKSLKILNLSSCSKLE  111 (128)
Q Consensus        82 ~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  111 (128)
                      +|.+. .+|. .+.++.|++++++++.+..
T Consensus       107 ~n~l~-~lp~-~~~l~~L~~L~l~~~~~~~  134 (353)
T d1jl5a_         107 NNQLE-KLPE-LQNSSFLKIIDVDNNSLKK  134 (353)
T ss_dssp             SSCCS-SCCC-CTTCTTCCEEECCSSCCSC
T ss_pred             ccccc-cccc-hhhhccceeeccccccccc
Confidence            98754 4554 5778899999998887543

>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=98.70  E-value=6e-09  Score=59.81  Aligned_cols=84  Identities=18%  Similarity=0.071  Sum_probs=62.0

Q ss_pred             hhhccCcccEEeccCCCCcccc--hhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeecCCcccCcch-------
Q 040556           20 SIVLLSGIVQLDLKGCKNISCL--SNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLKDWQYLSSLP-------   90 (128)
Q Consensus        20 ~~~~l~~L~~l~l~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~-------   90 (128)
                      ....+++|++|++++|++....  +..+..+++|+.|++++|.+....+-.......++.+++.+|++.....       
T Consensus        60 ~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~  139 (162)
T d1koha1          60 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYIS  139 (162)
T ss_dssp             HHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHH
T ss_pred             HHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHH
Confidence            3356899999999999977653  3456779999999999998876443333344578999999998765322       


Q ss_pred             HHhhcCCCCcEEe
Q 040556           91 STINGLKSLKILN  103 (128)
Q Consensus        91 ~~~~~~~~L~~l~  103 (128)
                      ..+..+++|++||
T Consensus       140 ~i~~~~P~L~~LD  152 (162)
T d1koha1         140 AIRERFPKLLRLD  152 (162)
T ss_dssp             HHHTTSTTCCEET
T ss_pred             HHHHHCCCCCEEC
Confidence            2345688999886

>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=98.69  E-value=4.7e-09  Score=68.39  Aligned_cols=104  Identities=17%  Similarity=0.221  Sum_probs=75.7

Q ss_pred             CcccEEeccCCCCcccc-hhhhcccccCCEEecCCCCCcc----cchhhhhhcCCCcEEeecCCcccCcchHHhh-----
Q 040556           25 SGIVQLDLKGCKNISCL-SNFISALKFLSTLNLSDGTAIR----ELSLSVELLTGLVVLNLKDWQYLSSLPSTIN-----   94 (128)
Q Consensus        25 ~~L~~l~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~-----   94 (128)
                      ++|+.||++++++++.. ...+..+.+++.|++.+|.+..    .+...+..+++|+.|++++|.+...-...+.     
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            36899999999987643 3445678899999999998764    2345567889999999999976432112222     


Q ss_pred             cCCCCcEEeeecCCCCCC----CCcCcCCCCCCCcccC
Q 040556           95 GLKSLKILNLSSCSKLEN----VPENLGKVESLEELDI  128 (128)
Q Consensus        95 ~~~~L~~l~l~~n~~~~~----~~~~~~~~~~L~~l~l  128 (128)
                      ...+|++|++++|.+.+.    ++..+..+++|+++++
T Consensus        82 ~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L  119 (460)
T d1z7xw1          82 PSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHL  119 (460)
T ss_dssp             TTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEEC
T ss_pred             CCCCCCEEECCCCCccccccccccchhhcccccccccc
Confidence            234799999999987654    3455677888888764

>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=98.54  E-value=9.5e-07  Score=55.53  Aligned_cols=76  Identities=14%  Similarity=0.169  Sum_probs=58.1

Q ss_pred             CCCcEEEecCCCCCCcchhhhccCcccEEeccCCCCcccchhhhcccccCCEEecCCCCCcccchhhhhhcCCCcEEeec
Q 040556            2 KFLQELLLDGTDIKGLPLSIVLLSGIVQLDLKGCKNISCLSNFISALKFLSTLNLSDGTAIRELSLSVELLTGLVVLNLK   81 (128)
Q Consensus         2 ~~L~~l~l~~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~l~l~   81 (128)
                      ++|++|++++|.++.+|..   ..+|+.|++++|++... +. +  .+.|++|++++|.+.. +|. ++.+++|+++++.
T Consensus        58 ~~L~~L~Ls~N~l~~lp~~---~~~L~~L~l~~n~l~~l-~~-l--p~~L~~L~L~~n~l~~-lp~-~~~l~~L~~L~l~  128 (353)
T d1jl5a_          58 PHLESLVASCNSLTELPEL---PQSLKSLLVDNNNLKAL-SD-L--PPLLEYLGVSNNQLEK-LPE-LQNSSFLKIIDVD  128 (353)
T ss_dssp             TTCSEEECCSSCCSSCCCC---CTTCCEEECCSSCCSCC-CS-C--CTTCCEEECCSSCCSS-CCC-CTTCTTCCEEECC
T ss_pred             CCCCEEECCCCCCcccccc---hhhhhhhhhhhcccchh-hh-h--cccccccccccccccc-ccc-hhhhccceeeccc
Confidence            5789999999999988854   46899999999985533 22 1  2469999999988664 443 5678999999998


Q ss_pred             CCccc
Q 040556           82 DWQYL   86 (128)
Q Consensus        82 ~~~~~   86 (128)
                      ++.+.
T Consensus       129 ~~~~~  133 (353)
T d1jl5a_         129 NNSLK  133 (353)
T ss_dssp             SSCCS
T ss_pred             ccccc
Confidence            87654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=98.49  E-value=7.6e-07  Score=51.04  Aligned_cols=106  Identities=17%  Similarity=0.119  Sum_probs=70.1

Q ss_pred             CCCcEEEecCC-CCC-C----cchhhhccCcccEEeccCCCCccc----chhhhcccccCCEEecCCCCCcccc----hh
Q 040556            2 KFLQELLLDGT-DIK-G----LPLSIVLLSGIVQLDLKGCKNISC----LSNFISALKFLSTLNLSDGTAIREL----SL   67 (128)
Q Consensus         2 ~~L~~l~l~~~-~~~-~----~~~~~~~l~~L~~l~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~----~~   67 (128)
                      +.|++|+++++ .++ +    +-..+...+.++.|++++|.+...    ....+...+.|+.|++++|.+....    ..
T Consensus        15 ~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~   94 (167)
T d1pgva_          15 TDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLR   94 (167)
T ss_dssp             SSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHH
T ss_pred             CCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHH
Confidence            56888999874 465 2    233455667899999998886643    2334455678899999998876532    23


Q ss_pred             hhhhcCCCcEEeecCCcccC-------cchHHhhcCCCCcEEeeecC
Q 040556           68 SVELLTGLVVLNLKDWQYLS-------SLPSTINGLKSLKILNLSSC  107 (128)
Q Consensus        68 ~~~~l~~L~~l~l~~~~~~~-------~~~~~~~~~~~L~~l~l~~n  107 (128)
                      .+...++|+++++.+|....       .+...+...+.|+.++++.+
T Consensus        95 aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          95 STLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            45556779999998764332       13445556678888887654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=98.34  E-value=5.9e-07  Score=51.52  Aligned_cols=87  Identities=14%  Similarity=0.080  Sum_probs=63.8

Q ss_pred             ccCcccEEeccCCC-Cccc----chhhhcccccCCEEecCCCCCccc----chhhhhhcCCCcEEeecCCcccCc----c
Q 040556           23 LLSGIVQLDLKGCK-NISC----LSNFISALKFLSTLNLSDGTAIRE----LSLSVELLTGLVVLNLKDWQYLSS----L   89 (128)
Q Consensus        23 ~l~~L~~l~l~~~~-~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~l~l~~~~~~~~----~   89 (128)
                      ..++|+.|+++++. +...    ....+...++|+.|++++|.+...    +...+...+.|+.+++++|.+...    +
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            45889999999754 4432    233456678899999999988643    334566678999999999987653    3


Q ss_pred             hHHhhcCCCCcEEeeecCCC
Q 040556           90 PSTINGLKSLKILNLSSCSK  109 (128)
Q Consensus        90 ~~~~~~~~~L~~l~l~~n~~  109 (128)
                      ..++...+.|++|++++|..
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~  112 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQ  112 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSS
T ss_pred             HHHHHhCCcCCEEECCCCcC
Confidence            34556678899999988754

>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=98.14  E-value=6.5e-06  Score=46.88  Aligned_cols=107  Identities=12%  Similarity=0.136  Sum_probs=70.3

Q ss_pred             CCCcEEEecC-CCCC-C----cchhhhccCcccEEeccCCCCcccc----hhhhcccccCCEEecCCCCCccc----chh
Q 040556            2 KFLQELLLDG-TDIK-G----LPLSIVLLSGIVQLDLKGCKNISCL----SNFISALKFLSTLNLSDGTAIRE----LSL   67 (128)
Q Consensus         2 ~~L~~l~l~~-~~~~-~----~~~~~~~l~~L~~l~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~~~----~~~   67 (128)
                      +.|++|++++ +.++ +    +...+...++|+.|++++|.+....    ...+....+++.+++.+|.+...    +..
T Consensus        17 ~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~   96 (166)
T d1io0a_          17 PDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVE   96 (166)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHH
T ss_pred             CCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHH
Confidence            5788888887 4565 2    2334556788999999998866542    33445567888999888877543    234


Q ss_pred             hhhhcCCCcEEeec--CCcccC----cchHHhhcCCCCcEEeeecCC
Q 040556           68 SVELLTGLVVLNLK--DWQYLS----SLPSTINGLKSLKILNLSSCS  108 (128)
Q Consensus        68 ~~~~l~~L~~l~l~--~~~~~~----~~~~~~~~~~~L~~l~l~~n~  108 (128)
                      .+...+.++.+++.  .|.+..    .+...+...+.|+.+++..+.
T Consensus        97 ~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          97 ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCC
Confidence            45566778876664  444433    244456677888888886554

>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=97.82  E-value=8.1e-06  Score=46.47  Aligned_cols=107  Identities=14%  Similarity=0.100  Sum_probs=72.0

Q ss_pred             hccCcccEEeccCC-CCccc----chhhhcccccCCEEecCCCCCccc----chhhhhhcCCCcEEeecCCcccCc----
Q 040556           22 VLLSGIVQLDLKGC-KNISC----LSNFISALKFLSTLNLSDGTAIRE----LSLSVELLTGLVVLNLKDWQYLSS----   88 (128)
Q Consensus        22 ~~l~~L~~l~l~~~-~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~l~l~~~~~~~~----   88 (128)
                      ...++|+.|+++++ .+...    ....+...++|+.|++++|.+...    +...+...+.++.+++.+|.+...    
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            45689999999974 44432    334455788999999999987653    334566778999999999876543    


Q ss_pred             chHHhhcCCCCcEEeee--cCCCCCC----CCcCcCCCCCCCcccC
Q 040556           89 LPSTINGLKSLKILNLS--SCSKLEN----VPENLGKVESLEELDI  128 (128)
Q Consensus        89 ~~~~~~~~~~L~~l~l~--~n~~~~~----~~~~~~~~~~L~~l~l  128 (128)
                      +.+.+...+.|+.++++  +|.+...    +...+...++|+.|++
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l  139 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGY  139 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEEC
T ss_pred             HHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeC
Confidence            33455677888876664  4554332    3334556677776653