Citrus Sinensis ID: 040978

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100----
Protein Sequence
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL
Secondary Structure (PSIPRED)
ccccccccccccEEEccccccccccccccccccccccEEccccccccccccccccccccccccEEEccccccccccccccccccccccccEEEccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcccEEEcccccccccEcccccccccHccEEEcccccccccccHHHHHcccccccEEEccccccEEEEEEcccccccccccHEEEcccccccHHcc
Coil and Loop (DISEMBL)
mfaefnsfnnlellDMSFNEInnlvvpqgysglrklksldlsrvgvrdgskllqsmgsfpslnnlylssnnftETVTITTQElhnftnleylklndsplhisll
Flexible Loop (DISEMBL)
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNftnleylklndsplhisll
Low Complexity Region (SEG)
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPslnnlylssnnFTETVTITTQELHNFTNLEYLKLNDSPLHISLL
Disordered region (IsUnstruct)
******SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLN*********
Disordered Region (DISOPRED)
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL
Disordered Region (DISEMBL)
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL
Disordered Region (DISPRO)
*FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL
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	104	2.2.26 [Sep-21-2011]
Q99PI8	473	Reticulon-4 receptor OS=M	yes	no	0.884	0.194	0.350	0.0002
Q99M75	473	Reticulon-4 receptor OS=R	yes	no	0.884	0.194	0.340	0.0009

>sp|Q99PI8|RTN4R_MOUSE Reticulon-4 receptor OS=Mus musculus GN=Rtn4r PE=2 SV=1

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 34/97 (35%), Positives = 48/97 (49%), Gaps = 5/97 (5%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPS 61
           A F     LE LD+S N   ++V P  + GL  L +L L R G+R+ G  L + +    +
Sbjct: 99  AAFTGLTLLEQLDLSDNAQLHVVDPTTFHGLGHLHTLHLDRCGLRELGPGLFRGLA---A 155

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSP 98
           L  LYL  NN       T ++L N T+L +L  N  P
Sbjct: 156 LQYLYLQDNNLQALPDNTFRDLGNLTHL-FLHGNRIP 191

Receptor for RTN4, OMG and MAG. Mediates axonal growth inhibition and may play a role in regulating axonal regeneration and plasticity in the adult central nervous system (By similarity). Acts in conjunction with RTN4 and LIGO1 in regulating neuronal precursor cell motility during cortical development.
Mus musculus (taxid: 10090)

>sp|Q99M75|RTN4R_RAT Reticulon-4 receptor OS=Rattus norvegicus GN=Rtn4r PE=1 SV=2

 Score = 42.4 bits (98), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 33/97 (34%), Positives = 47/97 (48%), Gaps = 5/97 (5%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPS 61
           A F     LE LD+S N    +V P  + GL  L +L L R G+++ G  L + + +   
Sbjct: 99  AAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAA--- 155

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSP 98
           L  LYL  NN       T ++L N T+L +L  N  P
Sbjct: 156 LQYLYLQDNNLQALPDNTFRDLGNLTHL-FLHGNRIP 191

Receptor for RTN4, OMG and MAG. Mediates axonal growth inhibition and may play a role in regulating axonal regeneration and plasticity in the adult central nervous system. Acts in conjunction with RTN4 and LIGO1 in regulating neuronal precursor cell motility during cortical development.

Rattus norvegicus (taxid: 10116)

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	104
356567128	1133	PREDICTED: LRR receptor-like serine/thre	0.807	0.074	0.402	1e-05
224112245	876	predicted protein [Populus trichocarpa]	0.817	0.097	0.373	0.0002
356546069	931	PREDICTED: probable leucine-rich repeat	0.923	0.103	0.346	0.0004
224150593	112	predicted protein [Populus trichocarpa]	0.682	0.633	0.438	0.0004
224124410	601	predicted protein [Populus trichocarpa]	0.682	0.118	0.438	0.0005
255553273	891	serine/threonine-protein kinase bri1, pu	0.942	0.109	0.398	0.0009

>gi|356567128|ref|XP_003551773.1| PREDICTED: LRR receptor-like serine/threonine-protein kinase GSO2-like [Glycine max]

 Score = 54.3 bits (129), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 52/87 (59%), Gaps = 3/87 (3%)

Query: 11  LELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSN 70
           LE+LD+ FN I++  V QG  GL +L +L L    + DGSKL  S+ +F S+  L +S N
Sbjct: 214 LEILDLRFNNISDFAVHQGSKGLGRLDALYLDG-NMIDGSKLRNSLRAFSSVRMLSMSEN 272

Query: 71  NFTETVTITTQELHNFTNLEYLKLNDS 97
            F    TI   + H+ +NLE+L ++ S
Sbjct: 273 EFKG--TIVAGDFHDLSNLEHLTMDYS 297

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224112245|ref|XP_002332815.1| predicted protein [Populus trichocarpa] gi|222833209|gb|EEE71686.1| predicted protein [Populus trichocarpa]

 Score = 49.7 bits (117), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 51/91 (56%), Gaps = 6/91 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F  F  LE L +S+N I   V  +G + LR L   +++  G     +LL S+G+FP+L  
Sbjct: 97  FRPFQQLEWLSLSYNRIAGWVEIKGPNNLRYLSLKNITTNG--SSFQLLSSLGAFPNLTT 154

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLN 95
           +YL+ N+F  T+     EL N ++LE L LN
Sbjct: 155 VYLNDNDFKGTIL----ELQNLSSLEKLYLN 181

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356546069|ref|XP_003541454.1| PREDICTED: probable leucine-rich repeat receptor-like protein kinase At5g49770-like [Glycine max]

 Score = 48.9 bits (115), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 35/101 (34%), Positives = 56/101 (55%), Gaps = 5/101 (4%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
           +   S + L+ LD+S+N      VPQ    L+KLKSL L  VG     ++  S+GS   L
Sbjct: 82  SAIQSLSELDTLDLSYNTGLTGTVPQEIGNLKKLKSLSL--VGCGFSGRIPDSIGSLKQL 139

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISL 103
             L L+SNNF+ T+    + L N +N+++L L ++ L  ++
Sbjct: 140 TFLALNSNNFSGTI---PRSLGNLSNVDWLDLAENQLEGTI 177

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224150593|ref|XP_002336982.1| predicted protein [Populus trichocarpa] gi|222837502|gb|EEE75881.1| predicted protein [Populus trichocarpa]

 Score = 48.9 bits (115), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 2/73 (2%)

Query: 32  GLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEY 91
           GLRKL++L L+ + +  GS LLQS+G+ PSL  L L +NN + T +I+     N T LE 
Sbjct: 10  GLRKLEALSLNELAII-GSTLLQSLGALPSLKTLSLRANNLSGT-SISQVPFFNLTTLEE 67

Query: 92  LKLNDSPLHISLL 104
           L L+ + L I+ L
Sbjct: 68  LYLDHTALPINFL 80

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124410|ref|XP_002330016.1| predicted protein [Populus trichocarpa] gi|222871441|gb|EEF08572.1| predicted protein [Populus trichocarpa]

 Score = 48.5 bits (114), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 2/73 (2%)

Query: 32  GLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEY 91
           GLRKL++L L+ + +  GS LLQS+G+ PSL  L L +NN + T +I+     N T LE 
Sbjct: 10  GLRKLEALSLNELAII-GSTLLQSLGALPSLKTLSLRANNLSGT-SISQVPFFNLTTLEE 67

Query: 92  LKLNDSPLHISLL 104
           L L+ + L I+ L
Sbjct: 68  LYLDHTALPINFL 80

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553273|ref|XP_002517679.1| serine/threonine-protein kinase bri1, putative [Ricinus communis] gi|223543311|gb|EEF44843.1| serine/threonine-protein kinase bri1, putative [Ricinus communis]

 Score = 47.8 bits (112), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 41/103 (39%), Positives = 56/103 (54%), Gaps = 5/103 (4%)

Query: 1   MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFP 60
           M AE  +  NL LLD+SFN  N  +  +G S  +KL++L L+  G R  + +LQS+G+  
Sbjct: 1   MNAELAALRNLTLLDLSFNNFNGSIKSEGLSKFKKLETLKLA--GNRFMNSVLQSLGAVT 58

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISL 103
           SL  L LS N           EL N  NLE L L+ + L+ SL
Sbjct: 59  SLKTLDLSLNLMQGAF---PDELTNLKNLENLDLSTNLLNSSL 98

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	104
TAIR|locus:2155909	908	RLP56 "AT5G49290" [Arabidopsis	0.413	0.047	0.441	0.00094

TAIR|locus:2155909 RLP56 "AT5G49290" [Arabidopsis thaliana (taxid:3702)]

 Score = 86 (35.3 bits), Expect = 0.00094, Sum P(2) = 0.00094
 Identities = 19/43 (44%), Positives = 28/43 (65%)

Query:     4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV 46
             E  +  NLELLD+S N I+  +  + +  L+KLK+LDLS  G+
Sbjct:   165 ELKNLTNLELLDLSGNRIDGSMPVREFPYLKKLKALDLSSNGI 207

GO:0007165 "signal transduction" evidence=IC

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

No confident hit detected by STRING

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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	104
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	0.002

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

 Score = 35.9 bits (83), Expect = 0.002
 Identities = 26/75 (34%), Positives = 39/75 (52%), Gaps = 5/75 (6%)

Query: 25  VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH 84
            +P   S LR L+S++LS   +R       S+GS  SL  L LS N+F  ++  +  +L 
Sbjct: 433 FIPNDISKLRHLQSINLSGNSIRGNIPP--SLGSITSLEVLDLSYNSFNGSIPESLGQL- 489

Query: 85  NFTNLEYLKLNDSPL 99
             T+L  L LN + L
Sbjct: 490 --TSLRILNLNGNSL 502

Length = 623

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	104
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.43
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.38
PLN03150	623	hypothetical protein; Provisional	99.34
PLN03150	623	hypothetical protein; Provisional	99.22
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.19
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.17
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	99.17
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.15
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.12
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.04
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.87
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.81
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.8
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.74
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.73
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.63
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.6
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.58
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.53
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.52
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.47
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.46
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.44
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.42
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.34
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.3
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.3
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.3
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.3
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.29
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.28
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.23
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.08
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.02
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.0
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.94
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.9
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	97.89
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.87
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.85
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.8
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.77
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.75
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.74
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.68
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.65
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.53
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.53
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.5
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.48
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.4
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.4
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.34
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.97
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.97
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.69
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.6
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.54
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.43
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.37
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.34
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.0
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.42
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	95.1
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	95.08
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	94.29
PRK15386	426	type III secretion protein GogB; Provisional	93.5
smart00370	26	LRR Leucine-rich repeats, outliers.	93.41
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	93.41
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.09
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	91.61
KOG1947	482	consensus Leucine rich repeat proteins, some prote	91.54
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.02
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	89.08
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	89.03
KOG0473	326	consensus Leucine-rich repeat protein [Function un	88.6
KOG3763	585	consensus mRNA export factor TAP/MEX67 [RNA proces	86.34
PRK15386	426	type III secretion protein GogB; Provisional	84.45
KOG1947	482	consensus Leucine rich repeat proteins, some prote	81.39
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	81.1

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

Probab=99.43  E-value=2.7e-13  Score=98.84  Aligned_cols=96  Identities=28%  Similarity=0.374  Sum_probs=71.4

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|+.|++++|.+.+..| ..+..+++|+.|++++|.+  .+..|..+..+++|+.+++++|.+.+..    |
T Consensus       492 ~~~~~~l~~L~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~Ls~N~l--~~~~p~~~~~l~~L~~L~Ls~N~l~~~~----p  564 (968)
T PLN00113        492 PRKLGSLSELMQLKLSENKLSGEIP-DELSSCKKLVSLDLSHNQL--SGQIPASFSEMPVLSQLDLSQNQLSGEI----P  564 (968)
T ss_pred             ChhhhhhhccCEEECcCCcceeeCC-hHHcCccCCCEEECCCCcc--cccCChhHhCcccCCEEECCCCcccccC----C
Confidence            3455667777777777777776666 6777777777888877777  5666777777777888888888877777    7


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                       .+..+.+|+.+++++|.+.|.+|
T Consensus       565 ~~l~~l~~L~~l~ls~N~l~~~~p  588 (968)
T PLN00113        565 KNLGNVESLVQVNISHNHLHGSLP  588 (968)
T ss_pred             hhHhcCcccCEEeccCCcceeeCC
Confidence             77777788888888888777665

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

Probab=99.38  E-value=1.2e-12  Score=95.49  Aligned_cols=91  Identities=25%  Similarity=0.385  Sum_probs=44.8

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .++.+++|++|++++|.+.+..| ..+..+++|++|++++|.+  ....|..+..+.+|+.|++++|.+.+..    | .
T Consensus       159 ~~~~l~~L~~L~L~~n~l~~~~p-~~~~~l~~L~~L~L~~n~l--~~~~p~~l~~l~~L~~L~L~~n~l~~~~----p~~  231 (968)
T PLN00113        159 DIGSFSSLKVLDLGGNVLVGKIP-NSLTNLTSLEFLTLASNQL--VGQIPRELGQMKSLKWIYLGYNNLSGEI----PYE  231 (968)
T ss_pred             HHhcCCCCCEEECccCcccccCC-hhhhhCcCCCeeeccCCCC--cCcCChHHcCcCCccEEECcCCccCCcC----Chh
Confidence            34445555555555555544444 4445555555555555554  3334444444555555555555544444    4 4


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|++|++++|.+.+
T Consensus       232 l~~l~~L~~L~L~~n~l~~  250 (968)
T PLN00113        232 IGGLTSLNHLDLVYNNLTG  250 (968)
T ss_pred             HhcCCCCCEEECcCceecc
Confidence            4444455555554444443

>PLN03150 hypothetical protein; Provisional

Probab=99.34  E-value=3.7e-12  Score=89.70  Aligned_cols=87  Identities=29%  Similarity=0.417  Sum_probs=67.7

Q ss_pred             CCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCC
Q 040978           11 LELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNL   89 (104)
Q Consensus        11 L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L   89 (104)
                      ++.|++++|.+.+..| ..+..+++|+.|++++|.+  .+..|..+..+++|+.|++++|.+.+..    | .+..+++|
T Consensus       420 v~~L~L~~n~L~g~ip-~~i~~L~~L~~L~Ls~N~l--~g~iP~~~~~l~~L~~LdLs~N~lsg~i----P~~l~~L~~L  492 (623)
T PLN03150        420 IDGLGLDNQGLRGFIP-NDISKLRHLQSINLSGNSI--RGNIPPSLGSITSLEVLDLSYNSFNGSI----PESLGQLTSL  492 (623)
T ss_pred             EEEEECCCCCccccCC-HHHhCCCCCCEEECCCCcc--cCcCChHHhCCCCCCEEECCCCCCCCCC----chHHhcCCCC
Confidence            5667788888777777 7777788888888888887  5667777777888888888888887777    7 77788888


Q ss_pred             cEEEcCCCCCCCCCC
Q 040978           90 EYLKLNDSPLHISLL  104 (104)
Q Consensus        90 ~~l~l~~n~~~~~~~  104 (104)
                      +.|++++|.++|.+|
T Consensus       493 ~~L~Ls~N~l~g~iP  507 (623)
T PLN03150        493 RILNLNGNSLSGRVP  507 (623)
T ss_pred             CEEECcCCcccccCC
Confidence            888888888877765

>PLN03150 hypothetical protein; Provisional

Probab=99.22  E-value=5.5e-11  Score=83.85  Aligned_cols=92  Identities=21%  Similarity=0.320  Sum_probs=80.2

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +|+.+..+++|+.|++++|.+.+.+| ..+..+++|+.|++++|++  .+..|..+..+++|+.|++++|.+.+..    
T Consensus       434 ip~~i~~L~~L~~L~Ls~N~l~g~iP-~~~~~l~~L~~LdLs~N~l--sg~iP~~l~~L~~L~~L~Ls~N~l~g~i----  506 (623)
T PLN03150        434 IPNDISKLRHLQSINLSGNSIRGNIP-PSLGSITSLEVLDLSYNSF--NGSIPESLGQLTSLRILNLNGNSLSGRV----  506 (623)
T ss_pred             CCHHHhCCCCCCEEECCCCcccCcCC-hHHhCCCCCCEEECCCCCC--CCCCchHHhcCCCCCEEECcCCcccccC----
Confidence            35677889999999999999998888 8899999999999999999  6788999999999999999999999888    


Q ss_pred             c-ccCC-CCCCcEEEcCCCCC
Q 040978           81 Q-ELHN-FTNLEYLKLNDSPL   99 (104)
Q Consensus        81 ~-~~~~-~~~L~~l~l~~n~~   99 (104)
                      | .+.. ...+..+++.+|..
T Consensus       507 P~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        507 PAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             ChHHhhccccCceEEecCCcc
Confidence            8 6654 34667788888753

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

Probab=99.19  E-value=2.7e-11  Score=73.13  Aligned_cols=86  Identities=34%  Similarity=0.540  Sum_probs=41.5

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--ccC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--ELH   84 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~~   84 (104)
                      .+.+|+.|++++|.+. .+  ..+..++.|+.|++++|++  ....+.....+++|+.|++++|.+....    .  .++
T Consensus        40 ~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~  110 (175)
T PF14580_consen   40 TLDKLEVLDLSNNQIT-KL--EGLPGLPRLKTLDLSNNRI--SSISEGLDKNLPNLQELYLSNNKISDLN----ELEPLS  110 (175)
T ss_dssp             T-TT--EEE-TTS--S-----TT----TT--EEE--SS-----S-CHHHHHH-TT--EEE-TTS---SCC----CCGGGG
T ss_pred             hhcCCCEEECCCCCCc-cc--cCccChhhhhhcccCCCCC--CccccchHHhCCcCCEEECcCCcCCChH----HhHHHH
Confidence            4678999999999999 44  4688899999999999999  3322222235889999999999998553    3  677


Q ss_pred             CCCCCcEEEcCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|+.|++.+|+++.
T Consensus       111 ~l~~L~~L~L~~NPv~~  127 (175)
T PF14580_consen  111 SLPKLRVLSLEGNPVCE  127 (175)
T ss_dssp             G-TT--EEE-TT-GGGG
T ss_pred             cCCCcceeeccCCcccc
Confidence            89999999999999864

>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=99.17  E-value=3.2e-11  Score=60.93  Aligned_cols=57  Identities=37%  Similarity=0.519  Sum_probs=26.3

Q ss_pred             CCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCCC
Q 040978           36 LKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        36 L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n~   98 (104)
                      |+.+++++|++  ....+..|..+++|+.+++++|.+....    + .|..+++|+.+++++|.
T Consensus         3 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    3 LESLDLSNNKL--TEIPPDSFSNLPNLETLDLSNNNLTSIP----PDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             ESEEEETSSTE--SEECTTTTTTGTTESEEEETSSSESEEE----TTTTTTSTTESEEEETSSS
T ss_pred             CcEEECCCCCC--CccCHHHHcCCCCCCEeEccCCccCccC----HHHHcCCCCCCEEeCcCCc
Confidence            44444444444  2222234444455555555555554333    3 44555555555555544

...

>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=99.17  E-value=4.3e-11  Score=60.46  Aligned_cols=61  Identities=38%  Similarity=0.541  Sum_probs=53.7

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNF   72 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~   72 (104)
                      ++|++|++++|.+. .++...|.++++|+.+++++|.+  ....+..|..+++|+.+++++|++
T Consensus         1 p~L~~L~l~~n~l~-~i~~~~f~~l~~L~~L~l~~N~l--~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLT-EIPPDSFSNLPNLETLDLSNNNL--TSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTES-EECTTTTTTGTTESEEEETSSSE--SEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCC-ccCHHHHcCCCCCCEeEccCCcc--CccCHHHHcCCCCCCEEeCcCCcC
Confidence            57899999999999 55547889999999999999999  566667899999999999999975

...

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

Probab=99.15  E-value=8.1e-13  Score=79.49  Aligned_cols=89  Identities=27%  Similarity=0.516  Sum_probs=39.6

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..+..+++|+.|+++.|.+. ..| ..|+.++-|+.|+++.|++. ...+|..|..+..|+.|++++|.|. ..    | 
T Consensus        73 ~~issl~klr~lnvgmnrl~-~lp-rgfgs~p~levldltynnl~-e~~lpgnff~m~tlralyl~dndfe-~l----p~  144 (264)
T KOG0617|consen   73 TSISSLPKLRILNVGMNRLN-ILP-RGFGSFPALEVLDLTYNNLN-ENSLPGNFFYMTTLRALYLGDNDFE-IL----PP  144 (264)
T ss_pred             hhhhhchhhhheecchhhhh-cCc-cccCCCchhhhhhccccccc-cccCCcchhHHHHHHHHHhcCCCcc-cC----Ch
Confidence            33344444444444444443 334 44444444444444444441 1223333333444444444444444 22    4 


Q ss_pred             ccCCCCCCcEEEcCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~   99 (104)
                      .++.+.+|++|.+.+|.+
T Consensus       145 dvg~lt~lqil~lrdndl  162 (264)
T KOG0617|consen  145 DVGKLTNLQILSLRDNDL  162 (264)
T ss_pred             hhhhhcceeEEeeccCch
Confidence            555566666666665543

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

Probab=99.12  E-value=4.1e-12  Score=76.49  Aligned_cols=92  Identities=30%  Similarity=0.459  Sum_probs=80.5

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC-cccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT-ETVTIT   79 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~-~~~~~~   79 (104)
                      +|+.++.+.+|+.|++.+|.++ .+| ..++.++.|+.|+++.|++   ...|..|+.+|.|+.|++..|++. ...   
T Consensus        48 vppnia~l~nlevln~~nnqie-~lp-~~issl~klr~lnvgmnrl---~~lprgfgs~p~levldltynnl~e~~l---  119 (264)
T KOG0617|consen   48 VPPNIAELKNLEVLNLSNNQIE-ELP-TSISSLPKLRILNVGMNRL---NILPRGFGSFPALEVLDLTYNNLNENSL---  119 (264)
T ss_pred             cCCcHHHhhhhhhhhcccchhh-hcC-hhhhhchhhhheecchhhh---hcCccccCCCchhhhhhccccccccccC---
Confidence            4777888999999999999999 788 8889999999999999998   678889999999999999999886 345   


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                       | .|..+..|+.|++++|.+..
T Consensus       120 -pgnff~m~tlralyl~dndfe~  141 (264)
T KOG0617|consen  120 -PGNFFYMTTLRALYLGDNDFEI  141 (264)
T ss_pred             -CcchhHHHHHHHHHhcCCCccc
Confidence             7 88899999999999998754

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

Probab=99.04  E-value=7.9e-12  Score=86.47  Aligned_cols=87  Identities=29%  Similarity=0.399  Sum_probs=39.7

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      ++.+|++|++++|.|....+ .....++.|+.|+++.|++  ....++.|..+..|+.|.++.|.++...    . .|.+
T Consensus       291 gLt~L~~L~lS~NaI~rih~-d~WsftqkL~~LdLs~N~i--~~l~~~sf~~L~~Le~LnLs~Nsi~~l~----e~af~~  363 (873)
T KOG4194|consen  291 GLTSLEQLDLSYNAIQRIHI-DSWSFTQKLKELDLSSNRI--TRLDEGSFRVLSQLEELNLSHNSIDHLA----EGAFVG  363 (873)
T ss_pred             ccchhhhhccchhhhheeec-chhhhcccceeEecccccc--ccCChhHHHHHHHhhhhcccccchHHHH----hhHHHH
Confidence            34445555555555553333 4444445555555555555  2222334444444444444444444333    3 4444


Q ss_pred             CCCCcEEEcCCCCCC
Q 040978           86 FTNLEYLKLNDSPLH  100 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~  100 (104)
                      +++|+.|+++.|.++
T Consensus       364 lssL~~LdLr~N~ls  378 (873)
T KOG4194|consen  364 LSSLHKLDLRSNELS  378 (873)
T ss_pred             hhhhhhhcCcCCeEE
Confidence            444444444444443

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

Probab=98.87  E-value=8e-10  Score=76.82  Aligned_cols=90  Identities=22%  Similarity=0.248  Sum_probs=64.6

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |.++++|+.|.+..|.+..... ..|.++..++.|++..|++  ...-.+++..+..|++|+++.|.+.+..    + .|
T Consensus       241 FqgL~Sl~nlklqrN~I~kL~D-G~Fy~l~kme~l~L~~N~l--~~vn~g~lfgLt~L~~L~lS~NaI~rih----~d~W  313 (873)
T KOG4194|consen  241 FQGLPSLQNLKLQRNDISKLDD-GAFYGLEKMEHLNLETNRL--QAVNEGWLFGLTSLEQLDLSYNAIQRIH----IDSW  313 (873)
T ss_pred             hcCchhhhhhhhhhcCcccccC-cceeeecccceeecccchh--hhhhcccccccchhhhhccchhhhheee----cchh
Confidence            4566666666677777663333 6667777777777777777  3333456667788888888888888777    7 88


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|+.|+++.|.+..
T Consensus       314 sftqkL~~LdLs~N~i~~  331 (873)
T KOG4194|consen  314 SFTQKLKELDLSSNRITR  331 (873)
T ss_pred             hhcccceeEecccccccc
Confidence            888888888888887754

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

Probab=98.81  E-value=2.6e-09  Score=71.15  Aligned_cols=90  Identities=23%  Similarity=0.330  Sum_probs=78.8

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|+++++|+.+++++|.+++.-+ ..|.+...++.|.+.+|++  .......|..+..|+.|++.+|+++.+.    | .
T Consensus       269 cf~~L~~L~~lnlsnN~i~~i~~-~aFe~~a~l~eL~L~~N~l--~~v~~~~f~~ls~L~tL~L~~N~it~~~----~~a  341 (498)
T KOG4237|consen  269 CFKKLPNLRKLNLSNNKITRIED-GAFEGAAELQELYLTRNKL--EFVSSGMFQGLSGLKTLSLYDNQITTVA----PGA  341 (498)
T ss_pred             HHhhcccceEeccCCCccchhhh-hhhcchhhhhhhhcCcchH--HHHHHHhhhccccceeeeecCCeeEEEe----ccc
Confidence            47889999999999999996556 8899999999999999999  4444456888999999999999999888    8 9


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      |..+.+|..+.+-.|++.
T Consensus       342 F~~~~~l~~l~l~~Np~~  359 (498)
T KOG4237|consen  342 FQTLFSLSTLNLLSNPFN  359 (498)
T ss_pred             ccccceeeeeehccCccc
Confidence            999999999999988863

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

Probab=98.80  E-value=4.2e-09  Score=63.66  Aligned_cols=85  Identities=31%  Similarity=0.438  Sum_probs=28.2

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccC-CCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc-
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYS-GLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL-   83 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~-   83 (104)
                      -+...+++|++++|.+. .+  +.+. .+.+|+.|++++|.+   ..+ +.+..++.|+.|++++|.++...    +.+ 
T Consensus        16 ~n~~~~~~L~L~~n~I~-~I--e~L~~~l~~L~~L~Ls~N~I---~~l-~~l~~L~~L~~L~L~~N~I~~i~----~~l~   84 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQIS-TI--ENLGATLDKLEVLDLSNNQI---TKL-EGLPGLPRLKTLDLSNNRISSIS----EGLD   84 (175)
T ss_dssp             -----------------------S--TT-TT--EEE-TTS-----S---TT----TT--EEE--SS---S-C----HHHH
T ss_pred             ccccccccccccccccc-cc--cchhhhhcCCCEEECCCCCC---ccc-cCccChhhhhhcccCCCCCCccc----cchH
Confidence            34556899999999998 44  3555 578999999999999   333 34667899999999999999653    334 


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|+.|++++|.|..
T Consensus        85 ~~lp~L~~L~L~~N~I~~  102 (175)
T PF14580_consen   85 KNLPNLQELYLSNNKISD  102 (175)
T ss_dssp             HH-TT--EEE-TTS---S
T ss_pred             HhCCcCCEEECcCCcCCC
Confidence            468999999999999854

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

Probab=98.74  E-value=6.8e-10  Score=74.22  Aligned_cols=90  Identities=26%  Similarity=0.347  Sum_probs=50.2

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhc-CCCCCccEEeccCCcCCcccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSM-GSFPSLNNLYLSSNNFTETVTIT   79 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~-~~l~~L~~l~l~~n~~~~~~~~~   79 (104)
                      +|+.++.+.+|..|++..|.+. ..|  .|.++..|..++++.|.+   ...|... ..++++..+++.+|+++ ..   
T Consensus       198 lP~~lg~l~~L~~LyL~~Nki~-~lP--ef~gcs~L~Elh~g~N~i---~~lpae~~~~L~~l~vLDLRdNklk-e~---  267 (565)
T KOG0472|consen  198 LPPELGGLESLELLYLRRNKIR-FLP--EFPGCSLLKELHVGENQI---EMLPAEHLKHLNSLLVLDLRDNKLK-EV---  267 (565)
T ss_pred             CChhhcchhhhHHHHhhhcccc-cCC--CCCccHHHHHHHhcccHH---HhhHHHHhcccccceeeeccccccc-cC---
Confidence            3556666666666666666665 443  455555555555555555   3333332 25555666666666655 33   


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                       | .+-.+++|..+|+++|.+++
T Consensus       268 -Pde~clLrsL~rLDlSNN~is~  289 (565)
T KOG0472|consen  268 -PDEICLLRSLERLDLSNNDISS  289 (565)
T ss_pred             -chHHHHhhhhhhhcccCCcccc
Confidence             4 55555556666666665554

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

Probab=98.73  E-value=2e-09  Score=72.07  Aligned_cols=93  Identities=29%  Similarity=0.384  Sum_probs=72.6

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccC---------------------CchhhhhcCCCC
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD---------------------GSKLLQSMGSFP   60 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~---------------------~~~~~~~~~~l~   60 (104)
                      |..++.+++|..|++++|.+. .+| ..++.+..||.++++.|++..                     ....++.+..+.
T Consensus       428 ~~~l~~l~kLt~L~L~NN~Ln-~LP-~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~  505 (565)
T KOG0472|consen  428 PLELSQLQKLTFLDLSNNLLN-DLP-EEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMR  505 (565)
T ss_pred             hHHHHhhhcceeeecccchhh-hcc-hhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhh
Confidence            455677888999999998888 778 777888889999998887621                     111223356778


Q ss_pred             CccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCC
Q 040978           61 SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        61 ~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  100 (104)
                      .|..|++.+|.+..+.    |.+++|.+|++|.+.+|+|.
T Consensus       506 nL~tLDL~nNdlq~IP----p~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  506 NLTTLDLQNNDLQQIP----PILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             hcceeccCCCchhhCC----hhhccccceeEEEecCCccC
Confidence            8999999999998443    39999999999999999987

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

Probab=98.63  E-value=4.1e-09  Score=76.07  Aligned_cols=90  Identities=30%  Similarity=0.479  Sum_probs=57.5

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhh----------------------cCCC
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQS----------------------MGSF   59 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~----------------------~~~l   59 (104)
                      .+.+.++.+|+.|++++|.+. ..|...+..+..|+.|++++|++   ..+|..                      +.++
T Consensus       376 ~p~l~~~~hLKVLhLsyNrL~-~fpas~~~kle~LeeL~LSGNkL---~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l  451 (1081)
T KOG0618|consen  376 FPVLVNFKHLKVLHLSYNRLN-SFPASKLRKLEELEELNLSGNKL---TTLPDTVANLGRLHTLRAHSNQLLSFPELAQL  451 (1081)
T ss_pred             hhhhccccceeeeeecccccc-cCCHHHHhchHHhHHHhcccchh---hhhhHHHHhhhhhHHHhhcCCceeechhhhhc
Confidence            456677888888888888887 55646677788888888888887   333333                      3345


Q ss_pred             CCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCC
Q 040978           60 PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        60 ~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~   98 (104)
                      +.|+.+|++.|+++...   ++.-...++|++|++++|.
T Consensus       452 ~qL~~lDlS~N~L~~~~---l~~~~p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  452 PQLKVLDLSCNNLSEVT---LPEALPSPNLKYLDLSGNT  487 (1081)
T ss_pred             CcceEEecccchhhhhh---hhhhCCCcccceeeccCCc
Confidence            55666666666665322   0111122566777766664

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

Probab=98.60  E-value=4.5e-09  Score=74.10  Aligned_cols=93  Identities=24%  Similarity=0.273  Sum_probs=71.6

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +|+.++.+.+|++|.+++|.+. .+. ..+..++.|+.+.++.|++++ ...|..+..+.-|..|++++|.+. ..    
T Consensus        47 vPeEL~~lqkLEHLs~~HN~L~-~vh-GELs~Lp~LRsv~~R~N~LKn-sGiP~diF~l~dLt~lDLShNqL~-Ev----  118 (1255)
T KOG0444|consen   47 VPEELSRLQKLEHLSMAHNQLI-SVH-GELSDLPRLRSVIVRDNNLKN-SGIPTDIFRLKDLTILDLSHNQLR-EV----  118 (1255)
T ss_pred             ChHHHHHHhhhhhhhhhhhhhH-hhh-hhhccchhhHHHhhhcccccc-CCCCchhcccccceeeecchhhhh-hc----
Confidence            4777888888899999888887 455 677888888888888888853 334555667788888888888887 55    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                      | .+...+++.+|+++.|.|..
T Consensus       119 P~~LE~AKn~iVLNLS~N~Iet  140 (1255)
T KOG0444|consen  119 PTNLEYAKNSIVLNLSYNNIET  140 (1255)
T ss_pred             chhhhhhcCcEEEEcccCcccc
Confidence            7 77788888888888887654

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

Probab=98.58  E-value=2.4e-09  Score=75.42  Aligned_cols=44  Identities=27%  Similarity=0.411  Sum_probs=27.7

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV   46 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~   46 (104)
                      +|+.+..+.+|..+|++.|++. ..| ..+..+++|+.|++++|.+
T Consensus       214 ~Ptsld~l~NL~dvDlS~N~Lp-~vP-ecly~l~~LrrLNLS~N~i  257 (1255)
T KOG0444|consen  214 IPTSLDDLHNLRDVDLSENNLP-IVP-ECLYKLRNLRRLNLSGNKI  257 (1255)
T ss_pred             CCCchhhhhhhhhccccccCCC-cch-HHHhhhhhhheeccCcCce
Confidence            3555666666666666666666 556 5555666666666666665

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

Probab=98.53  E-value=7.1e-08  Score=62.60  Aligned_cols=89  Identities=27%  Similarity=0.380  Sum_probs=41.8

Q ss_pred             CCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            9 NNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      ++|+.|++++|.+.+.    .. ..+..+.+|+.|++++|.+  ...    .+..+...++|+.+++++|.+.+..-..+
T Consensus       137 ~~L~~L~L~~n~l~~~~~~~~~-~~~~~~~~L~~L~l~~n~l--~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l  213 (319)
T cd00116         137 PALEKLVLGRNRLEGASCEALA-KALRANRDLKELNLANNGI--GDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASAL  213 (319)
T ss_pred             CCceEEEcCCCcCCchHHHHHH-HHHHhCCCcCEEECcCCCC--chHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHH
Confidence            5566666666655521    11 2233444566666666655  211    12223334456666666665542210000


Q ss_pred             c-ccCCCCCCcEEEcCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      . .+..+++|++|++++|.+.
T Consensus       214 ~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         214 AETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HHHhcccCCCCEEecCCCcCc
Confidence            2 3344555666666665554

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

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

Probab=98.52  E-value=3.7e-08  Score=63.89  Aligned_cols=94  Identities=22%  Similarity=0.308  Sum_probs=46.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCC---CCEEeCCCCcccCCch----hhhhcCCC-CCccEEeccCCcCCcc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRK---LKSLDLSRVGVRDGSK----LLQSMGSF-PSLNNLYLSSNNFTET   75 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~---L~~l~l~~~~~~~~~~----~~~~~~~l-~~L~~l~l~~n~~~~~   75 (104)
                      .+..+++|+.|++++|.+.+..+ ..+..+..   |+.|++++|++  ...    ....+..+ ++|+.+++++|.+++.
T Consensus        76 ~l~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~~~~L~~L~ls~~~~--~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~  152 (319)
T cd00116          76 GLTKGCGLQELDLSDNALGPDGC-GVLESLLRSSSLQELKLNNNGL--GDRGLRLLAKGLKDLPPALEKLVLGRNRLEGA  152 (319)
T ss_pred             HHHhcCceeEEEccCCCCChhHH-HHHHHHhccCcccEEEeeCCcc--chHHHHHHHHHHHhCCCCceEEEcCCCcCCch
Confidence            34456667777776666653222 33333333   66666666666  211    11223344 5666666666666522


Q ss_pred             cccccc-ccCCCCCCcEEEcCCCCCC
Q 040978           76 VTITTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        76 ~~~~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      ....+. .+..+..|+++++++|.+.
T Consensus       153 ~~~~~~~~~~~~~~L~~L~l~~n~l~  178 (319)
T cd00116         153 SCEALAKALRANRDLKELNLANNGIG  178 (319)
T ss_pred             HHHHHHHHHHhCCCcCEEECcCCCCc
Confidence            100002 3344455555555555554

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).

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

Probab=98.47  E-value=1.3e-08  Score=70.62  Aligned_cols=91  Identities=25%  Similarity=0.382  Sum_probs=75.4

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +|+.++...+|.+||.+.|.+. .+| ..+.++..|+.|.+++|++   ..+|..+..+ .|..||++.|++. .+    
T Consensus       158 lp~~ig~~~tl~~ld~s~nei~-slp-sql~~l~slr~l~vrRn~l---~~lp~El~~L-pLi~lDfScNkis-~i----  226 (722)
T KOG0532|consen  158 LPEEIGLLPTLAHLDVSKNEIQ-SLP-SQLGYLTSLRDLNVRRNHL---EDLPEELCSL-PLIRLDFSCNKIS-YL----  226 (722)
T ss_pred             CCcccccchhHHHhhhhhhhhh-hch-HHhhhHHHHHHHHHhhhhh---hhCCHHHhCC-ceeeeecccCcee-ec----
Confidence            3666777788888888888888 667 7788888888888888888   6677777754 4889999999998 56    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      | .|..|+.|++|.|.+|++.+.
T Consensus       227 Pv~fr~m~~Lq~l~LenNPLqSP  249 (722)
T KOG0532|consen  227 PVDFRKMRHLQVLQLENNPLQSP  249 (722)
T ss_pred             chhhhhhhhheeeeeccCCCCCC
Confidence            8 999999999999999998654

>PLN03210 Resistant to P

Probab=98.46  E-value=1.3e-06  Score=65.71  Aligned_cols=85  Identities=21%  Similarity=0.216  Sum_probs=41.5

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      +..+++|+.++++++......|  .+..+++|+.|++++|..  -...|..+..+.+|+.|++++|......    | .+
T Consensus       630 ~~~l~~Lk~L~Ls~~~~l~~ip--~ls~l~~Le~L~L~~c~~--L~~lp~si~~L~~L~~L~L~~c~~L~~L----p~~i  701 (1153)
T PLN03210        630 VHSLTGLRNIDLRGSKNLKEIP--DLSMATNLETLKLSDCSS--LVELPSSIQYLNKLEDLDMSRCENLEIL----PTGI  701 (1153)
T ss_pred             cccCCCCCEEECCCCCCcCcCC--ccccCCcccEEEecCCCC--ccccchhhhccCCCCEEeCCCCCCcCcc----CCcC
Confidence            3445555555555543222333  244455555555555533  2444555555666666666655433233    3 22


Q ss_pred             CCCCCCcEEEcCCCC
Q 040978           84 HNFTNLEYLKLNDSP   98 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~   98 (104)
                       .+++|+.|++++|.
T Consensus       702 -~l~sL~~L~Lsgc~  715 (1153)
T PLN03210        702 -NLKSLYRLNLSGCS  715 (1153)
T ss_pred             -CCCCCCEEeCCCCC
Confidence             44555555555543

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=98.44  E-value=1.4e-06  Score=65.62  Aligned_cols=87  Identities=20%  Similarity=0.197  Sum_probs=63.3

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNF   86 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~   86 (104)
                      ..+|+.|++.+|.+. .++ ..+..+++|+.++++++..  -...| .+..+++|+.|++++|......    | .+..+
T Consensus       610 ~~~L~~L~L~~s~l~-~L~-~~~~~l~~Lk~L~Ls~~~~--l~~ip-~ls~l~~Le~L~L~~c~~L~~l----p~si~~L  680 (1153)
T PLN03210        610 PENLVKLQMQGSKLE-KLW-DGVHSLTGLRNIDLRGSKN--LKEIP-DLSMATNLETLKLSDCSSLVEL----PSSIQYL  680 (1153)
T ss_pred             ccCCcEEECcCcccc-ccc-cccccCCCCCEEECCCCCC--cCcCC-ccccCCcccEEEecCCCCcccc----chhhhcc
Confidence            467888888888877 556 6667788888888887653  24444 3667788888988887665566    7 88888


Q ss_pred             CCCcEEEcCCCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHISL  103 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~~~  103 (104)
                      ++|+.|++++|...+.+
T Consensus       681 ~~L~~L~L~~c~~L~~L  697 (1153)
T PLN03210        681 NKLEDLDMSRCENLEIL  697 (1153)
T ss_pred             CCCCEEeCCCCCCcCcc
Confidence            99999999886543333

syringae 6; Provisional

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

Probab=98.42  E-value=7.7e-08  Score=62.79  Aligned_cols=38  Identities=34%  Similarity=0.284  Sum_probs=24.7

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV   46 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~   46 (104)
                      .-.|.++.|+++.|.+. .+  +.+..+++|+.|++++|.+
T Consensus       304 KL~Pkir~L~lS~N~i~-~v--~nLa~L~~L~~LDLS~N~L  341 (490)
T KOG1259|consen  304 KLAPKLRRLILSQNRIR-TV--QNLAELPQLQLLDLSGNLL  341 (490)
T ss_pred             hhccceeEEecccccee-ee--hhhhhcccceEeecccchh
Confidence            33566677777777766 33  3466677777777777766

>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=98.34  E-value=1.4e-06  Score=41.08  Aligned_cols=35  Identities=40%  Similarity=0.471  Sum_probs=14.3

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcc
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV   46 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~   46 (104)
                      +|++|++++|.+. .++ ..+..+++|+.|++++|++
T Consensus         2 ~L~~L~l~~N~i~-~l~-~~l~~l~~L~~L~l~~N~i   36 (44)
T PF12799_consen    2 NLEELDLSNNQIT-DLP-PELSNLPNLETLNLSNNPI   36 (44)
T ss_dssp             T-SEEEETSSS-S-SHG-GHGTTCTTSSEEEETSSCC
T ss_pred             cceEEEccCCCCc-ccC-chHhCCCCCCEEEecCCCC
Confidence            3444444444444 333 2344444444444444444

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.30  E-value=2.7e-07  Score=67.64  Aligned_cols=86  Identities=30%  Similarity=0.361  Sum_probs=71.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..++.|.+||+++|.-.+.+| ..++.+.+|++|+++...+   ..+|..++.+..|.+|++..+......    + .
T Consensus       566 ff~~m~~LrVLDLs~~~~l~~LP-~~I~~Li~LryL~L~~t~I---~~LP~~l~~Lk~L~~Lnl~~~~~l~~~----~~i  637 (889)
T KOG4658|consen  566 FFRSLPLLRVLDLSGNSSLSKLP-SSIGELVHLRYLDLSDTGI---SHLPSGLGNLKKLIYLNLEVTGRLESI----PGI  637 (889)
T ss_pred             HHhhCcceEEEECCCCCccCcCC-hHHhhhhhhhcccccCCCc---cccchHHHHHHhhheeccccccccccc----cch
Confidence            36779999999999887766788 8899999999999999998   578888999999999999887765455    5 5


Q ss_pred             cCCCCCCcEEEcCCC
Q 040978           83 LHNFTNLEYLKLNDS   97 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n   97 (104)
                      ...+.+|++|.+-..
T Consensus       638 ~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  638 LLELQSLRVLRLPRS  652 (889)
T ss_pred             hhhcccccEEEeecc
Confidence            566889998887554

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

Probab=98.30  E-value=5.6e-08  Score=64.99  Aligned_cols=83  Identities=23%  Similarity=0.358  Sum_probs=60.3

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccC-CcCCcccccccc-ccCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSS-NNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~-n~~~~~~~~~~~-~~~~~~   87 (104)
                      ....+++..|.|+ .+|+..|..+++|+.+++++|++  +...|.+|..+..+..+-+.+ |++++..    . .|+++.
T Consensus        68 ~tveirLdqN~I~-~iP~~aF~~l~~LRrLdLS~N~I--s~I~p~AF~GL~~l~~Lvlyg~NkI~~l~----k~~F~gL~  140 (498)
T KOG4237|consen   68 ETVEIRLDQNQIS-SIPPGAFKTLHRLRRLDLSKNNI--SFIAPDAFKGLASLLSLVLYGNNKITDLP----KGAFGGLS  140 (498)
T ss_pred             cceEEEeccCCcc-cCChhhccchhhhceecccccch--hhcChHhhhhhHhhhHHHhhcCCchhhhh----hhHhhhHH
Confidence            4567788888888 66657888888899999999888  667788888887776665555 7777554    3 666666


Q ss_pred             CCcEEEcCCCCC
Q 040978           88 NLEYLKLNDSPL   99 (104)
Q Consensus        88 ~L~~l~l~~n~~   99 (104)
                      +++.|.+..|.+
T Consensus       141 slqrLllNan~i  152 (498)
T KOG4237|consen  141 SLQRLLLNANHI  152 (498)
T ss_pred             HHHHHhcChhhh
Confidence            666665555443

>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=98.30  E-value=1e-06  Score=41.55  Aligned_cols=40  Identities=30%  Similarity=0.533  Sum_probs=32.7

Q ss_pred             CCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccc
Q 040978           34 RKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETV   76 (104)
Q Consensus        34 ~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~   76 (104)
                      ++|+.|++++|++   ..++..+..+++|+.|++++|++++..
T Consensus         1 ~~L~~L~l~~N~i---~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQI---TDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS----SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCC---cccCchHhCCCCCCEEEecCCCCCCCc
Confidence            4689999999999   456777999999999999999998543

...

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

Probab=98.30  E-value=1.5e-06  Score=53.59  Aligned_cols=82  Identities=23%  Similarity=0.352  Sum_probs=55.0

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--ccCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--ELHNFT   87 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~~~~~   87 (104)
                      ....+|+++|.+. ..  ..|..++.|.+|.+.+|++  ....|..-..++.|..|.+.+|++....    .  .+..|+
T Consensus        43 ~~d~iDLtdNdl~-~l--~~lp~l~rL~tLll~nNrI--t~I~p~L~~~~p~l~~L~LtnNsi~~l~----dl~pLa~~p  113 (233)
T KOG1644|consen   43 QFDAIDLTDNDLR-KL--DNLPHLPRLHTLLLNNNRI--TRIDPDLDTFLPNLKTLILTNNSIQELG----DLDPLASCP  113 (233)
T ss_pred             ccceecccccchh-hc--ccCCCccccceEEecCCcc--eeeccchhhhccccceEEecCcchhhhh----hcchhccCC
Confidence            4556677777766 33  4667777788888888887  3444443344567778888888777443    2  566777


Q ss_pred             CCcEEEcCCCCCC
Q 040978           88 NLEYLKLNDSPLH  100 (104)
Q Consensus        88 ~L~~l~l~~n~~~  100 (104)
                      .|+.|.+-+|+++
T Consensus       114 ~L~~Ltll~Npv~  126 (233)
T KOG1644|consen  114 KLEYLTLLGNPVE  126 (233)
T ss_pred             ccceeeecCCchh
Confidence            8888887777764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.29  E-value=1e-06  Score=63.86  Aligned_cols=58  Identities=22%  Similarity=0.237  Sum_probs=38.6

Q ss_pred             CCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCCCCCCCC
Q 040978           35 KLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        35 ~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      +|+.|++++|++   ..+|..   ..+|+.|++++|.++ .+    | .+..+++|+.+++++|++++.+
T Consensus       403 ~L~~LdLS~N~L---ssIP~l---~~~L~~L~Ls~NqLt-~L----P~sl~~L~~L~~LdLs~N~Ls~~~  461 (788)
T PRK15387        403 ELKELMVSGNRL---TSLPML---PSGLLSLSVYRNQLT-RL----PESLIHLSSETTVNLEGNPLSERT  461 (788)
T ss_pred             CCCEEEccCCcC---CCCCcc---hhhhhhhhhccCccc-cc----ChHHhhccCCCeEECCCCCCCchH
Confidence            455555555555   223321   134566677777776 44    7 8888999999999999998764

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

Probab=98.28  E-value=7.9e-08  Score=69.71  Aligned_cols=82  Identities=23%  Similarity=0.205  Sum_probs=49.6

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      .+..|+.|...+|.+. ..|  .+..+++|+.+|++.|++  +..........++|+.|++++|.....-    - .+..
T Consensus       428 ~~~~L~tL~ahsN~l~-~fP--e~~~l~qL~~lDlS~N~L--~~~~l~~~~p~p~LkyLdlSGN~~l~~d----~~~l~~  498 (1081)
T KOG0618|consen  428 NLGRLHTLRAHSNQLL-SFP--ELAQLPQLKVLDLSCNNL--SEVTLPEALPSPNLKYLDLSGNTRLVFD----HKTLKV  498 (1081)
T ss_pred             hhhhhHHHhhcCCcee-ech--hhhhcCcceEEecccchh--hhhhhhhhCCCcccceeeccCCcccccc----hhhhHH
Confidence            3334444444444443 233  456788899999999999  3322222223489999999999854222    1 5666


Q ss_pred             CCCCcEEEcCCC
Q 040978           86 FTNLEYLKLNDS   97 (104)
Q Consensus        86 ~~~L~~l~l~~n   97 (104)
                      ++.+..+++.-|
T Consensus       499 l~~l~~~~i~~~  510 (1081)
T KOG0618|consen  499 LKSLSQMDITLN  510 (1081)
T ss_pred             hhhhhheecccC
Confidence            666666665544

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

Probab=98.23  E-value=1.6e-07  Score=61.32  Aligned_cols=91  Identities=32%  Similarity=0.366  Sum_probs=70.4

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL   83 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~   83 (104)
                      .++.+++|+.||+++|.+. .+. .--..+.+++.|.++.|.+   ..+ ..++.+.+|..|++.+|++...-  +|..+
T Consensus       324 nLa~L~~L~~LDLS~N~Ls-~~~-Gwh~KLGNIKtL~La~N~i---E~L-SGL~KLYSLvnLDl~~N~Ie~ld--eV~~I  395 (490)
T KOG1259|consen  324 NLAELPQLQLLDLSGNLLA-ECV-GWHLKLGNIKTLKLAQNKI---ETL-SGLRKLYSLVNLDLSSNQIEELD--EVNHI  395 (490)
T ss_pred             hhhhcccceEeecccchhH-hhh-hhHhhhcCEeeeehhhhhH---hhh-hhhHhhhhheeccccccchhhHH--Hhccc
Confidence            4667899999999999988 332 2223467899999999988   332 44667888999999999998443  00178


Q ss_pred             CCCCCCcEEEcCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~  102 (104)
                      +.+++|+++.+.+|++.+.
T Consensus       396 G~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  396 GNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             ccccHHHHHhhcCCCcccc
Confidence            9999999999999998774

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

Probab=98.08  E-value=8.8e-06  Score=50.32  Aligned_cols=88  Identities=22%  Similarity=0.236  Sum_probs=66.5

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhh--hhcCCCCCccEEeccCCcCCccccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLL--QSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~--~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +.|..++.|.+|.+..|.|+...| .--..+++++.|.+.+|.+   ..+.  ..+..+|+|+.|.+-+|.+....  .-
T Consensus        58 ~~lp~l~rL~tLll~nNrIt~I~p-~L~~~~p~l~~L~LtnNsi---~~l~dl~pLa~~p~L~~Ltll~Npv~~k~--~Y  131 (233)
T KOG1644|consen   58 DNLPHLPRLHTLLLNNNRITRIDP-DLDTFLPNLKTLILTNNSI---QELGDLDPLASCPKLEYLTLLGNPVEHKK--NY  131 (233)
T ss_pred             ccCCCccccceEEecCCcceeecc-chhhhccccceEEecCcch---hhhhhcchhccCCccceeeecCCchhccc--Cc
Confidence            456778999999999999995444 3334457899999999998   3332  35678899999999999987432  00


Q ss_pred             c--ccCCCCCCcEEEcCC
Q 040978           81 Q--ELHNFTNLEYLKLND   96 (104)
Q Consensus        81 ~--~~~~~~~L~~l~l~~   96 (104)
                      .  .+..+++|++||.+.
T Consensus       132 R~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  132 RLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eeEEEEecCcceEeehhh
Confidence            1  567899999999764

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

Probab=98.02  E-value=3.1e-06  Score=57.42  Aligned_cols=85  Identities=26%  Similarity=0.346  Sum_probs=62.6

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      +..+.+++.+++..|.+. .+. ..+..+++|+.|++++|.+  ...  ..+..+..|+.|++.+|.+....     .+.
T Consensus        91 l~~~~~l~~l~l~~n~i~-~i~-~~l~~~~~L~~L~ls~N~I--~~i--~~l~~l~~L~~L~l~~N~i~~~~-----~~~  159 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIE-KIE-NLLSSLVNLQVLDLSFNKI--TKL--EGLSTLTLLKELNLSGNLISDIS-----GLE  159 (414)
T ss_pred             cccccceeeeeccccchh-hcc-cchhhhhcchheecccccc--ccc--cchhhccchhhheeccCcchhcc-----CCc
Confidence            566788888999999888 443 3367788899999999988  222  23445566888889988888554     566


Q ss_pred             CCCCCcEEEcCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLH  100 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~  100 (104)
                      .+..|+.+++++|.+.
T Consensus       160 ~l~~L~~l~l~~n~i~  175 (414)
T KOG0531|consen  160 SLKSLKLLDLSYNRIV  175 (414)
T ss_pred             cchhhhcccCCcchhh
Confidence            6888888888888764

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.00  E-value=2.9e-05  Score=56.40  Aligned_cols=34  Identities=26%  Similarity=0.413  Sum_probs=19.1

Q ss_pred             CccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCCCCCC
Q 040978           61 SLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        61 ~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                      +|+.|++++|.+.. +    | .+  ..+|+.|++++|.+++
T Consensus       263 ~L~~L~Ls~N~L~~-L----P~~l--~~sL~~L~Ls~N~Lt~  297 (754)
T PRK15370        263 ALQSLDLFHNKISC-L----PENL--PEELRYLSVYDNSIRT  297 (754)
T ss_pred             CCCEEECcCCccCc-c----cccc--CCCCcEEECCCCcccc
Confidence            45666666666552 3    3 22  2366677777766553

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

Probab=97.94  E-value=2.1e-07  Score=66.53  Aligned_cols=83  Identities=31%  Similarity=0.318  Sum_probs=41.7

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhh-cCCCCCccEEeccCCcCCccccccccccC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQS-MGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~-~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      .-++.++.|++++|.+.+ +  ..+..+++|++||++.|.+   ..+|.- ... .+|+.|.+.+|.++...     ++.
T Consensus       184 qll~ale~LnLshNk~~~-v--~~Lr~l~~LkhLDlsyN~L---~~vp~l~~~g-c~L~~L~lrnN~l~tL~-----gie  251 (1096)
T KOG1859|consen  184 QLLPALESLNLSHNKFTK-V--DNLRRLPKLKHLDLSYNCL---RHVPQLSMVG-CKLQLLNLRNNALTTLR-----GIE  251 (1096)
T ss_pred             HHHHHhhhhccchhhhhh-h--HHHHhcccccccccccchh---ccccccchhh-hhheeeeecccHHHhhh-----hHH
Confidence            334555666666666552 2  3455555666666666655   333331 111 12555555555555322     445


Q ss_pred             CCCCCcEEEcCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLH  100 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~  100 (104)
                      ++++|+.||++.|-+.
T Consensus       252 ~LksL~~LDlsyNll~  267 (1096)
T KOG1859|consen  252 NLKSLYGLDLSYNLLS  267 (1096)
T ss_pred             hhhhhhccchhHhhhh
Confidence            5555555555555443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.90  E-value=5.6e-05  Score=54.99  Aligned_cols=77  Identities=17%  Similarity=0.264  Sum_probs=56.0

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      ++++.|++++|.+. .+| ..+.  .+|+.|++++|++   ..+|..+.  .+|+.|++++|.+. .+    | .+.  .
T Consensus       199 ~~L~~L~Ls~N~Lt-sLP-~~l~--~nL~~L~Ls~N~L---tsLP~~l~--~~L~~L~Ls~N~L~-~L----P~~l~--s  262 (754)
T PRK15370        199 EQITTLILDNNELK-SLP-ENLQ--GNIKTLYANSNQL---TSIPATLP--DTIQEMELSINRIT-EL----PERLP--S  262 (754)
T ss_pred             cCCcEEEecCCCCC-cCC-hhhc--cCCCEEECCCCcc---ccCChhhh--ccccEEECcCCccC-cC----ChhHh--C
Confidence            46888888888888 566 4432  4788999998888   34555432  46888999999887 44    5 432  5


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      +|+.|++++|.++.
T Consensus       263 ~L~~L~Ls~N~L~~  276 (754)
T PRK15370        263 ALQSLDLFHNKISC  276 (754)
T ss_pred             CCCEEECcCCccCc
Confidence            78999999998774

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=97.89  E-value=5.2e-05  Score=55.31  Aligned_cols=15  Identities=33%  Similarity=0.612  Sum_probs=8.4

Q ss_pred             CCccEEeccCCcCCc
Q 040978           60 PSLNNLYLSSNNFTE   74 (104)
Q Consensus        60 ~~L~~l~l~~n~~~~   74 (104)
                      ++|+.|++++|.+..
T Consensus       302 ~~L~~LdLS~N~L~~  316 (788)
T PRK15387        302 PGLQELSVSDNQLAS  316 (788)
T ss_pred             cccceeECCCCcccc
Confidence            345566666665553

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

Probab=97.87  E-value=1.1e-06  Score=51.41  Aligned_cols=79  Identities=16%  Similarity=0.308  Sum_probs=45.7

Q ss_pred             CCCEEECCCCCCCCccccCccC-CCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYS-GLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      .|...++++|.+. ..| ..|. .++.++.+++++|.+   .++|..+..++.|+.++++.|.+...     | .+..+.
T Consensus        54 el~~i~ls~N~fk-~fp-~kft~kf~t~t~lNl~~nei---sdvPeE~Aam~aLr~lNl~~N~l~~~-----p~vi~~L~  123 (177)
T KOG4579|consen   54 ELTKISLSDNGFK-KFP-KKFTIKFPTATTLNLANNEI---SDVPEELAAMPALRSLNLRFNPLNAE-----PRVIAPLI  123 (177)
T ss_pred             eEEEEecccchhh-hCC-HHHhhccchhhhhhcchhhh---hhchHHHhhhHHhhhcccccCccccc-----hHHHHHHH
Confidence            3445566666666 344 3333 334666677777766   45666666667777777777766632     3 344455


Q ss_pred             CCcEEEcCCCC
Q 040978           88 NLEYLKLNDSP   98 (104)
Q Consensus        88 ~L~~l~l~~n~   98 (104)
                      ++..|+..+|.
T Consensus       124 ~l~~Lds~~na  134 (177)
T KOG4579|consen  124 KLDMLDSPENA  134 (177)
T ss_pred             hHHHhcCCCCc
Confidence            55555555543

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

Probab=97.85  E-value=6.5e-06  Score=55.29  Aligned_cols=82  Identities=33%  Similarity=0.445  Sum_probs=37.2

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCC-CCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLR-KLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~-~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~   87 (104)
                      +.++.+++.+|.+. .++ ....... +|+.+++++|.+   ...+.....++.|+.|+++.|++....    +.....+
T Consensus       116 ~~l~~L~l~~n~i~-~i~-~~~~~~~~nL~~L~l~~N~i---~~l~~~~~~l~~L~~L~l~~N~l~~l~----~~~~~~~  186 (394)
T COG4886         116 TNLTSLDLDNNNIT-DIP-PLIGLLKSNLKELDLSDNKI---ESLPSPLRNLPNLKNLDLSFNDLSDLP----KLLSNLS  186 (394)
T ss_pred             cceeEEecCCcccc-cCc-cccccchhhcccccccccch---hhhhhhhhccccccccccCCchhhhhh----hhhhhhh
Confidence            34555555555555 333 2223332 455555555555   233333444555555555555555222    1222444


Q ss_pred             CCcEEEcCCCCC
Q 040978           88 NLEYLKLNDSPL   99 (104)
Q Consensus        88 ~L~~l~l~~n~~   99 (104)
                      .|+.+++++|.+
T Consensus       187 ~L~~L~ls~N~i  198 (394)
T COG4886         187 NLNNLDLSGNKI  198 (394)
T ss_pred             hhhheeccCCcc
Confidence            555555555544

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

Probab=97.80  E-value=1.9e-05  Score=53.06  Aligned_cols=87  Identities=32%  Similarity=0.411  Sum_probs=67.3

Q ss_pred             cccCCCC-CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            3 AEFNSFN-NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         3 ~~~~~~~-~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      +....+. +|+.|++++|.+. ..+ ..+..++.|+.|+++.|.+   ...+...+..+.|+.+++++|.+....    +
T Consensus       133 ~~~~~~~~nL~~L~l~~N~i~-~l~-~~~~~l~~L~~L~l~~N~l---~~l~~~~~~~~~L~~L~ls~N~i~~l~----~  203 (394)
T COG4886         133 PLIGLLKSNLKELDLSDNKIE-SLP-SPLRNLPNLKNLDLSFNDL---SDLPKLLSNLSNLNNLDLSGNKISDLP----P  203 (394)
T ss_pred             cccccchhhcccccccccchh-hhh-hhhhccccccccccCCchh---hhhhhhhhhhhhhhheeccCCccccCc----h
Confidence            3344453 8999999999998 665 5678899999999999999   555555557888999999999999443    1


Q ss_pred             ccCCCCCCcEEEcCCCC
Q 040978           82 ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~   98 (104)
                      .......|..+.+++|.
T Consensus       204 ~~~~~~~L~~l~~~~N~  220 (394)
T COG4886         204 EIELLSALEELDLSNNS  220 (394)
T ss_pred             hhhhhhhhhhhhhcCCc
Confidence            44566668888888884

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

Probab=97.77  E-value=8.1e-06  Score=55.43  Aligned_cols=87  Identities=29%  Similarity=0.370  Sum_probs=39.5

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhh-hhcCCCCCccEEeccCCcCCcccccccc-ccC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLL-QSMGSFPSLNNLYLSSNNFTETVTITTQ-ELH   84 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~-~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~   84 (104)
                      .+++|+.|+++.|.+.-...+..-..+++++.|.++.|++  ++..- .....+|+++.|++..|......    . ...
T Consensus       170 qLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGl--s~k~V~~~~~~fPsl~~L~L~~N~~~~~~----~~~~~  243 (505)
T KOG3207|consen  170 QLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGL--SWKDVQWILLTFPSLEVLYLEANEIILIK----ATSTK  243 (505)
T ss_pred             hcccchhcccccccccCCccccchhhhhhhheEEeccCCC--CHHHHHHHHHhCCcHHHhhhhccccccee----cchhh
Confidence            3555556666655554221101112345566666666666  33222 22334555555555555322111    1 233


Q ss_pred             CCCCCcEEEcCCCCC
Q 040978           85 NFTNLEYLKLNDSPL   99 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~   99 (104)
                      .++.|+.|++++|.+
T Consensus       244 i~~~L~~LdLs~N~l  258 (505)
T KOG3207|consen  244 ILQTLQELDLSNNNL  258 (505)
T ss_pred             hhhHHhhccccCCcc
Confidence            444555555555543

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

Probab=97.75  E-value=6.8e-07  Score=62.34  Aligned_cols=93  Identities=24%  Similarity=0.316  Sum_probs=54.9

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccc---
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVT---   77 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~---   77 (104)
                      +|+.++.+..|+++|++.|.++ ..| ..++.++ |+.|-+++|++   ..+|..++..++|..++.+.|.+.....   
T Consensus       113 ip~~i~~L~~lt~l~ls~NqlS-~lp-~~lC~lp-Lkvli~sNNkl---~~lp~~ig~~~tl~~ld~s~nei~slpsql~  186 (722)
T KOG0532|consen  113 IPEAICNLEALTFLDLSSNQLS-HLP-DGLCDLP-LKVLIVSNNKL---TSLPEEIGLLPTLAHLDVSKNEIQSLPSQLG  186 (722)
T ss_pred             cchhhhhhhHHHHhhhccchhh-cCC-hhhhcCc-ceeEEEecCcc---ccCCcccccchhHHHhhhhhhhhhhchHHhh
Confidence            3566677777777777777777 666 6666665 66666677666   4445555545555555555555542210   


Q ss_pred             ---c------------ccc-ccCCCCCCcEEEcCCCCCC
Q 040978           78 ---I------------TTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        78 ---~------------~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                         +            .+| .+. .-.|..||++.|+++
T Consensus       187 ~l~slr~l~vrRn~l~~lp~El~-~LpLi~lDfScNkis  224 (722)
T KOG0532|consen  187 YLTSLRDLNVRRNHLEDLPEELC-SLPLIRLDFSCNKIS  224 (722)
T ss_pred             hHHHHHHHHHhhhhhhhCCHHHh-CCceeeeecccCcee
Confidence               0            113 333 445667888887765

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

Probab=97.74  E-value=1.1e-06  Score=63.08  Aligned_cols=86  Identities=29%  Similarity=0.407  Sum_probs=65.6

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCc-cCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQG-YSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~-~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      .+..|+.|++||+++|.+. .+| .. ..++. |+.|.+++|-+   ..+ ..+.++.+|+.|+++.|-+.+..    . 
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~-~vp-~l~~~gc~-L~~L~lrnN~l---~tL-~gie~LksL~~LDlsyNll~~hs----eL  272 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLR-HVP-QLSMVGCK-LQLLNLRNNAL---TTL-RGIENLKSLYGLDLSYNLLSEHS----EL  272 (1096)
T ss_pred             HHHhcccccccccccchhc-ccc-ccchhhhh-heeeeecccHH---Hhh-hhHHhhhhhhccchhHhhhhcch----hh
Confidence            4677999999999999998 555 21 22333 99999999988   333 33557889999999999887543    3 


Q ss_pred             -ccCCCCCCcEEEcCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~  100 (104)
                       -++.+..|+.|.+.+|++.
T Consensus       273 ~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  273 EPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             hHHHHHHHHHHHhhcCCccc
Confidence             4567788999999999863

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

Probab=97.68  E-value=3.4e-05  Score=49.10  Aligned_cols=66  Identities=32%  Similarity=0.392  Sum_probs=27.7

Q ss_pred             cCCCCCCCEEeCCCC--cccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCC
Q 040978           30 YSGLRKLKSLDLSRV--GVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        30 ~~~~~~L~~l~l~~~--~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~   99 (104)
                      +..++.|+.|.++.|  ++  ...++-....+|+|+++++++|+++...  .++.+..+.+|..|++.+|..
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~--~~~l~vl~e~~P~l~~l~ls~Nki~~ls--tl~pl~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRV--SGGLEVLAEKAPNLKVLNLSGNKIKDLS--TLRPLKELENLKSLDLFNCSV  128 (260)
T ss_pred             CCCcchhhhhcccCCcccc--cccceehhhhCCceeEEeecCCcccccc--ccchhhhhcchhhhhcccCCc
Confidence            444455555555555  22  2222222223355555555555554221  001333444444555544443

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

Probab=97.65  E-value=4.1e-05  Score=55.27  Aligned_cols=91  Identities=22%  Similarity=0.288  Sum_probs=57.5

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc----
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ----   81 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~----   81 (104)
                      .++++|..||+++++++. +  .+++.+.+|+.|.+.+=.+. +...-..+.++.+|+.||++........ .++.    
T Consensus       170 ~sFpNL~sLDIS~TnI~n-l--~GIS~LknLq~L~mrnLe~e-~~~~l~~LF~L~~L~vLDIS~~~~~~~~-~ii~qYle  244 (699)
T KOG3665|consen  170 ASFPNLRSLDISGTNISN-L--SGISRLKNLQVLSMRNLEFE-SYQDLIDLFNLKKLRVLDISRDKNNDDT-KIIEQYLE  244 (699)
T ss_pred             hccCccceeecCCCCccC-c--HHHhccccHHHHhccCCCCC-chhhHHHHhcccCCCeeeccccccccch-HHHHHHHH
Confidence            456777777777777773 2  45666777777766665552 1122234557888999999877655321 0001    


Q ss_pred             ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .-..+++||.||.+++.+..
T Consensus       245 c~~~LpeLrfLDcSgTdi~~  264 (699)
T KOG3665|consen  245 CGMVLPELRFLDCSGTDINE  264 (699)
T ss_pred             hcccCccccEEecCCcchhH
Confidence            22458899999998877654

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

Probab=97.53  E-value=4.3e-05  Score=48.65  Aligned_cols=89  Identities=22%  Similarity=0.224  Sum_probs=60.3

Q ss_pred             cccCCCCCCCEEECCCC--CCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            3 AEFNSFNNLELLDMSFN--EINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n--~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      ..|..+++|+.|.++.|  ++...++ ...-.+++|++++++.|++++-..+ .....+.+|..|++..|.....- . -
T Consensus        59 ~~~P~Lp~LkkL~lsdn~~~~~~~l~-vl~e~~P~l~~l~ls~Nki~~lstl-~pl~~l~nL~~Ldl~n~~~~~l~-d-y  134 (260)
T KOG2739|consen   59 TNFPKLPKLKKLELSDNYRRVSGGLE-VLAEKAPNLKVLNLSGNKIKDLSTL-RPLKELENLKSLDLFNCSVTNLD-D-Y  134 (260)
T ss_pred             ccCCCcchhhhhcccCCcccccccce-ehhhhCCceeEEeecCCcccccccc-chhhhhcchhhhhcccCCccccc-c-H
Confidence            35677899999999999  5554444 3445569999999999998210111 23445677888999988877532 0 0


Q ss_pred             c--ccCCCCCCcEEEcC
Q 040978           81 Q--ELHNFTNLEYLKLN   95 (104)
Q Consensus        81 ~--~~~~~~~L~~l~l~   95 (104)
                      .  .|.-+++|++++-.
T Consensus       135 re~vf~ll~~L~~LD~~  151 (260)
T KOG2739|consen  135 REKVFLLLPSLKYLDGC  151 (260)
T ss_pred             HHHHHHHhhhhcccccc
Confidence            1  56677888877643

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

Probab=97.53  E-value=1.4e-05  Score=52.88  Aligned_cols=95  Identities=24%  Similarity=0.348  Sum_probs=52.7

Q ss_pred             ccCCCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCch--hhhhcC-CCCCccEEeccCCcCCccc
Q 040978            4 EFNSFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSK--LLQSMG-SFPSLNNLYLSSNNFTETV   76 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~--~~~~~~-~l~~L~~l~l~~n~~~~~~   76 (104)
                      .|..|++|++||+..|.++..    +. ..++.+++|+.++++.|.+++.+.  +...+. ..|+|+.+.+.+|.++...
T Consensus       208 al~~~~~LevLdl~DNtft~egs~~La-kaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da  286 (382)
T KOG1909|consen  208 ALEHCPHLEVLDLRDNTFTLEGSVALA-KALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDA  286 (382)
T ss_pred             HHHhCCcceeeecccchhhhHHHHHHH-HHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHH
Confidence            455677777777777766622    22 345566677777777777732111  112222 2467777777777776321


Q ss_pred             ccccc-ccCCCCCCcEEEcCCCCC
Q 040978           77 TITTQ-ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        77 ~~~~~-~~~~~~~L~~l~l~~n~~   99 (104)
                      --.+. .....+.|..|++.+|.+
T Consensus       287 ~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  287 ALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHHHHHHhcchhhHHhcCCcccc
Confidence            00001 334466777777777766

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

Probab=97.50  E-value=2.8e-05  Score=52.87  Aligned_cols=84  Identities=27%  Similarity=0.329  Sum_probs=65.1

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFT   87 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~   87 (104)
                      +..++.+.+..|.+.. .- ..+..+.++..+++.+|.+   ......+..+++|++++++.|.+....     .+..++
T Consensus        71 l~~l~~l~l~~n~i~~-~~-~~l~~~~~l~~l~l~~n~i---~~i~~~l~~~~~L~~L~ls~N~I~~i~-----~l~~l~  140 (414)
T KOG0531|consen   71 LTSLKELNLRQNLIAK-IL-NHLSKLKSLEALDLYDNKI---EKIENLLSSLVNLQVLDLSFNKITKLE-----GLSTLT  140 (414)
T ss_pred             hHhHHhhccchhhhhh-hh-cccccccceeeeeccccch---hhcccchhhhhcchheecccccccccc-----chhhcc
Confidence            4556666777788773 22 4577889999999999998   333333667899999999999999665     667777


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      .|+.|++.+|.++.
T Consensus       141 ~L~~L~l~~N~i~~  154 (414)
T KOG0531|consen  141 LLKELNLSGNLISD  154 (414)
T ss_pred             chhhheeccCcchh
Confidence            89999999998864

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.48  E-value=5.5e-05  Score=55.92  Aligned_cols=84  Identities=29%  Similarity=0.300  Sum_probs=67.2

Q ss_pred             CCCCCCEEECCCCC--CCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            7 SFNNLELLDMSFNE--INNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         7 ~~~~L~~L~l~~n~--~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      .++.|+.|-+.+|.  +. ..+...|..++.|+.||+++|.-  ...+|..++.+-+|+.|++++..+. ..    | .+
T Consensus       543 ~~~~L~tLll~~n~~~l~-~is~~ff~~m~~LrVLDLs~~~~--l~~LP~~I~~Li~LryL~L~~t~I~-~L----P~~l  614 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLL-EISGEFFRSLPLLRVLDLSGNSS--LSKLPSSIGELVHLRYLDLSDTGIS-HL----PSGL  614 (889)
T ss_pred             CCCccceEEEeecchhhh-hcCHHHHhhCcceEEEECCCCCc--cCcCChHHhhhhhhhcccccCCCcc-cc----chHH
Confidence            35567788888875  44 34424578899999999998754  4788999999999999999999998 55    7 99


Q ss_pred             CCCCCCcEEEcCCCC
Q 040978           84 HNFTNLEYLKLNDSP   98 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~   98 (104)
                      +.++.|.+|++..+.
T Consensus       615 ~~Lk~L~~Lnl~~~~  629 (889)
T KOG4658|consen  615 GNLKKLIYLNLEVTG  629 (889)
T ss_pred             HHHHhhheecccccc
Confidence            999999999988765

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

Probab=97.40  E-value=7e-05  Score=51.06  Aligned_cols=88  Identities=25%  Similarity=0.233  Sum_probs=51.7

Q ss_pred             CCCCCCCEEECCCCCCCCcccc-CccCCCCCCCEEeCCCCcccCCchhhh-hcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            6 NSFNNLELLDMSFNEINNLVVP-QGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~-~~~~~~~~L~~l~l~~~~~~~~~~~~~-~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      ..|++++.||++.|-+..+.+. +-+..+++|+.|+++.|++  ...... .-..+++++.|.+++|.++   |++|. .
T Consensus       143 k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl--~~~~~s~~~~~l~~lK~L~l~~CGls---~k~V~~~  217 (505)
T KOG3207|consen  143 KILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRL--SNFISSNTTLLLSHLKQLVLNSCGLS---WKDVQWI  217 (505)
T ss_pred             hhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccc--cCCccccchhhhhhhheEEeccCCCC---HHHHHHH
Confidence            4466777777777766543221 2234567777777777766  211111 1113466777777777766   22234 5


Q ss_pred             cCCCCCCcEEEcCCCC
Q 040978           83 LHNFTNLEYLKLNDSP   98 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~   98 (104)
                      ...+++|+.|++..|.
T Consensus       218 ~~~fPsl~~L~L~~N~  233 (505)
T KOG3207|consen  218 LLTFPSLEVLYLEANE  233 (505)
T ss_pred             HHhCCcHHHhhhhccc
Confidence            6678888888888874

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

Probab=97.40  E-value=5.2e-06  Score=48.65  Aligned_cols=63  Identities=21%  Similarity=0.210  Sum_probs=51.7

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      .+++.++.+++++|.+. .+| ..+..++.|+.++++.|.+   ...|.-+..+.++..|+..+|...
T Consensus        74 ~kf~t~t~lNl~~neis-dvP-eE~Aam~aLr~lNl~~N~l---~~~p~vi~~L~~l~~Lds~~na~~  136 (177)
T KOG4579|consen   74 IKFPTATTLNLANNEIS-DVP-EELAAMPALRSLNLRFNPL---NAEPRVIAPLIKLDMLDSPENARA  136 (177)
T ss_pred             hccchhhhhhcchhhhh-hch-HHHhhhHHhhhcccccCcc---ccchHHHHHHHhHHHhcCCCCccc
Confidence            34668899999999999 788 7799999999999999998   555666666777888888777765

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

Probab=97.34  E-value=0.00014  Score=52.61  Aligned_cols=85  Identities=21%  Similarity=0.298  Sum_probs=38.8

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFT   87 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~   87 (104)
                      +|+|+.|.+++-.+....-...+.++++|..||++++++  + .. ...+.+.+|+.|.+.+=.+....  .+..+..++
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI--~-nl-~GIS~LknLq~L~mrnLe~e~~~--~l~~LF~L~  220 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNI--S-NL-SGISRLKNLQVLSMRNLEFESYQ--DLIDLFNLK  220 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCCCc--c-Cc-HHHhccccHHHHhccCCCCCchh--hHHHHhccc
Confidence            455555555544433111102334455555555555555  1 11 22344455555554443333211  000445677


Q ss_pred             CCcEEEcCCCC
Q 040978           88 NLEYLKLNDSP   98 (104)
Q Consensus        88 ~L~~l~l~~n~   98 (104)
                      +|++||++...
T Consensus       221 ~L~vLDIS~~~  231 (699)
T KOG3665|consen  221 KLRVLDISRDK  231 (699)
T ss_pred             CCCeeeccccc
Confidence            77777777643

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

Probab=96.97  E-value=0.00042  Score=46.11  Aligned_cols=95  Identities=24%  Similarity=0.298  Sum_probs=62.3

Q ss_pred             ccCCCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCcc
Q 040978            4 EFNSFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      .|...+.|+.+.++.|.|...    .. ..+..+++|+.|+++.|.+  +..    +...+..+++|+.+++++|.+...
T Consensus       180 ~~~~~~~leevr~~qN~I~~eG~~al~-eal~~~~~LevLdl~DNtf--t~egs~~LakaL~s~~~L~El~l~dcll~~~  256 (382)
T KOG1909|consen  180 AFQSHPTLEEVRLSQNGIRPEGVTALA-EALEHCPHLEVLDLRDNTF--TLEGSVALAKALSSWPHLRELNLGDCLLENE  256 (382)
T ss_pred             HHHhccccceEEEecccccCchhHHHH-HHHHhCCcceeeecccchh--hhHHHHHHHHHhcccchheeecccccccccc
Confidence            345567788888888876621    22 3467788888888888887  332    234566677888888888888643


Q ss_pred             cccccc-cc-CCCCCCcEEEcCCCCCCC
Q 040978           76 VTITTQ-EL-HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        76 ~~~~~~-~~-~~~~~L~~l~l~~n~~~~  101 (104)
                      -...+. .+ ...++|+++.+.+|.++.
T Consensus       257 Ga~a~~~al~~~~p~L~vl~l~gNeIt~  284 (382)
T KOG1909|consen  257 GAIAFVDALKESAPSLEVLELAGNEITR  284 (382)
T ss_pred             cHHHHHHHHhccCCCCceeccCcchhHH
Confidence            100001 22 357888888888887753

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.97  E-value=4.1e-05  Score=49.76  Aligned_cols=65  Identities=29%  Similarity=0.394  Sum_probs=39.6

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchh-hhhcCCCCCccEEeccCCcCCcc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKL-LQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~-~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      .+|+.|++|.++-|.|+..   ..+..|..|+.|+++.|.+  .... ...+.++++|+.|-+..|...+.
T Consensus        38 ~kMp~lEVLsLSvNkIssL---~pl~rCtrLkElYLRkN~I--~sldEL~YLknlpsLr~LWL~ENPCc~~  103 (388)
T KOG2123|consen   38 EKMPLLEVLSLSVNKISSL---APLQRCTRLKELYLRKNCI--ESLDELEYLKNLPSLRTLWLDENPCCGE  103 (388)
T ss_pred             HhcccceeEEeeccccccc---hhHHHHHHHHHHHHHhccc--ccHHHHHHHhcCchhhhHhhccCCcccc
Confidence            3566777777777777633   2355666677777777766  2211 12456677777777777766644

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.69  E-value=0.00034  Score=46.07  Aligned_cols=14  Identities=14%  Similarity=0.439  Sum_probs=6.8

Q ss_pred             CCCCCCcEEEcCCC
Q 040978           84 HNFTNLEYLKLNDS   97 (104)
Q Consensus        84 ~~~~~L~~l~l~~n   97 (104)
                      ..++.++.++++.|
T Consensus       143 ~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  143 DDLPKVTELHMSDN  156 (418)
T ss_pred             hcchhhhhhhhccc
Confidence            34444455555554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.60  E-value=4.8e-05  Score=49.49  Aligned_cols=84  Identities=23%  Similarity=0.280  Sum_probs=65.8

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--ccCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--ELHN   85 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~~~   85 (104)
                      +.+.+.|+.-+|.+.+.   +.+..++.|+.|.++-|.+  ++ + ..+..|.+|+.|++..|.+.+.-    .  .+.+
T Consensus        18 l~~vkKLNcwg~~L~DI---sic~kMp~lEVLsLSvNkI--ss-L-~pl~rCtrLkElYLRkN~I~sld----EL~YLkn   86 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI---SICEKMPLLEVLSLSVNKI--SS-L-APLQRCTRLKELYLRKNCIESLD----ELEYLKN   86 (388)
T ss_pred             HHHhhhhcccCCCccHH---HHHHhcccceeEEeecccc--cc-c-hhHHHHHHHHHHHHHhcccccHH----HHHHHhc
Confidence            44566777778887733   3456788999999999999  33 2 44778899999999999998654    3  6789


Q ss_pred             CCCCcEEEcCCCCCCCC
Q 040978           86 FTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~~~  102 (104)
                      +++|+.|-+..|+=.|.
T Consensus        87 lpsLr~LWL~ENPCc~~  103 (388)
T KOG2123|consen   87 LPSLRTLWLDENPCCGE  103 (388)
T ss_pred             CchhhhHhhccCCcccc
Confidence            99999999999987665

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

Probab=96.54  E-value=0.013  Score=33.11  Aligned_cols=59  Identities=20%  Similarity=0.277  Sum_probs=22.0

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEecc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLS   68 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~   68 (104)
                      |.++.+|+.+.+.. .+. .++...|.++.+++.+.+..+ +  .......|..+..++.+.+.
T Consensus         8 F~~~~~l~~i~~~~-~~~-~I~~~~F~~~~~l~~i~~~~~-~--~~i~~~~F~~~~~l~~i~~~   66 (129)
T PF13306_consen    8 FYNCSNLESITFPN-TIK-KIGENAFSNCTSLKSINFPNN-L--TSIGDNAFSNCKSLESITFP   66 (129)
T ss_dssp             TTT-TT--EEEETS-T---EE-TTTTTT-TT-SEEEESST-T--SCE-TTTTTT-TT-EEEEET
T ss_pred             HhCCCCCCEEEECC-Cee-EeChhhccccccccccccccc-c--cccceeeeeccccccccccc
Confidence            44555566655543 233 222244555555555555443 3  12222334444455555554

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

Probab=96.43  E-value=0.0015  Score=25.86  Aligned_cols=15  Identities=40%  Similarity=0.518  Sum_probs=8.5

Q ss_pred             CCEEECCCCCCCCccc
Q 040978           11 LELLDMSFNEINNLVV   26 (104)
Q Consensus        11 L~~L~l~~n~~~~~~~   26 (104)
                      |++|++++|.++ .+|
T Consensus         2 L~~Ldls~n~l~-~ip   16 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIP   16 (22)
T ss_dssp             ESEEEETSSEES-EEG
T ss_pred             ccEEECCCCcCE-eCC
Confidence            555666666555 444

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 ....

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

Probab=96.37  E-value=0.0037  Score=40.88  Aligned_cols=94  Identities=20%  Similarity=0.248  Sum_probs=60.4

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCc----cCCCCCCCEEeCCCCcccCCchhhh--------------hcCCCCCccE
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQG----YSGLRKLKSLDLSRVGVRDGSKLLQ--------------SMGSFPSLNN   64 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~----~~~~~~L~~l~l~~~~~~~~~~~~~--------------~~~~l~~L~~   64 (104)
                      +++.+|+.|+.++++.|.+....| ..    ++....+.+|.+.+|.+  . ....              ....-|.|+.
T Consensus        86 ~aLlkcp~l~~v~LSDNAfg~~~~-e~L~d~is~~t~l~HL~l~NnGl--G-p~aG~rigkal~~la~nKKaa~kp~Le~  161 (388)
T COG5238          86 KALLKCPRLQKVDLSDNAFGSEFP-EELGDLISSSTDLVHLKLNNNGL--G-PIAGGRIGKALFHLAYNKKAADKPKLEV  161 (388)
T ss_pred             HHHhcCCcceeeeccccccCcccc-hHHHHHHhcCCCceeEEeecCCC--C-ccchhHHHHHHHHHHHHhhhccCCCceE
Confidence            567889999999999999886554 33    34556789999999887  3 1111              1123366777


Q ss_pred             EeccCCcCCccc---cc------------------ccc---------ccCCCCCCcEEEcCCCCCC
Q 040978           65 LYLSSNNFTETV---TI------------------TTQ---------ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        65 l~l~~n~~~~~~---~~------------------~~~---------~~~~~~~L~~l~l~~n~~~  100 (104)
                      ....+|++....   ++                  +-|         .+..+.+|++|++++|.++
T Consensus       162 vicgrNRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft  227 (388)
T COG5238         162 VICGRNRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFT  227 (388)
T ss_pred             EEeccchhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchh
Confidence            777777664211   00                  001         2345678888999888764

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

Probab=96.34  E-value=0.02  Score=32.28  Aligned_cols=82  Identities=20%  Similarity=0.326  Sum_probs=49.2

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+.+++.+.+..+ +. .++...|.++..++.+.+.. .+  .......|..+..++.+.+..+ +....    . .
T Consensus        30 ~F~~~~~l~~i~~~~~-~~-~i~~~~F~~~~~l~~i~~~~-~~--~~i~~~~F~~~~~l~~i~~~~~-~~~i~----~~~   99 (129)
T PF13306_consen   30 AFSNCTSLKSINFPNN-LT-SIGDNAFSNCKSLESITFPN-NL--KSIGDNAFSNCTNLKNIDIPSN-ITEIG----SSS   99 (129)
T ss_dssp             TTTT-TT-SEEEESST-TS-CE-TTTTTT-TT-EEEEETS-TT---EE-TTTTTT-TTECEEEETTT--BEEH----TTT
T ss_pred             hccccccccccccccc-cc-ccceeeeecccccccccccc-cc--cccccccccccccccccccCcc-ccEEc----hhh
Confidence            5677889999999875 55 44436788888899999976 33  2333456777899999999765 44333    3 6


Q ss_pred             cCCCCCCcEEEcCC
Q 040978           83 LHNFTNLEYLKLND   96 (104)
Q Consensus        83 ~~~~~~L~~l~l~~   96 (104)
                      +..+ .++.+.+..
T Consensus       100 f~~~-~l~~i~~~~  112 (129)
T PF13306_consen  100 FSNC-NLKEINIPS  112 (129)
T ss_dssp             TTT--T--EEE-TT
T ss_pred             hcCC-CceEEEECC
Confidence            7777 888888765

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.00  E-value=0.0051  Score=40.73  Aligned_cols=64  Identities=30%  Similarity=0.426  Sum_probs=40.3

Q ss_pred             CCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc-CCCCCCcEEEcCCCCCC
Q 040978           33 LRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL-HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        33 ~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~-~~~~~L~~l~l~~n~~~  100 (104)
                      +..++.+++.+|.+++..+....+.++|.|+.|+++.|.+...+    ..+ ....+|+.+-+.+..+.
T Consensus        70 ~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I----~~lp~p~~nl~~lVLNgT~L~  134 (418)
T KOG2982|consen   70 VTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDI----KSLPLPLKNLRVLVLNGTGLS  134 (418)
T ss_pred             hhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCcc----ccCcccccceEEEEEcCCCCC
Confidence            35577778888887543445556667788888888888776333    222 34556777766665543

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

Probab=95.42  E-value=0.013  Score=21.66  Aligned_cols=13  Identities=46%  Similarity=0.641  Sum_probs=5.3

Q ss_pred             CCCEEECCCCCCC
Q 040978           10 NLELLDMSFNEIN   22 (104)
Q Consensus        10 ~L~~L~l~~n~~~   22 (104)
                      +|+.|++++|.+.
T Consensus         2 ~L~~L~l~~n~L~   14 (17)
T PF13504_consen    2 NLRTLDLSNNRLT   14 (17)
T ss_dssp             T-SEEEETSS--S
T ss_pred             ccCEEECCCCCCC
Confidence            4555555555544

...

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

Probab=95.10  E-value=0.0063  Score=40.33  Aligned_cols=57  Identities=28%  Similarity=0.266  Sum_probs=27.7

Q ss_pred             CCCCCCEEeCCCCc-ccCCchhhhhcCCCCCccEEeccCCcCCcccccccc----ccCCCCCCcEEEcCC
Q 040978           32 GLRKLKSLDLSRVG-VRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ----ELHNFTNLEYLKLND   96 (104)
Q Consensus        32 ~~~~L~~l~l~~~~-~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~----~~~~~~~L~~l~l~~   96 (104)
                      .++++..||++.+. +  +..+...|.+++.|+++.+++|.-.  .    |    .+...++|.+|+..+
T Consensus       311 rcp~l~~LDLSD~v~l--~~~~~~~~~kf~~L~~lSlsRCY~i--~----p~~~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVML--KNDCFQEFFKFNYLQHLSLSRCYDI--I----PETLLELNSKPSLVYLDVFG  372 (419)
T ss_pred             hCCceeeecccccccc--CchHHHHHHhcchheeeehhhhcCC--C----hHHeeeeccCcceEEEEecc
Confidence            34555555655543 3  2233444555555555555554322  1    1    334555555555443

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

Probab=95.08  E-value=0.0008  Score=44.38  Aligned_cols=85  Identities=28%  Similarity=0.287  Sum_probs=52.9

Q ss_pred             CCCEEECCCCCCCCc-cccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCc-CCcccccccc-ccCCC
Q 040978           10 NLELLDMSFNEINNL-VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNN-FTETVTITTQ-ELHNF   86 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~-~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~-~~~~~~~~~~-~~~~~   86 (104)
                      .++++|+++..++.. +. .-+.+|.+|+.+.+.++++  ++.....+..-..|+.++++.+. ++...   +. .+..|
T Consensus       186 Rlq~lDLS~s~it~stl~-~iLs~C~kLk~lSlEg~~L--dD~I~~~iAkN~~L~~lnlsm~sG~t~n~---~~ll~~sc  259 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLH-GILSQCSKLKNLSLEGLRL--DDPIVNTIAKNSNLVRLNLSMCSGFTENA---LQLLLSSC  259 (419)
T ss_pred             hhHHhhcchhheeHHHHH-HHHHHHHhhhhcccccccc--CcHHHHHHhccccceeeccccccccchhH---HHHHHHhh
Confidence            367777777777621 22 2345667788888888877  55555556666677777777653 43111   12 56677


Q ss_pred             CCCcEEEcCCCCCC
Q 040978           87 TNLEYLKLNDSPLH  100 (104)
Q Consensus        87 ~~L~~l~l~~n~~~  100 (104)
                      +.|..|+++.+...
T Consensus       260 s~L~~LNlsWc~l~  273 (419)
T KOG2120|consen  260 SRLDELNLSWCFLF  273 (419)
T ss_pred             hhHhhcCchHhhcc
Confidence            77777777766543

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

Probab=94.29  E-value=0.028  Score=36.99  Aligned_cols=91  Identities=25%  Similarity=0.330  Sum_probs=56.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccc---cCccCCCCCCCEEeCCCCccc-CCchhh-------hhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVV---PQGYSGLRKLKSLDLSRVGVR-DGSKLL-------QSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~---~~~~~~~~~L~~l~l~~~~~~-~~~~~~-------~~~~~l~~L~~l~l~~n~~~   73 (104)
                      +..+..+..+++++|.+.....   ...+..-.+|+..+++.-... +..+++       ..+..||+++..++++|.|.
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg  105 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFG  105 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccC
Confidence            3446788899999999874321   023344455666655542210 012222       24456789999999999887


Q ss_pred             cccccccc-----ccCCCCCCcEEEcCCCCC
Q 040978           74 ETVTITTQ-----ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        74 ~~~~~~~~-----~~~~~~~L~~l~l~~n~~   99 (104)
                      ...    |     .++.-..|.+|.+++|.+
T Consensus       106 ~~~----~e~L~d~is~~t~l~HL~l~NnGl  132 (388)
T COG5238         106 SEF----PEELGDLISSSTDLVHLKLNNNGL  132 (388)
T ss_pred             ccc----chHHHHHHhcCCCceeEEeecCCC
Confidence            554    4     345667888898888864

>PRK15386 type III secretion protein GogB; Provisional

Probab=93.50  E-value=0.32  Score=33.75  Aligned_cols=57  Identities=12%  Similarity=0.037  Sum_probs=36.6

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSN   70 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n   70 (104)
                      +..+.++..|++++|.+. .+| .   -..+|+.|.+.+|.-  -...|+.+  .++|+.|.+++|
T Consensus        48 ~~~~~~l~~L~Is~c~L~-sLP-~---LP~sLtsL~Lsnc~n--LtsLP~~L--P~nLe~L~Ls~C  104 (426)
T PRK15386         48 IEEARASGRLYIKDCDIE-SLP-V---LPNELTEITIENCNN--LTTLPGSI--PEGLEKLTVCHC  104 (426)
T ss_pred             HHHhcCCCEEEeCCCCCc-ccC-C---CCCCCcEEEccCCCC--cccCCchh--hhhhhheEccCc
Confidence            345678899999999777 455 2   123588888887532  14444433  246777888776

>smart00370 LRR Leucine-rich repeats, outliers

Probab=93.41  E-value=0.11  Score=21.04  Aligned_cols=14  Identities=43%  Similarity=0.579  Sum_probs=8.7

Q ss_pred             CCCCEEECCCCCCC
Q 040978            9 NNLELLDMSFNEIN   22 (104)
Q Consensus         9 ~~L~~L~l~~n~~~   22 (104)
                      ++|++|++++|.+.
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00370        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            45666666666665

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

Probab=93.41  E-value=0.11  Score=21.04  Aligned_cols=14  Identities=43%  Similarity=0.579  Sum_probs=8.7

Q ss_pred             CCCCEEECCCCCCC
Q 040978            9 NNLELLDMSFNEIN   22 (104)
Q Consensus         9 ~~L~~L~l~~n~~~   22 (104)
                      ++|++|++++|.+.
T Consensus         2 ~~L~~L~L~~N~l~   15 (26)
T smart00369        2 PNLRELDLSNNQLS   15 (26)
T ss_pred             CCCCEEECCCCcCC
Confidence            45666666666665

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.09  E-value=0.015  Score=36.23  Aligned_cols=80  Identities=30%  Similarity=0.283  Sum_probs=40.2

Q ss_pred             CCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcC-CCCCccEEeccCCcCCcccccccc--ccCCCC
Q 040978           11 LELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMG-SFPSLNNLYLSSNNFTETVTITTQ--ELHNFT   87 (104)
Q Consensus        11 L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~-~l~~L~~l~l~~n~~~~~~~~~~~--~~~~~~   87 (104)
                      ++.+|-++..|...-- ..+..++.++.+.+.+|.-- .....+.++ -.++|+.|++++|.-....    .  .+..++
T Consensus       103 IeaVDAsds~I~~eGl-e~L~~l~~i~~l~l~~ck~~-dD~~L~~l~~~~~~L~~L~lsgC~rIT~~----GL~~L~~lk  176 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGL-EHLRDLRSIKSLSLANCKYF-DDWCLERLGGLAPSLQDLDLSGCPRITDG----GLACLLKLK  176 (221)
T ss_pred             EEEEecCCchHHHHHH-HHHhccchhhhheeccccch-hhHHHHHhcccccchheeeccCCCeechh----HHHHHHHhh
Confidence            4455555555543322 44555666666666666431 111222233 3467777777766532222    2  455666


Q ss_pred             CCcEEEcCC
Q 040978           88 NLEYLKLND   96 (104)
Q Consensus        88 ~L~~l~l~~   96 (104)
                      +|+.|.+.+
T Consensus       177 nLr~L~l~~  185 (221)
T KOG3864|consen  177 NLRRLHLYD  185 (221)
T ss_pred             hhHHHHhcC
Confidence            666555443

>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=91.61  E-value=0.14  Score=20.26  Aligned_cols=12  Identities=42%  Similarity=0.628  Sum_probs=5.1

Q ss_pred             CCCEEeCCCCcc
Q 040978           35 KLKSLDLSRVGV   46 (104)
Q Consensus        35 ~L~~l~l~~~~~   46 (104)
                      +|+.|++++|.+
T Consensus         3 ~L~~L~l~~n~i   14 (24)
T PF13516_consen    3 NLETLDLSNNQI   14 (24)
T ss_dssp             T-SEEE-TSSBE
T ss_pred             CCCEEEccCCcC
Confidence            445555555554

...

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

Probab=91.54  E-value=0.17  Score=34.61  Aligned_cols=89  Identities=33%  Similarity=0.254  Sum_probs=50.0

Q ss_pred             cCCCCCCCEEECCCC-CCCCccc---cCccCCCCCCCEEeCCCCc-ccCCchhhhhcC-CCCCccEEeccCCc-CCcccc
Q 040978            5 FNSFNNLELLDMSFN-EINNLVV---PQGYSGLRKLKSLDLSRVG-VRDGSKLLQSMG-SFPSLNNLYLSSNN-FTETVT   77 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n-~~~~~~~---~~~~~~~~~L~~l~l~~~~-~~~~~~~~~~~~-~l~~L~~l~l~~n~-~~~~~~   77 (104)
                      ...++.|+.|+++++ ......+   ......+++++.++++.+. +  +...-..+. .++.|+.+.+.++. +++.. 
T Consensus       210 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~i--sd~~l~~l~~~c~~L~~L~l~~c~~lt~~g-  286 (482)
T KOG1947|consen  210 ALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLV--TDIGLSALASRCPNLETLSLSNCSNLTDEG-  286 (482)
T ss_pred             HhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhcc--CchhHHHHHhhCCCcceEccCCCCccchhH-
Confidence            345777888888763 1110111   0223445677888888776 5  233223332 36788888866666 44321 


Q ss_pred             cccc-ccCCCCCCcEEEcCCCC
Q 040978           78 ITTQ-ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        78 ~~~~-~~~~~~~L~~l~l~~n~   98 (104)
                        +. ....++.|+.|+++++.
T Consensus       287 --l~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  287 --LVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             --HHHHHHhcCcccEEeeecCc
Confidence              01 34567778888887654

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.02  E-value=0.041  Score=34.43  Aligned_cols=65  Identities=17%  Similarity=0.185  Sum_probs=42.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCC-CCCCCEEeCCCC-cccCCchhhhhcCCCCCccEEeccCC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSG-LRKLKSLDLSRV-GVRDGSKLLQSMGSFPSLNNLYLSSN   70 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~-~~~L~~l~l~~~-~~~~~~~~~~~~~~l~~L~~l~l~~n   70 (104)
                      -+..++.++.|.+.+|.--+...-+.+++ .++|+.|+++.| +||  ...-..+..+++|+.|.+.+-
T Consensus       120 ~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT--~~GL~~L~~lknLr~L~l~~l  186 (221)
T KOG3864|consen  120 HLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRIT--DGGLACLLKLKNLRRLHLYDL  186 (221)
T ss_pred             HHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeec--hhHHHHHHHhhhhHHHHhcCc
Confidence            45677888888888876543322134444 478999999987 673  333344556777777776543

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=89.08  E-value=0.45  Score=19.74  Aligned_cols=14  Identities=29%  Similarity=0.411  Sum_probs=9.9

Q ss_pred             CCCcEEEcCCCCCC
Q 040978           87 TNLEYLKLNDSPLH  100 (104)
Q Consensus        87 ~~L~~l~l~~n~~~  100 (104)
                      ++|++|++++|.+.
T Consensus         2 ~~L~~LdL~~N~i~   15 (28)
T smart00368        2 PSLRELDLSNNKLG   15 (28)
T ss_pred             CccCEEECCCCCCC
Confidence            46777777777764

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

Probab=89.03  E-value=0.49  Score=19.49  Aligned_cols=14  Identities=43%  Similarity=0.600  Sum_probs=9.9

Q ss_pred             CCCcEEEcCCCCCC
Q 040978           87 TNLEYLKLNDSPLH  100 (104)
Q Consensus        87 ~~L~~l~l~~n~~~  100 (104)
                      .+|+.|+++.|.|.
T Consensus         2 ~~L~~L~L~~NkI~   15 (26)
T smart00365        2 TNLEELDLSQNKIK   15 (26)
T ss_pred             CccCEEECCCCccc
Confidence            46777777777764

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

Probab=88.60  E-value=0.0045  Score=39.68  Aligned_cols=81  Identities=19%  Similarity=0.164  Sum_probs=44.2

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      ...+.||++.|.+. ... ..|+-+..+..++++.|.+   ...|..+++...+..++.-.|... ..    | .++..+
T Consensus        42 kr~tvld~~s~r~v-n~~-~n~s~~t~~~rl~~sknq~---~~~~~d~~q~~e~~~~~~~~n~~~-~~----p~s~~k~~  111 (326)
T KOG0473|consen   42 KRVTVLDLSSNRLV-NLG-KNFSILTRLVRLDLSKNQI---KFLPKDAKQQRETVNAASHKNNHS-QQ----PKSQKKEP  111 (326)
T ss_pred             ceeeeehhhhhHHH-hhc-cchHHHHHHHHHhccHhhH---hhChhhHHHHHHHHHHHhhccchh-hC----CccccccC
Confidence            34445566555544 233 3444445555666666555   344555555555555555555444 33    5 666777


Q ss_pred             CCcEEEcCCCCC
Q 040978           88 NLEYLKLNDSPL   99 (104)
Q Consensus        88 ~L~~l~l~~n~~   99 (104)
                      .++.+++-+|++
T Consensus       112 ~~k~~e~k~~~~  123 (326)
T KOG0473|consen  112 HPKKNEQKKTEF  123 (326)
T ss_pred             CcchhhhccCcc
Confidence            777776666654

>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]

Probab=86.34  E-value=0.62  Score=33.40  Aligned_cols=11  Identities=55%  Similarity=0.727  Sum_probs=5.3

Q ss_pred             CCccEEeccCC
Q 040978           60 PSLNNLYLSSN   70 (104)
Q Consensus        60 ~~L~~l~l~~n   70 (104)
                      |+|..|+|++|
T Consensus       244 pklk~L~LS~N  254 (585)
T KOG3763|consen  244 PKLKTLDLSHN  254 (585)
T ss_pred             chhheeecccc
Confidence            44444444444

>PRK15386 type III secretion protein GogB; Provisional

Probab=84.45  E-value=2.4  Score=29.59  Aligned_cols=56  Identities=16%  Similarity=0.125  Sum_probs=35.9

Q ss_pred             cCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCC
Q 040978           30 YSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDS   97 (104)
Q Consensus        30 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n   97 (104)
                      +..+.++..|++++|.+   ..+|.   -..+|+.|.+.++.-....    | .+  .++|+.|++++|
T Consensus        48 ~~~~~~l~~L~Is~c~L---~sLP~---LP~sLtsL~Lsnc~nLtsL----P~~L--P~nLe~L~Ls~C  104 (426)
T PRK15386         48 IEEARASGRLYIKDCDI---ESLPV---LPNELTEITIENCNNLTTL----PGSI--PEGLEKLTVCHC  104 (426)
T ss_pred             HHHhcCCCEEEeCCCCC---cccCC---CCCCCcEEEccCCCCcccC----Cchh--hhhhhheEccCc
Confidence            34467899999999988   44552   1236999999875443233    3 22  246666777666

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

Probab=81.39  E-value=0.96  Score=31.00  Aligned_cols=66  Identities=23%  Similarity=0.259  Sum_probs=39.2

Q ss_pred             CCCCCCCEEECCCCC-CCCccccCccC-CCCCCCEEeCCCCc-ccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            6 NSFNNLELLDMSFNE-INNLVVPQGYS-GLRKLKSLDLSRVG-VRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~-~~~~~~~~~~~-~~~~L~~l~l~~~~-~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      ..+.+++.++++++. +++..- ..+. .++.|+.|.+.++. ++ +..+......++.|+.++++.+...
T Consensus       240 ~~~~~L~~l~l~~~~~isd~~l-~~l~~~c~~L~~L~l~~c~~lt-~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  240 SICRKLKSLDLSGCGLVTDIGL-SALASRCPNLETLSLSNCSNLT-DEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             hhcCCcCccchhhhhccCchhH-HHHHhhCCCcceEccCCCCccc-hhHHHHHHHhcCcccEEeeecCccc
Confidence            345777788887777 553322 2222 26778888877665 52 1223334445677888888876653

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=81.10  E-value=1.4  Score=18.20  Aligned_cols=13  Identities=31%  Similarity=0.488  Sum_probs=7.0

Q ss_pred             CCCEEECCCCCCC
Q 040978           10 NLELLDMSFNEIN   22 (104)
Q Consensus        10 ~L~~L~l~~n~~~   22 (104)
                      +|++|++++|.+.
T Consensus         3 ~L~~L~vs~N~Lt   15 (26)
T smart00364        3 SLKELNVSNNQLT   15 (26)
T ss_pred             ccceeecCCCccc
Confidence            4555555555554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	104
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	3e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-05
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	9e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	8e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	5e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	9e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	9e-04

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 45.0 bits (107), Expect = 3e-07
 Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 7/93 (7%)

Query: 7   SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLY 66
           + +  + +D S NEI  L    G+  LR+LK+L ++   +    + L    + P L  L 
Sbjct: 40  TLDQFDAIDFSDNEIRKL---DGFPLLRRLKTLLVNNNRICRIGEGLDQ--ALPDLTELI 94

Query: 67  LSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           L++N+  E   +    L +  +L YL +  +P+
Sbjct: 95  LTNNSLVELGDL--DPLASLKSLTYLCILRNPV 125

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 45.4 bits (108), Expect = 4e-07
 Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 3/92 (3%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F+   +LE+LD+  NEI   +  Q + GL  +  + LS       ++   S    PSL  
Sbjct: 401 FSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTR--NSFALVPSLQR 458

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L L        V  +        NL  L L++
Sbjct: 459 LMLRRVALK-NVDSSPSPFQPLRNLTILDLSN 489

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 44.2 bits (105), Expect = 1e-06
 Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 4/97 (4%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
           E+    N+  + +S+N+   L     ++ +  L+ L L RV +++            +L 
Sbjct: 425 EWRGLENIFEIYLSYNKYLQLT-RNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLT 483

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L LS+NN      I    L     LE L L  + L 
Sbjct: 484 ILDLSNNNIA---NINDDMLEGLEKLEILDLQHNNLA 517

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 38.8 bits (91), Expect = 9e-05
 Identities = 24/108 (22%), Positives = 39/108 (36%), Gaps = 11/108 (10%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-------SM 56
            F     LE   + +N I +L       GL  ++ L+L R   +    L         S 
Sbjct: 267 SFAWLPQLEYFFLEYNNIQHLF-SHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSF 325

Query: 57  GSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
                L +L +  N+      I +       NL+YL L++S   +  L
Sbjct: 326 QWLKCLEHLNMEDNDIPG---IKSNMFTGLINLKYLSLSNSFTSLRTL 370

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 25/101 (24%), Positives = 40/101 (39%), Gaps = 6/101 (5%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLS--RVGVRDGSKLLQSMGSFPSL 62
           F     LE L+M  N+I  +     ++GL  LK L LS     +R  +       +   L
Sbjct: 325 FQWLKCLEHLNMEDNDIPGIK-SNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPL 383

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISL 103
           + L L+ N  +    I +       +LE L L  + +   L
Sbjct: 384 HILNLTKNKIS---KIESDAFSWLGHLEVLDLGLNEIGQEL 421

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 20/93 (21%), Positives = 37/93 (39%), Gaps = 3/93 (3%)

Query: 5   FNSFNNLELLDMSFNEINNLV-VPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                NL+ L +S N+I  L            LK L+LS   +++ S       +   L 
Sbjct: 141 QVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSP--GCFHAIGRLF 198

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L+L++     ++T         T++  L L++
Sbjct: 199 GLFLNNVQLGPSLTEKLCLELANTSIRNLSLSN 231

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 37.3 bits (87), Expect = 3e-04
 Identities = 26/94 (27%), Positives = 39/94 (41%), Gaps = 6/94 (6%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
           A F  ++ L  LD+ FN I+ L  P+    L  LK L+L    +   S   ++     +L
Sbjct: 43  ANFTRYSQLTSLDVGFNTISKL-EPELCQKLPMLKVLNLQHNELSQLSD--KTFAFCTNL 99

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             L+L SN+      I         NL  L L+ 
Sbjct: 100 TELHLMSNSIQ---KIKNNPFVKQKNLITLDLSH 130

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 36.5 bits (85), Expect = 6e-04
 Identities = 17/91 (18%), Positives = 32/91 (35%), Gaps = 6/91 (6%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                  L++L++  NE++ L   + ++    L  L L    ++             +L 
Sbjct: 68  LCQKLPMLKVLNLQHNELSQLS-DKTFAFCTNLTELHLMSNSIQKIKN--NPFVKQKNLI 124

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKL 94
            L LS N  +   +          NL+ L L
Sbjct: 125 TLDLSHNGLS---STKLGTQVQLENLQELLL 152

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 36.1 bits (84), Expect = 7e-04
 Identities = 21/99 (21%), Positives = 32/99 (32%), Gaps = 12/99 (12%)

Query: 5   FNSFNNLELLDMSFNEINNL-------VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMG 57
                 LE+LD+  N +  L              GL  L  L+L   G  +     +   
Sbjct: 500 LEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPV--EVFK 557

Query: 58  SFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
               L  + L  NN     T+     +N  +L+ L L  
Sbjct: 558 DLFELKIIDLGLNNLN---TLPASVFNNQVSLKSLNLQK 593

>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 = 45.4 bits (108), Expect = 5e-07
 Identities = 21/96 (21%), Positives = 35/96 (36%), Gaps = 3/96 (3%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
            ++F +L  L +  N     +       L  L+ LDLS   +         + +   L +
Sbjct: 321 ASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQS 380

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L LS N      ++ T+       LE L L  + L 
Sbjct: 381 LNLSYNEPL---SLKTEAFKECPQLELLDLAFTRLK 413

>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 = 43.1 bits (102), Expect = 2e-06
 Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 2/92 (2%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F     LELLD++F  +        +  L  LK L+LS   +   S+  Q     P+L +
Sbjct: 396 FKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSE--QLFDGLPALQH 453

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L L  N+F +     T  L     LE L L+ 
Sbjct: 454 LNLQGNHFPKGNIQKTNSLQTLGRLEILVLSF 485

>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 = 39.2 bits (92), Expect = 6e-05
 Identities = 30/98 (30%), Positives = 46/98 (46%), Gaps = 6/98 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F+ F+ L+ LD++   ++ L  P G  GL  LK L LS     +  +   S  +FPSL +
Sbjct: 274 FHCFSGLQELDLTATHLSEL--PSGLVGLSTLKKLVLSANKFENLCQ--ISASNFPSLTH 329

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHIS 102
           L +  N     + + T  L N  NL  L L+   +  S
Sbjct: 330 LSIKGNTK--RLELGTGCLENLENLRELDLSHDDIETS 365

>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 = 3e-04
 Identities = 18/97 (18%), Positives = 40/97 (41%), Gaps = 5/97 (5%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
           +  + ++L+ L++S+NE  +L   + +    +L+ LDL+   ++          +   L 
Sbjct: 371 QLRNLSHLQSLNLSYNEPLSL-KTEAFKECPQLELLDLAFTRLK-VKDAQSPFQNLHLLK 428

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L LS +        + Q       L++L L  +   
Sbjct: 429 VLNLSHSLLD---ISSEQLFDGLPALQHLNLQGNHFP 462

>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 = 3e-04
 Identities = 16/98 (16%), Positives = 33/98 (33%), Gaps = 6/98 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
            +    L+ L      I+++         + L+SL L    +   S  L        L  
Sbjct: 101 LSGPKALKHLFFIQTGISSID-FIPLHNQKTLESLYLGSNHIS--SIKLPKGFPTEKLKV 157

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHIS 102
           L   +N       ++ +++ +      L LN +   I+
Sbjct: 158 LDFQNNAIHY---LSKEDMSSLQQATNLSLNLNGNDIA 192

>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 = 36.5 bits (85), Expect = 6e-04
 Identities = 19/95 (20%), Positives = 40/95 (42%), Gaps = 7/95 (7%)

Query: 9   NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLS 68
            ++E +++  +   N+     +     L+ LDL+   +   S+L   +    +L  L LS
Sbjct: 254 MSVESINLQKHYFFNIS-SNTFHCFSGLQELDLTATHL---SELPSGLVGLSTLKKLVLS 309

Query: 69  SNNFTETVTITTQELHNFTNLEYLKLNDSPLHISL 103
           +N F     +      NF +L +L +  +   + L
Sbjct: 310 ANKFEN---LCQISASNFPSLTHLSIKGNTKRLEL 341

>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 = 36.1 bits (84), Expect = 7e-04
 Identities = 19/94 (20%), Positives = 36/94 (38%), Gaps = 3/94 (3%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
           +     + L+ L +S N+  NL      S    L  L +     +        + +  +L
Sbjct: 295 SGLVGLSTLKKLVLSANKFENL-CQISASNFPSLTHLSIKGNT-KRLELGTGCLENLENL 352

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             L LS ++   T      +L N ++L+ L L+ 
Sbjct: 353 RELDLSHDDIE-TSDCCNLQLRNLSHLQSLNLSY 385

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 45.0 bits (107), Expect = 5e-07
 Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 11/98 (11%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGY-SGLRKLKSLDLSRVGVRDGSKLLQ-SMGSFPSL 62
           FN  N + ++++  N + +  +  G   G++KL  + ++       + +     G  PSL
Sbjct: 141 FNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIAD------TNITTIPQGLPPSL 194

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
             L+L  N  T+   +    L    NL  L L+ + + 
Sbjct: 195 TELHLDGNKITK---VDAASLKGLNNLAKLGLSFNSIS 229

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 11/101 (10%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSFPSLN 63
           F +  NL  L +  N+I+  + P  ++ L KL+ L LS       ++L +       +L 
Sbjct: 72  FKNLKNLHTLILINNKISK-ISPGAFAPLVKLERLYLS------KNQLKELPEKMPKTLQ 124

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
            L +  N  T    +     +    +  ++L  +PL  S +
Sbjct: 125 ELRVHENEIT---KVRKSVFNGLNQMIVVELGTNPLKSSGI 162

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 39.6 bits (93), Expect = 4e-05
 Identities = 18/103 (17%), Positives = 34/103 (33%), Gaps = 7/103 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
               NNL  L +SFN I+ +      +    L+ L L+   +      L        +  
Sbjct: 212 LKGLNNLAKLGLSFNSISAV-DNGSLANTPHLRELHLNNNKLVKVPGGLADH---KYIQV 267

Query: 65  LYLSSNNFTE---TVTITTQELHNFTNLEYLKLNDSPLHISLL 104
           +YL +NN +                 +   + L  +P+    +
Sbjct: 268 VYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEI 310

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 7/93 (7%)

Query: 7   SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLY 66
            F NLE L +    + ++        L KLK L+LS   +  G  +L      P+L +L 
Sbjct: 47  EFVNLEFLSLINVGLISV---SNLPKLPKLKKLELSENRIFGGLDML--AEKLPNLTHLN 101

Query: 67  LSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           LS N   +  T+  + L     L+ L L +  +
Sbjct: 102 LSGNKLKDISTL--EPLKKLECLKSLDLFNCEV 132

>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 = 43.6 bits (102), Expect = 2e-06
 Identities = 19/92 (20%), Positives = 37/92 (40%), Gaps = 12/92 (13%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
                N+  L ++ N++ ++   +  + L+ L  L L    ++D    L S+     L +
Sbjct: 61  IQYLPNVTKLFLNGNKLTDI---KPLTNLKNLGWLFLDENKIKD----LSSLKDLKKLKS 113

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L L  N  ++        L +   LE L L +
Sbjct: 114 LSLEHNGISD-----INGLVHLPQLESLYLGN 140

>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 = 41.6 bits (97), Expect = 9e-06
 Identities = 24/95 (25%), Positives = 38/95 (40%), Gaps = 12/95 (12%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
                 LE L +  N+I ++      S L KL +L L    + D    +  +     L N
Sbjct: 127 LVHLPQLESLYLGNNKITDI---TVLSRLTKLDTLSLEDNQISD----IVPLAGLTKLQN 179

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           LYLS N+ ++      + L    NL+ L+L     
Sbjct: 180 LYLSKNHISD-----LRALAGLKNLDVLELFSQEC 209

>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 = 40.1 bits (93), Expect = 3e-05
 Identities = 17/92 (18%), Positives = 38/92 (41%), Gaps = 12/92 (13%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
            N  N+++ +  + ++I ++   QG   L  +  L L+   + D    ++ + +  +L  
Sbjct: 39  QNELNSIDQIIANNSDIKSV---QGIQYLPNVTKLFLNGNKLTD----IKPLTNLKNLGW 91

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L+L  N   +        L +   L+ L L  
Sbjct: 92  LFLDENKIKD-----LSSLKDLKKLKSLSLEH 118

>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 = 39.7 bits (92), Expect = 5e-05
 Identities = 15/90 (16%), Positives = 37/90 (41%), Gaps = 12/90 (13%)

Query: 7  SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLY 66
          +F      ++    + + V     + L  +  +  +   ++     +Q +   P++  L+
Sbjct: 19 AFAETIKDNLKKKSVTDAV---TQNELNSIDQIIANNSDIKS----VQGIQYLPNVTKLF 71

Query: 67 LSSNNFTETVTITTQELHNFTNLEYLKLND 96
          L+ N  T+      + L N  NL +L L++
Sbjct: 72 LNGNKLTD-----IKPLTNLKNLGWLFLDE 96

>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 = 1e-04
 Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 12/92 (13%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
             +  NL  L +  N+I +L        L+KLKSL L   G+ D    +  +   P L +
Sbjct: 83  LTNLKNLGWLFLDENKIKDL---SSLKDLKKLKSLSLEHNGISD----INGLVHLPQLES 135

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           LYL +N  T+        L   T L+ L L D
Sbjct: 136 LYLGNNKITD-----ITVLSRLTKLDTLSLED 162

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 36.6 bits (84), Expect = 6e-04
 Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 10/92 (10%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
            +    L+ L +  N+I+++      +GL KL++L LS+  + D    L+++    +L+ 
Sbjct: 149 LSRLTKLDTLSLEDNQISDI---VPLAGLTKLQNLYLSKNHISD----LRALAGLKNLDV 201

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L L S               N      +K  D
Sbjct: 202 LELFSQECLN---KPINHQSNLVVPNTVKNTD 230

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

 Score = 42.8 bits (101), Expect = 3e-06
 Identities = 22/101 (21%), Positives = 41/101 (40%), Gaps = 14/101 (13%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSF--- 59
                  L+ LD+S N ++ +  P  + GL  L+ L +        S++      +F   
Sbjct: 202 NLTPLIKLDELDLSGNHLSAI-RPGSFQGLMHLQKLWMI------QSQIQVIERNAFDNL 254

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            SL  + L+ NN T    +         +LE + L+ +P +
Sbjct: 255 QSLVEINLAHNNLT---LLPHDLFTPLHHLERIHLHHNPWN 292

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

 Score = 40.1 bits (94), Expect = 3e-05
 Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 12/96 (12%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---PSLNN 64
             N  LL++  N+I  +     +  LR L+ L LSR  +R     ++  G+F    +LN 
Sbjct: 63  STNTRLLNLHENQIQII-KVNSFKHLRHLEILQLSRNHIRT----IEI-GAFNGLANLNT 116

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L L  N  T   TI        + L+ L L ++P+ 
Sbjct: 117 LELFDNRLT---TIPNGAFVYLSKLKELWLRNNPIE 149

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

 Score = 39.0 bits (91), Expect = 7e-05
 Identities = 21/97 (21%), Positives = 39/97 (40%), Gaps = 12/97 (12%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
           F    +LE+L +S N I  +     ++GL  L +L+L       + +G     +      
Sbjct: 84  FKHLRHLEILQLSRNHIRTI-EIGAFNGLANLNTLELFDNRLTTIPNG-----AFVYLSK 137

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSP 98
           L  L+L +N      +I +   +   +L  L L +  
Sbjct: 138 LKELWLRNNPIE---SIPSYAFNRIPSLRRLDLGELK 171

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 21/99 (21%), Positives = 35/99 (35%), Gaps = 14/99 (14%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
           F   +NL  L+++   +  +      + L KL  LDLS      +R G     S      
Sbjct: 181 FEGLSNLRYLNLAMCNLREI---PNLTPLIKLDELDLSGNHLSAIRPG-----SFQGLMH 232

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L  L++  +       I      N  +L  + L  + L 
Sbjct: 233 LQKLWMIQSQIQ---VIERNAFDNLQSLVEINLAHNNLT 268

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

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 23/101 (22%), Positives = 39/101 (38%), Gaps = 17/101 (16%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSM--GSF--- 59
           F   + L+ L +  N I ++     ++ +  L+ LDL         K L  +  G+F   
Sbjct: 132 FVYLSKLKELWLRNNPIESI-PSYAFNRIPSLRRLDLGE------LKRLSYISEGAFEGL 184

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            +L  L L+  N  E        L     L+ L L+ + L 
Sbjct: 185 SNLRYLNLAMCNLRE-----IPNLTPLIKLDELDLSGNHLS 220

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.0 bits (102), Expect = 3e-06
 Identities = 19/98 (19%), Positives = 38/98 (38%), Gaps = 2/98 (2%)

Query: 4   EFNSFNNLELLDMSFNEIN-NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
            F    +L  LD+S N ++  +           LK L++S   + D    +       SL
Sbjct: 95  GFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTL-DFPGKVSGGLKLNSL 153

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
             L LS+N+ +    +          L++L ++ + + 
Sbjct: 154 EVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKIS 191

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 39.9 bits (94), Expect = 4e-05
 Identities = 21/100 (21%), Positives = 38/100 (38%), Gaps = 6/100 (6%)

Query: 2   FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDG-SKLLQSMGSFP 60
                S + L+ L++S N ++      G   L  L+ LDLS   +               
Sbjct: 119 LTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCG 178

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L +L +S N  +  V ++        NLE+L ++ +   
Sbjct: 179 ELKHLAISGNKISGDVDVS-----RCVNLEFLDVSSNNFS 213

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 36.8 bits (86), Expect = 4e-04
 Identities = 28/98 (28%), Positives = 38/98 (38%), Gaps = 4/98 (4%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
           +   S   LE L +S + IN  V          L SLDLSR  +      L S+GS   L
Sbjct: 71  SSLLSLTGLESLFLSNSHINGSVSGFK--CSASLTSLDLSRNSLSGPVTTLTSLGSCSGL 128

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
             L +SSN                 +LE L L+ + + 
Sbjct: 129 KFLNVSSNTL--DFPGKVSGGLKLNSLEVLDLSANSIS 164

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 20/103 (19%), Positives = 40/103 (38%), Gaps = 12/103 (11%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---PS 61
                +L+ LD+SFN +  +     + GL +L+ LD     ++     +     F    +
Sbjct: 74  DFGTTSLKYLDLSFNGVITM--SSNFLGLEQLEHLDFQHSNLKQ----MSEFSVFLSLRN 127

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
           L  L +S  +            +  ++LE LK+  +    + L
Sbjct: 128 LIYLDISHTHTR---VAFNGIFNGLSSLEVLKMAGNSFQENFL 167

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 39.2 bits (92), Expect = 5e-05
 Identities = 23/97 (23%), Positives = 36/97 (37%), Gaps = 6/97 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPSLN 63
           F     LE LD   + +  +     +  LR L  LD+S    R   + +   +    SL 
Sbjct: 97  FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL---SSLE 153

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L ++ N+F E             NL +L L+   L 
Sbjct: 154 VLKMAGNSFQE--NFLPDIFTELRNLTFLDLSQCQLE 188

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 23/93 (24%), Positives = 35/93 (37%), Gaps = 5/93 (5%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYL 67
            ++   L++  N++ +L     +  L +L  L LS  G+       QS     SL  L L
Sbjct: 27  PSSATRLELESNKLQSL-PHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL 85

Query: 68  SSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           S N     V   +        LE+L    S L 
Sbjct: 86  SFNG----VITMSSNFLGLEQLEHLDFQHSNLK 114

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 17/102 (16%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQG-YSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSF--- 59
           F    NL  LD+S  ++  L      ++ L  L+ L++S       +         +   
Sbjct: 171 FTELRNLTFLDLSQCQLEQL--SPTAFNSLSSLQVLNMS------HNNFFSLDTFPYKCL 222

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNF-TNLEYLKLNDSPLH 100
            SL  L  S N+     T   QEL +F ++L +L L  +   
Sbjct: 223 NSLQVLDYSLNHIM---TSKKQELQHFPSSLAFLNLTQNDFA 261

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 36.9 bits (86), Expect = 3e-04
 Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 6/97 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQG-YSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
           F+    L  L +S N ++          G   LK LDLS  GV     +  +      L 
Sbjct: 48  FDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT---MSSNFLGLEQLE 104

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           +L    +N  +    +     +  NL YL ++ +   
Sbjct: 105 HLDFQHSNLKQMSEFSV--FLSLRNLIYLDISHTHTR 139

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 42.5 bits (100), Expect = 4e-06
 Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 6/95 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---PS 61
                +L++L ++ N  ++    Q  S    L+ L L    ++   +       F     
Sbjct: 422 LLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSH 481

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L  LYL+ N       +      + T L  L LN 
Sbjct: 482 LQVLYLNHNYLNS---LPPGVFSHLTALRGLSLNS 513

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 42.5 bits (100), Expect = 5e-06
 Identities = 22/96 (22%), Positives = 44/96 (45%), Gaps = 6/96 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F +  +L++L++++N+IN +   + + GL  L+ L+LS   + +      +    P +  
Sbjct: 286 FETLKDLKVLNLAYNKINKIA-DEAFYGLDNLQVLNLSYNLLGELYS--SNFYGLPKVAY 342

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           + L  N+      I  Q       L+ L L D+ L 
Sbjct: 343 IDLQKNHIA---IIQDQTFKFLEKLQTLDLRDNALT 375

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 21/96 (21%), Positives = 36/96 (37%), Gaps = 3/96 (3%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F +  NL +LD+  ++I  L  P  + GL  L  L L   G+ D         +  +L  
Sbjct: 69  FRNLPNLRILDLGSSKIYFLH-PDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTR 127

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L LS N                 +L+ +  + + + 
Sbjct: 128 LDLSKNQIRS--LYLHPSFGKLNSLKSIDFSSNQIF 161

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 1/101 (0%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F +   L  LD+S N+I +L +   +  L  LKS+D S   +    +         +L+ 
Sbjct: 119 FRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSF 178

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND-SPLHISLL 104
             L++N+    V++   +  N      L++ D S    ++ 
Sbjct: 179 FSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVD 219

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 39.4 bits (92), Expect = 7e-05
 Identities = 19/96 (19%), Positives = 32/96 (33%), Gaps = 11/96 (11%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSF---P 60
           F     L+LL++        +  + +  L  L+ LDL        SK+      +F    
Sbjct: 44  FPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLG------SSKIYFLHPDAFQGLF 97

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L  L L     ++   +      N   L  L L+ 
Sbjct: 98  HLFELRLYFCGLSD-AVLKDGYFRNLKALTRLDLSK 132

>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 = 42.0 bits (99), Expect = 6e-06
 Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 14/101 (13%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSF--- 59
                  LE L+MS N    +  P  + GL  LK L +        S++      +F   
Sbjct: 213 NLTPLVGLEELEMSGNHFPEI-RPGSFHGLSSLKKLWVM------NSQVSLIERNAFDGL 265

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            SL  L L+ NN +   ++          L  L L+ +P +
Sbjct: 266 ASLVELNLAHNNLS---SLPHDLFTPLRYLVELHLHHNPWN 303

>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 = 40.1 bits (94), Expect = 3e-05
 Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 12/96 (12%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---PSLNN 64
            +N   L++  N I  +     +  L  L+ L L R  +R     ++  G+F    SLN 
Sbjct: 74  PSNTRYLNLMENNIQMI-QADTFRHLHHLEVLQLGRNSIRQ----IEV-GAFNGLASLNT 127

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L L  N  T    I +      + L  L L ++P+ 
Sbjct: 128 LELFDNWLT---VIPSGAFEYLSKLRELWLRNNPIE 160

>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 = 39.7 bits (93), Expect = 4e-05
 Identities = 20/95 (21%), Positives = 38/95 (40%), Gaps = 12/95 (12%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
           F   ++LE+L +  N I  +     ++GL  L +L+L       +  G     +      
Sbjct: 95  FRHLHHLEVLQLGRNSIRQI-EVGAFNGLASLNTLELFDNWLTVIPSG-----AFEYLSK 148

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L  L+L +N      +I +   +   +L  L L +
Sbjct: 149 LRELWLRNNPIE---SIPSYAFNRVPSLMRLDLGE 180

>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 = 3e-04
 Identities = 20/99 (20%), Positives = 38/99 (38%), Gaps = 14/99 (14%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
           F    NL+ L++    I ++      + L  L+ L++S      +R GS     +    S
Sbjct: 192 FEGLFNLKYLNLGMCNIKDM---PNLTPLVGLEELEMSGNHFPEIRPGS--FHGL---SS 243

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L  L++ ++  +    I         +L  L L  + L 
Sbjct: 244 LKKLWVMNSQVS---LIERNAFDGLASLVELNLAHNNLS 279

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 36.3 bits (84), Expect = 7e-04
 Identities = 21/99 (21%), Positives = 34/99 (34%), Gaps = 11/99 (11%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
           FN   +L  L++  N +  +     +  L KL+ L L       +   +         PS
Sbjct: 119 FNGLASLNTLELFDNWLTVIP-SGAFEYLSKLRELWLRNNPIESIPSYA-----FNRVPS 172

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L  L L      +   I+        NL+YL L    + 
Sbjct: 173 LMRLDLGELK--KLEYISEGAFEGLFNLKYLNLGMCNIK 209

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 41.5 bits (98), Expect = 8e-06
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 8/95 (8%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F+   N+  ++M  N + N     G     KL  L +S   +    K         +LN 
Sbjct: 143 FSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPK-----DLPETLNE 197

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           L+L  N       I  ++L  ++ L  L L  + +
Sbjct: 198 LHLDHNKIQA---IELEDLLRYSKLYRLGLGHNQI 229

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 21/101 (20%), Positives = 40/101 (39%), Gaps = 11/101 (10%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSFPSLN 63
           F    +L  L +  N+I+  +  + +S LRKL+ L +S       + L++       SL 
Sbjct: 74  FKGLQHLYALVLVNNKISK-IHEKAFSPLRKLQKLYIS------KNHLVEIPPNLPSSLV 126

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
            L +  N       +         N+  +++  +PL  S  
Sbjct: 127 ELRIHDNRIR---KVPKGVFSGLRNMNCIEMGGNPLENSGF 164

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.4 bits (95), Expect = 1e-05
 Identities = 27/94 (28%), Positives = 41/94 (43%), Gaps = 7/94 (7%)

Query: 6   NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNL 65
           + F  LE L      + ++        L KLK L+LS   V  G ++L      P+L +L
Sbjct: 39  DEFEELEFLSTINVGLTSI---ANLPKLNKLKKLELSDNRVSGGLEVL--AEKCPNLTHL 93

Query: 66  YLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
            LS N   +  TI  + L    NL+ L L +  +
Sbjct: 94  NLSGNKIKDLSTI--EPLKKLENLKSLDLFNCEV 125

>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 = 41.2 bits (97), Expect = 1e-05
 Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 8/97 (8%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPSLN 63
           F   +NL  LD+S N+I  L +   +  L  LKSL++    +     +    +    SL 
Sbjct: 100 FTGLSNLTKLDISENKIVIL-LDYMFQDLYNLKSLEVGDNDLVYISHRAFSGL---NSLE 155

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L L   N T   +I T+ L +   L  L+L    ++
Sbjct: 156 QLTLEKCNLT---SIPTEALSHLHGLIVLRLRHLNIN 189

>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 = 40.9 bits (96), Expect = 2e-05
 Identities = 22/96 (22%), Positives = 37/96 (38%), Gaps = 6/96 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
                 L  L++S+N I+ +        L +L+ + L    +        +      L  
Sbjct: 244 VRHLVYLRFLNLSYNPISTI-EGSMLHELLRLQEIQLVGGQLAVVEP--YAFRGLNYLRV 300

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L +S N  T   T+     H+  NLE L L+ +PL 
Sbjct: 301 LNVSGNQLT---TLEESVFHSVGNLETLILDSNPLA 333

>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 = 40.1 bits (94), Expect = 3e-05
 Identities = 20/93 (21%), Positives = 42/93 (45%), Gaps = 8/93 (8%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPSLN 63
           F SF +LE L+++ N ++ +  P  ++ L  L++L L    ++     +   +    +L 
Sbjct: 52  FASFPHLEELELNENIVSAV-EPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGL---SNLT 107

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L +S N       +      +  NL+ L++ D
Sbjct: 108 KLDISENKIV---ILLDYMFQDLYNLKSLEVGD 137

>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 = 37.4 bits (87), Expect = 3e-04
 Identities = 19/99 (19%), Positives = 40/99 (40%), Gaps = 14/99 (14%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF----P 60
            +  + L +L +    IN +     +  L +LK L++S          L +M        
Sbjct: 172 LSHLHGLIVLRLRHLNINAIR-DYSFKRLYRLKVLEIS------HWPYLDTMTPNCLYGL 224

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           +L +L ++  N T    +    + +   L +L L+ +P+
Sbjct: 225 NLTSLSITHCNLTA---VPYLAVRHLVYLRFLNLSYNPI 260

>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 = 36.6 bits (85), Expect = 5e-04
 Identities = 19/90 (21%), Positives = 32/90 (35%), Gaps = 8/90 (8%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD-GSKLLQSMGSFPSLNNLY 66
                LLD+  N I  L     ++    L+ L+L+   V         ++    +L  L 
Sbjct: 31  PTETRLLDLGKNRIKTL-NQDEFASFPHLEELELNENIVSAVEPGAFNNL---FNLRTLG 86

Query: 67  LSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L SN       I        +NL  L +++
Sbjct: 87  LRSNRLKL---IPLGVFTGLSNLTKLDISE 113

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

 Score = 41.4 bits (97), Expect = 1e-05
 Identities = 18/94 (19%), Positives = 33/94 (35%), Gaps = 7/94 (7%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
            + ++   +++  M +N +           + KL  LD     VR     L++ G+   L
Sbjct: 542 DDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRH----LEAFGTNVKL 597

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            +L L  N   E   I          +E L  + 
Sbjct: 598 TDLKLDYNQIEE---IPEDFCAFTDQVEGLGFSH 628

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

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 12/95 (12%), Positives = 29/95 (30%), Gaps = 6/95 (6%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGSFPS 61
               + +E L  S N++  +        +  + S+D S                     +
Sbjct: 615 CAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGIN 674

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            + + LS N         T+     + +  + L++
Sbjct: 675 ASTVTLSYNEIQ---KFPTELFATGSPISTIILSN 706

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

 Score = 37.2 bits (86), Expect = 4e-04
 Identities = 16/97 (16%), Positives = 33/97 (34%), Gaps = 6/97 (6%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
             + +   L  +D+ FN++ +L      + L  L ++D+S       S       +   L
Sbjct: 722 GNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCF---SSFPTQPLNSSQL 778

Query: 63  NNLYLSSNNFTETVTITTQ---ELHNFTNLEYLKLND 96
               +      E   I  Q    +    +L  L++  
Sbjct: 779 KAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS 815

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

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 20/100 (20%), Positives = 41/100 (41%), Gaps = 12/100 (12%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ----SMGSF 59
              +   L  +D+S+N  ++   P       +LK+  +      +G+++L+     + + 
Sbjct: 748 RATTLPYLSNMDVSYNCFSSF--PTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTC 805

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           PSL  L + SN+      I   +      L  L + D+P 
Sbjct: 806 PSLIQLQIGSND------IRKVDEKLTPQLYILDIADNPN 839

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 40.7 bits (96), Expect = 1e-05
 Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 14/100 (14%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ-SMGSF---P 60
           F    NL  L +  N I+++   + + GL  L  L L        +++      +F    
Sbjct: 149 FRDLGNLTHLFLHGNRISSV-PERAFRGLHSLDRLLLH------QNRVAHVHPHAFRDLG 201

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
            L  LYL +NN +    + T+ L     L+YL+LND+P  
Sbjct: 202 RLMTLYLFANNLS---ALPTEALAPLRALQYLRLNDNPWV 238

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 36.9 bits (86), Expect = 4e-04
 Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 15/97 (15%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSM--GSF--- 59
           F +  NL +L +  N +  +     ++GL  L+ LDLS       +  L+S+   +F   
Sbjct: 52  FRACRNLTILWLHSNVLARID-AAAFTGLALLEQLDLSD------NAQLRSVDPATFHGL 104

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             L+ L+L          +          L+YL L D
Sbjct: 105 GRLHTLHLDRCGLQ---ELGPGLFRGLAALQYLYLQD 138

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 18/96 (18%), Positives = 36/96 (37%), Gaps = 4/96 (4%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           F   ++L+ L++  N    L V   +  L  L++L +                   SLN 
Sbjct: 94  FGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGN-VETFSEIRRIDFAGLTSLNE 152

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L + + +        +Q L +  ++ +L L+ S   
Sbjct: 153 LEIKALSLR---NYQSQSLKSIRDIHHLTLHLSESA 185

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 21/93 (22%), Positives = 40/93 (43%), Gaps = 12/93 (12%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYL 67
              LE+LD+S N +++         L +L+ L +SR  ++     L     FP L  + +
Sbjct: 430 PQTLEVLDVSNNNLDSFS-----LFLPRLQELYISRNKLKT----LPDASLFPVLLVMKI 480

Query: 68  SSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           S N      ++        T+L+ + L+ +P  
Sbjct: 481 SRNQLK---SVPDGIFDRLTSLQKIWLHTNPWD 510

>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 = 40.4 bits (95), Expect = 3e-05
 Identities = 12/97 (12%), Positives = 34/97 (35%), Gaps = 8/97 (8%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR-----VGVRDGSKLLQSMGSF 59
                 +E L  + N++  +        +  + ++D S      V  ++   L  +    
Sbjct: 373 CGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKG 432

Query: 60  PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            +++++ LS+N  +       +     + L  + L  
Sbjct: 433 INVSSINLSNNQIS---KFPKELFSTGSPLSSINLMG 466

>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 = 39.3 bits (92), Expect = 6e-05
 Identities = 19/98 (19%), Positives = 34/98 (34%), Gaps = 12/98 (12%)

Query: 2   FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR---VGVRDGSKLLQSMGS 58
            A+      ++++ + +N +    V      ++KL  L+       G       L + GS
Sbjct: 298 LADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEG------KLPAFGS 351

Query: 59  FPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
              L +L L+ N  TE   I          +E L    
Sbjct: 352 EIKLASLNLAYNQITE---IPANFCGFTEQVENLSFAH 386

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

 Score = 40.0 bits (94), Expect = 4e-05
 Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 8/94 (8%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
            +    + ++ LD+  NEI+ +   +  +    L+ L+L    + D    ++    F  L
Sbjct: 138 LDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYD----VKGQVVFAKL 193

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             L LSSN           E  +   + ++ L +
Sbjct: 194 KTLDLSSNKLAF----MGPEFQSAAGVTWISLRN 223

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

 Score = 36.5 bits (85), Expect = 6e-04
 Identities = 20/93 (21%), Positives = 38/93 (40%), Gaps = 16/93 (17%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
           +   F  LELL++S N +           L  L++LDL+       +  +Q +   PS+ 
Sbjct: 53  DLAPFTKLELLNLSSNVLYET---LDLESLSTLRTLDLN-------NNYVQELLVGPSIE 102

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L+ ++NN      I+          + + L +
Sbjct: 103 TLHAANNN------ISRVSCSRGQGKKNIYLAN 129

>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 = 6e-05
 Identities = 22/97 (22%), Positives = 33/97 (34%), Gaps = 7/97 (7%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                  L+ L ++ N+ +   +      L  L  LDLSR  +        S     SL 
Sbjct: 323 PTLDLPFLKSLTLTMNKGS---ISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLR 379

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           +L LS N       I +        L++L    S L 
Sbjct: 380 HLDLSFNGA----IIMSANFMGLEELQHLDFQHSTLK 412

>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 = 37.7 bits (88), Expect = 2e-04
 Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 4/96 (4%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
            F     L+ LD   + +  +     +  L KL  LD+S    +             SLN
Sbjct: 394 NFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFD--GIFLGLTSLN 451

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
            L ++ N+F +     +    N TNL +L L+   L
Sbjct: 452 TLKMAGNSFKD--NTLSNVFANTTNLTFLDLSKCQL 485

>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 = 38.9 bits (91), Expect = 9e-05
 Identities = 26/91 (28%), Positives = 41/91 (45%), Gaps = 5/91 (5%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
            FN  ++LE+L M+ N      +P  ++ LR L  LDLS+  +        +  S  SL 
Sbjct: 440 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE--QLSPTAFNSLSSLQ 497

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKL 94
            L +S NNF    ++ T       +L+ L  
Sbjct: 498 VLNMSHNNFF---SLDTFPYKCLNSLQVLDY 525

>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 = 38.1 bits (89), Expect = 1e-04
 Identities = 23/96 (23%), Positives = 34/96 (35%), Gaps = 4/96 (4%)

Query: 1   MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFP 60
           M + F     LE LD   + +  +     +  LR L  LD+S    R             
Sbjct: 388 MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN--GIFNGLS 445

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           SL  L ++ N+F E             NL +L L+ 
Sbjct: 446 SLEVLKMAGNSFQE--NFLPDIFTELRNLTFLDLSQ 479

>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 = 37.3 bits (87), Expect = 3e-04
 Identities = 20/101 (19%), Positives = 38/101 (37%), Gaps = 6/101 (5%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                 +L+ LD+SFN +  +     + GL +L+ LD     +           S  +L 
Sbjct: 368 SDFGTTSLKYLDLSFNGVITM--SSNFLGLEQLEHLDFQHSNL-KQMSEFSVFLSLRNLI 424

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
            L +S  +            +  ++LE LK+  +    + L
Sbjct: 425 YLDISHTHTR---VAFNGIFNGLSSLEVLKMAGNSFQENFL 462

>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 = 36.5 bits (85), Expect = 5e-04
 Identities = 23/97 (23%), Positives = 36/97 (37%), Gaps = 6/97 (6%)

Query: 5   FNSFNNLELLDMSFNEINNL-VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                +LE LD+S N ++      Q   G   LK LDLS  GV     +  +      L 
Sbjct: 343 EVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGV---ITMSSNFLGLEQLE 399

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           +L    +N  +          +  NL YL ++ +   
Sbjct: 400 HLDFQHSNLKQ--MSEFSVFLSLRNLIYLDISHTHTR 434

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 22/94 (23%), Positives = 33/94 (35%), Gaps = 4/94 (4%)

Query: 3   AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL 62
           + F     LE LD   + +  +     +  LR L  LD+S    R             SL
Sbjct: 390 SNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN--GIFNGLSSL 447

Query: 63  NNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             L ++ N+F E             NL +L L+ 
Sbjct: 448 EVLKMAGNSFQE--NFLPDIFTELRNLTFLDLSQ 479

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 20/104 (19%), Positives = 40/104 (38%), Gaps = 12/104 (11%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---P 60
                 +L+ LD+SFN +  +     + GL +L+ LD     ++     +     F    
Sbjct: 368 SDFGTTSLKYLDLSFNGVITM--SSNFLGLEQLEHLDFQHSNLKQ----MSEFSVFLSLR 421

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
           +L  L +S  +            +  ++LE LK+  +    + L
Sbjct: 422 NLIYLDISHTHTR---VAFNGIFNGLSSLEVLKMAGNSFQENFL 462

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 5/96 (5%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
           FN  ++LE+L M+ N      +P  ++ LR L  LDLS+  +   S    +  S  SL  
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP--TAFNSLSSLQV 498

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L ++SN      ++        T+L+ + L+ +P  
Sbjct: 499 LNMASNQLK---SVPDGIFDRLTSLQKIWLHTNPWD 531

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 25/96 (26%), Positives = 33/96 (34%), Gaps = 7/96 (7%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
                +L+ L  + N+  N         L  L+ LDLSR G+       QS     SL  
Sbjct: 321 TLKLKSLKRLTFTSNKGGNA---FSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKY 377

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L LS N         +        LE+L    S L 
Sbjct: 378 LDLSFNGVIT----MSSNFLGLEQLEHLDFQHSNLK 409

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 12/92 (13%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
                N+  L ++ N++ ++   +  + L+ L  L L    V+D    L S+     L +
Sbjct: 64  IQYLPNVTKLFLNGNKLTDI---KPLANLKNLGWLFLDENKVKD----LSSLKDLKKLKS 116

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L L  N  ++        L +   LE L L +
Sbjct: 117 LSLEHNGISD-----INGLVHLPQLESLYLGN 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 = 38.4 bits (90), Expect = 1e-04
 Identities = 16/97 (16%), Positives = 36/97 (37%), Gaps = 10/97 (10%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYL 67
            N+L  + ++   + +L    G      +K L ++ +   +       +    +L  L +
Sbjct: 43  MNSLTYITLANINVTDL---TGIEYAHNIKDLTINNIHATN----YNPISGLSNLERLRI 95

Query: 68  SSNNFTETVTITTQELHNFTNLEYLKLNDSPLHISLL 104
              + T   +     L   T+L  L ++ S    S+L
Sbjct: 96  MGKDVT---SDKIPNLSGLTSLTLLDISHSAHDDSIL 129

>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 = 1e-04
 Identities = 14/92 (15%), Positives = 33/92 (35%), Gaps = 8/92 (8%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
               +N++ L ++     N       SGL  L+ L +    V      + ++    SL  
Sbjct: 62  IEYAHNIKDLTINNIHATNY---NPISGLSNLERLRIMGKDVTSDK--IPNLSGLTSLTL 116

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L +S +   +       +++    +  + L+ 
Sbjct: 117 LDISHSAHDD---SILTKINTLPKVNSIDLSY 145

>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 = 35.7 bits (83), Expect = 7e-04
 Identities = 17/95 (17%), Positives = 37/95 (38%), Gaps = 9/95 (9%)

Query: 2   FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPS 61
               +   +L LLD+S +  ++ ++    + L K+ S+DLS          +  + + P 
Sbjct: 105 IPNLSGLTSLTLLDISHSAHDDSILT-KINTLPKVNSIDLSY---NGAITDIMPLKTLPE 160

Query: 62  LNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           L +L +  +          + + +F  L  L    
Sbjct: 161 LKSLNIQFDGVH-----DYRGIEDFPKLNQLYAFS 190

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 11/96 (11%)

Query: 8   FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF---PSLNN 64
            +   LLD+S N ++ L      + L  L SL LS   +      + S  +F   P+L  
Sbjct: 38  PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNF----ISS-EAFVPVPNLRY 92

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
           L LSSN+     T+      +   LE L L ++ + 
Sbjct: 93  LDLSSNHLH---TLDEFLFSDLQALEVLLLYNNHIV 125

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 15/102 (14%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGY-SGLRKLKSLDLSRVGVRDGSKLLQSM--GSF-- 59
           F    NL  LD+S N ++ L   +   S L+ L+ L L        +  +  +   +F  
Sbjct: 84  FVPVPNLRYLDLSSNHLHTL--DEFLFSDLQALEVLLLY-------NNHIVVVDRNAFED 134

Query: 60  -PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
              L  LYLS N  +       ++ +    L  L L+ + L 
Sbjct: 135 MAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLK 176

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 12/92 (13%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNN 64
             +   +  L++S N + N+      +GL+ +K+LDL+   + D    +  +    +L  
Sbjct: 81  LKNLTKITELELSGNPLKNV---SAIAGLQSIKTLDLTSTQITD----VTPLAGLSNLQV 133

Query: 65  LYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           LYL  N  T         L   TNL+YL + +
Sbjct: 134 LYLDLNQITN-----ISPLAGLTNLQYLSIGN 160

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 36.6 bits (85), Expect = 5e-04
 Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 12/93 (12%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                NNL  L++  N+I +L        L K+  L+LS   +++    + ++    S+ 
Sbjct: 58  GVQYLNNLIGLELKDNQITDL---APLKNLTKITELELSGNPLKN----VSAIAGLQSIK 110

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L L+S   T+        L   +NL+ L L+ 
Sbjct: 111 TLDLTSTQITD-----VTPLAGLSNLQVLYLDL 138

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 36.8 bits (86), Expect = 4e-04
 Identities = 18/93 (19%), Positives = 38/93 (40%), Gaps = 11/93 (11%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
             ++   L  L +  N+I ++        L  L+ L L+   + D    +  + +   + 
Sbjct: 83  PLSNLVKLTNLYIGTNKITDI---SALQNLTNLRELYLNEDNISD----ISPLANLTKMY 135

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           +L L +N+    ++     L N T L YL + +
Sbjct: 136 SLNLGANHNLSDLS----PLSNMTGLNYLTVTE 164

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 36.4 bits (85), Expect = 6e-04
 Identities = 20/96 (20%), Positives = 43/96 (44%), Gaps = 10/96 (10%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
              + + L  L++  N+I+++        L KLK L++    + D    +  + +   LN
Sbjct: 238 PLANLSQLTWLEIGTNQISDI---NAVKDLTKLKMLNVGSNQISD----ISVLNNLSQLN 290

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPL 99
           +L+L++N          + +   TNL  L L+ + +
Sbjct: 291 SLFLNNNQLG---NEDMEVIGGLTNLTTLFLSQNHI 323

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 36.0 bits (84), Expect = 7e-04
 Identities = 19/93 (20%), Positives = 36/93 (38%), Gaps = 11/93 (11%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
              +  NL  L ++ + I+++      + L K+ SL+L           L  + +   LN
Sbjct: 105 ALQNLTNLRELYLNEDNISDI---SPLANLTKMYSLNLGA---NHNLSDLSPLSNMTGLN 158

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L ++ +            + N T+L  L LN 
Sbjct: 159 YLTVTESKVK-----DVTPIANLTDLYSLSLNY 186

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 36.0 bits (84), Expect = 8e-04
 Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 12/93 (12%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
                 NLE L+++ N+I ++      S L KL +L +    + D    + ++ +  +L 
Sbjct: 61  GIEYLTNLEYLNLNGNQITDI---SPLSNLVKLTNLYIGTNKITD----ISALQNLTNLR 113

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            LYL+ +N +         L N T +  L L  
Sbjct: 114 ELYLNEDNIS-----DISPLANLTKMYSLNLGA 141

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 36.6 bits (85), Expect = 5e-04
 Identities = 13/103 (12%), Positives = 36/103 (34%), Gaps = 13/103 (12%)

Query: 5   FNSFNNLELLDMSFNEINNL-------VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMG 57
            +  +++E L++   +++                     +++ ++   +    KLL  + 
Sbjct: 218 VDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQI- 276

Query: 58  SFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH 100
               L  L  S N      ++        T+L+ + L+ +P  
Sbjct: 277 --SGLLELEFSRNQLK---SVPDGIFDRLTSLQKIWLHTNPWD 314

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 25/98 (25%), Positives = 40/98 (40%), Gaps = 18/98 (18%)

Query: 5   FNSFNNLELLDMSFNEINNLVVPQG-YSGLRKLKSLDLSRVGVRDGSKLLQSM--GSF-- 59
           F SF  L++LD+S  EI  +    G Y  L  L +L L+          +QS+  G+F  
Sbjct: 48  FFSFPELQVLDLSRCEIQTI--EDGAYQSLSHLSTLILT-------GNPIQSLALGAFSG 98

Query: 60  -PSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
             SL  L     N     ++    + +   L+ L +  
Sbjct: 99  LSSLQKLVAVETNLA---SLENFPIGHLKTLKELNVAH 133

>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 = 36.4 bits (84), Expect = 7e-04
 Identities = 18/93 (19%), Positives = 37/93 (39%), Gaps = 8/93 (8%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
           +    + ++ LD+  NEI+ +   +  +    L+ L+L    + D    ++    F  L 
Sbjct: 139 DEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYD----VKGQVVFAKLK 194

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
            L LSSN           E  +   + ++ L +
Sbjct: 195 TLDLSSNKLAF----MGPEFQSAAGVTWISLRN 223

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 36.1 bits (84), Expect = 9e-04
 Identities = 20/99 (20%), Positives = 38/99 (38%), Gaps = 12/99 (12%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
              +   L  + M+ N+I ++      + L  L  L L    + D    +  + +  +LN
Sbjct: 85  PLKNLTKLVDILMNNNQIADI---TPLANLTNLTGLTLFNNQITD----IDPLKNLTNLN 137

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHIS 102
            L LSSN  ++        L   T+L+ L   +    + 
Sbjct: 138 RLELSSNTISD-----ISALSGLTSLQQLSFGNQVTDLK 171

>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 = 35.9 bits (82), Expect = 9e-04
 Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 4/89 (4%)

Query: 4   EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN 63
              +   LE+L  S N + N+    G + L +L+ L L    ++  S  +Q + S P L 
Sbjct: 481 ALAALRCLEVLQASDNALENV---DGVANLPRLQELLLCNNRLQQ-SAAIQPLVSCPRLV 536

Query: 64  NLYLSSNNFTETVTITTQELHNFTNLEYL 92
            L L  N+  +   I  +      ++  +
Sbjct: 537 LLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	104
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.64
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.64
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.61
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.61
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.61
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.6
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.59
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.59
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.58
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.57
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.56
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.56
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.56
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.55
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.55
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.54
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.54
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.54
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.54
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.54
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.53
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.53
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.53
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.53
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.53
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.52
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.51
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.51
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.51
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.5
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.5
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.5
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.48
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.48
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.48
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.47
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.47
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.47
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.47
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.47
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.46
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.46
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.46
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.46
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.46
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.45
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.45
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.45
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.44
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.43
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.43
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.42
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.42
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.42
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.41
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.4
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.4
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.4
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.4
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.4
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.4
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.39
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.39
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.39
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.38
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.38
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.38
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.37
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.36
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.36
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.36
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.36
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.35
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.35
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.35
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.33
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.33
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.33
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.33
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.32
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.32
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.3
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.3
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.3
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.3
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.29
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.29
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.29
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.29
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.28
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.27
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.27
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.27
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.25
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.25
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.24
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.24
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.23
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.23
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.23
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.23
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.23
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.22
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.22
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.21
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.2
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.19
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.17
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.17
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.15
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.13
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.12
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.11
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.09
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.02
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.0
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.99
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.98
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.98
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.97
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.96
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.94
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.91
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.85
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.84
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.83
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.8
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.79
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.77
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.76
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.75
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.71
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.7
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.64
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.62
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.61
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.61
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.61
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.54
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.51
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.48
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.41
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.3
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.09
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.73
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.68
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.67
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.66
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.55
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.51
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.4
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.33
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.15
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.09
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.0
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.99
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.98
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	96.93

>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=99.64  E-value=2.8e-16  Score=110.98  Aligned_cols=96  Identities=22%  Similarity=0.348  Sum_probs=90.3

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|+.|++++|.+.+.+| ..+..++.|+.|++++|.+  .+..|..++.+++|+.|++++|++++..    |
T Consensus       625 ~~~~~~l~~L~~LdLs~N~l~g~ip-~~l~~l~~L~~L~Ls~N~l--~g~ip~~l~~L~~L~~LdLs~N~l~g~i----p  697 (768)
T 3rgz_A          625 SPTFDNNGSMMFLDMSYNMLSGYIP-KEIGSMPYLFILNLGHNDI--SGSIPDEVGDLRGLNILDLSSNKLDGRI----P  697 (768)
T ss_dssp             CCSCSSSBCCCEEECCSSCCBSCCC-GGGGGCTTCCEEECCSSCC--CSCCCGGGGGCTTCCEEECCSSCCEECC----C
T ss_pred             chhhhccccccEEECcCCcccccCC-HHHhccccCCEEeCcCCcc--CCCCChHHhCCCCCCEEECCCCcccCcC----C
Confidence            4567788999999999999998899 8999999999999999999  6788999999999999999999999998    9


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                       .+..+++|+++++++|.++|.+|
T Consensus       698 ~~l~~l~~L~~L~ls~N~l~g~iP  721 (768)
T 3rgz_A          698 QAMSALTMLTEIDLSNNNLSGPIP  721 (768)
T ss_dssp             GGGGGCCCCSEEECCSSEEEEECC
T ss_pred             hHHhCCCCCCEEECcCCcccccCC
Confidence             99999999999999999999887

>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=99.64  E-value=1.4e-15  Score=91.79  Aligned_cols=91  Identities=16%  Similarity=0.319  Sum_probs=74.8

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..| ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+++..    | .+
T Consensus        50 ~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~  122 (192)
T 1w8a_A           50 FGRLPHLVKLELKRNQLTGIEP-NAFEGASHIQELQLGENKI--KEISNKMFLGLHQLKTLNLYDNQISCVM----PGSF  122 (192)
T ss_dssp             GGGCTTCCEEECCSSCCCCBCT-TTTTTCTTCCEEECCSCCC--CEECSSSSTTCTTCCEEECCSSCCCEEC----TTSS
T ss_pred             cccCCCCCEEECCCCCCCCcCH-hHcCCcccCCEEECCCCcC--CccCHHHhcCCCCCCEEECCCCcCCeeC----HHHh
Confidence            6778888888998888886556 7788888889999988888  4555556778888899999998888777    7 78


Q ss_pred             CCCCCCcEEEcCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~  102 (104)
                      ..+++|+++++++|.+.+.
T Consensus       123 ~~l~~L~~L~L~~N~l~c~  141 (192)
T 1w8a_A          123 EHLNSLTSLNLASNPFNCN  141 (192)
T ss_dssp             TTCTTCCEEECTTCCBCCS
T ss_pred             hcCCCCCEEEeCCCCccCc
Confidence            8888999999999888764

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

Probab=99.61  E-value=7.2e-15  Score=88.90  Aligned_cols=92  Identities=25%  Similarity=0.371  Sum_probs=66.9

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|..+++|++|++++|.+.+..+ ..|.++++|+.|++++|++  ....+..|..+++|+.|++++|.+....    +
T Consensus        47 p~~~~~l~~L~~L~Ls~N~i~~i~~-~~f~~l~~L~~L~Ls~N~l--~~i~~~~f~~l~~L~~L~L~~N~l~~~~----~  119 (193)
T 2wfh_A           47 PKELSNYKHLTLIDLSNNRISTLSN-QSFSNMTQLLTLILSYNRL--RCIPPRTFDGLKSLRLLSLHGNDISVVP----E  119 (193)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CBCCTTTTTTCTTCCEEECCSSCCCBCC----T
T ss_pred             HHHhhcccCCCEEECCCCcCCEeCH-hHccCCCCCCEEECCCCcc--CEeCHHHhCCCCCCCEEECCCCCCCeeC----h
Confidence            4566777788888888888774444 6677778888888888877  4444556777778888888888877554    4


Q ss_pred             -ccCCCCCCcEEEcCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~  100 (104)
                       .+..+++|+.+++++|++.
T Consensus       120 ~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A          120 GAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             TTTTTCTTCCEEECCSSCEE
T ss_pred             hhhhcCccccEEEeCCCCee
Confidence             6777788888888887764

>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=99.61  E-value=9.4e-15  Score=89.89  Aligned_cols=91  Identities=19%  Similarity=0.293  Sum_probs=58.3

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .+
T Consensus        53 ~~~l~~L~~L~L~~N~i~~i~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~----~~~~  125 (220)
T 2v70_A           53 FKKLPQLRKINFSNNKITDIEE-GAFEGASGVNEILLTSNRL--ENVQHKMFKGLESLKTLMLRSNRITCVG----NDSF  125 (220)
T ss_dssp             GGGCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCC--CCCCGGGGTTCSSCCEEECTTSCCCCBC----TTSS
T ss_pred             hccCCCCCEEECCCCcCCEECH-HHhCCCCCCCEEECCCCcc--CccCHhHhcCCcCCCEEECCCCcCCeEC----HhHc
Confidence            5566777777777777763333 4566677777777777776  3444445666667777777777666555    5 56


Q ss_pred             CCCCCCcEEEcCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~  102 (104)
                      ..+++|+.|++++|.+++.
T Consensus       126 ~~l~~L~~L~L~~N~l~~~  144 (220)
T 2v70_A          126 IGLSSVRLLSLYDNQITTV  144 (220)
T ss_dssp             TTCTTCSEEECTTSCCCCB
T ss_pred             CCCccCCEEECCCCcCCEE
Confidence            6666666666666666553

>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=99.61  E-value=9e-15  Score=89.97  Aligned_cols=91  Identities=27%  Similarity=0.388  Sum_probs=59.0

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..|.++++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .
T Consensus        51 ~~~~l~~L~~L~Ls~N~i~~~~~-~~~~~l~~L~~L~Ls~N~l--~~l~~~~f~~l~~L~~L~L~~N~l~~~~----~~~  123 (220)
T 2v9t_B           51 AFSPYKKLRRIDLSNNQISELAP-DAFQGLRSLNSLVLYGNKI--TELPKSLFEGLFSLQLLLLNANKINCLR----VDA  123 (220)
T ss_dssp             SSTTCTTCCEEECCSSCCCEECT-TTTTTCSSCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTT
T ss_pred             HhhCCCCCCEEECCCCcCCCcCH-HHhhCCcCCCEEECCCCcC--CccCHhHccCCCCCCEEECCCCCCCEeC----HHH
Confidence            45666777777777777764445 6667777777777777776  3332334566667777777777776555    5 6


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.+++
T Consensus       124 ~~~l~~L~~L~L~~N~l~~  142 (220)
T 2v9t_B          124 FQDLHNLNLLSLYDNKLQT  142 (220)
T ss_dssp             TTTCTTCCEEECCSSCCSC
T ss_pred             cCCCCCCCEEECCCCcCCE
Confidence            6666777777777766654

>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=99.60  E-value=1.5e-14  Score=85.87  Aligned_cols=88  Identities=19%  Similarity=0.245  Sum_probs=76.5

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNF   86 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~   86 (104)
                      .+++++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+.+..    + .+..+
T Consensus        29 ~~~l~~L~L~~N~i~~~~~-~~~~~l~~L~~L~Ls~N~l--~~l~~~~f~~l~~L~~L~L~~N~l~~~~----~~~~~~l  101 (170)
T 3g39_A           29 PTTTQVLYLYDNQITKLEP-GVFDRLTQLTRLDLDNNQL--TVLPAGVFDKLTQLTQLSLNDNQLKSIP----RGAFDNL  101 (170)
T ss_dssp             CTTCSEEECCSSCCCCCCT-TTTTTCTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTTTTC
T ss_pred             CCCCcEEEcCCCcCCccCh-hhhcCcccCCEEECCCCCc--CccChhhccCCCCCCEEECCCCccCEeC----HHHhcCC
Confidence            3789999999999996556 7899999999999999999  5544556789999999999999999776    6 78999


Q ss_pred             CCCcEEEcCCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHIS  102 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~~  102 (104)
                      ++|++|++++|++...
T Consensus       102 ~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A          102 KSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             TTCCEEECCSSCBCTT
T ss_pred             CCCCEEEeCCCCCCCC
Confidence            9999999999998653

>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=99.59  E-value=5.6e-15  Score=95.60  Aligned_cols=96  Identities=23%  Similarity=0.243  Sum_probs=76.6

Q ss_pred             CccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +|+.+..+++|++|++++|.+. ..| ..+..+++|+.|++++|++  .+..|..+..+++|+.|++++|.+.+..    
T Consensus       198 lp~~l~~l~~L~~L~L~~N~l~-~l~-~~l~~l~~L~~L~Ls~n~~--~~~~p~~~~~l~~L~~L~L~~n~~~~~~----  269 (328)
T 4fcg_A          198 LPASIANLQNLKSLKIRNSPLS-ALG-PAIHHLPKLEELDLRGCTA--LRNYPPIFGGRAPLKRLILKDCSNLLTL----  269 (328)
T ss_dssp             CCGGGGGCTTCCEEEEESSCCC-CCC-GGGGGCTTCCEEECTTCTT--CCBCCCCTTCCCCCCEEECTTCTTCCBC----
T ss_pred             chHhhcCCCCCCEEEccCCCCC-cCc-hhhccCCCCCEEECcCCcc--hhhhHHHhcCCCCCCEEECCCCCchhhc----
Confidence            3566777888888888888887 456 5677888888888888877  5666777888888888888888887777    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                      | .+..+++|+.|++++|.+.+.+|
T Consensus       270 p~~~~~l~~L~~L~L~~n~~~~~iP  294 (328)
T 4fcg_A          270 PLDIHRLTQLEKLDLRGCVNLSRLP  294 (328)
T ss_dssp             CTTGGGCTTCCEEECTTCTTCCCCC
T ss_pred             chhhhcCCCCCEEeCCCCCchhhcc
Confidence            7 88888888888888888888776

>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=99.59  E-value=1e-14  Score=89.76  Aligned_cols=93  Identities=20%  Similarity=0.278  Sum_probs=82.8

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+.+..    | 
T Consensus        75 ~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~  147 (220)
T 2v70_A           75 GAFEGASGVNEILLTSNRLENVQH-KMFKGLESLKTLMLRSNRI--TCVGNDSFIGLSSVRLLSLYDNQITTVA----PG  147 (220)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCG-GGGTTCSSCCEEECTTSCC--CCBCTTSSTTCTTCSEEECTTSCCCCBC----TT
T ss_pred             HHhCCCCCCCEEECCCCccCccCH-hHhcCCcCCCEEECCCCcC--CeECHhHcCCCccCCEEECCCCcCCEEC----HH
Confidence            468899999999999999995555 7789999999999999999  5666778999999999999999999887    7 


Q ss_pred             ccCCCCCCcEEEcCCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      .+..+++|+.+++++|++.+.
T Consensus       148 ~~~~l~~L~~L~L~~N~l~c~  168 (220)
T 2v70_A          148 AFDTLHSLSTLNLLANPFNCN  168 (220)
T ss_dssp             TTTTCTTCCEEECCSCCEECS
T ss_pred             HhcCCCCCCEEEecCcCCcCC
Confidence            899999999999999998653

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.58  E-value=2.4e-14  Score=85.35  Aligned_cols=86  Identities=17%  Similarity=0.232  Sum_probs=74.7

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      ++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+....    + .+..++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~i~~~~~~~l~~L~~L~L~~N~l~~l~----~~~~~~l~  105 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEP-GVFDHLVNLQQLYFNSNKL--TAIPTGVFDKLTQLTQLDLNDNHLKSIP----RGAFDNLK  105 (174)
T ss_dssp             TTCSEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTTTTCT
T ss_pred             CCCcEEEeCCCCccccCH-HHhcCCcCCCEEECCCCCC--CccChhHhCCcchhhEEECCCCccceeC----HHHhcccc
Confidence            789999999999996556 7899999999999999999  4443445788999999999999999665    5 689999


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      +|++|++++|++..
T Consensus       106 ~L~~L~L~~N~~~c  119 (174)
T 2r9u_A          106 SLTHIYLYNNPWDC  119 (174)
T ss_dssp             TCSEEECCSSCBCT
T ss_pred             CCCEEEeCCCCccc
Confidence            99999999999864

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

Probab=99.57  E-value=2e-14  Score=85.47  Aligned_cols=92  Identities=24%  Similarity=0.296  Sum_probs=67.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.+++++|.+.+..    + .
T Consensus        47 ~~~~l~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~N~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~----~~~  119 (177)
T 2o6r_A           47 VFDKLTQLTKLSLSQNQIQSLPD-GVFDKLTKLTILYLHENKL--QSLPNGVFDKLTQLKELALDTNQLKSVP----DGI  119 (177)
T ss_dssp             TTTTCTTCSEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCSCCC----TTT
T ss_pred             HhcCcccccEEECCCCcceEeCh-hHccCCCccCEEECCCCCc--cccCHHHhhCCcccCEEECcCCcceEeC----HHH
Confidence            35677888888888888874333 5567788888888888888  4433445677788888888888887554    4 5


Q ss_pred             cCCCCCCcEEEcCCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~~  102 (104)
                      +..+++|+.+++++|.+.+.
T Consensus       120 ~~~l~~L~~L~l~~N~~~~~  139 (177)
T 2o6r_A          120 FDRLTSLQKIWLHTNPWDCS  139 (177)
T ss_dssp             TTTCTTCCEEECCSSCBCCC
T ss_pred             hcCCcccCEEEecCCCeecc
Confidence            67788888888888887764

>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=99.56  E-value=3e-14  Score=87.62  Aligned_cols=92  Identities=18%  Similarity=0.256  Sum_probs=81.4

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|..+++|++|++++|.+. .++...+.++++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    +
T Consensus        73 ~~~~~~l~~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L~~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~  145 (220)
T 2v9t_B           73 PDAFQGLRSLNSLVLYGNKIT-ELPKSLFEGLFSLQLLLLNANKI--NCLRVDAFQDLHNLNLLSLYDNKLQTIA----K  145 (220)
T ss_dssp             TTTTTTCSSCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCSCCC----T
T ss_pred             HHHhhCCcCCCEEECCCCcCC-ccCHhHccCCCCCCEEECCCCCC--CEeCHHHcCCCCCCCEEECCCCcCCEEC----H
Confidence            567899999999999999999 55526678999999999999999  5666778999999999999999999776    6


Q ss_pred             -ccCCCCCCcEEEcCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~  100 (104)
                       .+..+++|+.+++++|++.
T Consensus       146 ~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          146 GTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             TTTTTCTTCCEEECCSSCEE
T ss_pred             HHHhCCCCCCEEEeCCCCcC
Confidence             7899999999999999874

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

Probab=99.56  E-value=6.5e-14  Score=85.12  Aligned_cols=89  Identities=21%  Similarity=0.297  Sum_probs=41.3

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+ .+...+..+++|++|++++|++  ....+..+..+++|+.|++++|.+.+..    + .+
T Consensus        48 ~~~l~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~  120 (208)
T 2o6s_A           48 FDELTSLTQLYLGGNKLQS-LPNGVFNKLTSLTYLNLSTNQL--QSLPNGVFDKLTQLKELALNTNQLQSLP----DGVF  120 (208)
T ss_dssp             TTTCTTCSEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTT
T ss_pred             hcccccCcEEECCCCccCc-cChhhcCCCCCcCEEECCCCcC--CccCHhHhcCccCCCEEEcCCCcCcccC----HhHh
Confidence            3445555555555555552 2213344555555555555555  2222223444455555555555554333    2 33


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|++|++++|.++
T Consensus       121 ~~l~~L~~L~l~~N~l~  137 (208)
T 2o6s_A          121 DKLTQLKDLRLYQNQLK  137 (208)
T ss_dssp             TTCTTCCEEECCSSCCS
T ss_pred             ccCCcCCEEECCCCccc
Confidence            44444444444444443

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

Probab=99.56  E-value=1.6e-15  Score=97.52  Aligned_cols=94  Identities=15%  Similarity=0.223  Sum_probs=49.2

Q ss_pred             ccccCCCCCCCEEECCC-CCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            2 FAEFNSFNNLELLDMSF-NEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      |+.+..+++|++|++++ |.+.+..| ..+..+++|++|++++|.+  ....|..+..+++|+.|++++|.+.+..    
T Consensus        69 ~~~l~~l~~L~~L~L~~~n~l~~~~p-~~l~~l~~L~~L~Ls~n~l--~~~~p~~~~~l~~L~~L~Ls~N~l~~~~----  141 (313)
T 1ogq_A           69 PSSLANLPYLNFLYIGGINNLVGPIP-PAIAKLTQLHYLYITHTNV--SGAIPDFLSQIKTLVTLDFSYNALSGTL----  141 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEETTEESCCC-GGGGGCTTCSEEEEEEECC--EEECCGGGGGCTTCCEEECCSSEEESCC----
T ss_pred             ChhHhCCCCCCeeeCCCCCcccccCC-hhHhcCCCCCEEECcCCee--CCcCCHHHhCCCCCCEEeCCCCccCCcC----
Confidence            34455555555555553 55554444 4555555555555555555  3344445555555555555555555444    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      | .+..+++|++|++++|.+++.
T Consensus       142 p~~~~~l~~L~~L~L~~N~l~~~  164 (313)
T 1ogq_A          142 PPSISSLPNLVGITFDGNRISGA  164 (313)
T ss_dssp             CGGGGGCTTCCEEECCSSCCEEE
T ss_pred             ChHHhcCCCCCeEECcCCcccCc
Confidence            4 455555555555555555433

>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=99.56  E-value=6.9e-14  Score=87.28  Aligned_cols=66  Identities=24%  Similarity=0.479  Sum_probs=31.2

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.
T Consensus        55 ~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~  120 (251)
T 3m19_A           55 FRGLTKLTWLNLDYNQLQTLSA-GVFDDLTELGTLGLANNQL--ASLPLGVFDHLTQLDKLYLGGNQLK  120 (251)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCT-TTTTTCTTCCEEECTTSCC--CCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             hcCcccCCEEECCCCcCCccCH-hHhccCCcCCEEECCCCcc--cccChhHhcccCCCCEEEcCCCcCC
Confidence            4455555555555555553333 3444555555555555555  2222233444444444444444444

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.55  E-value=4.4e-14  Score=85.24  Aligned_cols=89  Identities=18%  Similarity=0.213  Sum_probs=76.8

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      .++++|++++|.+.+..+...+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .+..++
T Consensus        29 ~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~----~~~~~~l~  102 (192)
T 1w8a_A           29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL--TGIEPNAFEGASHIQELQLGENKIKEIS----NKMFLGLH  102 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSCCCCEEC----SSSSTTCT
T ss_pred             CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCC--CCcCHhHcCCcccCCEEECCCCcCCccC----HHHhcCCC
Confidence            38999999999998444312488999999999999999  5666788999999999999999999776    6 789999


Q ss_pred             CCcEEEcCCCCCCCCC
Q 040978           88 NLEYLKLNDSPLHISL  103 (104)
Q Consensus        88 ~L~~l~l~~n~~~~~~  103 (104)
                      +|++|++++|.+++..
T Consensus       103 ~L~~L~L~~N~l~~~~  118 (192)
T 1w8a_A          103 QLKTLNLYDNQISCVM  118 (192)
T ss_dssp             TCCEEECCSSCCCEEC
T ss_pred             CCCEEECCCCcCCeeC
Confidence            9999999999998754

>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=99.55  E-value=7.8e-14  Score=87.03  Aligned_cols=89  Identities=22%  Similarity=0.341  Sum_probs=44.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..+..+++|+.|++++|.+.+..    + .+
T Consensus        79 ~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~----~~~~  151 (251)
T 3m19_A           79 FDDLTELGTLGLANNQLASLPL-GVFDHLTQLDKLYLGGNQL--KSLPSGVFDRLTKLKELRLNTNQLQSIP----AGAF  151 (251)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTT
T ss_pred             hccCCcCCEEECCCCcccccCh-hHhcccCCCCEEEcCCCcC--CCcChhHhccCCcccEEECcCCcCCccC----HHHc
Confidence            4555566666666666553222 4445555555555555555  2222233444555555555555555333    3 44


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|++|++++|.+.
T Consensus       152 ~~l~~L~~L~L~~N~l~  168 (251)
T 3m19_A          152 DKLTNLQTLSLSTNQLQ  168 (251)
T ss_dssp             TTCTTCCEEECCSSCCS
T ss_pred             CcCcCCCEEECCCCcCC
Confidence            44555555555555444

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

Probab=99.54  E-value=3.1e-15  Score=96.15  Aligned_cols=95  Identities=16%  Similarity=0.291  Sum_probs=72.5

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |+.|..+++|++|++++|.+.+..| ..+..+++|+.|++++|.+  ....|..+..+++|+.|++++|.+.+..    |
T Consensus        94 p~~l~~l~~L~~L~Ls~n~l~~~~p-~~~~~l~~L~~L~Ls~N~l--~~~~p~~~~~l~~L~~L~L~~N~l~~~~----p  166 (313)
T 1ogq_A           94 PPAIAKLTQLHYLYITHTNVSGAIP-DFLSQIKTLVTLDFSYNAL--SGTLPPSISSLPNLVGITFDGNRISGAI----P  166 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEECCEEECC-GGGGGCTTCCEEECCSSEE--ESCCCGGGGGCTTCCEEECCSSCCEEEC----C
T ss_pred             ChhHhcCCCCCEEECcCCeeCCcCC-HHHhCCCCCCEEeCCCCcc--CCcCChHHhcCCCCCeEECcCCcccCcC----C
Confidence            5667788888888888888876666 7777888888888888887  4566777777888888888888887666    6


Q ss_pred             -ccCCCC-CCcEEEcCCCCCCCCC
Q 040978           82 -ELHNFT-NLEYLKLNDSPLHISL  103 (104)
Q Consensus        82 -~~~~~~-~L~~l~l~~n~~~~~~  103 (104)
                       .+..++ .|+.|++++|.+.+.+
T Consensus       167 ~~l~~l~~~L~~L~L~~N~l~~~~  190 (313)
T 1ogq_A          167 DSYGSFSKLFTSMTISRNRLTGKI  190 (313)
T ss_dssp             GGGGCCCTTCCEEECCSSEEEEEC
T ss_pred             HHHhhhhhcCcEEECcCCeeeccC
Confidence             777776 7788888877776544

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

Probab=99.54  E-value=8.5e-14  Score=87.83  Aligned_cols=89  Identities=24%  Similarity=0.308  Sum_probs=40.3

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .+
T Consensus       105 ~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~~  177 (272)
T 3rfs_A          105 FDKLTNLKELVLVENQLQSLPD-GVFDKLTNLTYLNLAHNQL--QSLPKGVFDKLTNLTELDLSYNQLQSLP----EGVF  177 (272)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTT
T ss_pred             hcCCcCCCEEECCCCcCCccCH-HHhccCCCCCEEECCCCcc--CccCHHHhccCccCCEEECCCCCcCccC----HHHh
Confidence            3445555555555555552222 3344455555555555554  2222233344444555555555444333    2 33


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|+.|++++|.+.
T Consensus       178 ~~l~~L~~L~L~~N~l~  194 (272)
T 3rfs_A          178 DKLTQLKDLRLYQNQLK  194 (272)
T ss_dssp             TTCTTCCEEECCSSCCS
T ss_pred             cCCccCCEEECCCCcCC
Confidence            44444444444444443

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

Probab=99.54  E-value=1.3e-13  Score=83.78  Aligned_cols=93  Identities=25%  Similarity=0.372  Sum_probs=71.0

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .
T Consensus        71 ~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~N~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~----~~~  143 (208)
T 2o6s_A           71 VFNKLTSLTYLNLSTNQLQSLPN-GVFDKLTQLKELALNTNQL--QSLPDGVFDKLTQLKDLRLYQNQLKSVP----DGV  143 (208)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCSCCC----TTT
T ss_pred             hcCCCCCcCEEECCCCcCCccCH-hHhcCccCCCEEEcCCCcC--cccCHhHhccCCcCCEEECCCCccceeC----HHH
Confidence            35778888888888888884333 5577888888888888888  4444445777888888888888888655    5 6


Q ss_pred             cCCCCCCcEEEcCCCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      +..+++|+.+++++|.+.+..
T Consensus       144 ~~~l~~L~~L~l~~N~~~~~~  164 (208)
T 2o6s_A          144 FDRLTSLQYIWLHDNPWDCTC  164 (208)
T ss_dssp             TTTCTTCCEEECCSCCBCCCT
T ss_pred             hccCCCccEEEecCCCeecCC
Confidence            778888888888888877654

>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=99.54  E-value=5.3e-14  Score=93.76  Aligned_cols=92  Identities=26%  Similarity=0.323  Sum_probs=44.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..+..+++|+.|++++|.+++..    + .+
T Consensus       319 ~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~  391 (455)
T 3v47_A          319 FWGLTHLLKLNLSQNFLGSIDS-RMFENLDKLEVLDLSYNHI--RALGDQSFLGLPNLKELALDTNQLKSVP----DGIF  391 (455)
T ss_dssp             TTTCTTCCEEECCSSCCCEECG-GGGTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCSCCC----TTTT
T ss_pred             hcCcccCCEEECCCCccCCcCh-hHhcCcccCCEEECCCCcc--cccChhhccccccccEEECCCCccccCC----HhHh
Confidence            3444444444444444442223 3444444555555555544  2333444445555555555555555333    3 44


Q ss_pred             CCCCCCcEEEcCCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~~  103 (104)
                      ..+++|+.+++++|++++..
T Consensus       392 ~~l~~L~~L~l~~N~l~~~~  411 (455)
T 3v47_A          392 DRLTSLQKIWLHTNPWDCSC  411 (455)
T ss_dssp             TTCTTCCEEECCSSCBCCCT
T ss_pred             ccCCcccEEEccCCCcccCC
Confidence            55556666666666555543

>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=99.54  E-value=6.2e-14  Score=96.14  Aligned_cols=92  Identities=24%  Similarity=0.333  Sum_probs=65.6

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..|.++++|++|++++|.+. .++...|.++++|++|++++|++  ....+..|..+++|+.|++++|.+.+..    + 
T Consensus        70 ~~f~~l~~L~~L~Ls~N~i~-~i~~~~f~~L~~L~~L~Ls~N~l--~~l~~~~f~~L~~L~~L~Ls~N~l~~l~----~~  142 (635)
T 4g8a_A           70 YSFFSFPELQVLDLSRCEIQ-TIEDGAYQSLSHLSTLILTGNPI--QSLALGAFSGLSSLQKLVAVETNLASLE----NF  142 (635)
T ss_dssp             TTTTTCTTCCEEECTTCCCC-EECTTTTTTCTTCCEEECTTCCC--CEECGGGGTTCTTCCEEECTTSCCCCST----TC
T ss_pred             HHHhCCCCCCEEECCCCcCC-CcChhHhcCCCCCCEEEccCCcC--CCCCHHHhcCCCCCCEEECCCCcCCCCC----hh
Confidence            45777788888888888777 34325677778888888888877  3433456777778888888888777554    4 


Q ss_pred             ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .|+.+++|++|++++|.+.+
T Consensus       143 ~~~~L~~L~~L~Ls~N~l~~  162 (635)
T 4g8a_A          143 PIGHLKTLKELNVAHNLIQS  162 (635)
T ss_dssp             CCTTCTTCCEEECCSSCCCC
T ss_pred             hhhcCcccCeeccccCcccc
Confidence            67777777777777777654

>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=99.53  E-value=1.2e-13  Score=85.33  Aligned_cols=89  Identities=22%  Similarity=0.338  Sum_probs=44.4

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+. .++...+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+. .+    | .
T Consensus        59 ~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L~Ls~N~l--~~l~~~~~~~l~~L~~L~Ls~N~l~-~l----p~~  130 (229)
T 3e6j_A           59 VFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLDLGTNQL--TVLPSAVFDRLVHLKELFMCCNKLT-EL----PRG  130 (229)
T ss_dssp             TTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCC-SC----CTT
T ss_pred             HhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEEECCCCcC--CccChhHhCcchhhCeEeccCCccc-cc----Ccc
Confidence            3455555666666666555 23313445555555555555555  2222333445555555555555555 22    3 4


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|++|++++|.+.
T Consensus       131 ~~~l~~L~~L~L~~N~l~  148 (229)
T 3e6j_A          131 IERLTHLTHLALDQNQLK  148 (229)
T ss_dssp             GGGCTTCSEEECCSSCCC
T ss_pred             cccCCCCCEEECCCCcCC
Confidence            444455555555555443

>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=99.53  E-value=2e-14  Score=101.64  Aligned_cols=96  Identities=25%  Similarity=0.363  Sum_probs=57.3

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|++|++++|.+.+..| ..+..+++|+.|++++|++  .+..|..++.+++|+.|++++|.+.+..    |
T Consensus       459 p~~~~~l~~L~~L~L~~N~l~~~~p-~~l~~l~~L~~L~L~~N~l--~~~~p~~~~~l~~L~~L~L~~N~l~~~~----p  531 (768)
T 3rgz_A          459 PQELMYVKTLETLILDFNDLTGEIP-SGLSNCTNLNWISLSNNRL--TGEIPKWIGRLENLAILKLSNNSFSGNI----P  531 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCSCCC-GGGGGCTTCCEEECCSSCC--CSCCCGGGGGCTTCCEEECCSSCCEEEC----C
T ss_pred             CHHHcCCCCceEEEecCCcccCcCC-HHHhcCCCCCEEEccCCcc--CCcCChHHhcCCCCCEEECCCCcccCcC----C
Confidence            3444555555555565555554455 5555566666666666665  3455555556666666666666666555    5


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                       .+..+++|+.+++++|.+.|.+|
T Consensus       532 ~~l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          532 AELGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             GGGGGCTTCCEEECCSSEEESBCC
T ss_pred             HHHcCCCCCCEEECCCCccCCcCC
Confidence             66666666666666666666554

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

Probab=99.53  E-value=1.4e-13  Score=86.78  Aligned_cols=92  Identities=25%  Similarity=0.400  Sum_probs=52.2

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..+..+++|+.|++++|.+.+..    + .+
T Consensus       129 ~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~  201 (272)
T 3rfs_A          129 FDKLTNLTYLNLAHNQLQSLPK-GVFDKLTNLTELDLSYNQL--QSLPEGVFDKLTQLKDLRLYQNQLKSVP----DGVF  201 (272)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCSCCC----TTTT
T ss_pred             hccCCCCCEEECCCCccCccCH-HHhccCccCCEEECCCCCc--CccCHHHhcCCccCCEEECCCCcCCccC----HHHH
Confidence            4556666666666666653322 4455566666666666666  3333334555666666666666666544    4 45


Q ss_pred             CCCCCCcEEEcCCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~~  103 (104)
                      ..+++|+.+++++|.+.+..
T Consensus       202 ~~l~~L~~L~l~~N~~~~~~  221 (272)
T 3rfs_A          202 DRLTSLQYIWLHDNPWDCTC  221 (272)
T ss_dssp             TTCTTCCEEECCSSCBCCCT
T ss_pred             hCCcCCCEEEccCCCccccC
Confidence            56666666666666655543

>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=99.53  E-value=9.3e-14  Score=85.84  Aligned_cols=92  Identities=21%  Similarity=0.318  Sum_probs=80.1

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++   ..+|..+..+++|+.|++++|.+....    + 
T Consensus        82 ~~~~~l~~L~~L~Ls~N~l~~l~~-~~~~~l~~L~~L~Ls~N~l---~~lp~~~~~l~~L~~L~L~~N~l~~~~----~~  153 (229)
T 3e6j_A           82 GVFDSLTQLTVLDLGTNQLTVLPS-AVFDRLVHLKELFMCCNKL---TELPRGIERLTHLTHLALDQNQLKSIP----HG  153 (229)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC---CSCCTTGGGCTTCSEEECCSSCCCCCC----TT
T ss_pred             hhcccCCCcCEEECCCCcCCccCh-hHhCcchhhCeEeccCCcc---cccCcccccCCCCCEEECCCCcCCccC----HH
Confidence            346889999999999999994444 6688999999999999999   467778888999999999999999666    5 


Q ss_pred             ccCCCCCCcEEEcCCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      .+..+++|+.+++++|++...
T Consensus       154 ~~~~l~~L~~L~l~~N~~~c~  174 (229)
T 3e6j_A          154 AFDRLSSLTHAYLFGNPWDCE  174 (229)
T ss_dssp             TTTTCTTCCEEECTTSCBCTT
T ss_pred             HHhCCCCCCEEEeeCCCccCC
Confidence            789999999999999998754

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

Probab=99.53  E-value=5.6e-14  Score=81.39  Aligned_cols=92  Identities=26%  Similarity=0.305  Sum_probs=72.7

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc-ccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET-VTITT   80 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~-~~~~~   80 (104)
                      |+.+..+++|++|++++|.+.+.   ..+..+++|+.|++++|.+  ....|..+..+++|+.+++++|.+.+. .    
T Consensus        35 ~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~ls~N~i~~~~~----  105 (149)
T 2je0_A           35 EGLTDEFEELEFLSTINVGLTSI---ANLPKLNKLKKLELSDNRV--SGGLEVLAEKCPNLTHLNLSGNKIKDLST----  105 (149)
T ss_dssp             CSCCTTCTTCCEEECTTSCCCCC---TTCCCCTTCCEEECCSSCC--CSCTHHHHHHCTTCCEEECTTSCCCSHHH----
T ss_pred             HHHHhhcCCCcEEECcCCCCCCc---hhhhcCCCCCEEECCCCcc--cchHHHHhhhCCCCCEEECCCCcCCChHH----
Confidence            45567788899999998888743   4677888899999999988  444677677788899999999988864 2    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      + .+..+++|+++++++|.+++.
T Consensus       106 ~~~~~~l~~L~~L~l~~N~l~~~  128 (149)
T 2je0_A          106 IEPLKKLENLKSLDLFNCEVTNL  128 (149)
T ss_dssp             HGGGGGCTTCCEEECTTCGGGGS
T ss_pred             HHHHhhCCCCCEEeCcCCcccch
Confidence            3 678888999999999987664

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

Probab=99.52  E-value=1.3e-13  Score=83.30  Aligned_cols=85  Identities=22%  Similarity=0.296  Sum_probs=77.0

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      +++++|++++|.+. .+| ..+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+....    + .|..++
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~  102 (193)
T 2wfh_A           31 RDVTELYLDGNQFT-LVP-KELSNYKHLTLIDLSNNRI--STLSNQSFSNMTQLLTLILSYNRLRCIP----PRTFDGLK  102 (193)
T ss_dssp             TTCCEEECCSSCCC-SCC-GGGGGCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCC----TTTTTTCT
T ss_pred             CCCCEEECCCCcCc-hhH-HHhhcccCCCEEECCCCcC--CEeCHhHccCCCCCCEEECCCCccCEeC----HHHhCCCC
Confidence            58999999999998 778 8899999999999999999  5555667999999999999999999777    7 899999


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      +|++|++++|.+++
T Consensus       103 ~L~~L~L~~N~l~~  116 (193)
T 2wfh_A          103 SLRLLSLHGNDISV  116 (193)
T ss_dssp             TCCEEECCSSCCCB
T ss_pred             CCCEEECCCCCCCe
Confidence            99999999999875

>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=99.51  E-value=1.6e-13  Score=91.47  Aligned_cols=93  Identities=29%  Similarity=0.354  Sum_probs=80.5

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    |
T Consensus       292 ~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~----~  364 (455)
T 3v47_A          292 KSVFSHFTDLEQLTLAQNEINKIDD-NAFWGLTHLLKLNLSQNFL--GSIDSRMFENLDKLEVLDLSYNHIRALG----D  364 (455)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCC--CEECGGGGTTCTTCCEEECCSSCCCEEC----T
T ss_pred             hhhcccCCCCCEEECCCCcccccCh-hHhcCcccCCEEECCCCcc--CCcChhHhcCcccCCEEECCCCcccccC----h
Confidence            4567888999999999999985555 7888999999999999999  5666778889999999999999998777    7


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|++|++++|.+++
T Consensus       365 ~~~~~l~~L~~L~L~~N~l~~  385 (455)
T 3v47_A          365 QSFLGLPNLKELALDTNQLKS  385 (455)
T ss_dssp             TTTTTCTTCCEEECCSSCCSC
T ss_pred             hhccccccccEEECCCCcccc
Confidence             88999999999999998876

>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=99.51  E-value=2.2e-13  Score=82.34  Aligned_cols=91  Identities=24%  Similarity=0.396  Sum_probs=66.6

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCc-CCcccccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNN-FTETVTITTQ   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~-~~~~~~~~~~   81 (104)
                      +.+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|. +.. .    +
T Consensus        82 ~~l~~l~~L~~L~l~~n~l~~~~~-~~l~~l~~L~~L~Ls~n~i--~~~~~~~l~~l~~L~~L~L~~n~~i~~-~----~  153 (197)
T 4ezg_A           82 NPISGLSNLERLRIMGKDVTSDKI-PNLSGLTSLTLLDISHSAH--DDSILTKINTLPKVNSIDLSYNGAITD-I----M  153 (197)
T ss_dssp             GGGTTCTTCCEEEEECTTCBGGGS-CCCTTCTTCCEEECCSSBC--BGGGHHHHTTCSSCCEEECCSCTBCCC-C----G
T ss_pred             hhhhcCCCCCEEEeECCccCcccC-hhhcCCCCCCEEEecCCcc--CcHhHHHHhhCCCCCEEEccCCCCccc-c----H
Confidence            456777888888888888875456 6777888888888888888  45566777778888888888887 543 3    3


Q ss_pred             ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .+..+++|+.|++++|.+++
T Consensus       154 ~l~~l~~L~~L~l~~n~i~~  173 (197)
T 4ezg_A          154 PLKTLPELKSLNIQFDGVHD  173 (197)
T ss_dssp             GGGGCSSCCEEECTTBCCCC
T ss_pred             hhcCCCCCCEEECCCCCCcC
Confidence            56677777777777777654

>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=99.51  E-value=2.7e-13  Score=86.45  Aligned_cols=92  Identities=28%  Similarity=0.351  Sum_probs=60.3

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.++...    +
T Consensus        93 ~~~~~~l~~L~~L~l~~N~l~~l~~-~~~~~l~~L~~L~L~~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~l~----~  165 (290)
T 1p9a_G           93 PLLGQTLPALTVLDVSFNRLTSLPL-GALRGLGELQELYLKGNEL--KTLPPGLLTPTPKLEKLSLANNNLTELP----A  165 (290)
T ss_dssp             CCCTTTCTTCCEEECCSSCCCCCCS-STTTTCTTCCEEECTTSCC--CCCCTTTTTTCTTCCEEECTTSCCSCCC----T
T ss_pred             chhhccCCCCCEEECCCCcCcccCH-HHHcCCCCCCEEECCCCCC--CccChhhcccccCCCEEECCCCcCCccC----H
Confidence            4445666777777777777774333 5566777777777777777  3333445566777777777777777444    3


Q ss_pred             -ccCCCCCCcEEEcCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~  100 (104)
                       .+..+++|+.|++++|.+.
T Consensus       166 ~~~~~l~~L~~L~L~~N~l~  185 (290)
T 1p9a_G          166 GLLNGLENLDTLLLQENSLY  185 (290)
T ss_dssp             TTTTTCTTCCEEECCSSCCC
T ss_pred             HHhcCcCCCCEEECCCCcCC
Confidence             5566777777777777665

>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=99.50  E-value=1.5e-13  Score=89.03  Aligned_cols=92  Identities=23%  Similarity=0.346  Sum_probs=77.0

Q ss_pred             CccccCCCCCCCEEECCC-CCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccc
Q 040978            1 MFAEFNSFNNLELLDMSF-NEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTIT   79 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~   79 (104)
                      +|. +..+.+|++|++++ |.+.+..+ ..|..+++|+.|++++|++  ....+..|..+++|+.|++++|.+.+..   
T Consensus        24 ip~-l~~~~~L~~L~l~~~n~l~~~~~-~~~~~l~~L~~L~l~~N~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~---   96 (347)
T 2ifg_A           24 LHH-LPGAENLTELYIENQQHLQHLEL-RDLRGLGELRNLTIVKSGL--RFVAPDAFHFTPRLSRLNLSFNALESLS---   96 (347)
T ss_dssp             TTT-SCSCSCCSEEECCSCSSCCEECG-GGSCSCCCCSEEECCSSCC--CEECTTGGGSCSCCCEEECCSSCCSCCC---
T ss_pred             cCC-CCCCCCeeEEEccCCCCCCCcCh-hHhccccCCCEEECCCCcc--ceeCHHHhcCCcCCCEEeCCCCccceeC---
Confidence            466 88889999999996 99985444 7799999999999999999  5666778899999999999999999665   


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                       + .+..++ |+.|++.+|.+..
T Consensus        97 -~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           97 -WKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             -STTTCSCC-CCEEECCSSCCCC
T ss_pred             -HHHcccCC-ceEEEeeCCCccC
Confidence             5 555555 9999999998863

>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=99.50  E-value=1.4e-13  Score=94.34  Aligned_cols=92  Identities=25%  Similarity=0.345  Sum_probs=66.2

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|..+++|++|++++|.+.+..| ..|.++++|+.|++++|++  ....+..|..+++|+.|++++|++++..    |
T Consensus       487 ~~~~~~l~~L~~L~Ls~N~L~~l~~-~~f~~l~~L~~L~Ls~N~l--~~l~~~~~~~l~~L~~L~Ls~N~l~~~~----~  559 (635)
T 4g8a_A          487 PDIFTELRNLTFLDLSQCQLEQLSP-TAFNSLSSLQVLNMSHNNF--FSLDTFPYKCLNSLQVLDYSLNHIMTSK----K  559 (635)
T ss_dssp             CSCCTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECTTSCC--CBCCCGGGTTCTTCCEEECTTSCCCBCC----S
T ss_pred             chhhhhccccCEEECCCCccCCcCh-HHHcCCCCCCEEECCCCcC--CCCChhHHhCCCCCCEEECCCCcCCCCC----H
Confidence            3456677778888888887775445 6677777788888888777  4444556777777888888888777666    6


Q ss_pred             -ccCCC-CCCcEEEcCCCCCC
Q 040978           82 -ELHNF-TNLEYLKLNDSPLH  100 (104)
Q Consensus        82 -~~~~~-~~L~~l~l~~n~~~  100 (104)
                       .+..+ ++|++|++++|++.
T Consensus       560 ~~l~~l~~~L~~L~L~~Np~~  580 (635)
T 4g8a_A          560 QELQHFPSSLAFLNLTQNDFA  580 (635)
T ss_dssp             SCTTCCCTTCCEEECTTCCBC
T ss_pred             HHHHhhhCcCCEEEeeCCCCc
Confidence             66666 57788888877764

>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=99.50  E-value=1.8e-13  Score=87.36  Aligned_cols=90  Identities=27%  Similarity=0.362  Sum_probs=40.7

Q ss_pred             cCCCCCCCEEECCCCCCCC-ccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            5 FNSFNNLELLDMSFNEINN-LVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~-~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      +..+++|++|++++|.+.+ ..| ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .
T Consensus       146 ~~~l~~L~~L~l~~n~l~~~~~~-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~~~  218 (306)
T 2z66_A          146 FNGLSSLEVLKMAGNSFQENFLP-DIFTELRNLTFLDLSQCQL--EQLSPTAFNSLSSLQVLNMSHNNFFSLD----TFP  218 (306)
T ss_dssp             TTTCTTCCEEECTTCEEGGGEEC-SCCTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTSCCSBCC----SGG
T ss_pred             cccCcCCCEEECCCCccccccch-hHHhhCcCCCEEECCCCCc--CCcCHHHhcCCCCCCEEECCCCccCccC----hhh
Confidence            3344444444444444432 123 3444444455555554444  2322334444445555555555444333    3 4


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.+.+
T Consensus       219 ~~~l~~L~~L~L~~N~l~~  237 (306)
T 2z66_A          219 YKCLNSLQVLDYSLNHIMT  237 (306)
T ss_dssp             GTTCTTCCEEECTTSCCCB
T ss_pred             ccCcccCCEeECCCCCCcc
Confidence            4444555555555554443

>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=99.48  E-value=3.5e-13  Score=85.30  Aligned_cols=18  Identities=22%  Similarity=0.235  Sum_probs=7.4

Q ss_pred             ccCCCCCCcEEEcCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~   99 (104)
                      .+..+++|+.|++++|.+
T Consensus       196 ~~~~l~~L~~L~l~~n~l  213 (285)
T 1ozn_A          196 AFRDLGRLMTLYLFANNL  213 (285)
T ss_dssp             TTTTCTTCCEEECCSSCC
T ss_pred             HccCcccccEeeCCCCcC
Confidence            333344444444444433

>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=99.48  E-value=3.4e-13  Score=92.67  Aligned_cols=90  Identities=24%  Similarity=0.359  Sum_probs=48.2

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|.++++|++|++++|.+.+..+ ..|..+++|+.|++++|.+  ....|..+..+++|+.|++++|.+.+..    + .
T Consensus        51 ~~~~l~~L~~L~Ls~n~l~~i~~-~~~~~l~~L~~L~Ls~n~l--~~~~p~~~~~l~~L~~L~L~~n~l~~~~----~~~  123 (606)
T 3vq2_A           51 SFSNFSELQWLDLSRCEIETIED-KAWHGLHHLSNLILTGNPI--QSFSPGSFSGLTSLENLVAVETKLASLE----SFP  123 (606)
T ss_dssp             TTTTCTTCCEEECTTCCCCEECT-TTTTTCTTCCEEECTTCCC--CCCCTTSSTTCTTCCEEECTTSCCCCSS----SSC
T ss_pred             hccCCccCcEEeCCCCcccccCH-HHhhchhhcCEeECCCCcc--cccChhhcCCcccCCEEEccCCcccccc----ccc
Confidence            45556666666666666553333 4555566666666666655  3333455555555666666555555433    3 4


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|++|++++|.+.
T Consensus       124 ~~~l~~L~~L~L~~n~l~  141 (606)
T 3vq2_A          124 IGQLITLKKLNVAHNFIH  141 (606)
T ss_dssp             CTTCTTCCEEECCSSCCC
T ss_pred             cCCCCCCCEEeCCCCccc
Confidence            444444444444444443

>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=99.48  E-value=4.2e-13  Score=84.91  Aligned_cols=92  Identities=18%  Similarity=0.289  Sum_probs=52.0

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    + 
T Consensus        99 ~~~~~l~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~  171 (285)
T 1ozn_A           99 ATFHGLGRLHTLHLDRCGLQELGP-GLFRGLAALQYLYLQDNAL--QALPDDTFRDLGNLTHLFLHGNRISSVP----ER  171 (285)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCEEC----TT
T ss_pred             HHhcCCcCCCEEECCCCcCCEECH-hHhhCCcCCCEEECCCCcc--cccCHhHhccCCCccEEECCCCcccccC----HH
Confidence            345556666666666666663333 4555566666666666666  3333334555666666666666665443    3 


Q ss_pred             ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .+..+++|+.|++++|.+.+
T Consensus       172 ~~~~l~~L~~L~l~~n~l~~  191 (285)
T 1ozn_A          172 AFRGLHSLDRLLLHQNRVAH  191 (285)
T ss_dssp             TTTTCTTCCEEECCSSCCCE
T ss_pred             HhcCccccCEEECCCCcccc
Confidence            45556666666666665544

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

Probab=99.47  E-value=1e-12  Score=78.09  Aligned_cols=87  Identities=22%  Similarity=0.277  Sum_probs=74.4

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNF   86 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~   86 (104)
                      .++++.|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+++..    + .+..+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~----~~~~~~l   99 (177)
T 2o6r_A           27 PSSATRLELESNKLQSLPH-GVFDKLTQLTKLSLSQNQI--QSLPDGVFDKLTKLTILYLHENKLQSLP----NGVFDKL   99 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCT-TTTTTCTTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTTTTC
T ss_pred             CCCCcEEEeCCCcccEeCH-HHhcCcccccEEECCCCcc--eEeChhHccCCCccCEEECCCCCccccC----HHHhhCC
Confidence            4689999999999994444 6678999999999999999  4444556788999999999999999766    5 68899


Q ss_pred             CCCcEEEcCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~  101 (104)
                      ++|++|++++|.+++
T Consensus       100 ~~L~~L~l~~N~l~~  114 (177)
T 2o6r_A          100 TQLKELALDTNQLKS  114 (177)
T ss_dssp             TTCCEEECCSSCCSC
T ss_pred             cccCEEECcCCcceE
Confidence            999999999999875

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

Probab=99.47  E-value=3.8e-13  Score=87.92  Aligned_cols=87  Identities=21%  Similarity=0.279  Sum_probs=40.4

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      .+++|++|++++|.+.+..+ ..|..+++|+.|++++|++  ....+..|..+++|+.|++++|.+....    + .|..
T Consensus        62 ~l~~L~~L~L~~N~i~~i~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~i~~~~----~~~~~~  134 (361)
T 2xot_A           62 RLTNLHSLLLSHNHLNFISS-EAFVPVPNLRYLDLSSNHL--HTLDEFLFSDLQALEVLLLYNNHIVVVD----RNAFED  134 (361)
T ss_dssp             CCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEEC----TTTTTT
T ss_pred             cccccCEEECCCCcCCccCh-hhccCCCCCCEEECCCCcC--CcCCHHHhCCCcCCCEEECCCCcccEEC----HHHhCC
Confidence            44555555555555552222 3445555555555555555  2222233444455555555555544333    3 4444


Q ss_pred             CCCCcEEEcCCCCCC
Q 040978           86 FTNLEYLKLNDSPLH  100 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~  100 (104)
                      +++|+.|++++|.++
T Consensus       135 l~~L~~L~L~~N~l~  149 (361)
T 2xot_A          135 MAQLQKLYLSQNQIS  149 (361)
T ss_dssp             CTTCCEEECCSSCCC
T ss_pred             cccCCEEECCCCcCC
Confidence            444444444444443

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

Probab=99.47  E-value=8.5e-13  Score=83.10  Aligned_cols=17  Identities=35%  Similarity=0.632  Sum_probs=7.1

Q ss_pred             cCCCCCCcEEEcCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~   99 (104)
                      +..+++|++|++++|.+
T Consensus       177 ~~~l~~L~~L~L~~N~l  193 (270)
T 2o6q_A          177 FDKLTELKTLKLDNNQL  193 (270)
T ss_dssp             TTTCTTCCEEECCSSCC
T ss_pred             hccCCCcCEEECCCCcC
Confidence            33444444444444433

>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=99.47  E-value=9.8e-14  Score=81.80  Aligned_cols=92  Identities=26%  Similarity=0.278  Sum_probs=57.0

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|++|++++|.+.+.   ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..   .+
T Consensus        42 ~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~~~---~~  113 (168)
T 2ell_A           42 EGLTAEFVNLEFLSLINVGLISV---SNLPKLPKLKKLELSENRI--FGGLDMLAEKLPNLTHLNLSGNKLKDIS---TL  113 (168)
T ss_dssp             SSCCGGGGGCCEEEEESSCCCCC---SSCCCCSSCCEEEEESCCC--CSCCCHHHHHCTTCCEEECBSSSCCSSG---GG
T ss_pred             HHHHHhCCCCCEEeCcCCCCCCh---hhhccCCCCCEEECcCCcC--chHHHHHHhhCCCCCEEeccCCccCcch---hH
Confidence            33445566677777777766632   3556666777777777776  3334555555667777777777766532   02


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|+.|++++|.+++
T Consensus       114 ~~l~~l~~L~~L~l~~N~l~~  134 (168)
T 2ell_A          114 EPLKKLECLKSLDLFNCEVTN  134 (168)
T ss_dssp             GGGSSCSCCCEEECCSSGGGT
T ss_pred             HHHhcCCCCCEEEeeCCcCcc
Confidence             55667777777777776654

>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=99.47  E-value=9e-14  Score=89.95  Aligned_cols=90  Identities=22%  Similarity=0.275  Sum_probs=65.8

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELH   84 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~   84 (104)
                      ..+++|++|++++|.+. .+| ..+..+++|+.|++++|.+   ...+..+..+++|+.|++++|.+.+..    | .+.
T Consensus       180 ~~l~~L~~L~L~~n~l~-~lp-~~l~~l~~L~~L~L~~N~l---~~l~~~l~~l~~L~~L~Ls~n~~~~~~----p~~~~  250 (328)
T 4fcg_A          180 QGLVNLQSLRLEWTGIR-SLP-ASIANLQNLKSLKIRNSPL---SALGPAIHHLPKLEELDLRGCTALRNY----PPIFG  250 (328)
T ss_dssp             EESTTCCEEEEEEECCC-CCC-GGGGGCTTCCEEEEESSCC---CCCCGGGGGCTTCCEEECTTCTTCCBC----CCCTT
T ss_pred             ccCCCCCEEECcCCCcC-cch-HhhcCCCCCCEEEccCCCC---CcCchhhccCCCCCEEECcCCcchhhh----HHHhc
Confidence            34667777777777766 566 5677777778888877777   335556777778888888887777676    7 778


Q ss_pred             CCCCCcEEEcCCCCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~~~~  104 (104)
                      .+++|+.|++++|.+.+.+|
T Consensus       251 ~l~~L~~L~L~~n~~~~~~p  270 (328)
T 4fcg_A          251 GRAPLKRLILKDCSNLLTLP  270 (328)
T ss_dssp             CCCCCCEEECTTCTTCCBCC
T ss_pred             CCCCCCEEECCCCCchhhcc
Confidence            88888888888887777654

>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=99.46  E-value=5.4e-13  Score=91.71  Aligned_cols=93  Identities=19%  Similarity=0.234  Sum_probs=64.8

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|.++++|++|++++|.+.+..| ..|..+++|+.|++++|.+  ....|..+..+++|+.|++++|.+.+..    +
T Consensus        50 ~~~~~~l~~L~~L~Ls~n~i~~~~~-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~n~i~~l~----~  122 (606)
T 3t6q_A           50 NTTFSRLINLTFLDLTRCQIYWIHE-DTFQSQHRLDTLVLTANPL--IFMAETALSGPKALKHLFFIQTGISSID----F  122 (606)
T ss_dssp             TTTSTTCTTCSEEECTTCCCCEECT-TTTTTCTTCCEEECTTCCC--SEECTTTTSSCTTCCEEECTTSCCSCGG----G
T ss_pred             hhHhccCccceEEECCCCccceeCh-hhccCccccCeeeCCCCcc--cccChhhhcccccccEeeccccCcccCC----c
Confidence            3456777777777777777774445 6677777777777777777  4555666777777777777777777654    4


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|++|++++|.+.+
T Consensus       123 ~~~~~l~~L~~L~L~~n~l~~  143 (606)
T 3t6q_A          123 IPLHNQKTLESLYLGSNHISS  143 (606)
T ss_dssp             SCCTTCTTCCEEECCSSCCCC
T ss_pred             chhccCCcccEEECCCCcccc
Confidence             66677777777777776654

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

Probab=99.46  E-value=1.1e-12  Score=82.58  Aligned_cols=89  Identities=20%  Similarity=0.315  Sum_probs=41.4

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+. .++...+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    + .
T Consensus        56 ~~~~l~~L~~L~l~~n~l~-~i~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~  128 (270)
T 2o6q_A           56 AFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKL--QALPIGVFDQLVNLAELRLDRNQLKSLP----PRV  128 (270)
T ss_dssp             SSSSCTTCCEEECCSSCCS-CCCTTTTSSCTTCCEEECCSSCC--CCCCTTTTTTCSSCCEEECCSSCCCCCC----TTT
T ss_pred             HhcCCCCCCEEECCCCccC-eeChhhhcCCCCCCEEECCCCcC--CcCCHhHcccccCCCEEECCCCccCeeC----HHH
Confidence            3455555555555555555 23213344555555555555555  2222233444445555555555444333    3 3


Q ss_pred             cCCCCCCcEEEcCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~   99 (104)
                      +..+++|++|++++|.+
T Consensus       129 ~~~l~~L~~L~Ls~n~l  145 (270)
T 2o6q_A          129 FDSLTKLTYLSLGYNEL  145 (270)
T ss_dssp             TTTCTTCCEEECCSSCC
T ss_pred             hCcCcCCCEEECCCCcC
Confidence            34444444444444433

>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=99.46  E-value=4e-13  Score=85.70  Aligned_cols=94  Identities=24%  Similarity=0.334  Sum_probs=81.2

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    +
T Consensus       168 ~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~N~l--~~~~~~~~~~l~~L~~L~L~~N~l~~~~----~  240 (306)
T 2z66_A          168 PDIFTELRNLTFLDLSQCQLEQLSP-TAFNSLSSLQVLNMSHNNF--FSLDTFPYKCLNSLQVLDYSLNHIMTSK----K  240 (306)
T ss_dssp             CSCCTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECTTSCC--SBCCSGGGTTCTTCCEEECTTSCCCBCS----S
T ss_pred             hhHHhhCcCCCEEECCCCCcCCcCH-HHhcCCCCCCEEECCCCcc--CccChhhccCcccCCEeECCCCCCcccC----H
Confidence            5567889999999999999995556 7889999999999999999  4544557888999999999999999877    7


Q ss_pred             -ccCCCC-CCcEEEcCCCCCCCC
Q 040978           82 -ELHNFT-NLEYLKLNDSPLHIS  102 (104)
Q Consensus        82 -~~~~~~-~L~~l~l~~n~~~~~  102 (104)
                       .+..++ +|+.+++++|++.+.
T Consensus       241 ~~~~~~~~~L~~L~L~~N~~~~~  263 (306)
T 2z66_A          241 QELQHFPSSLAFLNLTQNDFACT  263 (306)
T ss_dssp             SSCCCCCTTCCEEECTTCCEECS
T ss_pred             HHHHhhhccCCEEEccCCCeecc
Confidence             788874 999999999998653

>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=99.46  E-value=8.1e-13  Score=83.27  Aligned_cols=90  Identities=24%  Similarity=0.352  Sum_probs=48.7

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .
T Consensus        47 ~~~~l~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~  119 (276)
T 2z62_A           47 SFFSFPELQVLDLSRCEIQTIED-GAYQSLSHLSTLILTGNPI--QSLALGAFSGLSSLQKLVAVETNLASLE----NFP  119 (276)
T ss_dssp             TTTTCTTCSEEECTTCCCCEECT-TTTTTCTTCCEEECTTCCC--CEECTTTTTTCTTCCEEECTTSCCCCST----TCC
T ss_pred             HhccccCCcEEECCCCcCCccCH-HHccCCcCCCEEECCCCcc--CccChhhhcCCccccEEECCCCCccccC----chh
Confidence            45556666666666666653222 4555666666666666665  3333344555555555555555555443    3 4


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|++|++++|.+.
T Consensus       120 ~~~l~~L~~L~l~~n~l~  137 (276)
T 2z62_A          120 IGHLKTLKELNVAHNLIQ  137 (276)
T ss_dssp             CTTCTTCCEEECCSSCCC
T ss_pred             cccCCCCCEEECcCCccc
Confidence            445555555555555443

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

Probab=99.46  E-value=3.9e-13  Score=91.62  Aligned_cols=94  Identities=28%  Similarity=0.391  Sum_probs=62.8

Q ss_pred             cccCCCCCCCEEECCCCCCC-CccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            3 AEFNSFNNLELLDMSFNEIN-NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~-~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      ..+..+++|++|++++|.+. +..| ..+..+++|+.|++++|.+  ....|..+..+++|+.|++++|.+++..    +
T Consensus       439 ~~~~~l~~L~~L~l~~n~l~~~~~p-~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~  511 (570)
T 2z63_A          439 GIFNGLSSLEVLKMAGNSFQENFLP-DIFTELRNLTFLDLSQCQL--EQLSPTAFNSLSSLQVLNMASNQLKSVP----D  511 (570)
T ss_dssp             TTTTTCTTCCEEECTTCEEGGGEEC-SCCTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCSCCC----T
T ss_pred             hhhhcCCcCcEEECcCCcCccccch-hhhhcccCCCEEECCCCcc--ccCChhhhhcccCCCEEeCCCCcCCCCC----H
Confidence            34555666666666666665 2355 5666667777777777776  4444566667777777777777777555    5


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                       .+..+++|+.+++++|++.+..
T Consensus       512 ~~~~~l~~L~~L~l~~N~~~~~~  534 (570)
T 2z63_A          512 GIFDRLTSLQKIWLHTNPWDCSC  534 (570)
T ss_dssp             TTTTTCTTCCEEECCSSCBCCCT
T ss_pred             HHhhcccCCcEEEecCCcccCCC
Confidence             6677777777777777777654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.45  E-value=5.1e-14  Score=99.33  Aligned_cols=92  Identities=27%  Similarity=0.377  Sum_probs=61.4

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |+.+..+++|++|++++|.+. .+| ..+..+++|+.|++++|++  . .+|..+..+++|+.|++++|.+. .+    |
T Consensus       240 ~~~~~~l~~L~~L~Ls~N~l~-~lp-~~~~~l~~L~~L~Ls~N~l--~-~lp~~~~~l~~L~~L~L~~N~l~-~l----p  309 (727)
T 4b8c_D          240 SANIFKYDFLTRLYLNGNSLT-ELP-AEIKNLSNLRVLDLSHNRL--T-SLPAELGSCFQLKYFYFFDNMVT-TL----P  309 (727)
T ss_dssp             CGGGGGCCSCSCCBCTTSCCS-CCC-GGGGGGTTCCEEECTTSCC--S-SCCSSGGGGTTCSEEECCSSCCC-CC----C
T ss_pred             ChhhcCCCCCCEEEeeCCcCc-ccC-hhhhCCCCCCEEeCcCCcC--C-ccChhhcCCCCCCEEECCCCCCC-cc----C
Confidence            344455666666666666666 556 5666667777777777776  3 45666666677777777777665 44    6


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                       .+..+++|++|++++|.+++.+
T Consensus       310 ~~~~~l~~L~~L~L~~N~l~~~~  332 (727)
T 4b8c_D          310 WEFGNLCNLQFLGVEGNPLEKQF  332 (727)
T ss_dssp             SSTTSCTTCCCEECTTSCCCSHH
T ss_pred             hhhhcCCCccEEeCCCCccCCCC
Confidence             6777777777777777777643

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

Probab=99.45  E-value=6.4e-13  Score=86.86  Aligned_cols=92  Identities=25%  Similarity=0.296  Sum_probs=77.9

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..|..+++|++|++++|.+....+ ..|..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+....    + 
T Consensus        82 ~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~L~~N~i--~~~~~~~~~~l~~L~~L~L~~N~l~~l~----~~  154 (361)
T 2xot_A           82 EAFVPVPNLRYLDLSSNHLHTLDE-FLFSDLQALEVLLLYNNHI--VVVDRNAFEDMAQLQKLYLSQNQISRFP----VE  154 (361)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCSCC----GG
T ss_pred             hhccCCCCCCEEECCCCcCCcCCH-HHhCCCcCCCEEECCCCcc--cEECHHHhCCcccCCEEECCCCcCCeeC----HH
Confidence            468899999999999999994444 6789999999999999999  5656778999999999999999999654    4 


Q ss_pred             cc---CCCCCCcEEEcCCCCCCC
Q 040978           82 EL---HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~---~~~~~L~~l~l~~n~~~~  101 (104)
                      .+   ..+++|+.|++++|.+.+
T Consensus       155 ~~~~~~~l~~L~~L~L~~N~l~~  177 (361)
T 2xot_A          155 LIKDGNKLPKLMLLDLSSNKLKK  177 (361)
T ss_dssp             GTC----CTTCCEEECCSSCCCC
T ss_pred             HhcCcccCCcCCEEECCCCCCCc
Confidence            45   568999999999999875

>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=99.45  E-value=3.6e-13  Score=92.85  Aligned_cols=89  Identities=21%  Similarity=0.309  Sum_probs=78.2

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc-cccccc-c
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET-VTITTQ-E   82 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~-~~~~~~-~   82 (104)
                      ++.+++|+.|++++|.+. .+| ..+..+++|+.|++++|.+  + .+| .+..+++|+.|++++|.+++. .    | .
T Consensus       459 ~~~l~~L~~L~Ls~N~l~-~lp-~~~~~l~~L~~L~Ls~N~l--~-~lp-~l~~l~~L~~L~Ls~N~l~~~~~----p~~  528 (567)
T 1dce_A          459 LEQLLLVTHLDLSHNRLR-ALP-PALAALRCLEVLQASDNAL--E-NVD-GVANLPRLQELLLCNNRLQQSAA----IQP  528 (567)
T ss_dssp             GGGGTTCCEEECCSSCCC-CCC-GGGGGCTTCCEEECCSSCC--C-CCG-GGTTCSSCCEEECCSSCCCSSST----TGG
T ss_pred             ccccccCcEeecCccccc-ccc-hhhhcCCCCCEEECCCCCC--C-CCc-ccCCCCCCcEEECCCCCCCCCCC----cHH
Confidence            788999999999999999 778 8899999999999999999  3 356 788999999999999999866 2    4 7


Q ss_pred             cCCCCCCcEEEcCCCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      +..+++|+.|++++|.+++..
T Consensus       529 l~~l~~L~~L~L~~N~l~~~~  549 (567)
T 1dce_A          529 LVSCPRLVLLNLQGNSLCQEE  549 (567)
T ss_dssp             GGGCTTCCEEECTTSGGGGSS
T ss_pred             HhcCCCCCEEEecCCcCCCCc
Confidence            889999999999999987754

>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=99.44  E-value=7.5e-13  Score=91.00  Aligned_cols=94  Identities=20%  Similarity=0.248  Sum_probs=81.4

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCc-cccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTE-TVTITT   80 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~-~~~~~~   80 (104)
                      |..|.++++|++|++++|.+.+..| ..+..+++|++|++++|.+  ....+..++.+++|+.|++++|.+.+ ..    
T Consensus        73 ~~~~~~l~~L~~L~Ls~n~l~~~~p-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~l----  145 (606)
T 3vq2_A           73 DKAWHGLHHLSNLILTGNPIQSFSP-GSFSGLTSLENLVAVETKL--ASLESFPIGQLITLKKLNVAHNFIHSCKL----  145 (606)
T ss_dssp             TTTTTTCTTCCEEECTTCCCCCCCT-TSSTTCTTCCEEECTTSCC--CCSSSSCCTTCTTCCEEECCSSCCCCCCC----
T ss_pred             HHHhhchhhcCEeECCCCcccccCh-hhcCCcccCCEEEccCCcc--ccccccccCCCCCCCEEeCCCCcccceec----
Confidence            4568899999999999999996657 8899999999999999999  44444678899999999999999975 45    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      | .+..+++|++|++++|.+.+.
T Consensus       146 p~~~~~l~~L~~L~Ls~n~l~~~  168 (606)
T 3vq2_A          146 PAYFSNLTNLVHVDLSYNYIQTI  168 (606)
T ss_dssp             CGGGGTCTTCCEEECCSSCCCEE
T ss_pred             hHhHhhcCCCCEEEccCCcceec
Confidence            7 899999999999999988764

>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=99.43  E-value=3.6e-13  Score=81.34  Aligned_cols=90  Identities=20%  Similarity=0.394  Sum_probs=74.9

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCc-ccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVG-VRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~-~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +..+..+++|++|++++|.+.+..+ ..+..+++|+.|++++|. +   ...+ .+..+++|+.|++++|.+.+..    
T Consensus       105 ~~~l~~l~~L~~L~Ls~n~i~~~~~-~~l~~l~~L~~L~L~~n~~i---~~~~-~l~~l~~L~~L~l~~n~i~~~~----  175 (197)
T 4ezg_A          105 IPNLSGLTSLTLLDISHSAHDDSIL-TKINTLPKVNSIDLSYNGAI---TDIM-PLKTLPELKSLNIQFDGVHDYR----  175 (197)
T ss_dssp             SCCCTTCTTCCEEECCSSBCBGGGH-HHHTTCSSCCEEECCSCTBC---CCCG-GGGGCSSCCEEECTTBCCCCCT----
T ss_pred             ChhhcCCCCCCEEEecCCccCcHhH-HHHhhCCCCCEEEccCCCCc---cccH-hhcCCCCCCEEECCCCCCcChH----
Confidence            4567889999999999999996566 788999999999999998 6   4444 5888999999999999998653    


Q ss_pred             cccCCCCCCcEEEcCCCCCCC
Q 040978           81 QELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        81 ~~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|+.|++++|.+.+
T Consensus       176 -~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          176 -GIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             -TGGGCSSCCEEEECBC----
T ss_pred             -HhccCCCCCEEEeeCcccCC
Confidence             67889999999999999875

>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=99.43  E-value=7.4e-13  Score=88.90  Aligned_cols=91  Identities=24%  Similarity=0.350  Sum_probs=50.5

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+....    + 
T Consensus        50 ~~~~~l~~L~~L~L~~n~i~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~i~~~~----~~  122 (477)
T 2id5_A           50 DEFASFPHLEELELNENIVSAVEP-GAFNNLFNLRTLGLRSNRL--KLIPLGVFTGLSNLTKLDISENKIVILL----DY  122 (477)
T ss_dssp             TTTTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCC--CSCCTTSSTTCTTCCEEECTTSCCCEEC----TT
T ss_pred             hHccCCCCCCEEECCCCccCEeCh-hhhhCCccCCEEECCCCcC--CccCcccccCCCCCCEEECCCCccccCC----hh
Confidence            345556666666666666664334 5566666666666666665  2222233555566666666666655444    4 


Q ss_pred             ccCCCCCCcEEEcCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~  100 (104)
                      .+..+++|+.|++++|.+.
T Consensus       123 ~~~~l~~L~~L~l~~n~l~  141 (477)
T 2id5_A          123 MFQDLYNLKSLEVGDNDLV  141 (477)
T ss_dssp             TTTTCTTCCEEEECCTTCC
T ss_pred             HccccccCCEEECCCCccc
Confidence            4555555555555555443

>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=99.42  E-value=1.6e-12  Score=89.79  Aligned_cols=91  Identities=25%  Similarity=0.308  Sum_probs=59.6

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .
T Consensus        94 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~l~~~~~~~l~~L~~L~Ls~N~l~~~~----~~~  166 (597)
T 3oja_B           94 AFAYAHTIQKLYMGFNAIRYLPP-HVFQNVPLLTVLVLERNDL--SSLPRGIFHNTPKLTTLSMSNNNLERIE----DDT  166 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCC----TTT
T ss_pred             HhcCCCCCCEEECCCCcCCCCCH-HHHcCCCCCCEEEeeCCCC--CCCCHHHhccCCCCCEEEeeCCcCCCCC----hhh
Confidence            56666777777777777664433 5566677777777777776  3322334566777777777777776655    5 6


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|++|++++|.+++
T Consensus       167 ~~~l~~L~~L~L~~N~l~~  185 (597)
T 3oja_B          167 FQATTSLQNLQLSSNRLTH  185 (597)
T ss_dssp             TTTCTTCCEEECTTSCCSB
T ss_pred             hhcCCcCcEEECcCCCCCC
Confidence            6777777777777776654

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

Probab=99.42  E-value=1.6e-12  Score=88.64  Aligned_cols=90  Identities=24%  Similarity=0.352  Sum_probs=52.6

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|++|++++|.+  ....+..|..+++|+.|++++|.+....    + .
T Consensus        47 ~~~~l~~L~~L~Ls~n~i~~i~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~----~~~  119 (570)
T 2z63_A           47 SFFSFPELQVLDLSRCEIQTIED-GAYQSLSHLSTLILTGNPI--QSLALGAFSGLSSLQKLVAVETNLASLE----NFP  119 (570)
T ss_dssp             TTTTCSSCCEEECTTCCCCEECT-TTTTTCTTCCEEECTTCCC--CEECTTTTTTCTTCCEEECTTSCCCCST----TCS
T ss_pred             HhhCCCCceEEECCCCcCCccCc-ccccCchhCCEEeCcCCcC--CccCHhhhcCccccccccccccccccCC----Ccc
Confidence            45666667777777776663333 5566666677777766666  3333445556666666666666655443    3 4


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|++|++++|.+.
T Consensus       120 ~~~l~~L~~L~L~~n~l~  137 (570)
T 2z63_A          120 IGHLKTLKELNVAHNLIQ  137 (570)
T ss_dssp             CTTCTTCCEEECCSSCCC
T ss_pred             ccccccccEEecCCCccc
Confidence            455555555555555544

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

Probab=99.42  E-value=2e-12  Score=84.91  Aligned_cols=91  Identities=25%  Similarity=0.308  Sum_probs=53.5

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .
T Consensus        88 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~l~~~~~~~l~~L~~L~L~~n~l~~~~----~~~  160 (390)
T 3o6n_A           88 AFAYAHTIQKLYMGFNAIRYLPP-HVFQNVPLLTVLVLERNDL--SSLPRGIFHNTPKLTTLSMSNNNLERIE----DDT  160 (390)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCBCC----TTT
T ss_pred             hccCCCCcCEEECCCCCCCcCCH-HHhcCCCCCCEEECCCCcc--CcCCHHHhcCCCCCcEEECCCCccCccC----hhh
Confidence            45556666666666666664333 4556666666666666666  2222223455666666666666666544    4 5


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.+++
T Consensus       161 ~~~l~~L~~L~l~~n~l~~  179 (390)
T 3o6n_A          161 FQATTSLQNLQLSSNRLTH  179 (390)
T ss_dssp             TSSCTTCCEEECCSSCCSB
T ss_pred             ccCCCCCCEEECCCCcCCc
Confidence            6666666666666666543

>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=99.41  E-value=1e-12  Score=89.35  Aligned_cols=88  Identities=27%  Similarity=0.379  Sum_probs=43.0

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc-cccccc-
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET-VTITTQ-   81 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~-~~~~~~-   81 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+. .    + 
T Consensus        45 ~~~~l~~L~~L~Ls~n~i~~~~~-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~----~~  117 (549)
T 2z81_A           45 DLRACANLQVLILKSSRINTIEG-DAFYSLGSLEHLDLSDNHL--SSLSSSWFGPLSSLKYLNLMGNPYQTLGV----TS  117 (549)
T ss_dssp             TTSSCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECTTSCC--CSCCHHHHTTCTTCCEEECTTCCCSSSCS----SC
T ss_pred             hhhcCCcccEEECCCCCcCccCh-hhccccccCCEEECCCCcc--CccCHHHhccCCCCcEEECCCCcccccch----hh
Confidence            34555555555555555553333 4455555555555555555  333333455555555555555555432 2    2 


Q ss_pred             ccCCCCCCcEEEcCCCC
Q 040978           82 ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~   98 (104)
                      .+..+++|++|++++|.
T Consensus       118 ~~~~l~~L~~L~L~~n~  134 (549)
T 2z81_A          118 LFPNLTNLQTLRIGNVE  134 (549)
T ss_dssp             SCTTCTTCCEEEEEESS
T ss_pred             hhhccCCccEEECCCCc
Confidence            34444444444444443

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

Probab=99.40  E-value=4.8e-13  Score=93.01  Aligned_cols=97  Identities=11%  Similarity=0.145  Sum_probs=83.9

Q ss_pred             CccccC--CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCc-ccCCc-hhhhhcCCC------CCccEEeccCC
Q 040978            1 MFAEFN--SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVG-VRDGS-KLLQSMGSF------PSLNNLYLSSN   70 (104)
Q Consensus         1 ~~~~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~-~~~~~-~~~~~~~~l------~~L~~l~l~~n   70 (104)
                      +|+.++  ++++|++|++++|.+.+..| ..+..+++|+.|++++|+ +  ++ ..|..++.+      ++|+.|++++|
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p-~~l~~l~~L~~L~Ls~n~~l--~~~~lp~~~~~L~~~~~l~~L~~L~L~~n  315 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLP-TFLKALPEMQLINVACNRGI--SGEQLKDDWQALADAPVGEKIQIIYIGYN  315 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCC-TTTTTCSSCCEEECTTCTTS--CHHHHHHHHHHHHHSGGGGTCCEEECCSS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccCh-HHHhcCCCCCEEECcCCCCC--ccccchHHHHhhhccccCCCCCEEECCCC
Confidence            366777  89999999999999998888 899999999999999998 8  55 678777665      89999999999


Q ss_pred             cCCcccccccc--ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           71 NFTETVTITTQ--ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        71 ~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                      .+....    .  .+..+++|++|++++|.+.|.+|
T Consensus       316 ~l~~ip----~~~~l~~l~~L~~L~L~~N~l~g~ip  347 (636)
T 4eco_A          316 NLKTFP----VETSLQKMKKLGMLECLYNQLEGKLP  347 (636)
T ss_dssp             CCSSCC----CHHHHTTCTTCCEEECCSCCCEEECC
T ss_pred             cCCccC----chhhhccCCCCCEEeCcCCcCccchh
Confidence            999443    2  47899999999999999987775

>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=99.40  E-value=2e-12  Score=81.44  Aligned_cols=92  Identities=25%  Similarity=0.363  Sum_probs=74.4

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc-cccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET-VTITTQ   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~-~~~~~~   81 (104)
                      ..|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+. .    |
T Consensus        70 ~~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~l~~L~~L~l~~n~l~~~~l----~  142 (276)
T 2z62_A           70 GAYQSLSHLSTLILTGNPIQSLAL-GAFSGLSSLQKLVAVETNL--ASLENFPIGHLKTLKELNVAHNLIQSFKL----P  142 (276)
T ss_dssp             TTTTTCTTCCEEECTTCCCCEECT-TTTTTCTTCCEEECTTSCC--CCSTTCCCTTCTTCCEEECCSSCCCCCCC----C
T ss_pred             HHccCCcCCCEEECCCCccCccCh-hhhcCCccccEEECCCCCc--cccCchhcccCCCCCEEECcCCccceecC----c
Confidence            357888999999999999885544 7788899999999999988  444444678888999999999988752 4    6


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|++|++++|.+++
T Consensus       143 ~~~~~l~~L~~L~Ls~N~l~~  163 (276)
T 2z62_A          143 EYFSNLTNLEHLDLSSNKIQS  163 (276)
T ss_dssp             GGGGGCTTCCEEECCSSCCCE
T ss_pred             hhhccCCCCCEEECCCCCCCc
Confidence             78888999999999988765

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

Probab=99.40  E-value=1.5e-12  Score=75.35  Aligned_cols=86  Identities=19%  Similarity=0.198  Sum_probs=75.3

Q ss_pred             CCCCCCEEECCCCCCC-CccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccC
Q 040978            7 SFNNLELLDMSFNEIN-NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELH   84 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~-~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~   84 (104)
                      ..++++.|++++|.+. +..| ..+..+++|+.|++++|.+  ...  ..+..+++|+.|++++|.+.+..    | .+.
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~-~~~~~l~~L~~L~l~~n~l--~~~--~~~~~l~~L~~L~Ls~n~i~~~~----~~~~~   85 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLE-GLTDEFEELEFLSTINVGL--TSI--ANLPKLNKLKKLELSDNRVSGGL----EVLAE   85 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCC-SCCTTCTTCCEEECTTSCC--CCC--TTCCCCTTCCEEECCSSCCCSCT----HHHHH
T ss_pred             CCccCeEEEccCCcCChhHHH-HHHhhcCCCcEEECcCCCC--CCc--hhhhcCCCCCEEECCCCcccchH----HHHhh
Confidence            3578999999999998 5677 7788999999999999999  333  66888999999999999999767    7 777


Q ss_pred             CCCCCcEEEcCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|++|++++|.+++
T Consensus        86 ~l~~L~~L~ls~N~i~~  102 (149)
T 2je0_A           86 KCPNLTHLNLSGNKIKD  102 (149)
T ss_dssp             HCTTCCEEECTTSCCCS
T ss_pred             hCCCCCEEECCCCcCCC
Confidence            89999999999999876

>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=99.40  E-value=3.8e-12  Score=81.13  Aligned_cols=87  Identities=26%  Similarity=0.269  Sum_probs=52.4

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      .+++|++|++++|.+. .+| ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.+....    + .+..
T Consensus        75 ~l~~L~~L~Ls~N~l~-~l~-~~~~~l~~L~~L~l~~N~l--~~l~~~~~~~l~~L~~L~L~~N~l~~~~----~~~~~~  146 (290)
T 1p9a_G           75 TLPVLGTLDLSHNQLQ-SLP-LLGQTLPALTVLDVSFNRL--TSLPLGALRGLGELQELYLKGNELKTLP----PGLLTP  146 (290)
T ss_dssp             CCTTCCEEECCSSCCS-SCC-CCTTTCTTCCEEECCSSCC--CCCCSSTTTTCTTCCEEECTTSCCCCCC----TTTTTT
T ss_pred             CCCcCCEEECCCCcCC-cCc-hhhccCCCCCEEECCCCcC--cccCHHHHcCCCCCCEEECCCCCCCccC----hhhccc
Confidence            3445555555555555 444 4555666666666666666  3333345666666777777777666444    4 5666


Q ss_pred             CCCCcEEEcCCCCCCC
Q 040978           86 FTNLEYLKLNDSPLHI  101 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~~  101 (104)
                      +++|+.|++++|.+++
T Consensus       147 l~~L~~L~L~~N~l~~  162 (290)
T 1p9a_G          147 TPKLEKLSLANNNLTE  162 (290)
T ss_dssp             CTTCCEEECTTSCCSC
T ss_pred             ccCCCEEECCCCcCCc
Confidence            7777777777776653

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

Probab=99.40  E-value=1.9e-13  Score=95.06  Aligned_cols=96  Identities=9%  Similarity=0.191  Sum_probs=84.8

Q ss_pred             CccccCCCCCCCEEECCCCCCCCc-----------------cccCccC--CCCCCCEEeCCCCcccCCchhhhhcCCCCC
Q 040978            1 MFAEFNSFNNLELLDMSFNEINNL-----------------VVPQGYS--GLRKLKSLDLSRVGVRDGSKLLQSMGSFPS   61 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~n~~~~~-----------------~~~~~~~--~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~   61 (104)
                      +|+.++++++|++|++++|.+.+.                 +| ..+.  .+++|+.|++++|.+  .+..|..+..+++
T Consensus       198 ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip-~~l~~~~l~~L~~L~L~~n~l--~~~~p~~l~~l~~  274 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT-EDLKWDNLKDLTDVEVYNCPN--LTKLPTFLKALPE  274 (636)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTT-SCCCGGGCTTCCEEEEECCTT--CSSCCTTTTTCSS
T ss_pred             CCHHHhcccCCCEEECcCCccccccccccccccccchhcccCc-hhhhhcccCCCCEEEecCCcC--CccChHHHhcCCC
Confidence            467899999999999999999963                 78 8888  999999999999998  6788889999999


Q ss_pred             ccEEeccCCc-CCc-ccccccc-ccCCC------CCCcEEEcCCCCCCCCCC
Q 040978           62 LNNLYLSSNN-FTE-TVTITTQ-ELHNF------TNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        62 L~~l~l~~n~-~~~-~~~~~~~-~~~~~------~~L~~l~l~~n~~~~~~~  104 (104)
                      |+.|++++|. +++ ..    | .+..+      ++|++|++++|.++ .+|
T Consensus       275 L~~L~Ls~n~~l~~~~l----p~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip  321 (636)
T 4eco_A          275 MQLINVACNRGISGEQL----KDDWQALADAPVGEKIQIIYIGYNNLK-TFP  321 (636)
T ss_dssp             CCEEECTTCTTSCHHHH----HHHHHHHHHSGGGGTCCEEECCSSCCS-SCC
T ss_pred             CCEEECcCCCCCccccc----hHHHHhhhccccCCCCCEEECCCCcCC-ccC
Confidence            9999999998 887 66    7 66665      99999999999988 554

>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=99.40  E-value=1.4e-12  Score=89.96  Aligned_cols=92  Identities=18%  Similarity=0.267  Sum_probs=79.9

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      +..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..|+.+++|+.|++++|.+....    + .|
T Consensus        71 ~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~----~~~~  143 (597)
T 3oja_B           71 LDSFRQVELLNLNDLQIEEIDT-YAFAYAHTIQKLYMGFNAI--RYLPPHVFQNVPLLTVLVLERNDLSSLP----RGIF  143 (597)
T ss_dssp             HHHCCCCSEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTT
T ss_pred             HccCCCCcEEECCCCCCCCCCh-HHhcCCCCCCEEECCCCcC--CCCCHHHHcCCCCCCEEEeeCCCCCCCC----HHHh
Confidence            5678999999999999995545 7899999999999999999  5655667889999999999999999665    5 67


Q ss_pred             CCCCCCcEEEcCCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~~  103 (104)
                      ..+++|++|++++|.+.+..
T Consensus       144 ~~l~~L~~L~Ls~N~l~~~~  163 (597)
T 3oja_B          144 HNTPKLTTLSMSNNNLERIE  163 (597)
T ss_dssp             TTCTTCCEEECCSSCCCBCC
T ss_pred             ccCCCCCEEEeeCCcCCCCC
Confidence            89999999999999987754

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

Probab=99.39  E-value=1.9e-12  Score=85.00  Aligned_cols=91  Identities=19%  Similarity=0.280  Sum_probs=78.1

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      +..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    + .+
T Consensus        65 ~~~l~~L~~L~L~~n~i~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~----~~~~  137 (390)
T 3o6n_A           65 LDSFRQVELLNLNDLQIEEIDT-YAFAYAHTIQKLYMGFNAI--RYLPPHVFQNVPLLTVLVLERNDLSSLP----RGIF  137 (390)
T ss_dssp             HHHCCCCSEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTT
T ss_pred             hcccccCcEEECCCCcccccCh-hhccCCCCcCEEECCCCCC--CcCCHHHhcCCCCCCEEECCCCccCcCC----HHHh
Confidence            5678999999999999985444 6889999999999999999  5555677889999999999999998554    4 57


Q ss_pred             CCCCCCcEEEcCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~  102 (104)
                      ..+++|++|++++|.+.+.
T Consensus       138 ~~l~~L~~L~L~~n~l~~~  156 (390)
T 3o6n_A          138 HNTPKLTTLSMSNNNLERI  156 (390)
T ss_dssp             TTCTTCCEEECCSSCCCBC
T ss_pred             cCCCCCcEEECCCCccCcc
Confidence            8999999999999988764

>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=99.39  E-value=2.3e-12  Score=87.60  Aligned_cols=86  Identities=24%  Similarity=0.318  Sum_probs=77.3

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      +++++|++++|.+.+..+ ..+..+++|++|++++|++  ....+..|..+++|+.|++++|.+.+..    + .+..++
T Consensus        26 ~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~----~~~~~~l~   98 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGH-GDLRACANLQVLILKSSRI--NTIEGDAFYSLGSLEHLDLSDNHLSSLS----SSWFGPLS   98 (549)
T ss_dssp             TTCCEEECCSSCCCEECS-STTSSCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTSCCCSCC----HHHHTTCT
T ss_pred             CCccEEECcCCccCccCh-hhhhcCCcccEEECCCCCc--CccChhhccccccCCEEECCCCccCccC----HHHhccCC
Confidence            689999999999995556 7899999999999999999  5666678999999999999999999776    6 799999


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      +|++|++++|.+.+
T Consensus        99 ~L~~L~Ls~n~l~~  112 (549)
T 2z81_A           99 SLKYLNLMGNPYQT  112 (549)
T ss_dssp             TCCEEECTTCCCSS
T ss_pred             CCcEEECCCCcccc
Confidence            99999999999875

>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=99.39  E-value=2.5e-12  Score=86.05  Aligned_cols=68  Identities=24%  Similarity=0.386  Sum_probs=36.6

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      ..|..+++|++|++++|.+.+..+ ..+.++++|+.|++++|++  ....+..+..+++|+.|++++|.+.
T Consensus        93 ~~~~~l~~L~~L~Ls~n~i~~~~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~  160 (452)
T 3zyi_A           93 DTFRHLHHLEVLQLGRNSIRQIEV-GAFNGLASLNTLELFDNWL--TVIPSGAFEYLSKLRELWLRNNPIE  160 (452)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCC--SBCCTTTSSSCTTCCEEECCSCCCC
T ss_pred             HHcCCCCCCCEEECCCCccCCcCh-hhccCcccCCEEECCCCcC--CccChhhhcccCCCCEEECCCCCcc
Confidence            345555666666666665553333 4555555666666666655  3322334555555555555555555

>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=99.38  E-value=2.5e-12  Score=86.36  Aligned_cols=93  Identities=24%  Similarity=0.316  Sum_probs=73.3

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|.++++|++|++++|.+. ..+...+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    +
T Consensus        73 ~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~~l~~L~~L~Ls~n~i--~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~  145 (477)
T 2id5_A           73 PGAFNNLFNLRTLGLRSNRLK-LIPLGVFTGLSNLTKLDISENKI--VILLDYMFQDLYNLKSLEVGDNDLVYIS----H  145 (477)
T ss_dssp             TTTTTTCTTCCEEECCSSCCC-SCCTTSSTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEEECCTTCCEEC----T
T ss_pred             hhhhhCCccCCEEECCCCcCC-ccCcccccCCCCCCEEECCCCcc--ccCChhHccccccCCEEECCCCccceeC----h
Confidence            456788899999999999888 44425678888999999999988  5555667788888888888888887665    6


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|+.|++++|.+.+
T Consensus       146 ~~~~~l~~L~~L~l~~n~l~~  166 (477)
T 2id5_A          146 RAFSGLNSLEQLTLEKCNLTS  166 (477)
T ss_dssp             TSSTTCTTCCEEEEESCCCSS
T ss_pred             hhccCCCCCCEEECCCCcCcc
Confidence             77778888888888777654

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

Probab=99.38  E-value=1.7e-12  Score=92.59  Aligned_cols=92  Identities=22%  Similarity=0.382  Sum_probs=50.3

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhh--cCCCCCccEEeccCCcCCccccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQS--MGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~--~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      ..|.++++|++|++++|.+.+..| ..+.++++|+.|++++|.+  ....+..  +..+++|+.|++++|.+.+..    
T Consensus        67 ~~f~~L~~L~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~----  139 (844)
T 3j0a_A           67 EAFRNLPNLRILDLGSSKIYFLHP-DAFQGLFHLFELRLYFCGL--SDAVLKDGYFRNLKALTRLDLSKNQIRSLY----  139 (844)
T ss_dssp             TTTSSCTTCCEEECTTCCCCEECT-TSSCSCSSCCCEECTTCCC--SSCCSTTCCCSSCSSCCEEEEESCCCCCCC----
T ss_pred             HHhcCCCCCCEEECCCCcCcccCH-hHccCCcccCEeeCcCCCC--CcccccCccccccCCCCEEECCCCcccccc----
Confidence            345555556666666655553334 5555555666666666555  2322222  555556666666666555432    


Q ss_pred             c--ccCCCCCCcEEEcCCCCCCC
Q 040978           81 Q--ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        81 ~--~~~~~~~L~~l~l~~n~~~~  101 (104)
                      +  .+..+++|++|++++|.+.+
T Consensus       140 ~~~~~~~L~~L~~L~Ls~N~i~~  162 (844)
T 3j0a_A          140 LHPSFGKLNSLKSIDFSSNQIFL  162 (844)
T ss_dssp             CCGGGGTCSSCCEEEEESSCCCC
T ss_pred             cchhHhhCCCCCEEECCCCcCCe
Confidence            2  45566666666666666544

>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=99.38  E-value=2e-12  Score=89.97  Aligned_cols=90  Identities=19%  Similarity=0.227  Sum_probs=41.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |.++++|++|++++|.+. ..|...+..+++|++|++++|.+  ....+..+..+++|+.|++++|.+.+..    + .+
T Consensus        69 ~~~l~~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~----~~~~  141 (680)
T 1ziw_A           69 CQKLPMLKVLNLQHNELS-QLSDKTFAFCTNLTELHLMSNSI--QKIKNNPFVKQKNLITLDLSHNGLSSTK----LGTQ  141 (680)
T ss_dssp             HHHCTTCCEEECCSSCCC-CCCTTTTTTCTTCSEEECCSSCC--CCCCSCTTTTCTTCCEEECCSSCCSCCC----CCSS
T ss_pred             HhcccCcCEEECCCCccC-ccChhhhccCCCCCEEECCCCcc--CccChhHccccCCCCEEECCCCcccccC----chhh
Confidence            334444444444444444 22212344444555555555544  2222234444555555555555554443    4 44


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|++|++++|.+++
T Consensus       142 ~~l~~L~~L~L~~n~l~~  159 (680)
T 1ziw_A          142 VQLENLQELLLSNNKIQA  159 (680)
T ss_dssp             SCCTTCCEEECCSSCCCC
T ss_pred             cccccCCEEEccCCcccc
Confidence            555555555555555443

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

Probab=99.37  E-value=3.3e-12  Score=85.22  Aligned_cols=67  Identities=24%  Similarity=0.421  Sum_probs=34.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      .|..+++|++|++++|.+.+..+ ..|.++++|+.|++++|++  ....+..|..+++|+.|++++|.+.
T Consensus        83 ~~~~l~~L~~L~Ls~n~i~~i~~-~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~L~~N~i~  149 (440)
T 3zyj_A           83 SFKHLRHLEILQLSRNHIRTIEI-GAFNGLANLNTLELFDNRL--TTIPNGAFVYLSKLKELWLRNNPIE  149 (440)
T ss_dssp             TTSSCSSCCEEECCSSCCCEECG-GGGTTCSSCCEEECCSSCC--SSCCTTTSCSCSSCCEEECCSCCCC
T ss_pred             HhhCCCCCCEEECCCCcCCccCh-hhccCCccCCEEECCCCcC--CeeCHhHhhccccCceeeCCCCccc
Confidence            44555555555555555553223 4455555555555555555  2222234455555555555555554

>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=99.36  E-value=4.1e-12  Score=87.35  Aligned_cols=93  Identities=23%  Similarity=0.303  Sum_probs=75.1

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..|.++++|++|++++|.+.+..| ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+.+..    .
T Consensus        74 ~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~n~i--~~l~~~~~~~l~~L~~L~L~~n~l~~~~----~  146 (606)
T 3t6q_A           74 EDTFQSQHRLDTLVLTANPLIFMAE-TALSGPKALKHLFFIQTGI--SSIDFIPLHNQKTLESLYLGSNHISSIK----L  146 (606)
T ss_dssp             TTTTTTCTTCCEEECTTCCCSEECT-TTTSSCTTCCEEECTTSCC--SCGGGSCCTTCTTCCEEECCSSCCCCCC----C
T ss_pred             hhhccCccccCeeeCCCCcccccCh-hhhcccccccEeeccccCc--ccCCcchhccCCcccEEECCCCcccccC----c
Confidence            5678889999999999999985556 7888999999999999998  4544667888889999999999888643    3


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|++|++++|.+.+
T Consensus       147 ~~~~~l~~L~~L~L~~n~l~~  167 (606)
T 3t6q_A          147 PKGFPTEKLKVLDFQNNAIHY  167 (606)
T ss_dssp             CTTCCCTTCCEEECCSSCCCE
T ss_pred             ccccCCcccCEEEcccCcccc
Confidence             55558888888888887765

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

Probab=99.36  E-value=3.4e-12  Score=85.16  Aligned_cols=89  Identities=20%  Similarity=0.329  Sum_probs=53.8

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|.++++|++|++++|.+. .+|  .+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .
T Consensus       180 ~~~~l~~L~~L~L~~n~l~-~~~--~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~----~~~  250 (440)
T 3zyj_A          180 AFEGLSNLRYLNLAMCNLR-EIP--NLTPLIKLDELDLSGNHL--SAIRPGSFQGLMHLQKLWMIQSQIQVIE----RNA  250 (440)
T ss_dssp             TTTTCSSCCEEECTTSCCS-SCC--CCTTCSSCCEEECTTSCC--CEECTTTTTTCTTCCEEECTTCCCCEEC----TTS
T ss_pred             hhhcccccCeecCCCCcCc-ccc--ccCCCcccCEEECCCCcc--CccChhhhccCccCCEEECCCCceeEEC----hhh
Confidence            4556667777777777666 343  355666666666666666  3444555666666666666666666544    4 5


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.+++
T Consensus       251 ~~~l~~L~~L~L~~N~l~~  269 (440)
T 3zyj_A          251 FDNLQSLVEINLAHNNLTL  269 (440)
T ss_dssp             STTCTTCCEEECTTSCCCC
T ss_pred             hcCCCCCCEEECCCCCCCc
Confidence            5566666666666665543

>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=99.36  E-value=2.9e-12  Score=89.13  Aligned_cols=92  Identities=25%  Similarity=0.304  Sum_probs=64.3

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|.++++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .
T Consensus        44 ~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~n~l--~~l~~~~~~~l~~L~~L~L~~n~l~~~~----~~~  116 (680)
T 1ziw_A           44 NFTRYSQLTSLDVGFNTISKLEP-ELCQKLPMLKVLNLQHNEL--SQLSDKTFAFCTNLTELHLMSNSIQKIK----NNP  116 (680)
T ss_dssp             GGGGGTTCSEEECCSSCCCCCCT-THHHHCTTCCEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCC----SCT
T ss_pred             HHhCCCcCcEEECCCCccCccCH-HHHhcccCcCEEECCCCcc--CccChhhhccCCCCCEEECCCCccCccC----hhH
Confidence            46677777777777777775545 6667777777777777777  3332335777777777777777777555    5 6


Q ss_pred             cCCCCCCcEEEcCCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~~  102 (104)
                      +..+++|++|++++|.+.+.
T Consensus       117 ~~~l~~L~~L~Ls~n~l~~~  136 (680)
T 1ziw_A          117 FVKQKNLITLDLSHNGLSST  136 (680)
T ss_dssp             TTTCTTCCEEECCSSCCSCC
T ss_pred             ccccCCCCEEECCCCccccc
Confidence            77777777777777776654

>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=99.36  E-value=9.2e-12  Score=83.33  Aligned_cols=88  Identities=19%  Similarity=0.267  Sum_probs=56.9

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+++|++|++++|.+. ..|  .+..+++|+.|++++|.+  ....+..|..+++|+.|++++|.+.+..    + .+
T Consensus       192 ~~~l~~L~~L~L~~n~l~-~~~--~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~n~l~~~~----~~~~  262 (452)
T 3zyi_A          192 FEGLFNLKYLNLGMCNIK-DMP--NLTPLVGLEELEMSGNHF--PEIRPGSFHGLSSLKKLWVMNSQVSLIE----RNAF  262 (452)
T ss_dssp             TTTCTTCCEEECTTSCCS-SCC--CCTTCTTCCEEECTTSCC--SEECGGGGTTCTTCCEEECTTSCCCEEC----TTTT
T ss_pred             ccCCCCCCEEECCCCccc-ccc--cccccccccEEECcCCcC--cccCcccccCccCCCEEEeCCCcCceEC----HHHh
Confidence            555666666666666666 333  355666677777777766  4444566666777777777777766555    5 66


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|+.|++++|.+++
T Consensus       263 ~~l~~L~~L~L~~N~l~~  280 (452)
T 3zyi_A          263 DGLASLVELNLAHNNLSS  280 (452)
T ss_dssp             TTCTTCCEEECCSSCCSC
T ss_pred             cCCCCCCEEECCCCcCCc
Confidence            666777777777776654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.35  E-value=1.9e-12  Score=91.41  Aligned_cols=92  Identities=22%  Similarity=0.173  Sum_probs=78.2

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      ++.+..+..|+.|++++|.+. .++ ..+..+++|+.|++++|.+  . .+|..+..+++|+.|++++|.++ .+    |
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~-~l~-~~~~~l~~L~~L~Ls~N~l--~-~lp~~~~~l~~L~~L~Ls~N~l~-~l----p  286 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIF-NIS-ANIFKYDFLTRLYLNGNSL--T-ELPAEIKNLSNLRVLDLSHNRLT-SL----P  286 (727)
T ss_dssp             -----CCCCCCEEECTTSCCS-CCC-GGGGGCCSCSCCBCTTSCC--S-CCCGGGGGGTTCCEEECTTSCCS-SC----C
T ss_pred             hhhhccCCCCcEEECCCCCCC-CCC-hhhcCCCCCCEEEeeCCcC--c-ccChhhhCCCCCCEEeCcCCcCC-cc----C
Confidence            456788999999999999998 677 6777899999999999999  4 67888999999999999999999 66    8


Q ss_pred             -ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                       .+..+++|++|++++|.++ .+|
T Consensus       287 ~~~~~l~~L~~L~L~~N~l~-~lp  309 (727)
T 4b8c_D          287 AELGSCFQLKYFYFFDNMVT-TLP  309 (727)
T ss_dssp             SSGGGGTTCSEEECCSSCCC-CCC
T ss_pred             hhhcCCCCCCEEECCCCCCC-ccC
Confidence             8999999999999999886 443

>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=99.35  E-value=1.1e-11  Score=83.94  Aligned_cols=91  Identities=20%  Similarity=0.218  Sum_probs=77.1

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCc--hhhhhcCCCCCccEEeccCCcCCcccccccc--
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGS--KLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--   81 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~--~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--   81 (104)
                      ..+++|++|++++|.+.+..| ..+..+++|+.|++++|++  ..  ..|..+..+++|+.|++++|.+.+..    |  
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~N~l--~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l----~~~  393 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVF-ENCGHLTELETLILQMNQL--KELSKIAEMTTQMKSLQQLDISQNSVSYDE----KKG  393 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTT-TTCCCCSSCCEEECCSSCC--CBHHHHHHHHTTCTTCCEEECCSSCCBCCG----GGC
T ss_pred             hhCCcccEEEeECCccChhhh-hhhccCCCCCEEEccCCcc--CccccchHHHhhCCCCCEEECCCCcCCccc----ccc
Confidence            678999999999999997677 8889999999999999999  44  55677889999999999999998745    5  


Q ss_pred             ccCCCCCCcEEEcCCCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      .+..+++|+.|++++|.+++.+
T Consensus       394 ~~~~l~~L~~L~Ls~N~l~~~~  415 (520)
T 2z7x_B          394 DCSWTKSLLSLNMSSNILTDTI  415 (520)
T ss_dssp             SCCCCTTCCEEECCSSCCCGGG
T ss_pred             hhccCccCCEEECcCCCCCcch
Confidence            5778888888888888886543

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

Probab=99.35  E-value=4.5e-12  Score=90.47  Aligned_cols=95  Identities=18%  Similarity=0.234  Sum_probs=70.6

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      +..|..+++|++|++++|.....++...+..+++|+.|++++|.+  ....|..|..+++|+.|++++|.+.+..    +
T Consensus        41 ~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l--~~~~p~~~~~l~~L~~L~Ls~n~l~~~~----~  114 (844)
T 3j0a_A           41 ASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKI--YFLHPDAFQGLFHLFELRLYFCGLSDAV----L  114 (844)
T ss_dssp             SSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCC--CEECTTSSCSCSSCCCEECTTCCCSSCC----S
T ss_pred             hhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcC--cccCHhHccCCcccCEeeCcCCCCCccc----c
Confidence            456777888888888888554455326778888888888888888  5556777888888888888888887644    4


Q ss_pred             -c--cCCCCCCcEEEcCCCCCCCC
Q 040978           82 -E--LHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        82 -~--~~~~~~L~~l~l~~n~~~~~  102 (104)
                       .  +..+++|++|++++|.+.+.
T Consensus       115 ~~~~~~~L~~L~~L~Ls~N~l~~~  138 (844)
T 3j0a_A          115 KDGYFRNLKALTRLDLSKNQIRSL  138 (844)
T ss_dssp             TTCCCSSCSSCCEEEEESCCCCCC
T ss_pred             cCccccccCCCCEEECCCCccccc
Confidence             3  77888888888888887654

>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=99.33  E-value=8.8e-12  Score=80.99  Aligned_cols=84  Identities=25%  Similarity=0.337  Sum_probs=39.9

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTN   88 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~   88 (104)
                      ++++|++++|.+. ..+...+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    + .+..+++
T Consensus        53 ~L~~L~l~~n~i~-~~~~~~~~~l~~L~~L~L~~n~l--~~~~~~~~~~l~~L~~L~Ls~n~l~~~~----~~~~~~l~~  125 (353)
T 2z80_A           53 AVKSLDLSNNRIT-YISNSDLQRCVNLQALVLTSNGI--NTIEEDSFSSLGSLEHLDLSYNYLSNLS----SSWFKPLSS  125 (353)
T ss_dssp             TCCEEECTTSCCC-EECTTTTTTCTTCCEEECTTSCC--CEECTTTTTTCTTCCEEECCSSCCSSCC----HHHHTTCTT
T ss_pred             cCcEEECCCCcCc-ccCHHHhccCCCCCEEECCCCcc--CccCHhhcCCCCCCCEEECCCCcCCcCC----HhHhCCCcc
Confidence            4555555555554 22213445555555555555555  2333334445555555555555554332    2 3445555


Q ss_pred             CcEEEcCCCCCC
Q 040978           89 LEYLKLNDSPLH  100 (104)
Q Consensus        89 L~~l~l~~n~~~  100 (104)
                      |++|++++|.+.
T Consensus       126 L~~L~L~~n~l~  137 (353)
T 2z80_A          126 LTFLNLLGNPYK  137 (353)
T ss_dssp             CSEEECTTCCCS
T ss_pred             CCEEECCCCCCc
Confidence            555555555443

>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=99.33  E-value=2.6e-12  Score=75.62  Aligned_cols=86  Identities=22%  Similarity=0.213  Sum_probs=74.9

Q ss_pred             CCCCCCEEECCCCCCC-CccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccC
Q 040978            7 SFNNLELLDMSFNEIN-NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELH   84 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~-~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~   84 (104)
                      ..+++++|++++|.+. +.+| ..+..+++|+.|++++|.+  ...  ..+..+++|+.|++++|.+.+..    | .+.
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~-~~~~~l~~L~~L~l~~n~l--~~~--~~~~~l~~L~~L~Ls~N~l~~~~----~~~~~   92 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIE-GLTAEFVNLEFLSLINVGL--ISV--SNLPKLPKLKKLELSENRIFGGL----DMLAE   92 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCS-SCCGGGGGCCEEEEESSCC--CCC--SSCCCCSSCCEEEEESCCCCSCC----CHHHH
T ss_pred             CcccCCEEECCCCCCChhhHH-HHHHhCCCCCEEeCcCCCC--CCh--hhhccCCCCCEEECcCCcCchHH----HHHHh
Confidence            4578999999999997 5667 6778899999999999999  333  66888999999999999999766    7 777


Q ss_pred             CCCCCcEEEcCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|++|++++|.+++
T Consensus        93 ~l~~L~~L~Ls~N~l~~  109 (168)
T 2ell_A           93 KLPNLTHLNLSGNKLKD  109 (168)
T ss_dssp             HCTTCCEEECBSSSCCS
T ss_pred             hCCCCCEEeccCCccCc
Confidence            89999999999999876

>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=99.33  E-value=8.5e-12  Score=84.48  Aligned_cols=87  Identities=29%  Similarity=0.369  Sum_probs=42.4

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCc-ccccccc-
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTE-TVTITTQ-   81 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~-~~~~~~~-   81 (104)
                      .|..+++|++|++++|.+.+..| ..+..+++|++|++++|++  . ..|..  .+++|++|++++|.+.+ ..    | 
T Consensus        40 ~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~-~lp~~--~l~~L~~L~L~~N~l~~~~~----p~  109 (520)
T 2z7x_B           40 DILSLSKLRILIISHNRIQYLDI-SVFKFNQELEYLDLSHNKL--V-KISCH--PTVNLKHLDLSFNAFDALPI----CK  109 (520)
T ss_dssp             HHTTCTTCCEEECCSSCCCEEEG-GGGTTCTTCCEEECCSSCC--C-EEECC--CCCCCSEEECCSSCCSSCCC----CG
T ss_pred             hccccccccEEecCCCccCCcCh-HHhhcccCCCEEecCCCce--e-ecCcc--ccCCccEEeccCCccccccc----hh
Confidence            34445555555555555543333 4455555555555555555  2 23322  44555555555555543 23    4 


Q ss_pred             ccCCCCCCcEEEcCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~  100 (104)
                      .++.+++|++|++++|.+.
T Consensus       110 ~~~~l~~L~~L~L~~n~l~  128 (520)
T 2z7x_B          110 EFGNMSQLKFLGLSTTHLE  128 (520)
T ss_dssp             GGGGCTTCCEEEEEESSCC
T ss_pred             hhccCCcceEEEecCcccc
Confidence            4555555555555555544

>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=99.33  E-value=2.1e-11  Score=72.26  Aligned_cols=83  Identities=22%  Similarity=0.171  Sum_probs=71.3

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTN   88 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~   88 (104)
                      +.+.+++++|.+. .+| ..+  ..+++.|++++|++  ....+..|..+++|+.|++++|.+.+..    + .|..+++
T Consensus        10 ~~~~l~~s~n~l~-~ip-~~~--~~~l~~L~L~~N~i--~~~~~~~~~~l~~L~~L~Ls~N~l~~l~----~~~f~~l~~   79 (170)
T 3g39_A           10 SGTTVDCSGKSLA-SVP-TGI--PTTTQVLYLYDNQI--TKLEPGVFDRLTQLTRLDLDNNQLTVLP----AGVFDKLTQ   79 (170)
T ss_dssp             ETTEEECTTSCCS-SCC-SCC--CTTCSEEECCSSCC--CCCCTTTTTTCTTCSEEECCSSCCCCCC----TTTTTTCTT
T ss_pred             CCCEEEeCCCCcC-ccC-ccC--CCCCcEEEcCCCcC--CccChhhhcCcccCCEEECCCCCcCccC----hhhccCCCC
Confidence            4678999999998 677 554  37899999999999  5555778999999999999999999766    6 7899999


Q ss_pred             CcEEEcCCCCCCCC
Q 040978           89 LEYLKLNDSPLHIS  102 (104)
Q Consensus        89 L~~l~l~~n~~~~~  102 (104)
                      |++|++++|.+++.
T Consensus        80 L~~L~L~~N~l~~~   93 (170)
T 3g39_A           80 LTQLSLNDNQLKSI   93 (170)
T ss_dssp             CCEEECCSSCCCCC
T ss_pred             CCEEECCCCccCEe
Confidence            99999999998764

>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=99.32  E-value=6.6e-12  Score=85.95  Aligned_cols=89  Identities=27%  Similarity=0.365  Sum_probs=54.0

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc-cccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET-VTITTQ   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~-~~~~~~   81 (104)
                      ..|..+++|++|++++|.+.+..| ..+..+++|++|++++|.+   ...|..  .+++|+.|++++|.+.+. .    |
T Consensus        70 ~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l---~~lp~~--~l~~L~~L~Ls~N~l~~l~~----p  139 (562)
T 3a79_B           70 PDISFLSELRVLRLSHNRIRSLDF-HVFLFNQDLEYLDVSHNRL---QNISCC--PMASLRHLDLSFNDFDVLPV----C  139 (562)
T ss_dssp             GGTTTCTTCCEEECCSCCCCEECT-TTTTTCTTCCEEECTTSCC---CEECSC--CCTTCSEEECCSSCCSBCCC----C
T ss_pred             hhhccCCCccEEECCCCCCCcCCH-HHhCCCCCCCEEECCCCcC---CccCcc--ccccCCEEECCCCCccccCc----h
Confidence            355666666666666666664334 5566666666666666666   233333  566666666666666542 2    3


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|++|++++|.+.+
T Consensus       140 ~~~~~l~~L~~L~L~~n~l~~  160 (562)
T 3a79_B          140 KEFGNLTKLTFLGLSAAKFRQ  160 (562)
T ss_dssp             GGGGGCTTCCEEEEECSBCCT
T ss_pred             HhhcccCcccEEecCCCcccc
Confidence             56666777777777666543

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

Probab=99.32  E-value=7.8e-13  Score=94.95  Aligned_cols=70  Identities=14%  Similarity=0.248  Sum_probs=38.2

Q ss_pred             ccccCCCCCCCEEECCCCCCCC-----------------ccccCccC--CCCCCCEEeCCCCcccCCchhhhhcCCCCCc
Q 040978            2 FAEFNSFNNLELLDMSFNEINN-----------------LVVPQGYS--GLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL   62 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~-----------------~~~~~~~~--~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L   62 (104)
                      |+.++++++|++|++++|.+.+                 .+| ..+.  .+++|+.|++++|.+  ....|..+..+++|
T Consensus       441 P~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP-~~l~f~~L~~L~~L~Ls~N~l--~~~iP~~l~~L~~L  517 (876)
T 4ecn_A          441 SKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYEN-EELSWSNLKDLTDVELYNCPN--MTQLPDFLYDLPEL  517 (876)
T ss_dssp             CGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTT-SCCCGGGCTTCCEEEEESCTT--CCSCCGGGGGCSSC
T ss_pred             hHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCC-hhhhhccCCCCCEEECcCCCC--CccChHHHhCCCCC
Confidence            4455555666666666665553                 144 4444  555566666655555  34455555555555


Q ss_pred             cEEeccCCc-CCc
Q 040978           63 NNLYLSSNN-FTE   74 (104)
Q Consensus        63 ~~l~l~~n~-~~~   74 (104)
                      +.|++++|. +++
T Consensus       518 ~~L~Ls~N~~lsg  530 (876)
T 4ecn_A          518 QSLNIACNRGISA  530 (876)
T ss_dssp             CEEECTTCTTSCH
T ss_pred             CEEECcCCCCccc
Confidence            555555555 444

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

Probab=99.30  E-value=5.7e-12  Score=80.82  Aligned_cols=62  Identities=23%  Similarity=0.291  Sum_probs=27.0

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCch--hhhhc--CCCCCccEEeccCCcCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSK--LLQSM--GSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~--~~~~~--~~l~~L~~l~l~~n~~~   73 (104)
                      ++|++|++++|.+.+..+ ..+..+++|+.|++++|++  .+.  .+..+  ..+++|+.|++++|.+.
T Consensus       149 ~~L~~L~L~~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~~~~~~~~l~~L~~L~L~~N~l~  214 (312)
T 1wwl_A          149 PGLKVLSIAQAHSLNFSC-EQVRVFPALSTLDLSDNPE--LGERGLISALCPLKFPTLQVLALRNAGME  214 (312)
T ss_dssp             TTCCEEEEESCSCCCCCT-TTCCCCSSCCEEECCSCTT--CHHHHHHHHSCTTSCTTCCEEECTTSCCC
T ss_pred             CCCcEEEeeCCCCccchH-HHhccCCCCCEEECCCCCc--CcchHHHHHHHhccCCCCCEEECCCCcCc
Confidence            444444444444443222 3444455555555555544  221  12222  34444555555555444

>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=99.30  E-value=2.5e-11  Score=78.13  Aligned_cols=84  Identities=23%  Similarity=0.317  Sum_probs=44.5

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTN   88 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~   88 (104)
                      +|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+. ..    | .+..+++
T Consensus       193 ~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~N~l~-~l----p~~l~~l~~  264 (330)
T 1xku_A          193 SLTELHLDGNKITKVDA-ASLKGLNNLAKLGLSFNSI--SAVDNGSLANTPHLRELHLNNNKLV-KV----PGGLADHKY  264 (330)
T ss_dssp             TCSEEECTTSCCCEECT-GGGTTCTTCCEEECCSSCC--CEECTTTGGGSTTCCEEECCSSCCS-SC----CTTTTTCSS
T ss_pred             cCCEEECCCCcCCccCH-HHhcCCCCCCEEECCCCcC--ceeChhhccCCCCCCEEECCCCcCc-cC----ChhhccCCC
Confidence            34444444444442223 4455555555555555555  3333334555555666666666555 33    4 5566666


Q ss_pred             CcEEEcCCCCCCC
Q 040978           89 LEYLKLNDSPLHI  101 (104)
Q Consensus        89 L~~l~l~~n~~~~  101 (104)
                      |+++++++|.+++
T Consensus       265 L~~L~l~~N~i~~  277 (330)
T 1xku_A          265 IQVVYLHNNNISA  277 (330)
T ss_dssp             CCEEECCSSCCCC
T ss_pred             cCEEECCCCcCCc
Confidence            6666666666654

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

Probab=99.30  E-value=1.3e-11  Score=80.23  Aligned_cols=87  Identities=24%  Similarity=0.301  Sum_probs=64.5

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--   81 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--   81 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    .  
T Consensus        71 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~Ls~n~l--~~~~~~~~~~l~~L~~L~L~~n~l~~l~----~~~  143 (353)
T 2z80_A           71 DLQRCVNLQALVLTSNGINTIEE-DSFSSLGSLEHLDLSYNYL--SNLSSSWFKPLSSLTFLNLLGNPYKTLG----ETS  143 (353)
T ss_dssp             TTTTCTTCCEEECTTSCCCEECT-TTTTTCTTCCEEECCSSCC--SSCCHHHHTTCTTCSEEECTTCCCSSSC----SSC
T ss_pred             HhccCCCCCEEECCCCccCccCH-hhcCCCCCCCEEECCCCcC--CcCCHhHhCCCccCCEEECCCCCCcccC----chh
Confidence            57788888888888888885444 6688888888888888888  4433445778888888888888877543    2  


Q ss_pred             ccCCCCCCcEEEcCCC
Q 040978           82 ELHNFTNLEYLKLNDS   97 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n   97 (104)
                      .+..+++|++|++++|
T Consensus       144 ~~~~l~~L~~L~l~~n  159 (353)
T 2z80_A          144 LFSHLTKLQILRVGNM  159 (353)
T ss_dssp             SCTTCTTCCEEEEEES
T ss_pred             hhccCCCCcEEECCCC
Confidence            3566777777777766

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

Probab=99.30  E-value=1.5e-12  Score=83.50  Aligned_cols=85  Identities=19%  Similarity=0.242  Sum_probs=39.6

Q ss_pred             CCCCCCEEECCCCCCCCccccCcc--CCCCCCCEEeCCCCcccCCchhhhhcCCC-----CCccEEeccCCcCCcccccc
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGY--SGLRKLKSLDLSRVGVRDGSKLLQSMGSF-----PSLNNLYLSSNNFTETVTIT   79 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~--~~~~~L~~l~l~~~~~~~~~~~~~~~~~l-----~~L~~l~l~~n~~~~~~~~~   79 (104)
                      .+++|++|++++|.+.+..| ..+  ..+++|+.|++++|.+  ... |..+..+     ++|+.|++++|.+.+..   
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~-~~~~~~~l~~L~~L~Ls~N~l--~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~---  165 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAP-PPLLEATGPDLNILNLRNVSW--ATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFS---  165 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCC-CCSSSCCSCCCSEEEEESCBC--SSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCC---
T ss_pred             CcCCccEEEccCCcccchhH-HHHHHhcCCCccEEEccCCCC--cch-hHHHHHHHHhhcCCCcEEEeeCCCCccch---
Confidence            35555555555555554444 332  4455555555555555  222 2222222     44455555555444333   


Q ss_pred             cc-ccCCCCCCcEEEcCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~   99 (104)
                       + .+..+++|++|++++|.+
T Consensus       166 -~~~~~~l~~L~~L~Ls~N~l  185 (312)
T 1wwl_A          166 -CEQVRVFPALSTLDLSDNPE  185 (312)
T ss_dssp             -TTTCCCCSSCCEEECCSCTT
T ss_pred             -HHHhccCCCCCEEECCCCCc
Confidence             3 444444444444444443

>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=99.29  E-value=3.3e-11  Score=82.53  Aligned_cols=90  Identities=26%  Similarity=0.290  Sum_probs=75.3

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCc--hhhhhcCCCCCccEEeccCCcCCcccccccc--
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGS--KLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--   81 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~--~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--   81 (104)
                      ..+++|++|++++|.+.+..+ ..+..+++|+.|++++|++  ..  ..+..+..+++|+.|++++|.+.+..    |  
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~L~~N~l--~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~----~~~  422 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVF-QGCSTLKRLQTLILQRNGL--KNFFKVALMTKNMSSLETLDVSLNSLNSHA----YDR  422 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTT-TTCCSCSSCCEEECCSSCC--CBTTHHHHTTTTCTTCCEEECTTSCCBSCC----SSC
T ss_pred             cCCCCceEEECCCCccccchh-hhhcccCCCCEEECCCCCc--CCcccchhhhcCCCCCCEEECCCCcCCCcc----Chh
Confidence            678999999999999997677 8889999999999999999  43  45567888999999999999998744    4  


Q ss_pred             ccCCCCCCcEEEcCCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      .+..+++|+.+++++|.+++.
T Consensus       423 ~~~~l~~L~~L~l~~n~l~~~  443 (562)
T 3a79_B          423 TCAWAESILVLNLSSNMLTGS  443 (562)
T ss_dssp             CCCCCTTCCEEECCSSCCCGG
T ss_pred             hhcCcccCCEEECCCCCCCcc
Confidence            577788888888888887654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.29  E-value=4e-11  Score=71.32  Aligned_cols=82  Identities=22%  Similarity=0.244  Sum_probs=70.2

Q ss_pred             CCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCC
Q 040978           11 LELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNL   89 (104)
Q Consensus        11 L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L   89 (104)
                      -+.+++++|.+. .+| ..+.  ++++.|++++|++  ....+..|..+++|+.|++++|.+++..    + .|..+++|
T Consensus        14 ~~~l~~~~n~l~-~iP-~~~~--~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~Ls~N~l~~i~----~~~~~~l~~L   83 (174)
T 2r9u_A           14 QTLVNCQNIRLA-SVP-AGIP--TDKQRLWLNNNQI--TKLEPGVFDHLVNLQQLYFNSNKLTAIP----TGVFDKLTQL   83 (174)
T ss_dssp             SSEEECCSSCCS-SCC-SCCC--TTCSEEECCSSCC--CCCCTTTTTTCTTCCEEECCSSCCCCCC----TTTTTTCTTC
T ss_pred             CcEEEeCCCCCC-ccC-CCcC--CCCcEEEeCCCCc--cccCHHHhcCCcCCCEEECCCCCCCccC----hhHhCCcchh
Confidence            468999999998 677 5553  7899999999999  5555778999999999999999999765    5 67899999


Q ss_pred             cEEEcCCCCCCCC
Q 040978           90 EYLKLNDSPLHIS  102 (104)
Q Consensus        90 ~~l~l~~n~~~~~  102 (104)
                      ++|++++|.+.+-
T Consensus        84 ~~L~L~~N~l~~l   96 (174)
T 2r9u_A           84 TQLDLNDNHLKSI   96 (174)
T ss_dssp             CEEECCSSCCCCC
T ss_pred             hEEECCCCcccee
Confidence            9999999998763

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

Probab=99.29  E-value=1.7e-11  Score=79.04  Aligned_cols=87  Identities=22%  Similarity=0.403  Sum_probs=49.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+.+..+ ..+..+++|+.|++++|.+   ...|..+.  ++|+.|++++|.+....    + .
T Consensus        73 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l---~~l~~~~~--~~L~~L~l~~n~i~~~~----~~~  142 (332)
T 2ft3_A           73 DFKGLQHLYALVLVNNKISKIHE-KAFSPLRKLQKLYISKNHL---VEIPPNLP--SSLVELRIHDNRIRKVP----KGV  142 (332)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECG-GGSTTCTTCCEEECCSSCC---CSCCSSCC--TTCCEEECCSSCCCCCC----SGG
T ss_pred             HhhCCCCCcEEECCCCccCccCH-hHhhCcCCCCEEECCCCcC---CccCcccc--ccCCEEECCCCccCccC----HhH
Confidence            45555666666666666553334 5555566666666666655   22333222  45556666666555443    3 5


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|+.|++++|.+.
T Consensus       143 ~~~l~~L~~L~l~~n~l~  160 (332)
T 2ft3_A          143 FSGLRNMNCIEMGGNPLE  160 (332)
T ss_dssp             GSSCSSCCEEECCSCCCB
T ss_pred             hCCCccCCEEECCCCccc
Confidence            677777777777777764

>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=99.29  E-value=2.4e-11  Score=78.20  Aligned_cols=89  Identities=21%  Similarity=0.330  Sum_probs=48.2

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      ..+..+++|+.|++++|.+.+..+ ..+..+++|+.|++++|.+   ...|..+..+++|+.+++++|.++...    + 
T Consensus       210 ~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l~~L~~L~L~~N~l---~~lp~~l~~l~~L~~L~l~~N~i~~~~----~~  281 (330)
T 1xku_A          210 ASLKGLNNLAKLGLSFNSISAVDN-GSLANTPHLRELHLNNNKL---VKVPGGLADHKYIQVVYLHNNNISAIG----SN  281 (330)
T ss_dssp             GGGTTCTTCCEEECCSSCCCEECT-TTGGGSTTCCEEECCSSCC---SSCCTTTTTCSSCCEEECCSSCCCCCC----TT
T ss_pred             HHhcCCCCCCEEECCCCcCceeCh-hhccCCCCCCEEECCCCcC---ccCChhhccCCCcCEEECCCCcCCccC----hh
Confidence            345555666666666666653323 4455556666666666665   244455555566666666666665433    2 


Q ss_pred             ccCC------CCCCcEEEcCCCCC
Q 040978           82 ELHN------FTNLEYLKLNDSPL   99 (104)
Q Consensus        82 ~~~~------~~~L~~l~l~~n~~   99 (104)
                      .|..      ...++.+++.+|++
T Consensus       282 ~f~~~~~~~~~~~l~~l~l~~N~~  305 (330)
T 1xku_A          282 DFCPPGYNTKKASYSGVSLFSNPV  305 (330)
T ss_dssp             SSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             hcCCcccccccccccceEeecCcc
Confidence            3321      24555666666654

>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=99.28  E-value=1.3e-11  Score=73.29  Aligned_cols=82  Identities=27%  Similarity=0.408  Sum_probs=48.2

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--ccCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--ELHNFT   87 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~~~~~   87 (104)
                      +|++|++++|.+.+ .  ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++|.+....    +  .+..++
T Consensus        43 ~L~~L~Ls~N~l~~-~--~~l~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~L~L~~N~i~~~~----~~~~l~~l~  113 (176)
T 1a9n_A           43 QFDAIDFSDNEIRK-L--DGFPLLRRLKTLLVNNNRI--CRIGEGLDQALPDLTELILTNNSLVELG----DLDPLASLK  113 (176)
T ss_dssp             CCSEEECCSSCCCE-E--CCCCCCSSCCEEECCSSCC--CEECSCHHHHCTTCCEEECCSCCCCCGG----GGGGGGGCT
T ss_pred             CCCEEECCCCCCCc-c--cccccCCCCCEEECCCCcc--cccCcchhhcCCCCCEEECCCCcCCcch----hhHhhhcCC
Confidence            66666666666663 2  3455666666666666666  3222233355666666666666665332    2  455666


Q ss_pred             CCcEEEcCCCCCC
Q 040978           88 NLEYLKLNDSPLH  100 (104)
Q Consensus        88 ~L~~l~l~~n~~~  100 (104)
                      +|+.+++++|.+.
T Consensus       114 ~L~~L~l~~N~i~  126 (176)
T 1a9n_A          114 SLTYLCILRNPVT  126 (176)
T ss_dssp             TCCEEECCSSGGG
T ss_pred             CCCEEEecCCCCC
Confidence            6777777776654

>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=99.27  E-value=4.3e-12  Score=78.52  Aligned_cols=85  Identities=13%  Similarity=0.205  Sum_probs=44.8

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCc-ccCCchhhhhcCCCCCccEEeccC-CcCCcccccccc-ccCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVG-VRDGSKLLQSMGSFPSLNNLYLSS-NNFTETVTITTQ-ELHNF   86 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~-~~~~~~~~~~~~~l~~L~~l~l~~-n~~~~~~~~~~~-~~~~~   86 (104)
                      ++++|++++|.+. .++...+..+++|+.|++++|. +  ....+..|..+++|+.|++++ |.+....    + .|..+
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  104 (239)
T 2xwt_C           32 STQTLKLIETHLR-TIPSHAFSNLPNISRIYVSIDVTL--QQLESHSFYNLSKVTHIEIRNTRNLTYID----PDALKEL  104 (239)
T ss_dssp             TCCEEEEESCCCS-EECTTTTTTCTTCCEEEEECCSSC--CEECTTTEESCTTCCEEEEEEETTCCEEC----TTSEECC
T ss_pred             cccEEEEeCCcce-EECHHHccCCCCCcEEeCCCCCCc--ceeCHhHcCCCcCCcEEECCCCCCeeEcC----HHHhCCC
Confidence            4556666666655 3331345555666666666654 5  222233455555666666655 5555443    3 45555


Q ss_pred             CCCcEEEcCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~  101 (104)
                      ++|+.|++++|.+++
T Consensus       105 ~~L~~L~l~~n~l~~  119 (239)
T 2xwt_C          105 PLLKFLGIFNTGLKM  119 (239)
T ss_dssp             TTCCEEEEEEECCCS
T ss_pred             CCCCEEeCCCCCCcc
Confidence            555555555555443

>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=99.27  E-value=1.5e-11  Score=72.99  Aligned_cols=86  Identities=15%  Similarity=0.221  Sum_probs=58.8

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCC-CCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGL-RKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~-~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      .+..+.+|++|++++|.+. .++ . +..+ ++|+.|++++|.+  .. . ..+..+++|+.|++++|.+.+..    + 
T Consensus        14 ~~~~~~~L~~L~l~~n~l~-~i~-~-~~~~~~~L~~L~Ls~N~l--~~-~-~~l~~l~~L~~L~Ls~N~l~~~~----~~   82 (176)
T 1a9n_A           14 QYTNAVRDRELDLRGYKIP-VIE-N-LGATLDQFDAIDFSDNEI--RK-L-DGFPLLRRLKTLLVNNNRICRIG----EG   82 (176)
T ss_dssp             EEECTTSCEEEECTTSCCC-SCC-C-GGGGTTCCSEEECCSSCC--CE-E-CCCCCCSSCCEEECCSSCCCEEC----SC
T ss_pred             hcCCcCCceEEEeeCCCCc-hhH-H-hhhcCCCCCEEECCCCCC--Cc-c-cccccCCCCCEEECCCCcccccC----cc
Confidence            3456777788888888777 344 3 3333 3788888888877  33 2 45667777888888888777544    3 


Q ss_pred             ccCCCCCCcEEEcCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~  100 (104)
                      .+..+++|++|++++|.+.
T Consensus        83 ~~~~l~~L~~L~L~~N~i~  101 (176)
T 1a9n_A           83 LDQALPDLTELILTNNSLV  101 (176)
T ss_dssp             HHHHCTTCCEEECCSCCCC
T ss_pred             hhhcCCCCCEEECCCCcCC
Confidence            4477778888888887764

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

Probab=99.27  E-value=8.6e-12  Score=89.63  Aligned_cols=95  Identities=17%  Similarity=0.211  Sum_probs=73.0

Q ss_pred             ccccC--CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCc-ccCCc-hhhhhcCC-------CCCccEEeccCC
Q 040978            2 FAEFN--SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVG-VRDGS-KLLQSMGS-------FPSLNNLYLSSN   70 (104)
Q Consensus         2 ~~~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~-~~~~~-~~~~~~~~-------l~~L~~l~l~~n   70 (104)
                      |+.++  .+++|++|++++|.+.+..| ..+..+++|+.|++++|+ +  +. ..|..+..       +++|+.|++++|
T Consensus       482 P~~l~f~~L~~L~~L~Ls~N~l~~~iP-~~l~~L~~L~~L~Ls~N~~l--sg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N  558 (876)
T 4ecn_A          482 NEELSWSNLKDLTDVELYNCPNMTQLP-DFLYDLPELQSLNIACNRGI--SAAQLKADWTRLADDEDTGPKIQIFYMGYN  558 (876)
T ss_dssp             TSCCCGGGCTTCCEEEEESCTTCCSCC-GGGGGCSSCCEEECTTCTTS--CHHHHHHHHHHHHHCTTTTTTCCEEECCSS
T ss_pred             ChhhhhccCCCCCEEECcCCCCCccCh-HHHhCCCCCCEEECcCCCCc--ccccchHHHHhhhhcccccCCccEEEeeCC
Confidence            55655  89999999999998887888 888899999999999997 7  45 56664443       448888888888


Q ss_pred             cCCcccccccc--ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           71 NFTETVTITTQ--ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        71 ~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                      .+....    .  .+..+++|+.|++++|.+. .+|
T Consensus       559 ~L~~ip----~~~~l~~L~~L~~L~Ls~N~l~-~lp  589 (876)
T 4ecn_A          559 NLEEFP----ASASLQKMVKLGLLDCVHNKVR-HLE  589 (876)
T ss_dssp             CCCBCC----CHHHHTTCTTCCEEECTTSCCC-BCC
T ss_pred             cCCccC----ChhhhhcCCCCCEEECCCCCcc-cch
Confidence            888333    2  3678888888888888776 443

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

Probab=99.25  E-value=2.3e-11  Score=78.41  Aligned_cols=65  Identities=25%  Similarity=0.342  Sum_probs=29.6

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      +..+++|+.|++++|.+.+..+ ..+..+++|+.|++++|.+   ..+|..+..+++|+.+++++|.++
T Consensus       213 l~~l~~L~~L~L~~N~l~~~~~-~~~~~l~~L~~L~L~~N~l---~~lp~~l~~l~~L~~L~l~~N~l~  277 (332)
T 2ft3_A          213 LLRYSKLYRLGLGHNQIRMIEN-GSLSFLPTLRELHLDNNKL---SRVPAGLPDLKLLQVVYLHTNNIT  277 (332)
T ss_dssp             STTCTTCSCCBCCSSCCCCCCT-TGGGGCTTCCEEECCSSCC---CBCCTTGGGCTTCCEEECCSSCCC
T ss_pred             hcCCCCCCEEECCCCcCCcCCh-hHhhCCCCCCEEECCCCcC---eecChhhhcCccCCEEECCCCCCC
Confidence            3444444444444444443222 3344444455555555444   233334444444555555555444

>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=99.25  E-value=4.6e-12  Score=78.36  Aligned_cols=66  Identities=12%  Similarity=0.253  Sum_probs=29.7

Q ss_pred             ccCCCCCCCEEECCCCC-CCCccccCccCCCCCCCEEeCCC-CcccCCchhhhhcCCCCCccEEeccCCcC
Q 040978            4 EFNSFNNLELLDMSFNE-INNLVVPQGYSGLRKLKSLDLSR-VGVRDGSKLLQSMGSFPSLNNLYLSSNNF   72 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~L~~l~l~~-~~~~~~~~~~~~~~~l~~L~~l~l~~n~~   72 (104)
                      .|..+++|++|++++|. +. .++...+..+++|+.|++++ |.+  ....+..|..+++|+.|++++|.+
T Consensus        50 ~~~~l~~L~~L~l~~n~~l~-~i~~~~f~~l~~L~~L~l~~~n~l--~~i~~~~f~~l~~L~~L~l~~n~l  117 (239)
T 2xwt_C           50 AFSNLPNISRIYVSIDVTLQ-QLESHSFYNLSKVTHIEIRNTRNL--TYIDPDALKELPLLKFLGIFNTGL  117 (239)
T ss_dssp             TTTTCTTCCEEEEECCSSCC-EECTTTEESCTTCCEEEEEEETTC--CEECTTSEECCTTCCEEEEEEECC
T ss_pred             HccCCCCCcEEeCCCCCCcc-eeCHhHcCCCcCCcEEECCCCCCe--eEcCHHHhCCCCCCCEEeCCCCCC
Confidence            34445555555555554 44 22213444555555555554 444  222223344444444444444433

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.24  E-value=1.9e-11  Score=78.24  Aligned_cols=40  Identities=25%  Similarity=0.215  Sum_probs=21.5

Q ss_pred             CCCCCccEEeccCCcCCcccccccc-ccCCC---CCCcEEEcCCCCCC
Q 040978           57 GSFPSLNNLYLSSNNFTETVTITTQ-ELHNF---TNLEYLKLNDSPLH  100 (104)
Q Consensus        57 ~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~---~~L~~l~l~~n~~~  100 (104)
                      ..+++|+.|++++|.+.+..    | .+..+   ++|++|++++|.++
T Consensus       221 ~~l~~L~~L~Ls~N~l~~~~----p~~~~~~~~~~~L~~L~Ls~N~l~  264 (310)
T 4glp_A          221 AAGVQPHSLDLSHNSLRATV----NPSAPRCMWSSALNSLNLSFAGLE  264 (310)
T ss_dssp             HHTCCCSSEECTTSCCCCCC----CSCCSSCCCCTTCCCEECCSSCCC
T ss_pred             hcCCCCCEEECCCCCCCccc----hhhHHhccCcCcCCEEECCCCCCC
Confidence            34455556666666555543    4 34333   46666666666555

>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=99.24  E-value=5e-11  Score=77.02  Aligned_cols=87  Identities=22%  Similarity=0.394  Sum_probs=56.0

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      +..+++|++|++++|.+.+ .  ..+..+++|+.|++++|.+  .. . ..+..+++|+.|++++|.+.+..    + .+
T Consensus       239 ~~~l~~L~~L~l~~n~l~~-~--~~~~~l~~L~~L~l~~n~l--~~-~-~~~~~l~~L~~L~L~~n~l~~~~----~~~l  307 (347)
T 4fmz_A          239 LANLSQLTWLEIGTNQISD-I--NAVKDLTKLKMLNVGSNQI--SD-I-SVLNNLSQLNSLFLNNNQLGNED----MEVI  307 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCC-C--GGGTTCTTCCEEECCSSCC--CC-C-GGGGGCTTCSEEECCSSCCCGGG----HHHH
T ss_pred             hhcCCCCCEEECCCCccCC-C--hhHhcCCCcCEEEccCCcc--CC-C-hhhcCCCCCCEEECcCCcCCCcC----hhHh
Confidence            5666777777777777663 2  3456667777777777776  22 2 33556667777777777766555    5 56


Q ss_pred             CCCCCCcEEEcCCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~~  102 (104)
                      ..+++|+.+++++|.+++.
T Consensus       308 ~~l~~L~~L~L~~n~l~~~  326 (347)
T 4fmz_A          308 GGLTNLTTLFLSQNHITDI  326 (347)
T ss_dssp             HTCTTCSEEECCSSSCCCC
T ss_pred             hccccCCEEEccCCccccc
Confidence            6677777777777766553

>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=99.23  E-value=7.4e-11  Score=76.23  Aligned_cols=87  Identities=21%  Similarity=0.434  Sum_probs=52.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL   83 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~   83 (104)
                      .+..+++|++|++++|.+.+ .+  .+..+++|+.|++++|.+  ....+..+..+++|+.+++++|.+++..    | +
T Consensus       260 ~~~~l~~L~~L~l~~n~l~~-~~--~~~~l~~L~~L~L~~n~l--~~~~~~~l~~l~~L~~L~L~~n~l~~~~----~-~  329 (347)
T 4fmz_A          260 AVKDLTKLKMLNVGSNQISD-IS--VLNNLSQLNSLFLNNNQL--GNEDMEVIGGLTNLTTLFLSQNHITDIR----P-L  329 (347)
T ss_dssp             GGTTCTTCCEEECCSSCCCC-CG--GGGGCTTCSEEECCSSCC--CGGGHHHHHTCTTCSEEECCSSSCCCCG----G-G
T ss_pred             hHhcCCCcCEEEccCCccCC-Ch--hhcCCCCCCEEECcCCcC--CCcChhHhhccccCCEEEccCCcccccc----C-h
Confidence            35566667777777766663 22  355666677777777666  4455555666666777777777666554    3 5


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|+.+++++|.++
T Consensus       330 ~~l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          330 ASLSKMDSADFANQVIK  346 (347)
T ss_dssp             GGCTTCSEESSSCC---
T ss_pred             hhhhccceeehhhhccc
Confidence            56666677777666654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.23  E-value=1.4e-10  Score=72.91  Aligned_cols=41  Identities=22%  Similarity=0.294  Sum_probs=23.9

Q ss_pred             cCCCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCCC
Q 040978           56 MGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        56 ~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.+++..     .+..+++|+.|++++|.+++
T Consensus       124 l~~l~~L~~L~Ls~N~i~~~~-----~l~~l~~L~~L~L~~N~i~~  164 (263)
T 1xeu_A          124 LIHLKNLEILSIRNNKLKSIV-----MLGFLSKLEVLDLHGNEITN  164 (263)
T ss_dssp             GTTCTTCCEEECTTSCCCBCG-----GGGGCTTCCEEECTTSCCCB
T ss_pred             hcCcccccEEECCCCcCCCCh-----HHccCCCCCEEECCCCcCcc
Confidence            555566666666666665332     45556666666666666544

>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=99.23  E-value=1.1e-10  Score=74.31  Aligned_cols=62  Identities=23%  Similarity=0.264  Sum_probs=29.3

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      +..+++|++|++++|.+. ..+ . +..+++|+.|++++|.+  .. . ..+..+++|+.|++++|.+.
T Consensus        64 ~~~l~~L~~L~L~~n~l~-~~~-~-l~~l~~L~~L~l~~n~l--~~-~-~~l~~l~~L~~L~L~~n~i~  125 (291)
T 1h6t_A           64 IQYLPNVTKLFLNGNKLT-DIK-P-LANLKNLGWLFLDENKV--KD-L-SSLKDLKKLKSLSLEHNGIS  125 (291)
T ss_dssp             GGGCTTCCEEECCSSCCC-CCG-G-GTTCTTCCEEECCSSCC--CC-G-GGGTTCTTCCEEECTTSCCC
T ss_pred             HhcCCCCCEEEccCCccC-CCc-c-cccCCCCCEEECCCCcC--CC-C-hhhccCCCCCEEECCCCcCC
Confidence            344555555555555555 222 2 44555555555555554  11 1 12444444555555544444

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.23  E-value=9.2e-11  Score=73.80  Aligned_cols=85  Identities=29%  Similarity=0.440  Sum_probs=55.8

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL   83 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~   83 (104)
                      .+..+++|++|++++|.+. ..+ . +..+++|+.|++++|++  . ..+. +.. ++|+.|++++|.+.+..     .+
T Consensus        58 ~l~~l~~L~~L~L~~N~i~-~~~-~-l~~l~~L~~L~L~~N~l--~-~l~~-~~~-~~L~~L~L~~N~l~~~~-----~l  124 (263)
T 1xeu_A           58 GMQFFTNLKELHLSHNQIS-DLS-P-LKDLTKLEELSVNRNRL--K-NLNG-IPS-ACLSRLFLDNNELRDTD-----SL  124 (263)
T ss_dssp             TGGGCTTCCEEECCSSCCC-CCG-G-GTTCSSCCEEECCSSCC--S-CCTT-CCC-SSCCEEECCSSCCSBSG-----GG
T ss_pred             HHhhCCCCCEEECCCCccC-CCh-h-hccCCCCCEEECCCCcc--C-CcCc-ccc-CcccEEEccCCccCCCh-----hh
Confidence            3556667777777777766 344 3 66667777777777776  2 2222 222 66777777777776432     57


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|+.|++++|.+++
T Consensus       125 ~~l~~L~~L~Ls~N~i~~  142 (263)
T 1xeu_A          125 IHLKNLEILSIRNNKLKS  142 (263)
T ss_dssp             TTCTTCCEEECTTSCCCB
T ss_pred             cCcccccEEECCCCcCCC
Confidence            788888888888888765

>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=99.23  E-value=1.3e-10  Score=74.59  Aligned_cols=84  Identities=25%  Similarity=0.365  Sum_probs=43.0

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      +..+++|++|++++|.+. ..+ . +..+++|+.|++++|.+  .. . ..+..+++|+.|++++|.+.+..     .+.
T Consensus        59 ~~~l~~L~~L~L~~n~i~-~~~-~-~~~l~~L~~L~L~~n~l--~~-~-~~~~~l~~L~~L~l~~n~l~~~~-----~l~  126 (308)
T 1h6u_A           59 VQYLNNLIGLELKDNQIT-DLA-P-LKNLTKITELELSGNPL--KN-V-SAIAGLQSIKTLDLTSTQITDVT-----PLA  126 (308)
T ss_dssp             GGGCTTCCEEECCSSCCC-CCG-G-GTTCCSCCEEECCSCCC--SC-C-GGGTTCTTCCEEECTTSCCCCCG-----GGT
T ss_pred             hhccCCCCEEEccCCcCC-CCh-h-HccCCCCCEEEccCCcC--CC-c-hhhcCCCCCCEEECCCCCCCCch-----hhc
Confidence            445566666666666655 333 2 55555666666666655  22 2 23445555555555555554332     344


Q ss_pred             CCCCCcEEEcCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLH  100 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~  100 (104)
                      .+++|+.|++++|.++
T Consensus       127 ~l~~L~~L~l~~n~l~  142 (308)
T 1h6u_A          127 GLSNLQVLYLDLNQIT  142 (308)
T ss_dssp             TCTTCCEEECCSSCCC
T ss_pred             CCCCCCEEECCCCccC
Confidence            4444444444444443

>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=99.22  E-value=9e-11  Score=76.02  Aligned_cols=82  Identities=16%  Similarity=0.181  Sum_probs=71.5

Q ss_pred             CEEECCCC-CCCCccccCccCCCCCCCEEeCCC-CcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCC
Q 040978           12 ELLDMSFN-EINNLVVPQGYSGLRKLKSLDLSR-VGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTN   88 (104)
Q Consensus        12 ~~L~l~~n-~~~~~~~~~~~~~~~~L~~l~l~~-~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~   88 (104)
                      ..++.+++ .+. .+| . +..+.+|+.|++++ |.+  ....+..|..+++|+.|++++|.+.+..    + .|..+++
T Consensus        11 ~~v~~~~~n~l~-~ip-~-l~~~~~L~~L~l~~~n~l--~~~~~~~~~~l~~L~~L~l~~N~l~~~~----~~~~~~l~~   81 (347)
T 2ifg_A           11 SGLRCTRDGALD-SLH-H-LPGAENLTELYIENQQHL--QHLELRDLRGLGELRNLTIVKSGLRFVA----PDAFHFTPR   81 (347)
T ss_dssp             SCEECCSSCCCT-TTT-T-SCSCSCCSEEECCSCSSC--CEECGGGSCSCCCCSEEECCSSCCCEEC----TTGGGSCSC
T ss_pred             CEEEcCCCCCCC-ccC-C-CCCCCCeeEEEccCCCCC--CCcChhHhccccCCCEEECCCCccceeC----HHHhcCCcC
Confidence            35688887 788 688 6 89999999999996 999  5555578999999999999999999887    7 8999999


Q ss_pred             CcEEEcCCCCCCCC
Q 040978           89 LEYLKLNDSPLHIS  102 (104)
Q Consensus        89 L~~l~l~~n~~~~~  102 (104)
                      |+.|++++|.+++.
T Consensus        82 L~~L~l~~N~l~~~   95 (347)
T 2ifg_A           82 LSRLNLSFNALESL   95 (347)
T ss_dssp             CCEEECCSSCCSCC
T ss_pred             CCEEeCCCCcccee
Confidence            99999999999863

>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=99.22  E-value=1.3e-10  Score=74.01  Aligned_cols=62  Identities=31%  Similarity=0.527  Sum_probs=30.2

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      +..+++|++|++++|.+. ..+  .+..+++|+.|++++|++  .. . ..+..+++|+.|++++|.+.
T Consensus        86 l~~l~~L~~L~l~~n~l~-~~~--~l~~l~~L~~L~L~~n~i--~~-~-~~l~~l~~L~~L~l~~n~l~  147 (291)
T 1h6t_A           86 LANLKNLGWLFLDENKVK-DLS--SLKDLKKLKSLSLEHNGI--SD-I-NGLVHLPQLESLYLGNNKIT  147 (291)
T ss_dssp             GTTCTTCCEEECCSSCCC-CGG--GGTTCTTCCEEECTTSCC--CC-C-GGGGGCTTCCEEECCSSCCC
T ss_pred             cccCCCCCEEECCCCcCC-CCh--hhccCCCCCEEECCCCcC--CC-C-hhhcCCCCCCEEEccCCcCC
Confidence            445555555555555555 222  245555555555555555  11 1 22334444455555444444

>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=99.21  E-value=7e-11  Score=81.52  Aligned_cols=83  Identities=22%  Similarity=0.344  Sum_probs=74.4

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCCC
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNL   89 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L   89 (104)
                      .|+.|++++|.+. .+| . +..+++|+.|++++|.+   ..+|..++.+++|+.|++++|.+++ +    |.+..+++|
T Consensus       442 ~L~~L~Ls~n~l~-~lp-~-~~~l~~L~~L~Ls~N~l---~~lp~~~~~l~~L~~L~Ls~N~l~~-l----p~l~~l~~L  510 (567)
T 1dce_A          442 DVRVLHLAHKDLT-VLC-H-LEQLLLVTHLDLSHNRL---RALPPALAALRCLEVLQASDNALEN-V----DGVANLPRL  510 (567)
T ss_dssp             TCSEEECTTSCCS-SCC-C-GGGGTTCCEEECCSSCC---CCCCGGGGGCTTCCEEECCSSCCCC-C----GGGTTCSSC
T ss_pred             CceEEEecCCCCC-CCc-C-ccccccCcEeecCcccc---cccchhhhcCCCCCEEECCCCCCCC-C----cccCCCCCC
Confidence            5899999999999 567 5 89999999999999999   4678889999999999999999996 4    578899999


Q ss_pred             cEEEcCCCCCCCCC
Q 040978           90 EYLKLNDSPLHISL  103 (104)
Q Consensus        90 ~~l~l~~n~~~~~~  103 (104)
                      +.|++++|.+++..
T Consensus       511 ~~L~Ls~N~l~~~~  524 (567)
T 1dce_A          511 QELLLCNNRLQQSA  524 (567)
T ss_dssp             CEEECCSSCCCSSS
T ss_pred             cEEECCCCCCCCCC
Confidence            99999999998763

>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=99.20  E-value=1.7e-10  Score=74.03  Aligned_cols=17  Identities=18%  Similarity=0.360  Sum_probs=7.2

Q ss_pred             CCCCCCCEEECCCCCCC
Q 040978            6 NSFNNLELLDMSFNEIN   22 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~   22 (104)
                      ..+++|++|++++|.+.
T Consensus        82 ~~l~~L~~L~L~~n~l~   98 (308)
T 1h6u_A           82 KNLTKITELELSGNPLK   98 (308)
T ss_dssp             TTCCSCCEEECCSCCCS
T ss_pred             ccCCCCCEEEccCCcCC
Confidence            33444444444444443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.19  E-value=4.2e-11  Score=76.66  Aligned_cols=85  Identities=24%  Similarity=0.317  Sum_probs=50.0

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCC---CCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGL---RKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQE   82 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~---~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~   82 (104)
                      ..+++|++|++++|.+.+..| ..+..+   ++|+.|++++|++  . .+|..+.  ++|+.|++++|.+++..     .
T Consensus       221 ~~l~~L~~L~Ls~N~l~~~~p-~~~~~~~~~~~L~~L~Ls~N~l--~-~lp~~~~--~~L~~L~Ls~N~l~~~~-----~  289 (310)
T 4glp_A          221 AAGVQPHSLDLSHNSLRATVN-PSAPRCMWSSALNSLNLSFAGL--E-QVPKGLP--AKLRVLDLSSNRLNRAP-----Q  289 (310)
T ss_dssp             HHTCCCSSEECTTSCCCCCCC-SCCSSCCCCTTCCCEECCSSCC--C-SCCSCCC--SCCSCEECCSCCCCSCC-----C
T ss_pred             hcCCCCCEEECCCCCCCccch-hhHHhccCcCcCCEEECCCCCC--C-chhhhhc--CCCCEEECCCCcCCCCc-----h
Confidence            445666666666666664444 444444   4666666666666  2 3444332  56666677666666432     3


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.|++++|.++.
T Consensus       290 ~~~l~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          290 PDELPEVDNLTLDGNPFLV  308 (310)
T ss_dssp             TTSCCCCSCEECSSTTTSC
T ss_pred             hhhCCCccEEECcCCCCCC
Confidence            4556667777777776654

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

Probab=99.17  E-value=4.5e-11  Score=81.02  Aligned_cols=17  Identities=29%  Similarity=0.573  Sum_probs=7.4

Q ss_pred             CCCCCCCEEECCCCCCC
Q 040978            6 NSFNNLELLDMSFNEIN   22 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~   22 (104)
                      ..+++|++|++++|.+.
T Consensus       141 ~~l~~L~~L~Ls~N~l~  157 (487)
T 3oja_A          141 GCRSRVQYLDLKLNEID  157 (487)
T ss_dssp             GGGSSEEEEECTTSCCC
T ss_pred             cCCCCCCEEECCCCCCC
Confidence            33444444444444444

>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=99.17  E-value=2.4e-10  Score=79.43  Aligned_cols=40  Identities=25%  Similarity=0.450  Sum_probs=17.4

Q ss_pred             cCCCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCC
Q 040978           56 MGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        56 ~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|+.|++++|.+.+..    + +..+++|+.|++++|.++
T Consensus       149 l~~l~~L~~L~Ls~N~l~~~~----~-l~~l~~L~~L~Ls~N~i~  188 (605)
T 1m9s_A          149 LSRLTKLDTLSLEDNQISDIV----P-LAGLTKLQNLYLSKNHIS  188 (605)
T ss_dssp             GGSCTTCSEEECCSSCCCCCG----G-GTTCTTCCEEECCSSCCC
T ss_pred             hcccCCCCEEECcCCcCCCch----h-hccCCCCCEEECcCCCCC
Confidence            334444444444444444333    2 344444444444444443

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

Probab=99.15  E-value=2.2e-10  Score=73.61  Aligned_cols=83  Identities=28%  Similarity=0.305  Sum_probs=51.6

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      .+++|++|++++|.+. ..+ . ...+++|+.|++++|++   ...+..+..+++|+.|++++|.+. ..    | .+..
T Consensus       167 ~l~~L~~L~L~~N~l~-~~~-~-~~~l~~L~~L~Ls~N~l---~~l~~~~~~l~~L~~L~L~~N~l~-~l----~~~~~~  235 (317)
T 3o53_A          167 SSDTLEHLNLQYNFIY-DVK-G-QVVFAKLKTLDLSSNKL---AFMGPEFQSAAGVTWISLRNNKLV-LI----EKALRF  235 (317)
T ss_dssp             GTTTCCEEECTTSCCC-EEE-C-CCCCTTCCEEECCSSCC---CEECGGGGGGTTCSEEECTTSCCC-EE----CTTCCC
T ss_pred             ccCcCCEEECCCCcCc-ccc-c-ccccccCCEEECCCCcC---CcchhhhcccCcccEEECcCCccc-ch----hhHhhc
Confidence            4556666666666665 222 1 22356666777777666   233444666677777777777776 34    5 6667


Q ss_pred             CCCCcEEEcCCCCCC
Q 040978           86 FTNLEYLKLNDSPLH  100 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~  100 (104)
                      +++|+.+++++|.+.
T Consensus       236 l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          236 SQNLEHFDLRGNGFH  250 (317)
T ss_dssp             CTTCCEEECTTCCCB
T ss_pred             CCCCCEEEccCCCcc
Confidence            777777777777765

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

Probab=99.14  E-value=1.1e-10  Score=79.20  Aligned_cols=86  Identities=19%  Similarity=0.155  Sum_probs=50.9

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcC-CCCCccEEeccCCcCCccccccccccCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMG-SFPSLNNLYLSSNNFTETVTITTQELHNF   86 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~-~l~~L~~l~l~~n~~~~~~~~~~~~~~~~   86 (104)
                      +++|+.|++++|.+.+..+ ..+..+++|+.|++++|.+  ....+..+. .+++|+.|++++|.+.+..     ....+
T Consensus       119 l~~L~~L~L~~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l--~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~-----~~~~l  190 (487)
T 3oja_A          119 GQGKKNIYLANNKITMLRD-LDEGCRSRVQYLDLKLNEI--DTVNFAELAASSDTLEHLNLQYNFIYDVK-----GQVVF  190 (487)
T ss_dssp             CSSCEEEECCSSCCCSGGG-BCGGGGSSEEEEECTTSCC--CEEEGGGGGGGTTTCCEEECTTSCCCEEE-----CCCCC
T ss_pred             cCCCCEEECCCCCCCCCCc-hhhcCCCCCCEEECCCCCC--CCcChHHHhhhCCcccEEecCCCcccccc-----ccccC
Confidence            4566677777777765444 5666677777777777777  444444443 4566666666666665332     22235


Q ss_pred             CCCcEEEcCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~  101 (104)
                      ++|+.|++++|.+++
T Consensus       191 ~~L~~L~Ls~N~l~~  205 (487)
T 3oja_A          191 AKLKTLDLSSNKLAF  205 (487)
T ss_dssp             TTCCEEECCSSCCCE
T ss_pred             CCCCEEECCCCCCCC
Confidence            555555555555543

>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=99.13  E-value=4.7e-10  Score=75.35  Aligned_cols=39  Identities=23%  Similarity=0.462  Sum_probs=18.4

Q ss_pred             CCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCCC
Q 040978           58 SFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        58 ~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|+.|++++|.+.+..     .+..+++|+.|++++|.+++
T Consensus       329 ~l~~L~~L~l~~n~l~~~~-----~l~~l~~L~~L~l~~n~l~~  367 (466)
T 1o6v_A          329 SLTKLQRLFFYNNKVSDVS-----SLANLTNINWLSAGHNQISD  367 (466)
T ss_dssp             GCTTCCEEECCSSCCCCCG-----GGTTCTTCCEEECCSSCCCB
T ss_pred             cCccCCEeECCCCccCCch-----hhccCCCCCEEeCCCCccCc
Confidence            3444444444444444221     34455555555555555544

>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=99.12  E-value=3.2e-10  Score=78.78  Aligned_cols=86  Identities=30%  Similarity=0.492  Sum_probs=46.5

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      +..+++|+.|++++|.+. ..  ..+..+++|+.|++++|.+  .. . ..+..+++|+.|++++|.+.+..     .+.
T Consensus        83 l~~l~~L~~L~Ls~N~l~-~l--~~l~~l~~L~~L~Ls~N~l--~~-l-~~l~~l~~L~~L~Ls~N~l~~l~-----~l~  150 (605)
T 1m9s_A           83 LTNLKNLGWLFLDENKIK-DL--SSLKDLKKLKSLSLEHNGI--SD-I-NGLVHLPQLESLYLGNNKITDIT-----VLS  150 (605)
T ss_dssp             GGGCTTCCEEECCSSCCC-CC--TTSTTCTTCCEEECTTSCC--CC-C-GGGGGCTTCSEEECCSSCCCCCG-----GGG
T ss_pred             hccCCCCCEEECcCCCCC-CC--hhhccCCCCCEEEecCCCC--CC-C-ccccCCCccCEEECCCCccCCch-----hhc
Confidence            344444555555555444 22  2345555555555555555  22 1 23445566666666666655332     456


Q ss_pred             CCCCCcEEEcCCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~~  102 (104)
                      .+++|+.|++++|.+.+.
T Consensus       151 ~l~~L~~L~Ls~N~l~~~  168 (605)
T 1m9s_A          151 RLTKLDTLSLEDNQISDI  168 (605)
T ss_dssp             SCTTCSEEECCSSCCCCC
T ss_pred             ccCCCCEEECcCCcCCCc
Confidence            677777777777776653

>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=99.11  E-value=5.2e-11  Score=76.57  Aligned_cols=87  Identities=23%  Similarity=0.252  Sum_probs=45.0

Q ss_pred             CCCCCCEEECCCCCCCCc-cccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCC-cCCcc-cccccc-c
Q 040978            7 SFNNLELLDMSFNEINNL-VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSN-NFTET-VTITTQ-E   82 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~-~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n-~~~~~-~~~~~~-~   82 (104)
                      .+++|++|++++|.+.+. .+ ..+..+++|+.|++++|.+  ....+..+..+++|+.|++++| .+++. .    + .
T Consensus        91 ~~~~L~~L~L~~~~l~~~~~~-~~~~~~~~L~~L~L~~~~l--~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l----~~~  163 (336)
T 2ast_B           91 SPFRVQHMDLSNSVIEVSTLH-GILSQCSKLQNLSLEGLRL--SDPIVNTLAKNSNLVRLNLSGCSGFSEFAL----QTL  163 (336)
T ss_dssp             CCBCCCEEECTTCEECHHHHH-HHHTTBCCCSEEECTTCBC--CHHHHHHHTTCTTCSEEECTTCBSCCHHHH----HHH
T ss_pred             cCCCCCEEEccCCCcCHHHHH-HHHhhCCCCCEEeCcCccc--CHHHHHHHhcCCCCCEEECCCCCCCCHHHH----HHH
Confidence            445555666655555432 33 3445555566666655555  3444455555555566666555 34431 2    3 3


Q ss_pred             cCCCCCCcEEEcCCC-CCC
Q 040978           83 LHNFTNLEYLKLNDS-PLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n-~~~  100 (104)
                      +..+++|++|++++| .++
T Consensus       164 ~~~~~~L~~L~l~~~~~l~  182 (336)
T 2ast_B          164 LSSCSRLDELNLSWCFDFT  182 (336)
T ss_dssp             HHHCTTCCEEECCCCTTCC
T ss_pred             HhcCCCCCEEcCCCCCCcC
Confidence            445555555555555 443

>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=99.09  E-value=6.1e-11  Score=77.85  Aligned_cols=92  Identities=17%  Similarity=0.281  Sum_probs=61.1

Q ss_pred             ccCCCCCCCEEECCCCCCC----CccccCccCCCCCCCEEeCCCCcccCCch----hhhhc--CCCCCccEEeccCCcCC
Q 040978            4 EFNSFNNLELLDMSFNEIN----NLVVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSM--GSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~----~~~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~--~~l~~L~~l~l~~n~~~   73 (104)
                      .+..+++|++|++++|.+.    ..++ ..+..+++|+.|++++|.+  ...    ++..+  ..+++|+.|++++|.+.
T Consensus       211 ~l~~~~~L~~L~Ls~n~l~~~g~~~l~-~~l~~~~~L~~L~L~~n~i--~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~  287 (386)
T 2ca6_A          211 GLAYCQELKVLDLQDNTFTHLGSSALA-IALKSWPNLRELGLNDCLL--SARGAAAVVDAFSKLENIGLQTLRLQYNEIE  287 (386)
T ss_dssp             TGGGCTTCCEEECCSSCCHHHHHHHHH-HHGGGCTTCCEEECTTCCC--CHHHHHHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             HhhcCCCccEEECcCCCCCcHHHHHHH-HHHccCCCcCEEECCCCCC--chhhHHHHHHHHhhccCCCeEEEECcCCcCC
Confidence            4566777777777777774    2445 5566677777777777777  333    33444  33677778888777777


Q ss_pred             c----ccccccc-cc-CCCCCCcEEEcCCCCCCCC
Q 040978           74 E----TVTITTQ-EL-HNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        74 ~----~~~~~~~-~~-~~~~~L~~l~l~~n~~~~~  102 (104)
                      +    ..    + .+ ..+++|+.|++++|.+++.
T Consensus       288 ~~g~~~l----~~~l~~~l~~L~~L~l~~N~l~~~  318 (386)
T 2ca6_A          288 LDAVRTL----KTVIDEKMPDLLFLELNGNRFSEE  318 (386)
T ss_dssp             HHHHHHH----HHHHHHHCTTCCEEECTTSBSCTT
T ss_pred             HHHHHHH----HHHHHhcCCCceEEEccCCcCCcc
Confidence            5    24    5 44 5577888888888877664

>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=99.06  E-value=1.5e-09  Score=72.91  Aligned_cols=38  Identities=39%  Similarity=0.543  Sum_probs=16.2

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV   46 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~   46 (104)
                      ..+++|++|++++|.+.+ .+ . +..+++|+.|++++|.+
T Consensus       240 ~~l~~L~~L~l~~n~l~~-~~-~-~~~l~~L~~L~l~~n~l  277 (466)
T 1o6v_A          240 ASLTNLTDLDLANNQISN-LA-P-LSGLTKLTELKLGANQI  277 (466)
T ss_dssp             GGCTTCSEEECCSSCCCC-CG-G-GTTCTTCSEEECCSSCC
T ss_pred             hcCCCCCEEECCCCcccc-ch-h-hhcCCCCCEEECCCCcc
Confidence            334444444444444442 11 1 33444444444444444

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

Probab=99.06  E-value=4.5e-10  Score=72.15  Aligned_cols=86  Identities=21%  Similarity=0.281  Sum_probs=39.8

Q ss_pred             CCCCCCCEEECCCCCCCCccccCcc-CCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGY-SGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~-~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      ..+++|++|++++|.+.+..+ ..+ ..+++|+.|++++|.+  .. .+. ...+++|+.|++++|.+.+..    +.+.
T Consensus       141 ~~l~~L~~L~Ls~N~l~~~~~-~~~~~~l~~L~~L~L~~N~l--~~-~~~-~~~l~~L~~L~Ls~N~l~~l~----~~~~  211 (317)
T 3o53_A          141 GCRSRVQYLDLKLNEIDTVNF-AELAASSDTLEHLNLQYNFI--YD-VKG-QVVFAKLKTLDLSSNKLAFMG----PEFQ  211 (317)
T ss_dssp             GGGSSEEEEECTTSCCCEEEG-GGGGGGTTTCCEEECTTSCC--CE-EEC-CCCCTTCCEEECCSSCCCEEC----GGGG
T ss_pred             hccCCCCEEECCCCCCCcccH-HHHhhccCcCCEEECCCCcC--cc-ccc-ccccccCCEEECCCCcCCcch----hhhc
Confidence            334444444554444443222 222 2344455555555544  11 111 222455555555555555321    1555


Q ss_pred             CCCCCcEEEcCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLH  100 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~  100 (104)
                      .+++|+.|++++|.++
T Consensus       212 ~l~~L~~L~L~~N~l~  227 (317)
T 3o53_A          212 SAAGVTWISLRNNKLV  227 (317)
T ss_dssp             GGTTCSEEECTTSCCC
T ss_pred             ccCcccEEECcCCccc
Confidence            5666666666666554

>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=99.02  E-value=5.4e-10  Score=72.69  Aligned_cols=86  Identities=19%  Similarity=0.354  Sum_probs=66.9

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhh-hhcCCCCCccE-EeccCCcCCcccccccc-ccCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLL-QSMGSFPSLNN-LYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~-~~~~~l~~L~~-l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      +++++|++++|.++ .+|...|.++++|+.|++++|.+  .+..+ ..|..++++.. +.+..|++....    + .|..
T Consensus        30 ~~l~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~Ls~N~i--~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~----~~~f~~  102 (350)
T 4ay9_X           30 RNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDV--LEVIEADVFSNLPKLHEIRIEKANNLLYIN----PEAFQN  102 (350)
T ss_dssp             TTCSEEEEESCCCS-EECTTSSTTCTTCCEEEEECCTT--CCEECTTSBCSCTTCCEEEEEEETTCCEEC----TTSBCC
T ss_pred             CCCCEEEccCCcCC-CcCHHHHcCCCCCCEEECcCCCC--CCccChhHhhcchhhhhhhcccCCcccccC----chhhhh
Confidence            57899999999998 56635788999999999999987  34343 46777877665 555668888666    6 7888


Q ss_pred             CCCCcEEEcCCCCCCC
Q 040978           86 FTNLEYLKLNDSPLHI  101 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~~  101 (104)
                      +++|+++++++|.+.+
T Consensus       103 l~~L~~L~l~~n~l~~  118 (350)
T 4ay9_X          103 LPNLQYLLISNTGIKH  118 (350)
T ss_dssp             CTTCCEEEEEEECCSS
T ss_pred             cccccccccccccccc
Confidence            9999999999888765

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

Probab=99.00  E-value=3.4e-09  Score=71.34  Aligned_cols=82  Identities=20%  Similarity=0.213  Sum_probs=42.3

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      +..+++|++|++++|.+.+ .+   +..+++|+.|++++|.+  .. .+  +..+++|+.|++++|.+.+ .     .+.
T Consensus        60 l~~l~~L~~L~Ls~n~l~~-~~---~~~l~~L~~L~Ls~N~l--~~-~~--~~~l~~L~~L~L~~N~l~~-l-----~~~  124 (457)
T 3bz5_A           60 IEKLTGLTKLICTSNNITT-LD---LSQNTNLTYLACDSNKL--TN-LD--VTPLTKLTYLNCDTNKLTK-L-----DVS  124 (457)
T ss_dssp             GGGCTTCSEEECCSSCCSC-CC---CTTCTTCSEEECCSSCC--SC-CC--CTTCTTCCEEECCSSCCSC-C-----CCT
T ss_pred             hcccCCCCEEEccCCcCCe-Ec---cccCCCCCEEECcCCCC--ce-ee--cCCCCcCCEEECCCCcCCe-e-----cCC
Confidence            4455555666666555552 22   44555555666655555  22 11  4455555666665555553 2     144


Q ss_pred             CCCCCcEEEcCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|++|++++|.+++
T Consensus       125 ~l~~L~~L~l~~N~l~~  141 (457)
T 3bz5_A          125 QNPLLTYLNCARNTLTE  141 (457)
T ss_dssp             TCTTCCEEECTTSCCSC
T ss_pred             CCCcCCEEECCCCccce
Confidence            55555555555555443

>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=98.99  E-value=6.1e-10  Score=71.58  Aligned_cols=85  Identities=15%  Similarity=0.165  Sum_probs=72.7

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCch-hhhhcCCCCCccEEeccCCcCCcccccccc-ccCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSK-LLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNF   86 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~-~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~   86 (104)
                      ++++.+++++|.+.+..+  .+..+++|+.|++++|.+  ... .+..+..+++|+.|++++|.+.+..    + .+..+
T Consensus        70 ~~l~~L~l~~n~l~~~~~--~~~~~~~L~~L~L~~~~l--~~~~~~~~~~~~~~L~~L~L~~~~l~~~~----~~~l~~~  141 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLA--EHFSPFRVQHMDLSNSVI--EVSTLHGILSQCSKLQNLSLEGLRLSDPI----VNTLAKN  141 (336)
T ss_dssp             TTCSEEECTTCEECSCCC--SCCCCBCCCEEECTTCEE--CHHHHHHHHTTBCCCSEEECTTCBCCHHH----HHHHTTC
T ss_pred             ccceEEEcCCccccccch--hhccCCCCCEEEccCCCc--CHHHHHHHHhhCCCCCEEeCcCcccCHHH----HHHHhcC
Confidence            789999999999885544  466789999999999998  544 6778889999999999999998776    7 88899


Q ss_pred             CCCcEEEcCCC-CCCC
Q 040978           87 TNLEYLKLNDS-PLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n-~~~~  101 (104)
                      ++|++|++++| .+++
T Consensus       142 ~~L~~L~L~~~~~l~~  157 (336)
T 2ast_B          142 SNLVRLNLSGCSGFSE  157 (336)
T ss_dssp             TTCSEEECTTCBSCCH
T ss_pred             CCCCEEECCCCCCCCH
Confidence            99999999999 5653

>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=98.98  E-value=2.2e-10  Score=75.18  Aligned_cols=95  Identities=23%  Similarity=0.291  Sum_probs=58.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCc-----cccCccCCCCCCCEEeCCCCcccCC----chhhhhcCCCCCccEEeccCCcCCc
Q 040978            4 EFNSFNNLELLDMSFNEINNL-----VVPQGYSGLRKLKSLDLSRVGVRDG----SKLLQSMGSFPSLNNLYLSSNNFTE   74 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~-----~~~~~~~~~~~L~~l~l~~~~~~~~----~~~~~~~~~l~~L~~l~l~~n~~~~   74 (104)
                      .+..+++|++|++++|.+...     .+ ..+..+++|+.|++++|.+  +    ...+..+..+++|+.|++++|.+.+
T Consensus       182 ~l~~~~~L~~L~L~~n~l~~~g~~~l~~-~~l~~~~~L~~L~Ls~n~l--~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~  258 (386)
T 2ca6_A          182 TFQSHRLLHTVKMVQNGIRPEGIEHLLL-EGLAYCQELKVLDLQDNTF--THLGSSALAIALKSWPNLRELGLNDCLLSA  258 (386)
T ss_dssp             HHHHCTTCCEEECCSSCCCHHHHHHHHH-TTGGGCTTCCEEECCSSCC--HHHHHHHHHHHGGGCTTCCEEECTTCCCCH
T ss_pred             HHHhCCCcCEEECcCCCCCHhHHHHHHH-HHhhcCCCccEEECcCCCC--CcHHHHHHHHHHccCCCcCEEECCCCCCch
Confidence            344566777777777776621     22 2556677777777777777  3    3345566677777777777777765


Q ss_pred             ccccccc-cc--CCCCCCcEEEcCCCCCCC
Q 040978           75 TVTITTQ-EL--HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        75 ~~~~~~~-~~--~~~~~L~~l~l~~n~~~~  101 (104)
                      .....++ .+  ..+++|+.|++++|.+++
T Consensus       259 ~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~  288 (386)
T 2ca6_A          259 RGAAAVVDAFSKLENIGLQTLRLQYNEIEL  288 (386)
T ss_dssp             HHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             hhHHHHHHHHhhccCCCeEEEECcCCcCCH
Confidence            4100003 44  337777778887777654

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.98  E-value=8.6e-13  Score=79.74  Aligned_cols=88  Identities=27%  Similarity=0.395  Sum_probs=48.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhh----------------------cCCCCC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQS----------------------MGSFPS   61 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~----------------------~~~l~~   61 (104)
                      .+..+++|++|++++|.+.+ +|  .+..+++|+.|++++|.+  . .+|..                      +..+++
T Consensus        43 ~~~~l~~L~~L~ls~n~l~~-l~--~~~~l~~L~~L~l~~n~l--~-~l~~~~~~~~~L~~L~L~~N~l~~l~~~~~l~~  116 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIEK-IS--SLSGMENLRILSLGRNLI--K-KIENLDAVADTLEELWISYNQIASLSGIEKLVN  116 (198)
T ss_dssp             HHHHTTTCSEEECSEEEESC-CC--CHHHHTTCCEEEEEEEEE--C-SCSSHHHHHHHCSEEEEEEEECCCHHHHHHHHH
T ss_pred             HHhcCCCCCEEECCCCCCcc-cc--ccccCCCCCEEECCCCCc--c-cccchhhcCCcCCEEECcCCcCCcCCccccCCC
Confidence            45556666666666666652 32  444455555555555555  1 22322                      333445


Q ss_pred             ccEEeccCCcCCcccccccc--ccCCCCCCcEEEcCCCCCCC
Q 040978           62 LNNLYLSSNNFTETVTITTQ--ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        62 L~~l~l~~n~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~  101 (104)
                      |+.|++++|.+.+..    +  .+..+++|+++++++|.+.+
T Consensus       117 L~~L~l~~N~i~~~~----~~~~l~~l~~L~~L~l~~N~l~~  154 (198)
T 1ds9_A          117 LRVLYMSNNKITNWG----EIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             SSEEEESEEECCCHH----HHHHHTTTTTCSEEEECSCHHHH
T ss_pred             CCEEECCCCcCCchh----HHHHHhcCCCCCEEEecCCcccc
Confidence            555555555555322    2  45667777777777776543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.97  E-value=4.7e-13  Score=80.91  Aligned_cols=86  Identities=22%  Similarity=0.339  Sum_probs=61.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchh-hhhcCCCCCccEEeccCCcCCcccccccc--
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKL-LQSMGSFPSLNNLYLSSNNFTETVTITTQ--   81 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~-~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--   81 (104)
                      +..+++|++|++++|.+.+ .+  .+..+++|+.|++++|.+  .... ...+..+++|+.+++++|.+.+..    |  
T Consensus        89 ~~~~~~L~~L~L~~N~l~~-l~--~~~~l~~L~~L~l~~N~i--~~~~~~~~l~~l~~L~~L~l~~N~l~~~~----~~~  159 (198)
T 1ds9_A           89 DAVADTLEELWISYNQIAS-LS--GIEKLVNLRVLYMSNNKI--TNWGEIDKLAALDKLEDLLLAGNPLYNDY----KEN  159 (198)
T ss_dssp             HHHHHHCSEEEEEEEECCC-HH--HHHHHHHSSEEEESEEEC--CCHHHHHHHTTTTTCSEEEECSCHHHHHH----HTT
T ss_pred             hhcCCcCCEEECcCCcCCc-CC--ccccCCCCCEEECCCCcC--CchhHHHHHhcCCCCCEEEecCCcccccc----ccc
Confidence            3445667777777777763 33  456677888888888888  3322 246888999999999999997654    3  


Q ss_pred             ---------ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ---------ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ---------~~~~~~~L~~l~l~~n~~~~  101 (104)
                               .+..+++|+.++  +|.++.
T Consensus       160 ~~~~~~~~~~~~~l~~L~~Ld--~~~i~~  186 (198)
T 1ds9_A          160 NATSEYRIEVVKRLPNLKKLD--GMPVDV  186 (198)
T ss_dssp             TTHHHHHHHHHHHCSSCSEEC--CGGGTT
T ss_pred             cchHHHHHHHHHhCCCcEEEC--CcccCH
Confidence                     277899999887  565543

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

Probab=98.96  E-value=2e-09  Score=72.53  Aligned_cols=84  Identities=23%  Similarity=0.290  Sum_probs=71.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL   83 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~   83 (104)
                      .++.+++|++|++++|.+.+ .|  .+..+++|+.|++++|.+  .. .+  +..+++|+.|++++|.+.+.      .+
T Consensus        37 ~~~~l~~L~~L~Ls~n~l~~-~~--~l~~l~~L~~L~Ls~n~l--~~-~~--~~~l~~L~~L~Ls~N~l~~~------~~  102 (457)
T 3bz5_A           37 SEEQLATLTSLDCHNSSITD-MT--GIEKLTGLTKLICTSNNI--TT-LD--LSQNTNLTYLACDSNKLTNL------DV  102 (457)
T ss_dssp             EHHHHTTCCEEECCSSCCCC-CT--TGGGCTTCSEEECCSSCC--SC-CC--CTTCTTCSEEECCSSCCSCC------CC
T ss_pred             ChhHcCCCCEEEccCCCccc-Ch--hhcccCCCCEEEccCCcC--Ce-Ec--cccCCCCCEEECcCCCCcee------ec
Confidence            45678999999999999984 44  588899999999999999  33 33  78899999999999999853      37


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|++|++++|.+++
T Consensus       103 ~~l~~L~~L~L~~N~l~~  120 (457)
T 3bz5_A          103 TPLTKLTYLNCDTNKLTK  120 (457)
T ss_dssp             TTCTTCCEEECCSSCCSC
T ss_pred             CCCCcCCEEECCCCcCCe
Confidence            789999999999999876

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

Probab=98.94  E-value=1.3e-09  Score=75.34  Aligned_cols=80  Identities=19%  Similarity=0.250  Sum_probs=53.8

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCc-------cEEeccCCcCCccccccc
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSL-------NNLYLSSNNFTETVTITT   80 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L-------~~l~l~~n~~~~~~~~~~   80 (104)
                      +++|++|++++|.+. .+| . +.  ++|+.|++++|++   ..+|. +..  +|       +.|++++|.++. +    
T Consensus       159 l~~L~~L~Ls~N~L~-~lp-~-l~--~~L~~L~Ls~N~L---~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~-l----  222 (571)
T 3cvr_A          159 PTSLEVLSVRNNQLT-FLP-E-LP--ESLEALDVSTNLL---ESLPA-VPV--RNHHSEETEIFFRCRENRITH-I----  222 (571)
T ss_dssp             CTTCCEEECCSSCCS-CCC-C-CC--TTCCEEECCSSCC---SSCCC-CC----------CCEEEECCSSCCCC-C----
T ss_pred             CCCcCEEECCCCCCC-Ccc-h-hh--CCCCEEECcCCCC---Cchhh-HHH--hhhcccccceEEecCCCccee-c----
Confidence            456667777777666 355 3 43  6677777777777   23444 332  55       888888888873 4    


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      | .+..+++|+.|++++|.+++.+
T Consensus       223 p~~l~~l~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          223 PENILSLDPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             CGGGGGSCTTEEEECCSSSCCHHH
T ss_pred             CHHHhcCCCCCEEEeeCCcCCCcC
Confidence            6 6667999999999999987654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.91  E-value=2.7e-10  Score=74.34  Aligned_cols=88  Identities=19%  Similarity=0.206  Sum_probs=38.1

Q ss_pred             CCCC-CCCEEECCCCCCCCccccCccCCC-----CCCCEEeCCCCcccCCchhhh----hcCCC-CCccEEeccCCcCCc
Q 040978            6 NSFN-NLELLDMSFNEINNLVVPQGYSGL-----RKLKSLDLSRVGVRDGSKLLQ----SMGSF-PSLNNLYLSSNNFTE   74 (104)
Q Consensus         6 ~~~~-~L~~L~l~~n~~~~~~~~~~~~~~-----~~L~~l~l~~~~~~~~~~~~~----~~~~l-~~L~~l~l~~n~~~~   74 (104)
                      ..++ +|++|++++|.+.+..+ ..+..+     ++|+.|++++|.+  ....+.    .+..+ ++|+.|++++|.+.+
T Consensus        47 ~~~~~~L~~L~Ls~N~l~~~~~-~~l~~~l~~~~~~L~~L~Ls~n~l--~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~  123 (362)
T 3goz_A           47 ANTPASVTSLNLSGNSLGFKNS-DELVQILAAIPANVTSLNLSGNFL--SYKSSDELVKTLAAIPFTITVLDLGWNDFSS  123 (362)
T ss_dssp             HTCCTTCCEEECCSSCGGGSCH-HHHHHHHHTSCTTCCEEECCSSCG--GGSCHHHHHHHHHTSCTTCCEEECCSSCGGG
T ss_pred             HhCCCceeEEECcCCCCCHHHH-HHHHHHHhccCCCccEEECcCCcC--ChHHHHHHHHHHHhCCCCccEEECcCCcCCc
Confidence            3344 45555555555443222 222222     4455555555554  222222    12222 455555555555543


Q ss_pred             ccccccc-c----cCC-CCCCcEEEcCCCCCC
Q 040978           75 TVTITTQ-E----LHN-FTNLEYLKLNDSPLH  100 (104)
Q Consensus        75 ~~~~~~~-~----~~~-~~~L~~l~l~~n~~~  100 (104)
                      ..    + .    +.. .++|++|++++|.+.
T Consensus       124 ~~----~~~l~~~l~~~~~~L~~L~Ls~N~l~  151 (362)
T 3goz_A          124 KS----SSEFKQAFSNLPASITSLNLRGNDLG  151 (362)
T ss_dssp             SC----HHHHHHHHTTSCTTCCEEECTTSCGG
T ss_pred             HH----HHHHHHHHHhCCCceeEEEccCCcCC
Confidence            32    2 1    222 245566666655554

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.85  E-value=5.9e-09  Score=72.75  Aligned_cols=78  Identities=22%  Similarity=0.183  Sum_probs=56.1

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      ++|+.|++++|.+. .+|    ..+++|+.|++++|.+   ..+|.   .+++|+.|++++|.+. .+    | .+..++
T Consensus       221 ~~L~~L~Ls~N~L~-~lp----~~l~~L~~L~Ls~N~L---~~lp~---~~~~L~~L~Ls~N~L~-~l----p~~l~~l~  284 (622)
T 3g06_A          221 SGLKELIVSGNRLT-SLP----VLPSELKELMVSGNRL---TSLPM---LPSGLLSLSVYRNQLT-RL----PESLIHLS  284 (622)
T ss_dssp             TTCCEEECCSSCCS-CCC----CCCTTCCEEECCSSCC---SCCCC---CCTTCCEEECCSSCCC-SC----CGGGGGSC
T ss_pred             CCCCEEEccCCccC-cCC----CCCCcCcEEECCCCCC---CcCCc---ccccCcEEeCCCCCCC-cC----CHHHhhcc
Confidence            55666666666666 333    3346677777777777   23333   4567888888888888 55    7 888999


Q ss_pred             CCcEEEcCCCCCCCC
Q 040978           88 NLEYLKLNDSPLHIS  102 (104)
Q Consensus        88 ~L~~l~l~~n~~~~~  102 (104)
                      +|+.|++++|.+++.
T Consensus       285 ~L~~L~L~~N~l~~~  299 (622)
T 3g06_A          285 SETTVNLEGNPLSER  299 (622)
T ss_dssp             TTCEEECCSCCCCHH
T ss_pred             ccCEEEecCCCCCCc
Confidence            999999999998764

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.84  E-value=3.5e-10  Score=73.81  Aligned_cols=85  Identities=22%  Similarity=0.317  Sum_probs=39.4

Q ss_pred             CCCCEEECCCCCCCCcccc----CccCCCC-CCCEEeCCCCcccCCchhhhhcCCC-----CCccEEeccCCcCCccccc
Q 040978            9 NNLELLDMSFNEINNLVVP----QGYSGLR-KLKSLDLSRVGVRDGSKLLQSMGSF-----PSLNNLYLSSNNFTETVTI   78 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~----~~~~~~~-~L~~l~l~~~~~~~~~~~~~~~~~l-----~~L~~l~l~~n~~~~~~~~   78 (104)
                      .+|++|++++|.+.+ .+.    ..+..++ +|+.|++++|.+  ....+..+..+     ++|+.|++++|.+.+..  
T Consensus        22 ~~L~~L~Ls~n~l~~-~~~~~l~~~l~~~~~~L~~L~Ls~N~l--~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~--   96 (362)
T 3goz_A           22 HGVTSLDLSLNNLYS-ISTVELIQAFANTPASVTSLNLSGNSL--GFKNSDELVQILAAIPANVTSLNLSGNFLSYKS--   96 (362)
T ss_dssp             TTCCEEECTTSCGGG-SCHHHHHHHHHTCCTTCCEEECCSSCG--GGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSC--
T ss_pred             CCceEEEccCCCCCh-HHHHHHHHHHHhCCCceeEEECcCCCC--CHHHHHHHHHHHhccCCCccEEECcCCcCChHH--
Confidence            335555555555552 221    1233444 555555555555  23222222221     55555555555555332  


Q ss_pred             ccc-c----cCCC-CCCcEEEcCCCCCC
Q 040978           79 TTQ-E----LHNF-TNLEYLKLNDSPLH  100 (104)
Q Consensus        79 ~~~-~----~~~~-~~L~~l~l~~n~~~  100 (104)
                        + .    +..+ ++|+.|++++|.++
T Consensus        97 --~~~l~~~l~~~~~~L~~L~Ls~N~l~  122 (362)
T 3goz_A           97 --SDELVKTLAAIPFTITVLDLGWNDFS  122 (362)
T ss_dssp             --HHHHHHHHHTSCTTCCEEECCSSCGG
T ss_pred             --HHHHHHHHHhCCCCccEEECcCCcCC
Confidence              2 1    2233 45555555555543

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.83  E-value=4.2e-08  Score=66.04  Aligned_cols=60  Identities=15%  Similarity=0.266  Sum_probs=28.0

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      ++.+++|++|++++|.+. .+| ..   ..+|+.|++++|.+  .. .| .+..+++|+.+++++|.+.
T Consensus       149 ~~~l~~L~~L~l~~N~l~-~lp-~~---~~~L~~L~L~~n~l--~~-l~-~~~~l~~L~~L~l~~N~l~  208 (454)
T 1jl5_A          149 LQNSSFLKIIDVDNNSLK-KLP-DL---PPSLEFIAAGNNQL--EE-LP-ELQNLPFLTAIYADNNSLK  208 (454)
T ss_dssp             CTTCTTCCEEECCSSCCS-CCC-CC---CTTCCEEECCSSCC--SS-CC-CCTTCTTCCEEECCSSCCS
T ss_pred             cCCCCCCCEEECCCCcCc-ccC-CC---cccccEEECcCCcC--Cc-Cc-cccCCCCCCEEECCCCcCC
Confidence            445555555555555554 233 21   12455555555554  11 22 3444555555555555444

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

Probab=98.80  E-value=7.7e-09  Score=67.24  Aligned_cols=71  Identities=20%  Similarity=0.306  Sum_probs=56.5

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCE-EeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKS-LDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~-l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      ..|.++++|++|++++|.+.+.++...|.++++++. +.+..|++  ....+..|..+++|+.+++++|.+...
T Consensus        48 ~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l--~~l~~~~f~~l~~L~~L~l~~n~l~~~  119 (350)
T 4ay9_X           48 GAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL--LYINPEAFQNLPNLQYLLISNTGIKHL  119 (350)
T ss_dssp             TSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTC--CEECTTSBCCCTTCCEEEEEEECCSSC
T ss_pred             HHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcc--cccCchhhhhccccccccccccccccC
Confidence            368899999999999999875666456788888775 45566788  455567888999999999999988754

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

Probab=98.79  E-value=4.8e-08  Score=67.61  Aligned_cols=55  Identities=24%  Similarity=0.264  Sum_probs=23.9

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      +++|++|++++|.+.+ +| . +..  +|+.|++++|.+  .. +|.   .+++|+.|++++|.++
T Consensus        99 l~~L~~L~Ls~N~l~~-ip-~-l~~--~L~~L~Ls~N~l--~~-lp~---~l~~L~~L~Ls~N~l~  153 (571)
T 3cvr_A           99 PASLEYLDACDNRLST-LP-E-LPA--SLKHLDVDNNQL--TM-LPE---LPALLEYINADNNQLT  153 (571)
T ss_dssp             CTTCCEEECCSSCCSC-CC-C-CCT--TCCEEECCSSCC--SC-CCC---CCTTCCEEECCSSCCS
T ss_pred             cCCCCEEEccCCCCCC-cc-h-hhc--CCCEEECCCCcC--CC-CCC---cCccccEEeCCCCccC
Confidence            3444555555554442 33 2 222  444555555444  11 222   2344455555555444

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

Probab=98.77  E-value=2.7e-09  Score=71.15  Aligned_cols=85  Identities=19%  Similarity=0.169  Sum_probs=46.2

Q ss_pred             CCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCchhhhhc----CC-CCCccEEeccCCcCCc----cc
Q 040978           10 NLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSM----GS-FPSLNNLYLSSNNFTE----TV   76 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~----~~-l~~L~~l~l~~n~~~~----~~   76 (104)
                      +|++|++++|.+.+.    .+ ..+..+++|+.|++++|.+  ....+..+    .. .++|+.|++++|.+++    ..
T Consensus       314 ~L~~L~L~~n~l~~~~~~~l~-~~l~~~~~L~~L~Ls~n~i--~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l  390 (461)
T 1z7x_W          314 QLESLWVKSCSFTAACCSHFS-SVLAQNRFLLELQISNNRL--EDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSL  390 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHH-HHHHHCSSCCEEECCSSBC--HHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHH
T ss_pred             cceeeEcCCCCCchHHHHHHH-HHHhhCCCccEEEccCCcc--ccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHH
Confidence            445555555544422    12 2233446666666666666  33222222    11 4567777777776664    33


Q ss_pred             ccccc-ccCCCCCCcEEEcCCCCCCC
Q 040978           77 TITTQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        77 ~~~~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                          + .+..+++|+++++++|.+++
T Consensus       391 ----~~~l~~~~~L~~L~l~~N~i~~  412 (461)
T 1z7x_W          391 ----AATLLANHSLRELDLSNNCLGD  412 (461)
T ss_dssp             ----HHHHHHCCCCCEEECCSSSCCH
T ss_pred             ----HHHHHhCCCccEEECCCCCCCH
Confidence                4 55667777777777777653

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.76  E-value=4e-08  Score=63.31  Aligned_cols=84  Identities=17%  Similarity=0.181  Sum_probs=68.8

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCcc-EEeccCCcCCcccccccc-ccCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLN-NLYLSSNNFTETVTITTQ-ELHN   85 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~-~l~l~~n~~~~~~~~~~~-~~~~   85 (104)
                      +++|+.+++++|.+. .++...|.++.+|+.+++..+ +  .......|..+.+|+ .+.+.. .+....    + .|..
T Consensus       225 ~~~L~~l~L~~n~i~-~I~~~aF~~~~~L~~l~l~~n-i--~~I~~~aF~~~~~L~~~l~l~~-~l~~I~----~~aF~~  295 (329)
T 3sb4_A          225 MPNLVSLDISKTNAT-TIPDFTFAQKKYLLKIKLPHN-L--KTIGQRVFSNCGRLAGTLELPA-SVTAIE----FGAFMG  295 (329)
T ss_dssp             CTTCCEEECTTBCCC-EECTTTTTTCTTCCEEECCTT-C--CEECTTTTTTCTTCCEEEEECT-TCCEEC----TTTTTT
T ss_pred             cCCCeEEECCCCCcc-eecHhhhhCCCCCCEEECCcc-c--ceehHHHhhCChhccEEEEEcc-cceEEc----hhhhhC
Confidence            789999999999888 566478999999999999987 6  455566788999999 999987 666454    5 8999


Q ss_pred             CCCCcEEEcCCCCCC
Q 040978           86 FTNLEYLKLNDSPLH  100 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~  100 (104)
                      |++|+.+++.+|.+.
T Consensus       296 c~~L~~l~l~~n~i~  310 (329)
T 3sb4_A          296 CDNLRYVLATGDKIT  310 (329)
T ss_dssp             CTTEEEEEECSSCCC
T ss_pred             CccCCEEEeCCCccC
Confidence            999999999877654

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.75  E-value=1.5e-08  Score=68.21  Aligned_cols=78  Identities=22%  Similarity=0.249  Sum_probs=39.8

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCc--ccccccc-ccCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTE--TVTITTQ-ELHN   85 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~--~~~~~~~-~~~~   85 (104)
                      ++|++|++++|.+. .+| .   .+++|+.|++++|.+  . ..|.   .+++|+.+++++|.+.+  ..    | .+..
T Consensus       317 ~~L~~L~Ls~N~l~-~lp-~---~~~~L~~L~L~~N~l--~-~lp~---~l~~L~~L~L~~N~l~~l~~i----p~~l~~  381 (454)
T 1jl5_A          317 PSLEELNVSNNKLI-ELP-A---LPPRLERLIASFNHL--A-EVPE---LPQNLKQLHVEYNPLREFPDI----PESVED  381 (454)
T ss_dssp             TTCCEEECCSSCCS-CCC-C---CCTTCCEEECCSSCC--S-CCCC---CCTTCCEEECCSSCCSSCCCC----CTTCCE
T ss_pred             CcCCEEECCCCccc-ccc-c---cCCcCCEEECCCCcc--c-cccc---hhhhccEEECCCCCCCcCCCC----hHHHHh
Confidence            36666677666666 344 2   246677777777777  2 3444   35678888888888776  44    5 5555


Q ss_pred             C-------------CCCcEEEcCCCCCCC
Q 040978           86 F-------------TNLEYLKLNDSPLHI  101 (104)
Q Consensus        86 ~-------------~~L~~l~l~~n~~~~  101 (104)
                      +             ++|+.|++++|.+.+
T Consensus       382 L~~n~~~~~i~~~~~~L~~L~ls~N~l~~  410 (454)
T 1jl5_A          382 LRMNSHLAEVPELPQNLKQLHVETNPLRE  410 (454)
T ss_dssp             EECCC------------------------
T ss_pred             hhhcccccccccccCcCCEEECCCCcCCc
Confidence            5             678888888888776

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

Probab=98.71  E-value=3.8e-09  Score=70.37  Aligned_cols=69  Identities=25%  Similarity=0.381  Sum_probs=34.3

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCcc-CCCC----CCCEEeCCCCcccCC--chhhhhcCCCCCccEEeccCCcCC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGY-SGLR----KLKSLDLSRVGVRDG--SKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~-~~~~----~L~~l~l~~~~~~~~--~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      .+..+++|++|++++|.+.+..+ ..+ ..+.    +|+.|++++|.+++.  ...+..+..+++|+.|++++|.+.
T Consensus        51 ~l~~~~~L~~L~Ls~n~l~~~~~-~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~  126 (461)
T 1z7x_W           51 ALRVNPALAELNLRSNELGDVGV-HCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  126 (461)
T ss_dssp             HHHTCTTCCEEECTTCCCHHHHH-HHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             HHHhCCCcCEEeCCCCcCChHHH-HHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCc
Confidence            34455666666666666553211 111 1222    466666666665110  123445555666666666666554

>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=98.70  E-value=1.2e-08  Score=60.90  Aligned_cols=84  Identities=23%  Similarity=0.358  Sum_probs=65.5

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCc-ccCCchhhhhcCCC----CCccEEeccCCc-CCcccccccc
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVG-VRDGSKLLQSMGSF----PSLNNLYLSSNN-FTETVTITTQ   81 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~-~~~~~~~~~~~~~l----~~L~~l~l~~n~-~~~~~~~~~~   81 (104)
                      --.|+.||+++|.+++..- ..+.++++|+.|++++|. +  ++..-..+..+    ++|+.|++++|. +++.-    -
T Consensus        60 ~~~L~~LDLs~~~Itd~GL-~~L~~~~~L~~L~L~~C~~I--tD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~G----l  132 (176)
T 3e4g_A           60 KYKIQAIDATDSCIMSIGF-DHMEGLQYVEKIRLCKCHYI--EDGCLERLSQLENLQKSMLEMEIISCGNVTDKG----I  132 (176)
T ss_dssp             CCCEEEEEEESCCCCGGGG-GGGTTCSCCCEEEEESCTTC--CHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHH----H
T ss_pred             CceEeEEeCcCCCccHHHH-HHhcCCCCCCEEEeCCCCcc--CHHHHHHHHhcccccCCCCEEEcCCCCcCCHHH----H
Confidence            3469999999999985544 677899999999999994 7  44444455553    479999999985 77443    2


Q ss_pred             -ccCCCCCCcEEEcCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~   98 (104)
                       .+..+++|+.|++++++
T Consensus       133 ~~L~~~~~L~~L~L~~c~  150 (176)
T 3e4g_A          133 IALHHFRNLKYLFLSDLP  150 (176)
T ss_dssp             HHGGGCTTCCEEEEESCT
T ss_pred             HHHhcCCCCCEEECCCCC
Confidence             66789999999999975

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.64  E-value=1.4e-07  Score=60.83  Aligned_cols=83  Identities=13%  Similarity=0.137  Sum_probs=70.2

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCC-EEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLK-SLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~-~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      ..|.+|.+|+.+++..| +. .++...|.++.+|+ .+++.. .+  ....+..|..+++|+.+++..|.+....    +
T Consensus       244 ~aF~~~~~L~~l~l~~n-i~-~I~~~aF~~~~~L~~~l~l~~-~l--~~I~~~aF~~c~~L~~l~l~~n~i~~I~----~  314 (329)
T 3sb4_A          244 FTFAQKKYLLKIKLPHN-LK-TIGQRVFSNCGRLAGTLELPA-SV--TAIEFGAFMGCDNLRYVLATGDKITTLG----D  314 (329)
T ss_dssp             TTTTTCTTCCEEECCTT-CC-EECTTTTTTCTTCCEEEEECT-TC--CEECTTTTTTCTTEEEEEECSSCCCEEC----T
T ss_pred             hhhhCCCCCCEEECCcc-cc-eehHHHhhCChhccEEEEEcc-cc--eEEchhhhhCCccCCEEEeCCCccCccc----h
Confidence            35889999999999998 66 45547899999999 999998 66  4555678999999999999999998666    6


Q ss_pred             -ccCCCCCCcEEEc
Q 040978           82 -ELHNFTNLEYLKL   94 (104)
Q Consensus        82 -~~~~~~~L~~l~l   94 (104)
                       .|..+++|+.++.
T Consensus       315 ~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          315 ELFGNGVPSKLIYK  328 (329)
T ss_dssp             TTTCTTCCCCEEEC
T ss_pred             hhhcCCcchhhhcc
Confidence             8999999998874

>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=98.62  E-value=7.4e-08  Score=60.99  Aligned_cols=83  Identities=24%  Similarity=0.288  Sum_probs=49.5

Q ss_pred             CCCCCCEEECCCCCCCCc--cccCccCCCCCCCEEeCCCCcccCCch-hhhhcCCCCCccEEeccCCcCCccccc---cc
Q 040978            7 SFNNLELLDMSFNEINNL--VVPQGYSGLRKLKSLDLSRVGVRDGSK-LLQSMGSFPSLNNLYLSSNNFTETVTI---TT   80 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~--~~~~~~~~~~~L~~l~l~~~~~~~~~~-~~~~~~~l~~L~~l~l~~n~~~~~~~~---~~   80 (104)
                      .+++|+.|++++|.+.+.  ++ ..+..+++|+.|++++|+++  .. ....+..+ .|+.|++.+|.+.+....   -.
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~  243 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMS-SIVQKAPNLKILNLSGNELK--SERELDKIKGL-KLEELWLDGNSLCDTFRDQSTYI  243 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGT-THHHHSTTCCEEECTTSCCC--SGGGGGGGTTS-CCSEEECTTSTTGGGCSSHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccch-hHHhhCCCCCEEECCCCccC--CchhhhhcccC-CcceEEccCCcCccccCcchhHH
Confidence            467788888888887742  22 33446777888888888772  22 12233334 777888888877643200   00


Q ss_pred             c-ccCCCCCCcEEE
Q 040978           81 Q-ELHNFTNLEYLK   93 (104)
Q Consensus        81 ~-~~~~~~~L~~l~   93 (104)
                      . .+..+++|+.|+
T Consensus       244 ~~il~~~P~L~~LD  257 (267)
T 3rw6_A          244 SAIRERFPKLLRLD  257 (267)
T ss_dssp             HHHHHHCTTCCEES
T ss_pred             HHHHHHCcccCeEC
Confidence            1 345677777665

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.61  E-value=1.7e-08  Score=66.47  Aligned_cols=92  Identities=21%  Similarity=0.306  Sum_probs=59.9

Q ss_pred             CCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCccccc
Q 040978            7 SFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTETVTI   78 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~~~~   78 (104)
                      ..++|+.|++++|.+.+.    +. ..+...++|+.|++++|.+  ...    +...+...++|+.|++++|.+++....
T Consensus       153 ~~~~L~~L~Ls~n~l~~~~~~~l~-~~L~~~~~L~~L~Ls~N~l--~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~  229 (372)
T 3un9_A          153 DQCQITTLRLSNNPLTAAGVAVLM-EGLAGNTSVTHLSLLHTGL--GDEGLELLAAQLDRNRQLQELNVAYNGAGDTAAL  229 (372)
T ss_dssp             TTCCCCEEECCSSCCHHHHHHHHH-HHHHTCSSCCEEECTTSSC--HHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHH
T ss_pred             cCCccceeeCCCCCCChHHHHHHH-HHHhcCCCcCEEeCCCCCC--CcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHH
Confidence            356788888888887632    22 2335567788888888887  332    234555667888888888888743200


Q ss_pred             ccc-ccCCCCCCcEEEcCCCCCCC
Q 040978           79 TTQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        79 ~~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .+. .+...++|++|++++|.++.
T Consensus       230 ~l~~~L~~~~~L~~L~Ls~N~i~~  253 (372)
T 3un9_A          230 ALARAAREHPSLELLHLYFNELSS  253 (372)
T ss_dssp             HHHHHHHHCSSCCEEECTTSSCCH
T ss_pred             HHHHHHHhCCCCCEEeccCCCCCH
Confidence            002 44566788888888888753

>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=98.61  E-value=7.8e-08  Score=60.89  Aligned_cols=66  Identities=24%  Similarity=0.317  Sum_probs=53.0

Q ss_pred             CCCCCCCEEeCCCCcccCCc--hhhhhcCCCCCccEEeccCCcCCcccccccc--ccCCCCCCcEEEcCCCCCCCCC
Q 040978           31 SGLRKLKSLDLSRVGVRDGS--KLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--ELHNFTNLEYLKLNDSPLHISL  103 (104)
Q Consensus        31 ~~~~~L~~l~l~~~~~~~~~--~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~~~~~  103 (104)
                      ..+++|+.|++++|++  ..  .++..+..+++|+.|++++|.+.+..    .  .+..+ +|+.|++.+|++.+.+
T Consensus       167 ~~l~~L~~L~Ls~N~l--~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~----~l~~l~~l-~L~~L~L~~Npl~~~~  236 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRL--YRLDDMSSIVQKAPNLKILNLSGNELKSER----ELDKIKGL-KLEELWLDGNSLCDTF  236 (267)
T ss_dssp             HHCTTCCEEECTTSCC--CCCGGGTTHHHHSTTCCEEECTTSCCCSGG----GGGGGTTS-CCSEEECTTSTTGGGC
T ss_pred             hhCCCCCEEECCCCCC--CCCccchhHHhhCCCCCEEECCCCccCCch----hhhhcccC-CcceEEccCCcCcccc
Confidence            3578999999999999  44  44556678999999999999999664    2  44455 9999999999998743

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.61  E-value=2.4e-07  Score=64.71  Aligned_cols=14  Identities=29%  Similarity=0.411  Sum_probs=5.9

Q ss_pred             CCCCEEECCCCCCC
Q 040978            9 NNLELLDMSFNEIN   22 (104)
Q Consensus         9 ~~L~~L~l~~n~~~   22 (104)
                      ++|++|++++|.+.
T Consensus        81 ~~L~~L~Ls~N~l~   94 (622)
T 3g06_A           81 PELRTLEVSGNQLT   94 (622)
T ss_dssp             TTCCEEEECSCCCS
T ss_pred             CCCCEEEcCCCcCC
Confidence            34444444444443

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

Probab=98.54  E-value=8.8e-09  Score=70.55  Aligned_cols=92  Identities=15%  Similarity=0.238  Sum_probs=60.9

Q ss_pred             cCCCCCCCEEECCCCC--CCCccccCcc-CCCCCCCEEeCCCCcccCCc-hhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            5 FNSFNNLELLDMSFNE--INNLVVPQGY-SGLRKLKSLDLSRVGVRDGS-KLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~--~~~~~~~~~~-~~~~~L~~l~l~~~~~~~~~-~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +..+++|++|++++|.  +.+... ..+ ..+++|+.|++++|.+  +. ..+..+..+++|+.|++++|.+++..   +
T Consensus       432 ~~~~~~L~~L~L~~~~~~l~~~~~-~~~~~~~~~L~~L~L~~n~l--~~~~~~~~~~~~~~L~~L~l~~n~l~~~~---~  505 (592)
T 3ogk_B          432 LIGCKKLRRFAFYLRQGGLTDLGL-SYIGQYSPNVRWMLLGYVGE--SDEGLMEFSRGCPNLQKLEMRGCCFSERA---I  505 (592)
T ss_dssp             HHHCTTCCEEEEECCGGGCCHHHH-HHHHHSCTTCCEEEECSCCS--SHHHHHHHHTCCTTCCEEEEESCCCBHHH---H
T ss_pred             HHhCCCCCEEEEecCCCCccHHHH-HHHHHhCccceEeeccCCCC--CHHHHHHHHhcCcccCeeeccCCCCcHHH---H
Confidence            3446777777776543  342222 222 2367788888888888  43 33445677888999999998876442   0


Q ss_pred             c-ccCCCCCCcEEEcCCCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      + ....+++|+.|++++|.++..
T Consensus       506 ~~~~~~l~~L~~L~ls~n~it~~  528 (592)
T 3ogk_B          506 AAAVTKLPSLRYLWVQGYRASMT  528 (592)
T ss_dssp             HHHHHHCSSCCEEEEESCBCCTT
T ss_pred             HHHHHhcCccCeeECcCCcCCHH
Confidence            3 445788899999999887654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.51  E-value=9.3e-08  Score=57.21  Aligned_cols=93  Identities=16%  Similarity=0.167  Sum_probs=53.1

Q ss_pred             cCCCCCCCEEECCCC-CCCCc----cccCccCCCCCCCEEeCCCCcccCCchh----hhhcCCCCCccEEeccCCcCCcc
Q 040978            5 FNSFNNLELLDMSFN-EINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKL----LQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n-~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~----~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      +...++|++|++++| .+.+.    +. ..+...++|+.|++++|.+  ....    ...+...++|+.|++++|.+.+.
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~-~~L~~~~~L~~L~Ls~n~i--~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~  108 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACA-EALKTNTYVKKFSIVGTRS--NDPVAFALAEMLKVNNTLKSLNVESNFISGS  108 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHH-HHHTTCCSCCEEECTTSCC--CHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHH-HHHHhCCCcCEEECcCCCC--ChHHHHHHHHHHHhCCCcCEEECcCCcCCHH
Confidence            455677777777777 66532    12 2344456677777777777  3322    22333446677777777777642


Q ss_pred             cccccc-ccCCCCCCcEEEc--CCCCCC
Q 040978           76 VTITTQ-ELHNFTNLEYLKL--NDSPLH  100 (104)
Q Consensus        76 ~~~~~~-~~~~~~~L~~l~l--~~n~~~  100 (104)
                      .-..+. .+...++|++|++  ++|.+.
T Consensus       109 g~~~l~~~L~~n~~L~~L~L~~~~N~i~  136 (185)
T 1io0_A          109 GILALVEALQSNTSLIELRIDNQSQPLG  136 (185)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HHHHHHHHHHhCCCceEEEecCCCCCCC
Confidence            100002 4555666777777  666654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.48  E-value=3.7e-08  Score=58.98  Aligned_cols=95  Identities=17%  Similarity=0.139  Sum_probs=69.1

Q ss_pred             cccCCCCCCCEEECCCCCCCCcc----ccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEec--cCCcC
Q 040978            3 AEFNSFNNLELLDMSFNEINNLV----VPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYL--SSNNF   72 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~----~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l--~~n~~   72 (104)
                      ..+...++|++|++++|.+.+..    . ..+...++|+.|++++|.+  ...    +...+....+|+.|++  ++|.+
T Consensus        59 ~~L~~~~~L~~L~Ls~n~i~~~g~~~l~-~~L~~n~~L~~L~L~~N~i--~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i  135 (185)
T 1io0_A           59 EALKTNTYVKKFSIVGTRSNDPVAFALA-EMLKVNNTLKSLNVESNFI--SGSGILALVEALQSNTSLIELRIDNQSQPL  135 (185)
T ss_dssp             HHHTTCCSCCEEECTTSCCCHHHHHHHH-HHHHHCSSCCEEECCSSCC--CHHHHHHHHHGGGGCSSCCEEECCCCSSCC
T ss_pred             HHHHhCCCcCEEECcCCCCChHHHHHHH-HHHHhCCCcCEEECcCCcC--CHHHHHHHHHHHHhCCCceEEEecCCCCCC
Confidence            34566789999999999998432    2 2344457899999999999  443    3445667789999999  88999


Q ss_pred             Ccccccccc-ccCCCCCCcEEEcCCCCCC
Q 040978           73 TETVTITTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        73 ~~~~~~~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      ....-..+. .+...++|+.|++++|.+.
T Consensus       136 ~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          136 GNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             CHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             CHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            853200012 5566789999999999763

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.41  E-value=1.4e-07  Score=62.13  Aligned_cols=88  Identities=14%  Similarity=0.161  Sum_probs=44.6

Q ss_pred             CCCEEECCCCCCCCccccCcc-----CCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCccccccc
Q 040978           10 NLELLDMSFNEINNLVVPQGY-----SGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~-----~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      +|+.|++++|.+.+... ..+     ...++|+.|++++|.+  +..    ++..+...++|+.|++++|.+.+..-..+
T Consensus       127 ~L~~L~Ls~n~l~~~~~-~~L~~~L~~~~~~L~~L~Ls~n~l--~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L  203 (372)
T 3un9_A          127 RARKLGLQLNSLGPEAC-KDLRDLLLHDQCQITTLRLSNNPL--TAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELL  203 (372)
T ss_dssp             TEEEEECCSSCCCHHHH-HHHHHHHHSTTCCCCEEECCSSCC--HHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHH
T ss_pred             hccHhhcCCCCCCHHHH-HHHHHHHHhcCCccceeeCCCCCC--ChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHH
Confidence            45555555555542211 111     2345566666666666  221    22233455667777777776653210000


Q ss_pred             c-ccCCCCCCcEEEcCCCCCC
Q 040978           81 Q-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        81 ~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      . .+...++|+.|++++|.++
T Consensus       204 ~~~L~~~~~L~~L~Ls~N~i~  224 (372)
T 3un9_A          204 AAQLDRNRQLQELNVAYNGAG  224 (372)
T ss_dssp             HHHGGGCSCCCEEECCSSCCC
T ss_pred             HHHHhcCCCcCeEECCCCCCC
Confidence            2 4455567777777777664

>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=98.30  E-value=4.9e-08  Score=66.85  Aligned_cols=85  Identities=14%  Similarity=0.200  Sum_probs=45.4

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCC-CCCCCEEeCCCCcccCCchhhhhc-CCCCCccEEeccCCcCCcccccccc--c
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSG-LRKLKSLDLSRVGVRDGSKLLQSM-GSFPSLNNLYLSSNNFTETVTITTQ--E   82 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~-~~~L~~l~l~~~~~~~~~~~~~~~-~~l~~L~~l~l~~n~~~~~~~~~~~--~   82 (104)
                      .+++|+.|++++ .+.+... ..+.. +++|+.|++++|.+  +......+ ..+++|+.|++++|.+++..    .  .
T Consensus       430 ~~~~L~~L~L~~-~l~~~~~-~~l~~~~~~L~~L~L~~~~i--~~~~~~~l~~~~~~L~~L~L~~n~~~~~~----~~~~  501 (594)
T 2p1m_B          430 HCKDLRRLSLSG-LLTDKVF-EYIGTYAKKMEMLSVAFAGD--SDLGMHHVLSGCDSLRKLEIRDCPFGDKA----LLAN  501 (594)
T ss_dssp             HCTTCCEEECCS-SCCHHHH-HHHHHHCTTCCEEEEESCCS--SHHHHHHHHHHCTTCCEEEEESCSCCHHH----HHHT
T ss_pred             hCCCccEEeecC-cccHHHH-HHHHHhchhccEeeccCCCC--cHHHHHHHHhcCCCcCEEECcCCCCcHHH----HHHH
Confidence            345555666544 3332222 22222 55666666666666  33333332 34666777777777764332    2  2


Q ss_pred             cCCCCCCcEEEcCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~   99 (104)
                      ...+++|+.|++++|.+
T Consensus       502 ~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          502 ASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             GGGGGGSSEEEEESSCC
T ss_pred             HHhCCCCCEEeeeCCCC
Confidence            34466777777777665

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.09  E-value=1.7e-05  Score=52.73  Aligned_cols=88  Identities=15%  Similarity=0.195  Sum_probs=61.9

Q ss_pred             cccCCCCCCCEEECCCCCCC----CccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccc
Q 040978            3 AEFNSFNNLELLDMSFNEIN----NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTI   78 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~----~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~   78 (104)
                      .+|.+|.+|+.+++.++.+.    ..++...|.++.+|+.+.+.. .+  .......|..+.+|+.+.+..+ +....  
T Consensus       265 ~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~-~i--~~I~~~aF~~c~~L~~l~lp~~-l~~I~--  338 (401)
T 4fdw_A          265 RAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPE-SI--RILGQGLLGGNRKVTQLTIPAN-VTQIN--  338 (401)
T ss_dssp             TTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCT-TC--CEECTTTTTTCCSCCEEEECTT-CCEEC--
T ss_pred             hHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCC-ce--EEEhhhhhcCCCCccEEEECcc-ccEEc--
Confidence            45778888888888776553    013336778888888888884 35  3444567888888888888554 55343  


Q ss_pred             ccc-ccCCCCCCcEEEcCCCCC
Q 040978           79 TTQ-ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        79 ~~~-~~~~~~~L~~l~l~~n~~   99 (104)
                        . .|..+ +|+.+++.+|..
T Consensus       339 --~~aF~~~-~L~~l~l~~n~~  357 (401)
T 4fdw_A          339 --FSAFNNT-GIKEVKVEGTTP  357 (401)
T ss_dssp             --TTSSSSS-CCCEEEECCSSC
T ss_pred             --HHhCCCC-CCCEEEEcCCCC
Confidence              4 78888 888888888754

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

Probab=98.05  E-value=6.5e-07  Score=61.34  Aligned_cols=81  Identities=14%  Similarity=0.048  Sum_probs=50.0

Q ss_pred             CCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCC----chhhhhcCCCCCccEEeccCCcCCccccc
Q 040978            7 SFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDG----SKLLQSMGSFPSLNNLYLSSNNFTETVTI   78 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~----~~~~~~~~~l~~L~~l~l~~n~~~~~~~~   78 (104)
                      .+++|++|++++|.+.+.    ++ .....+++|+.|+++.+.+  .    ...+..+..+++|+.|++++|.+.+ .  
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~-~~~~~~~~L~~L~L~~n~~--~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~-l--  235 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLH-ELAQHNTSLEVLNFYMTEF--AKISPKDLETIARNCRSLVSVKVGDFEILE-L--  235 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHH-HHHHHCCCCCEEECTTCCC--SSCCHHHHHHHHHHCTTCCEEECSSCBGGG-G--
T ss_pred             hCCCCCEEECccccccCcchhHHH-HHHhcCCCccEEEeeccCC--CccCHHHHHHHHhhCCCCcEEeccCccHHH-H--
Confidence            567788888888876533    22 2334567777888877776  3    2334445567778888887776653 2  


Q ss_pred             ccc-ccCCCCCCcEEEcC
Q 040978           79 TTQ-ELHNFTNLEYLKLN   95 (104)
Q Consensus        79 ~~~-~~~~~~~L~~l~l~   95 (104)
                        + .+..+++|+.++++
T Consensus       236 --~~~~~~~~~L~~L~l~  251 (592)
T 3ogk_B          236 --VGFFKAAANLEEFCGG  251 (592)
T ss_dssp             --HHHHHHCTTCCEEEEC
T ss_pred             --HHHHhhhhHHHhhccc
Confidence              3 44555555555554

>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=98.04  E-value=1.6e-06  Score=59.36  Aligned_cols=89  Identities=17%  Similarity=0.192  Sum_probs=51.4

Q ss_pred             CCCCCCEEECCCCCCCCccccCccC-CCCCCCEEeCCCC-cccCCch-hhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYS-GLRKLKSLDLSRV-GVRDGSK-LLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~-~~~~L~~l~l~~~-~~~~~~~-~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .+++|++|++++|.+.+..+ ..+. .+++|+.|++.+| .+  +.. .+.....+++|+.|++++|.+.+.....++ .
T Consensus       103 ~~~~L~~L~L~~~~~~~~~~-~~l~~~~~~L~~L~L~~~~~~--~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~  179 (594)
T 2p1m_B          103 SYTWLEEIRLKRMVVTDDCL-ELIAKSFKNFKVLVLSSCEGF--STDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHF  179 (594)
T ss_dssp             HCTTCCEEEEESCBCCHHHH-HHHHHHCTTCCEEEEESCEEE--EHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGS
T ss_pred             hCCCCCeEEeeCcEEcHHHH-HHHHHhCCCCcEEeCCCcCCC--CHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHH
Confidence            46677777777777664433 3343 4677777777777 44  222 333344567777777777776543200002 2


Q ss_pred             cCCCCCCcEEEcCCCC
Q 040978           83 LHNFTNLEYLKLNDSP   98 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~   98 (104)
                      ...+++|+.|+++.|.
T Consensus       180 ~~~~~~L~~L~l~~~~  195 (594)
T 2p1m_B          180 PDTYTSLVSLNISCLA  195 (594)
T ss_dssp             CTTCCCCCEEECTTCC
T ss_pred             hhcCCcCcEEEecccC
Confidence            2355677777776664

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.73  E-value=2.3e-05  Score=51.56  Aligned_cols=92  Identities=14%  Similarity=0.196  Sum_probs=54.8

Q ss_pred             CCCCCCEEECCC--CCCCCc-----cccCcc--CCCCCCCEEeCCCCcccCCchhhhhc---CCCCCccEEeccCCcCCc
Q 040978            7 SFNNLELLDMSF--NEINNL-----VVPQGY--SGLRKLKSLDLSRVGVRDGSKLLQSM---GSFPSLNNLYLSSNNFTE   74 (104)
Q Consensus         7 ~~~~L~~L~l~~--n~~~~~-----~~~~~~--~~~~~L~~l~l~~~~~~~~~~~~~~~---~~l~~L~~l~l~~n~~~~   74 (104)
                      .+++|+.|+++.  +...+.     +. ..+  ..+++|+.|++.+|.+  ....+..+   ..+++|+.|+++.|.+.+
T Consensus       217 ~lp~L~~L~L~~~~~~~~~~~~~~~l~-~~l~~~~~p~Lr~L~L~~~~i--~~~~~~~la~a~~~~~L~~LdLs~n~L~d  293 (362)
T 2ra8_A          217 DLPNLEKLVLYVGVEDYGFDGDMNVFR-PLFSKDRFPNLKWLGIVDAEE--QNVVVEMFLESDILPQLETMDISAGVLTD  293 (362)
T ss_dssp             BCTTCCEEEEECBCGGGTCCSCGGGTG-GGSCTTTCTTCCEEEEESCTT--HHHHHHHHHHCSSGGGCSEEECCSSCCBH
T ss_pred             cCCCCcEEEEeccccccccchhHHHHH-HHHhcCCCCCcCEEeCCCCCC--chHHHHHHHhCccCCCCCEEECCCCCCCh
Confidence            578888887743  111101     11 112  2467888888888887  33332222   346788999998888875


Q ss_pred             ccccccc-ccCCCCCCcEEEcCCCCCCC
Q 040978           75 TVTITTQ-ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        75 ~~~~~~~-~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .--..+. .+..+++|+.|+++.|.++.
T Consensus       294 ~G~~~L~~~L~~l~~L~~L~L~~n~i~d  321 (362)
T 2ra8_A          294 EGARLLLDHVDKIKHLKFINMKYNYLSD  321 (362)
T ss_dssp             HHHHHHHTTHHHHTTCSEEECCSBBCCH
T ss_pred             HHHHHHHhhcccCCcceEEECCCCcCCH
Confidence            3200002 33456888999998887653

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.68  E-value=0.00029  Score=46.83  Aligned_cols=61  Identities=15%  Similarity=0.119  Sum_probs=29.8

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEecc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLS   68 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~   68 (104)
                      .+|.+|.+|+.+++..|.+. .++...|. +..|+.+.+..+ +  .......|..+.+|+.+.+.
T Consensus       174 ~aF~~c~~L~~l~l~~n~l~-~I~~~aF~-~~~L~~l~lp~~-l--~~I~~~aF~~~~~L~~l~l~  234 (401)
T 4fdw_A          174 DIFYYCYNLKKADLSKTKIT-KLPASTFV-YAGIEEVLLPVT-L--KEIGSQAFLKTSQLKTIEIP  234 (401)
T ss_dssp             STTTTCTTCCEEECTTSCCS-EECTTTTT-TCCCSEEECCTT-C--CEECTTTTTTCTTCCCEECC
T ss_pred             HHhhCcccCCeeecCCCcce-EechhhEe-ecccCEEEeCCc-h--heehhhHhhCCCCCCEEecC
Confidence            35667777777777776655 33312232 344555544432 2  12222334444444444443

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.67  E-value=1.2e-05  Score=47.93  Aligned_cols=67  Identities=16%  Similarity=0.284  Sum_probs=51.1

Q ss_pred             ccCCCCCCCEEECCCCC-CCCccccCccCCC----CCCCEEeCCCC-cccCCchhhhhcCCCCCccEEeccCCc-CC
Q 040978            4 EFNSFNNLELLDMSFNE-INNLVVPQGYSGL----RKLKSLDLSRV-GVRDGSKLLQSMGSFPSLNNLYLSSNN-FT   73 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~-~~~~~~~~~~~~~----~~L~~l~l~~~-~~~~~~~~~~~~~~l~~L~~l~l~~n~-~~   73 (104)
                      .+..|++|+.|++++|. +++..- ..+..+    ++|+.|++++| ++  +...-..+..+++|+.|+++++. ++
T Consensus        80 ~L~~~~~L~~L~L~~C~~ItD~gL-~~L~~~~~~~~~L~~L~Ls~C~~I--TD~Gl~~L~~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A           80 HMEGLQYVEKIRLCKCHYIEDGCL-ERLSQLENLQKSMLEMEIISCGNV--TDKGIIALHHFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             GGTTCSCCCEEEEESCTTCCHHHH-HHHHTCHHHHHHCCEEEEESCTTC--CHHHHHHGGGCTTCCEEEEESCTTCC
T ss_pred             HhcCCCCCCEEEeCCCCccCHHHH-HHHHhcccccCCCCEEEcCCCCcC--CHHHHHHHhcCCCCCEEECCCCCCCC
Confidence            46789999999999996 664332 445553    47999999998 48  45445567789999999999986 44

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.66  E-value=0.00043  Score=45.54  Aligned_cols=83  Identities=20%  Similarity=0.310  Sum_probs=49.2

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |.++.+|+.+.+. +.+. .++...|.++.+|+.+.+..+ +  .......|..+.+|+.+.+..+ +....    . +|
T Consensus       284 F~~c~~L~~i~l~-~~i~-~I~~~aF~~c~~L~~i~lp~~-v--~~I~~~aF~~C~~L~~i~ip~s-v~~I~----~~aF  353 (394)
T 4gt6_A          284 FMNCPALQDIEFS-SRIT-ELPESVFAGCISLKSIDIPEG-I--TQILDDAFAGCEQLERIAIPSS-VTKIP----ESAF  353 (394)
T ss_dssp             TTTCTTCCEEECC-TTCC-EECTTTTTTCTTCCEEECCTT-C--CEECTTTTTTCTTCCEEEECTT-CCBCC----GGGG
T ss_pred             cccccccccccCC-Cccc-ccCceeecCCCCcCEEEeCCc-c--cEehHhHhhCCCCCCEEEECcc-cCEEh----HhHh
Confidence            3445555555553 2233 233256667777777777654 3  2333456777777777777543 44333    3 77


Q ss_pred             CCCCCCcEEEcCCC
Q 040978           84 HNFTNLEYLKLNDS   97 (104)
Q Consensus        84 ~~~~~L~~l~l~~n   97 (104)
                      ..|.+|+.+++.++
T Consensus       354 ~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          354 SNCTALNNIEYSGS  367 (394)
T ss_dssp             TTCTTCCEEEESSC
T ss_pred             hCCCCCCEEEECCc
Confidence            78888888777665

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.55  E-value=0.00019  Score=47.19  Aligned_cols=57  Identities=19%  Similarity=0.237  Sum_probs=28.6

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcC--CCCCccEEecc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMG--SFPSLNNLYLS   68 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~--~l~~L~~l~l~   68 (104)
                      ..+++|+.|++++|.-. ..+ . + .+++|+.|++..+.+  .......+.  .+++|+.|+++
T Consensus       169 ~~~P~L~~L~L~g~~~l-~l~-~-~-~~~~L~~L~L~~~~l--~~~~l~~l~~~~lp~L~~L~L~  227 (362)
T 2ra8_A          169 DAMPLLNNLKIKGTNNL-SIG-K-K-PRPNLKSLEIISGGL--PDSVVEDILGSDLPNLEKLVLY  227 (362)
T ss_dssp             HTCTTCCEEEEECCBTC-BCC-S-C-BCTTCSEEEEECSBC--CHHHHHHHHHSBCTTCCEEEEE
T ss_pred             hcCCCCcEEEEeCCCCc-eec-c-c-cCCCCcEEEEecCCC--ChHHHHHHHHccCCCCcEEEEe
Confidence            45667777777665311 222 2 2 255666666666655  222222222  45666666553

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.51  E-value=0.00035  Score=45.95  Aligned_cols=84  Identities=17%  Similarity=0.245  Sum_probs=58.4

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+.+|+.+.+..+ +. .++...|.++.+|+.+++..+ +  .......|..+.+|+.+.+..+ +....    . +
T Consensus       292 ~F~~~~~L~~i~l~~~-i~-~I~~~aF~~c~~L~~i~lp~~-v--~~I~~~aF~~c~~L~~i~lp~~-l~~I~----~~a  361 (394)
T 4fs7_A          292 TFYGCSSLTEVKLLDS-VK-FIGEEAFESCTSLVSIDLPYL-V--EEIGKRSFRGCTSLSNINFPLS-LRKIG----ANA  361 (394)
T ss_dssp             TTTTCTTCCEEEECTT-CC-EECTTTTTTCTTCCEECCCTT-C--CEECTTTTTTCTTCCEECCCTT-CCEEC----TTT
T ss_pred             cccccccccccccccc-cc-eechhhhcCCCCCCEEEeCCc-c--cEEhHHhccCCCCCCEEEECcc-ccEeh----HHH
Confidence            3566778888877654 44 343367788888888888754 4  3444567888888998888765 55343    4 8


Q ss_pred             cCCCCCCcEEEcCCC
Q 040978           83 LHNFTNLEYLKLNDS   97 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n   97 (104)
                      |..|.+|+.+++..+
T Consensus       362 F~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          362 FQGCINLKKVELPKR  376 (394)
T ss_dssp             BTTCTTCCEEEEEGG
T ss_pred             hhCCCCCCEEEECCC
Confidence            888888888877543

>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=97.40  E-value=0.00061  Score=44.43  Aligned_cols=83  Identities=12%  Similarity=0.135  Sum_probs=44.7

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |.++.+|+.+.+..+ +. .++...|.++.+|+.+.+.++.+  .......|..+.+|+.+.+..+ ++...    . +|
T Consensus       259 F~~~~~l~~i~l~~~-i~-~i~~~aF~~c~~L~~i~l~~~~i--~~I~~~aF~~c~~L~~i~lp~~-l~~I~----~~aF  329 (379)
T 4h09_A          259 LQNCTALKTLNFYAK-VK-TVPYLLCSGCSNLTKVVMDNSAI--ETLEPRVFMDCVKLSSVTLPTA-LKTIQ----VYAF  329 (379)
T ss_dssp             TTTCTTCCEEEECCC-CS-EECTTTTTTCTTCCEEEECCTTC--CEECTTTTTTCTTCCEEECCTT-CCEEC----TTTT
T ss_pred             cceeehhcccccccc-ce-ecccccccccccccccccccccc--ceehhhhhcCCCCCCEEEcCcc-ccEEH----HHHh
Confidence            334445555554332 22 22224556666777777766655  3333456666777777777543 33222    3 66


Q ss_pred             CCCCCCcEEEcCC
Q 040978           84 HNFTNLEYLKLND   96 (104)
Q Consensus        84 ~~~~~L~~l~l~~   96 (104)
                      ..|.+|+.+.+..
T Consensus       330 ~~C~~L~~i~ip~  342 (379)
T 4h09_A          330 KNCKALSTISYPK  342 (379)
T ss_dssp             TTCTTCCCCCCCT
T ss_pred             hCCCCCCEEEECC
Confidence            6777776665543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.33  E-value=0.00052  Score=38.73  Aligned_cols=56  Identities=14%  Similarity=0.191  Sum_probs=36.4

Q ss_pred             EEECCCCCCC-CccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978           13 LLDMSFNEIN-NLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus        13 ~L~l~~n~~~-~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      .++-+++.++ ..+| ..+  ..+++.|++++|++  +..-+..|..+++|+.|++.+|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP-~~l--p~~l~~L~Ls~N~l--~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLP-TAF--PVDTTELVLTGNNL--TALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSC-SCC--CTTCSEEECTTSCC--SSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCC-CCC--CcCCCEEECCCCcC--CccChhhhhhccccCEEEecCCCee
Confidence            5666666654 1334 222  23588888888888  4433456777788888888888775

>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=97.15  E-value=0.00039  Score=42.14  Aligned_cols=89  Identities=11%  Similarity=0.174  Sum_probs=54.0

Q ss_pred             CCCCCCCEEECCCC-CCCCc----cccCccCCCCCCCEEeCCCCcccCCchhh----hhcCCCCCccEEeccCCcCCccc
Q 040978            6 NSFNNLELLDMSFN-EINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKLL----QSMGSFPSLNNLYLSSNNFTETV   76 (104)
Q Consensus         6 ~~~~~L~~L~l~~n-~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~~----~~~~~l~~L~~l~l~~n~~~~~~   76 (104)
                      ..-++|++|+++++ .+.+.    +. ..+..=.+|+.|++++|.+  .....    ..+..-.+|+.|+++.|.+.+.-
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la-~aL~~N~~L~~L~L~~n~i--gd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~G  114 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLI-EAACNSKHIEKFSLANTAI--SDSEARGLIELIETSPSLRVLNVESNFLTPEL  114 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHH-HHHTTCSCCCEEECTTSCC--BHHHHTTHHHHHHHCSSCCEEECCSSBCCHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHH-HHHhhCCCcCEEEccCCCC--ChHHHHHHHHHHhcCCccCeEecCCCcCCHHH
Confidence            44567888888875 66532    12 2344445688888888888  43322    23334467888888888887431


Q ss_pred             ccccc-ccCCCCCCcEEEcCCC
Q 040978           77 TITTQ-ELHNFTNLEYLKLNDS   97 (104)
Q Consensus        77 ~~~~~-~~~~~~~L~~l~l~~n   97 (104)
                      -..+- .+..-.+|+.|++++|
T Consensus       115 a~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          115 LARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             HHHHHHHTTTTCCCSEEECCCC
T ss_pred             HHHHHHHHhhCCceeEEECCCC
Confidence            00002 4455567888888754

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.09  E-value=0.0042  Score=40.81  Aligned_cols=84  Identities=14%  Similarity=0.226  Sum_probs=61.6

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      +|.++..|+.+.+..+... ... ..|.++..|+.+.+... +  .......|..+.+|+.+.+..+ ++...    . +
T Consensus       260 aF~~c~~L~~i~lp~~~~~-I~~-~aF~~c~~L~~i~l~~~-i--~~I~~~aF~~c~~L~~i~lp~~-v~~I~----~~a  329 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSVVS-IGT-GAFMNCPALQDIEFSSR-I--TELPESVFAGCISLKSIDIPEG-ITQIL----DDA  329 (394)
T ss_dssp             TTTTCSSCCEEECCTTCCE-ECT-TTTTTCTTCCEEECCTT-C--CEECTTTTTTCTTCCEEECCTT-CCEEC----TTT
T ss_pred             eeeecccccEEecccccce-ecC-cccccccccccccCCCc-c--cccCceeecCCCCcCEEEeCCc-ccEeh----HhH
Confidence            5778888999988765543 333 67888899999998753 4  2334457888999999999764 44333    4 8


Q ss_pred             cCCCCCCcEEEcCCC
Q 040978           83 LHNFTNLEYLKLNDS   97 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n   97 (104)
                      |..|.+|+.+.+..+
T Consensus       330 F~~C~~L~~i~ip~s  344 (394)
T 4gt6_A          330 FAGCEQLERIAIPSS  344 (394)
T ss_dssp             TTTCTTCCEEEECTT
T ss_pred             hhCCCCCCEEEECcc
Confidence            999999999988654

>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=97.00  E-value=0.0045  Score=40.33  Aligned_cols=84  Identities=12%  Similarity=0.152  Sum_probs=55.8

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      |..+..|+.+.+..+ +. .+....+.++..++.+.+..+ +  .......|..+.+|+.+.+.++.+....    . .|
T Consensus       236 f~~~~~L~~i~lp~~-v~-~I~~~aF~~~~~l~~i~l~~~-i--~~i~~~aF~~c~~L~~i~l~~~~i~~I~----~~aF  306 (379)
T 4h09_A          236 FYGMKALDEIAIPKN-VT-SIGSFLLQNCTALKTLNFYAK-V--KTVPYLLCSGCSNLTKVVMDNSAIETLE----PRVF  306 (379)
T ss_dssp             TTTCSSCCEEEECTT-CC-EECTTTTTTCTTCCEEEECCC-C--SEECTTTTTTCTTCCEEEECCTTCCEEC----TTTT
T ss_pred             ccCCccceEEEcCCC-cc-EeCccccceeehhcccccccc-c--eeccccccccccccccccccccccceeh----hhhh
Confidence            445666666666544 33 222255666777777777554 3  2333456778889999999887777454    4 88


Q ss_pred             CCCCCCcEEEcCCC
Q 040978           84 HNFTNLEYLKLNDS   97 (104)
Q Consensus        84 ~~~~~L~~l~l~~n   97 (104)
                      ..|.+|+.+.+..+
T Consensus       307 ~~c~~L~~i~lp~~  320 (379)
T 4h09_A          307 MDCVKLSSVTLPTA  320 (379)
T ss_dssp             TTCTTCCEEECCTT
T ss_pred             cCCCCCCEEEcCcc
Confidence            99999999988654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.99  E-value=0.0019  Score=42.43  Aligned_cols=79  Identities=11%  Similarity=0.291  Sum_probs=59.4

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      .+|.+|.+|+.+++..+ +. .+....|.++.+|+.+.+..+ +  .......|..+.+|+.+.+..+ +. ..    . 
T Consensus       314 ~aF~~c~~L~~i~lp~~-v~-~I~~~aF~~c~~L~~i~lp~~-l--~~I~~~aF~~C~~L~~i~lp~~-~~-~~----~~  382 (394)
T 4fs7_A          314 EAFESCTSLVSIDLPYL-VE-EIGKRSFRGCTSLSNINFPLS-L--RKIGANAFQGCINLKKVELPKR-LE-QY----RY  382 (394)
T ss_dssp             TTTTTCTTCCEECCCTT-CC-EECTTTTTTCTTCCEECCCTT-C--CEECTTTBTTCTTCCEEEEEGG-GG-GG----GG
T ss_pred             hhhcCCCCCCEEEeCCc-cc-EEhHHhccCCCCCCEEEECcc-c--cEehHHHhhCCCCCCEEEECCC-CE-Eh----hh
Confidence            35788999999999754 55 444378999999999999876 5  3445568999999999999754 22 23    4 


Q ss_pred             ccCCCCCCcEE
Q 040978           82 ELHNFTNLEYL   92 (104)
Q Consensus        82 ~~~~~~~L~~l   92 (104)
                      .|..+.+|+.+
T Consensus       383 ~F~~c~~L~~I  393 (394)
T 4fs7_A          383 DFEDTTKFKWI  393 (394)
T ss_dssp             GBCTTCEEEEE
T ss_pred             eecCCCCCcEE
Confidence            78888888764

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.98  E-value=0.0031  Score=35.51  Aligned_cols=36  Identities=17%  Similarity=0.147  Sum_probs=26.9

Q ss_pred             CCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcc
Q 040978           10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGV   46 (104)
Q Consensus        10 ~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~   46 (104)
                      ++++|++++|.++ .++...|..+++|+.+++.+|.+
T Consensus        32 ~l~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           32 DTTELVLTGNNLT-ALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TCSEEECTTSCCS-SCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CCCEEECCCCcCC-ccChhhhhhccccCEEEecCCCe
Confidence            5888888888887 44436677778888888888765

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=96.93  E-value=0.00042  Score=41.97  Aligned_cols=93  Identities=12%  Similarity=0.128  Sum_probs=62.0

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccC----CCCCCCEEeCCCCcccCCchh----hhhcCCCCCccEEeccCC---cC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYS----GLRKLKSLDLSRVGVRDGSKL----LQSMGSFPSLNNLYLSSN---NF   72 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~----~~~~L~~l~l~~~~~~~~~~~----~~~~~~l~~L~~l~l~~n---~~   72 (104)
                      .+..-.+|+.|++++|.+.+..- ..+.    .=..|+.|++++|.+  ....    .+.+..-..|+.|+++++   .+
T Consensus        65 aL~~N~~L~~L~L~~n~igd~ga-~alA~aL~~N~tL~~L~L~~N~I--g~~Ga~ala~aL~~N~tL~~L~L~n~~~~~i  141 (197)
T 1pgv_A           65 AACNSKHIEKFSLANTAISDSEA-RGLIELIETSPSLRVLNVESNFL--TPELLARLLRSTLVTQSIVEFKADNQRQSVL  141 (197)
T ss_dssp             HHTTCSCCCEEECTTSCCBHHHH-TTHHHHHHHCSSCCEEECCSSBC--CHHHHHHHHHHTTTTCCCSEEECCCCSSCCC
T ss_pred             HHhhCCCcCEEEccCCCCChHHH-HHHHHHHhcCCccCeEecCCCcC--CHHHHHHHHHHHhhCCceeEEECCCCcCcCc
Confidence            45566889999999999985432 3332    236799999999999  4432    334555577999999865   33


Q ss_pred             Ccccccccc-ccCCCCCCcEEEcCCCCC
Q 040978           73 TETVTITTQ-ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        73 ~~~~~~~~~-~~~~~~~L~~l~l~~n~~   99 (104)
                      .......+. .+..-++|+.++++.|.+
T Consensus       142 g~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          142 GNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             CHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             CHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence            422100112 455667899999987653

---

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	104
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-08
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	7e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.004
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.8 bits (114), Expect = 1e-08
 Identities = 13/91 (14%), Positives = 35/91 (38%), Gaps = 4/91 (4%)

Query: 10 NLELLDMSFNEINNLVVPQGYSGLRKLKSLDLS--RVGVRDGSKLLQSMGSFPSLNNLYL 67
          +++ LD+   E+++    +    L++ + + L    +       +  ++   P+L  L L
Sbjct: 3  DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL 62

Query: 68 SSNNFTET--VTITTQELHNFTNLEYLKLND 96
           SN   +     +          ++ L L +
Sbjct: 63 RSNELGDVGVHCVLQGLQTPSCKIQKLSLQN 93

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.3 bits (79), Expect = 7e-04
 Identities = 16/89 (17%), Positives = 33/89 (37%), Gaps = 6/89 (6%)

Query: 1   MFAEFNSFNNLELLDMSFNEINNLVV---PQGYSGLRKLKSLDLS--RVGVRDGSKLLQS 55
                   + L +L ++  ++++               L+ LDLS   +G     +L++S
Sbjct: 361 CQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGILQLVES 420

Query: 56  MGSFPS-LNNLYLSSNNFTETVTITTQEL 83
           +      L  L L    ++E +    Q L
Sbjct: 421 VRQPGCLLEQLVLYDIYWSEEMEDRLQAL 449

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.0 bits (73), Expect = 0.004
 Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 4/88 (4%)

Query: 16  MSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRD--GSKLLQSMGSFPSLNNLYLSSNNFT 73
              +     +          L+ L L+   V D   S L  ++ +  SL  L LS+N   
Sbjct: 351 RLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLG 410

Query: 74  ET--VTITTQELHNFTNLEYLKLNDSPL 99
           +   + +          LE L L D   
Sbjct: 411 DAGILQLVESVRQPGCLLEQLVLYDIYW 438

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.8 bits (89), Expect = 4e-05
 Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 12/96 (12%)

Query: 1   MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFP 60
             +  ++  NL  L + FN I+++      S L KL+ L  +   V D    + S+ +  
Sbjct: 299 DISPISNLKNLTYLTLYFNNISDIS---PVSSLTKLQRLFFANNKVSD----VSSLANLT 351

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLND 96
           ++N L    N  ++        L N T +  L LND
Sbjct: 352 NINWLSAGHNQISDLT-----PLANLTRITQLGLND 382

>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 = 0.002
 Identities = 18/95 (18%), Positives = 38/95 (40%), Gaps = 18/95 (18%)

Query: 1   MFAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFP 60
           + +  +   +LE L++S N++  L      +   +L+ L  S       + L +      
Sbjct: 276 IRSLCDLPPSLEELNVSNNKLIELP-----ALPPRLERLIAS------FNHLAEVPELPQ 324

Query: 61  SLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLN 95
           +L  L++  N   E   I         ++E L++N
Sbjct: 325 NLKQLHVEYNPLREFPDI-------PESVEDLRMN 352

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	104
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.59
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.58
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.56
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.48
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.46
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.42
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.4
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.4
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.4
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.33
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.31
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.31
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.26
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.25
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.2
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.17
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.13
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.11
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.08
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.02
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.99
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.99
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.93
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.91
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.89
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.87
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.82
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.56
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.49
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.48
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.45
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.42
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.31
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.29
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.29
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.24
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.22
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.06
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.04
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.69
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.15
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.04

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.59  E-value=5.5e-15  Score=87.83  Aligned_cols=91  Identities=16%  Similarity=0.306  Sum_probs=54.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|++|++++|.+....+ ..+..+++|+.|++++|++  ....+..|..+++|+.|++++|.++...    + .
T Consensus        49 ~f~~l~~L~~L~L~~N~i~~~~~-~~~~~~~~L~~L~Ls~N~l--~~l~~~~F~~l~~L~~L~L~~N~l~~i~----~~~  121 (192)
T d1w8aa_          49 LFGRLPHLVKLELKRNQLTGIEP-NAFEGASHIQELQLGENKI--KEISNKMFLGLHQLKTLNLYDNQISCVM----PGS  121 (192)
T ss_dssp             SGGGCTTCCEEECCSSCCCCBCT-TTTTTCTTCCEEECCSCCC--CEECSSSSTTCTTCCEEECCSSCCCEEC----TTS
T ss_pred             ccCCCceEeeeeccccccccccc-cccccccccceeeeccccc--cccCHHHHhCCCcccccccCCccccccC----HHH
Confidence            34556666666666666663333 5556666666666666666  3333445666666666666666666554    4 5


Q ss_pred             cCCCCCCcEEEcCCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~~  101 (104)
                      |..+++|+++++++|.+..
T Consensus       122 f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_         122 FEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             STTCTTCCEEECTTCCBCC
T ss_pred             hcCCccccccccccccccc
Confidence            6666666666666666543

>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=99.58  E-value=5.2e-15  Score=82.67  Aligned_cols=89  Identities=21%  Similarity=0.332  Sum_probs=76.6

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      +.+..+++|++|++++|.+. .+| ..+..+++|+.|++++|.+   ...+ .+..+++|+.+++++|.+....    . 
T Consensus        14 ~~l~~l~~L~~L~ls~N~l~-~lp-~~~~~l~~L~~L~l~~N~i---~~l~-~~~~l~~L~~L~l~~N~i~~~~----~~   83 (124)
T d1dcea3          14 CHLEQLLLVTHLDLSHNRLR-ALP-PALAALRCLEVLQASDNAL---ENVD-GVANLPRLQELLLCNNRLQQSA----AI   83 (124)
T ss_dssp             CCGGGGTTCCEEECCSSCCC-CCC-GGGGGCTTCCEEECCSSCC---CCCG-GGTTCSSCCEEECCSSCCCSSS----TT
T ss_pred             cccccCCCCCEEECCCCccC-cch-hhhhhhhcccccccccccc---cccC-ccccccccCeEECCCCccCCCC----Cc
Confidence            35778999999999999998 677 7789999999999999999   3344 4889999999999999998553    3 


Q ss_pred             -ccCCCCCCcEEEcCCCCCCC
Q 040978           82 -ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 -~~~~~~~L~~l~l~~n~~~~  101 (104)
                       .+..+++|+.+++++|+++.
T Consensus        84 ~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          84 QPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             GGGGGCTTCCEEECTTSGGGG
T ss_pred             hhhcCCCCCCEEECCCCcCCc
Confidence             67889999999999999864

>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=99.56  E-value=1.6e-14  Score=85.81  Aligned_cols=87  Identities=18%  Similarity=0.211  Sum_probs=76.8

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~   87 (104)
                      +++++|++++|.+....+...|..+++|+.|++++|++  ....+..+..+++|+.|++++|++....    + .|..++
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i--~~~~~~~~~~~~~L~~L~Ls~N~l~~l~----~~~F~~l~  102 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL--TGIEPNAFEGASHIQELQLGENKIKEIS----NKMFLGLH  102 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC--CCBCTTTTTTCTTCCEEECCSCCCCEEC----SSSSTTCT
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeecccccc--ccccccccccccccceeeeccccccccC----HHHHhCCC
Confidence            58999999999998555436778899999999999999  5666778889999999999999999776    6 899999


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      +|++|++++|.+++
T Consensus       103 ~L~~L~L~~N~l~~  116 (192)
T d1w8aa_         103 QLKTLNLYDNQISC  116 (192)
T ss_dssp             TCCEEECCSSCCCE
T ss_pred             cccccccCCccccc
Confidence            99999999999875

>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=99.48  E-value=7.2e-15  Score=92.65  Aligned_cols=97  Identities=14%  Similarity=0.226  Sum_probs=81.8

Q ss_pred             CccccCCCCCCCEEECCC-CCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccc
Q 040978            1 MFAEFNSFNNLELLDMSF-NEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTIT   79 (104)
Q Consensus         1 ~~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~   79 (104)
                      +|+.++++++|++|++++ |.+.+.+| ..+..+++|++|++++|++  ....+..+..+..|+.++++.|.+....   
T Consensus        68 lp~~l~~L~~L~~L~Ls~~N~l~g~iP-~~i~~L~~L~~L~Ls~N~l--~~~~~~~~~~~~~L~~l~l~~N~~~~~~---  141 (313)
T d1ogqa_          68 IPSSLANLPYLNFLYIGGINNLVGPIP-PAIAKLTQLHYLYITHTNV--SGAIPDFLSQIKTLVTLDFSYNALSGTL---  141 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEESCCC-GGGGGCTTCSEEEEEEECC--EEECCGGGGGCTTCCEEECCSSEEESCC---
T ss_pred             CChHHhcCccccccccccccccccccc-cccccccccchhhhccccc--cccccccccchhhhcccccccccccccC---
Confidence            467888999999999986 77877788 8889999999999999988  5555666778888999999998888777   


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLHISLL  104 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~~~~~  104 (104)
                       | .+..++.++++++++|.+.|.+|
T Consensus       142 -p~~l~~l~~L~~l~l~~n~l~~~ip  166 (313)
T d1ogqa_         142 -PPSISSLPNLVGITFDGNRISGAIP  166 (313)
T ss_dssp             -CGGGGGCTTCCEEECCSSCCEEECC
T ss_pred             -chhhccCcccceeeccccccccccc
Confidence             7 88899999999999998887665

>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=99.46  E-value=4.2e-13  Score=77.41  Aligned_cols=92  Identities=22%  Similarity=0.265  Sum_probs=74.3

Q ss_pred             ccccCCCCCCCEEECCCC-CCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccc
Q 040978            2 FAEFNSFNNLELLDMSFN-EINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITT   80 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n-~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~   80 (104)
                      |..+..+++++.|+++++ .++ .++...|.++++|+.|++++|++  +...+..|..+++|+.|++++|++....    
T Consensus        24 p~~l~~l~~l~~L~l~~n~~l~-~i~~~~f~~l~~L~~L~Ls~N~l--~~i~~~~f~~l~~L~~L~Ls~N~l~~l~----   96 (156)
T d2ifga3          24 LHHLPGAENLTELYIENQQHLQ-HLELRDLRGLGELRNLTIVKSGL--RFVAPDAFHFTPRLSRLNLSFNALESLS----   96 (156)
T ss_dssp             TTTSCSCSCCSEEECCSCSSCC-EECGGGSCSCCCCSEEECCSSCC--CEECTTGGGSCSCCCEEECCSSCCSCCC----
T ss_pred             cccccCccccCeeecCCCcccc-ccCchhhccccccCcceeecccc--CCcccccccccccccceeccCCCCcccC----
Confidence            566778899999999766 477 55437799999999999999999  5655778999999999999999999543    


Q ss_pred             cccCCCCCCcEEEcCCCCCC
Q 040978           81 QELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        81 ~~~~~~~~L~~l~l~~n~~~  100 (104)
                      +.......|+.|++++|++.
T Consensus        97 ~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          97 WKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             STTTCSCCCCEEECCSSCCC
T ss_pred             hhhhccccccccccCCCccc
Confidence            33333447999999999874

>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=99.42  E-value=2.3e-13  Score=78.97  Aligned_cols=86  Identities=26%  Similarity=0.384  Sum_probs=48.0

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc--cc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ--EL   83 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~--~~   83 (104)
                      ..+++|++|++++|.+. .++  .+..+++|+.|++++|++  ....+..+..+++|+.|++++|.+....    .  .+
T Consensus        38 ~~l~~L~~L~Ls~N~i~-~l~--~~~~l~~L~~L~ls~N~i--~~l~~~~~~~l~~L~~L~L~~N~i~~~~----~l~~l  108 (162)
T d1a9na_          38 ATLDQFDAIDFSDNEIR-KLD--GFPLLRRLKTLLVNNNRI--CRIGEGLDQALPDLTELILTNNSLVELG----DLDPL  108 (162)
T ss_dssp             GGTTCCSEEECCSSCCC-EEC--CCCCCSSCCEEECCSSCC--CEECSCHHHHCTTCCEEECCSCCCCCGG----GGGGG
T ss_pred             cccccCCEEECCCCCCC-ccC--CcccCcchhhhhcccccc--cCCCccccccccccccceeccccccccc----ccccc
Confidence            44556666666666665 332  355566666666666666  2222223344566666666666665332    2  45


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|+++++++|+++
T Consensus       109 ~~l~~L~~L~l~~N~i~  125 (162)
T d1a9na_         109 ASLKSLTYLCILRNPVT  125 (162)
T ss_dssp             GGCTTCCEEECCSSGGG
T ss_pred             ccccccchhhcCCCccc
Confidence            56666777777766653

>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=99.40  E-value=3.4e-13  Score=78.26  Aligned_cols=89  Identities=18%  Similarity=0.209  Sum_probs=74.8

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-   81 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-   81 (104)
                      +.+.++..+++|++++|.+. .++ ..+..+++|+.|++++|.+  . .. +.+..+++|+.|++++|.+....    + 
T Consensus        12 ~~~~n~~~lr~L~L~~n~I~-~i~-~~~~~l~~L~~L~Ls~N~i--~-~l-~~~~~l~~L~~L~ls~N~i~~l~----~~   81 (162)
T d1a9na_          12 AQYTNAVRDRELDLRGYKIP-VIE-NLGATLDQFDAIDFSDNEI--R-KL-DGFPLLRRLKTLLVNNNRICRIG----EG   81 (162)
T ss_dssp             CEEECTTSCEEEECTTSCCC-SCC-CGGGGTTCCSEEECCSSCC--C-EE-CCCCCCSSCCEEECCSSCCCEEC----SC
T ss_pred             HhccCcCcCcEEECCCCCCC-ccC-ccccccccCCEEECCCCCC--C-cc-CCcccCcchhhhhcccccccCCC----cc
Confidence            34567888999999999999 566 6667889999999999999  3 33 34788999999999999999665    4 


Q ss_pred             ccCCCCCCcEEEcCCCCCCC
Q 040978           82 ELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~~~~  101 (104)
                      .+..+++|+.|++++|.+..
T Consensus        82 ~~~~l~~L~~L~L~~N~i~~  101 (162)
T d1a9na_          82 LDQALPDLTELILTNNSLVE  101 (162)
T ss_dssp             HHHHCTTCCEEECCSCCCCC
T ss_pred             ccccccccccceeccccccc
Confidence            56789999999999999864

>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=99.40  E-value=9.8e-13  Score=73.19  Aligned_cols=79  Identities=20%  Similarity=0.315  Sum_probs=68.9

Q ss_pred             CEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCCCcE
Q 040978           12 ELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEY   91 (104)
Q Consensus        12 ~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~   91 (104)
                      ++|++++|.++ ..+  .+..+.+|+.|++++|.+   ...|..+..+++|+.+++++|.+...     +.+..+++|+.
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~~   69 (124)
T d1dcea3           1 RVLHLAHKDLT-VLC--HLEQLLLVTHLDLSHNRL---RALPPALAALRCLEVLQASDNALENV-----DGVANLPRLQE   69 (124)
T ss_dssp             SEEECTTSCCS-SCC--CGGGGTTCCEEECCSSCC---CCCCGGGGGCTTCCEEECCSSCCCCC-----GGGTTCSSCCE
T ss_pred             CEEEcCCCCCC-CCc--ccccCCCCCEEECCCCcc---Ccchhhhhhhhccccccccccccccc-----CccccccccCe
Confidence            57999999998 554  478899999999999999   45677788999999999999999854     37889999999


Q ss_pred             EEcCCCCCCC
Q 040978           92 LKLNDSPLHI  101 (104)
Q Consensus        92 l~l~~n~~~~  101 (104)
                      +++++|.+..
T Consensus        70 L~l~~N~i~~   79 (124)
T d1dcea3          70 LLLCNNRLQQ   79 (124)
T ss_dssp             EECCSSCCCS
T ss_pred             EECCCCccCC
Confidence            9999999864

>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=99.40  E-value=7.1e-13  Score=82.48  Aligned_cols=90  Identities=29%  Similarity=0.422  Sum_probs=62.0

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-c
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-E   82 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~   82 (104)
                      .|..+++|+.|++++|.+....+ ..+.++++|+.+++.+|++  ....|..|..+++++.+++++|.+.+..    + .
T Consensus       148 ~f~~~~~L~~L~l~~N~l~~l~~-~~f~~l~~L~~l~l~~N~l--~~i~~~~f~~l~~L~~L~l~~N~i~~~~----~~~  220 (284)
T d1ozna_         148 TFRDLGNLTHLFLHGNRISSVPE-RAFRGLHSLDRLLLHQNRV--AHVHPHAFRDLGRLMTLYLFANNLSALP----TEA  220 (284)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCSCCC----HHH
T ss_pred             HhccccchhhcccccCcccccch-hhhccccccchhhhhhccc--cccChhHhhhhhhccccccccccccccc----ccc
Confidence            45566777777777777763333 6666777777777777777  4555666777777777777777777655    5 6


Q ss_pred             cCCCCCCcEEEcCCCCCC
Q 040978           83 LHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        83 ~~~~~~L~~l~l~~n~~~  100 (104)
                      +..+++|+.+++++|++.
T Consensus       221 ~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         221 LAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             HTTCTTCCEEECCSSCEE
T ss_pred             cccccccCEEEecCCCCC
Confidence            777777777777777664

>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=99.33  E-value=1.3e-11  Score=76.23  Aligned_cols=39  Identities=36%  Similarity=0.495  Sum_probs=19.0

Q ss_pred             CCCCccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCCCCC
Q 040978           58 SFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        58 ~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      .++.++.+++++|.++...    + .+..+++|++|++++|.++
T Consensus       146 ~l~~l~~l~l~~N~l~~~~----~~~~~~l~~L~~L~Ls~N~L~  185 (266)
T d1p9ag_         146 PTPKLEKLSLANNNLTELP----AGLLNGLENLDTLLLQENSLY  185 (266)
T ss_dssp             TCTTCCEEECTTSCCSCCC----TTTTTTCTTCCEEECCSSCCC
T ss_pred             ccccchhcccccccccccC----ccccccccccceeecccCCCc
Confidence            3444445555555444333    3 4445555555555555544

>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=99.31  E-value=7.3e-13  Score=83.32  Aligned_cols=92  Identities=18%  Similarity=0.168  Sum_probs=67.9

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ   81 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~   81 (104)
                      |..+..+++++.+++++|.+.+. + ..+..+++++.|++++|++  .+..|..++.+++|+.|++++|++++.+    |
T Consensus       214 ~~~~~~~~~l~~l~~~~~~l~~~-~-~~~~~~~~L~~L~Ls~N~l--~g~iP~~l~~L~~L~~L~Ls~N~l~g~i----P  285 (313)
T d1ogqa_         214 SVLFGSDKNTQKIHLAKNSLAFD-L-GKVGLSKNLNGLDLRNNRI--YGTLPQGLTQLKFLHSLNVSFNNLCGEI----P  285 (313)
T ss_dssp             GGGCCTTSCCSEEECCSSEECCB-G-GGCCCCTTCCEEECCSSCC--EECCCGGGGGCTTCCEEECCSSEEEEEC----C
T ss_pred             ccccccccccccccccccccccc-c-cccccccccccccCccCee--cccCChHHhCCCCCCEEECcCCcccccC----C
Confidence            44556677888888888887743 3 4566777888888888888  5567777888888888888888887766    6


Q ss_pred             ccCCCCCCcEEEcCCCC-CCC
Q 040978           82 ELHNFTNLEYLKLNDSP-LHI  101 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n~-~~~  101 (104)
                      .+..+++|+.+++++|+ +.|
T Consensus       286 ~~~~L~~L~~l~l~~N~~l~g  306 (313)
T d1ogqa_         286 QGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             CSTTGGGSCGGGTCSSSEEES
T ss_pred             CcccCCCCCHHHhCCCccccC
Confidence            55677788888888876 454

>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=99.31  E-value=1.1e-11  Score=77.07  Aligned_cols=89  Identities=20%  Similarity=0.227  Sum_probs=50.3

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELH   84 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~   84 (104)
                      ..+.+|+.+++++|.+.+..+ ..+..+++++.|++++|++  ....+..|..+++|+.+++++|.+.+..    | .|.
T Consensus       126 ~~~~~L~~l~l~~N~l~~i~~-~~f~~~~~L~~L~l~~N~l--~~l~~~~f~~l~~L~~l~l~~N~l~~i~----~~~f~  198 (284)
T d1ozna_         126 RGLAALQYLYLQDNALQALPD-DTFRDLGNLTHLFLHGNRI--SSVPERAFRGLHSLDRLLLHQNRVAHVH----PHAFR  198 (284)
T ss_dssp             TTCTTCCEEECCSSCCCCCCT-TTTTTCTTCCEEECCSSCC--CEECTTTTTTCTTCCEEECCSSCCCEEC----TTTTT
T ss_pred             chhcccchhhhccccccccCh-hHhccccchhhcccccCcc--cccchhhhccccccchhhhhhccccccC----hhHhh
Confidence            344555555555555552222 4455555566666666665  3333445555666666666666665554    5 666


Q ss_pred             CCCCCcEEEcCCCCCCC
Q 040978           85 NFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~~~  101 (104)
                      .+++|+++++++|.+.+
T Consensus       199 ~l~~L~~L~l~~N~i~~  215 (284)
T d1ozna_         199 DLGRLMTLYLFANNLSA  215 (284)
T ss_dssp             TCTTCCEEECCSSCCSC
T ss_pred             hhhhccccccccccccc
Confidence            66667777777666654

>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=99.26  E-value=3.1e-11  Score=74.41  Aligned_cols=88  Identities=19%  Similarity=0.267  Sum_probs=70.4

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      +..+.++++|++++|.+.. ++...+..++.++.+++++|++  ....+..|..+++|+.|++++|.++ .+    | .+
T Consensus       120 ~~~l~~l~~L~l~~n~l~~-l~~~~~~~l~~l~~l~l~~N~l--~~~~~~~~~~l~~L~~L~Ls~N~L~-~l----p~~~  191 (266)
T d1p9ag_         120 LRGLGELQELYLKGNELKT-LPPGLLTPTPKLEKLSLANNNL--TELPAGLLNGLENLDTLLLQENSLY-TI----PKGF  191 (266)
T ss_dssp             TTTCTTCCEEECTTSCCCC-CCTTTTTTCTTCCEEECTTSCC--SCCCTTTTTTCTTCCEEECCSSCCC-CC----CTTT
T ss_pred             cccccccccccccccccce-eccccccccccchhcccccccc--cccCccccccccccceeecccCCCc-cc----ChhH
Confidence            4556667777777777763 3325667788999999999999  5555567888999999999999999 56    7 78


Q ss_pred             CCCCCCcEEEcCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~  100 (104)
                      ..+++|+.+++++|++.
T Consensus       192 ~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         192 FGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             TTTCCCSEEECCSCCBC
T ss_pred             CCCCCCCEEEecCCCCC
Confidence            88999999999999875

>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=99.25  E-value=5e-11  Score=68.50  Aligned_cols=88  Identities=15%  Similarity=0.109  Sum_probs=74.3

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCC-cccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-cc
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRV-GVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-EL   83 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~-~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~   83 (104)
                      ..+...+.++.+++... ..| ..+..+++++.|++.++ .+  ....+..|..+++|+.|++++|+++...    + .|
T Consensus         5 C~c~~~~~l~c~~~~~~-~~p-~~l~~l~~l~~L~l~~n~~l--~~i~~~~f~~l~~L~~L~Ls~N~l~~i~----~~~f   76 (156)
T d2ifga3           5 CCPHGSSGLRCTRDGAL-DSL-HHLPGAENLTELYIENQQHL--QHLELRDLRGLGELRNLTIVKSGLRFVA----PDAF   76 (156)
T ss_dssp             SCCSSSSCEECCSSCCC-TTT-TTSCSCSCCSEEECCSCSSC--CEECGGGSCSCCCCSEEECCSSCCCEEC----TTGG
T ss_pred             CCcCCCCeEEecCCCCc-cCc-ccccCccccCeeecCCCccc--cccCchhhccccccCcceeeccccCCcc----cccc
Confidence            45566778888888887 567 78889999999999766 48  4555667999999999999999999776    6 89


Q ss_pred             CCCCCCcEEEcCCCCCCC
Q 040978           84 HNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        84 ~~~~~L~~l~l~~n~~~~  101 (104)
                      ..+++|++|++++|.++.
T Consensus        77 ~~l~~L~~L~Ls~N~l~~   94 (156)
T d2ifga3          77 HFTPRLSRLNLSFNALES   94 (156)
T ss_dssp             GSCSCCCEEECCSSCCSC
T ss_pred             cccccccceeccCCCCcc
Confidence            999999999999999874

>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=99.20  E-value=6.7e-11  Score=73.90  Aligned_cols=95  Identities=20%  Similarity=0.271  Sum_probs=62.6

Q ss_pred             ccccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccc--c
Q 040978            2 FAEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTI--T   79 (104)
Q Consensus         2 ~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~--~   79 (104)
                      +..|..++.+++|++++|.+.+..+ ..+.++++|+.|++++|++   ..+|..+..+++|+.|++++|+++.....  .
T Consensus       188 ~~~~~~~~~l~~L~~s~n~l~~~~~-~~~~~l~~L~~L~L~~N~L---~~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~  263 (305)
T d1xkua_         188 AASLKGLNNLAKLGLSFNSISAVDN-GSLANTPHLRELHLNNNKL---VKVPGGLADHKYIQVVYLHNNNISAIGSNDFC  263 (305)
T ss_dssp             TGGGTTCTTCCEEECCSSCCCEECT-TTGGGSTTCCEEECCSSCC---SSCCTTTTTCSSCCEEECCSSCCCCCCTTSSS
T ss_pred             hhHhhcccccccccccccccccccc-ccccccccceeeecccccc---cccccccccccCCCEEECCCCccCccChhhcc
Confidence            3456677777788888777774434 6677777788888888877   34566677778888888888877643200  0


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      -+ ......+|+.+++.+|++.
T Consensus       264 ~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         264 PPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             CSSCCTTSCCCSEEECCSSSSC
T ss_pred             CcchhcccCCCCEEECCCCcCc
Confidence            01 2234567778888887764

>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=99.17  E-value=9e-11  Score=73.30  Aligned_cols=86  Identities=22%  Similarity=0.291  Sum_probs=69.6

Q ss_pred             CCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCC
Q 040978            8 FNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNF   86 (104)
Q Consensus         8 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~   86 (104)
                      +++++.|++++|......+ ..+..++.++.|++++|.+  ....+..+..+++|+.|++++|+++ ..    | .+..+
T Consensus       170 ~~~L~~L~l~~n~~~~~~~-~~~~~~~~l~~L~~s~n~l--~~~~~~~~~~l~~L~~L~L~~N~L~-~l----p~~l~~l  241 (305)
T d1xkua_         170 PPSLTELHLDGNKITKVDA-ASLKGLNNLAKLGLSFNSI--SAVDNGSLANTPHLRELHLNNNKLV-KV----PGGLADH  241 (305)
T ss_dssp             CTTCSEEECTTSCCCEECT-GGGTTCTTCCEEECCSSCC--CEECTTTGGGSTTCCEEECCSSCCS-SC----CTTTTTC
T ss_pred             CCccCEEECCCCcCCCCCh-hHhhccccccccccccccc--cccccccccccccceeeeccccccc-cc----ccccccc
Confidence            5678888888888775555 6778888899999999988  4555667778899999999999888 44    6 88889


Q ss_pred             CCCcEEEcCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~  101 (104)
                      ++|++|++++|.++.
T Consensus       242 ~~L~~L~Ls~N~i~~  256 (305)
T d1xkua_         242 KYIQVVYLHNNNISA  256 (305)
T ss_dssp             SSCCEEECCSSCCCC
T ss_pred             cCCCEEECCCCccCc
Confidence            999999999998764

>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=99.13  E-value=1.4e-10  Score=73.92  Aligned_cols=82  Identities=28%  Similarity=0.425  Sum_probs=57.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccccc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQEL   83 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~   83 (104)
                      .+..++++++|++++|.+.+ .+  .+..+++|+.|++++|++  + ..+ .+..+++|+.|++++|++++..     .+
T Consensus       302 ~~~~~~~l~~L~ls~n~l~~-l~--~l~~l~~L~~L~L~~n~l--~-~l~-~l~~l~~L~~L~l~~N~l~~l~-----~l  369 (384)
T d2omza2         302 PISNLKNLTYLTLYFNNISD-IS--PVSSLTKLQRLFFANNKV--S-DVS-SLANLTNINWLSAGHNQISDLT-----PL  369 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCSC-CG--GGGGCTTCCEEECCSSCC--C-CCG-GGGGCTTCCEEECCSSCCCBCG-----GG
T ss_pred             ccchhcccCeEECCCCCCCC-Cc--ccccCCCCCEEECCCCCC--C-CCh-hHcCCCCCCEEECCCCcCCCCh-----hh
Confidence            35566777788888887773 32  366777888888888877  2 233 4667778888888888877555     46


Q ss_pred             CCCCCCcEEEcCCC
Q 040978           84 HNFTNLEYLKLNDS   97 (104)
Q Consensus        84 ~~~~~L~~l~l~~n   97 (104)
                      ..+++|+.|++++|
T Consensus       370 ~~l~~L~~L~L~~N  383 (384)
T d2omza2         370 ANLTRITQLGLNDQ  383 (384)
T ss_dssp             TTCTTCSEEECCCE
T ss_pred             ccCCCCCEeeCCCC
Confidence            77778888888776

>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=99.11  E-value=5.4e-10  Score=66.14  Aligned_cols=83  Identities=24%  Similarity=0.414  Sum_probs=44.9

Q ss_pred             cCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccC
Q 040978            5 FNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELH   84 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~   84 (104)
                      +..+++|++|++++|.+.+ .+  .+.++++|+.|++++|.+   ...+ .+..++.|+.++++++......     .+.
T Consensus        58 l~~l~nL~~L~Ls~N~l~~-~~--~l~~l~~L~~L~l~~n~~---~~~~-~l~~l~~L~~L~l~~~~~~~~~-----~~~  125 (199)
T d2omxa2          58 VEYLNNLTQINFSNNQLTD-IT--PLKNLTKLVDILMNNNQI---ADIT-PLANLTNLTGLTLFNNQITDID-----PLK  125 (199)
T ss_dssp             GGGCTTCCEEECCSSCCCC-CG--GGTTCTTCCEEECCSSCC---CCCG-GGTTCTTCSEEECCSSCCCCCG-----GGT
T ss_pred             cccCCCcCcCccccccccC-cc--cccCCccccccccccccc---cccc-cccccccccccccccccccccc-----ccc
Confidence            4556777777777777663 32  256666777777776665   2222 2445555555555555544222     334


Q ss_pred             CCCCCcEEEcCCCCC
Q 040978           85 NFTNLEYLKLNDSPL   99 (104)
Q Consensus        85 ~~~~L~~l~l~~n~~   99 (104)
                      .+++|+.+++++|.+
T Consensus       126 ~l~~L~~L~l~~n~l  140 (199)
T d2omxa2         126 NLTNLNRLELSSNTI  140 (199)
T ss_dssp             TCTTCSEEECCSSCC
T ss_pred             hhhhhHHhhhhhhhh
Confidence            444455555544443

>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=99.08  E-value=1.3e-09  Score=64.44  Aligned_cols=63  Identities=29%  Similarity=0.426  Sum_probs=37.6

Q ss_pred             cCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCCC
Q 040978           30 YSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        30 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++|+.+++++|.+  . .. ..+..+++++.+++.+|.+++..     .++.+++|++|++++|.++.
T Consensus       124 ~~~l~~L~~L~l~~n~l--~-~~-~~l~~~~~L~~L~l~~n~l~~l~-----~l~~l~~L~~L~ls~N~i~~  186 (199)
T d2omxa2         124 LKNLTNLNRLELSSNTI--S-DI-SALSGLTSLQQLNFSSNQVTDLK-----PLANLTTLERLDISSNKVSD  186 (199)
T ss_dssp             GTTCTTCSEEECCSSCC--C-CC-GGGTTCTTCSEEECCSSCCCCCG-----GGTTCTTCCEEECCSSCCCC
T ss_pred             cchhhhhHHhhhhhhhh--c-cc-ccccccccccccccccccccCCc-----cccCCCCCCEEECCCCCCCC
Confidence            34455555555555555  1 11 23445556666666666665332     56778888888888887764

>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=99.02  E-value=2.2e-09  Score=63.95  Aligned_cols=63  Identities=22%  Similarity=0.269  Sum_probs=44.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCC
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFT   73 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~   73 (104)
                      .+..+++|++|++++|.+.+ .+  .+..+++|+.|++++|++  + ..+ .+..+++|+.+++.+|.+.
T Consensus        63 ~l~~l~~L~~L~L~~n~i~~-l~--~~~~l~~L~~L~l~~n~i--~-~l~-~l~~l~~L~~L~l~~~~~~  125 (210)
T d1h6ta2          63 GIQYLPNVTKLFLNGNKLTD-IK--PLANLKNLGWLFLDENKV--K-DLS-SLKDLKKLKSLSLEHNGIS  125 (210)
T ss_dssp             TGGGCTTCCEEECCSSCCCC-CG--GGTTCTTCCEEECCSSCC--C-CGG-GGTTCTTCCEEECTTSCCC
T ss_pred             hHhhCCCCCEEeCCCccccC-cc--ccccCccccccccccccc--c-ccc-ccccccccccccccccccc
Confidence            35667888888888888774 32  356777888888888887  2 333 4666777777777777665

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.99  E-value=1.2e-09  Score=65.72  Aligned_cols=77  Identities=22%  Similarity=0.390  Sum_probs=36.9

Q ss_pred             CCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCC
Q 040978            6 NSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHN   85 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~   85 (104)
                      ..+++|+.|++++|.+.+ .  ..+.++++|+.|++++|++  .. .+ .+..+++|+.|++++|++++..     .+..
T Consensus       148 ~~~~~L~~L~l~~n~~~~-~--~~l~~l~~L~~L~Ls~n~l--~~-l~-~l~~l~~L~~L~Ls~N~lt~i~-----~l~~  215 (227)
T d1h6ua2         148 AGLTNLQYLSIGNAQVSD-L--TPLANLSKLTTLKADDNKI--SD-IS-PLASLPNLIEVHLKNNQISDVS-----PLAN  215 (227)
T ss_dssp             GGCTTCCEEECCSSCCCC-C--GGGTTCTTCCEEECCSSCC--CC-CG-GGGGCTTCCEEECTTSCCCBCG-----GGTT
T ss_pred             cccccccccccccccccc-c--hhhcccccceecccCCCcc--CC-Ch-hhcCCCCCCEEECcCCcCCCCc-----cccc
Confidence            444555555555555442 1  1244555555555555555  11 21 2444555555555555554332     3445


Q ss_pred             CCCCcEEEc
Q 040978           86 FTNLEYLKL   94 (104)
Q Consensus        86 ~~~L~~l~l   94 (104)
                      +++|+.+++
T Consensus       216 l~~L~~L~l  224 (227)
T d1h6ua2         216 TSNLFIVTL  224 (227)
T ss_dssp             CTTCCEEEE
T ss_pred             CCCCCEEEe
Confidence            555555554

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.99  E-value=7.3e-13  Score=79.05  Aligned_cols=89  Identities=28%  Similarity=0.422  Sum_probs=50.9

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCC--------------------chhhhhcCCCCCc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDG--------------------SKLLQSMGSFPSL   62 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~--------------------~~~~~~~~~l~~L   62 (104)
                      ..+..+++|++|++++|.+. .++  .+..+++|+.|++++|.+++-                    ... ..+..+++|
T Consensus        42 ~sl~~L~~L~~L~Ls~n~I~-~i~--~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l-~~~~~l~~L  117 (198)
T d1m9la_          42 ATLSTLKACKHLALSTNNIE-KIS--SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASL-SGIEKLVNL  117 (198)
T ss_dssp             HHHHHTTTCCEEECSEEEES-CCC--CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCH-HHHHHHHHS
T ss_pred             hHHhcccccceeECcccCCC-Ccc--cccCCccccChhhccccccccccccccccccccccccccccccc-ccccccccc
Confidence            34555666777777777666 332  355566666666666665210                    111 112334555


Q ss_pred             cEEeccCCcCCcccccccc--ccCCCCCCcEEEcCCCCC
Q 040978           63 NNLYLSSNNFTETVTITTQ--ELHNFTNLEYLKLNDSPL   99 (104)
Q Consensus        63 ~~l~l~~n~~~~~~~~~~~--~~~~~~~L~~l~l~~n~~   99 (104)
                      +.|++++|.+....    .  .+..+++|+.|++++|++
T Consensus       118 ~~L~L~~N~i~~~~----~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         118 RVLYMSNNKITNWG----EIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             SEEEESEEECCCHH----HHHHHTTTTTCSEEEECSSHH
T ss_pred             cccccccchhcccc----ccccccCCCccceeecCCCcc
Confidence            66666666665332    2  467778888888888765

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.93  E-value=3.6e-09  Score=67.21  Aligned_cols=83  Identities=18%  Similarity=0.320  Sum_probs=69.2

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNF   86 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~   86 (104)
                      .+.++++|+++++.+.+ +  ..+..+++|++|++++|++  + ..+ .+..+++|+.|++++|.+.+..     .++.+
T Consensus        42 ~l~~l~~L~l~~~~I~~-l--~gl~~L~nL~~L~Ls~N~l--~-~l~-~l~~L~~L~~L~L~~n~i~~i~-----~l~~l  109 (384)
T d2omza2          42 DLDQVTTLQADRLGIKS-I--DGVEYLNNLTQINFSNNQL--T-DIT-PLKNLTKLVDILMNNNQIADIT-----PLANL  109 (384)
T ss_dssp             HHTTCCEEECCSSCCCC-C--TTGGGCTTCCEEECCSSCC--C-CCG-GGTTCTTCCEEECCSSCCCCCG-----GGTTC
T ss_pred             HhCCCCEEECCCCCCCC-c--cccccCCCCCEEeCcCCcC--C-CCc-cccCCccccccccccccccccc-----ccccc
Confidence            35689999999999983 3  4677899999999999999  3 343 3888999999999999998654     57899


Q ss_pred             CCCcEEEcCCCCCCC
Q 040978           87 TNLEYLKLNDSPLHI  101 (104)
Q Consensus        87 ~~L~~l~l~~n~~~~  101 (104)
                      ++|+.+++.++.+++
T Consensus       110 ~~L~~L~~~~~~~~~  124 (384)
T d2omza2         110 TNLTGLTLFNNQITD  124 (384)
T ss_dssp             TTCCEEECCSSCCCC
T ss_pred             ccccccccccccccc
Confidence            999999999888765

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.91  E-value=4e-12  Score=75.77  Aligned_cols=80  Identities=24%  Similarity=0.336  Sum_probs=52.0

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCch-hhhhcCCCCCccEEeccCCcCCccccc--cc----c
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSK-LLQSMGSFPSLNNLYLSSNNFTETVTI--TT----Q   81 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~-~~~~~~~l~~L~~l~l~~n~~~~~~~~--~~----~   81 (104)
                      ++|++|++++|.+. .+  ..+..+++|+.|++++|++  ... ....+..+++|+.|++++|.+......  ..    .
T Consensus        93 ~~L~~L~l~~N~i~-~l--~~~~~l~~L~~L~L~~N~i--~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~  167 (198)
T d1m9la_          93 DTLEELWISYNQIA-SL--SGIEKLVNLRVLYMSNNKI--TNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRI  167 (198)
T ss_dssp             HHCCEEECSEEECC-CH--HHHHHHHHSSEEEESEEEC--CCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHH
T ss_pred             cccccccccccccc-cc--ccccccccccccccccchh--ccccccccccCCCccceeecCCCccccCcccccchhhHHH
Confidence            34555555555555 22  2345567788999998888  332 124688999999999999988644300  00    0


Q ss_pred             -ccCCCCCCcEEE
Q 040978           82 -ELHNFTNLEYLK   93 (104)
Q Consensus        82 -~~~~~~~L~~l~   93 (104)
                       .+..+++|+.||
T Consensus       168 ~vi~~lp~L~~LD  180 (198)
T d1m9la_         168 EVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHCSSCCEES
T ss_pred             HHHHHCCCcCEeC
Confidence             146789999887

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.89  E-value=1e-08  Score=61.04  Aligned_cols=90  Identities=26%  Similarity=0.371  Sum_probs=56.1

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCch------------------hhhhcCCCCCccEE
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSK------------------LLQSMGSFPSLNNL   65 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~------------------~~~~~~~l~~L~~l   65 (104)
                      .++.+++|++|++++|.+. .++  .+..+++|+.+++.++.+++-..                  .+..+..+++|+.+
T Consensus        85 ~~~~l~~L~~L~l~~n~i~-~l~--~l~~l~~L~~L~l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l  161 (210)
T d1h6ta2          85 PLANLKNLGWLFLDENKVK-DLS--SLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTL  161 (210)
T ss_dssp             GGTTCTTCCEEECCSSCCC-CGG--GGTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             ccccCcccccccccccccc-ccc--ccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3566777888888777776 333  46667777777777766511000                  01123345666777


Q ss_pred             eccCCcCCccccccccccCCCCCCcEEEcCCCCCCC
Q 040978           66 YLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        66 ~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  101 (104)
                      ++++|.+.+..     .+..+++|+.|++++|.++.
T Consensus       162 ~l~~n~l~~i~-----~l~~l~~L~~L~Ls~N~i~~  192 (210)
T d1h6ta2         162 SLEDNQISDIV-----PLAGLTKLQNLYLSKNHISD  192 (210)
T ss_dssp             ECCSSCCCCCG-----GGTTCTTCCEEECCSSCCCB
T ss_pred             ccccccccccc-----cccCCCCCCEEECCCCCCCC
Confidence            77777666433     56778888888888887753

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.87  E-value=1.7e-08  Score=60.52  Aligned_cols=63  Identities=19%  Similarity=0.341  Sum_probs=50.4

Q ss_pred             cCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCCCcEEEcCCCCCCC
Q 040978           30 YSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTNLEYLKLNDSPLHI  101 (104)
Q Consensus        30 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~L~~l~l~~n~~~~  101 (104)
                      +..+++++.+++++|.+  ...  ..+..+++|+.|++++|.+.+..     .++.+++|++|++++|.+++
T Consensus       147 ~~~~~~L~~L~l~~n~~--~~~--~~l~~l~~L~~L~Ls~n~l~~l~-----~l~~l~~L~~L~Ls~N~lt~  209 (227)
T d1h6ua2         147 LAGLTNLQYLSIGNAQV--SDL--TPLANLSKLTTLKADDNKISDIS-----PLASLPNLIEVHLKNNQISD  209 (227)
T ss_dssp             GGGCTTCCEEECCSSCC--CCC--GGGTTCTTCCEEECCSSCCCCCG-----GGGGCTTCCEEECTTSCCCB
T ss_pred             hcccccccccccccccc--ccc--hhhcccccceecccCCCccCCCh-----hhcCCCCCCEEECcCCcCCC
Confidence            45567788999988887  322  23778899999999999988544     57889999999999999875

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=4.7e-09  Score=63.28  Aligned_cols=86  Identities=19%  Similarity=0.393  Sum_probs=65.5

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchh-hhhcCCCCCccEEeccC-CcCCcccccccc-ccCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKL-LQSMGSFPSLNNLYLSS-NNFTETVTITTQ-ELHN   85 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~-~~~~~~l~~L~~l~l~~-n~~~~~~~~~~~-~~~~   85 (104)
                      .++++|++++|.+. .++...|.++++|+.+++++|.+  .... +..|..++.++.+.+.. +.+....    + .+..
T Consensus        29 ~~l~~L~Ls~n~i~-~l~~~~f~~l~~L~~L~ls~n~~--~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~----~~~~~~  101 (242)
T d1xwdc1          29 RNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDV--LEVIEADVFSNLPKLHEIRIEKANNLLYIN----PEAFQN  101 (242)
T ss_dssp             SCCSEEEEESCCCC-EECTTTTTTCTTCCEEEEESCTT--CCEECSSSEESCTTCCEEEEECCTTCCEEC----TTSEEC
T ss_pred             CCCCEEECcCCcCC-ccChhHhhccchhhhhhhccccc--cceeeccccccccccccccccccccccccc----cccccc
Confidence            47899999999998 55535688899999999999887  3333 34577788888887764 4555444    5 7788


Q ss_pred             CCCCcEEEcCCCCCCC
Q 040978           86 FTNLEYLKLNDSPLHI  101 (104)
Q Consensus        86 ~~~L~~l~l~~n~~~~  101 (104)
                      +++|+++++++|.+..
T Consensus       102 l~~L~~l~l~~~~l~~  117 (242)
T d1xwdc1         102 LPNLQYLLISNTGIKH  117 (242)
T ss_dssp             CTTCCEEEEESCCCCS
T ss_pred             cccccccccchhhhcc
Confidence            9999999999887754

>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=98.56  E-value=1.1e-08  Score=58.80  Aligned_cols=86  Identities=22%  Similarity=0.154  Sum_probs=57.2

Q ss_pred             CCCCCCCEEECCCCCCCCccc-cCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccc---ccc
Q 040978            6 NSFNNLELLDMSFNEINNLVV-PQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTI---TTQ   81 (104)
Q Consensus         6 ~~~~~L~~L~l~~n~~~~~~~-~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~---~~~   81 (104)
                      ..+++|++|++++|.++...+ ...+..+++|+.|++++|.+  ....+-.+.....|+.+++.+|.+....+.   -..
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i--~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~  139 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNEL--KSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYIS  139 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCC--CCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCcc--ccchhhhhhhccccceeecCCCCcCcCcccchhHHH
Confidence            458889999999999884321 03455688999999999998  332222233445688999999988754310   001


Q ss_pred             -ccCCCCCCcEEE
Q 040978           82 -ELHNFTNLEYLK   93 (104)
Q Consensus        82 -~~~~~~~L~~l~   93 (104)
                       .+..+++|+.||
T Consensus       140 ~i~~~~P~L~~LD  152 (162)
T d1koha1         140 AIRERFPKLLRLD  152 (162)
T ss_dssp             HHHTTSTTCCEET
T ss_pred             HHHHHCCCCCEEC
Confidence             356788888775

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=1.5e-07  Score=56.44  Aligned_cols=70  Identities=20%  Similarity=0.391  Sum_probs=55.9

Q ss_pred             ccCCCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCC-CcccCCchhhhhcCCCCCccEEeccCCcCCcc
Q 040978            4 EFNSFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSR-VGVRDGSKLLQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         4 ~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~-~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      .|.++++|++|++++|.+....+...|..++.++.+.+.. +++  ....+..|..+++|+.+++.++.+...
T Consensus        48 ~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l--~~~~~~~~~~l~~L~~l~l~~~~l~~~  118 (242)
T d1xwdc1          48 AFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNL--LYINPEAFQNLPNLQYLLISNTGIKHL  118 (242)
T ss_dssp             TTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTC--CEECTTSEECCTTCCEEEEESCCCCSC
T ss_pred             Hhhccchhhhhhhccccccceeeccccccccccccccccccccc--cccccccccccccccccccchhhhccc
Confidence            5788999999999999987555535678889999988754 566  455566788899999999999988743

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=5.5e-08  Score=60.21  Aligned_cols=86  Identities=23%  Similarity=0.243  Sum_probs=53.3

Q ss_pred             CCCCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCC-cCCcccccccc-ccC
Q 040978            7 SFNNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSN-NFTETVTITTQ-ELH   84 (104)
Q Consensus         7 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n-~~~~~~~~~~~-~~~   84 (104)
                      ....|++|+++++.+........+..+++|+.|++.++.+  +......+..+++|+.|+++++ .+++..   +. ...
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l--~~~~~~~l~~~~~L~~L~Ls~c~~itd~~---l~~l~~  118 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRL--SDPIVNTLAKNSNLVRLNLSGCSGFSEFA---LQTLLS  118 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBC--CHHHHHHHTTCTTCSEEECTTCBSCCHHH---HHHHHH
T ss_pred             cCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCC--CcHHHHHHhcCCCCcCccccccccccccc---cchhhH
Confidence            3456777777777765332113456677777777777777  4555666667777777777774 344221   01 334


Q ss_pred             CCCCCcEEEcCCC
Q 040978           85 NFTNLEYLKLNDS   97 (104)
Q Consensus        85 ~~~~L~~l~l~~n   97 (104)
                      .+++|++|+++++
T Consensus       119 ~~~~L~~L~ls~c  131 (284)
T d2astb2         119 SCSRLDELNLSWC  131 (284)
T ss_dssp             HCTTCCEEECCCC
T ss_pred             HHHhccccccccc
Confidence            6677777777764

>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=98.45  E-value=3.2e-08  Score=56.75  Aligned_cols=68  Identities=24%  Similarity=0.224  Sum_probs=52.2

Q ss_pred             CCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCcccccccc-ccCCCCCCcEEEcCCCCCCCC
Q 040978           31 SGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQ-ELHNFTNLEYLKLNDSPLHIS  102 (104)
Q Consensus        31 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~-~~~~~~~L~~l~l~~n~~~~~  102 (104)
                      ..+++|+.|++++|++++-...+..+..+++|+.|++++|.+....    + .......|+.+++.+|++...
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~----~l~~l~~~~L~~L~L~~Npl~~~  130 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER----ELDKIKGLKLEELWLDGNSLSDT  130 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGG----GHHHHTTCCCSSCCCTTSTTSSS
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccch----hhhhhhccccceeecCCCCcCcC
Confidence            3478899999999999321233455677899999999999999665    4 444556799999999998753

>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=98.42  E-value=1.7e-06  Score=53.79  Aligned_cols=76  Identities=26%  Similarity=0.312  Sum_probs=47.6

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCC-CCccEEeccCCcCCccccccccccCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSF-PSLNNLYLSSNNFTETVTITTQELHNFT   87 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l-~~L~~l~l~~n~~~~~~~~~~~~~~~~~   87 (104)
                      ++|++|++++|.++ .+| ..   +.+|+.|++.+|++   ..++    .+ +.|++|++++|.+...     |.+..++
T Consensus        58 ~~L~~L~Ls~N~l~-~lp-~~---~~~L~~L~l~~n~l---~~l~----~lp~~L~~L~L~~n~l~~l-----p~~~~l~  120 (353)
T d1jl5a_          58 PHLESLVASCNSLT-ELP-EL---PQSLKSLLVDNNNL---KALS----DLPPLLEYLGVSNNQLEKL-----PELQNSS  120 (353)
T ss_dssp             TTCSEEECCSSCCS-SCC-CC---CTTCCEEECCSSCC---SCCC----SCCTTCCEEECCSSCCSSC-----CCCTTCT
T ss_pred             CCCCEEECCCCCCc-ccc-cc---hhhhhhhhhhhccc---chhh----hhccccccccccccccccc-----cchhhhc
Confidence            46667777776666 445 32   34566666666666   2221    22 3577888888877633     4456778


Q ss_pred             CCcEEEcCCCCCCC
Q 040978           88 NLEYLKLNDSPLHI  101 (104)
Q Consensus        88 ~L~~l~l~~n~~~~  101 (104)
                      .|+++++.++.+.+
T Consensus       121 ~L~~L~l~~~~~~~  134 (353)
T d1jl5a_         121 FLKIIDVDNNSLKK  134 (353)
T ss_dssp             TCCEEECCSSCCSC
T ss_pred             cceeeccccccccc
Confidence            88888888877654

>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=98.31  E-value=2.2e-07  Score=58.57  Aligned_cols=93  Identities=18%  Similarity=0.270  Sum_probs=44.3

Q ss_pred             cCCCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCchhhh----hcC--CCCCccEEeccCCcCCc
Q 040978            5 FNSFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKLLQ----SMG--SFPSLNNLYLSSNNFTE   74 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~----~~~--~l~~L~~l~l~~n~~~~   74 (104)
                      +..+++|+.|++++|.+...    +. ..+..+++|+.|++++|.+  +.....    .+.  ....|+.|++++|.+..
T Consensus       211 l~~~~~L~~L~Ls~N~i~~~g~~~L~-~~l~~~~~L~~L~Ls~n~i--~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~  287 (344)
T d2ca6a1         211 LAYCQELKVLDLQDNTFTHLGSSALA-IALKSWPNLRELGLNDCLL--SARGAAAVVDAFSKLENIGLQTLRLQYNEIEL  287 (344)
T ss_dssp             GGGCTTCCEEECCSSCCHHHHHHHHH-HHGGGCTTCCEEECTTCCC--CHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             hcchhhhccccccccccccccccccc-ccccccccchhhhhhcCcc--CchhhHHHHHHhhhccCCCCCEEECCCCcCCh
Confidence            34455666666666655421    11 2334555666666666666  322111    121  12446666666666553


Q ss_pred             ccccccc-cc-CCCCCCcEEEcCCCCCC
Q 040978           75 TVTITTQ-EL-HNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        75 ~~~~~~~-~~-~~~~~L~~l~l~~n~~~  100 (104)
                      ..-..+. .+ ..++.|+.+++++|.+.
T Consensus       288 ~~~~~l~~~l~~~~~~L~~L~l~~N~~~  315 (344)
T d2ca6a1         288 DAVRTLKTVIDEKMPDLLFLELNGNRFS  315 (344)
T ss_dssp             HHHHHHHHHHHHHCTTCCEEECTTSBSC
T ss_pred             HHHHHHHHHHHccCCCCCEEECCCCcCC
Confidence            2100001 22 24556666666666654

>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=98.29  E-value=2.7e-06  Score=52.83  Aligned_cols=75  Identities=21%  Similarity=0.197  Sum_probs=58.2

Q ss_pred             CCCCEEECCCCCCCCccccCccCCCCCCCEEeCCCCcccCCchhhhhcCCCCCccEEeccCCcCCccccccccccCCCCC
Q 040978            9 NNLELLDMSFNEINNLVVPQGYSGLRKLKSLDLSRVGVRDGSKLLQSMGSFPSLNNLYLSSNNFTETVTITTQELHNFTN   88 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~~~~~~~~   88 (104)
                      .+++.|+++++.++ .+| .   ..++|+.|++++|++   ..+|..   +.+|+.|++.+|.+....       ...+.
T Consensus        38 ~~l~~LdLs~~~L~-~lp-~---~~~~L~~L~Ls~N~l---~~lp~~---~~~L~~L~l~~n~l~~l~-------~lp~~   99 (353)
T d1jl5a_          38 RQAHELELNNLGLS-SLP-E---LPPHLESLVASCNSL---TELPEL---PQSLKSLLVDNNNLKALS-------DLPPL   99 (353)
T ss_dssp             HTCSEEECTTSCCS-CCC-S---CCTTCSEEECCSSCC---SSCCCC---CTTCCEEECCSSCCSCCC-------SCCTT
T ss_pred             cCCCEEEeCCCCCC-CCC-C---CCCCCCEEECCCCCC---cccccc---hhhhhhhhhhhcccchhh-------hhccc
Confidence            46889999999998 677 4   356899999999999   455653   457999999999887332       12246


Q ss_pred             CcEEEcCCCCCCC
Q 040978           89 LEYLKLNDSPLHI  101 (104)
Q Consensus        89 L~~l~l~~n~~~~  101 (104)
                      |++|++++|.+..
T Consensus       100 L~~L~L~~n~l~~  112 (353)
T d1jl5a_         100 LEYLGVSNNQLEK  112 (353)
T ss_dssp             CCEEECCSSCCSS
T ss_pred             ccccccccccccc
Confidence            9999999998764

>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=98.29  E-value=6.1e-08  Score=62.29  Aligned_cols=93  Identities=16%  Similarity=0.166  Sum_probs=63.0

Q ss_pred             cCCCCCCCEEECCCCCCCCc----cccCccCCCCCCCEEeCCCCcccCCchh----hhhcC-CCCCccEEeccCCcCCcc
Q 040978            5 FNSFNNLELLDMSFNEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKL----LQSMG-SFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~----~~~~~-~l~~L~~l~l~~n~~~~~   75 (104)
                      +..+++++.|++++|.+++.    +. ..+..+++|+.|++++|.+  +...    ...+. ...+|+.|++++|.+++.
T Consensus        23 ~~~l~~l~~L~L~~~~i~~~~~~~l~-~~L~~~~~L~~LdLs~N~i--~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~   99 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNEL--GDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGA   99 (460)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCC--HHHHHHHHHHTTCSTTCCCCEEECTTSCCBGG
T ss_pred             HHhCCCCCEEEeCCCCCCHHHHHHHH-HHHhcCCCCCEEECcCCcC--ChHHHHHHHHHHhcCCCCCCEEECCCCCcccc
Confidence            34567888999999988732    22 3456778899999999988  3221    22222 234789999999988743


Q ss_pred             cccccc-ccCCCCCCcEEEcCCCCCC
Q 040978           76 VTITTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        76 ~~~~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      ....++ .+..+++|+.+++++|.+.
T Consensus       100 ~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1         100 GCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             GHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             ccccccchhhccccccccccccccch
Confidence            201113 5678889999999998764

>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=98.24  E-value=4.5e-07  Score=57.12  Aligned_cols=93  Identities=23%  Similarity=0.279  Sum_probs=61.1

Q ss_pred             cCCCCCCCEEECCCCCCCCc-----cccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCcc
Q 040978            5 FNSFNNLELLDMSFNEINNL-----VVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTET   75 (104)
Q Consensus         5 ~~~~~~L~~L~l~~n~~~~~-----~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~   75 (104)
                      +..+.+++.|++++|.+...     .. ..+..+++|+.|++++|.+  +..    +...+..+++|+.|++++|.+.+.
T Consensus       182 l~~~~~L~~L~L~~n~i~~~g~~~~l~-~~l~~~~~L~~L~Ls~N~i--~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~  258 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQNGIRPEGIEHLLL-EGLAYCQELKVLDLQDNTF--THLGSSALAIALKSWPNLRELGLNDCLLSAR  258 (344)
T ss_dssp             HHHCTTCCEEECCSSCCCHHHHHHHHH-TTGGGCTTCCEEECCSSCC--HHHHHHHHHHHGGGCTTCCEEECTTCCCCHH
T ss_pred             hhhhhhhcccccccccccccccccchh-hhhcchhhhcccccccccc--cccccccccccccccccchhhhhhcCccCch
Confidence            44567888888888887632     22 3456677888888888887  332    234556778888888888888743


Q ss_pred             cccccc-ccC--CCCCCcEEEcCCCCCC
Q 040978           76 VTITTQ-ELH--NFTNLEYLKLNDSPLH  100 (104)
Q Consensus        76 ~~~~~~-~~~--~~~~L~~l~l~~n~~~  100 (104)
                      .-..+. .+.  ....|+.|++++|.+.
T Consensus       259 g~~~l~~~l~~~~~~~L~~L~ls~N~i~  286 (344)
T d2ca6a1         259 GAAAVVDAFSKLENIGLQTLRLQYNEIE  286 (344)
T ss_dssp             HHHHHHHHHHTCSSCCCCEEECCSSCCB
T ss_pred             hhHHHHHHhhhccCCCCCEEECCCCcCC
Confidence            200001 222  2457888898888764

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=2.7e-06  Score=52.41  Aligned_cols=83  Identities=19%  Similarity=0.163  Sum_probs=40.4

Q ss_pred             CCCCCEEECCCCC--CCCc-cccCccCCCCCCCEEeCCCC-cccCCchhhhhcCCCCCccEEeccCC-cCCcccccccc-
Q 040978            8 FNNLELLDMSFNE--INNL-VVPQGYSGLRKLKSLDLSRV-GVRDGSKLLQSMGSFPSLNNLYLSSN-NFTETVTITTQ-   81 (104)
Q Consensus         8 ~~~L~~L~l~~n~--~~~~-~~~~~~~~~~~L~~l~l~~~-~~~~~~~~~~~~~~l~~L~~l~l~~n-~~~~~~~~~~~-   81 (104)
                      +++|+.|+++++.  +.+. +. ..+..+++|+.|++++| .+  +......+..+++|++|+++++ .+++..    . 
T Consensus       147 ~~~L~~L~l~~~~~~i~~~~l~-~l~~~~~~L~~L~L~~~~~i--td~~~~~l~~~~~L~~L~L~~C~~i~~~~----l~  219 (284)
T d2astb2         147 SETITQLNLSGYRKNLQKSDLS-TLVRRCPNLVHLDLSDSVML--KNDCFQEFFQLNYLQHLSLSRCYDIIPET----LL  219 (284)
T ss_dssp             CTTCCEEECCSCGGGSCHHHHH-HHHHHCTTCSEEECTTCTTC--CGGGGGGGGGCTTCCEEECTTCTTCCGGG----GG
T ss_pred             ccccchhhhccccccccccccc-ccccccccccccccccccCC--CchhhhhhcccCcCCEEECCCCCCCChHH----HH
Confidence            3456666665542  2211 11 11234556666666554 34  2333444555566666666653 344332    3 


Q ss_pred             ccCCCCCCcEEEcCCC
Q 040978           82 ELHNFTNLEYLKLNDS   97 (104)
Q Consensus        82 ~~~~~~~L~~l~l~~n   97 (104)
                      .+..+++|+.|++.++
T Consensus       220 ~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         220 ELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGGCTTCCEEECTTS
T ss_pred             HHhcCCCCCEEeeeCC
Confidence            4455566666666554

>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=98.06  E-value=9.2e-07  Score=56.65  Aligned_cols=89  Identities=20%  Similarity=0.186  Sum_probs=38.7

Q ss_pred             CCCCEEECCCCCCCCccccCc----cCCCCCCCEEeCCCCcccCCch----hhhhcC-CCCCccEEeccCCcCCcccccc
Q 040978            9 NNLELLDMSFNEINNLVVPQG----YSGLRKLKSLDLSRVGVRDGSK----LLQSMG-SFPSLNNLYLSSNNFTETVTIT   79 (104)
Q Consensus         9 ~~L~~L~l~~n~~~~~~~~~~----~~~~~~L~~l~l~~~~~~~~~~----~~~~~~-~l~~L~~l~l~~n~~~~~~~~~   79 (104)
                      ..|+.++++++.+..... ..    +....+|+.|++++|.+  ...    ++..+. ....|+.|++++|.+++..-..
T Consensus       312 ~~L~~l~l~~~~l~~~~~-~~l~~~~~~~~~L~~L~Ls~N~i--~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~  388 (460)
T d1z7xw1         312 CQLESLWVKSCSFTAACC-SHFSSVLAQNRFLLELQISNNRL--EDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSS  388 (460)
T ss_dssp             CCCCEEECTTSCCBGGGH-HHHHHHHHHCSSCCEEECCSSBC--HHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHH
T ss_pred             cccccccccccchhhhhh-hhcccccccccchhhhheeeecc--cCcccchhhhhhhcccCCCCEEECCCCCCChHHHHH
Confidence            345555555555442211 11    12233455666665555  221    112222 2344556666666554321000


Q ss_pred             cc-ccCCCCCCcEEEcCCCCCC
Q 040978           80 TQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        80 ~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      +. .+..+++|++|++++|.++
T Consensus       389 l~~~l~~~~~L~~L~Ls~N~i~  410 (460)
T d1z7xw1         389 LAATLLANHSLRELDLSNNCLG  410 (460)
T ss_dssp             HHHHHHHCCCCCEEECCSSSCC
T ss_pred             HHHHHhcCCCCCEEECCCCcCC
Confidence            01 2344555666666665553

>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=98.04  E-value=4.6e-06  Score=47.68  Aligned_cols=92  Identities=12%  Similarity=0.198  Sum_probs=60.2

Q ss_pred             CCCCCCCEEECCCC-CCCCc----cccCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCccc
Q 040978            6 NSFNNLELLDMSFN-EINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTETV   76 (104)
Q Consensus         6 ~~~~~L~~L~l~~n-~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~~~   76 (104)
                      .+.++|+.|+++++ .+...    +- ..+....+|+.|++++|.+  ...    +...+...+.|+.|++++|.+....
T Consensus        12 ~n~~~L~~L~L~~~~~i~~~~~~~l~-~~L~~n~~L~~L~Ls~n~l--~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g   88 (167)
T d1pgva_          12 EDDTDLKEVNINNMKRVSKERIRSLI-EAACNSKHIEKFSLANTAI--SDSEARGLIELIETSPSLRVLNVESNFLTPEL   88 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHH-HHHTTCSCCCEEECTTSCC--BHHHHTTHHHHHHHCSSCCEEECCSSBCCHHH
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHHHH-HHHhhCCccceeecccccc--chhHHHHHhhhhhhcccccceeeehhhcchHH
Confidence            35688999999874 45532    12 2455667789999999888  432    2234445678899999999887431


Q ss_pred             ccccc-ccCCCCCCcEEEcCCCCCC
Q 040978           77 TITTQ-ELHNFTNLEYLKLNDSPLH  100 (104)
Q Consensus        77 ~~~~~-~~~~~~~L~~l~l~~n~~~  100 (104)
                      ...+- .+...++|+.|++.+|.+.
T Consensus        89 ~~~l~~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          89 LARLLRSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             HHHHHHHTTTTCCCSEEECCCCSSC
T ss_pred             HHHHHHHHHhCCcCCEEECCCCcCC
Confidence            00012 5667788999998887543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.69  E-value=1.8e-05  Score=45.13  Aligned_cols=93  Identities=10%  Similarity=0.049  Sum_probs=64.7

Q ss_pred             cccCCCCCCCEEECCCCCCCCccccC----ccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEeccCCcCCc
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVVPQ----GYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYLSSNNFTE   74 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~~~----~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l~~n~~~~   74 (104)
                      ..+...++|+.|++++|.+.+... .    .+...+.|+.|++++|.+  +..    +...+...++|+.|++.+|.+..
T Consensus        38 ~~L~~n~~L~~L~Ls~n~l~~~~~-~~la~~L~~n~~L~~L~L~~n~i--~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~  114 (167)
T d1pgva_          38 EAACNSKHIEKFSLANTAISDSEA-RGLIELIETSPSLRVLNVESNFL--TPELLARLLRSTLVTQSIVEFKADNQRQSV  114 (167)
T ss_dssp             HHHTTCSCCCEEECTTSCCBHHHH-TTHHHHHHHCSSCCEEECCSSBC--CHHHHHHHHHHTTTTCCCSEEECCCCSSCC
T ss_pred             HHHhhCCccceeeccccccchhHH-HHHhhhhhhcccccceeeehhhc--chHHHHHHHHHHHhCCcCCEEECCCCcCCC
Confidence            346678899999999999884322 2    234457899999999999  433    23356677899999999886552


Q ss_pred             ccc---cccc-ccCCCCCCcEEEcCCCC
Q 040978           75 TVT---ITTQ-ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        75 ~~~---~~~~-~~~~~~~L~~l~l~~n~   98 (104)
                      .-.   ..+. .+...++|+.++++.+.
T Consensus       115 ~g~~~~~~l~~~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_         115 LGNQVEMDMMMAIEENESLLRVGISFAS  142 (167)
T ss_dssp             CCHHHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             ccHHHHHHHHHHHHhCCCccEeeCcCCC
Confidence            210   0113 55567899999987764

>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=97.15  E-value=0.00034  Score=39.39  Aligned_cols=91  Identities=16%  Similarity=0.193  Sum_probs=52.9

Q ss_pred             CCCCCCCEEECCC-CCCCCc----cccCccCCCCCCCEEeCCCCcccCCchh----hhhcCCCCCccEEeccCCcCCccc
Q 040978            6 NSFNNLELLDMSF-NEINNL----VVPQGYSGLRKLKSLDLSRVGVRDGSKL----LQSMGSFPSLNNLYLSSNNFTETV   76 (104)
Q Consensus         6 ~~~~~L~~L~l~~-n~~~~~----~~~~~~~~~~~L~~l~l~~~~~~~~~~~----~~~~~~l~~L~~l~l~~n~~~~~~   76 (104)
                      .+.++|++|++++ +.+...    +. ..+...++|+.|++++|.+  +...    ...+....+++.+++.++.+....
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~-~al~~n~~L~~L~Ls~n~l--~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g   90 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACA-EALKTNTYVKKFSIVGTRS--NDPVAFALAEMLKVNNTLKSLNVESNFISGSG   90 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHH-HHHTTCCSCCEEECTTSCC--CHHHHHHHHHHHHHCSSCCEEECCSSCCCHHH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHH-HHHhcCCccCeeeccCCcc--cHHHHHHHHHHHhhcccchhhhhccccccchh
Confidence            4567888888876 445422    11 2345667788888888887  3322    223445577888888877776321


Q ss_pred             ccccc-ccCCCCCCcEEEcC--CCCC
Q 040978           77 TITTQ-ELHNFTNLEYLKLN--DSPL   99 (104)
Q Consensus        77 ~~~~~-~~~~~~~L~~l~l~--~n~~   99 (104)
                      ...+. .+...++|+.+++.  +|.+
T Consensus        91 ~~~l~~~l~~~~~L~~l~L~l~~n~i  116 (166)
T d1io0a_          91 ILALVEALQSNTSLIELRIDNQSQPL  116 (166)
T ss_dssp             HHHHHHGGGGCSSCCEEECCCCSSCC
T ss_pred             HHHHHHHHHhCccccEEeeccCCCcC
Confidence            00002 45566777765553  4444

>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=97.04  E-value=8.4e-05  Score=42.01  Aligned_cols=94  Identities=17%  Similarity=0.152  Sum_probs=63.4

Q ss_pred             cccCCCCCCCEEECCCCCCCCccc---cCccCCCCCCCEEeCCCCcccCCch----hhhhcCCCCCccEEec--cCCcCC
Q 040978            3 AEFNSFNNLELLDMSFNEINNLVV---PQGYSGLRKLKSLDLSRVGVRDGSK----LLQSMGSFPSLNNLYL--SSNNFT   73 (104)
Q Consensus         3 ~~~~~~~~L~~L~l~~n~~~~~~~---~~~~~~~~~L~~l~l~~~~~~~~~~----~~~~~~~l~~L~~l~l--~~n~~~   73 (104)
                      ..+...++|+.|++++|.+.+...   ...+.....++.+++.++.+  ...    +...+...++++.+++  +.|.+.
T Consensus        40 ~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~--~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~  117 (166)
T d1io0a_          40 EALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFI--SGSGILALVEALQSNTSLIELRIDNQSQPLG  117 (166)
T ss_dssp             HHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCC--CHHHHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccc--cchhHHHHHHHHHhCccccEEeeccCCCcCc
Confidence            345678999999999999874322   02344567899999999988  433    2345566788887666  456675


Q ss_pred             cccccccc-ccCCCCCCcEEEcCCCC
Q 040978           74 ETVTITTQ-ELHNFTNLEYLKLNDSP   98 (104)
Q Consensus        74 ~~~~~~~~-~~~~~~~L~~l~l~~n~   98 (104)
                      ......+. .+...++|+.|+++.+.
T Consensus       118 ~~~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_         118 NNVEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHHHHHHHhCCCcCEEeCcCCC
Confidence            42200113 55678999999998764