Citrus Sinensis ID: 042962

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------
Protein Sequence
MESETNPNAANGDMISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHcccccHHHHHccccEEEEccccccccHHHHHHHHHHHHHcccccccEEEEEEEEEccccccccHHHHHHHHHHHHcccEEEEEEEEcccccccccccccccccccccccEEEEcccEEEcccccccccccccEEEccEEEEEHHHHHHHHHccccccEEEEEEEccccEEEEcccccccEEEEEEccccEEEEEEcccccEEEEEccccccEEEccccccccEEEEEEEccccccEEEEEEEcEEEEEEEEcccccccEEEEEcccccEEEEccccccccccccccccEEEEEccccccccEEEEEccccHHHHHHHHHHHHHHEEEEEEccccEEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHccccHHHHHHHHHcccHHHHHHcccccEEccccccccHHHHHHHHHHHHHHccccccEEEEEEEEEcccccccHHHHHHHHHHHHHcccEEEEEEEEccccccccccEccccEEEEcccEEEEEEEcEEccccccccccHHHHEEEEEEEEccHHHHHHHHHcccHHHEEEEEEcccccEEEcccccccEEEEEEccccEEEEEEEccccccEEEEcccccccEEccccccccEEEEEEEcccccccEEEEEEccccEEEEEcccccccEEEEcccccEEEEEcccEEEcccccccccEEEEEEcccHHcccccccEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEccc
Coil and Loop (DISEMBL)
mesetnpnaangDMISALLAPILHHILSFLSIEQvwhshpgvecngslsmspenTLKCLVKTLLNhygddfslekFTFIVQLSDDVKFVSSIYRCLRYAVETNVKelklgfccphsnypdsyynlpQLVFYAKSMsllgldscklesprgnvtlsclrelrprhvcaddQVIKDLISGCPLIEFISIISCrglkhlelpnlgklkefkvydeyGLEQVYIQGMNAHSVHIIGLhmlphisvvpcknlkklKLCQEIVDCMKLRSIKISSFCLKSFLFigydtldelklctpnlsifkyhgdlisfsSTALALSEIAlvfnpdninnqwFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNdcdyelsfk
Flexible Loop (DISEMBL)
mesetnpnaanGDMISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Low Complexity Region (SEG)
MESETNPNAANGDMISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Disordered region (IsUnstruct)
*************MISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYEL***
Disordered Region (DISOPRED)
*****************LLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Disordered Region (DISEMBL)
*********ANGDMISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Disordered Region (DISPRO)
*************MISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhoooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESETNPNAANGDMISALLAPILHHILSFLSIEQVWHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWFHVSFYIHSEYLNFSLAKLVDGLLWIAHHAGTLLMMCIQNDCDYELSFK
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	377	2.2.26 [Sep-21-2011]
Q1PE04	258	F-box/LRR-repeat protein	yes	no	0.533	0.779	0.262	1e-06
Q9LYZ2	469	Putative F-box/LRR-repeat	no	no	0.474	0.381	0.266	2e-05
Q9LZ15	456	Putative F-box/LRR-repeat	no	no	0.493	0.407	0.247	3e-05
Q9LSJ3	465	Putative F-box/LRR-repeat	no	no	0.498	0.404	0.240	0.0001

>sp|Q1PE04|FBL25_ARATH F-box/LRR-repeat protein 25 OS=Arabidopsis thaliana GN=FBL25 PE=2 SV=1

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 62/236 (26%), Positives = 99/236 (41%), Gaps = 35/236 (14%)

Query: 11  NGDMISALLAPILHHILSFL--------------SIEQVWHSHPGVECNGSLSMSPENTL 56
           + D IS L   ILHHILSF+                  VW   P +     L +SP    
Sbjct: 26  SSDSISNLPDEILHHILSFIPETNLVIRTSVLSKRWRHVWSKTPHLSFEW-LMVSP---- 80

Query: 57  KCLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCC--P 114
           K + KTL ++      +  F      S +   V S    + +A+  NV  L L F    P
Sbjct: 81  KLINKTLASYTASK--ITSFHLCTSYSYEAGHVHS---SIEFAMSHNVDNLSLAFSSFPP 135

Query: 115 HSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKD 174
            + +PD +Y        + S+  + L S  L +P   V+ + LR+L        D+    
Sbjct: 136 CNKFPDFFYT-------SSSLKRVELRSASL-TPSCIVSWTSLRDLSLTRCNLSDKSFLK 187

Query: 175 LISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHI 230
           ++SGCP++E +S+  C  LK+L+L    +L   ++       +  +Q M   + HI
Sbjct: 188 ILSGCPILESLSLKFCESLKYLDLSKSLRLTRLEIERRSCFREP-MQSMQIVAPHI 242

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ2|FBL80_ARATH Putative F-box/LRR-repeat protein At5g02930 OS=Arabidopsis thaliana GN=At5g02930 PE=4 SV=1

 Score = 50.4 bits (119), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 57/214 (26%), Positives = 92/214 (42%), Gaps = 35/214 (16%)

Query: 13  DMISALLAPILHHILSFLSIE-------------QVWHSHPGVECNGSLSMSPENTLKCL 59
           D IS L   +L HI S++  E              VW   P +     L +SP    K +
Sbjct: 28  DSISDLPDAVLQHIFSYIPTELAIRTSVLSKRWRHVWSETPHLSFEW-LKVSP----KLI 82

Query: 60  VKTLLNHYGDDFSLEKFTFIVQLS--DDVKFVSSIYRCLRYAVETNVKELKLGF--CCPH 115
            KTL ++      ++ F    + S   D   V+S    + +A+  NV +L L F  C P 
Sbjct: 83  NKTLASYTAS--KIKSFHLCTRYSYEADTHHVNS---SIEFAMSHNVDDLSLAFRRCSPF 137

Query: 116 SNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDL 175
            N+ D +Y    L    K + L  +D      PR  V+ + L+ L        D+   ++
Sbjct: 138 YNFDDCFYTNSSL----KRVELRYVDLM----PRCMVSWTSLKNLSLTDCTMSDESFLEI 189

Query: 176 ISGCPLIEFISIISCRGLKHLELPNLGKLKEFKV 209
           +SGCP++E +S+  C  LK+L L    +L   ++
Sbjct: 190 LSGCPILESLSLKFCMSLKYLNLSKSLRLTRLEI 223

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZ15|FBL78_ARATH Putative F-box/LRR-repeat protein At5g02700 OS=Arabidopsis thaliana GN=At5g02700 PE=4 SV=1

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 55/222 (24%), Positives = 98/222 (44%), Gaps = 36/222 (16%)

Query: 12  GDMISALLAPILHHILSFLSIE-------------QVWHSHPGVECNGSLSMSPENTLK- 57
            D I+ +   ILHHILSF+  +              VW   P ++           TLK 
Sbjct: 26  ADFINYMPDDILHHILSFIPTDLAMRTSVLSRRWRHVWCETPCLDI----------TLKH 75

Query: 58  -CLVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHS 116
             + +TL ++     +   F  ++ L+ +   V  +   + +A+  NV+ L +       
Sbjct: 76  GAMNQTLTSYTAPIIT--SFKLVMDLNSNT--VPQVDSWIEFALSRNVQNLSV--FVRDF 129

Query: 117 NYPDSYYNLPQLVFYAKSMSLLGLDSCKLES-PRGNVTLSCLRELRPRHVCADDQVIKDL 175
            Y  +Y   P + + + S+ LL +     +  P   V+   LR L  R     D+ I ++
Sbjct: 130 TYSKTY-RFPDIFYLSSSLKLLDVTLDFFDMIPTCTVSWKSLRNLTLRFCQIPDESIHNI 188

Query: 176 ISGCPLIEFISIISCRGLKHLEL---PNLGKLKEFKVYDEYG 214
           +SGCP++E +++ +CR L+ L+L   PNL +L   + Y   G
Sbjct: 189 LSGCPILESLTLDTCRLLERLDLSKSPNLRRLDINQQYRRTG 230

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSJ3|FBL48_ARATH Putative F-box/LRR-repeat protein At3g28410 OS=Arabidopsis thaliana GN=At3g28410 PE=4 SV=2

 Score = 47.8 bits (112), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 53/220 (24%), Positives = 96/220 (43%), Gaps = 32/220 (14%)

Query: 12  GDMISALLAPILHHILSFLSIE-------------QVWHSHPGVECNGSLSMSPENTLKC 58
            D I+ +   ILHHILSF+  +              VW   P ++    L     N    
Sbjct: 27  ADFINYMPDDILHHILSFIPTDLAMRTSVLSRRWRHVWCETPCLDIK--LKHGETN---- 80

Query: 59  LVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNY 118
             +TL ++     +   F  ++ L+D+   V  +   + +A+  NV+ L +        Y
Sbjct: 81  --QTLTSYTAPIIT--SFKLVMDLNDNT--VPQVDSWIEFALSRNVQNLSV--FVRDFTY 132

Query: 119 PDSYYNLPQLVFYAKSMSLLGLDSCKLES-PRGNVTLSCLRELRPRHVCADDQVIKDLIS 177
             +Y   P + + + S+  L +     +  P   V+   LR L  R     D+ + +++S
Sbjct: 133 TKTY-RFPDIFYISSSLKQLDVTLDFFDMIPTCAVSWKSLRNLTLRFCQIPDESMHNILS 191

Query: 178 GCPLIEFISIISCRGLKHLEL---PNLGKLKEFKVYDEYG 214
           GCP++E +++ +CR L+ L+L   PNL +L   + Y   G
Sbjct: 192 GCPILESLTLDTCRLLERLDLSKSPNLRRLDINRQYRRTG 231

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	377
449476923	469	PREDICTED: putative F-box/FBD/LRR-repeat	0.856	0.688	0.298	1e-27
449458247	469	PREDICTED: putative F-box/FBD/LRR-repeat	0.856	0.688	0.295	8e-27
224121624	528	predicted protein [Populus trichocarpa]	0.777	0.554	0.257	5e-18
147833276	521	hypothetical protein VITISV_011919 [Viti	0.639	0.462	0.301	7e-14
297743071	552	unnamed protein product [Vitis vinifera]	0.625	0.427	0.291	2e-13
225442254	520	PREDICTED: putative F-box protein At3g44	0.625	0.453	0.291	2e-13
147810265	310	hypothetical protein VITISV_027852 [Viti	0.392	0.477	0.366	1e-11
224134795	523	predicted protein [Populus trichocarpa]	0.618	0.445	0.302	2e-11
356557323	833	PREDICTED: uncharacterized protein LOC10	0.586	0.265	0.296	5e-10
297745118	231	unnamed protein product [Vitis vinifera]	0.427	0.696	0.335	8e-10

>gi|449476923|ref|XP_004154877.1| PREDICTED: putative F-box/FBD/LRR-repeat protein At1g78840-like [Cucumis sativus]

 Score =  130 bits (326), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 110/369 (29%), Positives = 169/369 (45%), Gaps = 46/369 (12%)

Query: 13  DMISALLAPILHHILSFLSIEQV-------------WHSHPGVECNGSLSMSPENTLKCL 59
           D+IS L  PIL HILSFLSI+Q+             W + P  E + +     E+ L+  
Sbjct: 2   DLISELPDPILQHILSFLSIKQIIQTTILSKRWIHLWLTFPSFEFDKNF-FHIESKLQNK 60

Query: 60  VKTLLNHYGDDFS----LEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPH 115
              L+N           L KF       +    V  + R + Y +E+ V+EL++     +
Sbjct: 61  RFHLINFVEQTLKQLKCLRKFKLHTDFPEPNSMVV-VDRWIDYVLESGVQELEIVVTVEN 119

Query: 116 SNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDL 175
                  YNLPQ VF  +S+++L +  CKL        L  ++ +    V A+D+ +K L
Sbjct: 120 GKR----YNLPQRVFANQSLTVLTVGDCKLCPSLDGYKLLSMKSVSLLGVFAEDETVKRL 175

Query: 176 ISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHM 235
           +S CP I+ I + SC GL++L L    +L   +V +  GL +   + MN  +    G   
Sbjct: 176 VSNCPFIQHIKLDSCLGLRNLWLCETNELITMEVQNNSGLYEFGTKAMNLQAFEFRGQFQ 235

Query: 236 LPHISVVPCKNLKKLKLCQ-EIVD--------------------CMKLRSIKISSFCLKS 274
              I++  CKNLK LKL    I D                    C  L S++ISS  LK 
Sbjct: 236 PCCINISSCKNLKTLKLSMVAITDDWFNRCFSEFPLLEILALSYCHMLESLRISSSHLKK 295

Query: 275 FLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWF--HVS 332
           F+  G +++  + + TP LS  ++ GD+ISFS  A ALS+  +  +P   +N W    + 
Sbjct: 296 FILCGCESVTRVDIDTPCLSGLEFSGDVISFSLNAPALSQADIELSPRIFDNPWVVKQIE 355

Query: 333 FYIHSEYLN 341
           F  H  +L 
Sbjct: 356 FLAHFNHLK 364

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458247|ref|XP_004146859.1| PREDICTED: putative F-box/FBD/LRR-repeat protein At1g78840-like [Cucumis sativus]

 Score =  127 bits (319), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 109/369 (29%), Positives = 167/369 (45%), Gaps = 46/369 (12%)

Query: 13  DMISALLAPILHHILSFLSIEQV-------------WHSHPGVECNGSLSMSPENTLKCL 59
           D+IS L  PIL HILSFLSI+Q+             W + P  E + +     E+ L+  
Sbjct: 2   DLISELPDPILQHILSFLSIKQIIQTTILSKRWIHLWLTFPSFEFDKNF-FHIESKLQNK 60

Query: 60  VKTLLNHYGDDFS----LEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPH 115
              L+N           L KF       +    V  + R + Y +E+ V+EL++     +
Sbjct: 61  RFHLINFVEQTLKQLKCLRKFKLHTDFPEPNSMVV-VDRWIDYVLESGVQELEIVVTVEN 119

Query: 116 SNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDL 175
                  YNLPQ VF  +S+++L +  CKL        L  ++ +    V A+D+ +K L
Sbjct: 120 GKR----YNLPQRVFANQSLTVLTVGDCKLCPSLDGYKLLSMKSVSLLGVFAEDETVKRL 175

Query: 176 ISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHM 235
           +S CP I+ I + SC GL+ L L    +L   +V +  GL +   + MN  +    G   
Sbjct: 176 VSNCPFIQHIKLDSCLGLRSLWLCETNELITMEVQNNSGLYEFGTKAMNLQAFEFRGQFQ 235

Query: 236 LPHISVVPCKNLKKLKLCQ-EIVD--------------------CMKLRSIKISSFCLKS 274
              I++  CKNLK LKL    I D                    C  L S++ISS  LK 
Sbjct: 236 PCCINISSCKNLKTLKLSMVAITDDWFNRCFSEFPLLEILALSYCHMLESLRISSSHLKK 295

Query: 275 FLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPDNINNQWF--HVS 332
           F+  G +++  + +  P LS  ++ GD+ISFS  A ALS+  +  +P   +N W    + 
Sbjct: 296 FILCGCESVTRVDIDAPCLSGLEFSGDVISFSLNAPALSQADIELSPRIFDNPWVVKQIE 355

Query: 333 FYIHSEYLN 341
           F  H  +L 
Sbjct: 356 FLAHFNHLK 364

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224121624|ref|XP_002330747.1| predicted protein [Populus trichocarpa] gi|222872523|gb|EEF09654.1| predicted protein [Populus trichocarpa]

 Score = 98.6 bits (244), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 90/350 (25%), Positives = 155/350 (44%), Gaps = 57/350 (16%)

Query: 13  DMISALLAPILHHILSFLSIEQV-----------------------WHSHPGVECNGSLS 49
           D IS     +LHHILSFL  + V                       W    G   +   S
Sbjct: 2   DHISRFPDGVLHHILSFLPTKDVLRTSILSKRWKLVLDTYPILDFSWGDCAGQSSDAMYS 61

Query: 50  MSPENTLKCLVKTLLNHYGDD--------FSLEKFTFIVQLSDDVKFVSSIYRCLRYAVE 101
            +  +  + ++   +N+            FS++KF   + L D ++  S + + ++  +E
Sbjct: 62  ENASDEYRQMLTKFMNYVDTSIFRFCKYKFSMQKFKLFLVLPD-LELSSHLDKWVQKVIE 120

Query: 102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGN-VTLSCLREL 160
              KE+  G   P   +    Y++P  +F AKS+++L L  C ++      + L  L++L
Sbjct: 121 NGAKEVDFGIDLPGYLHFKKPYSMPDAIFAAKSVTVLKLFGCNVKLEESFCIKLHSLQKL 180

Query: 161 RPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGL-EQVY 219
             + V  DD +++ +++ CPL+E IS+  C GLK +++  L +LK+F++Y      E V 
Sbjct: 181 ALKEVQMDDHLLRRIVTCCPLLEDISLRFCWGLKKIQVFELLRLKKFEIYSHLSKPESVE 240

Query: 220 IQGMNAHSVH--IIGLHMLPHISVVPCKNLKKLKLCQEIV-------------------- 257
           I+  +  S H       + P +SV  C+ LK L L    V                    
Sbjct: 241 IKSPSLESFHCSFTVRSVKPIVSVDACQGLKSLILSGSFVTELLLQDLVPKFHVLESLRV 300

Query: 258 -DCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFS 306
            DC  L+ +KISS+ LKS      + + ++++ TPNL   KY G ++  S
Sbjct: 301 GDCPVLKKVKISSWRLKSLEIHSCENIMDIEINTPNLLSCKYCGSVVPVS 350

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147833276|emb|CAN68530.1| hypothetical protein VITISV_011919 [Vitis vinifera] gi|297743067|emb|CBI35934.3| unnamed protein product [Vitis vinifera]

 Score = 84.7 bits (208), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 82/272 (30%), Positives = 129/272 (47%), Gaps = 31/272 (11%)

Query: 70  DFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV 129
           D +L +    + L DD++  S I   +  A+E  VKEL L +  P S      Y LP  +
Sbjct: 84  DVNLARLRLHLDL-DDIESESLIDSWIDAALERKVKELDL-YLRPRSIA--KPYGLPAKI 139

Query: 130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS 189
           F   ++++L L+ C+LE   G++ L  LR+L  R +  D+Q I+ LIS CPLIE + I S
Sbjct: 140 FSTTTITVLSLEQCRLEIC-GDIDLPALRKLCLRQIRCDEQAIRQLISSCPLIEDLDIAS 198

Query: 190 CRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMN-AHSVHIIGLHMLP-HISVVPCKNL 247
           C GL+ L +  L  L   +V   Y L ++ I   +  H V+  G   LP  + + PC+ L
Sbjct: 199 CGGLQKLHVSGLANLHRLEVICCYNLRRIEIDAPSLQHLVYHCG--RLPCDMVLTPCEFL 256

Query: 248 KKL--------------------KLCQEIVDCMKLRSIKISSFCLK--SFLFIGYDTLDE 285
           ++L                     L +  +D  +L+ I+IS   LK             +
Sbjct: 257 RELILHDPHITNDFLQNLDSGFPNLERLEIDSTRLQRIEISHHQLKRLELKLTPLQKEAK 316

Query: 286 LKLCTPNLSIFKYHGDLISFSSTALALSEIAL 317
           LK+  PNL  F Y G  +  +ST  +++  +L
Sbjct: 317 LKIDAPNLQSFTYSGYRMPLTSTISSMNTSSL 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297743071|emb|CBI35938.3| unnamed protein product [Vitis vinifera]

 Score = 82.8 bits (203), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 81/278 (29%), Positives = 129/278 (46%), Gaps = 42/278 (15%)

Query: 70  DFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV 129
           D SL +    + L +D++  S I   +  A+E  VKEL L +  P S  P+ Y  LP  +
Sbjct: 116 DVSLARLQLRLHL-NDIESESLIDSWIDAALERKVKELDL-YLLPRS-IPEPY-GLPAKI 171

Query: 130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS 189
           F   ++++L L+ C+LE   G+V L  LR+L  R +  D+Q I+ LIS CPLIE + I+S
Sbjct: 172 FSTTTITVLSLEQCRLEIC-GDVDLPALRKLCLRKILCDEQAIRQLISSCPLIEDLDIVS 230

Query: 190 CRGLKHLELPNLGKLKEFKVYDEYGLEQV----------------------------YIQ 221
           C  LK L +  L  L    V   Y L ++                            +++
Sbjct: 231 CGKLKKLHVSGLANLHRLVVTCCYNLRRIEIDAPSLQYFMYDHQRSLLCDVVWTPGEFLR 290

Query: 222 GMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK--SFLFIG 279
            +  H  HI    +   +S VP  NL++L+     +D  +L+ I+IS   LK        
Sbjct: 291 ELILHDRHITNDLLQNLVSGVP--NLERLE-----IDSTRLQRIEISHHQLKRLELRLSE 343

Query: 280 YDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIAL 317
           +    +LK+  PNL  F Y G  +  +S   +++  +L
Sbjct: 344 WQREAKLKIDAPNLQSFTYLGYRMPLTSMISSMNTSSL 381

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442254|ref|XP_002275641.1| PREDICTED: putative F-box protein At3g44060 [Vitis vinifera]

 Score = 82.8 bits (203), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 81/278 (29%), Positives = 129/278 (46%), Gaps = 42/278 (15%)

Query: 70  DFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV 129
           D SL +    + L +D++  S I   +  A+E  VKEL L +  P S  P+ Y  LP  +
Sbjct: 84  DVSLARLQLRLHL-NDIESESLIDSWIDAALERKVKELDL-YLLPRS-IPEPY-GLPAKI 139

Query: 130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS 189
           F   ++++L L+ C+LE   G+V L  LR+L  R +  D+Q I+ LIS CPLIE + I+S
Sbjct: 140 FSTTTITVLSLEQCRLEIC-GDVDLPALRKLCLRKILCDEQAIRQLISSCPLIEDLDIVS 198

Query: 190 CRGLKHLELPNLGKLKEFKVYDEYGLEQV----------------------------YIQ 221
           C  LK L +  L  L    V   Y L ++                            +++
Sbjct: 199 CGKLKKLHVSGLANLHRLVVTCCYNLRRIEIDAPSLQYFMYDHQRSLLCDVVWTPGEFLR 258

Query: 222 GMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK--SFLFIG 279
            +  H  HI    +   +S VP  NL++L+     +D  +L+ I+IS   LK        
Sbjct: 259 ELILHDRHITNDLLQNLVSGVP--NLERLE-----IDSTRLQRIEISHHQLKRLELRLSE 311

Query: 280 YDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIAL 317
           +    +LK+  PNL  F Y G  +  +S   +++  +L
Sbjct: 312 WQREAKLKIDAPNLQSFTYLGYRMPLTSMISSMNTSSL 349

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147810265|emb|CAN71448.1| hypothetical protein VITISV_027852 [Vitis vinifera]

 Score = 77.0 bits (188), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 82/153 (53%), Gaps = 5/153 (3%)

Query: 70  DFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV 129
           D SL +    + L +D++  S I   +  A+E  VKEL L +  P S  P+ Y  LP  +
Sbjct: 84  DVSLARLQLRLHL-NDIESESLIDSWIDAALERKVKELDL-YLLPRS-IPEPY-GLPAKI 139

Query: 130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS 189
           F   ++++L L+ C+LE   G+V L  LR+L  R +  D+Q I+ LIS CPLIE + I+S
Sbjct: 140 FSTTTITVLSLEQCRLEIC-GDVDLPALRKLCLRKILCDEQAIRQLISSCPLIEDLDIVS 198

Query: 190 CRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQG 222
           C  LK L +  L  L    V   Y L ++ I  
Sbjct: 199 CGKLKKLHVSGLANLHRLVVTCCYNLRRIEIDA 231

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134795|ref|XP_002327491.1| predicted protein [Populus trichocarpa] gi|222836045|gb|EEE74466.1| predicted protein [Populus trichocarpa]

 Score = 76.3 bits (186), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 83/274 (30%), Positives = 122/274 (44%), Gaps = 41/274 (14%)

Query: 11  NGDMISALLAPILHHILSFLSIEQV---------WH----SHPGVE-CNGSLSMSPENTL 56
             ++IS L   I+HHILSFLS  +V         WH    S P  E  + S + + +++ 
Sbjct: 3   TANLISQLPDHIIHHILSFLSTPEVVRLSVLSKAWHRIFNSFPIFEFSSSSFAKTSDSSF 62

Query: 57  KCLV---KTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIY------------RCLRYAVE 101
           + ++   K+LL       S+ KF F         +V S Y            RC+     
Sbjct: 63  EFIIFVYKSLLLQCHQYRSIPKFQFSFTQDRWRPYVYSKYLPSPCELDKLISRCIEIGTR 122

Query: 102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELR 161
             VKEL + F          YY LP+ V   K + +  L  C  +   G +    LREL 
Sbjct: 123 KGVKELSIYFSI------TGYYRLPEAVLSVKELVVCSLGGCIFD---GAINWPSLRELS 173

Query: 162 PRHV-CADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYG-LEQVY 219
            + V   D ++I +L   CPLIE  S++ C GLK+L L  L KLK+ KV   Y  +E++ 
Sbjct: 174 LKEVQICDQRIINNLFFTCPLIEKFSLVECFGLKYLHLSGLRKLKKVKVKSGYPHMEKIE 233

Query: 220 IQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKL 252
           I  ++ H+      H M   I +  CKNL+  K 
Sbjct: 234 IDVVSLHTFSYSAHHYMKTDIDLTSCKNLEVFKF 267

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356557323|ref|XP_003546966.1| PREDICTED: uncharacterized protein LOC100794867 [Glycine max]

 Score = 72.0 bits (175), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 74/250 (29%), Positives = 116/250 (46%), Gaps = 29/250 (11%)

Query: 96  LRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLS 155
           L  A+  N+KEL L     +       Y LPQ VF +K+++ + L  CKL +   N+ L 
Sbjct: 267 LNIAIYRNIKELDLHVGIKNG----ECYTLPQTVFSSKTLTGIRLSGCKLGTC-NNIKLP 321

Query: 156 CLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGL 215
            L++L  R +   +  I++LIS C  +E + II C GLKHL + NL +LK  +++    L
Sbjct: 322 YLQKLYLRKIPLVENFIQNLISCCHSVEDLRIIKCSGLKHLHVSNLIRLKRAEIHHCIQL 381

Query: 216 EQVYIQGMNAHSVHIIGLHMLP-HISVVPCKNLKKLKL---------CQ---------EI 256
           ++V I   N  +    G    P  +S+  C +LK+L L         C+         E 
Sbjct: 382 KKVEISAPNLDTFWYCGKKTSPCKVSLEGCTSLKRLTLEHPQVTRDFCENQFSNFPLLEK 441

Query: 257 VDCM----KLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALA 311
           +D      K R I IS+  L+ F   G   L  + +  PNL  F+  G+ + +       
Sbjct: 442 LDLSMSNNKSRFIIISNPHLEKFTLKGCKKLGIVLVEAPNLLSFECKGETMPWVEIHPFG 501

Query: 312 LSEIALVFNP 321
           L++  L F P
Sbjct: 502 LTQAKLSFVP 511

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745118|emb|CBI38957.3| unnamed protein product [Vitis vinifera]

 Score = 71.2 bits (173), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 55/164 (33%), Positives = 83/164 (50%), Gaps = 3/164 (1%)

Query: 59  LVKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNY 118
           +V + L     D SL K    + L +DV+  S I   +  A+E  VKEL L F  P    
Sbjct: 23  VVDSYLKLRQKDASLAKLRLHLHL-NDVESRSLIDSWIDAALERKVKELDL-FMLPRGRA 80

Query: 119 PDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISG 178
               Y+ P  +F A ++++L L    LE   G++ L  LR+L    +  D+Q I+ LIS 
Sbjct: 81  RGKPYSFPAKIFAATTITVLSLRRVILEIC-GDIDLPALRKLYLGEIRCDEQPIQKLISS 139

Query: 179 CPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQG 222
           CPLI+ + I SC GL+ L +  L  L+  +V   Y L+++ I  
Sbjct: 140 CPLIDCLHIESCHGLQKLHVSGLANLRRLEVIWCYELKRIEINA 183

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	377
TAIR|locus:2151246	258	AT5G02920 "AT5G02920" [Arabido	0.557	0.813	0.251	2.4e-07
TAIR|locus:2151316	456	AT5G02700 "AT5G02700" [Arabido	0.511	0.423	0.25	2.7e-06
TAIR|locus:2151261	469	AT5G02930 "AT5G02930" [Arabido	0.480	0.385	0.254	4.7e-06
TAIR|locus:2088882	465	AT3G28410 "AT3G28410" [Arabido	0.517	0.419	0.251	9.9e-05
TAIR|locus:2151231	458	AT5G02910 "AT5G02910" [Arabido	0.511	0.421	0.233	0.00021
TAIR|locus:2099644	481	AT3G03360 [Arabidopsis thalian	0.339	0.266	0.246	0.00029
TAIR|locus:2092737	456	AT3G18150 "AT3G18150" [Arabido	0.618	0.510	0.238	0.00034

TAIR|locus:2151246 AT5G02920 "AT5G02920" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 2.4e-07, P = 2.4e-07
 Identities = 57/227 (25%), Positives = 101/227 (44%)

Query:    11 NGDMISALLAPILHHILSFLSIEQ--VWHSHPGVECNGSLSMSPENTLKCLVKT--LLNH 66
             + D IS L   ILHHILSF+      +  S          S +P  + + L+ +  L+N 
Sbjct:    26 SSDSISNLPDEILHHILSFIPETNLVIRTSVLSKRWRHVWSKTPHLSFEWLMVSPKLINK 85

Query:    67 YGDDFSLEKFTFIVQLSDDVKFVSS-IYRCLRYAVETNVKELKLGFCC--PHSNYPDSYY 123
                 ++  K T    L     + +  ++  + +A+  NV  L L F    P + +PD +Y
Sbjct:    86 TLASYTASKITSF-HLCTSYSYEAGHVHSSIEFAMSHNVDNLSLAFSSFPPCNKFPDFFY 144

Query:   124 NLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIE 183
                     + S+  + L S  L +P   V+ + LR+L        D+    ++SGCP++E
Sbjct:   145 T-------SSSLKRVELRSASL-TPSCIVSWTSLRDLSLTRCNLSDKSFLKILSGCPILE 196

Query:   184 FISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHI 230
              +S+  C  LK+L+L    +L   ++ +     +  +Q M   + HI
Sbjct:   197 SLSLKFCESLKYLDLSKSLRLTRLEI-ERRSCFREPMQSMQIVAPHI 242

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2151316 AT5G02700 "AT5G02700" [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 2.7e-06, P = 2.7e-06
 Identities = 52/208 (25%), Positives = 97/208 (46%)

Query:    13 DMISALLAPILHHILSFLSIEQVWHSHP-GVECNGSLSMSP--ENTLK--CLVKTLLNHY 67
             D I+ +   ILHHILSF+  +    +             +P  + TLK   + +TL ++ 
Sbjct:    27 DFINYMPDDILHHILSFIPTDLAMRTSVLSRRWRHVWCETPCLDITLKHGAMNQTLTSYT 86

Query:    68 GDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQ 127
                  +  F  ++ L+ +   V  +   + +A+  NV+ L + F    + Y  +Y   P 
Sbjct:    87 AP--IITSFKLVMDLNSNT--VPQVDSWIEFALSRNVQNLSV-FVRDFT-YSKTY-RFPD 139

Query:   128 LVFYAKSMSLLG--LDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFI 185
             + + + S+ LL   LD   +  P   V+   LR L  R     D+ I +++SGCP++E +
Sbjct:   140 IFYLSSSLKLLDVTLDFFDM-IPTCTVSWKSLRNLTLRFCQIPDESIHNILSGCPILESL 198

Query:   186 SIISCRGLKHLELPNLGKLKEFKVYDEY 213
             ++ +CR L+ L+L     L+   +  +Y
Sbjct:   199 TLDTCRLLERLDLSKSPNLRRLDINQQY 226

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151261 AT5G02930 "AT5G02930" [Arabidopsis thaliana (taxid:3702)]

 Score = 136 (52.9 bits), Expect = 4.7e-06, P = 4.7e-06
 Identities = 54/212 (25%), Positives = 90/212 (42%)

Query:    13 DMISALLAPILHHILSFLSIE-------------QVWHSHPGVECNGSLSMSPENTLKCL 59
             D IS L   +L HI S++  E              VW   P +     L +SP    K +
Sbjct:    28 DSISDLPDAVLQHIFSYIPTELAIRTSVLSKRWRHVWSETPHLSFEW-LKVSP----KLI 82

Query:    60 VKTLLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGF--CCPHSN 117
              KTL ++      ++ F    + S +      +   + +A+  NV +L L F  C P  N
Sbjct:    83 NKTLASYTAS--KIKSFHLCTRYSYEAD-THHVNSSIEFAMSHNVDDLSLAFRRCSPFYN 139

Query:   118 YPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLIS 177
             + D +Y    L    K + L  +D      PR  V+ + L+ L        D+   +++S
Sbjct:   140 FDDCFYTNSSL----KRVELRYVDLM----PRCMVSWTSLKNLSLTDCTMSDESFLEILS 191

Query:   178 GCPLIEFISIISCRGLKHLELPNLGKLKEFKV 209
             GCP++E +S+  C  LK+L L    +L   ++
Sbjct:   192 GCPILESLSLKFCMSLKYLNLSKSLRLTRLEI 223

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2088882 AT3G28410 "AT3G28410" [Arabidopsis thaliana (taxid:3702)]

 Score = 124 (48.7 bits), Expect = 9.9e-05, P = 9.9e-05
 Identities = 53/211 (25%), Positives = 94/211 (44%)

Query:    13 DMISALLAPILHHILSFLSIEQVWHSHP-GVECNGSLSMSPENTLKCL---VKTLLNHYG 68
             D I+ +   ILHHILSF+  +    +             +P   +K         L  Y 
Sbjct:    28 DFINYMPDDILHHILSFIPTDLAMRTSVLSRRWRHVWCETPCLDIKLKHGETNQTLTSYT 87

Query:    69 DDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQL 128
                 +  F  ++ L+D+   V  +   + +A+  NV+ L + F    + Y  +Y   P +
Sbjct:    88 API-ITSFKLVMDLNDNT--VPQVDSWIEFALSRNVQNLSV-FVRDFT-YTKTY-RFPDI 141

Query:   129 VFYAKSMSLLG--LDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFIS 186
              + + S+  L   LD   +  P   V+   LR L  R     D+ + +++SGCP++E ++
Sbjct:   142 FYISSSLKQLDVTLDFFDM-IPTCAVSWKSLRNLTLRFCQIPDESMHNILSGCPILESLT 200

Query:   187 IISCRGLKHLEL---PNLGKLKEFKVYDEYG 214
             + +CR L+ L+L   PNL +L   + Y   G
Sbjct:   201 LDTCRLLERLDLSKSPNLRRLDINRQYRRTG 231

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151231 AT5G02910 "AT5G02910" [Arabidopsis thaliana (taxid:3702)]

 Score = 121 (47.7 bits), Expect = 0.00021, P = 0.00021
 Identities = 47/201 (23%), Positives = 85/201 (42%)

Query:    13 DMISALLAPILHHILSFLSIEQ-VWHSHPGVECNGSLSMSPENTLKC--LVKTLLNHYGD 69
             D IS+L   ILHHILS +  +  +  S          S +P  ++ C       ++    
Sbjct:    11 DFISSLPDEILHHILSSVPTKSAIRTSLLSKRWRYVWSETPSLSIDCRRADPNSIDKTLS 70

Query:    70 DFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV 129
              FS  K T     +  +  + S+  C+ +A+  N ++L L       +Y    Y  P   
Sbjct:    71 FFSAPKITSFHLHTTLLNRIDSVNGCIEFAISHNAEKLSL----ESRDYRVRNYKFPDFF 126

Query:   130 FYAKSMSLLGLDSCKLES-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISII 188
             +   S+  L +DS  +   PR  V+ + L+ L   +    D+    ++SG PL+E + ++
Sbjct:   127 YTNSSVKQLFVDSGSVHLIPRCTVSWTSLKNLSLSNCTLSDESFLKILSGSPLLESLELL 186

Query:   189 SCRGLKHLELPNLGKLKEFKV 209
              C     L+L     L+  ++
Sbjct:   187 YCAEYMCLDLSQSQHLRRLEI 207

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2099644 AT3G03360 [Arabidopsis thaliana (taxid:3702)]

 Score = 117 (46.2 bits), Expect = 0.00029, Sum P(3) = 0.00029
 Identities = 35/142 (24%), Positives = 69/142 (48%)

Query:    96 LRYAVETNVKELKLGFCCPHSNYPDS-YYNLPQLVFYAKSMSLLGLD-SCKLE----SPR 149
             + +A+  NV+ L L        Y D   Y++P+ ++   S+  L LD  CK +    +P+
Sbjct:   130 INFAMSRNVENLSL--------YLDEDKYDIPEFLYINSSLKQLYLDFGCKKDFISLNPK 181

Query:   150 GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKV 209
              +V+ + L+ L   H    D+ I  ++SGCP++E + +  C+ LK L+L    +L   ++
Sbjct:   182 CSVSWTSLKNLSLYHCNISDESIAIILSGCPILESLLLFFCKKLKVLDLSKSPRLITLEI 241

Query:   210 YDEYGLEQVYIQGMNAHSVHII 231
                  +E   +   +   + +I
Sbjct:   242 TRRCRMEPTQLVAPHIRCLRLI 263

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2092737 AT3G18150 "AT3G18150" [Arabidopsis thaliana (taxid:3702)]

 Score = 119 (46.9 bits), Expect = 0.00034, P = 0.00034
 Identities = 65/273 (23%), Positives = 118/273 (43%)

Query:    13 DMISALLAPILHHILSFLS---------IEQVWHSHPGVECNG-SLSMSPENTLKCLVKT 62
             D IS+L   IL HILSF+          + + W  H  V C+  SLS +        +  
Sbjct:    31 DSISSLPDVILQHILSFIPTKLAITTSLLSKRWR-H--VWCDTPSLSFNDYRLEAPFIDE 87

Query:    63 LLNHYGDDFSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSY 122
              L  Y     + +F     L ++V  + S    +++A+  NV  L L       N   + 
Sbjct:    88 TLTRYTAS-KMMRFHLHTSLINNVPHLES---WIKFAMSRNVDHLSLDLW----NQVANK 139

Query:   123 YNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLI 182
             +  P   F+  S SL  L +  L+     + + CL++L        D+ + +++ GCP++
Sbjct:   140 FKFPDF-FHINS-SLKQL-TVVLDFSDTMIAI-CLKKLYLSTCLLSDESMANILFGCPIL 195

Query:   183 EFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLHMLPHISVV 242
             E +++  C GL+ L+L    +L+  ++        +++  + A  +      + PH    
Sbjct:   196 ESLTLDHCGGLRVLDLSKSLRLRTLEINCN-----IWVPELTAMQI------VAPHTH-- 242

Query:   243 PCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSF 275
              C  L+  KL   +VD   L+  K++  C+ SF
Sbjct:   243 -CLRLRNSKLPCSLVDVSSLKEAKLN-ICIDSF 273


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.324   0.140   0.433    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      377       377   0.00089  117 3  11 22  0.48    33
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  7
  No. of states in DFA:  618 (66 KB)
  Total size of DFA:  273 KB (2143 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  32.29u 0.12s 32.41t   Elapsed:  00:00:01
  Total cpu time:  32.29u 0.12s 32.41t   Elapsed:  00:00:01
  Start:  Sat May 11 11:42:37 2013   End:  Sat May 11 11:42:38 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pg.C_1460040 hypothetical protein (528 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	377
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	99.35
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.14
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.12
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.89
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.81
KOG4341	483	consensus F-box protein containing LRR [General fu	98.74
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.68
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.66
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.63
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.5
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.37
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.32
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.12
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.12
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.09
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.08
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.07
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.03
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.02
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.0
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.97
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.92
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.91
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.87
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.83
KOG0617	264	consensus Ras suppressor protein (contains leucine	97.71
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.42
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.21
KOG4341	483	consensus F-box protein containing LRR [General fu	97.11
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	97.05
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.04
PF12937	47	F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B	96.96
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	96.9
KOG4237	498	consensus Extracellular matrix protein slit, conta	96.89
PLN03150	623	hypothetical protein; Provisional	96.79
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.74
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.72
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	96.6
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.57
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	96.55
PLN03150	623	hypothetical protein; Provisional	96.5
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	96.5
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.36
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.31
PF07723	26	LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Le	96.09
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.02
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	95.82
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	95.82
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.26
PF00646	48	F-box: F-box domain; InterPro: IPR001810 The F-box	95.18
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.08
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.02
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	94.95
PRK15386	426	type III secretion protein GogB; Provisional	94.9
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	94.61
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	94.39
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	94.22
smart00256	41	FBOX A Receptor for Ubiquitination Targets.	94.06
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	93.96
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	93.59
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.49
KOG2982	418	consensus Uncharacterized conserved protein [Funct	93.43
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	93.42
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	93.36
PRK15386	426	type III secretion protein GogB; Provisional	92.47
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	92.08
KOG2123	388	consensus Uncharacterized conserved protein [Funct	91.85
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	91.5
KOG2123	388	consensus Uncharacterized conserved protein [Funct	89.57
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	88.8
KOG3864	221	consensus Uncharacterized conserved protein [Funct	88.79
KOG3864	221	consensus Uncharacterized conserved protein [Funct	87.51
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	83.45
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	82.5
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	81.66
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	80.23
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	80.13
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	80.05

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

Probab=99.35  E-value=1.6e-13  Score=123.49  Aligned_cols=220  Identities=16%  Similarity=0.197  Sum_probs=144.1

Q ss_pred             CCCCcHHHHHHHhhcCChhHH---------hhcCCC-CCcCCcccCCCChh-hHHHHHHHHhhcCCCcCceEEEEEEecc
Q 042962           15 ISALLAPILHHILSFLSIEQV---------WHSHPG-VECNGSLSMSPENT-LKCLVKTLLNHYGDDFSLEKFTFIVQLS   83 (377)
Q Consensus        15 iS~LPD~lL~~ILs~Lp~~da---------Wr~l~~-~~~~~~l~~~~~~~-~~~v~~~L~~~~~~~~~i~~l~l~~~~~   83 (377)
                      +..|||||+..|||-|+.||.         |.++-. -..|.+++...+.- .+...+.+  .+|    +..|++--..-
T Consensus        98 ~~slpDEill~IFs~L~kk~LL~~~~VC~Rfyr~~~de~lW~~lDl~~r~i~p~~l~~l~--~rg----V~v~Rlar~~~  171 (419)
T KOG2120|consen   98 WDSLPDEILLGIFSCLCKKELLKVSGVCKRFYRLASDESLWQTLDLTGRNIHPDVLGRLL--SRG----VIVFRLARSFM  171 (419)
T ss_pred             cccCCHHHHHHHHHhccHHHHHHHHHHHHHHhhccccccceeeeccCCCccChhHHHHHH--hCC----eEEEEcchhhh
Confidence            678999999999999999998         776622 22466666554422 44444444  233    66666643221


Q ss_pred             CCccchhhHHHHHHHH--HhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCC--CCCCCCCCCCe
Q 042962           84 DDVKFVSSIYRCLRYA--VETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESP--RGNVTLSCLRE  159 (377)
Q Consensus        84 ~~~~~~~~i~~wi~~a--~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p--~~~~~l~~L~~  159 (377)
                      ++    +   +...++  .+.+++.++|....      .....+...+..|..|+.|.|.|..++.|  ..++.-.+|+.
T Consensus       172 ~~----p---rlae~~~~frsRlq~lDLS~s~------it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~  238 (419)
T KOG2120|consen  172 DQ----P---RLAEHFSPFRSRLQHLDLSNSV------ITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVR  238 (419)
T ss_pred             cC----c---hhhhhhhhhhhhhHHhhcchhh------eeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhcccccee
Confidence            11    1   223333  23458888886432      12223333455799999999999988654  35667789999


Q ss_pred             eecccee-eChHHHHHHhcCCccccccccccccccee---eccCC-CCCCcEEEEcccC------CCchhhhcCCcccEE
Q 042962          160 LRPRHVC-ADDQVIKDLISGCPLIEFISIISCRGLKH---LELPN-LGKLKEFKVYDEY------GLEQVYIQGMNAHSV  228 (377)
Q Consensus       160 L~L~~~~-~~~~~l~~l~~~cp~Le~L~L~~c~~l~~---l~i~~-l~~L~~L~i~~~~------~~~~~~~~~p~L~~L  228 (377)
                      |+|+.+. ++...++-++++|..|.+|+|+.|.-...   ..+++ -++|+.|.+++|.      .+..+.-.+|+|..|
T Consensus       239 lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~L  318 (419)
T KOG2120|consen  239 LNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHL  318 (419)
T ss_pred             eccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeee
Confidence            9999984 58888999999999999999999953322   11211 2899999999997      233445568999999


Q ss_pred             EEeccccCCc---eeeccCCCccccchh
Q 042962          229 HIIGLHMLPH---ISVVPCKNLKKLKLC  253 (377)
Q Consensus       229 ~l~g~~~~~~---~~~~~~~~L~~L~L~  253 (377)
                      +++++++..+   ..+...+.|++|.++
T Consensus       319 DLSD~v~l~~~~~~~~~kf~~L~~lSls  346 (419)
T KOG2120|consen  319 DLSDSVMLKNDCFQEFFKFNYLQHLSLS  346 (419)
T ss_pred             ccccccccCchHHHHHHhcchheeeehh
Confidence            9987753221   113344555555554

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

Probab=99.14  E-value=8.9e-11  Score=127.58  Aligned_cols=164  Identities=12%  Similarity=0.060  Sum_probs=99.6

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCcccc-ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVF-YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCP  180 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~-~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp  180 (377)
                      ..++.|++....       -...+|..++ .+++|++|+|++|.+........+++|++|+|++|.+.+..+.. +++++
T Consensus        93 ~~L~~L~Ls~n~-------~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~-~~~l~  164 (968)
T PLN00113         93 PYIQTINLSNNQ-------LSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPND-IGSFS  164 (968)
T ss_pred             CCCCEEECCCCc-------cCCcCChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChH-HhcCC
Confidence            567777765211       1125777666 77888888888887642222345778888888888775433333 56778


Q ss_pred             cccccccccccc--ceeeccCCCCCCcEEEEcccC---CCchhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh
Q 042962          181 LIEFISIISCRG--LKHLELPNLGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       181 ~Le~L~L~~c~~--l~~l~i~~l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~  253 (377)
                      +|+.|++++|.-  ..+-.+..+++|+.|++.+|.   ..+.....+++|+.|.++++.  +..+..++++++|++|+++
T Consensus       165 ~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~  244 (968)
T PLN00113        165 SLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLV  244 (968)
T ss_pred             CCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECc
Confidence            888888877632  222234446777777777776   122222345677777775553  3344456667777777665


Q ss_pred             ---------hhccCCCCCceEeccCCccc
Q 042962          254 ---------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       254 ---------~~l~~~~~L~~L~i~~~~L~  273 (377)
                               ..++++++|+.|+++.|.+.
T Consensus       245 ~n~l~~~~p~~l~~l~~L~~L~L~~n~l~  273 (968)
T PLN00113        245 YNNLTGPIPSSLGNLKNLQYLFLYQNKLS  273 (968)
T ss_pred             CceeccccChhHhCCCCCCEEECcCCeee
Confidence                     23566667777777665543

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

Probab=99.12  E-value=1.1e-10  Score=126.71  Aligned_cols=147  Identities=14%  Similarity=0.098  Sum_probs=66.5

Q ss_pred             CCccccccCcccEEEeccccc--cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc--ceeeccCC
Q 042962          125 LPQLVFYAKSMSLLGLDSCKL--ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG--LKHLELPN  200 (377)
Q Consensus       125 lp~~l~~~~~L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~--l~~l~i~~  200 (377)
                      +|..+..+++|++|+|++|.+  ..|..+.++++|++|+|.+|.+.+..+.. ++++++|+.|.++++.-  ..+-.+..
T Consensus       156 ~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~l~~  234 (968)
T PLN00113        156 IPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRE-LGQMKSLKWIYLGYNNLSGEIPYEIGG  234 (968)
T ss_pred             CChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChH-HcCcCCccEEECcCCccCCcCChhHhc
Confidence            444455555555555555543  22334455555555555555543322222 34455555555554421  11112233


Q ss_pred             CCCCcEEEEcccC---CCchhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh---------hhccCCCCCceEe
Q 042962          201 LGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIK  266 (377)
Q Consensus       201 l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~  266 (377)
                      +++|+.|++.+|.   ..+.....+++|++|.++++.  +..+..+.++.+|++|+++         ..+.++++|+.|+
T Consensus       235 l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~  314 (968)
T PLN00113        235 LTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILH  314 (968)
T ss_pred             CCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEE
Confidence            4555555555554   112222334555555554432  2233334444555555544         1234445555555


Q ss_pred             ccCCcc
Q 042962          267 ISSFCL  272 (377)
Q Consensus       267 i~~~~L  272 (377)
                      +++|.+
T Consensus       315 l~~n~~  320 (968)
T PLN00113        315 LFSNNF  320 (968)
T ss_pred             CCCCcc
Confidence            554443

>PLN03210 Resistant to P

Probab=98.89  E-value=1.2e-08  Score=112.37  Aligned_cols=87  Identities=16%  Similarity=0.105  Sum_probs=39.7

Q ss_pred             CccccccCcccEEEecccc-ccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccC-CCCC
Q 042962          126 PQLVFYAKSMSLLGLDSCK-LESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELP-NLGK  203 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~-~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~-~l~~  203 (377)
                      |..+..+++|+.|+|++|. +...+.+..+++|++|+|.+|..-... ..-+.++++|+.|++++|..++.+... ++++
T Consensus       627 ~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~l-p~si~~L~~L~~L~L~~c~~L~~Lp~~i~l~s  705 (1153)
T PLN03210        627 WDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVEL-PSSIQYLNKLEDLDMSRCENLEILPTGINLKS  705 (1153)
T ss_pred             ccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCcccc-chhhhccCCCCEEeCCCCCCcCccCCcCCCCC
Confidence            3333344555555555443 222223444555555555554321111 112345555666666655544433321 2455


Q ss_pred             CcEEEEcccC
Q 042962          204 LKEFKVYDEY  213 (377)
Q Consensus       204 L~~L~i~~~~  213 (377)
                      |+.|.+.+|.
T Consensus       706 L~~L~Lsgc~  715 (1153)
T PLN03210        706 LYRLNLSGCS  715 (1153)
T ss_pred             CCEEeCCCCC
Confidence            6666666554

syringae 6; Provisional

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

Probab=98.81  E-value=3e-09  Score=103.89  Aligned_cols=168  Identities=14%  Similarity=0.173  Sum_probs=95.9

Q ss_pred             ccccccCcccEEEeccccccCCCCCCC-CCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCC
Q 042962          127 QLVFYAKSMSLLGLDSCKLESPRGNVT-LSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGK  203 (377)
Q Consensus       127 ~~l~~~~~L~~L~L~~~~~~~p~~~~~-l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~  203 (377)
                      ..+++.++|+.+++..|.+..-|.++. ...|+.|.|.+|.++.-.-+. ++..|.||.|+|+...  .+..-....-.+
T Consensus        96 ~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~-L~~l~alrslDLSrN~is~i~~~sfp~~~n  174 (873)
T KOG4194|consen   96 EFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEE-LSALPALRSLDLSRNLISEIPKPSFPAKVN  174 (873)
T ss_pred             HHHhcCCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHH-HHhHhhhhhhhhhhchhhcccCCCCCCCCC
Confidence            345677888888888887743334444 344888888888763222222 4556788888887652  222112221256


Q ss_pred             CcEEEEcccCCCchhh----hcCCcccEEEEeccc-cC-CceeeccCCCccccchh---------hhccCCCCCceEecc
Q 042962          204 LKEFKVYDEYGLEQVY----IQGMNAHSVHIIGLH-ML-PHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKIS  268 (377)
Q Consensus       204 L~~L~i~~~~~~~~~~----~~~p~L~~L~l~g~~-~~-~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~  268 (377)
                      +++|.+.++. +..+.    -...+|..|+++.+. .. .+..+.+++.|+.|+|.         ..+.++++|+.|.+.
T Consensus       175 i~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklq  253 (873)
T KOG4194|consen  175 IKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQ  253 (873)
T ss_pred             ceEEeecccc-ccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhh
Confidence            7788877776 11111    112366667775553 22 22235566777777665         234566677777666


Q ss_pred             CCccceEE---ccCcccccccccccCCcceE
Q 042962          269 SFCLKSFL---FIGYDTLDELKLCTPNLSIF  296 (377)
Q Consensus       269 ~~~L~~l~---l~~c~~L~~l~l~~~~L~~~  296 (377)
                      .|.+..|+   +.+|.+++.+.+..++++..
T Consensus       254 rN~I~kL~DG~Fy~l~kme~l~L~~N~l~~v  284 (873)
T KOG4194|consen  254 RNDISKLDDGAFYGLEKMEHLNLETNRLQAV  284 (873)
T ss_pred             hcCcccccCcceeeecccceeecccchhhhh
Confidence            66655553   44566666666666665543

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

Probab=98.74  E-value=7.6e-10  Score=104.09  Aligned_cols=156  Identities=17%  Similarity=0.225  Sum_probs=88.4

Q ss_pred             CCcHHHHHHHhhcCChhHH---------hhcCCCC-CcCCcccCCCC---hhhHHHHHHHHhhcCCCcCceEEEEEEecc
Q 042962           17 ALLAPILHHILSFLSIEQV---------WHSHPGV-ECNGSLSMSPE---NTLKCLVKTLLNHYGDDFSLEKFTFIVQLS   83 (377)
Q Consensus        17 ~LPD~lL~~ILs~Lp~~da---------Wr~l~~~-~~~~~l~~~~~---~~~~~v~~~L~~~~~~~~~i~~l~l~~~~~   83 (377)
                      .||.|++.+|+|+|+++..         |..+--- ..|.+.+....   .+...|...+ .++|+  .+++++++.+..
T Consensus        74 ~LPpEl~lkvFS~LDtksl~r~a~~c~~~n~~AlD~~~~q~idL~t~~rDv~g~VV~~~~-~Rcgg--~lk~LSlrG~r~  150 (483)
T KOG4341|consen   74 SLPPELLLKVFSMLDTKSLCRAAQCCTMWNKLALDGSCWQHIDLFTFQRDVDGGVVENMI-SRCGG--FLKELSLRGCRA  150 (483)
T ss_pred             cCCHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhhccccceeeehhcchhcCCCcceehHh-hhhcc--cccccccccccc
Confidence            5999999999999999887         5544100 02333332211   1144455555 44443  599999988753


Q ss_pred             CCccchhhHHHHHHHHH-hCCceEEEEEeeCCCCCCCCCCcCCCcc-----ccccCcccEEEeccccccCC----CCCCC
Q 042962           84 DDVKFVSSIYRCLRYAV-ETNVKELKLGFCCPHSNYPDSYYNLPQL-----VFYAKSMSLLGLDSCKLESP----RGNVT  153 (377)
Q Consensus        84 ~~~~~~~~i~~wi~~a~-~~~v~~L~L~~~~~~~~~~~~~~~lp~~-----l~~~~~L~~L~L~~~~~~~p----~~~~~  153 (377)
                      ..+.      ..-.++. .+++++|.+...          +.+...     -..|+.|++|+|..|...+-    .-..+
T Consensus       151 v~~s------slrt~~~~CpnIehL~l~gc----------~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~g  214 (483)
T KOG4341|consen  151 VGDS------SLRTFASNCPNIEHLALYGC----------KKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEG  214 (483)
T ss_pred             CCcc------hhhHHhhhCCchhhhhhhcc----------eeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHh
Confidence            3221      1122222 367777766432          222221     12577777777777642110    01246


Q ss_pred             CCCCCeeecccee-eChHHHHHHhcCCcccccccccccc
Q 042962          154 LSCLRELRPRHVC-ADDQVIKDLISGCPLIEFISIISCR  191 (377)
Q Consensus       154 l~~L~~L~L~~~~-~~~~~l~~l~~~cp~Le~L~L~~c~  191 (377)
                      +++|++|+++++. +.+..++.+..+|..++.+.+++|.
T Consensus       215 C~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~  253 (483)
T KOG4341|consen  215 CRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCL  253 (483)
T ss_pred             hhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccc
Confidence            7777777777773 3556666666677777776666663

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

Probab=98.68  E-value=3.2e-09  Score=103.66  Aligned_cols=164  Identities=12%  Similarity=0.089  Sum_probs=85.1

Q ss_pred             cCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEE
Q 042962          132 AKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEF  207 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L  207 (377)
                      .+.|++|+|+.|.+. +| +.+..=.++++|+|.+|.++.-.... +++..+|-.|.|++..  .+.......+|+|+.|
T Consensus       148 l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~-F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~L  226 (873)
T KOG4194|consen  148 LPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGH-FDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESL  226 (873)
T ss_pred             HhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccccccccccc-ccccchheeeecccCcccccCHHHhhhcchhhhh
Confidence            344455555544431 11 12222234555555555542211111 3344455555555442  1111111224566666


Q ss_pred             EEcccC--CCch-hhhcCCcccEEEEeccc--cCCceeeccCCCccccchh---------hhccCCCCCceEeccCCccc
Q 042962          208 KVYDEY--GLEQ-VYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       208 ~i~~~~--~~~~-~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~  273 (377)
                      ++..+.  .... .....|+|+.|.+..+.  ..-.--+-.|.++++|+|+         +.+-+++.|+.|+++.|.++
T Consensus       227 dLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~  306 (873)
T KOG4194|consen  227 DLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQ  306 (873)
T ss_pred             hccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhh
Confidence            665554  1111 11234566666653321  1111115567778888776         45677888888899888888


Q ss_pred             eEEcc---CcccccccccccCCcceE
Q 042962          274 SFLFI---GYDTLDELKLCTPNLSIF  296 (377)
Q Consensus       274 ~l~l~---~c~~L~~l~l~~~~L~~~  296 (377)
                      .+++.   .|.+|++++++.+++..+
T Consensus       307 rih~d~WsftqkL~~LdLs~N~i~~l  332 (873)
T KOG4194|consen  307 RIHIDSWSFTQKLKELDLSSNRITRL  332 (873)
T ss_pred             eeecchhhhcccceeEeccccccccC
Confidence            87654   456888888888877655

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

Probab=98.66  E-value=1.8e-09  Score=106.17  Aligned_cols=218  Identities=16%  Similarity=0.179  Sum_probs=123.7

Q ss_pred             CCcCCCcccc-ccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc-ccee--
Q 042962          121 SYYNLPQLVF-YAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR-GLKH--  195 (377)
Q Consensus       121 ~~~~lp~~l~-~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~-~l~~--  195 (377)
                      ....+|..++ ++..|-.|+|++|++ ..||...++..|++|.|++|.+..--+.. +.+.++|+.|.+++-. .+..  
T Consensus       137 ~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQ-LPsmtsL~vLhms~TqRTl~N~P  215 (1255)
T KOG0444|consen  137 NIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQ-LPSMTSLSVLHMSNTQRTLDNIP  215 (1255)
T ss_pred             ccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhc-CccchhhhhhhcccccchhhcCC
Confidence            5567777665 667777888888887 45667778888899999888663333333 4456677777777542 2221  


Q ss_pred             eccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------------------
Q 042962          196 LELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------------------  253 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------------------  253 (377)
                      -.+.++.+|..++++.+.  ..+......++|+.|+++|+. .......+...+|+.|+++                   
T Consensus       216 tsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~k  295 (1255)
T KOG0444|consen  216 TSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTK  295 (1255)
T ss_pred             CchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHH
Confidence            223345677777777665  334444556778888877763 2222223334445555544                   


Q ss_pred             --------------hhccCCCCCceEeccCCccceE--EccCcccccccccccCCcceEEEcccccccCcc-ccccceEE
Q 042962          254 --------------QEIVDCMKLRSIKISSFCLKSF--LFIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIA  316 (377)
Q Consensus       254 --------------~~l~~~~~L~~L~i~~~~L~~l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~  316 (377)
                                    ..|+++.+|+.+..++|.|+-.  .+..|.+|+.+.++.+.|..       +|..+- .+.|+.|+
T Consensus       296 Ly~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVPEglcRC~kL~kL~L~~NrLiT-------LPeaIHlL~~l~vLD  368 (1255)
T KOG0444|consen  296 LYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVPEGLCRCVKLQKLKLDHNRLIT-------LPEAIHLLPDLKVLD  368 (1255)
T ss_pred             HHhccCcccccCCccchhhhhhhHHHHhhccccccCchhhhhhHHHHHhcccccceee-------chhhhhhcCCcceee
Confidence                          1234444555555555555433  24445566666666665533       343332 24688899


Q ss_pred             EEecCCCCCCceeeeec--ccchhHHHhhHHHH
Q 042962          317 LVFNPDNINNQWFHVSF--YIHSEYLNFSLAKL  347 (377)
Q Consensus       317 l~~n~~~~~~~~~~~~~--~~~~~~~~~~~~~~  347 (377)
                      +..|+..--..- |+..  ....-.+.||||+.
T Consensus       369 lreNpnLVMPPK-P~da~~~lefYNIDFSLq~Q  400 (1255)
T KOG0444|consen  369 LRENPNLVMPPK-PNDARKKLEFYNIDFSLQHQ  400 (1255)
T ss_pred             ccCCcCccCCCC-cchhhhcceeeecceehhhH
Confidence            998877432100 0111  11111367888887

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

Probab=98.63  E-value=2.4e-09  Score=105.27  Aligned_cols=173  Identities=17%  Similarity=0.213  Sum_probs=119.1

Q ss_pred             CCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc-cceeecc
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR-GLKHLEL  198 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~-~l~~l~i  198 (377)
                      ....+|..+|.++.|+.|+|++|.+ ..|..+..-+++-.|+|++|+++ .++..++.+.+-|-.|+|+... ...+..+
T Consensus        91 KnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~Ie-tIPn~lfinLtDLLfLDLS~NrLe~LPPQ~  169 (1255)
T KOG0444|consen   91 KNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIE-TIPNSLFINLTDLLFLDLSNNRLEMLPPQI  169 (1255)
T ss_pred             ccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccc-cCCchHHHhhHhHhhhccccchhhhcCHHH
Confidence            3567899999999999999999988 45666777789999999999883 2334556677778888888763 1122233


Q ss_pred             CCCCCCcEEEEcccCC----CchhhhcCCcccEEEEeccc---cCCceeeccCCCccccchh--------hhccCCCCCc
Q 042962          199 PNLGKLKEFKVYDEYG----LEQVYIQGMNAHSVHIIGLH---MLPHISVVPCKNLKKLKLC--------QEIVDCMKLR  263 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~~----~~~~~~~~p~L~~L~l~g~~---~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~  263 (377)
                      ..+..|++|.++++.-    +..+ -.+.+|+.|++++..   ..+|.++..+.||..++++        .-+-++++|.
T Consensus       170 RRL~~LqtL~Ls~NPL~hfQLrQL-PsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~Lr  248 (1255)
T KOG0444|consen  170 RRLSMLQTLKLSNNPLNHFQLRQL-PSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLR  248 (1255)
T ss_pred             HHHhhhhhhhcCCChhhHHHHhcC-ccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhh
Confidence            3457888999988861    1111 123456666776654   4467778888888888887        2346678888


Q ss_pred             eEeccCCccceEEcc--CcccccccccccCCcce
Q 042962          264 SIKISSFCLKSFLFI--GYDTLDELKLCTPNLSI  295 (377)
Q Consensus       264 ~L~i~~~~L~~l~l~--~c~~L~~l~l~~~~L~~  295 (377)
                      +|++++|+++.|.+.  ...+|+.++++-+.|..
T Consensus       249 rLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~  282 (1255)
T KOG0444|consen  249 RLNLSGNKITELNMTEGEWENLETLNLSRNQLTV  282 (1255)
T ss_pred             eeccCcCceeeeeccHHHHhhhhhhccccchhcc
Confidence            889988888876543  23456666665555443

>PLN03210 Resistant to P

Probab=98.50  E-value=3.7e-07  Score=100.83  Aligned_cols=106  Identities=20%  Similarity=0.193  Sum_probs=54.5

Q ss_pred             Ccccccccccccccceee--ccCCCCCCcEEEEcccCCCchh--hhcCCcccEEEEeccc--cCCceeeccCCCccccch
Q 042962          179 CPLIEFISIISCRGLKHL--ELPNLGKLKEFKVYDEYGLEQV--YIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKL  252 (377)
Q Consensus       179 cp~Le~L~L~~c~~l~~l--~i~~l~~L~~L~i~~~~~~~~~--~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L  252 (377)
                      +++|+.|.+++|..+..+  .+.++++|+.|.+.+|..+..+  .+..++|++|+++|+.  ..++.   ...+|+.|+|
T Consensus       777 ~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~---~~~nL~~L~L  853 (1153)
T PLN03210        777 SPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD---ISTNISDLNL  853 (1153)
T ss_pred             cccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCccccccc---cccccCEeEC
Confidence            345666666666433322  2345677888888777622221  1245677777776653  11111   1234555555


Q ss_pred             h--------hhccCCCCCceEeccC--------------CccceEEccCcccccccc
Q 042962          253 C--------QEIVDCMKLRSIKISS--------------FCLKSFLFIGYDTLDELK  287 (377)
Q Consensus       253 ~--------~~l~~~~~L~~L~i~~--------------~~L~~l~l~~c~~L~~l~  287 (377)
                      +        ..+.++++|+.|++++              ..|+.+.+.+|.+|+.+.
T Consensus       854 s~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        854 SRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCccccccc
Confidence            4        1234444555554443              124455677777766543

syringae 6; Provisional

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

Probab=98.37  E-value=2.2e-08  Score=102.63  Aligned_cols=174  Identities=15%  Similarity=0.128  Sum_probs=94.9

Q ss_pred             hHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeC-
Q 042962           91 SIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCAD-  168 (377)
Q Consensus        91 ~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~-  168 (377)
                      .+..|+..++  +++.+....        .....+|..++...+|+.|....|.+ ..|+...++++|++|+|..|.+. 
T Consensus       255 ~lp~wi~~~~--nle~l~~n~--------N~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~  324 (1081)
T KOG0618|consen  255 NLPEWIGACA--NLEALNANH--------NRLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPS  324 (1081)
T ss_pred             cchHHHHhcc--cceEecccc--------hhHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccc
Confidence            4447777664  566666542        23467777788888888888888876 35566777999999999999772 


Q ss_pred             --hHHHHHH------h-c--------------CCcccccccccccc---cceeeccCCCCCCcEEEEcccC--CCchh-h
Q 042962          169 --DQVIKDL------I-S--------------GCPLIEFISIISCR---GLKHLELPNLGKLKEFKVYDEY--GLEQV-Y  219 (377)
Q Consensus       169 --~~~l~~l------~-~--------------~cp~Le~L~L~~c~---~l~~l~i~~l~~L~~L~i~~~~--~~~~~-~  219 (377)
                        +..+..+      + .              ..+.|+.|.+.+..   ...++ +.++++||.|.++.++  .++.. .
T Consensus       325 lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~-l~~~~hLKVLhLsyNrL~~fpas~~  403 (1081)
T KOG0618|consen  325 LPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPV-LVNFKHLKVLHLSYNRLNSFPASKL  403 (1081)
T ss_pred             cchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhh-hccccceeeeeecccccccCCHHHH
Confidence              2111100      0 0              12223333333221   01111 1123566666666664  22222 2


Q ss_pred             hcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceE
Q 042962          220 IQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSF  275 (377)
Q Consensus       220 ~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l  275 (377)
                      ...+.|+.|.++|+. ..++..+.+|..|+.|...       .++..++.|+.++++.|+|+..
T Consensus       404 ~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDlS~N~L~~~  467 (1081)
T KOG0618|consen  404 RKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDLSCNNLSEV  467 (1081)
T ss_pred             hchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEecccchhhhh
Confidence            234556666666654 3344445555555555443       3345556666666666665543

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

Probab=98.32  E-value=1.2e-08  Score=85.58  Aligned_cols=84  Identities=17%  Similarity=0.163  Sum_probs=47.5

Q ss_pred             cccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc-cceeeccCCCCCCc
Q 042962          128 LVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR-GLKHLELPNLGKLK  205 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~-~l~~l~i~~l~~L~  205 (377)
                      .++.....+.|.|++|.+ ..|+.++.+.+|+.|++.++++  +.+..-++..|.|+.|++.-.. ...+-...++|.|+
T Consensus        28 gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqi--e~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~le  105 (264)
T KOG0617|consen   28 GLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQI--EELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALE  105 (264)
T ss_pred             cccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchh--hhcChhhhhchhhhheecchhhhhcCccccCCCchhh
Confidence            345667777777777776 3456677777777777777766  2233335666666666665321 01111122345555


Q ss_pred             EEEEcccC
Q 042962          206 EFKVYDEY  213 (377)
Q Consensus       206 ~L~i~~~~  213 (377)
                      .|++..+.
T Consensus       106 vldltynn  113 (264)
T KOG0617|consen  106 VLDLTYNN  113 (264)
T ss_pred             hhhccccc
Confidence            55554443

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

Probab=98.12  E-value=8.7e-07  Score=84.26  Aligned_cols=149  Identities=15%  Similarity=0.110  Sum_probs=91.8

Q ss_pred             ccCcccEEEeccccccCCC---CCCCCCCCCeeeccceee-ChHHHHHHhcCCccccccccccccc---ceeeccCCCCC
Q 042962          131 YAKSMSLLGLDSCKLESPR---GNVTLSCLRELRPRHVCA-DDQVIKDLISGCPLIEFISIISCRG---LKHLELPNLGK  203 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~---~~~~l~~L~~L~L~~~~~-~~~~l~~l~~~cp~Le~L~L~~c~~---l~~l~i~~l~~  203 (377)
                      +.++|+...|.++....+.   ....|++++.|+|++|-+ .=..+..++...|+||.|+|+...-   ........++.
T Consensus       119 n~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~  198 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSH  198 (505)
T ss_pred             hHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhh
Confidence            4567777788877765443   355788888888888866 3345556677888888888886521   11111112578


Q ss_pred             CcEEEEcccC----CCchhhhcCCcccEEEEecccc--CCceeeccCCCccccchh----------hhccCCCCCceEec
Q 042962          204 LKEFKVYDEY----GLEQVYIQGMNAHSVHIIGLHM--LPHISVVPCKNLKKLKLC----------QEIVDCMKLRSIKI  267 (377)
Q Consensus       204 L~~L~i~~~~----~~~~~~~~~p~L~~L~l~g~~~--~~~~~~~~~~~L~~L~L~----------~~l~~~~~L~~L~i  267 (377)
                      ||.|.+.+|.    .+..+...+|+|+.|.+.++..  ...........|+.|+|+          ..++.++.|..|++
T Consensus       199 lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnl  278 (505)
T KOG3207|consen  199 LKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNL  278 (505)
T ss_pred             hheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhc
Confidence            8888888887    3445556778888888866631  111112233446666665          12356677777777


Q ss_pred             cCCccceEEccC
Q 042962          268 SSFCLKSFLFIG  279 (377)
Q Consensus       268 ~~~~L~~l~l~~  279 (377)
                      +.+.+..+.+-.
T Consensus       279 s~tgi~si~~~d  290 (505)
T KOG3207|consen  279 SSTGIASIAEPD  290 (505)
T ss_pred             cccCcchhcCCC
Confidence            666655544333

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.12  E-value=1.3e-05  Score=83.77  Aligned_cols=140  Identities=17%  Similarity=0.108  Sum_probs=81.4

Q ss_pred             CCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCC
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPN  200 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~  200 (377)
                      ....+|..+.  ++|+.|.+.+|.+...+.  ..++|++|+|++|.++.  +.   ...++|+.|++..+. +..+.-. 
T Consensus       212 ~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~--lp~~Lk~LdLs~N~Lts--LP---~lp~sL~~L~Ls~N~-L~~Lp~l-  280 (788)
T PRK15387        212 GLTTLPDCLP--AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTS--LP---VLPPGLLELSIFSNP-LTHLPAL-  280 (788)
T ss_pred             CCCcCCcchh--cCCCEEEccCCcCCCCCC--CCCCCcEEEecCCccCc--cc---CcccccceeeccCCc-hhhhhhc-
Confidence            4456887764  478999999888743222  35789999999997742  22   124688888888763 3322222 


Q ss_pred             CCCCcEEEEcccCCCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-hhccCC----CCCceEeccCCccce
Q 042962          201 LGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-QEIVDC----MKLRSIKISSFCLKS  274 (377)
Q Consensus       201 l~~L~~L~i~~~~~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-~~l~~~----~~L~~L~i~~~~L~~  274 (377)
                      .++|+.|.+.+|. +..+....|+|+.|+++++. ..++..   -.+|+.|+++ ..+..+    .+|+.|++++|+|+.
T Consensus       281 p~~L~~L~Ls~N~-Lt~LP~~p~~L~~LdLS~N~L~~Lp~l---p~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~  356 (788)
T PRK15387        281 PSGLCKLWIFGNQ-LTSLPVLPPGLQELSVSDNQLASLPAL---PSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLAS  356 (788)
T ss_pred             hhhcCEEECcCCc-cccccccccccceeECCCCccccCCCC---cccccccccccCccccccccccccceEecCCCccCC
Confidence            2577888887775 22222234678888887663 222211   1234444444 122222    256677777666654


Q ss_pred             E
Q 042962          275 F  275 (377)
Q Consensus       275 l  275 (377)
                      +
T Consensus       357 L  357 (788)
T PRK15387        357 L  357 (788)
T ss_pred             C
Confidence            3

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.09  E-value=1.4e-05  Score=83.53  Aligned_cols=41  Identities=22%  Similarity=0.102  Sum_probs=26.7

Q ss_pred             CcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceee
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~  167 (377)
                      ...+|..   .++|++|+|++|.+...+.  ..++|+.|++.+|.+
T Consensus       234 Lt~LP~l---p~~Lk~LdLs~N~LtsLP~--lp~sL~~L~Ls~N~L  274 (788)
T PRK15387        234 LTSLPAL---PPELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPL  274 (788)
T ss_pred             CCCCCCC---CCCCcEEEecCCccCcccC--cccccceeeccCCch
Confidence            3456643   5789999999987743222  235777777777765

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

Probab=98.08  E-value=2.1e-07  Score=84.48  Aligned_cols=166  Identities=17%  Similarity=0.205  Sum_probs=109.9

Q ss_pred             HHHHHhCCceEEEEEeeCCCCCCCCCCcCCCcccc-ccCcccEEEeccccccCC---CCCCCCCCCCeeeccceeeChHH
Q 042962           96 LRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVF-YAKSMSLLGLDSCKLESP---RGNVTLSCLRELRPRHVCADDQV  171 (377)
Q Consensus        96 i~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~-~~~~L~~L~L~~~~~~~p---~~~~~l~~L~~L~L~~~~~~~~~  171 (377)
                      +....++||..+.+.-..-      ..-.+.+... .-+.|++|+|+.-.+...   .-+..+..||.|+|.++++++..
T Consensus       153 l~~l~~rgV~v~Rlar~~~------~~prlae~~~~frsRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I  226 (419)
T KOG2120|consen  153 LGRLLSRGVIVFRLARSFM------DQPRLAEHFSPFRSRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPI  226 (419)
T ss_pred             HHHHHhCCeEEEEcchhhh------cCchhhhhhhhhhhhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHH
Confidence            4455678998887752110      0011111111 124599999997554321   12356889999999999998876


Q ss_pred             HHHHhcCCcccccccccccccceee----ccCCCCCCcEEEEcccCCCc---hhhh--cCCcccEEEEeccccCCc----
Q 042962          172 IKDLISGCPLIEFISIISCRGLKHL----ELPNLGKLKEFKVYDEYGLE---QVYI--QGMNAHSVHIIGLHMLPH----  238 (377)
Q Consensus       172 l~~l~~~cp~Le~L~L~~c~~l~~l----~i~~l~~L~~L~i~~~~~~~---~~~~--~~p~L~~L~l~g~~~~~~----  238 (377)
                      ... ++.-.+|+.|+|+.|.|++..    -+++|..|..|.++-|....   .+.+  -.++|..|+++|+...+.    
T Consensus       227 ~~~-iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~  305 (419)
T KOG2120|consen  227 VNT-IAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHL  305 (419)
T ss_pred             HHH-HhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHH
Confidence            666 677789999999999988653    34468999999999998211   1111  247899999998752221    


Q ss_pred             -eeeccCCCccccchh----------hhccCCCCCceEecc
Q 042962          239 -ISVVPCKNLKKLKLC----------QEIVDCMKLRSIKIS  268 (377)
Q Consensus       239 -~~~~~~~~L~~L~L~----------~~l~~~~~L~~L~i~  268 (377)
                       .-...|++|..|+|+          +.+.+++.|+.|+++
T Consensus       306 ~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSls  346 (419)
T KOG2120|consen  306 STLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLS  346 (419)
T ss_pred             HHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehh
Confidence             115678888888887          445666777777665

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

Probab=98.07  E-value=1.6e-06  Score=74.50  Aligned_cols=99  Identities=15%  Similarity=0.116  Sum_probs=40.0

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc--ccceee-ccCCCCCCcEE
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC--RGLKHL-ELPNLGKLKEF  207 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c--~~l~~l-~i~~l~~L~~L  207 (377)
                      .+.+|+.|+|++|.+..-..+..++.|++|++++|.++.-. +.+..+||+|++|.+++.  ..+..+ .+..+++|+.|
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~~l~~L~~L  118 (175)
T PF14580_consen   40 TLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSIS-EGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVL  118 (175)
T ss_dssp             T-TT--EEE-TTS--S--TT----TT--EEE--SS---S-C-HHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EE
T ss_pred             hhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccc-cchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCccee
Confidence            46788888888888755556777888888888888883210 122345888888888865  222222 33346788888


Q ss_pred             EEcccC-----C-CchhhhcCCcccEEEE
Q 042962          208 KVYDEY-----G-LEQVYIQGMNAHSVHI  230 (377)
Q Consensus       208 ~i~~~~-----~-~~~~~~~~p~L~~L~l  230 (377)
                      ++.++.     . ...+...+|+|+.|+.
T Consensus       119 ~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen  119 SLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             E-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             eccCCcccchhhHHHHHHHHcChhheeCC
Confidence            887776     0 1123345677766654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.03  E-value=1e-05  Score=84.68  Aligned_cols=104  Identities=12%  Similarity=0.140  Sum_probs=59.2

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccC
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELP  199 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~  199 (377)
                      ....+|..+  .++|+.|+|++|.+. .|...  +++|++|++++|.+..  +..-+  .+.|+.|.|++|. +..+...
T Consensus       189 ~LtsLP~~I--p~~L~~L~Ls~N~LtsLP~~l--~~nL~~L~Ls~N~Lts--LP~~l--~~~L~~L~Ls~N~-L~~LP~~  259 (754)
T PRK15370        189 GLTTIPACI--PEQITTLILDNNELKSLPENL--QGNIKTLYANSNQLTS--IPATL--PDTIQEMELSINR-ITELPER  259 (754)
T ss_pred             CcCcCCccc--ccCCcEEEecCCCCCcCChhh--ccCCCEEECCCCcccc--CChhh--hccccEEECcCCc-cCcCChh
Confidence            345567654  357888999888764 33322  3588899888887741  11111  2467888887764 2222211


Q ss_pred             CCCCCcEEEEcccCCCchhhhc-CCcccEEEEeccc
Q 042962          200 NLGKLKEFKVYDEYGLEQVYIQ-GMNAHSVHIIGLH  234 (377)
Q Consensus       200 ~l~~L~~L~i~~~~~~~~~~~~-~p~L~~L~l~g~~  234 (377)
                      -..+|+.|.++++. +..+... .++|+.|+++++.
T Consensus       260 l~s~L~~L~Ls~N~-L~~LP~~l~~sL~~L~Ls~N~  294 (754)
T PRK15370        260 LPSALQSLDLFHNK-ISCLPENLPEELRYLSVYDNS  294 (754)
T ss_pred             HhCCCCEEECcCCc-cCccccccCCCCcEEECCCCc
Confidence            12467777777665 1111111 2467777776653

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

Probab=98.02  E-value=1e-07  Score=89.59  Aligned_cols=175  Identities=15%  Similarity=0.125  Sum_probs=103.2

Q ss_pred             CCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeec
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLE  197 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~  197 (377)
                      ....+|..+++..+|+.|+.+++.+ ..|++++.+-.|..|+..+|++.  .+..-+.+|.+|..|.+.+..  .+..-.
T Consensus       102 ~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~--slp~~~~~~~~l~~l~~~~n~l~~l~~~~  179 (565)
T KOG0472|consen  102 KLSELPEQIGSLISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQIS--SLPEDMVNLSKLSKLDLEGNKLKALPENH  179 (565)
T ss_pred             hHhhccHHHhhhhhhhhhhccccceeecCchHHHHhhhhhhhccccccc--cCchHHHHHHHHHHhhccccchhhCCHHH
Confidence            4556777777777777777777665 34556666667777777766651  122224456666666665542  222223


Q ss_pred             cCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh---------hhccCCCCCceEe
Q 042962          198 LPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIK  266 (377)
Q Consensus       198 i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~  266 (377)
                      +. +.+|++|+...+.  .++.-.....+|+.|.+..+.-.+-.++++|..|+.|++.         ....+++++..|+
T Consensus       180 i~-m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLD  258 (565)
T KOG0472|consen  180 IA-MKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLD  258 (565)
T ss_pred             HH-HHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeee
Confidence            33 4566666554443  1111112234444455544433333368888888888776         2235788888899


Q ss_pred             ccCCccceEEccC--cccccccccccCCcceEEE
Q 042962          267 ISSFCLKSFLFIG--YDTLDELKLCTPNLSIFKY  298 (377)
Q Consensus       267 i~~~~L~~l~l~~--c~~L~~l~l~~~~L~~~~~  298 (377)
                      +..|+++.+.-..  ..+|+.++++.+.+.+++|
T Consensus       259 LRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~  292 (565)
T KOG0472|consen  259 LRDNKLKEVPDEICLLRSLERLDLSNNDISSLPY  292 (565)
T ss_pred             ccccccccCchHHHHhhhhhhhcccCCccccCCc
Confidence            9999998764333  3578888887777655544

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

Probab=98.00  E-value=1.1e-06  Score=75.66  Aligned_cols=101  Identities=16%  Similarity=0.195  Sum_probs=31.5

Q ss_pred             cccCcccEEEeccccccCCCCCC-CCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--ccee-eccCCCCCCc
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNV-TLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKH-LELPNLGKLK  205 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~-~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~-l~i~~l~~L~  205 (377)
                      -++..++.|+|.++.+......+ .+.+|+.|+|++|.+.  .++. +..++.|++|.+++..  .+.. +. .++|+|+
T Consensus        16 ~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~--~l~~-l~~L~~L~~L~L~~N~I~~i~~~l~-~~lp~L~   91 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQIT--KLEG-LPGLPRLKTLDLSNNRISSISEGLD-KNLPNLQ   91 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S----TT-----TT--EEE--SS---S-CHHHH-HH-TT--
T ss_pred             ccccccccccccccccccccchhhhhcCCCEEECCCCCCc--cccC-ccChhhhhhcccCCCCCCccccchH-HhCCcCC
Confidence            35667899999999875444554 5789999999999883  2333 5567888888888663  2211 11 1368888


Q ss_pred             EEEEcccC--CCchh--hhcCCcccEEEEeccc
Q 042962          206 EFKVYDEY--GLEQV--YIQGMNAHSVHIIGLH  234 (377)
Q Consensus       206 ~L~i~~~~--~~~~~--~~~~p~L~~L~l~g~~  234 (377)
                      .|.+.++.  .+..+  -..+|+|+.|.+.|+.
T Consensus        92 ~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   92 ELYLSNNKISDLNELEPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             EEE-TTS---SCCCCGGGGG-TT--EEE-TT-G
T ss_pred             EEECcCCcCCChHHhHHHHcCCCcceeeccCCc
Confidence            88888876  22221  1257888888887764

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

Probab=97.97  E-value=1.2e-06  Score=82.65  Aligned_cols=108  Identities=19%  Similarity=0.120  Sum_probs=68.3

Q ss_pred             CccccccCcccEEEecccccc--CCCCCCCC---CCCCeeeccceeeChHHHHH---HhcCC-cccccccccccccc---
Q 042962          126 PQLVFYAKSMSLLGLDSCKLE--SPRGNVTL---SCLRELRPRHVCADDQVIKD---LISGC-PLIEFISIISCRGL---  193 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~~--~p~~~~~l---~~L~~L~L~~~~~~~~~l~~---l~~~c-p~Le~L~L~~c~~l---  193 (377)
                      +..+..+++|+.|+|++|.+.  .+..+..+   ++|+.|++.+|.+++.....   .+..+ ++|++|++++|.-.   
T Consensus        74 ~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~  153 (319)
T cd00116          74 LQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGAS  153 (319)
T ss_pred             HHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchH
Confidence            345556789999999988874  22222233   45999999999886544433   24455 88999999988411   


Q ss_pred             -eee--ccCCCCCCcEEEEcccC-C---Cchhh---hcCCcccEEEEecc
Q 042962          194 -KHL--ELPNLGKLKEFKVYDEY-G---LEQVY---IQGMNAHSVHIIGL  233 (377)
Q Consensus       194 -~~l--~i~~l~~L~~L~i~~~~-~---~~~~~---~~~p~L~~L~l~g~  233 (377)
                       ..+  .+..+++|++|++.+|. .   ...+.   ...++|+.|+++++
T Consensus       154 ~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n  203 (319)
T cd00116         154 CEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNN  203 (319)
T ss_pred             HHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCC
Confidence             111  12234789999998886 1   11121   23458888888765

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

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.92  E-value=1.1e-05  Score=84.65  Aligned_cols=102  Identities=13%  Similarity=0.128  Sum_probs=58.6

Q ss_pred             CcCCCccccccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCC
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPN  200 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~  200 (377)
                      ...+|..++  ++|+.|+|++|.+. .|..+  .++|+.|+|++|.+. ..+..+   ..+|+.|+++++ .+..+.-.-
T Consensus       211 LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l--~~~L~~L~Ls~N~L~-~LP~~l---~s~L~~L~Ls~N-~L~~LP~~l  281 (754)
T PRK15370        211 LKSLPENLQ--GNIKTLYANSNQLTSIPATL--PDTIQEMELSINRIT-ELPERL---PSALQSLDLFHN-KISCLPENL  281 (754)
T ss_pred             CCcCChhhc--cCCCEEECCCCccccCChhh--hccccEEECcCCccC-cCChhH---hCCCCEEECcCC-ccCcccccc
Confidence            345676554  58999999998874 33222  247889999888774 111222   246888888754 343333221


Q ss_pred             CCCCcEEEEcccCCCchhhhcC-CcccEEEEecc
Q 042962          201 LGKLKEFKVYDEYGLEQVYIQG-MNAHSVHIIGL  233 (377)
Q Consensus       201 l~~L~~L~i~~~~~~~~~~~~~-p~L~~L~l~g~  233 (377)
                      .++|+.|.+++|. +..+.... ++|+.|.++++
T Consensus       282 ~~sL~~L~Ls~N~-Lt~LP~~lp~sL~~L~Ls~N  314 (754)
T PRK15370        282 PEELRYLSVYDNS-IRTLPAHLPSGITHLNVQSN  314 (754)
T ss_pred             CCCCcEEECCCCc-cccCcccchhhHHHHHhcCC
Confidence            2578888888775 11111111 24566665544

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

Probab=97.91  E-value=1.6e-06  Score=81.79  Aligned_cols=101  Identities=12%  Similarity=0.064  Sum_probs=59.4

Q ss_pred             CcccEEEeccccccC------CCCCCCC-CCCCeeeccceeeChHH---HHHHhcCCcccccccccccccc----eee--
Q 042962          133 KSMSLLGLDSCKLES------PRGNVTL-SCLRELRPRHVCADDQV---IKDLISGCPLIEFISIISCRGL----KHL--  196 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~------p~~~~~l-~~L~~L~L~~~~~~~~~---l~~l~~~cp~Le~L~L~~c~~l----~~l--  196 (377)
                      ++|++|++++|.+..      ...+..+ ++|+.|++.+|.+.+..   +...+..++.|+.|++++|.--    ..+  
T Consensus       108 ~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~  187 (319)
T cd00116         108 SSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAE  187 (319)
T ss_pred             CcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHH
Confidence            348888888876531      0123445 77888888888775332   2334566778888888876311    111  


Q ss_pred             ccCCCCCCcEEEEcccCC-------CchhhhcCCcccEEEEecc
Q 042962          197 ELPNLGKLKEFKVYDEYG-------LEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~~-------~~~~~~~~p~L~~L~l~g~  233 (377)
                      .+..+++|+.|++++|..       +.......++|++|+++++
T Consensus       188 ~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n  231 (319)
T cd00116         188 GLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN  231 (319)
T ss_pred             HHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCC
Confidence            112235888888887761       1111224567777777664

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).

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

Probab=97.87  E-value=4.1e-08  Score=92.26  Aligned_cols=174  Identities=17%  Similarity=0.100  Sum_probs=122.7

Q ss_pred             CCCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc-ceeec
Q 042962          120 DSYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG-LKHLE  197 (377)
Q Consensus       120 ~~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~-l~~l~  197 (377)
                      .....+|++++....++.|+.+++.+ ..|+..+++++|+.|+.+++.+..  +..-++.|-.|++|...+..- ..+-.
T Consensus        78 n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~e--l~~~i~~~~~l~dl~~~~N~i~slp~~  155 (565)
T KOG0472|consen   78 NKLSQLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELKE--LPDSIGRLLDLEDLDATNNQISSLPED  155 (565)
T ss_pred             chhhhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccceee--cCchHHHHhhhhhhhccccccccCchH
Confidence            45678888888888888888888876 566678888899999988887621  111244566778777765521 11112


Q ss_pred             cCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEec
Q 042962          198 LPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKI  267 (377)
Q Consensus       198 i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i  267 (377)
                      +.++.+|..+.+.++.  ..+.-.+....|+.++.+.+. +.+|.+++.+.+|+.|+|.       .++.+|..|..|.+
T Consensus       156 ~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~  235 (565)
T KOG0472|consen  156 MVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHV  235 (565)
T ss_pred             HHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHh
Confidence            2235677777777776  344445567889999986654 7788889999999988887       46789999999999


Q ss_pred             cCCccceEEccCcc---cccccccccCCcce
Q 042962          268 SSFCLKSFLFIGYD---TLDELKLCTPNLSI  295 (377)
Q Consensus       268 ~~~~L~~l~l~~c~---~L~~l~l~~~~L~~  295 (377)
                      +.|+++.+.-..|+   .+..+++..+++++
T Consensus       236 g~N~i~~lpae~~~~L~~l~vLDLRdNklke  266 (565)
T KOG0472|consen  236 GENQIEMLPAEHLKHLNSLLVLDLRDNKLKE  266 (565)
T ss_pred             cccHHHhhHHHHhcccccceeeecccccccc
Confidence            99998887665554   34445555555544

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

Probab=97.83  E-value=8.8e-06  Score=77.56  Aligned_cols=124  Identities=14%  Similarity=0.088  Sum_probs=84.9

Q ss_pred             cccCcccEEEeccccccCCCC---CCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeecc--CCCCCC
Q 042962          130 FYAKSMSLLGLDSCKLESPRG---NVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLEL--PNLGKL  204 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~---~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i--~~l~~L  204 (377)
                      ..+++|+.|+|+.|.+..|.+   -..++.||+|.|.+|.++-..+..++..||+|+.|.+....+......  ..+..|
T Consensus       169 eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L  248 (505)
T KOG3207|consen  169 EQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTL  248 (505)
T ss_pred             HhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHH
Confidence            357889999999988766532   236789999999999998888888899999999999998753322111  124689


Q ss_pred             cEEEEcccC--CC--chhhhcCCcccEEEEeccc----cCCcee----eccCCCccccchh
Q 042962          205 KEFKVYDEY--GL--EQVYIQGMNAHSVHIIGLH----MLPHIS----VVPCKNLKKLKLC  253 (377)
Q Consensus       205 ~~L~i~~~~--~~--~~~~~~~p~L~~L~l~g~~----~~~~~~----~~~~~~L~~L~L~  253 (377)
                      +.|+++++.  ..  .......|.|+.|.++.+.    ..++.+    ....++|++|++.
T Consensus       249 ~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~  309 (505)
T KOG3207|consen  249 QELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNIS  309 (505)
T ss_pred             hhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecc
Confidence            999999887  22  2344567888888774432    111111    2344566666665

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

Probab=97.71  E-value=2.8e-06  Score=71.45  Aligned_cols=137  Identities=18%  Similarity=0.157  Sum_probs=81.2

Q ss_pred             CCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc----ccee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR----GLKH  195 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~----~l~~  195 (377)
                      ....+|+.+....+|+.|++.+|.+ ..|..+.+++.|+.|++.-+++  ..+..-++++|.||.|++....    .+..
T Consensus        44 Kl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl--~~lprgfgs~p~levldltynnl~e~~lpg  121 (264)
T KOG0617|consen   44 KLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRL--NILPRGFGSFPALEVLDLTYNNLNENSLPG  121 (264)
T ss_pred             ceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhh--hcCccccCCCchhhhhhccccccccccCCc
Confidence            4455677777778888888887776 4566677778888888776655  2233346677888888877542    1111


Q ss_pred             eccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          196 LELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      -... +.+|+.|.++++.  .++.-.....+|+.|.+.++. ...|               .+++.++.|+.|.|.+|.|
T Consensus       122 nff~-m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lp---------------keig~lt~lrelhiqgnrl  185 (264)
T KOG0617|consen  122 NFFY-MTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLP---------------KEIGDLTRLRELHIQGNRL  185 (264)
T ss_pred             chhH-HHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCc---------------HHHHHHHHHHHHhccccee
Confidence            1111 3567777776665  223333445666666664432 1122               2455556666667777776


Q ss_pred             ceE
Q 042962          273 KSF  275 (377)
Q Consensus       273 ~~l  275 (377)
                      +.+
T Consensus       186 ~vl  188 (264)
T KOG0617|consen  186 TVL  188 (264)
T ss_pred             eec
Confidence            654

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

Probab=97.42  E-value=2.8e-05  Score=73.35  Aligned_cols=92  Identities=16%  Similarity=0.188  Sum_probs=56.3

Q ss_pred             CCcCCCcccc-ccCcccEEEeccccc--cCCCCCCCCCCCCeeeccc-eeeChHHHHHHhcCCccccccccccc--ccce
Q 042962          121 SYYNLPQLVF-YAKSMSLLGLDSCKL--ESPRGNVTLSCLRELRPRH-VCADDQVIKDLISGCPLIEFISIISC--RGLK  194 (377)
Q Consensus       121 ~~~~lp~~l~-~~~~L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~-~~~~~~~l~~l~~~cp~Le~L~L~~c--~~l~  194 (377)
                      ....||+..| ..++|+.|+|++|.+  ..|..|.++++|.+|.+.+ |+++ +.....+.+...|+-|.+.-+  ..+.
T Consensus        78 ~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~-~l~k~~F~gL~slqrLllNan~i~Cir  156 (498)
T KOG4237|consen   78 QISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKIT-DLPKGAFGGLSSLQRLLLNANHINCIR  156 (498)
T ss_pred             CcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchh-hhhhhHhhhHHHHHHHhcChhhhcchh
Confidence            4556776655 678888888887765  3456777888888887777 5553 233445666667776666533  2222


Q ss_pred             eeccCCCCCCcEEEEcccC
Q 042962          195 HLELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       195 ~l~i~~l~~L~~L~i~~~~  213 (377)
                      .-.+..+++|..|.+.++.
T Consensus       157 ~~al~dL~~l~lLslyDn~  175 (498)
T KOG4237|consen  157 QDALRDLPSLSLLSLYDNK  175 (498)
T ss_pred             HHHHHHhhhcchhcccchh
Confidence            2222235666666666654

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

Probab=97.21  E-value=0.00029  Score=65.63  Aligned_cols=169  Identities=20%  Similarity=0.264  Sum_probs=93.1

Q ss_pred             CCCCCCCeeeccceeeC---hHHHHHHhcCCcccccccccccc-c----------ceee----ccCCCCCCcEEEEcccC
Q 042962          152 VTLSCLRELRPRHVCAD---DQVIKDLISGCPLIEFISIISCR-G----------LKHL----ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       152 ~~l~~L~~L~L~~~~~~---~~~l~~l~~~cp~Le~L~L~~c~-~----------l~~l----~i~~l~~L~~L~i~~~~  213 (377)
                      .++|.|++|+|+.|.+.   .+.+..++++|..|++|.|.+|. +          +..+    .+.+-++|+.+...++.
T Consensus        89 ~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr  168 (382)
T KOG1909|consen   89 LGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR  168 (382)
T ss_pred             hcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc
Confidence            34455666666666552   35677788899999999999882 1          0111    12223789999998887


Q ss_pred             --C-----CchhhhcCCcccEEEEeccccCC------ceeeccCCCccccchh-------------hhccCCCCCceEec
Q 042962          214 --G-----LEQVYIQGMNAHSVHIIGLHMLP------HISVVPCKNLKKLKLC-------------QEIVDCMKLRSIKI  267 (377)
Q Consensus       214 --~-----~~~~~~~~p~L~~L~l~g~~~~~------~~~~~~~~~L~~L~L~-------------~~l~~~~~L~~L~i  267 (377)
                        .     +.......|.|+.+++..+....      ...+..|+.|++|+|.             ..+...++|+.|++
T Consensus       169 len~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l  248 (382)
T KOG1909|consen  169 LENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNL  248 (382)
T ss_pred             cccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecc
Confidence              1     12223345889999886543111      1125667777777775             12344455555555


Q ss_pred             cCCccceEEccCcccccccccccCCcceEEEcccccc--------cCcc-ccccceEEEEecCC
Q 042962          268 SSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLIS--------FSST-ALALSEIALVFNPD  322 (377)
Q Consensus       268 ~~~~L~~l~l~~c~~L~~l~l~~~~L~~~~~~~~~~p--------~~l~-~~~L~~l~l~~n~~  322 (377)
                      +.+.|+.=--.  .-...+.-..|+|+.+.+.|..+.        .... .+.|.+|+|..|..
T Consensus       249 ~dcll~~~Ga~--a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  249 GDCLLENEGAI--AFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             cccccccccHH--HHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            44443320000  001122223566666665554443        1122 36788888887765

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

Probab=97.11  E-value=4e-05  Score=72.82  Aligned_cols=118  Identities=17%  Similarity=0.191  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCC----CCCCCCCCCeeeccce
Q 042962           90 SSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPR----GNVTLSCLRELRPRHV  165 (377)
Q Consensus        90 ~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~----~~~~l~~L~~L~L~~~  165 (377)
                      ..|..-+..+- ..++++.+.-..+     .....+-.....|+++++|.+.+|...+..    -...++.|+.|+|..|
T Consensus       127 ~VV~~~~~Rcg-g~lk~LSlrG~r~-----v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c  200 (483)
T KOG4341|consen  127 GVVENMISRCG-GFLKELSLRGCRA-----VGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSC  200 (483)
T ss_pred             cceehHhhhhc-ccccccccccccc-----CCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhccc
Confidence            34444444443 3467777763321     122223333457999999999999742221    1246789999999996


Q ss_pred             e-eChHHHHHHhcCCccccccccccccccee----eccCCCCCCcEEEEcccC
Q 042962          166 C-ADDQVIKDLISGCPLIEFISIISCRGLKH----LELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       166 ~-~~~~~l~~l~~~cp~Le~L~L~~c~~l~~----l~i~~l~~L~~L~i~~~~  213 (377)
                      . +++..++.+..+||+|++|++++|..+..    ....++..|+.+...+|.
T Consensus       201 ~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~  253 (483)
T KOG4341|consen  201 SSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCL  253 (483)
T ss_pred             chhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhcccc
Confidence            4 48889998899999999999999954433    122245667777666776

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

Probab=97.05  E-value=0.00057  Score=66.77  Aligned_cols=158  Identities=18%  Similarity=0.180  Sum_probs=88.9

Q ss_pred             cccCcccEEEeccccc-cCCCCCCCCC-CCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccC-CCCCCcE
Q 042962          130 FYAKSMSLLGLDSCKL-ESPRGNVTLS-CLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELP-NLGKLKE  206 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~-~~p~~~~~l~-~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~-~l~~L~~  206 (377)
                      ...+.++.|.+.++.+ .+++....++ +|+.|++.++.+  ..+..-+..+|.|+.|.++.+.-..-.... ..+.|+.
T Consensus       113 ~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i--~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         113 LELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKI--ESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             hcccceeEEecCCcccccCccccccchhhcccccccccch--hhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            3446677888877765 4444444453 788888888877  222223567888888888877422111111 2477888


Q ss_pred             EEEcccC--CCchhhhcCCc-ccEEEEecc-ccCCceeeccCCCccccchh--------hhccCCCCCceEeccCCccce
Q 042962          207 FKVYDEY--GLEQVYIQGMN-AHSVHIIGL-HMLPHISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       207 L~i~~~~--~~~~~~~~~p~-L~~L~l~g~-~~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~  274 (377)
                      |.++++.  .++.. +..++ |+++.+.++ ....+..+.+..++..+.+.        ..++++++++.|+++.|.+..
T Consensus       191 L~ls~N~i~~l~~~-~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s~n~i~~  269 (394)
T COG4886         191 LDLSGNKISDLPPE-IELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQISS  269 (394)
T ss_pred             eeccCCccccCchh-hhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccchhccccccceeccccccccc
Confidence            8888776  22222 12333 777777665 22333334444444444433        234666677777777777665


Q ss_pred             EE-ccCccccccccccc
Q 042962          275 FL-FIGYDTLDELKLCT  290 (377)
Q Consensus       275 l~-l~~c~~L~~l~l~~  290 (377)
                      +. +....+++.++++.
T Consensus       270 i~~~~~~~~l~~L~~s~  286 (394)
T COG4886         270 ISSLGSLTNLRELDLSG  286 (394)
T ss_pred             cccccccCccCEEeccC
Confidence            54 33334555555444

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

Probab=97.04  E-value=0.00019  Score=50.35  Aligned_cols=56  Identities=20%  Similarity=0.242  Sum_probs=28.4

Q ss_pred             cccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          134 SMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       134 ~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      +|++|++++|.+. .| ..+.++++|++|++++|.+..- ....+.++|+|++|++++|
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i-~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSI-PPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEE-ETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCcc-CHHHHcCCCCCCEEeCcCC
Confidence            4566666666542 22 2455566666666666655211 1122445555555555543

...

>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B

Probab=96.96  E-value=0.00049  Score=45.47  Aligned_cols=21  Identities=38%  Similarity=0.524  Sum_probs=17.8

Q ss_pred             CCCCcHHHHHHHhhcCChhHH
Q 042962           15 ISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        15 iS~LPD~lL~~ILs~Lp~~da   35 (377)
                      |+.||+||+.+||++||.+|.
T Consensus         1 i~~LP~Eil~~If~~L~~~dl   21 (47)
T PF12937_consen    1 ISSLPDEILLEIFSYLDPRDL   21 (47)
T ss_dssp             CCCS-HHHHHHHHTTS-HHHH
T ss_pred             ChHhHHHHHHHHHhcCCHHHH
Confidence            678999999999999999997

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

Probab=96.90  E-value=0.00018  Score=74.67  Aligned_cols=148  Identities=16%  Similarity=0.092  Sum_probs=78.7

Q ss_pred             CcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCC
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPN  200 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~  200 (377)
                      .+.+|.++.+..+|+.|.|.++.+ ..|.++..+++|+.|+++.|.+..  +...+..|..++.+..++...+..+..  
T Consensus        80 i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N~f~~--~Pl~i~~lt~~~~~~~s~N~~~~~lg~--  155 (1081)
T KOG0618|consen   80 IRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFNHFGP--IPLVIEVLTAEEELAASNNEKIQRLGQ--  155 (1081)
T ss_pred             HhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccchhccCC--CchhHHhhhHHHHHhhhcchhhhhhcc--
Confidence            455666666777777777777665 345566677777777777777622  223345566666666665522221111  


Q ss_pred             CCCCcEEEEcccCCCchhhhcCCcccE-EEEeccccCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEEccC
Q 042962          201 LGKLKEFKVYDEYGLEQVYIQGMNAHS-VHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIG  279 (377)
Q Consensus       201 l~~L~~L~i~~~~~~~~~~~~~p~L~~-L~l~g~~~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~l~~  279 (377)
                       ...|.+++..+.....+.++.-+++. ++++.+... ..++.++++|+.+..     .+..+..+.+++..++.+....
T Consensus       156 -~~ik~~~l~~n~l~~~~~~~i~~l~~~ldLr~N~~~-~~dls~~~~l~~l~c-----~rn~ls~l~~~g~~l~~L~a~~  228 (1081)
T KOG0618|consen  156 -TSIKKLDLRLNVLGGSFLIDIYNLTHQLDLRYNEME-VLDLSNLANLEVLHC-----ERNQLSELEISGPSLTALYADH  228 (1081)
T ss_pred             -ccchhhhhhhhhcccchhcchhhhheeeecccchhh-hhhhhhccchhhhhh-----hhcccceEEecCcchheeeecc
Confidence             22444444433322233333444444 666555433 445666776664433     3344455555555555554444


Q ss_pred             c
Q 042962          280 Y  280 (377)
Q Consensus       280 c  280 (377)
                      +
T Consensus       229 n  229 (1081)
T KOG0618|consen  229 N  229 (1081)
T ss_pred             C
Confidence            3

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

Probab=96.89  E-value=0.00064  Score=64.44  Aligned_cols=19  Identities=16%  Similarity=0.209  Sum_probs=9.2

Q ss_pred             ccCCCCCceEeccCCccce
Q 042962          256 IVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       256 l~~~~~L~~L~i~~~~L~~  274 (377)
                      +.++++|++|++++|+++.
T Consensus       270 f~~L~~L~~lnlsnN~i~~  288 (498)
T KOG4237|consen  270 FKKLPNLRKLNLSNNKITR  288 (498)
T ss_pred             HhhcccceEeccCCCccch
Confidence            4444555555555544443

>PLN03150 hypothetical protein; Provisional

Probab=96.79  E-value=0.0014  Score=67.90  Aligned_cols=78  Identities=17%  Similarity=0.181  Sum_probs=50.0

Q ss_pred             ccEEEeccccc--cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEc
Q 042962          135 MSLLGLDSCKL--ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVY  210 (377)
Q Consensus       135 L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~  210 (377)
                      ++.|+|+++.+  ..|..+..+++|+.|+|++|.+.+..... ++.++.|+.|+|+++.  +..+-.+..+++|+.|++.
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~-~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPS-LGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChH-HhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            66777777765  33455667777777777777775443333 5677777777777663  2223334456777777777


Q ss_pred             ccC
Q 042962          211 DEY  213 (377)
Q Consensus       211 ~~~  213 (377)
                      +|.
T Consensus       499 ~N~  501 (623)
T PLN03150        499 GNS  501 (623)
T ss_pred             CCc
Confidence            765

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

Probab=96.74  E-value=0.0005  Score=71.62  Aligned_cols=102  Identities=14%  Similarity=0.096  Sum_probs=61.9

Q ss_pred             cCcccEEEeccccc---cCCCC-CCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEE
Q 042962          132 AKSMSLLGLDSCKL---ESPRG-NVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEF  207 (377)
Q Consensus       132 ~~~L~~L~L~~~~~---~~p~~-~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L  207 (377)
                      -.+|++|+++|...   ..|.. ..-||+|++|.+.+..+..+.+..+..++|+|..|+++++.--.-..++.+++|+.|
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L  200 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVL  200 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHH
Confidence            36788888887542   11211 235788888888888886666777788888888888887631111234445666666


Q ss_pred             EEcccCCC--c--hhhhcCCcccEEEEecc
Q 042962          208 KVYDEYGL--E--QVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       208 ~i~~~~~~--~--~~~~~~p~L~~L~l~g~  233 (377)
                      .+.+-...  .  .-.++..+|+.|+++..
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~  230 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRD  230 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeecccc
Confidence            65544300  1  01245667777777543

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

Probab=96.72  E-value=0.00032  Score=64.26  Aligned_cols=21  Identities=10%  Similarity=0.059  Sum_probs=12.3

Q ss_pred             CCCccccccCcccEEEecccc
Q 042962          124 NLPQLVFYAKSMSLLGLDSCK  144 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~  144 (377)
                      .+|..+...++|..+.++.|.
T Consensus       205 ~l~f~l~~f~~l~~~~~s~~~  225 (490)
T KOG1259|consen  205 RLSFNLNAFRNLKTLKFSALS  225 (490)
T ss_pred             ccccchHHhhhhheeeeeccc
Confidence            344444455667777766654

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

Probab=96.60  E-value=0.0012  Score=64.45  Aligned_cols=175  Identities=18%  Similarity=0.168  Sum_probs=113.6

Q ss_pred             EEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCC-cccccccccccccceee--ccCCCCCCcEEEEccc
Q 042962          137 LLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGC-PLIEFISIISCRGLKHL--ELPNLGKLKEFKVYDE  212 (377)
Q Consensus       137 ~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~c-p~Le~L~L~~c~~l~~l--~i~~l~~L~~L~i~~~  212 (377)
                      .|++..+.+ ........++.++.|.+.++.+.  .+....... ++|+.|++++.. +..+  .+..+++|+.|.+..+
T Consensus        97 ~l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~--~i~~~~~~~~~nL~~L~l~~N~-i~~l~~~~~~l~~L~~L~l~~N  173 (394)
T COG4886          97 SLDLNLNRLRSNISELLELTNLTSLDLDNNNIT--DIPPLIGLLKSNLKELDLSDNK-IESLPSPLRNLPNLKNLDLSFN  173 (394)
T ss_pred             eeeccccccccCchhhhcccceeEEecCCcccc--cCccccccchhhcccccccccc-hhhhhhhhhccccccccccCCc
Confidence            567776665 33345566788999999999873  233333444 389999998764 3333  5666799999999999


Q ss_pred             C--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh--------hhccCCCCCceEeccCCccce--EEccC
Q 042962          213 Y--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKS--FLFIG  279 (377)
Q Consensus       213 ~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~--l~l~~  279 (377)
                      .  .++......++|+.|.++++. ..++..+.....|+.+.+.        ..+.++.++..+.+..++++.  -.++.
T Consensus       174 ~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~  253 (394)
T COG4886         174 DLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGN  253 (394)
T ss_pred             hhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccchhcc
Confidence            8  344443378999999998875 3344433455557777666        234666777777777887776  34555


Q ss_pred             cccccccccccCCcceEEEcccccccCccccccceEEEEecC
Q 042962          280 YDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNP  321 (377)
Q Consensus       280 c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~  321 (377)
                      ..+++.+.+..+.+.....       .....+++.++++.+.
T Consensus       254 l~~l~~L~~s~n~i~~i~~-------~~~~~~l~~L~~s~n~  288 (394)
T COG4886         254 LSNLETLDLSNNQISSISS-------LGSLTNLRELDLSGNS  288 (394)
T ss_pred             ccccceecccccccccccc-------ccccCccCEEeccCcc
Confidence            6667777666555443322       1122467777776553

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

Probab=96.57  E-value=0.00065  Score=67.71  Aligned_cols=102  Identities=24%  Similarity=0.305  Sum_probs=69.5

Q ss_pred             ccccCcccEEEeccc-cc--cCC----CCCCCCCCCCeeecccee-eChHHHHHHhcCCcccccccccccccceeecc--
Q 042962          129 VFYAKSMSLLGLDSC-KL--ESP----RGNVTLSCLRELRPRHVC-ADDQVIKDLISGCPLIEFISIISCRGLKHLEL--  198 (377)
Q Consensus       129 l~~~~~L~~L~L~~~-~~--~~p----~~~~~l~~L~~L~L~~~~-~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i--  198 (377)
                      ...|+.|+.|++++| ..  ..+    .....+++|+.|++.++. +++..+..+...||+||.|.+.+|..++...+  
T Consensus       210 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~  289 (482)
T KOG1947|consen  210 ALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVS  289 (482)
T ss_pred             HhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHH
Confidence            446888999988873 22  111    123456888899998887 68888888777899999999888865433211  


Q ss_pred             --CCCCCCcEEEEcccCC-----CchhhhcCCcccEEEE
Q 042962          199 --PNLGKLKEFKVYDEYG-----LEQVYIQGMNAHSVHI  230 (377)
Q Consensus       199 --~~l~~L~~L~i~~~~~-----~~~~~~~~p~L~~L~l  230 (377)
                        ..++.|++|.+..|..     +..+...+|+|+.|.+
T Consensus       290 i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~  328 (482)
T KOG1947|consen  290 IAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKL  328 (482)
T ss_pred             HHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhh
Confidence              1368899999988872     3334445777777665

>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=96.55  E-value=0.00051  Score=48.07  Aligned_cols=57  Identities=16%  Similarity=0.210  Sum_probs=31.5

Q ss_pred             CCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEccc
Q 042962          155 SCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       155 ~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      |+|++|++.+|.+.. .....+.++++|++|+++++.  .+..-.+.++++|+.|.+.+|
T Consensus         1 p~L~~L~l~~n~l~~-i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNNKLTE-IPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSSTESE-ECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCCCCc-cCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            467777777776631 112335567777777777552  222222334566666666655

...

>PLN03150 hypothetical protein; Provisional

Probab=96.50  E-value=0.0023  Score=66.35  Aligned_cols=67  Identities=7%  Similarity=0.132  Sum_probs=57.2

Q ss_pred             CCCccccccCcccEEEeccccc--cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKL--ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR  191 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~  191 (377)
                      .+|..+..+++|+.|+|++|.+  ..|..+..+++|+.|+|++|.+.+..+.. ++++++|+.|+|+++.
T Consensus       433 ~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~Ls~N~  501 (623)
T PLN03150        433 FIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNLNGNS  501 (623)
T ss_pred             cCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEECcCCc
Confidence            5677888899999999999987  45667889999999999999997665554 7889999999999874

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

Probab=96.50  E-value=0.00074  Score=68.62  Aligned_cols=189  Identities=19%  Similarity=0.196  Sum_probs=98.2

Q ss_pred             cCceEEEEEEeccCCccchhhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCC
Q 042962           71 FSLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRG  150 (377)
Q Consensus        71 ~~i~~l~l~~~~~~~~~~~~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~  150 (377)
                      .+.+.|+.......++..-..+.+.+++..  ..+.+.+--. +    ...... |-.++.+++|++|.|.+|.+....+
T Consensus        55 ~~~~~f~a~~s~~ads~vl~qLq~i~d~lq--kt~~lkl~~~-p----a~~pt~-pi~ifpF~sLr~LElrg~~L~~~~G  126 (1096)
T KOG1859|consen   55 APVDYFRAYVSDNADSRVLEQLQRILDFLQ--KTKVLKLLPS-P----ARDPTE-PISIFPFRSLRVLELRGCDLSTAKG  126 (1096)
T ss_pred             CCCceeEEecCCcccchHHHHHHHHHHHHh--hheeeeeccc-C----CCCCCC-CceeccccceeeEEecCcchhhhhh
Confidence            367888775542111111123333344443  3344554322 1    122233 8888999999999999998643211


Q ss_pred             CCCC---------------------------------CCCCeeeccceee--ChHHHHHHhcCCccccccccccccccee
Q 042962          151 NVTL---------------------------------SCLRELRPRHVCA--DDQVIKDLISGCPLIEFISIISCRGLKH  195 (377)
Q Consensus       151 ~~~l---------------------------------~~L~~L~L~~~~~--~~~~l~~l~~~cp~Le~L~L~~c~~l~~  195 (377)
                      +..+                                 -.|.+-+.+.|.+  -++.+    .-.|.||.|+|+.+.-...
T Consensus       127 L~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~L~~mD~SL----qll~ale~LnLshNk~~~v  202 (1096)
T KOG1859|consen  127 LQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNRLVLMDESL----QLLPALESLNLSHNKFTKV  202 (1096)
T ss_pred             hHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhhHHhHHHHH----HHHHHhhhhccchhhhhhh
Confidence            1111                                 0122222233322  11222    2246677777775532111


Q ss_pred             eccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh----------hhccCCCCCc
Q 042962          196 LELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC----------QEIVDCMKLR  263 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~----------~~l~~~~~L~  263 (377)
                      -.+.-|++|+.|+|+.+.  .++.+....-.|+.|.++||....-.++.++++|..|+++          ..++.+..|.
T Consensus       203 ~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~  282 (1096)
T KOG1859|consen  203 DNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLI  282 (1096)
T ss_pred             HHHHhcccccccccccchhccccccchhhhhheeeeecccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHH
Confidence            133336788888887776  3444444444588888877754334446677777777776          2234445566


Q ss_pred             eEeccCCc
Q 042962          264 SIKISSFC  271 (377)
Q Consensus       264 ~L~i~~~~  271 (377)
                      .|.+.+|-
T Consensus       283 ~L~LeGNP  290 (1096)
T KOG1859|consen  283 VLWLEGNP  290 (1096)
T ss_pred             HHhhcCCc
Confidence            66665553

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

Probab=96.36  E-value=0.00049  Score=68.56  Aligned_cols=122  Identities=19%  Similarity=0.255  Sum_probs=79.9

Q ss_pred             ccCcccEEEeccccccCC----CCCCCCCCCCeeeccce-ee---ChHHHHHHhcCCcccccccccccccceeeccC---
Q 042962          131 YAKSMSLLGLDSCKLESP----RGNVTLSCLRELRPRHV-CA---DDQVIKDLISGCPLIEFISIISCRGLKHLELP---  199 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p----~~~~~l~~L~~L~L~~~-~~---~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~---  199 (377)
                      .++.|+.|.+.+|.....    +....++.|+.|++.++ ..   .+.....+...|++|+.|+++.|..+....+.   
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            378899998888753221    23456889999999872 21   23333446778999999999988644332221   


Q ss_pred             -CCCCCcEEEEcccC-----CCchhhhcCCcccEEEEeccccC----CceeeccCCCccccch
Q 042962          200 -NLGKLKEFKVYDEY-----GLEQVYIQGMNAHSVHIIGLHML----PHISVVPCKNLKKLKL  252 (377)
Q Consensus       200 -~l~~L~~L~i~~~~-----~~~~~~~~~p~L~~L~l~g~~~~----~~~~~~~~~~L~~L~L  252 (377)
                       .|++|+.|.+.+|.     ++..+...+|+|++|++++....    ......+|++++.|.+
T Consensus       266 ~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~  328 (482)
T KOG1947|consen  266 SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKL  328 (482)
T ss_pred             hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhh
Confidence             26899999988887     24445567899999999765421    1111345666665544

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

Probab=96.31  E-value=0.00082  Score=61.62  Aligned_cols=65  Identities=14%  Similarity=0.230  Sum_probs=37.9

Q ss_pred             cCCCccccccCcccEEEecccc--cc--------CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccc
Q 042962          123 YNLPQLVFYAKSMSLLGLDSCK--LE--------SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS  189 (377)
Q Consensus       123 ~~lp~~l~~~~~L~~L~L~~~~--~~--------~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~  189 (377)
                      |.+...+--|..|+.|..++..  +.        .|-.+..|.+|+++.++.+.-  ..+..+...-|.|+.+.+.+
T Consensus       172 ~d~~hildf~~~l~~l~vs~~~~p~~~sni~~~~l~f~l~~f~~l~~~~~s~~~~--~~i~~~~~~kptl~t~~v~~  246 (490)
T KOG1259|consen  172 YDFSHVLDFCTQLVALVVTPVKDPIDRSNIIPNRLSFNLNAFRNLKTLKFSALST--ENIVDIELLKPTLQTICVHN  246 (490)
T ss_pred             cchHHHHHhhhheeEEEecCCCCCCccccccccccccchHHhhhhheeeeeccch--hheeceeecCchhheeeeec
Confidence            3343333457889988887532  11        111335677888888877733  33444455567777776653

>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 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=96.09  E-value=0.0064  Score=34.67  Aligned_cols=25  Identities=36%  Similarity=0.737  Sum_probs=22.2

Q ss_pred             CCCeeeccceee-ChHHHHHHhcCCc
Q 042962          156 CLRELRPRHVCA-DDQVIKDLISGCP  180 (377)
Q Consensus       156 ~L~~L~L~~~~~-~~~~l~~l~~~cp  180 (377)
                      +||+|+|..+.+ ++..++.++++||
T Consensus         1 sLKtL~L~~v~f~~~~~l~~LlS~CP   26 (26)
T PF07723_consen    1 SLKTLHLDSVVFSDEDSLERLLSGCP   26 (26)
T ss_pred             CCeEEEeeEEEECChhHHHHhhccCc
Confidence            589999999999 5568999999998

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 []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].

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

Probab=96.02  E-value=0.0045  Score=40.27  Aligned_cols=35  Identities=20%  Similarity=0.195  Sum_probs=22.6

Q ss_pred             CcccEEEecccccc-CCCCCCCCCCCCeeeccceee
Q 042962          133 KSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       133 ~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~  167 (377)
                      ++|++|+|++|.+. .|+.+.++++|+.|++++|.+
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i   36 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPI   36 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCC
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCC
Confidence            35777777777763 333367777777777777766

...

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

Probab=95.82  E-value=0.0069  Score=63.28  Aligned_cols=170  Identities=18%  Similarity=0.202  Sum_probs=93.6

Q ss_pred             cccEEEeccccccCCC-CCCCCCCCCeeeccceeeC-----h-------HHHHHHhc--CCccccccccccccccee---
Q 042962          134 SMSLLGLDSCKLESPR-GNVTLSCLRELRPRHVCAD-----D-------QVIKDLIS--GCPLIEFISIISCRGLKH---  195 (377)
Q Consensus       134 ~L~~L~L~~~~~~~p~-~~~~l~~L~~L~L~~~~~~-----~-------~~l~~l~~--~cp~Le~L~L~~c~~l~~---  195 (377)
                      +++..++.+....... ....-..|++|.|.+....     +       ..+..++.  .-.+|+.|++++-..+..   
T Consensus        61 ~ltki~l~~~~~~~~~~~~l~~~~L~sl~LGnl~~~k~~~~~~~~idi~~lL~~~Ln~~sr~nL~~LdI~G~~~~s~~W~  140 (699)
T KOG3665|consen   61 NLTKIDLKNVTLQHQTLEMLRKQDLESLKLGNLDKIKQDYLDDATIDIISLLKDLLNEESRQNLQHLDISGSELFSNGWP  140 (699)
T ss_pred             eeEEeeccceecchhHHHHHhhccccccCCcchHhhhhhhhhhhhccHHHHHHHHHhHHHHHhhhhcCccccchhhccHH
Confidence            3555566554432111 1122234777777766331     1       12333322  235788999886422110   


Q ss_pred             eccC-CCCCCcEEEEcccC----CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh----------hhccCCC
Q 042962          196 LELP-NLGKLKEFKVYDEY----GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC----------QEIVDCM  260 (377)
Q Consensus       196 l~i~-~l~~L~~L~i~~~~----~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~----------~~l~~~~  260 (377)
                      -.++ -+|+|++|.+.+-.    .......+.|+|.+|+++|..-.--.+++++++|+.|.+.          .++-+++
T Consensus       141 ~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~  220 (699)
T KOG3665|consen  141 KKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVLSMRNLEFESYQDLIDLFNLK  220 (699)
T ss_pred             HHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHHhccCCCCCchhhHHHHhccc
Confidence            1222 26999999998865    2344556789999999988763323457788888877665          3567788


Q ss_pred             CCceEeccCCccceEEccCcccccccccccCCcceEEEcccccc
Q 042962          261 KLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLIS  304 (377)
Q Consensus       261 ~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~~~L~~~~~~~~~~p  304 (377)
                      +|+.|+||........ ..-....+.....|+|+.+.+.|..+.
T Consensus       221 ~L~vLDIS~~~~~~~~-~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  221 KLRVLDISRDKNNDDT-KIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             CCCeeeccccccccch-HHHHHHHHhcccCccccEEecCCcchh
Confidence            8888888864322111 000011122233566666666555443

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

Probab=95.82  E-value=0.0017  Score=63.94  Aligned_cols=101  Identities=17%  Similarity=0.090  Sum_probs=49.2

Q ss_pred             cccCcccEEEeccccccCCCC-CCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRG-NVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~-~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      ..+++|+.|++.++.+..... ...+++|+.|++++|.++  .+.. +..++.|+.|.++++.--..-....++.|+.++
T Consensus        92 ~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~--~i~~-l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~l~  168 (414)
T KOG0531|consen   92 SKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKIT--KLEG-LSTLTLLKELNLSGNLISDISGLESLKSLKLLD  168 (414)
T ss_pred             ccccceeeeeccccchhhcccchhhhhcchheeccccccc--cccc-hhhccchhhheeccCcchhccCCccchhhhccc
Confidence            345666666666666533333 455666666666666662  1122 233444666666655311111111245666666


Q ss_pred             EcccC--CCchh-hhcCCcccEEEEecc
Q 042962          209 VYDEY--GLEQV-YIQGMNAHSVHIIGL  233 (377)
Q Consensus       209 i~~~~--~~~~~-~~~~p~L~~L~l~g~  233 (377)
                      +.++.  .+... ....++++.+.+.++
T Consensus       169 l~~n~i~~ie~~~~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  169 LSYNRIVDIENDELSELISLEELDLGGN  196 (414)
T ss_pred             CCcchhhhhhhhhhhhccchHHHhccCC
Confidence            66655  11110 133455555555443

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

Probab=95.26  E-value=0.023  Score=49.49  Aligned_cols=97  Identities=12%  Similarity=0.038  Sum_probs=57.5

Q ss_pred             CcccEEEeccccccCCCCCCCCCCCCeeeccceeeC--hHHHHHHhcCCcccccccccccc--ccee-eccCCCCCCcEE
Q 042962          133 KSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCAD--DQVIKDLISGCPLIEFISIISCR--GLKH-LELPNLGKLKEF  207 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~--~~~l~~l~~~cp~Le~L~L~~c~--~l~~-l~i~~l~~L~~L  207 (377)
                      .+...++|+.|.+.....+..++.|.+|.|.+|.++  +..+..   ..|+|..|.+.+.+  .+.. ..+.+||+|+.|
T Consensus        42 d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~---~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~L  118 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDT---FLPNLKTLILTNNSIQELGDLDPLASCPKLEYL  118 (233)
T ss_pred             cccceecccccchhhcccCCCccccceEEecCCcceeeccchhh---hccccceEEecCcchhhhhhcchhccCCcccee
Confidence            456667777777644445667778888888888773  222222   35677777777642  1211 133346788888


Q ss_pred             EEcccC------CCchhhhcCCcccEEEEec
Q 042962          208 KVYDEY------GLEQVYIQGMNAHSVHIIG  232 (377)
Q Consensus       208 ~i~~~~------~~~~~~~~~p~L~~L~l~g  232 (377)
                      ++.++.      .-..+.-..|+|+.|++.+
T Consensus       119 tll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  119 TLLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eecCCchhcccCceeEEEEecCcceEeehhh
Confidence            777765      1122333457777777754

>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]

Probab=95.18  E-value=0.005  Score=40.64  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=17.6

Q ss_pred             CCCCcHHHHHHHhhcCChhHH
Q 042962           15 ISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        15 iS~LPD~lL~~ILs~Lp~~da   35 (377)
                      |++||+|++.+|+++|+.+|.
T Consensus         3 ~~~LP~~il~~Il~~l~~~~~   23 (48)
T PF00646_consen    3 LSDLPDEILQEILSYLDPKDL   23 (48)
T ss_dssp             HHHS-HHHHHHHHHTS-HHHH
T ss_pred             HHHCCHHHHHHHHHHCcHHHH
Confidence            568999999999999999998

This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.

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

Probab=95.08  E-value=0.0053  Score=55.28  Aligned_cols=102  Identities=16%  Similarity=0.147  Sum_probs=64.2

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceee-ChHHHHHHhcCCccccccccccccc--ceee-ccCCCCCCcE
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCA-DDQVIKDLISGCPLIEFISIISCRG--LKHL-ELPNLGKLKE  206 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~-~~~~l~~l~~~cp~Le~L~L~~c~~--l~~l-~i~~l~~L~~  206 (377)
                      ....|+.|++.++.+.....+-.+|+||+|.++.|.. ....+..++..||+|.+|+++....  +..+ .+..+.+|+.
T Consensus        41 ~~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~  120 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKS  120 (260)
T ss_pred             cccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhh
Confidence            4556777777777765445566778899999988844 2233445566789999999987631  2111 1223467888


Q ss_pred             EEEcccCC------CchhhhcCCcccEEEEec
Q 042962          207 FKVYDEYG------LEQVYIQGMNAHSVHIIG  232 (377)
Q Consensus       207 L~i~~~~~------~~~~~~~~p~L~~L~l~g  232 (377)
                      |.+.+|..      -..+..-+|+|++|+-..
T Consensus       121 Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  121 LDLFNCSVTNLDDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             hhcccCCccccccHHHHHHHHhhhhccccccc
Confidence            88888871      123344567787777543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.02  E-value=0.012  Score=54.12  Aligned_cols=104  Identities=15%  Similarity=0.189  Sum_probs=72.0

Q ss_pred             ccccCcccEEEeccccccCCCCC----CCCCCCCeeeccceeeCh-HHHHHHhcCCcccccccccccc---cceeeccCC
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGN----VTLSCLRELRPRHVCADD-QVIKDLISGCPLIEFISIISCR---GLKHLELPN  200 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~----~~l~~L~~L~L~~~~~~~-~~l~~l~~~cp~Le~L~L~~c~---~l~~l~i~~  200 (377)
                      +++...++.|.+.+|.++....+    ...+.++.|+|.+|.+++ +.+..++.+.|.|+.|+|+...   .+..+... 
T Consensus        41 v~s~ra~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p-  119 (418)
T KOG2982|consen   41 VSSLRALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLP-  119 (418)
T ss_pred             eccccchhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCccc-
Confidence            33444566677777776543221    346789999999999943 5677788899999999998542   23334433 


Q ss_pred             CCCCcEEEEcccC----CCchhhhcCCcccEEEEecc
Q 042962          201 LGKLKEFKVYDEY----GLEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       201 l~~L~~L~i~~~~----~~~~~~~~~p~L~~L~l~g~  233 (377)
                      ..+|+.|.+.+..    ...+..-+.|.++.|+++.+
T Consensus       120 ~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  120 LKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             ccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccc
Confidence            4789999998877    23444456788888888766

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

Probab=94.95  E-value=0.0029  Score=62.78  Aligned_cols=150  Identities=16%  Similarity=0.131  Sum_probs=61.4

Q ss_pred             EEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc-cceeeccCCCCCCcEEEEcccC-
Q 042962          137 LLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR-GLKHLELPNLGKLKEFKVYDEY-  213 (377)
Q Consensus       137 ~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~-~l~~l~i~~l~~L~~L~i~~~~-  213 (377)
                      ..+|+.|++ ..|..+..|-.|+.|.|+.|.+  ..+..-+.+...|..|+|+... +..+..+.. --|+.|.+.++. 
T Consensus        79 ~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~--r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~-lpLkvli~sNNkl  155 (722)
T KOG0532|consen   79 FADLSRNRFSELPEEACAFVSLESLILYHNCI--RTIPEAICNLEALTFLDLSSNQLSHLPDGLCD-LPLKVLIVSNNKL  155 (722)
T ss_pred             hhhccccccccCchHHHHHHHHHHHHHHhccc--eecchhhhhhhHHHHhhhccchhhcCChhhhc-CcceeEEEecCcc
Confidence            344555554 2233444455555555555544  1122223334444444444331 111122221 234444444443 


Q ss_pred             -C-CchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh--------hhccCCCCCceEeccCCccceEEccC--c
Q 042962          214 -G-LEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKSFLFIG--Y  280 (377)
Q Consensus       214 -~-~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~l~l~~--c  280 (377)
                       . ...+. ..+.|..|+.+.+. ...+..+++..+|+.|.+.        .++. +-.|.+|++++|++.++-+..  .
T Consensus       156 ~~lp~~ig-~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~lp~El~-~LpLi~lDfScNkis~iPv~fr~m  233 (722)
T KOG0532|consen  156 TSLPEEIG-LLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEELC-SLPLIRLDFSCNKISYLPVDFRKM  233 (722)
T ss_pred             ccCCcccc-cchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHHHh-CCceeeeecccCceeecchhhhhh
Confidence             1 11122 34444444443322 2233334444444444333        2223 334556666666666554332  2


Q ss_pred             ccccccccccC
Q 042962          281 DTLDELKLCTP  291 (377)
Q Consensus       281 ~~L~~l~l~~~  291 (377)
                      ..|+.+.+..+
T Consensus       234 ~~Lq~l~LenN  244 (722)
T KOG0532|consen  234 RHLQVLQLENN  244 (722)
T ss_pred             hhheeeeeccC
Confidence            34555555443

>PRK15386 type III secretion protein GogB; Provisional

Probab=94.90  E-value=0.068  Score=52.08  Aligned_cols=11  Identities=18%  Similarity=0.468  Sum_probs=5.7

Q ss_pred             ccccccccccc
Q 042962          181 LIEFISIISCR  191 (377)
Q Consensus       181 ~Le~L~L~~c~  191 (377)
                      +|+.|.+++|.
T Consensus        95 nLe~L~Ls~Cs  105 (426)
T PRK15386         95 GLEKLTVCHCP  105 (426)
T ss_pred             hhhheEccCcc
Confidence            45555555554

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

Probab=94.61  E-value=0.0089  Score=56.00  Aligned_cols=132  Identities=13%  Similarity=0.201  Sum_probs=84.6

Q ss_pred             cccCcccEEEeccccccCC------CCCCCCCCCCeeeccceeeCh---HHHHHHhcCCcccccccccccc----ccee-
Q 042962          130 FYAKSMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVCADD---QVIKDLISGCPLIEFISIISCR----GLKH-  195 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~~~~---~~l~~l~~~cp~Le~L~L~~c~----~l~~-  195 (377)
                      .+-+.|+++....|++...      ..+...+.|+.+.+..|.+..   ..+..-+..||.|+.|+|....    +-.. 
T Consensus       154 ~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~L  233 (382)
T KOG1909|consen  154 ASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVAL  233 (382)
T ss_pred             CCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHH
Confidence            3457799999998887322      124556899999999998832   2334446789999999998762    1111 


Q ss_pred             -eccCCCCCCcEEEEcccC----C----CchhhhcCCcccEEEEeccccCCce--eeccCCCccccchhhhccCCCCCce
Q 042962          196 -LELPNLGKLKEFKVYDEY----G----LEQVYIQGMNAHSVHIIGLHMLPHI--SVVPCKNLKKLKLCQEIVDCMKLRS  264 (377)
Q Consensus       196 -l~i~~l~~L~~L~i~~~~----~----~~~~~~~~p~L~~L~l~g~~~~~~~--~~~~~~~L~~L~L~~~l~~~~~L~~  264 (377)
                       -....++.|+.|.+.+|.    +    ...+.-.+|+|+.+.+.|+-.....  .+..           -+..-+.|++
T Consensus       234 akaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~-----------~~~ek~dL~k  302 (382)
T KOG1909|consen  234 AKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAA-----------CMAEKPDLEK  302 (382)
T ss_pred             HHHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHH-----------HHhcchhhHH
Confidence             123345789999999997    1    1223345899999999776411110  0111           2233567777


Q ss_pred             EeccCCcc
Q 042962          265 IKISSFCL  272 (377)
Q Consensus       265 L~i~~~~L  272 (377)
                      |.+++|.+
T Consensus       303 LnLngN~l  310 (382)
T KOG1909|consen  303 LNLNGNRL  310 (382)
T ss_pred             hcCCcccc
Confidence            88888877

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

Probab=94.39  E-value=0.00095  Score=66.07  Aligned_cols=126  Identities=13%  Similarity=0.145  Sum_probs=52.9

Q ss_pred             CCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccce-eeccCCCC
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLK-HLELPNLG  202 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~-~l~i~~l~  202 (377)
                      .+|..+.+...|+.|+|+.|.+...+...++--|+.|-+.+|+++  .+..-++..+.|..|+.+.|.-.. .-.+..+.
T Consensus       112 ~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lpLkvli~sNNkl~--~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~  189 (722)
T KOG0532|consen  112 TIPEAICNLEALTFLDLSSNQLSHLPDGLCDLPLKVLIVSNNKLT--SLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLT  189 (722)
T ss_pred             ecchhhhhhhHHHHhhhccchhhcCChhhhcCcceeEEEecCccc--cCCcccccchhHHHhhhhhhhhhhchHHhhhHH
Confidence            345555555555555555555432222222223555555555441  111112344555555555442110 11122234


Q ss_pred             CCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccch
Q 042962          203 KLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKL  252 (377)
Q Consensus       203 ~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L  252 (377)
                      +|+.|.+..+.  .++.-.. .-.|..|+++.+. .++|+.+.+++.|++|-|
T Consensus       190 slr~l~vrRn~l~~lp~El~-~LpLi~lDfScNkis~iPv~fr~m~~Lq~l~L  241 (722)
T KOG0532|consen  190 SLRDLNVRRNHLEDLPEELC-SLPLIRLDFSCNKISYLPVDFRKMRHLQVLQL  241 (722)
T ss_pred             HHHHHHHhhhhhhhCCHHHh-CCceeeeecccCceeecchhhhhhhhheeeee
Confidence            55555555544  1111111 2235555554332 444554444444444433

>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=94.22  E-value=0.017  Score=37.57  Aligned_cols=35  Identities=20%  Similarity=0.214  Sum_probs=24.5

Q ss_pred             CCCCeeeccceeeChHHHHHHhcCCcccccccccccc
Q 042962          155 SCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR  191 (377)
Q Consensus       155 ~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~  191 (377)
                      ++|++|++.++.+++  ++..+++||+|+.|+++++.
T Consensus         1 ~~L~~L~l~~N~i~~--l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    1 KNLEELDLSNNQITD--LPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             TT-SEEEETSSS-SS--HGGHGTTCTTSSEEEETSSC
T ss_pred             CcceEEEccCCCCcc--cCchHhCCCCCCEEEecCCC
Confidence            478899999988842  44446788888888888773

...

>smart00256 FBOX A Receptor for Ubiquitination Targets

Probab=94.06  E-value=0.04  Score=34.62  Aligned_cols=22  Identities=41%  Similarity=0.567  Sum_probs=20.1

Q ss_pred             CcHHHHHHHhhcCChhHH---------hhcC
Q 042962           18 LLAPILHHILSFLSIEQV---------WHSH   39 (377)
Q Consensus        18 LPD~lL~~ILs~Lp~~da---------Wr~l   39 (377)
                      ||+|++.+|+++|+.+|.         |+.+
T Consensus         1 lP~~ll~~I~~~l~~~d~~~~~~vc~~~~~~   31 (41)
T smart00256        1 LPDEILEEILSKLPPKDLLRLRKVSRRWRSL   31 (41)
T ss_pred             CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            799999999999999887         8877

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

Probab=93.96  E-value=0.056  Score=47.13  Aligned_cols=83  Identities=13%  Similarity=0.191  Sum_probs=60.4

Q ss_pred             cccCcccEEEecccccc-CCCCC-CCCCCCCeeeccceee-ChHHHHHHhcCCcccccccccccc-----cceeeccCCC
Q 042962          130 FYAKSMSLLGLDSCKLE-SPRGN-VTLSCLRELRPRHVCA-DDQVIKDLISGCPLIEFISIISCR-----GLKHLELPNL  201 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~-~p~~~-~~l~~L~~L~L~~~~~-~~~~l~~l~~~cp~Le~L~L~~c~-----~l~~l~i~~l  201 (377)
                      -..+.|..|.|.+|++. +.+.+ .-+|+|+.|.|.+|.+ .-..+.. +..||.|++|.+-+..     +.....+..+
T Consensus        61 p~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~p-La~~p~L~~Ltll~Npv~~k~~YR~yvl~kl  139 (233)
T KOG1644|consen   61 PHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDP-LASCPKLEYLTLLGNPVEHKKNYRLYVLYKL  139 (233)
T ss_pred             CCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcch-hccCCccceeeecCCchhcccCceeEEEEec
Confidence            35788999999999873 33333 3478899999999988 3333444 6789999999998752     3334445557


Q ss_pred             CCCcEEEEcccC
Q 042962          202 GKLKEFKVYDEY  213 (377)
Q Consensus       202 ~~L~~L~i~~~~  213 (377)
                      |+|+.|++.+-.
T Consensus       140 p~l~~LDF~kVt  151 (233)
T KOG1644|consen  140 PSLRTLDFQKVT  151 (233)
T ss_pred             CcceEeehhhhh
Confidence            999999987754

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

Probab=93.59  E-value=0.0097  Score=58.66  Aligned_cols=121  Identities=15%  Similarity=0.081  Sum_probs=77.6

Q ss_pred             cccCcccEEEeccccccC-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          130 FYAKSMSLLGLDSCKLES-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      ..+..++.+.+..+.+.. -.....+.+|+.|++.++.+  ..+...+.++++|+.|++++..-..--.+..++.|+.|.
T Consensus        69 ~~l~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i--~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~  146 (414)
T KOG0531|consen   69 ESLTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKI--EKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELN  146 (414)
T ss_pred             HHhHhHHhhccchhhhhhhhcccccccceeeeeccccch--hhcccchhhhhcchheeccccccccccchhhccchhhhe
Confidence            346667777777766543 23477899999999999988  334444678999999999977322212333456799999


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccccCCcee--eccCCCccccchh
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHIS--VVPCKNLKKLKLC  253 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~--~~~~~~L~~L~L~  253 (377)
                      +.+|.  .+.... ..++|+.+.+.++.......  ...+.+++.+.+.
T Consensus       147 l~~N~i~~~~~~~-~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~  194 (414)
T KOG0531|consen  147 LSGNLISDISGLE-SLKSLKLLDLSYNRIVDIENDELSELISLEELDLG  194 (414)
T ss_pred             eccCcchhccCCc-cchhhhcccCCcchhhhhhhhhhhhccchHHHhcc
Confidence            99997  222221 26778888876553111111  3566667766665

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

Probab=93.49  E-value=0.029  Score=50.57  Aligned_cols=57  Identities=26%  Similarity=0.411  Sum_probs=32.8

Q ss_pred             CcccccccccccccceeeccCCCCCCcEEEEcccC-----CCchhhhcCCcccEEEEecccc
Q 042962          179 CPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEY-----GLEQVYIQGMNAHSVHIIGLHM  235 (377)
Q Consensus       179 cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~-----~~~~~~~~~p~L~~L~l~g~~~  235 (377)
                      ...|+.|++.++.-.+......+|+||+|.++.++     ++......+|+|+++.++|+..
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki  103 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKI  103 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcc
Confidence            34445555554421111122235778888887773     3445556678888888887753

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.43  E-value=0.12  Score=47.89  Aligned_cols=125  Identities=16%  Similarity=0.061  Sum_probs=78.0

Q ss_pred             CCceEEEEEeeC-CCCCCCCCCcCCCccccccCcccEEEeccccccCC--CCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCC-PHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESP--RGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~-~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p--~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      ..|++++|.-.. ..|      ..+-..+.+++.|+.|+|+.|.+..+  .......+|++|.|.+..++=......+..
T Consensus        71 ~~v~elDL~~N~iSdW------seI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~  144 (418)
T KOG2982|consen   71 TDVKELDLTGNLISDW------SEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDD  144 (418)
T ss_pred             hhhhhhhcccchhccH------HHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhc
Confidence            468888886321 011      11222344678999999998887533  112456789999999988765666677788


Q ss_pred             Ccccccccccccc----ccee--eccCCCCCCcEEEEcccC-----CCchhhhcCCcccEEEEecc
Q 042962          179 CPLIEFISIISCR----GLKH--LELPNLGKLKEFKVYDEY-----GLEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       179 cp~Le~L~L~~c~----~l~~--l~i~~l~~L~~L~i~~~~-----~~~~~~~~~p~L~~L~l~g~  233 (377)
                      .|.+++|.++...    .+..  ..-.+ +.+++|....|.     ....+.--.|++..+-++.+
T Consensus       145 lP~vtelHmS~N~~rq~n~Dd~c~e~~s-~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~  209 (418)
T KOG2982|consen  145 LPKVTELHMSDNSLRQLNLDDNCIEDWS-TEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEG  209 (418)
T ss_pred             chhhhhhhhccchhhhhccccccccccc-hhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecC
Confidence            9999999888541    1111  11122 677777777776     22233344678877777654

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

Probab=93.42  E-value=0.0026  Score=64.83  Aligned_cols=36  Identities=19%  Similarity=0.158  Sum_probs=23.8

Q ss_pred             cCcccEEEeccccccC---CCCCCCCCCCCeeeccceee
Q 042962          132 AKSMSLLGLDSCKLES---PRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~~---p~~~~~l~~L~~L~L~~~~~  167 (377)
                      .++++.|++-..--.-   |-.+..|.+||.|.|.+|.+
T Consensus        83 lqkt~~lkl~~~pa~~pt~pi~ifpF~sLr~LElrg~~L  121 (1096)
T KOG1859|consen   83 LQKTKVLKLLPSPARDPTEPISIFPFRSLRVLELRGCDL  121 (1096)
T ss_pred             HhhheeeeecccCCCCCCCCceeccccceeeEEecCcch
Confidence            4566666665432111   22456789999999999987

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=93.36  E-value=0.028  Score=60.38  Aligned_cols=58  Identities=16%  Similarity=0.083  Sum_probs=28.7

Q ss_pred             cCcccEEEecccc--c-cCCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          132 AKSMSLLGLDSCK--L-ESPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       132 ~~~L~~L~L~~~~--~-~~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      |+.|++|-+.++.  + ..+. .+..+|.|+.|+|++|.- ...++.-++..-+|++|+++..
T Consensus       544 ~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~-l~~LP~~I~~Li~LryL~L~~t  605 (889)
T KOG4658|consen  544 NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSS-LSKLPSSIGELVHLRYLDLSDT  605 (889)
T ss_pred             CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCc-cCcCChHHhhhhhhhcccccCC
Confidence            4456666666553  2 2221 245566666666665422 1222333555556666666544

>PRK15386 type III secretion protein GogB; Provisional

Probab=92.47  E-value=0.32  Score=47.46  Aligned_cols=70  Identities=17%  Similarity=0.162  Sum_probs=35.6

Q ss_pred             CCCCCeeeccceeeChHHHHHHhcCCc-ccccccccccccceeeccCCCCCCcEEEEcccCCCchhhhcCCcccEEEEec
Q 042962          154 LSCLRELRPRHVCADDQVIKDLISGCP-LIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIG  232 (377)
Q Consensus       154 l~~L~~L~L~~~~~~~~~l~~l~~~cp-~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~~~~~~~~~~p~L~~L~l~g  232 (377)
                      +.+++.|++++|.+.  .+.    ..| +|++|.+.+|..+..+.-.-.++|++|.+.+|..+..+   -++|+.|.+.+
T Consensus        51 ~~~l~~L~Is~c~L~--sLP----~LP~sLtsL~Lsnc~nLtsLP~~LP~nLe~L~Ls~Cs~L~sL---P~sLe~L~L~~  121 (426)
T PRK15386         51 ARASGRLYIKDCDIE--SLP----VLPNELTEITIENCNNLTTLPGSIPEGLEKLTVCHCPEISGL---PESVRSLEIKG  121 (426)
T ss_pred             hcCCCEEEeCCCCCc--ccC----CCCCCCcEEEccCCCCcccCCchhhhhhhheEccCccccccc---ccccceEEeCC
Confidence            466677777766441  111    122 46777777666554333110146777777766422211   13466666543

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

Probab=92.08  E-value=0.13  Score=41.33  Aligned_cols=80  Identities=10%  Similarity=0.167  Sum_probs=34.1

Q ss_pred             cccCcccEEEeccccccCC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc-ccceeeccCCCCCCcEE
Q 042962          130 FYAKSMSLLGLDSCKLESP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC-RGLKHLELPNLGKLKEF  207 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c-~~l~~l~i~~l~~L~~L  207 (377)
                      ..|++|+.+.+......++ ..+.++++|+.+.+... +. ..-...+.+|+.|+.+.+... ..+..-....+++|+.+
T Consensus         9 ~~~~~l~~i~~~~~~~~I~~~~F~~~~~l~~i~~~~~-~~-~i~~~~F~~~~~l~~i~~~~~~~~i~~~~F~~~~~l~~i   86 (129)
T PF13306_consen    9 YNCSNLESITFPNTIKKIGENAFSNCTSLKSINFPNN-LT-SIGDNAFSNCKSLESITFPNNLKSIGDNAFSNCTNLKNI   86 (129)
T ss_dssp             TT-TT--EEEETST--EE-TTTTTT-TT-SEEEESST-TS-CE-TTTTTT-TT-EEEEETSTT-EE-TTTTTT-TTECEE
T ss_pred             hCCCCCCEEEECCCeeEeChhhccccccccccccccc-cc-ccceeeeeccccccccccccccccccccccccccccccc
Confidence            3567788888764322222 35666777777777653 21 001123556766777777532 11111122224566666


Q ss_pred             EEcc
Q 042962          208 KVYD  211 (377)
Q Consensus       208 ~i~~  211 (377)
                      .+..
T Consensus        87 ~~~~   90 (129)
T PF13306_consen   87 DIPS   90 (129)
T ss_dssp             EETT
T ss_pred             ccCc
Confidence            6643

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.85  E-value=0.0065  Score=55.32  Aligned_cols=58  Identities=17%  Similarity=0.213  Sum_probs=35.2

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeCh-HHHHHHhcCCcccccccccc
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADD-QVIKDLISGCPLIEFISIIS  189 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~-~~l~~l~~~cp~Le~L~L~~  189 (377)
                      .++.|++|.|+-|.+.....+..|++|+.|.|..|.+.+ ..+.- +.+.|+|+.|-|..
T Consensus        39 kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~Y-LknlpsLr~LWL~E   97 (388)
T KOG2123|consen   39 KMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEY-LKNLPSLRTLWLDE   97 (388)
T ss_pred             hcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHH-HhcCchhhhHhhcc
Confidence            456677777776666544456667777777777776621 22222 45666666666664

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=91.50  E-value=0.28  Score=52.93  Aligned_cols=157  Identities=14%  Similarity=0.086  Sum_probs=86.7

Q ss_pred             hhhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceee-
Q 042962           89 VSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCA-  167 (377)
Q Consensus        89 ~~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~-  167 (377)
                      ...+.-|+.......-+.....  .+     ......|... +-.+.+...+-++.+..-+.....+.|++|-+.++.. 
T Consensus       487 vRe~al~ias~~~~~~e~~iv~--~~-----~~~~~~~~~~-~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~  558 (889)
T KOG4658|consen  487 VREMALWIASDFGKQEENQIVS--DG-----VGLSEIPQVK-SWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDW  558 (889)
T ss_pred             HHHHHHHHhccccccccceEEE--CC-----cCcccccccc-chhheeEEEEeccchhhccCCCCCCccceEEEeecchh
Confidence            4556666665443333332221  11     1233344332 3356677777766653223445566899999988852 


Q ss_pred             ChHHHHHHhcCCcccccccccccccceee--ccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc--cCCceee
Q 042962          168 DDQVIKDLISGCPLIEFISIISCRGLKHL--ELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH--MLPHISV  241 (377)
Q Consensus       168 ~~~~l~~l~~~cp~Le~L~L~~c~~l~~l--~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~--~~~~~~~  241 (377)
                      -.......+...|.|..|++++|..+..+  .|+.+-+||.|++++..  .++.-......|.+|++....  ..++...
T Consensus       559 l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~  638 (889)
T KOG4658|consen  559 LLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGIL  638 (889)
T ss_pred             hhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchh
Confidence            11122233566899999999998766554  35556788888888776  233333344566666664322  2222223


Q ss_pred             ccCCCccccchh
Q 042962          242 VPCKNLKKLKLC  253 (377)
Q Consensus       242 ~~~~~L~~L~L~  253 (377)
                      ..+.+|++|.+.
T Consensus       639 ~~L~~Lr~L~l~  650 (889)
T KOG4658|consen  639 LELQSLRVLRLP  650 (889)
T ss_pred             hhcccccEEEee
Confidence            346667666554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.57  E-value=0.038  Score=50.50  Aligned_cols=35  Identities=23%  Similarity=0.074  Sum_probs=16.0

Q ss_pred             ccCcccEEEeccccccCC---CCCCCCCCCCeeeccce
Q 042962          131 YAKSMSLLGLDSCKLESP---RGNVTLSCLRELRPRHV  165 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p---~~~~~l~~L~~L~L~~~  165 (377)
                      .|+.|+.|.|..|.+...   ..+.++|+|++|.|..|
T Consensus        61 rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~EN   98 (388)
T KOG2123|consen   61 RCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDEN   98 (388)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccC
Confidence            455555555554443211   12344555555555544

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

Probab=88.80  E-value=0.46  Score=37.99  Aligned_cols=13  Identities=15%  Similarity=-0.056  Sum_probs=4.4

Q ss_pred             CCCCCCCCeeecc
Q 042962          151 NVTLSCLRELRPR  163 (377)
Q Consensus       151 ~~~l~~L~~L~L~  163 (377)
                      +.++++|+.+.+.
T Consensus         8 F~~~~~l~~i~~~   20 (129)
T PF13306_consen    8 FYNCSNLESITFP   20 (129)
T ss_dssp             TTT-TT--EEEET
T ss_pred             HhCCCCCCEEEEC
Confidence            3344445544443

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.79  E-value=0.15  Score=44.51  Aligned_cols=43  Identities=16%  Similarity=0.239  Sum_probs=23.6

Q ss_pred             CCCCCCCCeeecccee-eChHHHHHHhcCCcccccccccccccc
Q 042962          151 NVTLSCLRELRPRHVC-ADDQVIKDLISGCPLIEFISIISCRGL  193 (377)
Q Consensus       151 ~~~l~~L~~L~L~~~~-~~~~~l~~l~~~cp~Le~L~L~~c~~l  193 (377)
                      +.++++++.|.+.+|. +++..++.+-...|+||.|.|++|..+
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rI  164 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRI  164 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCee
Confidence            3455556666666653 355555554444556666666655433

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.51  E-value=0.12  Score=45.06  Aligned_cols=74  Identities=9%  Similarity=0.143  Sum_probs=47.8

Q ss_pred             CCeeeccceeeChHHHHHHhcCCccccccccccccccee-----eccCCCCCCcEEEEcccCCCchh----hhcCCcccE
Q 042962          157 LRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH-----LELPNLGKLKEFKVYDEYGLEQV----YIQGMNAHS  227 (377)
Q Consensus       157 L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~-----l~i~~l~~L~~L~i~~~~~~~~~----~~~~p~L~~  227 (377)
                      ++.++-+++.+....++. +.+++.++.|.+.+|..+..     +.-. .++|+.|+|++|..+..-    ....++|+.
T Consensus       103 IeaVDAsds~I~~eGle~-L~~l~~i~~l~l~~ck~~dD~~L~~l~~~-~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~  180 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGLEH-LRDLRSIKSLSLANCKYFDDWCLERLGGL-APSLQDLDLSGCPRITDGGLACLLKLKNLRR  180 (221)
T ss_pred             EEEEecCCchHHHHHHHH-HhccchhhhheeccccchhhHHHHHhccc-ccchheeeccCCCeechhHHHHHHHhhhhHH
Confidence            444555555555566776 67888899999988854432     2222 388999999998833322    134577777


Q ss_pred             EEEec
Q 042962          228 VHIIG  232 (377)
Q Consensus       228 L~l~g  232 (377)
                      |.+.+
T Consensus       181 L~l~~  185 (221)
T KOG3864|consen  181 LHLYD  185 (221)
T ss_pred             HHhcC
Confidence            77754

>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=83.45  E-value=0.68  Score=24.94  Aligned_cols=13  Identities=23%  Similarity=0.406  Sum_probs=9.4

Q ss_pred             cccEEEecccccc
Q 042962          134 SMSLLGLDSCKLE  146 (377)
Q Consensus       134 ~L~~L~L~~~~~~  146 (377)
                      +|++|+|++|.+.
T Consensus         1 ~L~~Ldls~n~l~   13 (22)
T PF00560_consen    1 NLEYLDLSGNNLT   13 (22)
T ss_dssp             TESEEEETSSEES
T ss_pred             CccEEECCCCcCE
Confidence            4778888888763

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=82.50  E-value=0.49  Score=43.32  Aligned_cols=85  Identities=11%  Similarity=0.155  Sum_probs=49.8

Q ss_pred             ccccCcccEEEeccccccCC------CCCCCCCCCCeeeccceee---ChHHHH------HHhcCCccccccccccc-cc
Q 042962          129 VFYAKSMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVCA---DDQVIK------DLISGCPLIEFISIISC-RG  192 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~~---~~~~l~------~l~~~cp~Le~L~L~~c-~~  192 (377)
                      +....+++.++|+||.+..-      ..+.+-.+|+..+++....   .++...      ..+..||.|+..+|+.. -+
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            33467888899999887432      1234455666666665522   122222      23567888888888865 22


Q ss_pred             ceee-----ccCCCCCCcEEEEcccC
Q 042962          193 LKHL-----ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       193 l~~l-----~i~~l~~L~~L~i~~~~  213 (377)
                      .+..     -|++...|++|.+.+|.
T Consensus       106 ~~~~e~L~d~is~~t~l~HL~l~NnG  131 (388)
T COG5238         106 SEFPEELGDLISSSTDLVHLKLNNNG  131 (388)
T ss_pred             cccchHHHHHHhcCCCceeEEeecCC
Confidence            2111     23333678888888776

>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=81.66  E-value=1.2  Score=24.41  Aligned_cols=20  Identities=15%  Similarity=0.036  Sum_probs=12.8

Q ss_pred             CCCCeeeccceeeChHHHHH
Q 042962          155 SCLRELRPRHVCADDQVIKD  174 (377)
Q Consensus       155 ~~L~~L~L~~~~~~~~~l~~  174 (377)
                      ++|++|+|++|.++++.+..
T Consensus         2 ~~L~~L~l~~n~i~~~g~~~   21 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEGASA   21 (24)
T ss_dssp             TT-SEEE-TSSBEHHHHHHH
T ss_pred             CCCCEEEccCCcCCHHHHHH
Confidence            57788888888776666554

...

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

Probab=80.23  E-value=0.42  Score=39.38  Aligned_cols=55  Identities=9%  Similarity=0.179  Sum_probs=24.1

Q ss_pred             cccEEEecccccc-CCCCC-CCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          134 SMSLLGLDSCKLE-SPRGN-VTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       134 ~L~~L~L~~~~~~-~p~~~-~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .|+..+|++|.|. .|+.+ ..|+.+++|+|.++.+.+- ++. ++..|.|+.|++...
T Consensus        54 el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdv-PeE-~Aam~aLr~lNl~~N  110 (177)
T KOG4579|consen   54 ELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDV-PEE-LAAMPALRSLNLRFN  110 (177)
T ss_pred             eEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhc-hHH-HhhhHHhhhcccccC
Confidence            3444455555542 22222 2344555555555544211 111 445555555555544

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

Probab=80.13  E-value=1.5  Score=40.28  Aligned_cols=87  Identities=13%  Similarity=0.109  Sum_probs=41.6

Q ss_pred             ceEEEEEEeccCCccchhhHHHHHHHHHhCCceEEEE-EeeCCCCCCCCCCcCCC-------ccccccCcccEEEecccc
Q 042962           73 LEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKL-GFCCPHSNYPDSYYNLP-------QLVFYAKSMSLLGLDSCK  144 (377)
Q Consensus        73 i~~l~l~~~~~~~~~~~~~i~~wi~~a~~~~v~~L~L-~~~~~~~~~~~~~~~lp-------~~l~~~~~L~~L~L~~~~  144 (377)
                      +..+.++..    +. +....+|+...++ +++.|.+ +|+.-..  ....-.+|       +.+..|+.|+..+|+.|.
T Consensus        32 ~~evdLSGN----ti-gtEA~e~l~~~ia-~~~~L~vvnfsd~ft--gr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          32 LVEVDLSGN----TI-GTEAMEELCNVIA-NVRNLRVVNFSDAFT--GRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             eeEEeccCC----cc-cHHHHHHHHHHHh-hhcceeEeehhhhhh--cccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            555555432    22 4566688887764 2444443 2221100  01112233       234467777777777766


Q ss_pred             cc--CCCC----CCCCCCCCeeeccceee
Q 042962          145 LE--SPRG----NVTLSCLRELRPRHVCA  167 (377)
Q Consensus       145 ~~--~p~~----~~~l~~L~~L~L~~~~~  167 (377)
                      |.  .|+.    +.+-..|++|.|.+|.+
T Consensus       104 fg~~~~e~L~d~is~~t~l~HL~l~NnGl  132 (388)
T COG5238         104 FGSEFPEELGDLISSSTDLVHLKLNNNGL  132 (388)
T ss_pred             cCcccchHHHHHHhcCCCceeEEeecCCC
Confidence            52  2211    23345566666666644

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

Probab=80.05  E-value=0.86  Score=25.61  Aligned_cols=16  Identities=19%  Similarity=0.723  Sum_probs=11.2

Q ss_pred             Ccccccccccccccce
Q 042962          179 CPLIEFISIISCRGLK  194 (377)
Q Consensus       179 cp~Le~L~L~~c~~l~  194 (377)
                      ||+|+.|+|++|..++
T Consensus         1 c~~L~~L~l~~C~~it   16 (26)
T smart00367        1 CPNLRELDLSGCTNIT   16 (26)
T ss_pred             CCCCCEeCCCCCCCcC
Confidence            6777777777776554

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	377
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.68
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.58
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.56
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.52
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.41
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.36
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.33
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.31
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.31
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.3
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.3
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.29
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.29
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.29
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.29
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.28
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.28
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.26
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.25
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.24
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.24
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.24
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.24
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.24
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.23
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.23
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.22
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.22
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.22
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.21
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.21
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.21
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.2
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.19
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.19
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.19
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.19
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.18
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.17
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.17
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.16
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.16
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.15
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.14
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.1
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.1
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.09
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.08
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.07
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.03
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.02
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.02
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.02
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.02
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.0
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.99
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.99
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	98.99
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.98
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.98
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.98
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.97
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.97
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.96
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.96
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.95
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.94
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.94
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.93
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.91
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.91
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.87
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.83
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.82
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.81
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.8
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.79
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.79
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.76
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.76
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.72
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.72
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.71
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.7
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.69
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.67
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.66
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.65
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.62
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.62
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.6
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.59
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.59
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.58
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.58
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.56
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.56
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.56
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.56
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.56
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.54
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.53
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.52
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.48
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.47
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.45
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.42
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.33
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.32
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.28
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.26
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.26
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.25
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.22
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.2
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.18
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.16
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.1
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.03
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.03
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.02
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.02
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.93
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.92
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.9
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.87
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.84
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.8
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.79
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.79
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	97.76
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.71
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	97.56
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.55
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.49
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.4
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.32
1fs1_A	53	SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, L	97.23
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.91
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	96.9
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.6
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.5
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	96.31
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	95.2
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.13
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	94.94
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.92
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	94.82
2e31_A	297	FBS1, F-box only protein 2; ubiquitin, SCF, ubiqui	94.26
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	93.96
3v7d_B	464	Cell division control protein 4; WD 40 domain, pho	91.63
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	90.63
2ovr_B	445	FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40	90.42
1p22_A	435	F-BOX/WD-repeat protein 1A; ubiquitination, degrad	84.94
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	80.82
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	80.62

>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=99.68  E-value=3.1e-17  Score=154.70  Aligned_cols=215  Identities=15%  Similarity=0.153  Sum_probs=128.5

Q ss_pred             CCCCCCCcHHHHHHHhhcCChhHH---------hhcCCCCCcCCcccCCCChhhHHHHHHHHhhcCCCcCceEEEEEEec
Q 042962           12 GDMISALLAPILHHILSFLSIEQV---------WHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQL   82 (377)
Q Consensus        12 ~DriS~LPD~lL~~ILs~Lp~~da---------Wr~l~~~~~~~~l~~~~~~~~~~v~~~L~~~~~~~~~i~~l~l~~~~   82 (377)
                      ...|++||||++.+||++|+.+|.         |+.+.                          .++ ..++++.+... 
T Consensus         6 ~~~~~~LP~eil~~If~~L~~~d~~~~~~vc~~W~~~~--------------------------~~~-~~~~~l~l~~~-   57 (336)
T 2ast_B            6 GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLA--------------------------SDE-SLWQTLDLTGK-   57 (336)
T ss_dssp             -CCSSSSCHHHHHHHHTTSCHHHHHHTTSSCHHHHHHH--------------------------TCS-TTSSEEECTTC-
T ss_pred             cCChhhCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHHh--------------------------cCc-hhheeeccccc-
Confidence            456899999999999999999998         55541                          111 12444444211 


Q ss_pred             cCCccchhhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecccccc---CCCCCCCCCCCCe
Q 042962           83 SDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLE---SPRGNVTLSCLRE  159 (377)
Q Consensus        83 ~~~~~~~~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~---~p~~~~~l~~L~~  159 (377)
                        ..  .   +..+......+++.+++...        .....+..++.+++|++|+|++|.+.   .+..+.++++|++
T Consensus        58 --~~--~---~~~~~~~~~~~l~~L~l~~n--------~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~  122 (336)
T 2ast_B           58 --NL--H---PDVTGRLLSQGVIAFRCPRS--------FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQN  122 (336)
T ss_dssp             --BC--C---HHHHHHHHHTTCSEEECTTC--------EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSE
T ss_pred             --cC--C---HHHHHhhhhccceEEEcCCc--------cccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCE
Confidence              11  1   23344444566777765421        12233334556778888888877653   2334566778888


Q ss_pred             eeccceeeChHHHHHHhcCCccccccccccccccee--e--ccCCCCCCcEEEEccc-C-C---CchhhhcCC-cccEEE
Q 042962          160 LRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH--L--ELPNLGKLKEFKVYDE-Y-G---LEQVYIQGM-NAHSVH  229 (377)
Q Consensus       160 L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~--l--~i~~l~~L~~L~i~~~-~-~---~~~~~~~~p-~L~~L~  229 (377)
                      |+|++|.+++..+.. ++.|++|++|++++|..+..  +  .+.++++|++|.+.+| . .   +......+| +|++|+
T Consensus       123 L~L~~~~l~~~~~~~-l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~  201 (336)
T 2ast_B          123 LSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLN  201 (336)
T ss_dssp             EECTTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEE
T ss_pred             EeCcCcccCHHHHHH-HhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEE
Confidence            888888776665554 56688888888887754432  1  1223577888888877 4 1   233344567 788888


Q ss_pred             Eeccc-----cCCceeeccCCCccccchh----------hhccCCCCCceEeccCC
Q 042962          230 IIGLH-----MLPHISVVPCKNLKKLKLC----------QEIVDCMKLRSIKISSF  270 (377)
Q Consensus       230 l~g~~-----~~~~~~~~~~~~L~~L~L~----------~~l~~~~~L~~L~i~~~  270 (377)
                      ++++.     ..++..+.++++|+.|+++          ..+.++++|+.|+++++
T Consensus       202 l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~  257 (336)
T 2ast_B          202 LSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRC  257 (336)
T ss_dssp             CCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTC
T ss_pred             eCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCC
Confidence            86653     1122234566777777665          22355566666666555

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.58  E-value=8.7e-16  Score=155.77  Aligned_cols=62  Identities=6%  Similarity=0.039  Sum_probs=44.0

Q ss_pred             cccCcccEEEeccccccCC------CCCCCCCCCCeeeccceeeC---hHHHHHHhcCCcccccccccccc
Q 042962          130 FYAKSMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVCAD---DQVIKDLISGCPLIEFISIISCR  191 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~~~---~~~l~~l~~~cp~Le~L~L~~c~  191 (377)
                      ..|++|++|+|++|.+...      ....++++|++|++.++.++   ...+..++.+||+|+.|++++|.
T Consensus       161 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~  231 (592)
T 3ogk_B          161 THCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE  231 (592)
T ss_dssp             HHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB
T ss_pred             hhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc
Confidence            3677888888888765321      11245778888888887764   56677777888888888888773

>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=99.56  E-value=2.1e-14  Score=135.53  Aligned_cols=211  Identities=16%  Similarity=0.077  Sum_probs=150.6

Q ss_pred             HHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHH
Q 042962           94 RCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVI  172 (377)
Q Consensus        94 ~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l  172 (377)
                      .-+..+...+++.|++...        ....+|..++.+++|++|+|++|.+ ..|..+.++++|++|+|++|.+.  .+
T Consensus        73 ~~l~~~~~~~l~~L~L~~n--------~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~--~l  142 (328)
T 4fcg_A           73 DLLEDATQPGRVALELRSV--------PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLR--AL  142 (328)
T ss_dssp             HHHHHHTSTTCCEEEEESS--------CCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCC--CC
T ss_pred             HHHhcccccceeEEEccCC--------CchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccc--cC
Confidence            3344444578998888732        3458899999999999999999987 45667889999999999999885  23


Q ss_pred             HHHhcCCcccccccccccccceeecc-----------CCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCc
Q 042962          173 KDLISGCPLIEFISIISCRGLKHLEL-----------PNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPH  238 (377)
Q Consensus       173 ~~l~~~cp~Le~L~L~~c~~l~~l~i-----------~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~  238 (377)
                      ..-+.++++|+.|++++|.....+..           .++++|+.|.+.+|.  .++.....+++|++|+++++. ..++
T Consensus       143 p~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~  222 (328)
T 4fcg_A          143 PASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALG  222 (328)
T ss_dssp             CGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCC
T ss_pred             cHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCc
Confidence            33478899999999999854433321           126899999999987  344444568899999998875 3445


Q ss_pred             eeeccCCCccccchh---------hhccCCCCCceEeccCCccce-E--EccCcccccccccccCCcceEEEcccccccC
Q 042962          239 ISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKS-F--LFIGYDTLDELKLCTPNLSIFKYHGDLISFS  306 (377)
Q Consensus       239 ~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~-l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~  306 (377)
                      ..+..+++|++|+++         ..++++++|+.|++++|.+.. +  .+.++++|+.+++..+++      .+.+|..
T Consensus       223 ~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~------~~~iP~~  296 (328)
T 4fcg_A          223 PAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVN------LSRLPSL  296 (328)
T ss_dssp             GGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTT------CCCCCGG
T ss_pred             hhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCc------hhhccHH
Confidence            557888889988887         235777888888888865443 2  245566677777666542      2445644


Q ss_pred             ccc-cccceEEEEec
Q 042962          307 STA-LALSEIALVFN  320 (377)
Q Consensus       307 l~~-~~L~~l~l~~n  320 (377)
                      +.. ++++.+.+..+
T Consensus       297 l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          297 IAQLPANCIILVPPH  311 (328)
T ss_dssp             GGGSCTTCEEECCGG
T ss_pred             HhhccCceEEeCCHH
Confidence            443 56777766644

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

Probab=99.52  E-value=2.1e-14  Score=145.48  Aligned_cols=173  Identities=12%  Similarity=0.174  Sum_probs=87.1

Q ss_pred             CCCCCCCcHHHHHHHhhcCC-hhHH---------hhcCCCCCcCCcccCCCChhhHHHHHHHHhhcCCCcCceEEEEEEe
Q 042962           12 GDMISALLAPILHHILSFLS-IEQV---------WHSHPGVECNGSLSMSPENTLKCLVKTLLNHYGDDFSLEKFTFIVQ   81 (377)
Q Consensus        12 ~DriS~LPD~lL~~ILs~Lp-~~da---------Wr~l~~~~~~~~l~~~~~~~~~~v~~~L~~~~~~~~~i~~l~l~~~   81 (377)
                      .|+|++||||||.+||+||| .+|+         |+.+... .+..+.+..-... ...+++.++ .   .++++.++..
T Consensus         3 ~d~~~~LPdevL~~If~~L~~~~d~~~~s~vck~W~~~~~~-~~~~l~~~~~~~~-~~~~~~~~~-~---~L~~L~L~~~   76 (594)
T 2p1m_B            3 KRIALSFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEIERW-CRRKVFIGNCYAV-SPATVIRRF-P---KVRSVELKGK   76 (594)
T ss_dssp             -------CHHHHHHHHHTCCCHHHHHHHHTSCHHHHHHHHH-HCCEEEESSTTSS-CHHHHHHHC-T---TCCEEEEECS
T ss_pred             ccchhhCCHHHHHHHHhhcCCchhHHHHHHHHHHHHHhhhh-hceEEeecccccc-CHHHHHhhC-C---CceEEeccCC
Confidence            49999999999999999999 8887         8877100 1222222110000 001122111 1   2566555542


Q ss_pred             ccC-Cc-----cchhhHHHHHHHHHh--CCceEEEEEeeCCCC-------------C-----C--CCCCcCCCccccccC
Q 042962           82 LSD-DV-----KFVSSIYRCLRYAVE--TNVKELKLGFCCPHS-------------N-----Y--PDSYYNLPQLVFYAK  133 (377)
Q Consensus        82 ~~~-~~-----~~~~~i~~wi~~a~~--~~v~~L~L~~~~~~~-------------~-----~--~~~~~~lp~~l~~~~  133 (377)
                      ... +.     .....+..|+.....  .++++|++....-..             +     .  ......++..+..|+
T Consensus        77 ~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~  156 (594)
T 2p1m_B           77 PHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCR  156 (594)
T ss_dssp             CGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCT
T ss_pred             CchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCC
Confidence            100 00     001233445544432  345555554211000             0     0  000011223333678


Q ss_pred             cccEEEeccccccCC------CCCCCCCCCCeeecccee--eChHHHHHHhcCCccccccccccc
Q 042962          134 SMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVC--ADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       134 ~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~--~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      +|++|+|++|.+...      .....+++|++|+++++.  +++..+..++.+||+|+.|++++|
T Consensus       157 ~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          157 NLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRA  221 (594)
T ss_dssp             TCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTT
T ss_pred             CCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCC
Confidence            888888888775321      122367789999999885  677778888788999999998876

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

Probab=99.41  E-value=3.7e-13  Score=126.02  Aligned_cols=190  Identities=12%  Similarity=0.031  Sum_probs=83.5

Q ss_pred             CCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccc--eeeccC
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGL--KHLELP  199 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l--~~l~i~  199 (377)
                      .+|..+..+++|++|+|++|.+.  .|..+.++++|++|+|++|.+.+... ..+..+++|++|+++++.-.  .+..+.
T Consensus        92 ~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~L~~N~l~~~~p~~l~  170 (313)
T 1ogq_A           92 PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLP-PSISSLPNLVGITFDGNRISGAIPDSYG  170 (313)
T ss_dssp             CCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCC-GGGGGCTTCCEEECCSSCCEEECCGGGG
T ss_pred             cCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCC-hHHhcCCCCCeEECcCCcccCcCCHHHh
Confidence            34555555555555555555542  23344555555555555555432111 12344555555555554211  111222


Q ss_pred             CCC-CCcEEEEcccC---CCchhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh--------hhccCCCCCceE
Q 042962          200 NLG-KLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC--------QEIVDCMKLRSI  265 (377)
Q Consensus       200 ~l~-~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~~L  265 (377)
                      .++ +|+.|.+.++.   ..+......+ |++|+++++.  +..+..+..+++|+.|+++        ..+..+++|+.|
T Consensus       171 ~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L  249 (313)
T 1ogq_A          171 SFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGL  249 (313)
T ss_dssp             CCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEE
T ss_pred             hhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEE
Confidence            233 55555555554   1111111122 5555554442  2223334455555555554        123444555555


Q ss_pred             eccCCccceE---EccCcccccccccccCCcceEEEcccccccCccccccceEEEEecC
Q 042962          266 KISSFCLKSF---LFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNP  321 (377)
Q Consensus       266 ~i~~~~L~~l---~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~  321 (377)
                      ++++|.+...   .+..+++|+.+.++.+++.      +.+|.....++|+.+++..|+
T Consensus       250 ~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~------~~ip~~~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          250 DLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLC------GEIPQGGNLQRFDVSAYANNK  302 (313)
T ss_dssp             ECCSSCCEECCCGGGGGCTTCCEEECCSSEEE------EECCCSTTGGGSCGGGTCSSS
T ss_pred             ECcCCcccCcCChHHhcCcCCCEEECcCCccc------ccCCCCccccccChHHhcCCC
Confidence            5555555421   1333444444444443321      223433222455555555444

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

Probab=99.36  E-value=8.5e-13  Score=123.52  Aligned_cols=208  Identities=14%  Similarity=0.051  Sum_probs=148.9

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecc-ccc--cCCCCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDS-CKL--ESPRGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~-~~~--~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      .+|++|++....-     .....+|..+..+++|++|+|++ +.+  ..|..+.++++|++|+|+++.+.+.... .+.+
T Consensus        50 ~~l~~L~L~~~~l-----~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~-~~~~  123 (313)
T 1ogq_A           50 YRVNNLDLSGLNL-----PKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPD-FLSQ  123 (313)
T ss_dssp             CCEEEEEEECCCC-----SSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCG-GGGG
T ss_pred             ceEEEEECCCCCc-----cCCcccChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCH-HHhC
Confidence            4678888763221     11226889999999999999995 665  3566788999999999999988533333 3778


Q ss_pred             Ccccccccccccc--cceeeccCCCCCCcEEEEcccC---CCchhhhcCC-cccEEEEeccc--cCCceeeccCCCcccc
Q 042962          179 CPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY---GLEQVYIQGM-NAHSVHIIGLH--MLPHISVVPCKNLKKL  250 (377)
Q Consensus       179 cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~---~~~~~~~~~p-~L~~L~l~g~~--~~~~~~~~~~~~L~~L  250 (377)
                      +++|++|+++++.  +..+-.+..+++|+.|.+.+|.   ..+......+ +|++|+++++.  +..+..+..++ |+.|
T Consensus       124 l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L  202 (313)
T 1ogq_A          124 IKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFV  202 (313)
T ss_dssp             CTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEE
T ss_pred             CCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEE
Confidence            9999999999884  2223345567999999999997   2233334455 89999998774  34455566666 8988


Q ss_pred             chh---------hhccCCCCCceEeccCCccceE--EccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEE
Q 042962          251 KLC---------QEIVDCMKLRSIKISSFCLKSF--LFIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALV  318 (377)
Q Consensus       251 ~L~---------~~l~~~~~L~~L~i~~~~L~~l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~  318 (377)
                      +++         ..+.++++|+.|+++.|.+...  .+..+.+|+.+.++.+++.      +.+|..+. .++|+.|+++
T Consensus       203 ~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~------~~~p~~l~~l~~L~~L~Ls  276 (313)
T 1ogq_A          203 DLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIY------GTLPQGLTQLKFLHSLNVS  276 (313)
T ss_dssp             ECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCE------ECCCGGGGGCTTCCEEECC
T ss_pred             ECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCccc------CcCChHHhcCcCCCEEECc
Confidence            887         3467899999999999988642  2445567788877776642      34554444 3789999999


Q ss_pred             ecCC
Q 042962          319 FNPD  322 (377)
Q Consensus       319 ~n~~  322 (377)
                      .|.-
T Consensus       277 ~N~l  280 (313)
T 1ogq_A          277 FNNL  280 (313)
T ss_dssp             SSEE
T ss_pred             CCcc
Confidence            7743

>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=99.33  E-value=3.5e-12  Score=125.39  Aligned_cols=188  Identities=15%  Similarity=0.099  Sum_probs=118.9

Q ss_pred             CccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee---ccCC
Q 042962          126 PQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPN  200 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~  200 (377)
                      |..+..+++|+.|+|++|.+.  .+..+.++++|++|+|++|.+..- ....+.++++|++|+++++. +..+   .+..
T Consensus        92 ~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~  169 (452)
T 3zyi_A           92 ADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVI-PSGAFEYLSKLRELWLRNNP-IESIPSYAFNR  169 (452)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBC-CTTTSSSCTTCCEEECCSCC-CCEECTTTTTT
T ss_pred             HHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCcc-ChhhhcccCCCCEEECCCCC-cceeCHhHHhc
Confidence            344556777778888777652  224566777788888877766321 12235667778888887663 2222   2344


Q ss_pred             CCCCcEEEEcccCCCch----hhhcCCcccEEEEeccccCCceeeccCCCccccchh---------hhccCCCCCceEec
Q 042962          201 LGKLKEFKVYDEYGLEQ----VYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKI  267 (377)
Q Consensus       201 l~~L~~L~i~~~~~~~~----~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i  267 (377)
                      +++|+.|++.+|..+..    ....+++|++|+++++.......+..+++|+.|+++         ..+.++++|+.|++
T Consensus       170 l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  249 (452)
T 3zyi_A          170 VPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWV  249 (452)
T ss_dssp             CTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEEC
T ss_pred             CCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccccccccccccEEECcCCcCcccCcccccCccCCCEEEe
Confidence            67788888877652222    123467788888876642212246677788888776         34677888888888


Q ss_pred             cCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecC
Q 042962          268 SSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNP  321 (377)
Q Consensus       268 ~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~  321 (377)
                      ++|.+..+.   +.++.+|+.++++.+++..+.      +..+. .++|+.++|+.|+
T Consensus       250 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~------~~~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          250 MNSQVSLIERNAFDGLASLVELNLAHNNLSSLP------HDLFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             TTSCCCEECTTTTTTCTTCCEEECCSSCCSCCC------TTSSTTCTTCCEEECCSSC
T ss_pred             CCCcCceECHHHhcCCCCCCEEECCCCcCCccC------hHHhccccCCCEEEccCCC
Confidence            888887764   445667777777776654221      12222 3679999999886

>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=99.31  E-value=1e-11  Score=117.37  Aligned_cols=175  Identities=15%  Similarity=0.126  Sum_probs=99.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .+++.|++.-.        ....+|. +..+++|++|+|++|.+...+.+.++++|++|+++++.+.+-  .. +..+++
T Consensus        66 ~~L~~L~l~~n--------~i~~~~~-~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~--~~-~~~l~~  133 (347)
T 4fmz_A           66 TNLEYLNLNGN--------QITDISP-LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISDI--SP-LANLTK  133 (347)
T ss_dssp             TTCCEEECCSS--------CCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECTTSCCCCC--GG-GTTCTT
T ss_pred             CCccEEEccCC--------ccccchh-hhcCCcCCEEEccCCcccCchHHcCCCcCCEEECcCCcccCc--hh-hccCCc
Confidence            45666666421        2334444 566777888888777765445667777788888877776321  11 567777


Q ss_pred             cccccccccccceee-ccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh----
Q 042962          182 IEFISIISCRGLKHL-ELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC----  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l-~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~----  253 (377)
                      |+.|++++|.....+ .+..+++|+.|.+.+|.  .... ...+++|+.|+++++. ...+. +..+++|+.|++.    
T Consensus       134 L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l  211 (347)
T 4fmz_A          134 MYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISP-LASLTSLHYFTAYVNQI  211 (347)
T ss_dssp             CCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCCGG-GGGCTTCCEEECCSSCC
T ss_pred             eeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCccccccc-ccCCCccceeecccCCC
Confidence            777777777433222 23445677777777766  2222 2356677777776553 11111 4555566655554    


Q ss_pred             ---hhccCCCCCceEeccCCccceEE-ccCccccccccccc
Q 042962          254 ---QEIVDCMKLRSIKISSFCLKSFL-FIGYDTLDELKLCT  290 (377)
Q Consensus       254 ---~~l~~~~~L~~L~i~~~~L~~l~-l~~c~~L~~l~l~~  290 (377)
                         ..+..+++|+.|++++|.+..+. +..+++|+.+.++.
T Consensus       212 ~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~  252 (347)
T 4fmz_A          212 TDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGT  252 (347)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCS
T ss_pred             CCCchhhcCCcCCEEEccCCccCCCcchhcCCCCCEEECCC
Confidence               12455566666666665554433 34444444444443

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

Probab=99.31  E-value=6.5e-12  Score=123.79  Aligned_cols=157  Identities=15%  Similarity=0.116  Sum_probs=73.4

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKV  209 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i  209 (377)
                      ..+++|++|+|++|.+... .+.++++|++|++++|.+++-  .  ++.+++|+.|+++++. +..+.+..+++|+.|.+
T Consensus        82 ~~l~~L~~L~Ls~N~l~~~-~~~~l~~L~~L~L~~N~l~~l--~--~~~l~~L~~L~l~~N~-l~~l~l~~l~~L~~L~l  155 (457)
T 3bz5_A           82 SQNTNLTYLACDSNKLTNL-DVTPLTKLTYLNCDTNKLTKL--D--VSQNPLLTYLNCARNT-LTEIDVSHNTQLTELDC  155 (457)
T ss_dssp             TTCTTCSEEECCSSCCSCC-CCTTCTTCCEEECCSSCCSCC--C--CTTCTTCCEEECTTSC-CSCCCCTTCTTCCEEEC
T ss_pred             ccCCCCCEEECcCCCCcee-ecCCCCcCCEEECCCCcCCee--c--CCCCCcCCEEECCCCc-cceeccccCCcCCEEEC
Confidence            3444444444444444222 144444455555554444221  1  3444555555554442 22223334455555555


Q ss_pred             cccCCCchh-hhcCCcccEEEEeccc-cCCceeeccCCCccccchh------hhccCCCCCceEeccCCccceEEccCcc
Q 042962          210 YDEYGLEQV-YIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC------QEIVDCMKLRSIKISSFCLKSFLFIGYD  281 (377)
Q Consensus       210 ~~~~~~~~~-~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~------~~l~~~~~L~~L~i~~~~L~~l~l~~c~  281 (377)
                      .+|.....+ ...+++|+.|+++++. ..++  +..+++|+.|+++      ..++++++|+.|++++|+++.+.++.++
T Consensus       156 ~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~ip~~~l~  233 (457)
T 3bz5_A          156 HLNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLT  233 (457)
T ss_dssp             TTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--CTTCTTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCCCTTCT
T ss_pred             CCCCcccccccccCCcCCEEECCCCccceec--cccCCCCCEEECcCCcCCeeccccCCCCCEEECcCCcccccCccccC
Confidence            555311111 1234555555554443 1222  4455555555554      1245556666666666666665555555


Q ss_pred             cccccccccCCcc
Q 042962          282 TLDELKLCTPNLS  294 (377)
Q Consensus       282 ~L~~l~l~~~~L~  294 (377)
                      +|+.+.++.+++.
T Consensus       234 ~L~~L~l~~N~l~  246 (457)
T 3bz5_A          234 QLTYFDCSVNPLT  246 (457)
T ss_dssp             TCSEEECCSSCCS
T ss_pred             CCCEEEeeCCcCC
Confidence            6666655555543

>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=99.30  E-value=6.2e-12  Score=115.70  Aligned_cols=193  Identities=16%  Similarity=0.090  Sum_probs=131.6

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee--
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL--  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l--  196 (377)
                      ....+|..+  .++|++|+|++|.+. .+ ..+..+++|++|+++++.+++-.. ..+.++++|++|+++++..+..+  
T Consensus        22 ~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~-~~~~~l~~L~~L~l~~n~~l~~~~~   98 (285)
T 1ozn_A           22 GLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDA-AAFTGLALLEQLDLSDNAQLRSVDP   98 (285)
T ss_dssp             CCSSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSCTTCCCCCT
T ss_pred             CcccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCH-hhcCCccCCCEEeCCCCCCccccCH
Confidence            345566543  468899999988863 23 357888999999999887743222 23677899999999887534333  


Q ss_pred             -ccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc-cCCce-eeccCCCccccchh---------hhccCCCC
Q 042962          197 -ELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKLKLC---------QEIVDCMK  261 (377)
Q Consensus       197 -~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L~L~---------~~l~~~~~  261 (377)
                       .+..+++|+.|.+.++.  .. ......+++|++|+++++. ...+. .+..+++|++|+++         ..+.++++
T Consensus        99 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  178 (285)
T 1ozn_A           99 ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHS  178 (285)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             HHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccc
Confidence             34456889999998887  22 2223457889999997764 22222 26678888888887         23677899


Q ss_pred             CceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecCC
Q 042962          262 LRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNPD  322 (377)
Q Consensus       262 L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~~  322 (377)
                      |+.|++++|.+....   +.++++|+.+.+..+++...      .+..+ ..++|+.++++.|+-
T Consensus       179 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~------~~~~~~~l~~L~~L~l~~N~~  237 (285)
T 1ozn_A          179 LDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSAL------PTEALAPLRALQYLRLNDNPW  237 (285)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCC------CHHHHTTCTTCCEEECCSSCE
T ss_pred             cCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcC------CHHHcccCcccCEEeccCCCc
Confidence            999999999988763   45566788887777765431      11212 236799999987754

>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=99.30  E-value=2.7e-12  Score=130.56  Aligned_cols=74  Identities=12%  Similarity=0.078  Sum_probs=34.6

Q ss_pred             CCCCCcEEEEcccC--C-CchhhhcCCcccEEEEeccc--cCCc-eeeccCCCccccchh---------hhccCCCCCce
Q 042962          200 NLGKLKEFKVYDEY--G-LEQVYIQGMNAHSVHIIGLH--MLPH-ISVVPCKNLKKLKLC---------QEIVDCMKLRS  264 (377)
Q Consensus       200 ~l~~L~~L~i~~~~--~-~~~~~~~~p~L~~L~l~g~~--~~~~-~~~~~~~~L~~L~L~---------~~l~~~~~L~~  264 (377)
                      .+++|+.|.+.+|.  . .+.....+++|++|+++++.  +..+ ..+..+++|+.|+++         ..++++++|+.
T Consensus       374 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  453 (606)
T 3t6q_A          374 NLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQH  453 (606)
T ss_dssp             TCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCE
T ss_pred             cCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCE
Confidence            34555555555554  1 11112234555555554432  1111 114455556666554         22455566666


Q ss_pred             EeccCCccc
Q 042962          265 IKISSFCLK  273 (377)
Q Consensus       265 L~i~~~~L~  273 (377)
                      |++++|.+.
T Consensus       454 L~L~~n~l~  462 (606)
T 3t6q_A          454 LNLQGNHFP  462 (606)
T ss_dssp             EECTTCBCG
T ss_pred             EECCCCCCC
Confidence            666665554

>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=99.29  E-value=1.1e-11  Score=115.68  Aligned_cols=177  Identities=13%  Similarity=0.051  Sum_probs=120.0

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .++++|++...        ....+| .+..+++|++|+|++|.+...+.+.++++|++|++++|.+.+-  . -+..+++
T Consensus        41 ~~L~~L~l~~~--------~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~~~--~-~~~~l~~  108 (308)
T 1h6u_A           41 DGITTLSAFGT--------GVTTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNV--S-AIAGLQS  108 (308)
T ss_dssp             HTCCEEECTTS--------CCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCC--G-GGTTCTT
T ss_pred             CCcCEEEeeCC--------CccCch-hhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCCCc--h-hhcCCCC
Confidence            46777776421        233455 4677899999999999874333488899999999999988432  2 3778999


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-----
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-----  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-----  253 (377)
                      |+.|++++|.--....+..+++|+.|.+.+|.  .... ...+++|+.|+++++. ...+. +..+++|+.|+++     
T Consensus       109 L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~  186 (308)
T 1h6u_A          109 IKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKIS  186 (308)
T ss_dssp             CCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC
T ss_pred             CCEEECCCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCccC
Confidence            99999998842111235567899999999887  3333 3467889999997764 22222 6677777777776     


Q ss_pred             --hhccCCCCCceEeccCCccceE-EccCcccccccccccCC
Q 042962          254 --QEIVDCMKLRSIKISSFCLKSF-LFIGYDTLDELKLCTPN  292 (377)
Q Consensus       254 --~~l~~~~~L~~L~i~~~~L~~l-~l~~c~~L~~l~l~~~~  292 (377)
                        ..+.++++|+.|++++|.+..+ .+..+++|+.+.+..+.
T Consensus       187 ~~~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          187 DISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQT  228 (308)
T ss_dssp             CCGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEEEE
T ss_pred             cChhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccCCe
Confidence              2356677788888877777654 24445555555554443

>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=99.29  E-value=3.4e-12  Score=120.24  Aligned_cols=200  Identities=15%  Similarity=0.094  Sum_probs=139.0

Q ss_pred             CceEEEEEEeccCCccchhhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecccccc-CCCC
Q 042962           72 SLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLE-SPRG  150 (377)
Q Consensus        72 ~i~~l~l~~~~~~~~~~~~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~~  150 (377)
                      .++.+.+....-..      +...+..  -.+++.|++...        ....+|..+..+++|++|+|++|.+. .|..
T Consensus        82 ~l~~L~L~~n~l~~------lp~~l~~--l~~L~~L~L~~n--------~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~  145 (328)
T 4fcg_A           82 GRVALELRSVPLPQ------FPDQAFR--LSHLQHMTIDAA--------GLMELPDTMQQFAGLETLTLARNPLRALPAS  145 (328)
T ss_dssp             TCCEEEEESSCCSS------CCSCGGG--GTTCSEEEEESS--------CCCCCCSCGGGGTTCSEEEEESCCCCCCCGG
T ss_pred             ceeEEEccCCCchh------cChhhhh--CCCCCEEECCCC--------CccchhHHHhccCCCCEEECCCCccccCcHH
Confidence            58888886532111      1111211  357899998732        23478998999999999999999874 5567


Q ss_pred             CCCCCCCCeeeccceeeChHHHHHH--------hcCCcccccccccccccceee--ccCCCCCCcEEEEcccC--CCchh
Q 042962          151 NVTLSCLRELRPRHVCADDQVIKDL--------ISGCPLIEFISIISCRGLKHL--ELPNLGKLKEFKVYDEY--GLEQV  218 (377)
Q Consensus       151 ~~~l~~L~~L~L~~~~~~~~~l~~l--------~~~cp~Le~L~L~~c~~l~~l--~i~~l~~L~~L~i~~~~--~~~~~  218 (377)
                      +.++++|++|+|++|.+.+.....+        +.++++|+.|++++|. +..+  .+..+++|+.|.+.+|.  .++..
T Consensus       146 l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~-l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~  224 (328)
T 4fcg_A          146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTG-IRSLPASIANLQNLKSLKIRNSPLSALGPA  224 (328)
T ss_dssp             GGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEEC-CCCCCGGGGGCTTCCEEEEESSCCCCCCGG
T ss_pred             HhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCC-cCcchHhhcCCCCCCEEEccCCCCCcCchh
Confidence            8899999999999986533222221        3359999999999884 2222  34457899999999998  34333


Q ss_pred             hhcCCcccEEEEeccc--cCCceeeccCCCccccchh---------hhccCCCCCceEeccCCccceE---EccCccccc
Q 042962          219 YIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSF---LFIGYDTLD  284 (377)
Q Consensus       219 ~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l---~l~~c~~L~  284 (377)
                      ...+++|++|+++++.  +.++..+.++++|++|+++         ..++++++|+.|++++|.+..-   .++.+++++
T Consensus       225 l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~  304 (328)
T 4fcg_A          225 IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANC  304 (328)
T ss_dssp             GGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTC
T ss_pred             hccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCce
Confidence            4568999999998864  4556668889999999987         3467888888888888765432   233444444


Q ss_pred             cccc
Q 042962          285 ELKL  288 (377)
Q Consensus       285 ~l~l  288 (377)
                      .+.+
T Consensus       305 ~l~l  308 (328)
T 4fcg_A          305 IILV  308 (328)
T ss_dssp             EEEC
T ss_pred             EEeC
Confidence            4433

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

Probab=99.29  E-value=4.8e-12  Score=123.92  Aligned_cols=186  Identities=14%  Similarity=0.097  Sum_probs=101.3

Q ss_pred             cccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCC
Q 042962          128 LVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGK  203 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~  203 (377)
                      .+..+++|++|+|++|.+. .+ ..+.++++|++|+|++|.++.- ....+.++++|++|+++++.  .+....+..+++
T Consensus        83 ~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~  161 (440)
T 3zyj_A           83 SFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTI-PNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPS  161 (440)
T ss_dssp             TTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSC-CTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTT
T ss_pred             HhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCee-CHhHhhccccCceeeCCCCcccccCHHHhhhCcc
Confidence            3445566666666666542 11 2455566666666666655311 11224556666666666552  111112334566


Q ss_pred             CcEEEEcccCCCch----hhhcCCcccEEEEeccc-cCCceeeccCCCccccchh---------hhccCCCCCceEeccC
Q 042962          204 LKEFKVYDEYGLEQ----VYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISS  269 (377)
Q Consensus       204 L~~L~i~~~~~~~~----~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~  269 (377)
                      |+.|++.++..+..    ....+++|++|+++++. ..++ .+..+++|+.|+|+         ..+.++++|+.|++++
T Consensus       162 L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~  240 (440)
T 3zyj_A          162 LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQ  240 (440)
T ss_dssp             CCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCC-CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTT
T ss_pred             cCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcccc-ccCCCcccCEEECCCCccCccChhhhccCccCCEEECCC
Confidence            66666666441111    12245666777665553 2222 35566667777666         2456667777777777


Q ss_pred             CccceEE---ccCcccccccccccCCcceEEEcccccc-cCcc-ccccceEEEEecCC
Q 042962          270 FCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLIS-FSST-ALALSEIALVFNPD  322 (377)
Q Consensus       270 ~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p-~~l~-~~~L~~l~l~~n~~  322 (377)
                      |.++.+.   +.++.+|+.++++.+++..       +| ..+. .++|+.++|+.|+-
T Consensus       241 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~-------~~~~~~~~l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          241 SQIQVIERNAFDNLQSLVEINLAHNNLTL-------LPHDLFTPLHHLERIHLHHNPW  291 (440)
T ss_dssp             CCCCEECTTSSTTCTTCCEEECTTSCCCC-------CCTTTTSSCTTCCEEECCSSCE
T ss_pred             CceeEEChhhhcCCCCCCEEECCCCCCCc-------cChhHhccccCCCEEEcCCCCc
Confidence            7777653   3455566666666665532       22 2222 36789999988863

>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=99.29  E-value=4.7e-12  Score=120.24  Aligned_cols=165  Identities=14%  Similarity=0.105  Sum_probs=114.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCc-cccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQ-LVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~-~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      .++++|++..        .....+|. .+..+++|++|+|++|.+. . |..+.++++|++|++++|.+++- ....+.+
T Consensus        52 ~~L~~L~l~~--------n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-~~~~~~~  122 (353)
T 2z80_A           52 EAVKSLDLSN--------NRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNL-SSSWFKP  122 (353)
T ss_dssp             TTCCEEECTT--------SCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSC-CHHHHTT
T ss_pred             ccCcEEECCC--------CcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcC-CHhHhCC
Confidence            3677777642        12334554 5678899999999998863 2 34578899999999999988532 2334678


Q ss_pred             Ccccccccccccc--ccee-eccCCCCCCcEEEEcccCCC----chhhhcCCcccEEEEeccc--cCCceeeccCCCccc
Q 042962          179 CPLIEFISIISCR--GLKH-LELPNLGKLKEFKVYDEYGL----EQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKK  249 (377)
Q Consensus       179 cp~Le~L~L~~c~--~l~~-l~i~~l~~L~~L~i~~~~~~----~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~  249 (377)
                      +++|++|+++++.  .+.. -.+..+++|+.|.+.+|...    ......+++|++|+++++.  +..+..+..+++|++
T Consensus       123 l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  202 (353)
T 2z80_A          123 LSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSH  202 (353)
T ss_dssp             CTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEE
T ss_pred             CccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCe
Confidence            9999999999873  2222 13445789999999988411    1223457889999997764  222444677888888


Q ss_pred             cchh---------hhccCCCCCceEeccCCccceE
Q 042962          250 LKLC---------QEIVDCMKLRSIKISSFCLKSF  275 (377)
Q Consensus       250 L~L~---------~~l~~~~~L~~L~i~~~~L~~l  275 (377)
                      |+++         ..+..+++|+.|++++|.++..
T Consensus       203 L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~  237 (353)
T 2z80_A          203 LILHMKQHILLLEIFVDVTSSVECLELRDTDLDTF  237 (353)
T ss_dssp             EEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTC
T ss_pred             ecCCCCccccchhhhhhhcccccEEECCCCccccc
Confidence            8886         2235688999999988877653

>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=99.28  E-value=5.1e-12  Score=132.43  Aligned_cols=66  Identities=17%  Similarity=0.150  Sum_probs=34.5

Q ss_pred             CCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .+|..+..+++|++|+|++|.+.  .|..+.++++|+.|++.+|.+.+..+.. +..+++|+.|++++|
T Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~N  476 (768)
T 3rgz_A          409 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE-LMYVKTLETLILDFN  476 (768)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGG-GGGCTTCCEEECCSS
T ss_pred             ccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCceEEEecCC
Confidence            35556666666777766666552  2334555556666666655553222221 334455555555444

>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=99.28  E-value=2.5e-11  Score=114.62  Aligned_cols=206  Identities=13%  Similarity=0.085  Sum_probs=140.7

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .+++++++.-.        ....+|. +..+++|++|+|++|.+...+.+.++++|++|++++|.+.+  +. .+.++++
T Consensus        44 ~~L~~L~l~~~--------~i~~~~~-~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~--~~-~~~~l~~  111 (347)
T 4fmz_A           44 ESITKLVVAGE--------KVASIQG-IEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITD--IS-ALQNLTN  111 (347)
T ss_dssp             TTCSEEECCSS--------CCCCCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC--CG-GGTTCTT
T ss_pred             ccccEEEEeCC--------ccccchh-hhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccC--ch-HHcCCCc
Confidence            56788887521        2344553 67899999999999987543348899999999999998843  22 3789999


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC---CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-----
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-----  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-----  253 (377)
                      |++|++++|.-.....+..+++|+.|.+.+|.   .... ...+++|++|.++++.......+..+++|+.|+++     
T Consensus       112 L~~L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~  190 (347)
T 4fmz_A          112 LRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIE  190 (347)
T ss_dssp             CSEEECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCC
T ss_pred             CCEEECcCCcccCchhhccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCccc
Confidence            99999998842221225567999999999996   2222 35678999999987652212227788999999987     


Q ss_pred             --hhccCCCCCceEeccCCccceEE-ccCccccccccccc------------CCcceEEEcccccc---cCccccccceE
Q 042962          254 --QEIVDCMKLRSIKISSFCLKSFL-FIGYDTLDELKLCT------------PNLSIFKYHGDLIS---FSSTALALSEI  315 (377)
Q Consensus       254 --~~l~~~~~L~~L~i~~~~L~~l~-l~~c~~L~~l~l~~------------~~L~~~~~~~~~~p---~~l~~~~L~~l  315 (377)
                        ..+.++++|+.++++.+.+.... +..+.+|+.+.++.            ++|+.+...+..+.   .....++|+.+
T Consensus       191 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L  270 (347)
T 4fmz_A          191 DISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINAVKDLTKLKML  270 (347)
T ss_dssp             CCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGTTCTTCCEE
T ss_pred             ccccccCCCccceeecccCCCCCCchhhcCCcCCEEEccCCccCCCcchhcCCCCCEEECCCCccCCChhHhcCCCcCEE
Confidence              33678899999999888766543 44555566555443            34444444332221   11122567777


Q ss_pred             EEEec
Q 042962          316 ALVFN  320 (377)
Q Consensus       316 ~l~~n  320 (377)
                      +++.|
T Consensus       271 ~l~~n  275 (347)
T 4fmz_A          271 NVGSN  275 (347)
T ss_dssp             ECCSS
T ss_pred             EccCC
Confidence            77665

>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=99.26  E-value=6.9e-12  Score=122.91  Aligned_cols=50  Identities=24%  Similarity=0.284  Sum_probs=28.8

Q ss_pred             eccCCCccccchh---------hhccCCCCCceEeccCCccceEE---ccCccccccccccc
Q 042962          241 VVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCT  290 (377)
Q Consensus       241 ~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~  290 (377)
                      +..+++|+.|+++         ..++++++|+.|++++|.+..+.   +.++.+|+.+.++.
T Consensus       295 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~  356 (455)
T 3v47_A          295 FSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSY  356 (455)
T ss_dssp             TTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCS
T ss_pred             cccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCC
Confidence            4566667777665         23456667777777766665542   33444555554443

>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=99.25  E-value=6.9e-12  Score=131.42  Aligned_cols=109  Identities=15%  Similarity=0.058  Sum_probs=59.4

Q ss_pred             CCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc--ceeeccC
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG--LKHLELP  199 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~--l~~l~i~  199 (377)
                      .+|..+..+++|+.|+|++|.+.  .|..+..+++|++|++.+|.+.+..+. .+.+|++|+.|++++|.-  ..+-.+.
T Consensus       433 ~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~-~l~~l~~L~~L~L~~N~l~~~~p~~~~  511 (768)
T 3rgz_A          433 TIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPS-GLSNCTNLNWISLSNNRLTGEIPKWIG  511 (768)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCG-GGGGCTTCCEEECCSSCCCSCCCGGGG
T ss_pred             cccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCH-HHhcCCCCCEEEccCCccCCcCChHHh
Confidence            34555566666666666666552  334455666666666666665433222 245666666666666631  2222233


Q ss_pred             CCCCCcEEEEcccC---CCchhhhcCCcccEEEEecc
Q 042962          200 NLGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       200 ~l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~  233 (377)
                      .+++|+.|++.+|.   .++.....+++|+.|+++++
T Consensus       512 ~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          512 RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTN  548 (768)
T ss_dssp             GCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSS
T ss_pred             cCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCC
Confidence            45666666666665   22233345566666666544

>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=99.24  E-value=2.5e-11  Score=119.88  Aligned_cols=188  Identities=16%  Similarity=0.154  Sum_probs=109.0

Q ss_pred             cccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCC
Q 042962          128 LVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGK  203 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~  203 (377)
                      .+..+++|++|+|++|.+.  .+..+.++++|++|+|.+|.+++- ....+.++++|+.|+++++.  ++....+..+++
T Consensus       123 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~  201 (477)
T 2id5_A          123 MFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSI-PTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYR  201 (477)
T ss_dssp             TTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSC-CHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTT
T ss_pred             HccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCccc-ChhHhcccCCCcEEeCCCCcCcEeChhhcccCcc
Confidence            3444555566666555442  123455566666666666655321 12235566666666666552  111122334567


Q ss_pred             CcEEEEcccCC---CchhhhcCCcccEEEEeccc-cCCc-eeeccCCCccccchh---------hhccCCCCCceEeccC
Q 042962          204 LKEFKVYDEYG---LEQVYIQGMNAHSVHIIGLH-MLPH-ISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISS  269 (377)
Q Consensus       204 L~~L~i~~~~~---~~~~~~~~p~L~~L~l~g~~-~~~~-~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~  269 (377)
                      |+.|++.+|..   +.......++|++|+++++. ..++ ..+..+++|+.|+|+         ..+.++++|+.|++++
T Consensus       202 L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~  281 (477)
T 2id5_A          202 LKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVG  281 (477)
T ss_dssp             CCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCS
T ss_pred             cceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCC
Confidence            77777776651   11222334577777776653 2222 235677888888877         2357778888888888


Q ss_pred             CccceEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecCC
Q 042962          270 FCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNPD  322 (377)
Q Consensus       270 ~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~~  322 (377)
                      |.+..+.   +.++++|+.++++.+++..+.      +..+ ..++|++++++.|+-
T Consensus       282 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~------~~~~~~l~~L~~L~l~~N~l  332 (477)
T 2id5_A          282 GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLE------ESVFHSVGNLETLILDSNPL  332 (477)
T ss_dssp             SCCSEECTTTBTTCTTCCEEECCSSCCSCCC------GGGBSCGGGCCEEECCSSCE
T ss_pred             CccceECHHHhcCcccCCEEECCCCcCceeC------HhHcCCCcccCEEEccCCCc
Confidence            8887763   455667777777776654321      1122 236899999988863

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

Probab=99.24  E-value=2.1e-11  Score=120.19  Aligned_cols=174  Identities=15%  Similarity=0.054  Sum_probs=113.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .+++.|++...        ....+|  +..+++|++|+|++|.+... .+..+++|++|++++|.+++-   . ++.+++
T Consensus        85 ~~L~~L~Ls~N--------~l~~~~--~~~l~~L~~L~L~~N~l~~l-~~~~l~~L~~L~l~~N~l~~l---~-l~~l~~  149 (457)
T 3bz5_A           85 TNLTYLACDSN--------KLTNLD--VTPLTKLTYLNCDTNKLTKL-DVSQNPLLTYLNCARNTLTEI---D-VSHNTQ  149 (457)
T ss_dssp             TTCSEEECCSS--------CCSCCC--CTTCTTCCEEECCSSCCSCC-CCTTCTTCCEEECTTSCCSCC---C-CTTCTT
T ss_pred             CCCCEEECcCC--------CCceee--cCCCCcCCEEECCCCcCCee-cCCCCCcCCEEECCCCcccee---c-cccCCc
Confidence            45666666421        223344  66789999999999987543 378889999999999988542   1 678889


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-----
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-----  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-----  253 (377)
                      |++|++++|..+..+.+..+++|+.|++.+|.  .++  ...+++|+.|.++++. ...  .++.+++|+.|+++     
T Consensus       150 L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L~l~~N~l~~~--~l~~l~~L~~L~Ls~N~l~  225 (457)
T 3bz5_A          150 LTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNNITKL--DLNQNIQLTFLDCSSNKLT  225 (457)
T ss_dssp             CCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--CTTCTTCCEEECCSSCCSCC--CCTTCTTCSEEECCSSCCS
T ss_pred             CCEEECCCCCcccccccccCCcCCEEECCCCccceec--cccCCCCCEEECcCCcCCee--ccccCCCCCEEECcCCccc
Confidence            99999988865655566667888888888876  222  2345677777776553 222  35666667766665     


Q ss_pred             -hhccCCCCCceEeccCCccceEEccCcccccccccccCCcc
Q 042962          254 -QEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLS  294 (377)
Q Consensus       254 -~~l~~~~~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~~~L~  294 (377)
                       ..++++++|+.|++++|.++.+.++.+.+|+.+.+..++|+
T Consensus       226 ~ip~~~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~n~L~  267 (457)
T 3bz5_A          226 EIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLL  267 (457)
T ss_dssp             CCCCTTCTTCSEEECCSSCCSCCCCTTCTTCCEEECTTCCCS
T ss_pred             ccCccccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccCCCCC
Confidence             12455666677777666666655555555554444444433

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

Probab=99.24  E-value=1.7e-11  Score=117.85  Aligned_cols=85  Identities=11%  Similarity=0.126  Sum_probs=45.8

Q ss_pred             cccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCC
Q 042962          128 LVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGK  203 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~  203 (377)
                      .+..+++|++|+|++|.+. .+ ..+.++++|++|+|+++.+.. ....++.++++|++|+++++.  ++..-.+..+++
T Consensus        88 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  166 (390)
T 3o6n_A           88 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSS-LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTS  166 (390)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTT
T ss_pred             hccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCc-CCHHHhcCCCCCcEEECCCCccCccChhhccCCCC
Confidence            4455666777777666652 22 235566667777776666531 112234556666666666652  111112334466


Q ss_pred             CcEEEEcccC
Q 042962          204 LKEFKVYDEY  213 (377)
Q Consensus       204 L~~L~i~~~~  213 (377)
                      |+.|.+.++.
T Consensus       167 L~~L~l~~n~  176 (390)
T 3o6n_A          167 LQNLQLSSNR  176 (390)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECCCCc
Confidence            6666666654

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

Probab=99.24  E-value=2.3e-11  Score=119.06  Aligned_cols=192  Identities=17%  Similarity=0.195  Sum_probs=138.8

Q ss_pred             CCcCCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++++.|+|++|.+.  .+..+.++++|++|+|++|.+..-.. ..+.++++|++|+|+++.  .+..-
T Consensus        54 ~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~-~~~~~l~~L~~L~L~~n~l~~~~~~  130 (440)
T 3zyj_A           54 NLREVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEI-GAFNGLANLNTLELFDNRLTTIPNG  130 (440)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECG-GGGTTCSSCCEEECCSSCCSSCCTT
T ss_pred             CcCcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccCh-hhccCCccCCEEECCCCcCCeeCHh
Confidence            4566787654  68999999999873  23578899999999999998843222 347789999999999873  22222


Q ss_pred             ccCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc--cCCce-eeccCCCccccchh-------hhccCCCCCc
Q 042962          197 ELPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH--MLPHI-SVVPCKNLKKLKLC-------QEIVDCMKLR  263 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~--~~~~~-~~~~~~~L~~L~L~-------~~l~~~~~L~  263 (377)
                      .+..+++|+.|.+.++.  .+. .....+++|++|+++++.  ..++. .+.++++|++|+++       ..+.++++|+
T Consensus       131 ~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~  210 (440)
T 3zyj_A          131 AFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLD  210 (440)
T ss_dssp             TSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCCCTTCSSCC
T ss_pred             HhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccccCCCcccC
Confidence            34557999999999987  222 223467999999997743  22222 36788999999988       3457788999


Q ss_pred             eEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecC
Q 042962          264 SIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNP  321 (377)
Q Consensus       264 ~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~  321 (377)
                      .|++++|.++.+.   +.++.+|+.+.+..+++...      .|..+ ..++|+.|+|+.|.
T Consensus       211 ~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~------~~~~~~~l~~L~~L~L~~N~  266 (440)
T 3zyj_A          211 ELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVI------ERNAFDNLQSLVEINLAHNN  266 (440)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEE------CTTSSTTCTTCCEEECTTSC
T ss_pred             EEECCCCccCccChhhhccCccCCEEECCCCceeEE------ChhhhcCCCCCCEEECCCCC
Confidence            9999999998874   55667788888877776432      12222 23689999998773

>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=99.24  E-value=2.3e-11  Score=119.44  Aligned_cols=192  Identities=15%  Similarity=0.152  Sum_probs=138.7

Q ss_pred             CCcCCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|+.|+|++|.+.  .+..+.++++|+.|+|++|.+.+-.. ..+.++++|++|+|+++.  .+..-
T Consensus        65 ~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~  141 (452)
T 3zyi_A           65 GLSEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEV-GAFNGLASLNTLELFDNWLTVIPSG  141 (452)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECT-TTTTTCTTCCEEECCSSCCSBCCTT
T ss_pred             CcCccCCCCC--CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcCh-hhccCcccCCEEECCCCcCCccChh
Confidence            4556776553  68999999999873  24578899999999999998853222 336789999999999884  22222


Q ss_pred             ccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc--cCCce-eeccCCCccccchh-------hhccCCCCCc
Q 042962          197 ELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH--MLPHI-SVVPCKNLKKLKLC-------QEIVDCMKLR  263 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~--~~~~~-~~~~~~~L~~L~L~-------~~l~~~~~L~  263 (377)
                      .+..+++|+.|.+++|.  .+ ......+++|++|+++++.  ..++. .+.++++|++|+++       ..+..+++|+
T Consensus       142 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~  221 (452)
T 3zyi_A          142 AFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLE  221 (452)
T ss_dssp             TSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCC
T ss_pred             hhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccccccccccc
Confidence            24457899999999997  12 2233467999999997743  22222 26788999999988       3457788999


Q ss_pred             eEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecC
Q 042962          264 SIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNP  321 (377)
Q Consensus       264 ~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~  321 (377)
                      .|++++|.+..+.   +.++.+|+.+.+..+++...      .|..+. .++|+.|+|+.|.
T Consensus       222 ~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~------~~~~~~~l~~L~~L~L~~N~  277 (452)
T 3zyi_A          222 ELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLI------ERNAFDGLASLVELNLAHNN  277 (452)
T ss_dssp             EEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEE------CTTTTTTCTTCCEEECCSSC
T ss_pred             EEECcCCcCcccCcccccCccCCCEEEeCCCcCceE------CHHHhcCCCCCCEEECCCCc
Confidence            9999999998873   56677888888877775432      222232 3689999999873

>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=99.23  E-value=4.2e-12  Score=118.00  Aligned_cols=94  Identities=14%  Similarity=0.084  Sum_probs=41.0

Q ss_pred             CCcccEEEEecccc---CCceeeccCCCccccchh---------hhccCCCCCceEeccCCccceEE---ccCccccccc
Q 042962          222 GMNAHSVHIIGLHM---LPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDEL  286 (377)
Q Consensus       222 ~p~L~~L~l~g~~~---~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l  286 (377)
                      +++|++|.++++..   ..+..+..+++|++|+++         ..+.++++|+.|++++|.++.+.   +..+.+|+.+
T Consensus       149 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  228 (306)
T 2z66_A          149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVL  228 (306)
T ss_dssp             CTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEE
T ss_pred             CcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEe
Confidence            34555555544321   122234445555555554         12344455555555555544432   2333444444


Q ss_pred             ccccCCcceEEEcccccccCccc--cccceEEEEecC
Q 042962          287 KLCTPNLSIFKYHGDLISFSSTA--LALSEIALVFNP  321 (377)
Q Consensus       287 ~l~~~~L~~~~~~~~~~p~~l~~--~~L~~l~l~~n~  321 (377)
                      +++.+++.      +..|..+..  ++|+.++++.|+
T Consensus       229 ~L~~N~l~------~~~~~~~~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          229 DYSLNHIM------TSKKQELQHFPSSLAFLNLTQND  259 (306)
T ss_dssp             ECTTSCCC------BCSSSSCCCCCTTCCEEECTTCC
T ss_pred             ECCCCCCc------ccCHHHHHhhhccCCEEEccCCC
Confidence            44444321      112222221  356677666554

>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=99.23  E-value=4.3e-11  Score=117.22  Aligned_cols=86  Identities=13%  Similarity=0.121  Sum_probs=46.1

Q ss_pred             cccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHH-HHhcCCcccccccccccc--cceeec-cCCC
Q 042962          128 LVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIK-DLISGCPLIEFISIISCR--GLKHLE-LPNL  201 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~-~l~~~cp~Le~L~L~~c~--~l~~l~-i~~l  201 (377)
                      .+..+++|++|+|++|.+.  .|..+.++++|++|+|.+|.+++..+. ..+..+++|++|+++++.  +..... +.++
T Consensus        74 ~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l  153 (455)
T 3v47_A           74 TFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNM  153 (455)
T ss_dssp             TTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGC
T ss_pred             cccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCC
Confidence            3445666666666666552  234556666666666666666443322 224556666666666552  111111 3334


Q ss_pred             CCCcEEEEcccC
Q 042962          202 GKLKEFKVYDEY  213 (377)
Q Consensus       202 ~~L~~L~i~~~~  213 (377)
                      ++|+.|++.+|.
T Consensus       154 ~~L~~L~L~~n~  165 (455)
T 3v47_A          154 RRFHVLDLTFNK  165 (455)
T ss_dssp             TTCCEEECTTCC
T ss_pred             CcccEEeCCCCc
Confidence            566666665554

>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=99.22  E-value=2e-11  Score=120.56  Aligned_cols=189  Identities=15%  Similarity=0.112  Sum_probs=95.9

Q ss_pred             CccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCC
Q 042962          126 PQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNL  201 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l  201 (377)
                      |..+..+++|++|+|++|.+. .|+ .+.++++|++|+|++|.+.+.. ...+..+++|+.|+++++.  ++..-.+.++
T Consensus        73 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l  151 (477)
T 2id5_A           73 PGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILL-DYMFQDLYNLKSLEVGDNDLVYISHRAFSGL  151 (477)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEEC-TTTTTTCTTCCEEEECCTTCCEECTTSSTTC
T ss_pred             hhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCC-hhHccccccCCEEECCCCccceeChhhccCC
Confidence            444555666666666666552 222 3456666666666666553211 1124556666666666542  1111123344


Q ss_pred             CCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc--cCCceeeccCC------------------------Cccccch
Q 042962          202 GKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH--MLPHISVVPCK------------------------NLKKLKL  252 (377)
Q Consensus       202 ~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~------------------------~L~~L~L  252 (377)
                      ++|+.|.+.+|.  .+. .....+++|+.|++.++.  ...+..+..++                        +|+.|++
T Consensus       152 ~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l  231 (477)
T 2id5_A          152 NSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSI  231 (477)
T ss_dssp             TTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEE
T ss_pred             CCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEEC
Confidence            566666666554  111 112234555555554432  10111123333                        4455544


Q ss_pred             h---------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEe
Q 042962          253 C---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVF  319 (377)
Q Consensus       253 ~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~  319 (377)
                      +         ..+.++++|+.|++++|.++.+.   +.++.+|+.+.+..+++..      ..|..+. .++|+.|+++.
T Consensus       232 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~------~~~~~~~~l~~L~~L~L~~  305 (477)
T 2id5_A          232 THCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAV------VEPYAFRGLNYLRVLNVSG  305 (477)
T ss_dssp             ESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSE------ECTTTBTTCTTCCEEECCS
T ss_pred             cCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccce------ECHHHhcCcccCCEEECCC
Confidence            4         23456667777777777666554   3445566666666555432      1232332 36899999987


Q ss_pred             cC
Q 042962          320 NP  321 (377)
Q Consensus       320 n~  321 (377)
                      |.
T Consensus       306 N~  307 (477)
T 2id5_A          306 NQ  307 (477)
T ss_dssp             SC
T ss_pred             Cc
Confidence            73

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.22  E-value=1.4e-11  Score=122.38  Aligned_cols=199  Identities=19%  Similarity=0.108  Sum_probs=140.7

Q ss_pred             CceEEEEEeeCCCCCCCCCCcCC-CccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          103 NVKELKLGFCCPHSNYPDSYYNL-PQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       103 ~v~~L~L~~~~~~~~~~~~~~~l-p~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      +++.|++...        ....+ |..+..+++|++|+|++|.+.....+..+++|++|+|++|.+++      +...++
T Consensus        35 ~L~~L~Ls~n--------~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~------l~~~~~  100 (487)
T 3oja_A           35 NVKELDLSGN--------PLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQE------LLVGPS  100 (487)
T ss_dssp             GCCEEECCSS--------CCCCCCGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEE------EEECTT
T ss_pred             CccEEEeeCC--------cCCCCCHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCC------CCCCCC
Confidence            6777777532        23344 45677899999999999987422238889999999999998842      334589


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc--cCCceeec-cCCCccccchh--
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH--MLPHISVV-PCKNLKKLKLC--  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~--~~~~~~~~-~~~~L~~L~L~--  253 (377)
                      |+.|++++|. +..+....+++|+.|.+.+|.  .. +.....+++|++|+++++.  +..+..+. .+++|+.|+|+  
T Consensus       101 L~~L~L~~N~-l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N  179 (487)
T 3oja_A          101 IETLHAANNN-ISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN  179 (487)
T ss_dssp             CCEEECCSSC-CCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTS
T ss_pred             cCEEECcCCc-CCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCC
Confidence            9999999884 322333446899999999987  22 2223457899999998774  22233343 67899999988  


Q ss_pred             -----hhccCCCCCceEeccCCccceEE--ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecCCC
Q 042962          254 -----QEIVDCMKLRSIKISSFCLKSFL--FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNPDN  323 (377)
Q Consensus       254 -----~~l~~~~~L~~L~i~~~~L~~l~--l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~~~  323 (377)
                           .....+++|+.|++++|.+..+.  +..+.+|+.++++.+++..       +|..+. .++|+.++++.|+-.
T Consensus       180 ~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~-------lp~~l~~l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          180 FIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVL-------IEKALRFSQNLEHFDLRGNGFH  250 (487)
T ss_dssp             CCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCE-------ECTTCCCCTTCCEEECTTCCBC
T ss_pred             ccccccccccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCCcCcc-------cchhhccCCCCCEEEcCCCCCc
Confidence                 22356889999999999998863  5566788888888877653       443333 367899998876553

>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=99.22  E-value=6.7e-11  Score=116.64  Aligned_cols=183  Identities=14%  Similarity=0.117  Sum_probs=79.4

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKV  209 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i  209 (377)
                      ..+++|++|+|++|.+...+.+.++++|++|++.++.+.+..  . ++++++|++|++++|.-.....+..+++|+.|++
T Consensus        65 ~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~--~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l  141 (466)
T 1o6v_A           65 EYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADIT--P-LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLEL  141 (466)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCG--G-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEE
T ss_pred             hhhcCCCEEECCCCccCCchhhhccccCCEEECCCCccccCh--h-hcCCCCCCEEECCCCCCCCChHHcCCCCCCEEEC
Confidence            345555555555554422112445555555555555442211  1 4445555555555442111111333455555555


Q ss_pred             cccC--CCchh--------------------hhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCC
Q 042962          210 YDEY--GLEQV--------------------YIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCM  260 (377)
Q Consensus       210 ~~~~--~~~~~--------------------~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~  260 (377)
                      .+|.  .+..+                    ...+++|+.|+++++.......+..+++|++|+++       ..++.++
T Consensus       142 ~~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~  221 (466)
T 1o6v_A          142 SSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGILT  221 (466)
T ss_dssp             EEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGGGCT
T ss_pred             CCCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCCChhhccCCCCCEEEecCCcccccccccccC
Confidence            5544  11111                    12344455555444321111113444455555444       1234445


Q ss_pred             CCceEeccCCccceE-EccCcccccccccccCCcceEEEcccccccCccccccceEEEEecCC
Q 042962          261 KLRSIKISSFCLKSF-LFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPD  322 (377)
Q Consensus       261 ~L~~L~i~~~~L~~l-~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~~  322 (377)
                      +|+.|++++|.++.+ .+..+.+|+.+.+..+++..       ++.....++|++|+++.|.-
T Consensus       222 ~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~-------~~~~~~l~~L~~L~l~~n~l  277 (466)
T 1o6v_A          222 NLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISN-------LAPLSGLTKLTELKLGANQI  277 (466)
T ss_dssp             TCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCC-------CGGGTTCTTCSEEECCSSCC
T ss_pred             CCCEEECCCCCcccchhhhcCCCCCEEECCCCcccc-------chhhhcCCCCCEEECCCCcc
Confidence            555555555554443 22333444444444443321       11122236788888887643

>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=99.21  E-value=3.2e-11  Score=113.35  Aligned_cols=164  Identities=18%  Similarity=0.173  Sum_probs=82.7

Q ss_pred             CccccccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc----ceeeccCC
Q 042962          126 PQLVFYAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG----LKHLELPN  200 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~----l~~l~i~~  200 (377)
                      |..+..+++|++|+|++|.+. .|...  +++|++|+++++.+.+.. ...+.++++|+.|+++++.-    .....+.+
T Consensus        93 ~~~~~~l~~L~~L~Ls~n~l~~l~~~~--~~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~  169 (330)
T 1xku_A           93 PGAFAPLVKLERLYLSKNQLKELPEKM--PKTLQELRVHENEITKVR-KSVFNGLNQMIVVELGTNPLKSSGIENGAFQG  169 (330)
T ss_dssp             TTTTTTCTTCCEEECCSSCCSBCCSSC--CTTCCEEECCSSCCCBBC-HHHHTTCTTCCEEECCSSCCCGGGBCTTGGGG
T ss_pred             HHHhcCCCCCCEEECCCCcCCccChhh--cccccEEECCCCcccccC-HhHhcCCccccEEECCCCcCCccCcChhhccC
Confidence            344445555555555555542 22111  245555555555553211 22345666666666665521    11122333


Q ss_pred             CCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-c-CCceeeccCCCccccchh---------hhccCCCCCceEec
Q 042962          201 LGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-M-LPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKI  267 (377)
Q Consensus       201 l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~-~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i  267 (377)
                      +++|+.|.+.++.  .++..  ..++|++|+++++. . ..+..+..+++|+.|+++         ..+.++++|+.|++
T Consensus       170 l~~L~~L~l~~n~l~~l~~~--~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  247 (330)
T 1xku_A          170 MKKLSYIRIADTNITTIPQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHL  247 (330)
T ss_dssp             CTTCCEEECCSSCCCSCCSS--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEEC
T ss_pred             CCCcCEEECCCCccccCCcc--ccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEEC
Confidence            5666666666665  11111  12566666665543 1 112235566666666665         23456666777777


Q ss_pred             cCCccceEE--ccCcccccccccccCCcc
Q 042962          268 SSFCLKSFL--FIGYDTLDELKLCTPNLS  294 (377)
Q Consensus       268 ~~~~L~~l~--l~~c~~L~~l~l~~~~L~  294 (377)
                      ++|.++.+.  +..+++|+.+.+..+++.
T Consensus       248 ~~N~l~~lp~~l~~l~~L~~L~l~~N~i~  276 (330)
T 1xku_A          248 NNNKLVKVPGGLADHKYIQVVYLHNNNIS  276 (330)
T ss_dssp             CSSCCSSCCTTTTTCSSCCEEECCSSCCC
T ss_pred             CCCcCccCChhhccCCCcCEEECCCCcCC
Confidence            766666442  344455666666555543

>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=99.21  E-value=4.3e-11  Score=112.42  Aligned_cols=185  Identities=12%  Similarity=0.052  Sum_probs=114.4

Q ss_pred             CCCc-cccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeecc
Q 042962          124 NLPQ-LVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLEL  198 (377)
Q Consensus       124 ~lp~-~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i  198 (377)
                      .+|. .+..+++|++|+|++|.+. . |..+.++++|++|+++++.+..  +..  ...++|++|+++++.  ++..-.+
T Consensus        66 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~--l~~--~~~~~L~~L~l~~n~l~~~~~~~~  141 (330)
T 1xku_A           66 EIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE--LPE--KMPKTLQELRVHENEITKVRKSVF  141 (330)
T ss_dssp             CBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSB--CCS--SCCTTCCEEECCSSCCCBBCHHHH
T ss_pred             EeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCc--cCh--hhcccccEEECCCCcccccCHhHh
Confidence            3443 4556777888888777653 2 4456777778888887776631  110  123677777777663  2222224


Q ss_pred             CCCCCCcEEEEcccCC----C-chhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh---------hhccCCCCCc
Q 042962          199 PNLGKLKEFKVYDEYG----L-EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC---------QEIVDCMKLR  263 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~~----~-~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~  263 (377)
                      ..+++|+.|++.++..    . ......+++|++|+++++. ..++..+  .++|++|+++         ..+.++++|+
T Consensus       142 ~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~--~~~L~~L~l~~n~l~~~~~~~~~~l~~L~  219 (330)
T 1xku_A          142 NGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLA  219 (330)
T ss_dssp             TTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCTTCC
T ss_pred             cCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccc--cccCCEEECCCCcCCccCHHHhcCCCCCC
Confidence            4567888888887761    1 1122346788888886654 2333322  2677777776         3467888899


Q ss_pred             eEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecC
Q 042962          264 SIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNP  321 (377)
Q Consensus       264 ~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~  321 (377)
                      .|++++|.++.+.   +..+++|+.+.++.+++.       .+|..+. .++|+.++++.|.
T Consensus       220 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-------~lp~~l~~l~~L~~L~l~~N~  274 (330)
T 1xku_A          220 KLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-------KVPGGLADHKYIQVVYLHNNN  274 (330)
T ss_dssp             EEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-------SCCTTTTTCSSCCEEECCSSC
T ss_pred             EEECCCCcCceeChhhccCCCCCCEEECCCCcCc-------cCChhhccCCCcCEEECCCCc
Confidence            9999988888764   455667777777666543       3443333 3567888877663

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

Probab=99.21  E-value=1.9e-11  Score=111.88  Aligned_cols=160  Identities=13%  Similarity=0.041  Sum_probs=103.7

Q ss_pred             cccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCc
Q 042962          128 LVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLK  205 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~  205 (377)
                      .+..+++|++|+|++|.+..++.+..+++|++|++++|.+.+- ....+.++++|++|++++|.  ++..-.+..+++|+
T Consensus        58 ~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~-~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  136 (272)
T 3rfs_A           58 GIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSL-PNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLT  136 (272)
T ss_dssp             TGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCC-CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             ccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCcc-ChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCC
Confidence            4667888888888888875555677888888888888877421 12335678888888888774  22222244568888


Q ss_pred             EEEEcccC--CCch-hhhcCCcccEEEEeccc-cCCce-eeccCCCccccchh---------hhccCCCCCceEeccCCc
Q 042962          206 EFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFC  271 (377)
Q Consensus       206 ~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~  271 (377)
                      .|.+.+|.  .... ....+++|+.|+++++. ...+. .+..+++|+.|+++         ..+.++++|+.|++++|.
T Consensus       137 ~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          137 YLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCC
Confidence            88888886  2222 22356788888887764 22222 24667777777776         235667778888887776


Q ss_pred             cceEEccCcccccccccccCC
Q 042962          272 LKSFLFIGYDTLDELKLCTPN  292 (377)
Q Consensus       272 L~~l~l~~c~~L~~l~l~~~~  292 (377)
                      +.    +.|++++.+.+..++
T Consensus       217 ~~----~~~~~l~~l~~~~n~  233 (272)
T 3rfs_A          217 WD----CTCPGIRYLSEWINK  233 (272)
T ss_dssp             BC----CCTTTTHHHHHHHHH
T ss_pred             cc----ccCcHHHHHHHHHHh
Confidence            54    345666655544433

>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=99.20  E-value=6.7e-11  Score=116.62  Aligned_cols=182  Identities=18%  Similarity=0.149  Sum_probs=113.5

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      +..+++|++|+|++|.+...+.+.++++|++|++++|.+.+-  .. ++.+++|+.|.+.+.. .....+..+++|+.|+
T Consensus       108 ~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~--~~-~~~l~~L~~L~l~~~~-~~~~~~~~l~~L~~L~  183 (466)
T 1o6v_A          108 LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDI--SA-LSGLTSLQQLSFGNQV-TDLKPLANLTTLERLD  183 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEEEEEEECCC--GG-GTTCTTCSEEEEEESC-CCCGGGTTCTTCCEEE
T ss_pred             hcCCCCCCEEECCCCCCCCChHHcCCCCCCEEECCCCccCCC--hh-hccCCcccEeecCCcc-cCchhhccCCCCCEEE
Confidence            444555555555555442222344555555555555555221  11 4455555555554321 1112345578999999


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-cc
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-FI  278 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-l~  278 (377)
                      +.+|.  .+.. ...+++|++|.++++.......++.+++|+.|+++       ..+.++++|+.|++++|.+..+. +.
T Consensus       184 l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~  262 (466)
T 1o6v_A          184 ISSNKVSDISV-LAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLS  262 (466)
T ss_dssp             CCSSCCCCCGG-GGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGT
T ss_pred             CcCCcCCCChh-hccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhhh
Confidence            99887  3322 34679999999987752211226778999999887       35678899999999999887654 66


Q ss_pred             CcccccccccccCCcceEEEcccccccCccccccceEEEEecCC
Q 042962          279 GYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPD  322 (377)
Q Consensus       279 ~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~~  322 (377)
                      .+.+|+.+.+..+++..       +|.....++|++|+++.|.-
T Consensus       263 ~l~~L~~L~l~~n~l~~-------~~~~~~l~~L~~L~L~~n~l  299 (466)
T 1o6v_A          263 GLTKLTELKLGANQISN-------ISPLAGLTALTNLELNENQL  299 (466)
T ss_dssp             TCTTCSEEECCSSCCCC-------CGGGTTCTTCSEEECCSSCC
T ss_pred             cCCCCCEEECCCCccCc-------cccccCCCccCeEEcCCCcc
Confidence            77788888887776533       22222336899999987743

>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=99.19  E-value=3.3e-11  Score=122.65  Aligned_cols=85  Identities=11%  Similarity=0.120  Sum_probs=44.9

Q ss_pred             cccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCC
Q 042962          128 LVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGK  203 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~  203 (377)
                      .+..+++|++|+|++|.+. .|+ .+.++++|++|+|++|.+.. .+..+++++++|+.|++++|.  ++..-.+..+++
T Consensus        94 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~-l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~  172 (597)
T 3oja_B           94 AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSS-LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTS  172 (597)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTT
T ss_pred             HhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCC-CCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCc
Confidence            4455666666666666552 222 34566666666666665531 112234556666666666552  111112334456


Q ss_pred             CcEEEEcccC
Q 042962          204 LKEFKVYDEY  213 (377)
Q Consensus       204 L~~L~i~~~~  213 (377)
                      |+.|.+.+|.
T Consensus       173 L~~L~L~~N~  182 (597)
T 3oja_B          173 LQNLQLSSNR  182 (597)
T ss_dssp             CCEEECTTSC
T ss_pred             CcEEECcCCC
Confidence            6666666554

>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=99.19  E-value=4.4e-11  Score=121.51  Aligned_cols=122  Identities=12%  Similarity=-0.008  Sum_probs=62.0

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHH-HHHHhcCCccccccccccccccee--eccCCCCCCcEE
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQV-IKDLISGCPLIEFISIISCRGLKH--LELPNLGKLKEF  207 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~-l~~l~~~cp~Le~L~L~~c~~l~~--l~i~~l~~L~~L  207 (377)
                      .+++|+.|++++|....+..+..+++|++|++++|.+.+.. ....+.++++|+.|++++|. +..  -.+.++++|+.|
T Consensus       326 ~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~l~~L~~L  404 (606)
T 3vq2_A          326 DLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AIIMSANFMGLEELQHL  404 (606)
T ss_dssp             CCSSCCEEEEESCSSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCS-EEEECCCCTTCTTCCEE
T ss_pred             CCCccceeeccCCcCccchhhccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCc-cccchhhccCCCCCCee
Confidence            55666666666653322224556777777777777663211 12235667777777777663 111  123335666666


Q ss_pred             EEcccC--CC-c-hhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh
Q 042962          208 KVYDEY--GL-E-QVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       208 ~i~~~~--~~-~-~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~  253 (377)
                      .+.+|.  .. + .....+++|++|+++++.  +..+..+.++++|+.|+++
T Consensus       405 ~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  456 (606)
T 3vq2_A          405 DFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMA  456 (606)
T ss_dssp             ECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECT
T ss_pred             ECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECC
Confidence            666665  11 1 122344556666554442  1122223444445544443

>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=99.19  E-value=1.2e-11  Score=116.31  Aligned_cols=169  Identities=12%  Similarity=0.151  Sum_probs=121.3

Q ss_pred             HHHHHHHHh-CCceEEEEEeeCCCCCCCCCCcCCCcccccc--CcccEEEecccccc-CCCCCCCCCCCCeeeccceeeC
Q 042962           93 YRCLRYAVE-TNVKELKLGFCCPHSNYPDSYYNLPQLVFYA--KSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCAD  168 (377)
Q Consensus        93 ~~wi~~a~~-~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~--~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~  168 (377)
                      .+|-..+.. ...+.+++.  .       .... |..+...  ++++.|+++++.+. .++...++++|++|+++++.++
T Consensus        37 ~~W~~~~~~~~~~~~l~l~--~-------~~~~-~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~  106 (336)
T 2ast_B           37 KRWYRLASDESLWQTLDLT--G-------KNLH-PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIE  106 (336)
T ss_dssp             HHHHHHHTCSTTSSEEECT--T-------CBCC-HHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEEC
T ss_pred             HHHHHHhcCchhheeeccc--c-------ccCC-HHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcC
Confidence            467766643 235666653  1       1111 4445555  88999999998874 3345678999999999999998


Q ss_pred             hHHHHHHhcCCcccccccccccccc--eeeccCCCCCCcEEEEcccCC-----CchhhhcCCcccEEEEecc-ccC---C
Q 042962          169 DQVIKDLISGCPLIEFISIISCRGL--KHLELPNLGKLKEFKVYDEYG-----LEQVYIQGMNAHSVHIIGL-HML---P  237 (377)
Q Consensus       169 ~~~l~~l~~~cp~Le~L~L~~c~~l--~~l~i~~l~~L~~L~i~~~~~-----~~~~~~~~p~L~~L~l~g~-~~~---~  237 (377)
                      +..+...+..||+|++|++++|.-.  ..-.+..+++|++|++.+|..     +......+++|++|+++++ ...   +
T Consensus       107 ~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~  186 (336)
T 2ast_B          107 VSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHV  186 (336)
T ss_dssp             HHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHH
T ss_pred             HHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHH
Confidence            8878888999999999999998421  112345579999999999952     2333456899999999877 321   2


Q ss_pred             ceeeccCC-Cccccchh------------hhccCCCCCceEeccCCc
Q 042962          238 HISVVPCK-NLKKLKLC------------QEIVDCMKLRSIKISSFC  271 (377)
Q Consensus       238 ~~~~~~~~-~L~~L~L~------------~~l~~~~~L~~L~i~~~~  271 (377)
                      +..+..++ +|++|+++            ..+.++++|+.|+++++.
T Consensus       187 ~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~  233 (336)
T 2ast_B          187 QVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSV  233 (336)
T ss_dssp             HHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCT
T ss_pred             HHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCC
Confidence            33367788 89988886            123678999999998876

>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=99.19  E-value=7.9e-11  Score=108.95  Aligned_cols=181  Identities=15%  Similarity=0.000  Sum_probs=98.1

Q ss_pred             ccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-ccCCCCCCcEEE
Q 042962          131 YAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-ELPNLGKLKEFK  208 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-~i~~l~~L~~L~  208 (377)
                      .+++++.++++++.+. +|+.+  .++++.|+|+++.+.+-.. ..+.++++|+.|.++++. +..+ ....+++|+.|+
T Consensus         8 ~l~~l~~l~~~~~~l~~ip~~~--~~~l~~L~L~~N~l~~~~~-~~~~~l~~L~~L~L~~n~-l~~~~~~~~l~~L~~L~   83 (290)
T 1p9a_G            8 KVASHLEVNCDKRNLTALPPDL--PKDTTILHLSENLLYTFSL-ATLMPYTRLTQLNLDRAE-LTKLQVDGTLPVLGTLD   83 (290)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCC--CTTCCEEECTTSCCSEEEG-GGGTTCTTCCEEECTTSC-CCEEECCSCCTTCCEEE
T ss_pred             ccCCccEEECCCCCCCcCCCCC--CCCCCEEEcCCCcCCccCH-HHhhcCCCCCEEECCCCc-cCcccCCCCCCcCCEEE
Confidence            4455555666555542 22222  2455666666655532111 124455666666665542 1111 112345666666


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccc-cCCc-eeeccCCCccccchh---------hhccCCCCCceEeccCCccceE
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPH-ISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSF  275 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~-~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l  275 (377)
                      ++++.  .++......++|++|+++++. ..++ ..+.++++|++|+++         ..+.++++|+.|++++|+++.+
T Consensus        84 Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l  163 (290)
T 1p9a_G           84 LSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTEL  163 (290)
T ss_dssp             CCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCC
T ss_pred             CCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCcc
Confidence            66555  222222345566666665543 2222 224556666666665         2346778889999999888876


Q ss_pred             Ec---cCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecCC
Q 042962          276 LF---IGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNPD  322 (377)
Q Consensus       276 ~l---~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~~  322 (377)
                      .-   ..+.+|+.+.+..+++.       .+|..+ ...+|+.++++.|+-
T Consensus       164 ~~~~~~~l~~L~~L~L~~N~l~-------~ip~~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          164 PAGLLNGLENLDTLLLQENSLY-------TIPKGFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCC-------CCCTTTTTTCCCSEEECCSCCB
T ss_pred             CHHHhcCcCCCCEEECCCCcCC-------ccChhhcccccCCeEEeCCCCc
Confidence            53   34567777777777664       344332 235788898887764

>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=99.18  E-value=7.9e-11  Score=109.83  Aligned_cols=140  Identities=11%  Similarity=0.082  Sum_probs=58.5

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      +..+++|++|+|++|.+...+.+..+++|++|++++|.+.+-  .. +..+++|+.|++++|.-.....+..+++|+.|.
T Consensus        81 ~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~--~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~  157 (308)
T 1h6u_A           81 LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDV--TP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLS  157 (308)
T ss_dssp             GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTTSCCCCC--GG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEE
T ss_pred             HccCCCCCEEEccCCcCCCchhhcCCCCCCEEECCCCCCCCc--hh-hcCCCCCCEEECCCCccCcCccccCCCCccEEE
Confidence            344455555555555443333444455555555555544221  11 344555555555544211001122334555555


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccc
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~  273 (377)
                      +.+|.  .+.. ...+++|+.|+++++. ...+ .+..+++|++|+++       ..+.++++|+.|++++|.+.
T Consensus       158 l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~N~i~  230 (308)
T 1h6u_A          158 IGNAQVSDLTP-LANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTIT  230 (308)
T ss_dssp             CCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEEEEEE
T ss_pred             ccCCcCCCChh-hcCCCCCCEEECCCCccCcCh-hhcCCCCCCEEEccCCccCccccccCCCCCCEEEccCCeee
Confidence            55444  1111 1234455555554432 1111 13444445555444       12344444555554444443

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

Probab=99.18  E-value=5.2e-11  Score=111.41  Aligned_cols=212  Identities=19%  Similarity=0.100  Sum_probs=148.1

Q ss_pred             hhHHHHHHHHHh--CCceEEEEEeeCCCCCCCCCCcCCC-ccccccCcccEEEeccccccCCCCCCCCCCCCeeecccee
Q 042962           90 SSIYRCLRYAVE--TNVKELKLGFCCPHSNYPDSYYNLP-QLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVC  166 (377)
Q Consensus        90 ~~i~~wi~~a~~--~~v~~L~L~~~~~~~~~~~~~~~lp-~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~  166 (377)
                      ..+...+.....  .++++|++.-.        ....++ ..+..+++|++|+|++|.+.....+..+++|++|++++|.
T Consensus        20 ~~l~~~~~~~~~~~~~L~~L~L~~n--------~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~   91 (317)
T 3o53_A           20 SSLKQALASLRQSAWNVKELDLSGN--------PLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNY   91 (317)
T ss_dssp             TTHHHHHHHHHTTGGGCSEEECTTS--------CCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSE
T ss_pred             cchhhhHHHHhccCCCCCEEECcCC--------ccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCc
Confidence            445555554443  36787777521        233444 4677899999999999987432348889999999999998


Q ss_pred             eChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEcccC--CCch-hhhcCCcccEEEEeccc-cCC-ceee
Q 042962          167 ADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-MLP-HISV  241 (377)
Q Consensus       167 ~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~~-~~~~  241 (377)
                      +++      +..+++|+.|.++++. +..+....+++|+.|.+.+|.  .... .....++|++|+++++. ... +..+
T Consensus        92 l~~------l~~~~~L~~L~l~~n~-l~~~~~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~  164 (317)
T 3o53_A           92 VQE------LLVGPSIETLHAANNN-ISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAEL  164 (317)
T ss_dssp             EEE------EEECTTCCEEECCSSC-CSEEEECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGG
T ss_pred             ccc------ccCCCCcCEEECCCCc-cCCcCccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHH
Confidence            842      3356999999999875 333344447899999999997  2222 22356899999998764 211 2223


Q ss_pred             -ccCCCccccchh-------hhccCCCCCceEeccCCccceE--EccCcccccccccccCCcceEEEcccccccCcc-cc
Q 042962          242 -VPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSF--LFIGYDTLDELKLCTPNLSIFKYHGDLISFSST-AL  310 (377)
Q Consensus       242 -~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~  310 (377)
                       ..+++|++|+++       .....+++|+.|++++|.++.+  .+..+++|+.+.++.+++..       +|..+. .+
T Consensus       165 ~~~l~~L~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~-------l~~~~~~l~  237 (317)
T 3o53_A          165 AASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVL-------IEKALRFSQ  237 (317)
T ss_dssp             GGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCE-------ECTTCCCCT
T ss_pred             hhccCcCCEEECCCCcCcccccccccccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccc-------hhhHhhcCC
Confidence             467889999988       2234588999999999999876  35566788888888877653       343333 36


Q ss_pred             ccceEEEEecCCC
Q 042962          311 ALSEIALVFNPDN  323 (377)
Q Consensus       311 ~L~~l~l~~n~~~  323 (377)
                      +|+.++++.|+-.
T Consensus       238 ~L~~L~l~~N~~~  250 (317)
T 3o53_A          238 NLEHFDLRGNGFH  250 (317)
T ss_dssp             TCCEEECTTCCCB
T ss_pred             CCCEEEccCCCcc
Confidence            8999999877653

>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=99.17  E-value=3.2e-11  Score=110.93  Aligned_cols=182  Identities=15%  Similarity=0.113  Sum_probs=119.0

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCC-ccccccCcccEEEecccccc--CCCCCCCCCCCCeeecccee-eChHHHHHHhc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLP-QLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVC-ADDQVIKDLIS  177 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp-~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~-~~~~~l~~l~~  177 (377)
                      .++++|++.-.        ....+| ..+..+++|++|+|++|.+.  .|..+.++++|++|+++++. +..-. ...+.
T Consensus        32 ~~l~~L~l~~n--------~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~-~~~~~  102 (285)
T 1ozn_A           32 AASQRIFLHGN--------RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVD-PATFH  102 (285)
T ss_dssp             TTCSEEECTTS--------CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCC-TTTTT
T ss_pred             CCceEEEeeCC--------cCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccC-HHHhc
Confidence            45676766421        233344 34567888888888888763  24467788888888888886 43211 22366


Q ss_pred             CCcccccccccccc--cceeeccCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCCce-eeccCCCcccc
Q 042962          178 GCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKL  250 (377)
Q Consensus       178 ~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L  250 (377)
                      ++++|++|+++++.  ++..-.+..+++|+.|.+.++.  ... .....+++|++|+++++. ..++. .+..+++|+.|
T Consensus       103 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  182 (285)
T 1ozn_A          103 GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRL  182 (285)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEE
Confidence            78888888888774  2222234456888888888876  222 222356888888887764 22222 25677888888


Q ss_pred             chh---------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCC
Q 042962          251 KLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPN  292 (377)
Q Consensus       251 ~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~  292 (377)
                      +++         ..+.++++|+.|++++|.++.+.   +..+++|+.+.+..+.
T Consensus       183 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~  236 (285)
T 1ozn_A          183 LLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNP  236 (285)
T ss_dssp             ECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             ECCCCcccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCC
Confidence            876         34677888999999988887754   5566677777766554

>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=99.17  E-value=5.2e-11  Score=110.59  Aligned_cols=194  Identities=16%  Similarity=0.141  Sum_probs=136.8

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHH-HHHHhcCCcccccccccccccce-ee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQV-IKDLISGCPLIEFISIISCRGLK-HL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~-l~~l~~~cp~Le~L~L~~c~~l~-~l  196 (377)
                      ....+|..+.  ++|++|+|++|.+. .|+ .+.++++|++|+|+++.+.... ....+.++++|++|+++++.-.. .-
T Consensus        18 ~l~~ip~~~~--~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~   95 (306)
T 2z66_A           18 GLTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSS   95 (306)
T ss_dssp             CCSSCCSCCC--TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEE
T ss_pred             CcccCCCCCC--CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCccccChh
Confidence            4556776543  68999999999874 443 3689999999999999874211 01124568999999999884211 11


Q ss_pred             ccCCCCCCcEEEEcccC--CCc--hhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh----------hhccCCC
Q 042962          197 ELPNLGKLKEFKVYDEY--GLE--QVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC----------QEIVDCM  260 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~--~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~----------~~l~~~~  260 (377)
                      .+..+++|+.|.+.++.  ...  ......++|++|+++++.  ...+..+.++++|++|+++          ..+.+++
T Consensus        96 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~  175 (306)
T 2z66_A           96 NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELR  175 (306)
T ss_dssp             EEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCT
T ss_pred             hcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCc
Confidence            24457999999999987  222  234567899999998764  2233346788999999887          2357789


Q ss_pred             CCceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecCC
Q 042962          261 KLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNPD  322 (377)
Q Consensus       261 ~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~~  322 (377)
                      +|+.|++++|.++.+.   +..+++|+.+.++.+++...      .+..+. .++|+.++++.|.-
T Consensus       176 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~------~~~~~~~l~~L~~L~L~~N~l  235 (306)
T 2z66_A          176 NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL------DTFPYKCLNSLQVLDYSLNHI  235 (306)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBC------CSGGGTTCTTCCEEECTTSCC
T ss_pred             CCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCcc------ChhhccCcccCCEeECCCCCC
Confidence            9999999999998873   45667788888877765432      111222 36899999998754

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

Probab=99.17  E-value=9.2e-11  Score=112.78  Aligned_cols=209  Identities=13%  Similarity=0.130  Sum_probs=130.9

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccc-cccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLV-FYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l-~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      .+++.+++.-        .....+|..+ ..+++|++|+|++|.+. .+ ..+..+++|++|+|+++.+.+.. ...+++
T Consensus        45 ~~l~~l~l~~--------~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~  115 (390)
T 3o6n_A           45 NNQKIVTFKN--------STMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLP-PHVFQN  115 (390)
T ss_dssp             CCCSEEEEES--------CEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCC-TTTTTT
T ss_pred             CCceEEEecC--------CchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCC-HHHhcC
Confidence            5778788762        1345577664 47899999999999873 33 37889999999999999884322 233678


Q ss_pred             Ccccccccccccccceeec---cCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccccCCceeeccCCCccccch
Q 042962          179 CPLIEFISIISCRGLKHLE---LPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKL  252 (377)
Q Consensus       179 cp~Le~L~L~~c~~l~~l~---i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L  252 (377)
                      +++|++|+++++. +..+.   +..+++|+.|.+.+|.  .. ......+++|++|+++++... ...+..+++|+.|++
T Consensus       116 l~~L~~L~L~~n~-l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~-~~~~~~l~~L~~L~l  193 (390)
T 3o6n_A          116 VPLLTVLVLERND-LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT-HVDLSLIPSLFHANV  193 (390)
T ss_dssp             CTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCS-BCCGGGCTTCSEEEC
T ss_pred             CCCCCEEECCCCc-cCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCC-ccccccccccceeec
Confidence            9999999999884 22222   3457899999999987  22 222345789999999776421 123566777777776


Q ss_pred             h----hhccCCCCCceEeccCCccceEEccCccccccccccc------------CCcceEEEcccc----cccCcc-ccc
Q 042962          253 C----QEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCT------------PNLSIFKYHGDL----ISFSST-ALA  311 (377)
Q Consensus       253 ~----~~l~~~~~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~------------~~L~~~~~~~~~----~p~~l~-~~~  311 (377)
                      +    ..+...++|+.|+++++.+..+......+|+.+.+..            ++|+.+...+..    .|..+. .++
T Consensus       194 ~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  273 (390)
T 3o6n_A          194 SYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQR  273 (390)
T ss_dssp             CSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGTTCSS
T ss_pred             ccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCCCCccEEECCCCcCCCcChhHcccccc
Confidence            6    2234445666676666655444332223333332221            233333332221    232332 367


Q ss_pred             cceEEEEecC
Q 042962          312 LSEIALVFNP  321 (377)
Q Consensus       312 L~~l~l~~n~  321 (377)
                      |++|+++.|.
T Consensus       274 L~~L~L~~n~  283 (390)
T 3o6n_A          274 LERLYISNNR  283 (390)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEECCCCc
Confidence            8899888764

>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=99.16  E-value=3.9e-11  Score=122.08  Aligned_cols=168  Identities=18%  Similarity=0.158  Sum_probs=94.1

Q ss_pred             cCCCcc-ccccCcccEEEecccccc-CCCC-CCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccC
Q 042962          123 YNLPQL-VFYAKSMSLLGLDSCKLE-SPRG-NVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELP  199 (377)
Q Consensus       123 ~~lp~~-l~~~~~L~~L~L~~~~~~-~p~~-~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~  199 (377)
                      ..+|+. +..+++|++|+|++|.+. .|+. +.++++|++|+|++|.+.+... ..++++++|+.|+++++. +..+.+.
T Consensus       112 ~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~L~~N~-l~~~~~~  189 (597)
T 3oja_B          112 RYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIED-DTFQATTSLQNLQLSSNR-LTHVDLS  189 (597)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCT-TTTTTCTTCCEEECTTSC-CSBCCGG
T ss_pred             CCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCCh-hhhhcCCcCcEEECcCCC-CCCcChh
Confidence            345443 467888888888888763 3433 5778888888888887743222 235678888888888763 2222233


Q ss_pred             CCCCCcEEEEcccCC------------------Cchh-hhcCCcccEEEEeccccCCceeeccCCCccccchh-------
Q 042962          200 NLGKLKEFKVYDEYG------------------LEQV-YIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------  253 (377)
Q Consensus       200 ~l~~L~~L~i~~~~~------------------~~~~-~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------  253 (377)
                      .+++|+.|.+.++..                  +..+ ....++|+.|.++++...-+..+..+++|+.|+++       
T Consensus       190 ~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~  269 (597)
T 3oja_B          190 LIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKI  269 (597)
T ss_dssp             GCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEE
T ss_pred             hhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCC
Confidence            334444444443320                  0000 01124566666655432222335666677777666       


Q ss_pred             --hhccCCCCCceEeccCCccceEEcc--CcccccccccccCC
Q 042962          254 --QEIVDCMKLRSIKISSFCLKSFLFI--GYDTLDELKLCTPN  292 (377)
Q Consensus       254 --~~l~~~~~L~~L~i~~~~L~~l~l~--~c~~L~~l~l~~~~  292 (377)
                        ..++++++|+.|++++|.+..+...  .+++|+.+.++.+.
T Consensus       270 ~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N~  312 (597)
T 3oja_B          270 MYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNH  312 (597)
T ss_dssp             ESGGGTTCSSCCEEECTTSCCCEEECSSSCCTTCCEEECCSSC
T ss_pred             CHHHhcCccCCCEEECCCCCCCCCCcccccCCCCcEEECCCCC
Confidence              3456667777777777766655422  24455555554443

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

Probab=99.16  E-value=7.8e-11  Score=118.56  Aligned_cols=205  Identities=17%  Similarity=0.150  Sum_probs=118.8

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecccccc---------------------CCCCCCCCCCCCee
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLE---------------------SPRGNVTLSCLREL  160 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~---------------------~p~~~~~l~~L~~L  160 (377)
                      .+++.+++...        ....+|..+..+ +|++|++++|.+.                     .......+++|++|
T Consensus       282 ~~L~~L~l~~~--------~l~~l~~~~~~~-~L~~L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L  352 (570)
T 2z63_A          282 TNVSSFSLVSV--------TIERVKDFSYNF-GWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFL  352 (570)
T ss_dssp             TTCSEEEEESC--------EECSCCBCCSCC-CCSEEEEESCBCSSCCBCBCSSCCEEEEESCBSCCBCCCCBCTTCCEE
T ss_pred             CcccEEEecCc--------cchhhhhhhccC-CccEEeeccCcccccCcccccccCEEeCcCCccccccccccCCCCCEE
Confidence            56777777532        223455555544 5555555555442                     11112456677777


Q ss_pred             eccceeeChHH-HHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEcccC--CCc--hhhhcCCcccEEEEecc
Q 042962          161 RPRHVCADDQV-IKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLE--QVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       161 ~L~~~~~~~~~-l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~--~~~~~~p~L~~L~l~g~  233 (377)
                      +++++.+.+.. ....+.++++|+.|++++|.  ++... +..+++|+.|.+.+|.  ...  .....+++|++|+++++
T Consensus       353 ~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n  431 (570)
T 2z63_A          353 DLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN-FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT  431 (570)
T ss_dssp             ECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEE-EETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTS
T ss_pred             eCcCCccCccccccccccccCccCEEECCCCcccccccc-ccccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCC
Confidence            77776653211 01224567777777777763  12111 4446778888777776  111  22345677888887665


Q ss_pred             c--cCCceeeccCCCccccchh----------hhccCCCCCceEeccCCccceE---EccCcccccccccccCCcceEEE
Q 042962          234 H--MLPHISVVPCKNLKKLKLC----------QEIVDCMKLRSIKISSFCLKSF---LFIGYDTLDELKLCTPNLSIFKY  298 (377)
Q Consensus       234 ~--~~~~~~~~~~~~L~~L~L~----------~~l~~~~~L~~L~i~~~~L~~l---~l~~c~~L~~l~l~~~~L~~~~~  298 (377)
                      .  ...+..+.++++|++|+++          ..+.++++|+.|++++|.++.+   .+.++++|+.+.+..+++..   
T Consensus       432 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~---  508 (570)
T 2z63_A          432 HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKS---  508 (570)
T ss_dssp             CCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSC---
T ss_pred             cccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCCcCCC---
Confidence            3  2233345677778777776          1246677888888888877766   24556677777776665432   


Q ss_pred             cccccccCcc-ccccceEEEEecCC
Q 042962          299 HGDLISFSST-ALALSEIALVFNPD  322 (377)
Q Consensus       299 ~~~~~p~~l~-~~~L~~l~l~~n~~  322 (377)
                         ..|..+. .++|+.++++.|+-
T Consensus       509 ---~~~~~~~~l~~L~~L~l~~N~~  530 (570)
T 2z63_A          509 ---VPDGIFDRLTSLQKIWLHTNPW  530 (570)
T ss_dssp             ---CCTTTTTTCTTCCEEECCSSCB
T ss_pred             ---CCHHHhhcccCCcEEEecCCcc
Confidence               1222232 36889999987754

>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=99.15  E-value=7.3e-11  Score=107.97  Aligned_cols=192  Identities=16%  Similarity=0.083  Sum_probs=119.6

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|++|+|++|.+. .++ .+.++++|++|+++++.+.+-. ...+.++++|+.|+++++.  ++..-
T Consensus        18 ~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~~~l~~L~~L~L~~n~l~~~~~~   94 (276)
T 2z62_A           18 NFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIE-DGAYQSLSHLSTLILTGNPIQSLALG   94 (276)
T ss_dssp             CCSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEEC-TTTTTTCTTCCEEECTTCCCCEECTT
T ss_pred             CccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccC-HHHccCCcCCCEEECCCCccCccChh
Confidence            3455666542  56888888888763 232 6777888888888888764211 1235678888888888774  11112


Q ss_pred             ccCCCCCCcEEEEcccC--CCch-hhhcCCcccEEEEeccc-cC--CceeeccCCCccccchh---------hhccCCCC
Q 042962          197 ELPNLGKLKEFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-ML--PHISVVPCKNLKKLKLC---------QEIVDCMK  261 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~--~~~~~~~~~~L~~L~L~---------~~l~~~~~  261 (377)
                      .+.++++|+.|.+.++.  .... ....+++|++|+++++. ..  ++..+.++++|+.|+++         ..+..+++
T Consensus        95 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~  174 (276)
T 2z62_A           95 AFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQ  174 (276)
T ss_dssp             TTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHT
T ss_pred             hhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhh
Confidence            24456788888888776  2222 12356788888887664 22  34456777777777776         12333444


Q ss_pred             Cc----eEeccCCccceEEccCc--ccccccccccCCcceEEEccccccc-Ccc-ccccceEEEEecCC
Q 042962          262 LR----SIKISSFCLKSFLFIGY--DTLDELKLCTPNLSIFKYHGDLISF-SST-ALALSEIALVFNPD  322 (377)
Q Consensus       262 L~----~L~i~~~~L~~l~l~~c--~~L~~l~l~~~~L~~~~~~~~~~p~-~l~-~~~L~~l~l~~n~~  322 (377)
                      ++    .|+++.|.++.+.....  .+|+.+.++.+++..       +|. .+. .++|+.++++.|+-
T Consensus       175 L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~-------~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          175 MPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-------VPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             CTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCSC-------CCTTTTTTCCSCCEEECCSSCB
T ss_pred             ccccceeeecCCCcccccCccccCCCcccEEECCCCceee-------cCHhHhcccccccEEEccCCcc
Confidence            44    78888888877653322  257777777666532       232 222 36899999998765

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

Probab=99.14  E-value=1.5e-10  Score=105.73  Aligned_cols=178  Identities=17%  Similarity=0.097  Sum_probs=109.4

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|++|+|++|.+. .++ .+.++++|++|+|+++.+.. ....++.++++|++|+++++.  .+..-
T Consensus        27 ~l~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-i~~~~~~~l~~L~~L~l~~n~l~~~~~~  103 (270)
T 2o6q_A           27 KLTAIPSNIP--ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQT-LPAGIFKELKNLETLWVTDNKLQALPIG  103 (270)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSC-CCTTTTSSCTTCCEEECCSSCCCCCCTT
T ss_pred             CCCccCCCCC--CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCe-eChhhhcCCCCCCEEECCCCcCCcCCHh
Confidence            3445676543  67899999988763 332 57788999999999887742 122345678889999888773  22111


Q ss_pred             ccCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          197 ELPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      .+..+++|+.|.+.++.  .+. .....+++|++|+++++. ..++.              ..+.++++|+.|++++|.+
T Consensus       104 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~--------------~~~~~l~~L~~L~L~~n~l  169 (270)
T 2o6q_A          104 VFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPK--------------GVFDKLTSLKELRLYNNQL  169 (270)
T ss_dssp             TTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT--------------TTTTTCTTCCEEECCSSCC
T ss_pred             HcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCH--------------hHccCCcccceeEecCCcC
Confidence            23446788888888876  222 222356788888886653 11111              1245566777777777777


Q ss_pred             ceEE---ccCcccccccccccCCcceEEEccccccc-Ccc-ccccceEEEEecCC
Q 042962          273 KSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISF-SST-ALALSEIALVFNPD  322 (377)
Q Consensus       273 ~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~-~l~-~~~L~~l~l~~n~~  322 (377)
                      +.+.   +.++.+|+.+.+..+++..       +|. .+. .++|+.++++.|+-
T Consensus       170 ~~~~~~~~~~l~~L~~L~L~~N~l~~-------~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          170 KRVPEGAFDKLTELKTLKLDNNQLKR-------VPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             SCCCTTTTTTCTTCCEEECCSSCCSC-------CCTTTTTTCTTCCEEECCSSCB
T ss_pred             cEeChhHhccCCCcCEEECCCCcCCc-------CCHHHhccccCCCEEEecCCCe
Confidence            6654   3445566666666655432       221 122 25788888887753

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

Probab=99.14  E-value=1.2e-10  Score=106.62  Aligned_cols=169  Identities=18%  Similarity=0.129  Sum_probs=108.6

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEF  207 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L  207 (377)
                      ..+++|+.|.+++|.+...+.+..+++|++|+++++.+.+  +. .+..+++|++|++++|.  ++..-.+..+++|+.|
T Consensus        38 ~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~--~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  114 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHD--IS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL  114 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCC--CG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             ccccceeeeeeCCCCcccccccccCCCCcEEECCCCCCCC--ch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEE
Confidence            4678899999999988666678899999999999998854  22 47889999999999884  2222224557899999


Q ss_pred             EEcccC--CCc-hhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE---ccCc
Q 042962          208 KVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL---FIGY  280 (377)
Q Consensus       208 ~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~---l~~c  280 (377)
                      .+.+|.  ... .....+++|++|+++++. ...+.              ..++++++|+.|++++|.++.+.   +.++
T Consensus       115 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~--------------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l  180 (272)
T 3rfs_A          115 VLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPK--------------GVFDKLTNLTELDLSYNQLQSLPEGVFDKL  180 (272)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT--------------TTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             ECCCCcCCccCHHHhccCCCCCEEECCCCccCccCH--------------HHhccCccCCEEECCCCCcCccCHHHhcCC
Confidence            999987  222 223457889999997763 11111              12344555666666666655543   2344


Q ss_pred             ccccccccccCCcceEEEcccccccCcc-ccccceEEEEecC
Q 042962          281 DTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNP  321 (377)
Q Consensus       281 ~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~  321 (377)
                      .+|+.+.+..+++..      ..|..+. .++|+.++++.|+
T Consensus       181 ~~L~~L~L~~N~l~~------~~~~~~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          181 TQLKDLRLYQNQLKS------VPDGVFDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             TTCCEEECCSSCCSC------CCTTTTTTCTTCCEEECCSSC
T ss_pred             ccCCEEECCCCcCCc------cCHHHHhCCcCCCEEEccCCC
Confidence            555555555544321      1122122 2466666666554

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

Probab=99.13  E-value=2.4e-10  Score=107.43  Aligned_cols=106  Identities=15%  Similarity=0.092  Sum_probs=48.4

Q ss_pred             CCCccccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCC
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNL  201 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l  201 (377)
                      .+|..+.  ++|+.|+|++|.+. . |..+.++++|++|++.++.+.+-.. ..+.++++|++|+++++. +..+.....
T Consensus        47 ~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~-l~~l~~~~~  122 (332)
T 2ft3_A           47 AVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHE-KAFSPLRKLQKLYISKNH-LVEIPPNLP  122 (332)
T ss_dssp             SCCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECG-GGSTTCTTCCEEECCSSC-CCSCCSSCC
T ss_pred             ccCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCH-hHhhCcCCCCEEECCCCc-CCccCcccc
Confidence            4444432  45666666665542 2 2245556666666666665532111 124555666666665542 112221112


Q ss_pred             CCCcEEEEcccC--CCc-hhhhcCCcccEEEEecc
Q 042962          202 GKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       202 ~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~  233 (377)
                      ++|++|.+.++.  .+. .....+++|+.|+++++
T Consensus       123 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n  157 (332)
T 2ft3_A          123 SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGN  157 (332)
T ss_dssp             TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSC
T ss_pred             ccCCEEECCCCccCccCHhHhCCCccCCEEECCCC
Confidence            455555555554  111 11223455555555443

>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=99.12  E-value=1.4e-11  Score=117.05  Aligned_cols=151  Identities=10%  Similarity=0.057  Sum_probs=111.4

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|++|+|++|.+. .++ .+.++++|++|+++++.+.+-. ...++++++|++|+++++.  ++..-
T Consensus        42 ~l~~iP~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~Ls~n~l~~~~~~  118 (353)
T 2z80_A           42 SLNSIPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIE-EDSFSSLGSLEHLDLSYNYLSNLSSS  118 (353)
T ss_dssp             TCSSCCTTCC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEEC-TTTTTTCTTCCEEECCSSCCSSCCHH
T ss_pred             Cccccccccc--ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccC-HhhcCCCCCCCEEECCCCcCCcCCHh
Confidence            4567787654  58999999999873 333 6889999999999999885321 2236789999999999873  22222


Q ss_pred             ccCCCCCCcEEEEcccC--CCch--hhhcCCcccEEEEeccc--cCC-ceeeccCCCccccchh---------hhccCCC
Q 042962          197 ELPNLGKLKEFKVYDEY--GLEQ--VYIQGMNAHSVHIIGLH--MLP-HISVVPCKNLKKLKLC---------QEIVDCM  260 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~~--~~~~~p~L~~L~l~g~~--~~~-~~~~~~~~~L~~L~L~---------~~l~~~~  260 (377)
                      .+..+++|+.|++.++.  .++.  ....+++|++|+++++.  ... +..+.++++|+.|+++         ..+.+++
T Consensus       119 ~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~  198 (353)
T 2z80_A          119 WFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQ  198 (353)
T ss_dssp             HHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCS
T ss_pred             HhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccc
Confidence            25567999999999987  3332  33468999999998763  222 2346788899999887         3467889


Q ss_pred             CCceEeccCCccce
Q 042962          261 KLRSIKISSFCLKS  274 (377)
Q Consensus       261 ~L~~L~i~~~~L~~  274 (377)
                      +|+.|+++.|.+..
T Consensus       199 ~L~~L~l~~n~l~~  212 (353)
T 2z80_A          199 NVSHLILHMKQHIL  212 (353)
T ss_dssp             EEEEEEEECSCSTT
T ss_pred             cCCeecCCCCcccc
Confidence            99999998876543

>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=99.12  E-value=1e-10  Score=118.76  Aligned_cols=140  Identities=9%  Similarity=0.042  Sum_probs=83.7

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      +..+++|+.|+++++.+...+.+..+++|++|++.+|.+.  .+.. + .++.|+.|++++|.......+..+++|+.|+
T Consensus       281 ~~~l~~L~~L~l~~~~~~~l~~l~~~~~L~~L~l~~n~l~--~lp~-~-~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~  356 (606)
T 3vq2_A          281 FHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLK--QFPT-L-DLPFLKSLTLTMNKGSISFKKVALPSLSYLD  356 (606)
T ss_dssp             CGGGTTCSEEEEESCCCCCCCCCCTTCCCSEEEEESCCCS--SCCC-C-CCSSCCEEEEESCSSCEECCCCCCTTCCEEE
T ss_pred             cccCCCCCEEEecCccchhhhhccccccCCEEEcccccCc--cccc-C-CCCccceeeccCCcCccchhhccCCCCCEEE
Confidence            4567778888888777643346677778888888888761  1223 2 6777888887777555555555567777777


Q ss_pred             EcccC--CC---chhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh----------hhccCCCCCceEeccCCcc
Q 042962          209 VYDEY--GL---EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC----------QEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       209 i~~~~--~~---~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~----------~~l~~~~~L~~L~i~~~~L  272 (377)
                      +.+|.  ..   ......+++|++|+++++. ...+..+..+++|+.|+++          ..+.++++|+.|++++|.+
T Consensus       357 ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l  436 (606)
T 3vq2_A          357 LSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNT  436 (606)
T ss_dssp             CCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCC
T ss_pred             CcCCccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCC
Confidence            77765  11   2333456667777765543 2222334555555555554          1234455555555555443

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

Probab=99.11  E-value=1e-10  Score=119.91  Aligned_cols=147  Identities=12%  Similarity=0.030  Sum_probs=101.9

Q ss_pred             CCcccc--ccCcccEEEeccccc--cCCCCCCCCCCCCeeecccee-eCh-HHHHHHh-----cCCcccccccccccccc
Q 042962          125 LPQLVF--YAKSMSLLGLDSCKL--ESPRGNVTLSCLRELRPRHVC-ADD-QVIKDLI-----SGCPLIEFISIISCRGL  193 (377)
Q Consensus       125 lp~~l~--~~~~L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~~~-~~~-~~l~~l~-----~~cp~Le~L~L~~c~~l  193 (377)
                      +|..++  .+++|++|+|++|.+  ..|..+.++++|++|++++|. +++ ..+..+.     ..+++|+.|++++|.-.
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~  318 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK  318 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC
Confidence            899998  999999999999986  456788999999999999998 877 4444421     24599999999988422


Q ss_pred             eee----ccCCCCCCcEEEEcccC---CCchhhhcCCcccEEEEeccc-cCCceeeccCCC-ccccchh--------hhc
Q 042962          194 KHL----ELPNLGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKN-LKKLKLC--------QEI  256 (377)
Q Consensus       194 ~~l----~i~~l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~-L~~L~L~--------~~l  256 (377)
                       .+    .+..+++|+.|.+.+|.   .++ .....++|++|+++++. ..++..+..+++ |+.|+++        ..+
T Consensus       319 -~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~  396 (636)
T 4eco_A          319 -TFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIF  396 (636)
T ss_dssp             -SCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCC
T ss_pred             -ccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchhh
Confidence             22    35567899999998887   222 22345778888886663 334444666666 7777766        112


Q ss_pred             cC--CCCCceEeccCCccc
Q 042962          257 VD--CMKLRSIKISSFCLK  273 (377)
Q Consensus       257 ~~--~~~L~~L~i~~~~L~  273 (377)
                      ..  +++|+.|+++.|.+.
T Consensus       397 ~~~~l~~L~~L~Ls~N~l~  415 (636)
T 4eco_A          397 DAKSVSVMSAIDFSYNEIG  415 (636)
T ss_dssp             CTTCSSCEEEEECCSSCTT
T ss_pred             hhcccCccCEEECcCCcCC
Confidence            22  225666666665543

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.10  E-value=6.2e-11  Score=117.71  Aligned_cols=188  Identities=13%  Similarity=0.091  Sum_probs=136.4

Q ss_pred             cCCCccccc----cCcccEEEeccccccC-C-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee
Q 042962          123 YNLPQLVFY----AKSMSLLGLDSCKLES-P-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL  196 (377)
Q Consensus       123 ~~lp~~l~~----~~~L~~L~L~~~~~~~-p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l  196 (377)
                      ..+|..+..    +++|+.|+|++|.+.. + ..+..+++|++|+|++|.+.+...   ++++++|+.|+|++|. +..+
T Consensus        20 ~~l~~~l~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~---l~~l~~L~~L~Ls~N~-l~~l   95 (487)
T 3oja_A           20 SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD---LESLSTLRTLDLNNNY-VQEL   95 (487)
T ss_dssp             TTHHHHHHTTSTTGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE---CTTCTTCCEEECCSSE-EEEE
T ss_pred             hhhHHHHHHhcccCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc---cccCCCCCEEEecCCc-CCCC
Confidence            344554443    4589999999998743 3 368899999999999998843211   7889999999999884 4444


Q ss_pred             ccCCCCCCcEEEEcccCCCchhhhcCCcccEEEEeccc--cCCceeeccCCCccccchh---------hhc-cCCCCCce
Q 042962          197 ELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC---------QEI-VDCMKLRS  264 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~~~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~---------~~l-~~~~~L~~  264 (377)
                      ..  .++|+.|.+.+|..........++|+.|.++++.  +..+..++++++|+.|+++         ..+ .++++|+.
T Consensus        96 ~~--~~~L~~L~L~~N~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~  173 (487)
T 3oja_A           96 LV--GPSIETLHAANNNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEH  173 (487)
T ss_dssp             EE--CTTCCEEECCSSCCCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCE
T ss_pred             CC--CCCcCEEECcCCcCCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccE
Confidence            43  3899999999997211122346899999998775  3334557889999999998         233 37899999


Q ss_pred             EeccCCccceEE-ccCcccccccccccCCcceEEEcccccccCccccccceEEEEecCC
Q 042962          265 IKISSFCLKSFL-FIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPD  322 (377)
Q Consensus       265 L~i~~~~L~~l~-l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~~  322 (377)
                      |++++|.+..+. ...+++|+.++++.+++..+      .|.....++|+.|+++.|.-
T Consensus       174 L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N~l~~~------~~~~~~l~~L~~L~Ls~N~l  226 (487)
T 3oja_A          174 LNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFM------GPEFQSAAGVTWISLRNNKL  226 (487)
T ss_dssp             EECTTSCCCEEECCCCCTTCCEEECCSSCCCEE------CGGGGGGTTCSEEECTTSCC
T ss_pred             EecCCCccccccccccCCCCCEEECCCCCCCCC------CHhHcCCCCccEEEecCCcC
Confidence            999999998864 34567888888888876532      12222336899999987743

>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=99.10  E-value=1.7e-10  Score=117.26  Aligned_cols=170  Identities=15%  Similarity=0.092  Sum_probs=100.4

Q ss_pred             CCCccccccCcccEEEeccccccC--CCC-------------------------CCCCCCCCeeeccceeeChHH-HHHH
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLES--PRG-------------------------NVTLSCLRELRPRHVCADDQV-IKDL  175 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~~--p~~-------------------------~~~l~~L~~L~L~~~~~~~~~-l~~l  175 (377)
                      .+|..+..+++|++|++++|.+..  |..                         +.++++|++|+++++.+.+.. ....
T Consensus       292 ~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~  371 (606)
T 3t6q_A          292 ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQ  371 (606)
T ss_dssp             CCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTT
T ss_pred             CCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccccCcchh
Confidence            556666666666666666665421  113                         344555555555555442211 0112


Q ss_pred             hcCCccccccccccccc--ceeeccCCCCCCcEEEEcccC--C--CchhhhcCCcccEEEEeccc--cCCceeeccCCCc
Q 042962          176 ISGCPLIEFISIISCRG--LKHLELPNLGKLKEFKVYDEY--G--LEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNL  247 (377)
Q Consensus       176 ~~~cp~Le~L~L~~c~~--l~~l~i~~l~~L~~L~i~~~~--~--~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L  247 (377)
                      +.++++|+.|++++|.-  ...-.+..+++|+.|++.+|.  .  .......+++|+.|+++++.  ...+..+..+++|
T Consensus       372 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  451 (606)
T 3t6q_A          372 LRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPAL  451 (606)
T ss_dssp             TTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTC
T ss_pred             cccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCC
Confidence            45566666666666531  111233446889999998887  1  12223456888888887764  2233346677888


Q ss_pred             cccchh------------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCCc
Q 042962          248 KKLKLC------------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNL  293 (377)
Q Consensus       248 ~~L~L~------------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L  293 (377)
                      ++|+++            ..+.++++|+.|++++|.+..+.   +.++++|+.++++.+++
T Consensus       452 ~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l  512 (606)
T 3t6q_A          452 QHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRL  512 (606)
T ss_dssp             CEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCcc
Confidence            888876            12567788888888888877664   45566777776665553

>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=99.09  E-value=1.1e-10  Score=106.67  Aligned_cols=183  Identities=18%  Similarity=0.240  Sum_probs=122.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCc-cccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQ-LVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~-~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      .+++.|++..        .....+|. .+..+++|++|+|++|.+. .+ ..+.++++|++|+|++|.+.+... ..+.+
T Consensus        28 ~~l~~L~ls~--------n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~~~   98 (276)
T 2z62_A           28 FSTKNLDLSF--------NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLAL-GAFSG   98 (276)
T ss_dssp             TTCCEEECTT--------CCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECT-TTTTT
T ss_pred             CCccEEECCC--------CcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccCh-hhhcC
Confidence            4677777642        12334444 5667899999999999873 33 367889999999999998743222 23678


Q ss_pred             Ccccccccccccc--cceeeccCCCCCCcEEEEcccC--C--CchhhhcCCcccEEEEeccc-cC-CceeeccCCCcc--
Q 042962          179 CPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--G--LEQVYIQGMNAHSVHIIGLH-ML-PHISVVPCKNLK--  248 (377)
Q Consensus       179 cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~--~~~~~~~~p~L~~L~l~g~~-~~-~~~~~~~~~~L~--  248 (377)
                      +++|++|.++++.  ++....+..+++|+.|.+.++.  .  ++.....+++|++|+++++. .. .+..+..+.+|+  
T Consensus        99 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l  178 (276)
T 2z62_A           99 LSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLL  178 (276)
T ss_dssp             CTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTC
T ss_pred             CccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhcccc
Confidence            9999999999873  3333346667999999999987  2  23444567999999998764 21 122345555555  


Q ss_pred             --ccchh--------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCCc
Q 042962          249 --KLKLC--------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNL  293 (377)
Q Consensus       249 --~L~L~--------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L  293 (377)
                        .|+++        .......+|+.|++++|.++.+.   +..+.+|+.+.+..+.+
T Consensus       179 ~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          179 NLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             CEEEECCSSCCCEECTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCB
T ss_pred             ceeeecCCCcccccCccccCCCcccEEECCCCceeecCHhHhcccccccEEEccCCcc
Confidence              44444        11233347889999988888764   24455666666665543

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

Probab=99.08  E-value=9.1e-11  Score=109.52  Aligned_cols=185  Identities=17%  Similarity=0.082  Sum_probs=104.5

Q ss_pred             ccCcccEEEecccccc--CCCCC--CCCCCCCeeeccceeeChH--HHHHHhc-CCcccccccccccc--cceeeccCCC
Q 042962          131 YAKSMSLLGLDSCKLE--SPRGN--VTLSCLRELRPRHVCADDQ--VIKDLIS-GCPLIEFISIISCR--GLKHLELPNL  201 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~--~p~~~--~~l~~L~~L~L~~~~~~~~--~l~~l~~-~cp~Le~L~L~~c~--~l~~l~i~~l  201 (377)
                      .+++|++|+|++|.+.  .|..+  ..+++|++|+|++|.+++.  .+..+.. ..++|++|+++++.  ++..-.+..+
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l  172 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVF  172 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccC
Confidence            5677888888877763  34443  6777788888887777432  2222111 13777777777763  2222234456


Q ss_pred             CCCcEEEEcccCCCch------h-hhcCCcccEEEEeccccC----Ccee-eccCCCccccchh----------hhccCC
Q 042962          202 GKLKEFKVYDEYGLEQ------V-YIQGMNAHSVHIIGLHML----PHIS-VVPCKNLKKLKLC----------QEIVDC  259 (377)
Q Consensus       202 ~~L~~L~i~~~~~~~~------~-~~~~p~L~~L~l~g~~~~----~~~~-~~~~~~L~~L~L~----------~~l~~~  259 (377)
                      ++|+.|++++|.....      + ....++|++|+++++.-.    .+.. +.++++|++|+++          ..+..+
T Consensus       173 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l  252 (312)
T 1wwl_A          173 PALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWP  252 (312)
T ss_dssp             SSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCC
T ss_pred             CCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhc
Confidence            7777777777752111      1 134577777777665311    1111 2345666666665          112345


Q ss_pred             CCCceEeccCCccceEEccCcccccccccccCCcceEEEcccccccCccccccceEEEEecCC
Q 042962          260 MKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNPD  322 (377)
Q Consensus       260 ~~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~~  322 (377)
                      ++|+.|++++|.++.+.-.-..+|+.++++.+++...       |.....++|++++++.|+-
T Consensus       253 ~~L~~L~Ls~N~l~~ip~~~~~~L~~L~Ls~N~l~~~-------p~~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          253 SQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNRLDRN-------PSPDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             TTCCEEECTTSCCSSCCSSCCSEEEEEECCSSCCCSC-------CCTTTSCEEEEEECTTCTT
T ss_pred             CCCCEEECCCCccChhhhhccCCceEEECCCCCCCCC-------hhHhhCCCCCEEeccCCCC
Confidence            6788888888877754322225677777766665332       3322235678887776643

>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=99.08  E-value=2.1e-10  Score=106.13  Aligned_cols=140  Identities=14%  Similarity=0.060  Sum_probs=81.0

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      +..+++|+.|+|++|.+...+.+.++++|+.|++++|.+.+  +.. +..+++|+.|++++|.-...-.+..+++|+.|.
T Consensus        64 ~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~--~~~-l~~l~~L~~L~L~~n~i~~~~~l~~l~~L~~L~  140 (291)
T 1h6t_A           64 IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKD--LSS-LKDLKKLKSLSLEHNGISDINGLVHLPQLESLY  140 (291)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC--GGG-GTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEE
T ss_pred             HhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCC--Chh-hccCCCCCEEECCCCcCCCChhhcCCCCCCEEE
Confidence            55677788888887776432236777788888888777743  222 667777888877776311111233457777777


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccc
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~  273 (377)
                      +++|.  .+ .....+++|+.|+++++. ...+. +..+++|+.|+++       ..+.++++|+.|++++|.+.
T Consensus       141 l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          141 LGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECL  213 (291)
T ss_dssp             CCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEEEEE
T ss_pred             ccCCcCCcc-hhhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCCccc
Confidence            77776  22 222356777777776653 11111 4455555555554       22344455555555554443

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

Probab=99.07  E-value=1.3e-10  Score=122.67  Aligned_cols=12  Identities=33%  Similarity=0.216  Sum_probs=9.3

Q ss_pred             cccceEEEEecC
Q 042962          310 LALSEIALVFNP  321 (377)
Q Consensus       310 ~~L~~l~l~~n~  321 (377)
                      ++|+.|+|+.|.
T Consensus       697 ~~L~~L~Ls~N~  708 (876)
T 4ecn_A          697 SPISTIILSNNL  708 (876)
T ss_dssp             CCCSEEECCSCC
T ss_pred             CCCCEEECCCCc
Confidence            578888888774

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.06  E-value=1.5e-10  Score=107.91  Aligned_cols=206  Identities=16%  Similarity=0.094  Sum_probs=114.2

Q ss_pred             hhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccc--cccCcccEEEeccccccCC------CCCCCCCCCCeee
Q 042962           90 SSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV--FYAKSMSLLGLDSCKLESP------RGNVTLSCLRELR  161 (377)
Q Consensus        90 ~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l--~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~  161 (377)
                      ..+..........++++|++.-..       -....|..+  ..+++|++|+|++|.+...      ..+..+++|++|+
T Consensus        79 ~~~~~~~~~~~~~~L~~L~l~~n~-------l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~  151 (310)
T 4glp_A           79 QLLVGALRVLAYSRLKELTLEDLK-------ITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLS  151 (310)
T ss_dssp             HHHHHHHHHHHHSCCCEEEEESCC-------CBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEE
T ss_pred             HHHHHHHHhcccCceeEEEeeCCE-------eccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEE
Confidence            344455555555667777775221       112344444  5677788888887776421      1223577778888


Q ss_pred             ccceeeChHHHHHHhcCCcccccccccccccce------eeccCCCCCCcEEEEcccC--CCch----hhhcCCcccEEE
Q 042962          162 PRHVCADDQVIKDLISGCPLIEFISIISCRGLK------HLELPNLGKLKEFKVYDEY--GLEQ----VYIQGMNAHSVH  229 (377)
Q Consensus       162 L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~------~l~i~~l~~L~~L~i~~~~--~~~~----~~~~~p~L~~L~  229 (377)
                      |++|.+.+.. ...++++++|++|+++++.-..      ...+..+++|++|.+++|.  .++.    +....++|++|+
T Consensus       152 Ls~n~l~~~~-~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~  230 (310)
T 4glp_A          152 IAQAHSPAFS-CEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLD  230 (310)
T ss_dssp             EECCSSCCCC-TTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEE
T ss_pred             eeCCCcchhh-HHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEE
Confidence            8777663221 1235567777777777764211      1122345777777777776  1122    122457777777


Q ss_pred             Eeccc-cC-CceeeccCCCccccchhhhccCCCCCceEeccCCccceEEccCcccccccccccCCcceEEEcccccccCc
Q 042962          230 IIGLH-ML-PHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCTPNLSIFKYHGDLISFSS  307 (377)
Q Consensus       230 l~g~~-~~-~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l  307 (377)
                      ++++. .. .|..+..+            ..+++|+.|++++|.++.+.-.-+++|+.++++.+++..+       |...
T Consensus       231 Ls~N~l~~~~p~~~~~~------------~~~~~L~~L~Ls~N~l~~lp~~~~~~L~~L~Ls~N~l~~~-------~~~~  291 (310)
T 4glp_A          231 LSHNSLRATVNPSAPRC------------MWSSALNSLNLSFAGLEQVPKGLPAKLRVLDLSSNRLNRA-------PQPD  291 (310)
T ss_dssp             CTTSCCCCCCCSCCSSC------------CCCTTCCCEECCSSCCCSCCSCCCSCCSCEECCSCCCCSC-------CCTT
T ss_pred             CCCCCCCccchhhHHhc------------cCcCcCCEEECCCCCCCchhhhhcCCCCEEECCCCcCCCC-------chhh
Confidence            76653 11 12222222            1225777777877777755433345677777777665432       2111


Q ss_pred             cccccceEEEEecCC
Q 042962          308 TALALSEIALVFNPD  322 (377)
Q Consensus       308 ~~~~L~~l~l~~n~~  322 (377)
                      ..++|++|+++.|+-
T Consensus       292 ~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          292 ELPEVDNLTLDGNPF  306 (310)
T ss_dssp             SCCCCSCEECSSTTT
T ss_pred             hCCCccEEECcCCCC
Confidence            225788888877653

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

Probab=99.05  E-value=2.2e-10  Score=107.18  Aligned_cols=179  Identities=12%  Similarity=0.109  Sum_probs=130.3

Q ss_pred             ccCcccEEEeccccccC-C-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          131 YAKSMSLLGLDSCKLES-P-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~-p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      .+++|++|+|++|.+.. + ..+.++++|++|+|++|.+.+..  . +..+++|++|++++|. +..+..  .++|+.|.
T Consensus        32 ~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~--~-~~~l~~L~~L~Ls~n~-l~~l~~--~~~L~~L~  105 (317)
T 3o53_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETL--D-LESLSTLRTLDLNNNY-VQELLV--GPSIETLH  105 (317)
T ss_dssp             TGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEE--E-ETTCTTCCEEECCSSE-EEEEEE--CTTCCEEE
T ss_pred             cCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcch--h-hhhcCCCCEEECcCCc-cccccC--CCCcCEEE
Confidence            56789999999998743 2 25789999999999999884321  1 7789999999999884 443332  38999999


Q ss_pred             EcccCCCchhhhcCCcccEEEEeccc-c-CCceeeccCCCccccchh---------hhc-cCCCCCceEeccCCccceEE
Q 042962          209 VYDEYGLEQVYIQGMNAHSVHIIGLH-M-LPHISVVPCKNLKKLKLC---------QEI-VDCMKLRSIKISSFCLKSFL  276 (377)
Q Consensus       209 i~~~~~~~~~~~~~p~L~~L~l~g~~-~-~~~~~~~~~~~L~~L~L~---------~~l-~~~~~L~~L~i~~~~L~~l~  276 (377)
                      +.+|..........++|++|.++++. . ..+..+..+++|++|+++         ..+ .++++|+.|++++|.++.+.
T Consensus       106 l~~n~l~~~~~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~  185 (317)
T 3o53_A          106 AANNNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVK  185 (317)
T ss_dssp             CCSSCCSEEEECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEE
T ss_pred             CCCCccCCcCccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCcccc
Confidence            99987222222346889999998775 2 223356778999999988         223 47899999999999998874


Q ss_pred             -ccCcccccccccccCCcceEEEcccccccCccccccceEEEEecC
Q 042962          277 -FIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFNP  321 (377)
Q Consensus       277 -l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n~  321 (377)
                       ...+.+|+.+.++.+++..+.      +.....++|+.++++.|.
T Consensus       186 ~~~~l~~L~~L~Ls~N~l~~l~------~~~~~l~~L~~L~L~~N~  225 (317)
T 3o53_A          186 GQVVFAKLKTLDLSSNKLAFMG------PEFQSAAGVTWISLRNNK  225 (317)
T ss_dssp             CCCCCTTCCEEECCSSCCCEEC------GGGGGGTTCSEEECTTSC
T ss_pred             cccccccCCEEECCCCcCCcch------hhhcccCcccEEECcCCc
Confidence             234668888888887765431      111223689999998774

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

Probab=99.04  E-value=1.8e-10  Score=108.30  Aligned_cols=72  Identities=15%  Similarity=0.124  Sum_probs=41.2

Q ss_pred             CcccEEEEeccc-cC-CceeeccCCCccccchh---------hhccCCCCCceEeccCCccceEE--ccCcccccccccc
Q 042962          223 MNAHSVHIIGLH-ML-PHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSFL--FIGYDTLDELKLC  289 (377)
Q Consensus       223 p~L~~L~l~g~~-~~-~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l~--l~~c~~L~~l~l~  289 (377)
                      ++|++|+++++. .. .+..+..+++|++|+++         ..+.++++|+.|++++|.++.+.  +..+++|+.+.+.
T Consensus       193 ~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~  272 (332)
T 2ft3_A          193 ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLH  272 (332)
T ss_dssp             SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCEEECC
T ss_pred             CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecChhhhcCccCCEEECC
Confidence            456666665543 11 12235566667777665         23566677777777777666542  4445566666666


Q ss_pred             cCCcc
Q 042962          290 TPNLS  294 (377)
Q Consensus       290 ~~~L~  294 (377)
                      .+++.
T Consensus       273 ~N~l~  277 (332)
T 2ft3_A          273 TNNIT  277 (332)
T ss_dssp             SSCCC
T ss_pred             CCCCC
Confidence            55543

>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=99.03  E-value=3.4e-10  Score=115.21  Aligned_cols=165  Identities=12%  Similarity=0.025  Sum_probs=117.1

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .+++.|.+.-        .....+| .+..+++|+.|+|++|.+...+.+..+++|+.|+|++|.+.+  +. -+..+++
T Consensus        43 ~~L~~L~l~~--------n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~--l~-~l~~l~~  110 (605)
T 1m9s_A           43 NSIDQIIANN--------SDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKD--LS-SLKDLKK  110 (605)
T ss_dssp             TTCCCCBCTT--------CCCCCCT-TGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCC--CT-TSTTCTT
T ss_pred             CCCCEEECcC--------CCCCCCh-HHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCCCC--Ch-hhccCCC
Confidence            5566666541        1233444 467899999999999987443347889999999999998843  22 3678999


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-----
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-----  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-----  253 (377)
                      |+.|+|++|.-...-.+..+++|+.|.+++|.  .+ .....+++|+.|+++++. ...+. +..+++|+.|+|+     
T Consensus       111 L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~  188 (605)
T 1m9s_A          111 LKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHIS  188 (605)
T ss_dssp             CCEEECTTSCCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC
T ss_pred             CCEEEecCCCCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCCCC
Confidence            99999998842211234457899999999987  33 233467899999998775 22222 7788889988887     


Q ss_pred             --hhccCCCCCceEeccCCccceEEccCc
Q 042962          254 --QEIVDCMKLRSIKISSFCLKSFLFIGY  280 (377)
Q Consensus       254 --~~l~~~~~L~~L~i~~~~L~~l~l~~c  280 (377)
                        ..+.++++|+.|++++|.+....+..+
T Consensus       189 ~l~~l~~l~~L~~L~L~~N~l~~~p~~~~  217 (605)
T 1m9s_A          189 DLRALAGLKNLDVLELFSQECLNKPINHQ  217 (605)
T ss_dssp             BCGGGTTCTTCSEEECCSEEEECCCCCCC
T ss_pred             CChHHccCCCCCEEEccCCcCcCCccccc
Confidence              356778889999998887766544333

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

Probab=99.02  E-value=2.3e-09  Score=113.47  Aligned_cols=62  Identities=18%  Similarity=0.041  Sum_probs=26.4

Q ss_pred             cccccCcccEEEeccccc--cC-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          128 LVFYAKSMSLLGLDSCKL--ES-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~--~~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .+..+++|++|+|++|..  .. |..+.++++|++|+|++|.+.+... ..+.++++|++|+|++|
T Consensus        43 ~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p-~~~~~l~~L~~L~Ls~n  107 (844)
T 3j0a_A           43 SFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHP-DAFQGLFHLFELRLYFC  107 (844)
T ss_dssp             SCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECT-TSSCSCSSCCCEECTTC
T ss_pred             HCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCH-hHccCCcccCEeeCcCC
Confidence            334445555555554422  11 2234445555555555544422111 12344455555555444

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

Probab=99.02  E-value=8.1e-10  Score=113.25  Aligned_cols=191  Identities=10%  Similarity=0.045  Sum_probs=123.1

Q ss_pred             CcCCCccccccCc-ccEEEecccccc-CCCCCCC--CCCCCeeeccceeeChHHHHHHhc-------CCccccccccccc
Q 042962          122 YYNLPQLVFYAKS-MSLLGLDSCKLE-SPRGNVT--LSCLRELRPRHVCADDQVIKDLIS-------GCPLIEFISIISC  190 (377)
Q Consensus       122 ~~~lp~~l~~~~~-L~~L~L~~~~~~-~p~~~~~--l~~L~~L~L~~~~~~~~~l~~l~~-------~cp~Le~L~L~~c  190 (377)
                      ...+|..+..+++ |++|+|++|.+. .|..+..  +++|++|++++|.+.+..+.. +.       .+++|+.|++++|
T Consensus       365 l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~-l~~~~~~~~~~~~L~~L~Ls~N  443 (636)
T 4eco_A          365 ITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKN-FDPLDPTPFKGINVSSINLSNN  443 (636)
T ss_dssp             EEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCS-SCTTCSSCCCCCCEEEEECCSS
T ss_pred             cccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhh-hcccccccccCCCCCEEECcCC
Confidence            3478888888888 999999988873 4444444  347899999988875433322 33       5678888888877


Q ss_pred             ccceeec---cCCCCCCcEEEEcccC--CCchhhhc--------CCcccEEEEeccc-cCCceeec--cCCCccccchh-
Q 042962          191 RGLKHLE---LPNLGKLKEFKVYDEY--GLEQVYIQ--------GMNAHSVHIIGLH-MLPHISVV--PCKNLKKLKLC-  253 (377)
Q Consensus       191 ~~l~~l~---i~~l~~L~~L~i~~~~--~~~~~~~~--------~p~L~~L~l~g~~-~~~~~~~~--~~~~L~~L~L~-  253 (377)
                      . +..+.   ...+++|+.|.+.+|.  .++.....        +++|++|+++++. ..++..+.  .+++|+.|+++ 
T Consensus       444 ~-l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~  522 (636)
T 4eco_A          444 Q-ISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSY  522 (636)
T ss_dssp             C-CCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCS
T ss_pred             c-cCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccChhhhhccCCCcCEEECCC
Confidence            3 21221   1235788888888886  12111111        1278888887764 34444454  77888888887 


Q ss_pred             -------hhccCCCCCceEeccC------CccceE---EccCcccccccccccCCcceEEEcccccccCccccccceEEE
Q 042962          254 -------QEIVDCMKLRSIKISS------FCLKSF---LFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIAL  317 (377)
Q Consensus       254 -------~~l~~~~~L~~L~i~~------~~L~~l---~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l  317 (377)
                             ..+.++++|+.|++++      |.+...   .+.++++|+.+.++.+++       +.+|..+. ++|+.|++
T Consensus       523 N~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l-------~~ip~~~~-~~L~~L~L  594 (636)
T 4eco_A          523 NSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDI-------RKVNEKIT-PNISVLDI  594 (636)
T ss_dssp             SCCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCC-------CBCCSCCC-TTCCEEEC
T ss_pred             CCCCCcChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCcC-------CccCHhHh-CcCCEEEC
Confidence                   3456788888888854      443322   355667777777777665       23453333 57889988


Q ss_pred             EecCC
Q 042962          318 VFNPD  322 (377)
Q Consensus       318 ~~n~~  322 (377)
                      +.|+-
T Consensus       595 s~N~l  599 (636)
T 4eco_A          595 KDNPN  599 (636)
T ss_dssp             CSCTT
T ss_pred             cCCCC
Confidence            87754

>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=99.02  E-value=2.1e-10  Score=115.00  Aligned_cols=206  Identities=15%  Similarity=0.141  Sum_probs=133.8

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCC-CccccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNL-PQLVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~l-p~~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      ..+++|++...        ....+ |..+..+++|++|+|++|.+. . |..+.++++|++|+|++|.+.+... ..+++
T Consensus        26 ~~L~~L~Ls~n--------~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~~~   96 (549)
T 2z81_A           26 AAMKSLDLSFN--------KITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSS-SWFGP   96 (549)
T ss_dssp             TTCCEEECCSS--------CCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCH-HHHTT
T ss_pred             CCccEEECcCC--------ccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCH-HHhcc
Confidence            46777777522        22233 456778899999999998873 2 3467889999999999998854333 33688


Q ss_pred             Ccccccccccccc--cce-eeccCCCCCCcEEEEcccCCCc----hhhhcCCcccEEEEeccc--cCCceeeccCCCccc
Q 042962          179 CPLIEFISIISCR--GLK-HLELPNLGKLKEFKVYDEYGLE----QVYIQGMNAHSVHIIGLH--MLPHISVVPCKNLKK  249 (377)
Q Consensus       179 cp~Le~L~L~~c~--~l~-~l~i~~l~~L~~L~i~~~~~~~----~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~  249 (377)
                      +++|++|+++++.  ++. .-.+..+++|+.|++.+|....    .....+++|++|+++++.  +..+..+..+++|+.
T Consensus        97 l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~  176 (549)
T 2z81_A           97 LSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHH  176 (549)
T ss_dssp             CTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEE
T ss_pred             CCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCce
Confidence            9999999999884  111 1234557899999999886211    123457889999997764  234445777888888


Q ss_pred             cchh---------hhccCCCCCceEeccCCccceEEcc------CcccccccccccCCcceEEEcccc---cccCcc-cc
Q 042962          250 LKLC---------QEIVDCMKLRSIKISSFCLKSFLFI------GYDTLDELKLCTPNLSIFKYHGDL---ISFSST-AL  310 (377)
Q Consensus       250 L~L~---------~~l~~~~~L~~L~i~~~~L~~l~l~------~c~~L~~l~l~~~~L~~~~~~~~~---~p~~l~-~~  310 (377)
                      |+++         ..+..+++|+.|++++|.+..+.+.      .+.+|+.+.+..+.+     .+..   ++..+. .+
T Consensus       177 L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l-----~~~~~~~l~~~~~~~~  251 (549)
T 2z81_A          177 LTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVL-----TDESFNELLKLLRYIL  251 (549)
T ss_dssp             EEEECSBSTTHHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEE-----EHHHHHHHHGGGGGCT
T ss_pred             EecccCcccccchhhHhhcccccEEEccCCccccccccccchhhhhhcccceecccccc-----chhHHHHHHHHhhhhc
Confidence            8776         1235688999999999888765321      233445444433321     1111   112222 26


Q ss_pred             ccceEEEEecC
Q 042962          311 ALSEIALVFNP  321 (377)
Q Consensus       311 ~L~~l~l~~n~  321 (377)
                      +|+++++..+.
T Consensus       252 ~L~~l~l~~~~  262 (549)
T 2z81_A          252 ELSEVEFDDCT  262 (549)
T ss_dssp             TCCEEEEESCE
T ss_pred             ccccccccccc
Confidence            78999998764

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

Probab=99.02  E-value=8.2e-10  Score=100.73  Aligned_cols=162  Identities=17%  Similarity=0.094  Sum_probs=106.6

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCc-cccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQ-LVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~-~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      .++++|++...        ....+|. .+..+++|++|+|++|.+. .|+ .+.++++|++|+|+++.+.+- ....+.+
T Consensus        37 ~~l~~L~l~~n--------~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~  107 (270)
T 2o6q_A           37 ADTKKLDLQSN--------KLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQAL-PIGVFDQ  107 (270)
T ss_dssp             TTCSEEECCSS--------CCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCC-CTTTTTT
T ss_pred             CCCCEEECcCC--------CCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcC-CHhHccc
Confidence            45777777521        3345554 5668899999999999873 333 357899999999999988431 1234678


Q ss_pred             Ccccccccccccc--cceeeccCCCCCCcEEEEcccC--CCch-hhhcCCcccEEEEeccc-cCCce-eeccCCCccccc
Q 042962          179 CPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKLK  251 (377)
Q Consensus       179 cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L~  251 (377)
                      +++|+.|+++++.  ++..-.+..+++|+.|.+.++.  .+.. ....+++|+.|+++++. ..++. .+..+++|++|+
T Consensus       108 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  187 (270)
T 2o6q_A          108 LVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLK  187 (270)
T ss_dssp             CSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEE
T ss_pred             ccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEE
Confidence            9999999999874  2222234557999999999987  2222 23457899999997764 22222 245556666666


Q ss_pred             hh---------hhccCCCCCceEeccCCcc
Q 042962          252 LC---------QEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       252 L~---------~~l~~~~~L~~L~i~~~~L  272 (377)
                      ++         ..+.++++|+.|++++|.+
T Consensus       188 L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          188 LDNNQLKRVPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CCCCcCCcCCHHHhccccCCCEEEecCCCe
Confidence            54         1244556666666666554

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

Probab=99.00  E-value=5e-10  Score=118.27  Aligned_cols=146  Identities=13%  Similarity=0.039  Sum_probs=101.8

Q ss_pred             CCcccc--ccCcccEEEeccccc--cCCCCCCCCCCCCeeecccee-eCh-HHHHHH------hcCCccccccccccccc
Q 042962          125 LPQLVF--YAKSMSLLGLDSCKL--ESPRGNVTLSCLRELRPRHVC-ADD-QVIKDL------ISGCPLIEFISIISCRG  192 (377)
Q Consensus       125 lp~~l~--~~~~L~~L~L~~~~~--~~p~~~~~l~~L~~L~L~~~~-~~~-~~l~~l------~~~cp~Le~L~L~~c~~  192 (377)
                      +|..+.  .+++|+.|+|++|.+  ..|..+.++++|+.|+|++|. +++ ..+..+      +..+|+|+.|++++|.-
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L  560 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNL  560 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcC
Confidence            899887  999999999999975  456678899999999999998 776 443331      23556999999998842


Q ss_pred             ceee----ccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCC-ccccchh--------hhc
Q 042962          193 LKHL----ELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKN-LKKLKLC--------QEI  256 (377)
Q Consensus       193 l~~l----~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~-L~~L~L~--------~~l  256 (377)
                      . .+    .+..+++|+.|.+++|.  .++ ....+++|+.|+++++. ..++..+..+++ |+.|+++        ..+
T Consensus       561 ~-~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~  638 (876)
T 4ecn_A          561 E-EFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIF  638 (876)
T ss_dssp             C-BCCCHHHHTTCTTCCEEECTTSCCCBCC-CCCTTSEESEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCCSCCSCC
T ss_pred             C-ccCChhhhhcCCCCCEEECCCCCcccch-hhcCCCcceEEECcCCccccchHHHhhccccCCEEECcCCCCCcCchhh
Confidence            2 22    34567899999998887  233 22356788888887764 344445667777 8877776        112


Q ss_pred             cCC--CCCceEeccCCcc
Q 042962          257 VDC--MKLRSIKISSFCL  272 (377)
Q Consensus       257 ~~~--~~L~~L~i~~~~L  272 (377)
                      ...  ++|+.|+++.|.+
T Consensus       639 ~~~~~~~L~~L~Ls~N~l  656 (876)
T 4ecn_A          639 NAKSVYVMGSVDFSYNKI  656 (876)
T ss_dssp             CTTCSSCEEEEECCSSCT
T ss_pred             hccccCCCCEEECcCCcC
Confidence            222  2366676666544

>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=98.99  E-value=1.2e-09  Score=98.47  Aligned_cols=150  Identities=14%  Similarity=0.059  Sum_probs=95.5

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|+.|+|++|.+. .+ ..+.++++|++|+|++|.+.+.. ...+.++++|+.|+++++.  .+..-
T Consensus        25 ~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~~~l~~L~~L~L~~n~l~~~~~~  101 (251)
T 3m19_A           25 SLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLS-AGVFDDLTELGTLGLANNQLASLPLG  101 (251)
T ss_dssp             CCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCC-TTTTTTCTTCCEEECTTSCCCCCCTT
T ss_pred             CccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccC-HhHhccCCcCCEEECCCCcccccChh
Confidence            4556776654  68999999998873 22 35788899999999999884321 2336778999999998774  22212


Q ss_pred             ccCCCCCCcEEEEcccC--CCch-hhhcCCcccEEEEeccc-cCCce-eeccCCCccccchh---------hhccCCCCC
Q 042962          197 ELPNLGKLKEFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKLKLC---------QEIVDCMKL  262 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L~L~---------~~l~~~~~L  262 (377)
                      .+..+++|+.|.+.++.  .+.. .....++|+.|+++++. ..++. .+..+++|++|+++         ..+.++++|
T Consensus       102 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  181 (251)
T 3m19_A          102 VFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKL  181 (251)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTC
T ss_pred             HhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCC
Confidence            23456889999998887  2222 22356888888887764 22222 24555566666554         134455566


Q ss_pred             ceEeccCCccc
Q 042962          263 RSIKISSFCLK  273 (377)
Q Consensus       263 ~~L~i~~~~L~  273 (377)
                      +.|++++|.+.
T Consensus       182 ~~L~l~~N~~~  192 (251)
T 3m19_A          182 QTITLFGNQFD  192 (251)
T ss_dssp             CEEECCSCCBC
T ss_pred             CEEEeeCCcee
Confidence            66666665543

>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=98.99  E-value=4.9e-10  Score=115.41  Aligned_cols=41  Identities=15%  Similarity=-0.102  Sum_probs=21.2

Q ss_pred             CCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          150 GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       150 ~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .+..+++|+.|++++|.+.+......+.++++|++|++++|
T Consensus       400 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n  440 (680)
T 1ziw_A          400 AFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN  440 (680)
T ss_dssp             TTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSC
T ss_pred             hhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCC
Confidence            34555666666666665432222223455566666666555

>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=98.99  E-value=1.1e-09  Score=101.30  Aligned_cols=158  Identities=15%  Similarity=0.116  Sum_probs=116.3

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKV  209 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i  209 (377)
                      ..+++|+.|++++|.+...+.+..+++|++|++++|.+.+-.  . ++++++|+.|.++++.--..-.+..+++|+.|.+
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~--~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L  119 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIK--P-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSL  119 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEEC
T ss_pred             hhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCc--c-cccCCCCCEEECCCCcCCCChhhccCCCCCEEEC
Confidence            357889999999998755456888999999999999884321  2 7889999999999874211123556799999999


Q ss_pred             cccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceE-Ecc
Q 042962          210 YDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSF-LFI  278 (377)
Q Consensus       210 ~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l-~l~  278 (377)
                      .+|.  .+.. ...+++|+.|+++++. ..+ ..+..+++|+.|+++       ..+.++++|+.|++++|.++.+ .+.
T Consensus       120 ~~n~i~~~~~-l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~L~~N~i~~l~~l~  197 (291)
T 1h6t_A          120 EHNGISDING-LVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALA  197 (291)
T ss_dssp             TTSCCCCCGG-GGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCGGGT
T ss_pred             CCCcCCCChh-hcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCccccchhhcCCCccCEEECCCCcCCCChhhc
Confidence            9987  3322 3467899999998775 222 347788899999887       2367889999999999988765 244


Q ss_pred             CcccccccccccCC
Q 042962          279 GYDTLDELKLCTPN  292 (377)
Q Consensus       279 ~c~~L~~l~l~~~~  292 (377)
                      .+.+|+.+.+..+.
T Consensus       198 ~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          198 GLKNLDVLELFSQE  211 (291)
T ss_dssp             TCTTCSEEEEEEEE
T ss_pred             cCCCCCEEECcCCc
Confidence            55566666555443

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

Probab=98.98  E-value=6.5e-10  Score=111.81  Aligned_cols=124  Identities=10%  Similarity=0.002  Sum_probs=72.5

Q ss_pred             CCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCC
Q 042962          125 LPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGK  203 (377)
Q Consensus       125 lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~  203 (377)
                      +|..+..+++|+.|++++|.+ ..|..+..+ +|++|++.++.+..  +.  ...+++|+.|.+.++..........+++
T Consensus       274 ~~~~~~~l~~L~~L~l~~~~l~~l~~~~~~~-~L~~L~l~~n~~~~--l~--~~~l~~L~~L~l~~n~~~~~~~~~~~~~  348 (570)
T 2z63_A          274 IIDLFNCLTNVSSFSLVSVTIERVKDFSYNF-GWQHLELVNCKFGQ--FP--TLKLKSLKRLTFTSNKGGNAFSEVDLPS  348 (570)
T ss_dssp             STTTTGGGTTCSEEEEESCEECSCCBCCSCC-CCSEEEEESCBCSS--CC--BCBCSSCCEEEEESCBSCCBCCCCBCTT
T ss_pred             chhhhcCcCcccEEEecCccchhhhhhhccC-CccEEeeccCcccc--cC--cccccccCEEeCcCCccccccccccCCC
Confidence            455566789999999999887 445556666 88999988887741  11  1356777777777664333233234566


Q ss_pred             CcEEEEcccC--CC---chhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh
Q 042962          204 LKEFKVYDEY--GL---EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       204 L~~L~i~~~~--~~---~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~  253 (377)
                      |+.|++.+|.  ..   ......+++|++|+++++. ...+..+..+++|+.|+++
T Consensus       349 L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~  404 (570)
T 2z63_A          349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ  404 (570)
T ss_dssp             CCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECT
T ss_pred             CCEEeCcCCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEcc
Confidence            6666666665  11   1222345666666665542 1222224455555555554

>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=98.98  E-value=7.8e-10  Score=96.01  Aligned_cols=39  Identities=21%  Similarity=0.135  Sum_probs=17.6

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceee
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~  167 (377)
                      +..+++|++|++++|.+..++.+..+++|++|++++|.+
T Consensus        62 l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l  100 (197)
T 4ezg_A           62 IEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDV  100 (197)
T ss_dssp             GGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTC
T ss_pred             HhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCcc
Confidence            344444555555444433333344444444444444444

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

Probab=98.98  E-value=3.1e-10  Score=105.85  Aligned_cols=190  Identities=14%  Similarity=0.044  Sum_probs=126.1

Q ss_pred             HHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccc--cccCcccEEEecccccc-CCCCCCCC-----CCCCeeeccceee
Q 042962           96 LRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV--FYAKSMSLLGLDSCKLE-SPRGNVTL-----SCLRELRPRHVCA  167 (377)
Q Consensus        96 i~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l--~~~~~L~~L~L~~~~~~-~p~~~~~l-----~~L~~L~L~~~~~  167 (377)
                      +....-.++++|++.-..       -...+|..+  ..+++|++|+|++|.+. .|..+..+     ++|++|+|++|.+
T Consensus        89 ~~~~~l~~L~~L~L~~n~-------l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l  161 (312)
T 1wwl_A           89 LRVLGISGLQELTLENLE-------VTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHS  161 (312)
T ss_dssp             HHHHTTSCCCEEEEEEEB-------CBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSC
T ss_pred             HHhcCcCCccEEEccCCc-------ccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCC
Confidence            333334689999997532       122466655  67899999999999873 34334444     8999999999988


Q ss_pred             ChHHHHHHhcCCcccccccccccccce------eeccCCCCCCcEEEEcccC--CCchh----hhcCCcccEEEEeccc-
Q 042962          168 DDQVIKDLISGCPLIEFISIISCRGLK------HLELPNLGKLKEFKVYDEY--GLEQV----YIQGMNAHSVHIIGLH-  234 (377)
Q Consensus       168 ~~~~l~~l~~~cp~Le~L~L~~c~~l~------~l~i~~l~~L~~L~i~~~~--~~~~~----~~~~p~L~~L~l~g~~-  234 (377)
                      .+... ..++.+++|++|+++++.-..      .+....+++|+.|.+.+|.  .++.+    ....++|++|+++++. 
T Consensus       162 ~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l  240 (312)
T 1wwl_A          162 LNFSC-EQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSL  240 (312)
T ss_dssp             CCCCT-TTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCC
T ss_pred             ccchH-HHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcC
Confidence            43222 236789999999999885221      1222557899999999987  11222    2345899999998775 


Q ss_pred             -cCCc-eeeccCCCccccchh-hhccCC-----CCCceEeccCCccceE-EccCcccccccccccCCc
Q 042962          235 -MLPH-ISVVPCKNLKKLKLC-QEIVDC-----MKLRSIKISSFCLKSF-LFIGYDTLDELKLCTPNL  293 (377)
Q Consensus       235 -~~~~-~~~~~~~~L~~L~L~-~~l~~~-----~~L~~L~i~~~~L~~l-~l~~c~~L~~l~l~~~~L  293 (377)
                       +..+ ..+..+++|++|+++ ..+...     ++|+.|++++|+++.+ .+..+++|+.+.+..+.+
T Consensus       241 ~~~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~~L~~L~Ls~N~l~~~p~~~~l~~L~~L~L~~N~l  308 (312)
T 1wwl_A          241 RDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNRLDRNPSPDELPQVGNLSLKGNPF  308 (312)
T ss_dssp             CSSCCCSCCCCCTTCCEEECTTSCCSSCCSSCCSEEEEEECCSSCCCSCCCTTTSCEEEEEECTTCTT
T ss_pred             CcccchhhhhhcCCCCEEECCCCccChhhhhccCCceEEECCCCCCCCChhHhhCCCCCEEeccCCCC
Confidence             2121 234567889999887 222111     6889999999988865 245556677776666554

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

Probab=98.97  E-value=1.3e-09  Score=115.41  Aligned_cols=130  Identities=15%  Similarity=0.068  Sum_probs=90.5

Q ss_pred             CCcCCCccccccCcccEEEecccccc--CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE--SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~--~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|.   ..++|++|+|++|.+.  .|..+.++++|++|+|+++..........+.++++|+.|+|++|.  ++.+-
T Consensus        15 ~L~~vP~---lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~   91 (844)
T 3j0a_A           15 NLTQVPQ---VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPD   91 (844)
T ss_dssp             CSSCCCS---SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTT
T ss_pred             CCCCCCC---CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHh
Confidence            4567776   3578999999999873  345789999999999999955322223347889999999999884  22222


Q ss_pred             ccCCCCCCcEEEEcccCC---Cch--hhhcCCcccEEEEeccc-cCC--ceeeccCCCccccchh
Q 042962          197 ELPNLGKLKEFKVYDEYG---LEQ--VYIQGMNAHSVHIIGLH-MLP--HISVVPCKNLKKLKLC  253 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~~---~~~--~~~~~p~L~~L~l~g~~-~~~--~~~~~~~~~L~~L~L~  253 (377)
                      .+.++++|+.|++++|..   ...  ....+++|++|+++++. ...  +..++++++|++|+++
T Consensus        92 ~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls  156 (844)
T 3j0a_A           92 AFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS  156 (844)
T ss_dssp             SSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEE
T ss_pred             HccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECC
Confidence            455678888888888871   111  13357888888887764 121  2236777777777765

>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=98.97  E-value=8.1e-10  Score=98.77  Aligned_cols=167  Identities=16%  Similarity=0.125  Sum_probs=101.4

Q ss_pred             CcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeecccee-eChHHHHHHhcCCcccccccccccccceeec-
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVC-ADDQVIKDLISGCPLIEFISIISCRGLKHLE-  197 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~-~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~-  197 (377)
                      ...+|. +  .++|++|+|++|.+. .|+ .+.++++|++|++.++. ++.- ....+.++++|++|++++|..+..+. 
T Consensus        23 l~~ip~-~--~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i-~~~~f~~l~~L~~L~l~~~n~l~~i~~   98 (239)
T 2xwt_C           23 IQRIPS-L--PPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQL-ESHSFYNLSKVTHIEIRNTRNLTYIDP   98 (239)
T ss_dssp             CSSCCC-C--CTTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEE-CTTTEESCTTCCEEEEEEETTCCEECT
T ss_pred             ccccCC-C--CCcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCccee-CHhHcCCCcCCcEEECCCCCCeeEcCH
Confidence            345565 2  347889999888763 333 57788899999998885 5321 11235788899999998865555443 


Q ss_pred             --cCCCCCCcEEEEcccC--CCchhhhcCCccc---EEEEecc-c-cCCce-eeccCCCcc-ccchh--------hhccC
Q 042962          198 --LPNLGKLKEFKVYDEY--GLEQVYIQGMNAH---SVHIIGL-H-MLPHI-SVVPCKNLK-KLKLC--------QEIVD  258 (377)
Q Consensus       198 --i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~---~L~l~g~-~-~~~~~-~~~~~~~L~-~L~L~--------~~l~~  258 (377)
                        +.++++|+.|.+.+|.  .++. ....++|+   +|+++++ . ..++. .+.++++|+ .|+++        .....
T Consensus        99 ~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~  177 (239)
T 2xwt_C           99 DALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFN  177 (239)
T ss_dssp             TSEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTT
T ss_pred             HHhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcC
Confidence              2346889999998886  3333 23456676   8888776 3 22222 245566666 66664        11112


Q ss_pred             CCCCceEeccCCc-cceEE---ccCc-ccccccccccCCc
Q 042962          259 CMKLRSIKISSFC-LKSFL---FIGY-DTLDELKLCTPNL  293 (377)
Q Consensus       259 ~~~L~~L~i~~~~-L~~l~---l~~c-~~L~~l~l~~~~L  293 (377)
                      .++|+.|++++|. ++.+.   +.++ .+|+.++++.+++
T Consensus       178 ~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l  217 (239)
T 2xwt_C          178 GTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSV  217 (239)
T ss_dssp             TCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCC
T ss_pred             CCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCcc
Confidence            2566667776663 66553   3344 5555665555554

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.96  E-value=5e-10  Score=104.33  Aligned_cols=170  Identities=11%  Similarity=-0.026  Sum_probs=103.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCC-ccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChH-HHH--HH
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLP-QLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQ-VIK--DL  175 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp-~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~-~l~--~l  175 (377)
                      .+++.|++.-..-    ......++ ..+..+++|++|+|++|.+. .+ ..+.++++|++|+|++|.+.+. .+.  ..
T Consensus       117 ~~L~~L~Ls~n~i----~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~  192 (310)
T 4glp_A          117 LALSSLRLRNVSW----ATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALC  192 (310)
T ss_dssp             BCCSSCEEESCCC----SSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSC
T ss_pred             CCCCEEEeecccc----cchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHh
Confidence            5678888873221    00001111 23346899999999999873 33 4677899999999999987432 222  12


Q ss_pred             hcCCccccccccccccc--ceee---ccCCCCCCcEEEEcccC--CC-chhhhcC---CcccEEEEeccc-cCCceeecc
Q 042962          176 ISGCPLIEFISIISCRG--LKHL---ELPNLGKLKEFKVYDEY--GL-EQVYIQG---MNAHSVHIIGLH-MLPHISVVP  243 (377)
Q Consensus       176 ~~~cp~Le~L~L~~c~~--l~~l---~i~~l~~L~~L~i~~~~--~~-~~~~~~~---p~L~~L~l~g~~-~~~~~~~~~  243 (377)
                      +..+|+|++|++++|.-  +...   .+.++++|+.|++++|.  .. +.....+   ++|++|+++++. ..++..+  
T Consensus       193 ~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~--  270 (310)
T 4glp_A          193 PHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGL--  270 (310)
T ss_dssp             TTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCC--
T ss_pred             hhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhh--
Confidence            36799999999998842  1211   12346899999999997  21 1111222   789999997764 2222211  


Q ss_pred             CCCccccchhhhccCCCCCceEeccCCccceEE-ccCcccccccccccCC
Q 042962          244 CKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL-FIGYDTLDELKLCTPN  292 (377)
Q Consensus       244 ~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~-l~~c~~L~~l~l~~~~  292 (377)
                                     .++|+.|++++|+++.+. +..+++|+.+.++.+.
T Consensus       271 ---------------~~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~~N~  305 (310)
T 4glp_A          271 ---------------PAKLRVLDLSSNRLNRAPQPDELPEVDNLTLDGNP  305 (310)
T ss_dssp             ---------------CSCCSCEECCSCCCCSCCCTTSCCCCSCEECSSTT
T ss_pred             ---------------cCCCCEEECCCCcCCCCchhhhCCCccEEECcCCC
Confidence                           145666677777666532 3344455555554443

>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=98.96  E-value=1e-09  Score=110.02  Aligned_cols=147  Identities=12%  Similarity=0.062  Sum_probs=84.1

Q ss_pred             ccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee---ccCCC
Q 042962          127 QLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPNL  201 (377)
Q Consensus       127 ~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~l  201 (377)
                      ..+..+++|++|+|++|.+. .++ .+.++++|++|++++|.+.+-.....++++++|+.|++++|.....+   .+.++
T Consensus        68 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l  147 (549)
T 2z81_A           68 DAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGL  147 (549)
T ss_dssp             TTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTC
T ss_pred             hhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcc
Confidence            44566777777777777663 222 26677777777777776642112223566777777777776533333   34456


Q ss_pred             CCCcEEEEcccCC---CchhhhcCCcccEEEEecccc-CCcee-eccCCCccccchh-hhc-----------cCCCCCce
Q 042962          202 GKLKEFKVYDEYG---LEQVYIQGMNAHSVHIIGLHM-LPHIS-VVPCKNLKKLKLC-QEI-----------VDCMKLRS  264 (377)
Q Consensus       202 ~~L~~L~i~~~~~---~~~~~~~~p~L~~L~l~g~~~-~~~~~-~~~~~~L~~L~L~-~~l-----------~~~~~L~~  264 (377)
                      ++|+.|++.++..   .+......++|+.|++.++.. ..+.. +..+++|++|+++ ..+           ..+++|+.
T Consensus       148 ~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~  227 (549)
T 2z81_A          148 TSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKK  227 (549)
T ss_dssp             CEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCE
T ss_pred             cccCeeeccCCcccccChhhhhccccCceEecccCcccccchhhHhhcccccEEEccCCccccccccccchhhhhhcccc
Confidence            7777777777761   122223456677777765531 11111 2346677777665 111           23556666


Q ss_pred             EeccCCccc
Q 042962          265 IKISSFCLK  273 (377)
Q Consensus       265 L~i~~~~L~  273 (377)
                      |.++++.+.
T Consensus       228 L~l~~n~l~  236 (549)
T 2z81_A          228 LAFRGSVLT  236 (549)
T ss_dssp             EEEESCEEE
T ss_pred             eeccccccc
Confidence            666665543

>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=98.95  E-value=7.8e-10  Score=98.88  Aligned_cols=176  Identities=14%  Similarity=0.127  Sum_probs=113.3

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCc-cccccCcccEEEecccc-c-cCCC-CCCCCCCCCeeeccc-eeeChHHHHHHh
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQ-LVFYAKSMSLLGLDSCK-L-ESPR-GNVTLSCLRELRPRH-VCADDQVIKDLI  176 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~-~l~~~~~L~~L~L~~~~-~-~~p~-~~~~l~~L~~L~L~~-~~~~~~~l~~l~  176 (377)
                      ..++.|++...        ....+|. .+..+++|++|+|++|. + ..++ .+.++++|++|++.+ +.+..- ....+
T Consensus        31 ~~l~~L~l~~n--------~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i-~~~~f  101 (239)
T 2xwt_C           31 PSTQTLKLIET--------HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYI-DPDAL  101 (239)
T ss_dssp             TTCCEEEEESC--------CCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEE-CTTSE
T ss_pred             CcccEEEEeCC--------cceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEc-CHHHh
Confidence            36777877632        3445555 45678899999999886 5 3333 577889999999988 666321 12236


Q ss_pred             cCCcccccccccccc--cceeeccCCCCCCc---EEEEccc-C--CCc-hhhhcCCccc-EEEEeccc-cCCceeeccCC
Q 042962          177 SGCPLIEFISIISCR--GLKHLELPNLGKLK---EFKVYDE-Y--GLE-QVYIQGMNAH-SVHIIGLH-MLPHISVVPCK  245 (377)
Q Consensus       177 ~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~---~L~i~~~-~--~~~-~~~~~~p~L~-~L~l~g~~-~~~~~~~~~~~  245 (377)
                      .++++|+.|+++++.  ++..  +..+++|+   .|++.++ .  .++ .....+++|+ .|+++++. ..++.......
T Consensus       102 ~~l~~L~~L~l~~n~l~~lp~--~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~~  179 (239)
T 2xwt_C          102 KELPLLKFLGIFNTGLKMFPD--LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGT  179 (239)
T ss_dssp             ECCTTCCEEEEEEECCCSCCC--CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTTTC
T ss_pred             CCCCCCCEEeCCCCCCccccc--cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcCCC
Confidence            788999999998873  2222  34456777   9999888 4  111 1223578888 99887764 22222222225


Q ss_pred             Cccccchh----------hhccCC-CCCceEeccCCccceEEccCccccccccc
Q 042962          246 NLKKLKLC----------QEIVDC-MKLRSIKISSFCLKSFLFIGYDTLDELKL  288 (377)
Q Consensus       246 ~L~~L~L~----------~~l~~~-~~L~~L~i~~~~L~~l~l~~c~~L~~l~l  288 (377)
                      +|+.|+++          ..+.++ ++|+.|++++|.++.+.-..+.+|+.+.+
T Consensus       180 ~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~~~~~L~~L~l  233 (239)
T 2xwt_C          180 KLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIA  233 (239)
T ss_dssp             EEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCCCTTCTTCSEEEC
T ss_pred             CCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCChhHhccCceeec
Confidence            67777665          234667 88999999998888765554555555543

>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=98.94  E-value=1e-09  Score=111.74  Aligned_cols=125  Identities=19%  Similarity=0.168  Sum_probs=72.8

Q ss_pred             CCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCC
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGK  203 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~  203 (377)
                      .+|+ +..+++|+.|+|++|.+..++.+..+++|+.|+|++|.+.+  +. -+..+++|+.|.|++|.-...-.+..+++
T Consensus        79 ~~~~-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~~l~~  154 (605)
T 1m9s_A           79 DIKP-LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISD--IN-GLVHLPQLESLYLGNNKITDITVLSRLTK  154 (605)
T ss_dssp             CCGG-GGGCTTCCEEECCSSCCCCCTTSTTCTTCCEEECTTSCCCC--CG-GGGGCTTCSEEECCSSCCCCCGGGGSCTT
T ss_pred             CChh-hccCCCCCEEECcCCCCCCChhhccCCCCCEEEecCCCCCC--Cc-cccCCCccCEEECCCCccCCchhhcccCC
Confidence            3444 55677777777777766555566677777777777776632  12 25567777777777663111123334567


Q ss_pred             CcEEEEcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh
Q 042962          204 LKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       204 L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~  253 (377)
                      |+.|.+++|.  .... ...+++|+.|+++++...-...+..+++|+.|+|+
T Consensus       155 L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~  205 (605)
T 1m9s_A          155 LDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELF  205 (605)
T ss_dssp             CSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEECC
T ss_pred             CCEEECcCCcCCCchh-hccCCCCCEEECcCCCCCCChHHccCCCCCEEEcc
Confidence            7777777766  2222 33566777777766531111235666677766665

>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=98.94  E-value=7e-10  Score=114.25  Aligned_cols=190  Identities=12%  Similarity=0.076  Sum_probs=137.1

Q ss_pred             CccccccCcccEEEecccccc--CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc----cceeecc
Q 042962          126 PQLVFYAKSMSLLGLDSCKLE--SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR----GLKHLEL  198 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~~--~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~----~l~~l~i  198 (377)
                      |..+..+++|+.|+|++|.+.  .| ..+.++++|++|++++|.+.+-. ...+..+|.|+.|.+.++.    +..+-.+
T Consensus       398 ~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~  476 (680)
T 1ziw_A          398 SDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLT-RNSFALVPSLQRLMLRRVALKNVDSSPSPF  476 (680)
T ss_dssp             TTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECC-TTTTTTCTTCCEEECTTSCCBCTTCSSCTT
T ss_pred             hhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeC-hhhhhcCcccccchhccccccccccCCccc
Confidence            445667899999999999873  34 36788999999999999773211 1236689999999999874    1222345


Q ss_pred             CCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCC-----c----eeeccCCCccccchh---------hhc
Q 042962          199 PNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLP-----H----ISVVPCKNLKKLKLC---------QEI  256 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~-----~----~~~~~~~~L~~L~L~---------~~l  256 (377)
                      ..+++|+.|++++|.  .+. .....+++|++|+++++. ...     +    ..+.++++|+.|+++         ..+
T Consensus       477 ~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~  556 (680)
T 1ziw_A          477 QPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVF  556 (680)
T ss_dssp             TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCTTTT
T ss_pred             ccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCHHHc
Confidence            567999999999987  222 223467899999998774 111     1    126788899999887         246


Q ss_pred             cCCCCCceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCc--cccccceEEEEecCC
Q 042962          257 VDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS--TALALSEIALVFNPD  322 (377)
Q Consensus       257 ~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l--~~~~L~~l~l~~n~~  322 (377)
                      .++++|+.|++++|.++.+.   +.++.+|+.+.+..+++..+.      |..+  ..++|+.++++.|+-
T Consensus       557 ~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~------~~~~~~~~~~L~~l~l~~N~~  621 (680)
T 1ziw_A          557 KDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVE------KKVFGPAFRNLTELDMRFNPF  621 (680)
T ss_dssp             TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCC------HHHHHHHHTTCSEEECTTCCC
T ss_pred             ccccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccC------hhHhcccccccCEEEccCCCc
Confidence            88999999999999999875   345678888888887765432      1111  125799999998865

>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=98.93  E-value=2.6e-08  Score=99.14  Aligned_cols=138  Identities=15%  Similarity=0.102  Sum_probs=62.4

Q ss_pred             CCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--ccee--eccCCCCCCcEEEEcccC--C-Cch-hhhcCC
Q 042962          152 VTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKH--LELPNLGKLKEFKVYDEY--G-LEQ-VYIQGM  223 (377)
Q Consensus       152 ~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~--l~i~~l~~L~~L~i~~~~--~-~~~-~~~~~p  223 (377)
                      ..+++|++|++++|.+++..+.. +..+++|++|++++|.  ++..  -.+..+++|+.|++++|.  . ++. .....+
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~-~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~  399 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFEN-CGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTK  399 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTT-CCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCT
T ss_pred             hhCCcccEEEeECCccChhhhhh-hccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCc
Confidence            34455555555555543322222 3445555555555442  1111  112334555555555554  1 111 011234


Q ss_pred             cccEEEEeccc--cCCceeeccCCCccccchh--------hhccCCCCCceEeccCCccceEE---ccCccccccccccc
Q 042962          224 NAHSVHIIGLH--MLPHISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCT  290 (377)
Q Consensus       224 ~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~  290 (377)
                      +|+.|+++++.  +..+..+.  ++|+.|+++        ..+.++++|+.|++++|.++.+.   +..+++|+.+.+..
T Consensus       400 ~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~~  477 (520)
T 2z7x_B          400 SLLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHT  477 (520)
T ss_dssp             TCCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             cCCEEECcCCCCCcchhhhhc--ccCCEEECCCCcccccchhhhcCCCCCEEECCCCcCCccCHHHhccCCcccEEECcC
Confidence            55555554432  11111111  344444444        23446677777777777776554   33445566666555


Q ss_pred             CC
Q 042962          291 PN  292 (377)
Q Consensus       291 ~~  292 (377)
                      +.
T Consensus       478 N~  479 (520)
T 2z7x_B          478 NP  479 (520)
T ss_dssp             SC
T ss_pred             CC
Confidence            44

>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=98.91  E-value=1.4e-09  Score=94.40  Aligned_cols=101  Identities=15%  Similarity=0.115  Sum_probs=60.4

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEE
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEF  207 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L  207 (377)
                      ..+++|+.|++++|.+...+.+..+++|++|++.+|.+..  +. .++.+++|++|++++|.  +...-.+..+++|+.|
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~--~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATN--YN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSC--CG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCc--ch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            3466777777777766432356677777777777775522  11 25667777777777663  1112334456777777


Q ss_pred             EEcccCC---CchhhhcCCcccEEEEecc
Q 042962          208 KVYDEYG---LEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       208 ~i~~~~~---~~~~~~~~p~L~~L~l~g~  233 (377)
                      .+++|..   .......+++|++|+++++
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n  146 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYN  146 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSC
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCC
Confidence            7777761   1122234677777777655

>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=98.91  E-value=2.1e-09  Score=96.87  Aligned_cols=167  Identities=15%  Similarity=0.092  Sum_probs=100.4

Q ss_pred             CcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEE
Q 042962          133 KSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKV  209 (377)
Q Consensus       133 ~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i  209 (377)
                      .+.++++++++.+. .|..+.  ++|+.|+|.++.+.+-.. ..+.++++|+.|+++++.  ++..-.+..+++|+.|.+
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGIP--ADTEKLDLQSTGLATLSD-ATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCCC--TTCCEEECTTSCCCCCCT-TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCeEEecCCCCccccCCCCC--CCCCEEEccCCCcCccCH-hHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            56788999988874 343333  689999999998843222 236789999999999873  222222455789999999


Q ss_pred             cccC--CCc-hhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE---ccCccc
Q 042962          210 YDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL---FIGYDT  282 (377)
Q Consensus       210 ~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~  282 (377)
                      .++.  .+. .....+++|++|+++++. ..++..              .+.++++|+.|++++|.++.+.   +.++.+
T Consensus        91 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~--------------~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~  156 (251)
T 3m19_A           91 ANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSG--------------VFDRLTKLKELRLNTNQLQSIPAGAFDKLTN  156 (251)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT--------------TTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCcccccChhHhcccCCCCEEEcCCCcCCCcChh--------------HhccCCcccEEECcCCcCCccCHHHcCcCcC
Confidence            9987  222 223457889999997764 222111              2344555666666666555543   333445


Q ss_pred             ccccccccCCcceEEEcccccccCcc-ccccceEEEEecCC
Q 042962          283 LDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNPD  322 (377)
Q Consensus       283 L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~~  322 (377)
                      |+.+++..+++..+      .+..+. .++|+.++++.|+-
T Consensus       157 L~~L~L~~N~l~~~------~~~~~~~l~~L~~L~l~~N~~  191 (251)
T 3m19_A          157 LQTLSLSTNQLQSV------PHGAFDRLGKLQTITLFGNQF  191 (251)
T ss_dssp             CCEEECCSSCCSCC------CTTTTTTCTTCCEEECCSCCB
T ss_pred             CCEEECCCCcCCcc------CHHHHhCCCCCCEEEeeCCce
Confidence            55555555543221      111122 24566666666643

>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=98.87  E-value=4.3e-09  Score=106.39  Aligned_cols=20  Identities=5%  Similarity=0.363  Sum_probs=18.6

Q ss_pred             CCCcHHHHHHHhhcC-ChhHH
Q 042962           16 SALLAPILHHILSFL-SIEQV   35 (377)
Q Consensus        16 S~LPD~lL~~ILs~L-p~~da   35 (377)
                      ++||||+|.+||+|| |++|+
T Consensus        14 ~~LPdeil~~I~~~L~~~~d~   34 (592)
T 3ogk_B           14 VATVDDVIEQVMTYITDPKDR   34 (592)
T ss_dssp             CCCGGGTHHHHHTTCCCHHHH
T ss_pred             CCCCHHHHHHHHHhcCCHHHH
Confidence            489999999999999 89888

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.83  E-value=4.2e-09  Score=95.84  Aligned_cols=138  Identities=17%  Similarity=0.119  Sum_probs=88.8

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-ccCCCCCCcEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-ELPNLGKLKEF  207 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-~i~~l~~L~~L  207 (377)
                      +..+++|+.|++++|.+...+.+..+++|++|+|++|.+++-.  . +.++++|+.|+++++. +..+ .+.. ++|+.|
T Consensus        37 ~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~--~-l~~l~~L~~L~L~~N~-l~~l~~~~~-~~L~~L  111 (263)
T 1xeu_A           37 QKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLS--P-LKDLTKLEELSVNRNR-LKNLNGIPS-ACLSRL  111 (263)
T ss_dssp             HHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCG--G-GTTCSSCCEEECCSSC-CSCCTTCCC-SSCCEE
T ss_pred             hhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCCh--h-hccCCCCCEEECCCCc-cCCcCcccc-CcccEE
Confidence            4567888888888887754446778888889998888874321  2 6788888888888773 2111 2233 788888


Q ss_pred             EEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccc
Q 042962          208 KVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       208 ~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~  273 (377)
                      .+++|.  .++. ...+++|+.|+++++. ..++ .+..+++|+.|+++       ..+.++++|+.|++++|.+.
T Consensus       112 ~L~~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~l~~N~~~  185 (263)
T 1xeu_A          112 FLDNNELRDTDS-LIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNEITNTGGLTRLKKVNWIDLTGQKCV  185 (263)
T ss_dssp             ECCSSCCSBSGG-GTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSCCCBCTTSTTCCCCCEEEEEEEEEE
T ss_pred             EccCCccCCChh-hcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCcCcchHHhccCCCCCEEeCCCCccc
Confidence            888887  2322 2356788888887664 2222 34555566665555       23455566666666665544

>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=98.82  E-value=1.1e-07  Score=95.80  Aligned_cols=37  Identities=22%  Similarity=0.219  Sum_probs=21.7

Q ss_pred             ccCCCCCceEeccCCccceEE---ccCcccccccccccCC
Q 042962          256 IVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPN  292 (377)
Q Consensus       256 l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~  292 (377)
                      +.++++|+.|++++|+++.+.   +..+++|+.+.+..+.
T Consensus       469 ~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          469 VTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             TTSSCCCSEEECCSSCCCCCCTTSTTTCTTCCCEECCSCC
T ss_pred             hcCCCCCCEEECCCCCCCCCCHHHHhcCCCCCEEEecCCC
Confidence            345667777777777766544   3344555555555544

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

Probab=98.81  E-value=2.4e-09  Score=93.56  Aligned_cols=151  Identities=12%  Similarity=0.085  Sum_probs=95.5

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+  .++|++|+|++|.+. .++ .+.++++|++|++.++.+.+ .....+.++++|++|+++++.  ++..-
T Consensus        18 ~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-~~~~~~~~l~~L~~L~Ls~n~l~~~~~~   94 (208)
T 2o6s_A           18 GRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQS-LPNGVFNKLTSLTYLNLSTNQLQSLPNG   94 (208)
T ss_dssp             CCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCc-cChhhcCCCCCcCEEECCCCcCCccCHh
Confidence            345566554  468999999999874 333 46789999999999998742 122345778999999999873  22222


Q ss_pred             ccCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          197 ELPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      .+..+++|+.|.+.++.  .+. ......++|++|+++++. ..++.              ..+.++++|+.|++++|.+
T Consensus        95 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~--------------~~~~~l~~L~~L~l~~N~~  160 (208)
T 2o6s_A           95 VFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPD--------------GVFDRLTSLQYIWLHDNPW  160 (208)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT--------------TTTTTCTTCCEEECCSCCB
T ss_pred             HhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCH--------------HHhccCCCccEEEecCCCe
Confidence            23456889999998886  222 222456888888887653 11111              1234566677777776654


Q ss_pred             ceEEccCcccccccccccCC
Q 042962          273 KSFLFIGYDTLDELKLCTPN  292 (377)
Q Consensus       273 ~~l~l~~c~~L~~l~l~~~~  292 (377)
                      .    +.|++|+.+.+..++
T Consensus       161 ~----~~~~~l~~L~~~~n~  176 (208)
T 2o6s_A          161 D----CTCPGIRYLSEWINK  176 (208)
T ss_dssp             C----CCTTTTHHHHHHHHH
T ss_pred             e----cCCCCHHHHHHHHHh
Confidence            3    345556655544433

>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=98.80  E-value=2.9e-08  Score=101.23  Aligned_cols=53  Identities=17%  Similarity=0.073  Sum_probs=29.7

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceee
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~  167 (377)
                      .+++.|++.-.        ....+|.   .+++|++|+|++|.+...+.  .+++|++|+|++|.+
T Consensus        61 ~~L~~L~L~~N--------~l~~lp~---~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l  113 (622)
T 3g06_A           61 AHITTLVIPDN--------NLTSLPA---LPPELRTLEVSGNQLTSLPV--LPPGLLELSIFSNPL  113 (622)
T ss_dssp             TTCSEEEECSC--------CCSCCCC---CCTTCCEEEECSCCCSCCCC--CCTTCCEEEECSCCC
T ss_pred             CCCcEEEecCC--------CCCCCCC---cCCCCCEEEcCCCcCCcCCC--CCCCCCEEECcCCcC
Confidence            46677776521        2334554   35667777777766532112  556666666666655

>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=98.79  E-value=2.5e-08  Score=101.64  Aligned_cols=59  Identities=22%  Similarity=0.093  Sum_probs=32.0

Q ss_pred             cCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          123 YNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       123 ~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ..+|..+.  ++|+.|+|++|.+...+.  .+++|++|+|++|.++.     +-..+++|++|++++|
T Consensus        53 ~~lp~~l~--~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~-----lp~~l~~L~~L~Ls~N  111 (622)
T 3g06_A           53 TTLPDCLP--AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTS-----LPVLPPGLLELSIFSN  111 (622)
T ss_dssp             SCCCSCCC--TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSC-----CCCCCTTCCEEEECSC
T ss_pred             CccChhhC--CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCc-----CCCCCCCCCEEECcCC
Confidence            35555543  566666666666532122  45666666666666531     1114566666666654

>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=98.79  E-value=7.6e-10  Score=106.23  Aligned_cols=38  Identities=8%  Similarity=-0.067  Sum_probs=19.3

Q ss_pred             cccCcccEEEeccccccC------CCCCCCCCCCCeeeccceee
Q 042962          130 FYAKSMSLLGLDSCKLES------PRGNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~------p~~~~~l~~L~~L~L~~~~~  167 (377)
                      ..+++|++|+|++|.+..      |..+..+++|++|+|++|.+
T Consensus        91 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l  134 (386)
T 2ca6_A           91 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGL  134 (386)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             hhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCC
Confidence            345555666665555432      11234455556666655555

>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=98.76  E-value=1.9e-08  Score=95.28  Aligned_cols=32  Identities=19%  Similarity=0.209  Sum_probs=22.2

Q ss_pred             ccCCCCCceEeccCCccceEEccCcccccccc
Q 042962          256 IVDCMKLRSIKISSFCLKSFLFIGYDTLDELK  287 (377)
Q Consensus       256 l~~~~~L~~L~i~~~~L~~l~l~~c~~L~~l~  287 (377)
                      +.++++|+.|++++|+++.+......+|+.+.
T Consensus       198 f~~l~~L~~LdLs~N~l~~lp~~~~~~L~~L~  229 (350)
T 4ay9_X          198 FHGASGPVILDISRTRIHSLPSYGLENLKKLR  229 (350)
T ss_dssp             TTTEECCSEEECTTSCCCCCCSSSCTTCCEEE
T ss_pred             hccCcccchhhcCCCCcCccChhhhccchHhh
Confidence            46677888888888888777655555555443

>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=98.76  E-value=7.5e-09  Score=95.56  Aligned_cols=148  Identities=16%  Similarity=0.101  Sum_probs=81.4

Q ss_pred             CcCCCccccccCcccEEEeccccccC--CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee--c
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLES--PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL--E  197 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~~--p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l--~  197 (377)
                      ...+|..+.  ++++.|+|++|.+..  +..+.++++|+.|+|+++.+++-  .. .+.+++|+.|+++++. +..+  .
T Consensus        22 l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~--~~-~~~l~~L~~L~Ls~N~-l~~l~~~   95 (290)
T 1p9a_G           22 LTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKL--QV-DGTLPVLGTLDLSHNQ-LQSLPLL   95 (290)
T ss_dssp             CSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEE--EC-CSCCTTCCEEECCSSC-CSSCCCC
T ss_pred             CCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcc--cC-CCCCCcCCEEECCCCc-CCcCchh
Confidence            344555443  566777777666521  23456667777777777665321  11 1456677777776652 1111  2


Q ss_pred             cCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCCcee-eccCCCccccchh---------hhccCCCCCc
Q 042962          198 LPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLPHIS-VVPCKNLKKLKLC---------QEIVDCMKLR  263 (377)
Q Consensus       198 i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~~~~-~~~~~~L~~L~L~---------~~l~~~~~L~  263 (377)
                      +..+++|+.|.++++.  .+. .....+++|++|.++++. ..++.. +..+++|+.|+++         ..+.++++|+
T Consensus        96 ~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~  175 (290)
T 1p9a_G           96 GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLD  175 (290)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCC
T ss_pred             hccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCC
Confidence            2335667777776665  121 222345667777776553 222221 4556666666665         2245567777


Q ss_pred             eEeccCCccceE
Q 042962          264 SIKISSFCLKSF  275 (377)
Q Consensus       264 ~L~i~~~~L~~l  275 (377)
                      .|++++|.++.+
T Consensus       176 ~L~L~~N~l~~i  187 (290)
T 1p9a_G          176 TLLLQENSLYTI  187 (290)
T ss_dssp             EEECCSSCCCCC
T ss_pred             EEECCCCcCCcc
Confidence            777777776654

>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=98.72  E-value=1.5e-08  Score=100.88  Aligned_cols=231  Identities=14%  Similarity=0.053  Sum_probs=153.0

Q ss_pred             CceEEEEEEeccCCccchhhHHHHHHHHHhCCceEEEEEeeCCCCCCCCCCcCCCccc-----cccCcccEEEecccccc
Q 042962           72 SLEKFTFIVQLSDDVKFVSSIYRCLRYAVETNVKELKLGFCCPHSNYPDSYYNLPQLV-----FYAKSMSLLGLDSCKLE  146 (377)
Q Consensus        72 ~i~~l~l~~~~~~~~~~~~~i~~wi~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l-----~~~~~L~~L~L~~~~~~  146 (377)
                      .++.+.+....   .. ...+..+........++.+++....       -.-.+|..+     ..+++|+.++++++.+.
T Consensus       221 ~L~~L~l~~~~---l~-~~~~~~~~~~~~~~~L~~L~l~~n~-------l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~~  289 (520)
T 2z7x_B          221 KLSNLTLNNIE---TT-WNSFIRILQLVWHTTVWYFSISNVK-------LQGQLDFRDFDYSGTSLKALSIHQVVSDVFG  289 (520)
T ss_dssp             TCCEEEEEEEE---EE-HHHHHHHHHHHHTSSCSEEEEEEEE-------EESCCCCCCCCCCSCCCCEEEEEEEEECCCC
T ss_pred             chhhccccccc---cC-HHHHHHHHHHhhhCcccEEEeeccc-------ccCccccchhhcccccCceeEecccccccee
Confidence            46666664431   11 2334444444445678888886432       112567766     77899999999988875


Q ss_pred             CCC-CCCCC---CCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEcccC--CCch-
Q 042962          147 SPR-GNVTL---SCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLEQ-  217 (377)
Q Consensus       147 ~p~-~~~~l---~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~~-  217 (377)
                      .|. .+..+   ++|+.|+++++.+.+..   ....+++|++|++++|.  +...-.+..+++|+.|.+.+|.  .++. 
T Consensus       290 ~p~~~~~~~~~~~~L~~L~l~~n~l~~~~---~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~  366 (520)
T 2z7x_B          290 FPQSYIYEIFSNMNIKNFTVSGTRMVHML---CPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKI  366 (520)
T ss_dssp             SCTHHHHHHHHTCCCSEEEEESSCCCCCC---CCSSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHH
T ss_pred             cchhhhhcccccCceeEEEcCCCcccccc---chhhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccc
Confidence            542 22222   57999999999874321   12679999999999884  2222344567999999999997  2112 


Q ss_pred             --hhhcCCcccEEEEeccc-cC-Ccee-eccCCCccccchh-h-----hccCC-CCCceEeccCCccceEE--ccCcccc
Q 042962          218 --VYIQGMNAHSVHIIGLH-ML-PHIS-VVPCKNLKKLKLC-Q-----EIVDC-MKLRSIKISSFCLKSFL--FIGYDTL  283 (377)
Q Consensus       218 --~~~~~p~L~~L~l~g~~-~~-~~~~-~~~~~~L~~L~L~-~-----~l~~~-~~L~~L~i~~~~L~~l~--l~~c~~L  283 (377)
                        ....+++|++|+++++. .. ++.. +..+++|+.|+++ .     ....+ ++|+.|++++|+++.+.  +..+++|
T Consensus       367 ~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~~ip~~~~~l~~L  446 (520)
T 2z7x_B          367 AEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEAL  446 (520)
T ss_dssp             HHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSSCCCCCCGGGGGCTTC
T ss_pred             hHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCCcccccchhhhcCCCC
Confidence              23467999999998875 22 4443 6677889999887 1     11233 69999999999988653  4466778


Q ss_pred             cccccccCCcceEEEcccccccC-cc-ccccceEEEEecCCC
Q 042962          284 DELKLCTPNLSIFKYHGDLISFS-ST-ALALSEIALVFNPDN  323 (377)
Q Consensus       284 ~~l~l~~~~L~~~~~~~~~~p~~-l~-~~~L~~l~l~~n~~~  323 (377)
                      +.+.+..+++..       +|.. +. .++|++++++.|+-.
T Consensus       447 ~~L~L~~N~l~~-------l~~~~~~~l~~L~~L~l~~N~~~  481 (520)
T 2z7x_B          447 QELNVASNQLKS-------VPDGIFDRLTSLQKIWLHTNPWD  481 (520)
T ss_dssp             CEEECCSSCCCC-------CCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CEEECCCCcCCc-------cCHHHhccCCcccEEECcCCCCc
Confidence            888887777543       4432 32 368999999988653

>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=98.72  E-value=1.3e-09  Score=104.65  Aligned_cols=218  Identities=15%  Similarity=0.096  Sum_probs=139.4

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecccccc-----CCCC-------CCCCCCCCeeeccceeeCh
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLE-----SPRG-------NVTLSCLRELRPRHVCADD  169 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~-----~p~~-------~~~l~~L~~L~L~~~~~~~  169 (377)
                      .+++.|++....-.   ......++..+..+++|++|+|++|.+.     .|..       +..+++|++|+|++|.+++
T Consensus        32 ~~L~~L~L~~n~i~---~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~  108 (386)
T 2ca6_A           32 DSVKEIVLSGNTIG---TEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  108 (386)
T ss_dssp             SCCCEEECTTSEEC---HHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             CCccEEECCCCCCC---HHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCH
Confidence            56888877521100   0001123344567899999999987532     1222       2678999999999999855


Q ss_pred             H---HHHHHhcCCcccccccccccccc----eeec--cCCC---------CCCcEEEEcccCC----Cc---hhhhcCCc
Q 042962          170 Q---VIKDLISGCPLIEFISIISCRGL----KHLE--LPNL---------GKLKEFKVYDEYG----LE---QVYIQGMN  224 (377)
Q Consensus       170 ~---~l~~l~~~cp~Le~L~L~~c~~l----~~l~--i~~l---------~~L~~L~i~~~~~----~~---~~~~~~p~  224 (377)
                      .   .+...+..+++|+.|+|++|.-.    ..+.  +..+         ++|+.|.+.+|..    .+   .....+++
T Consensus       109 ~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~  188 (386)
T 2ca6_A          109 TAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRL  188 (386)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCC
Confidence            3   34455788999999999988411    1111  1112         7999999999871    11   12235789


Q ss_pred             ccEEEEeccccC-------CceeeccCCCccccchh-------------hhccCCCCCceEeccCCccceE-------Ec
Q 042962          225 AHSVHIIGLHML-------PHISVVPCKNLKKLKLC-------------QEIVDCMKLRSIKISSFCLKSF-------LF  277 (377)
Q Consensus       225 L~~L~l~g~~~~-------~~~~~~~~~~L~~L~L~-------------~~l~~~~~L~~L~i~~~~L~~l-------~l  277 (377)
                      |++|.++++...       .+..+..+++|++|+|+             ..+.++++|+.|++++|.+...       .+
T Consensus       189 L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l  268 (386)
T 2ca6_A          189 LHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAF  268 (386)
T ss_dssp             CCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHH
T ss_pred             cCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHH
Confidence            999999776421       22146788899999887             2357889999999999987653       12


Q ss_pred             --cCcccccccccccCCcceEEEcccccccCc-c-ccccceEEEEecCCCC
Q 042962          278 --IGYDTLDELKLCTPNLSIFKYHGDLISFSS-T-ALALSEIALVFNPDNI  324 (377)
Q Consensus       278 --~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~-~~~L~~l~l~~n~~~~  324 (377)
                        +.+++|+.+.++.+.+..-  ....+|..+ . .++|+.|+++.|.-..
T Consensus       269 ~~~~~~~L~~L~L~~n~i~~~--g~~~l~~~l~~~l~~L~~L~l~~N~l~~  317 (386)
T 2ca6_A          269 SKLENIGLQTLRLQYNEIELD--AVRTLKTVIDEKMPDLLFLELNGNRFSE  317 (386)
T ss_dssp             HTCSSCCCCEEECCSSCCBHH--HHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             hhccCCCeEEEECcCCcCCHH--HHHHHHHHHHhcCCCceEEEccCCcCCc
Confidence              3367788887776664210  001355444 3 3789999998775543

>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=98.71  E-value=1.9e-09  Score=108.88  Aligned_cols=187  Identities=14%  Similarity=0.141  Sum_probs=94.9

Q ss_pred             cccCcccEEEeccccccCC---CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccc--------cccceeec-
Q 042962          130 FYAKSMSLLGLDSCKLESP---RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS--------CRGLKHLE-  197 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p---~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~--------c~~l~~l~-  197 (377)
                      ..+++|++|+|++|.+...   ....++++|++|++.++ +.+..+..+..+|++|++|++..        |..+.... 
T Consensus       286 ~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l~~~~l  364 (594)
T 2p1m_B          286 SVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGL  364 (594)
T ss_dssp             HHHTTCCEEECTTCCCCHHHHHHHHTTCTTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCCCHHHH
T ss_pred             HhhCCCCEEEccCCCCCHHHHHHHHhcCCCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEecCcccccccCCCCCHHHH
Confidence            3566777777776663210   11345677777777766 54555566556677777777733        22221111 


Q ss_pred             --c-CCCCCCcEEEEcccC----CCchhhhcCCcccEEEEe--c-----cccCCce------eeccCCCccccchh----
Q 042962          198 --L-PNLGKLKEFKVYDEY----GLEQVYIQGMNAHSVHII--G-----LHMLPHI------SVVPCKNLKKLKLC----  253 (377)
Q Consensus       198 --i-~~l~~L~~L~i~~~~----~~~~~~~~~p~L~~L~l~--g-----~~~~~~~------~~~~~~~L~~L~L~----  253 (377)
                        + .++++|+.|.+..+.    ....+...+|+|+.|+++  +     .....+.      .+.+|++|+.|+++    
T Consensus       365 ~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~l~  444 (594)
T 2p1m_B          365 VSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLT  444 (594)
T ss_dssp             HHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             HHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecCccc
Confidence              1 125777777554443    112222346778888776  3     1111111      14556677777665    


Q ss_pred             ----hhccC-CCCCceEeccCCccceEEc----cCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecCC
Q 042962          254 ----QEIVD-CMKLRSIKISSFCLKSFLF----IGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNPD  322 (377)
Q Consensus       254 ----~~l~~-~~~L~~L~i~~~~L~~l~l----~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~~  322 (377)
                          ..++. +++|+.|+++++.+....+    .+|++|+.+.+..+.+     .+..+..... .++|+.|+++.|+.
T Consensus       445 ~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~-----~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          445 DKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPF-----GDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             HHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSC-----CHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             HHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCC-----cHHHHHHHHHhCCCCCEEeeeCCCC
Confidence                12222 6677777776665432111    3344555554443332     1112222222 36788888876644

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

Probab=98.70  E-value=4.3e-08  Score=98.88  Aligned_cols=172  Identities=11%  Similarity=0.070  Sum_probs=107.8

Q ss_pred             HHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcC
Q 042962           99 AVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISG  178 (377)
Q Consensus        99 a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~  178 (377)
                      +...+++.|++...        ....+|..++  ++|++|+|++|.+...+  ..+++|++|+|++|.+++  +.. +.+
T Consensus        56 C~~~~L~~L~Ls~n--------~L~~lp~~l~--~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~--ip~-l~~  120 (571)
T 3cvr_A           56 CLINQFSELQLNRL--------NLSSLPDNLP--PQITVLEITQNALISLP--ELPASLEYLDACDNRLST--LPE-LPA  120 (571)
T ss_dssp             HHHTTCSEEECCSS--------CCSCCCSCCC--TTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSC--CCC-CCT
T ss_pred             cccCCccEEEeCCC--------CCCccCHhHc--CCCCEEECcCCCCcccc--cccCCCCEEEccCCCCCC--cch-hhc
Confidence            34457888877522        2345777654  78999999988875333  557889999999998843  222 322


Q ss_pred             CcccccccccccccceeeccCCCCCCcEEEEcccCCCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-hhc
Q 042962          179 CPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYGLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-QEI  256 (377)
Q Consensus       179 cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-~~l  256 (377)
                        +|+.|+++++. +..+.- .+++|+.|.+++|. +..+....++|+.|+++++. ..++. +.  ++|+.|+|+ ..|
T Consensus       121 --~L~~L~Ls~N~-l~~lp~-~l~~L~~L~Ls~N~-l~~lp~~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L  192 (571)
T 3cvr_A          121 --SLKHLDVDNNQ-LTMLPE-LPALLEYINADNNQ-LTMLPELPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLL  192 (571)
T ss_dssp             --TCCEEECCSSC-CSCCCC-CCTTCCEEECCSSC-CSCCCCCCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCC
T ss_pred             --CCCEEECCCCc-CCCCCC-cCccccEEeCCCCc-cCcCCCcCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCC
Confidence              88889888773 222222 36889999988887 11122246788888887764 33333 33  677777776 222


Q ss_pred             cCCC----CC-------ceEeccCCccceEE--ccCcccccccccccCCc
Q 042962          257 VDCM----KL-------RSIKISSFCLKSFL--FIGYDTLDELKLCTPNL  293 (377)
Q Consensus       257 ~~~~----~L-------~~L~i~~~~L~~l~--l~~c~~L~~l~l~~~~L  293 (377)
                      ..++    +|       +.|++++|.++.+.  +..+++|+.+.++.+.+
T Consensus       193 ~~lp~~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          193 ESLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDNPL  242 (571)
T ss_dssp             SSCCCCC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSSSC
T ss_pred             CchhhHHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCCcC
Confidence            2222    45       77777777777653  44455666666666654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.69  E-value=2.3e-09  Score=97.59  Aligned_cols=152  Identities=13%  Similarity=0.070  Sum_probs=102.7

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEE
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFK  208 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~  208 (377)
                      .+.+++.+.++++.+...+.+..+++|+.|++.++.+..  +. -+..+++|+.|+++++.  ++..  +..+++|+.|.
T Consensus        17 ~l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~--l~-~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~   91 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQS--LA-GMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCC--CT-TGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEE
T ss_pred             HHHHHHHHHhcCCCcccccchhhcCcCcEEECcCCCccc--ch-HHhhCCCCCEEECCCCccCCChh--hccCCCCCEEE
Confidence            355677778887776433356788999999999998843  22 36789999999999883  3332  66789999999


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-cc
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-FI  278 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-l~  278 (377)
                      +++|.  .++.+..  ++|+.|+++++.-.-...+..+++|+.|+++       ..+.++++|+.|++++|.++.+. +.
T Consensus        92 L~~N~l~~l~~~~~--~~L~~L~L~~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~~l~~l~~L~~L~L~~N~i~~~~~l~  169 (263)
T 1xeu_A           92 VNRNRLKNLNGIPS--ACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLHGNEITNTGGLT  169 (263)
T ss_dssp             CCSSCCSCCTTCCC--SSCCEEECCSSCCSBSGGGTTCTTCCEEECTTSCCCBCGGGGGCTTCCEEECTTSCCCBCTTST
T ss_pred             CCCCccCCcCcccc--CcccEEEccCCccCCChhhcCcccccEEECCCCcCCCChHHccCCCCCEEECCCCcCcchHHhc
Confidence            99998  3333322  8999999987752211236677777777776       33566677777777777766542 22


Q ss_pred             Ccccccccccc
Q 042962          279 GYDTLDELKLC  289 (377)
Q Consensus       279 ~c~~L~~l~l~  289 (377)
                      .+.+|+.+.+.
T Consensus       170 ~l~~L~~L~l~  180 (263)
T 1xeu_A          170 RLKKVNWIDLT  180 (263)
T ss_dssp             TCCCCCEEEEE
T ss_pred             cCCCCCEEeCC
Confidence            33344444443

>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=98.67  E-value=1.2e-07  Score=93.20  Aligned_cols=112  Identities=17%  Similarity=0.074  Sum_probs=53.8

Q ss_pred             CcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEc
Q 042962          133 KSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVY  210 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~  210 (377)
                      ++|++|++++|.+...+.+.++++|++|++++|.+.+  +   -...++|++|+++++.  ++.  .+..+++|+.|.+.
T Consensus       131 ~~L~~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l~~--l---p~~~~~L~~L~L~~n~l~~l~--~~~~l~~L~~L~l~  203 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKK--L---PDLPPSLEFIAAGNNQLEELP--ELQNLPFLTAIYAD  203 (454)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSC--C---CCCCTTCCEEECCSSCCSSCC--CCTTCTTCCEEECC
T ss_pred             CCCCEEECcCCCCCCCcccCCCCCCCEEECCCCcCcc--c---CCCcccccEEECcCCcCCcCc--cccCCCCCCEEECC
Confidence            4566666666554322245566666666666665532  1   1122456666665552  111  23345566666666


Q ss_pred             ccCCCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh
Q 042962          211 DEYGLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       211 ~~~~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~  253 (377)
                      +|. +..+....++|++|+++++. ..++ .+..+++|++|+++
T Consensus       204 ~N~-l~~l~~~~~~L~~L~l~~n~l~~lp-~~~~l~~L~~L~l~  245 (454)
T 1jl5_A          204 NNS-LKKLPDLPLSLESIVAGNNILEELP-ELQNLPFLTTIYAD  245 (454)
T ss_dssp             SSC-CSSCCCCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECC
T ss_pred             CCc-CCcCCCCcCcccEEECcCCcCCccc-ccCCCCCCCEEECC
Confidence            554 11111122456666665543 2222 24555556655554

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

Probab=98.66  E-value=1.8e-08  Score=84.87  Aligned_cols=103  Identities=18%  Similarity=0.193  Sum_probs=64.5

Q ss_pred             CCceEEEEEeeCCCCCCCCCCc--CCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYY--NLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGC  179 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~--~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~c  179 (377)
                      .++++|++.-.        ...  .+|..+..+++|+.|+|++|.+.....+..+++|++|++++|.+.+. +...+.++
T Consensus        24 ~~L~~L~l~~n--------~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~~l   94 (168)
T 2ell_A           24 AAVRELVLDNC--------KSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGG-LDMLAEKL   94 (168)
T ss_dssp             TSCSEEECCSC--------BCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSC-CCHHHHHC
T ss_pred             ccCCEEECCCC--------CCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchH-HHHHHhhC
Confidence            45677766521        222  56766677788888888888764445667788888888888877432 33445567


Q ss_pred             cccccccccccc--ccee-eccCCCCCCcEEEEcccC
Q 042962          180 PLIEFISIISCR--GLKH-LELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       180 p~Le~L~L~~c~--~l~~-l~i~~l~~L~~L~i~~~~  213 (377)
                      ++|+.|++++|.  ++.. -.+..+++|+.|.+.+|.
T Consensus        95 ~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~  131 (168)
T 2ell_A           95 PNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCE  131 (168)
T ss_dssp             TTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSG
T ss_pred             CCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCc
Confidence            778888777763  1111 123345666666666665

>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=98.65  E-value=4.3e-08  Score=98.71  Aligned_cols=139  Identities=12%  Similarity=0.039  Sum_probs=72.5

Q ss_pred             CCcccccccccccc--cceeeccCCCCCCcEEEEcccC--CCchh---hhcCCcccEEEEeccc-cC-Ccee-eccCCCc
Q 042962          178 GCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLEQV---YIQGMNAHSVHIIGLH-ML-PHIS-VVPCKNL  247 (377)
Q Consensus       178 ~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~~~---~~~~p~L~~L~l~g~~-~~-~~~~-~~~~~~L  247 (377)
                      .+++|+.|+++++.  +...-.+..+++|+.|.+.+|.  .++.+   ....++|++|+++++. .. ++.. +..+++|
T Consensus       351 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L  430 (562)
T 3a79_B          351 SPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESI  430 (562)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTC
T ss_pred             CCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccC
Confidence            44555555555442  1111122234555555555544  11111   1234555555554443 11 2221 3444555


Q ss_pred             cccchh------hhccCC-CCCceEeccCCccceEE--ccCcccccccccccCCcceEEEcccccccC-cc-ccccceEE
Q 042962          248 KKLKLC------QEIVDC-MKLRSIKISSFCLKSFL--FIGYDTLDELKLCTPNLSIFKYHGDLISFS-ST-ALALSEIA  316 (377)
Q Consensus       248 ~~L~L~------~~l~~~-~~L~~L~i~~~~L~~l~--l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~-l~-~~~L~~l~  316 (377)
                      +.|+++      .....+ ++|+.|++++|.++.+.  +.++++|+.+++..+++..       +|.. +. .++|+.++
T Consensus       431 ~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L~~N~l~~-------l~~~~~~~l~~L~~L~  503 (562)
T 3a79_B          431 LVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKS-------VPDGVFDRLTSLQYIW  503 (562)
T ss_dssp             CEEECCSSCCCGGGGSSCCTTCSEEECCSSCCCCCCTTTTSSCCCSEEECCSSCCCC-------CCTTSTTTCTTCCCEE
T ss_pred             CEEECCCCCCCcchhhhhcCcCCEEECCCCcCcccChhhcCCCCCCEEECCCCCCCC-------CCHHHHhcCCCCCEEE
Confidence            555554      112233 58899999999888653  3456678888887777543       3432 32 36799999


Q ss_pred             EEecCCC
Q 042962          317 LVFNPDN  323 (377)
Q Consensus       317 l~~n~~~  323 (377)
                      ++.|+-.
T Consensus       504 l~~N~~~  510 (562)
T 3a79_B          504 LHDNPWD  510 (562)
T ss_dssp             CCSCCBC
T ss_pred             ecCCCcC
Confidence            9987653

>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=98.62  E-value=2.4e-07  Score=90.95  Aligned_cols=131  Identities=14%  Similarity=0.034  Sum_probs=55.9

Q ss_pred             CcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEccc
Q 042962          133 KSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      ++|++|++++|.+...+..  .++|++|++++|.+.+  +.. ++++++|++|+++++. +..+... .++|+.|++.+|
T Consensus       111 ~~L~~L~l~~n~l~~l~~~--~~~L~~L~L~~n~l~~--lp~-~~~l~~L~~L~l~~N~-l~~lp~~-~~~L~~L~L~~n  183 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL--PPLLEYLGVSNNQLEK--LPE-LQNSSFLKIIDVDNNS-LKKLPDL-PPSLEFIAAGNN  183 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC--CTTCCEEECCSSCCSS--CCC-CTTCTTCCEEECCSSC-CSCCCCC-CTTCCEEECCSS
T ss_pred             CCCcEEECCCCccCcccCC--CCCCCEEECcCCCCCC--Ccc-cCCCCCCCEEECCCCc-CcccCCC-cccccEEECcCC
Confidence            4455555555443211111  1355555555555432  112 4455555555555542 2112111 245555555555


Q ss_pred             C--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccce
Q 042962          213 Y--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       213 ~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~  274 (377)
                      .  .++. ...+++|+.|.++++. ..++.   ...+|++|+++       ..++++++|+.|++++|+++.
T Consensus       184 ~l~~l~~-~~~l~~L~~L~l~~N~l~~l~~---~~~~L~~L~l~~n~l~~lp~~~~l~~L~~L~l~~N~l~~  251 (454)
T 1jl5_A          184 QLEELPE-LQNLPFLTAIYADNNSLKKLPD---LPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKT  251 (454)
T ss_dssp             CCSSCCC-CTTCTTCCEEECCSSCCSSCCC---CCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSS
T ss_pred             cCCcCcc-ccCCCCCCEEECCCCcCCcCCC---CcCcccEEECcCCcCCcccccCCCCCCCEEECCCCcCCc
Confidence            4  2221 1234555555554442 11111   11244444443       123455556666666555543

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

Probab=98.62  E-value=1.5e-08  Score=83.44  Aligned_cols=66  Identities=17%  Similarity=0.178  Sum_probs=36.7

Q ss_pred             CCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .+|..+..+++|+.|++++|.+.....+..+++|++|++++|.+.+. +...+..+++|+.|++++|
T Consensus        33 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~-~~~~~~~l~~L~~L~ls~N   98 (149)
T 2je0_A           33 KLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGG-LEVLAEKCPNLTHLNLSGN   98 (149)
T ss_dssp             BCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSC-THHHHHHCTTCCEEECTTS
T ss_pred             HHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccch-HHHHhhhCCCCCEEECCCC
Confidence            45555555666666666666553334455566666666666665332 2333444566666666655

>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=98.60  E-value=4.6e-08  Score=86.44  Aligned_cols=136  Identities=13%  Similarity=0.130  Sum_probs=82.5

Q ss_pred             CCcCCCccccccCcccEEEeccccccC--C-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--ccee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLES--P-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKH  195 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~~--p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~  195 (377)
                      ....+|..+  ...++.|+|++|.+..  + ..+.++++|+.|+|++|.+++-. ...+.++++|+.|+|+++.  ++..
T Consensus        22 ~l~~iP~~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~-~~~~~~l~~L~~L~Ls~N~l~~~~~   98 (220)
T 2v70_A           22 KLNKIPEHI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIE-EGAFEGASGVNEILLTSNRLENVQH   98 (220)
T ss_dssp             CCSSCCSCC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSSCCCCCCG
T ss_pred             CcccCccCC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEEC-HHHhCCCCCCCEEECCCCccCccCH
Confidence            344567654  3456888888887632  2 23678888888888888774321 1235677888888888763  2222


Q ss_pred             eccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEecccc-CCceeeccCCCccccchhhhccCCCCCceEeccCCc
Q 042962          196 LELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLHM-LPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFC  271 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~~-~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~  271 (377)
                      -.+.++++|++|.++++.  .+ +.....+++|+.|+++++.. .++.              ..+.++++|+.|++++|.
T Consensus        99 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A           99 KMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAP--------------GAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             GGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCT--------------TTTTTCTTCCEEECCSCC
T ss_pred             hHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECH--------------HHhcCCCCCCEEEecCcC
Confidence            224456778888887776  11 12223456777777755431 1100              234566778888888877


Q ss_pred             cc
Q 042962          272 LK  273 (377)
Q Consensus       272 L~  273 (377)
                      +.
T Consensus       165 l~  166 (220)
T 2v70_A          165 FN  166 (220)
T ss_dssp             EE
T ss_pred             Cc
Confidence            65

>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=98.59  E-value=5.9e-08  Score=86.23  Aligned_cols=136  Identities=11%  Similarity=0.006  Sum_probs=91.7

Q ss_pred             CCcCCCccccccCcccEEEeccccccC--CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLES--PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~~--p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+  .++|++|+|++|.+..  |..+.++++|+.|+|++|.+.. .....+.++++|+.|+|+++.  ++..-
T Consensus        30 ~l~~ip~~~--~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~-i~~~~~~~l~~L~~L~Ls~N~l~~l~~~  106 (229)
T 3e6j_A           30 RHASVPAGI--PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGA-LPVGVFDSLTQLTVLDLGTNQLTVLPSA  106 (229)
T ss_dssp             CCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CcCccCCCC--CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCC-cChhhcccCCCcCEEECCCCcCCccChh
Confidence            456677655  3889999999998742  3467889999999999998832 112346778999999998873  22222


Q ss_pred             ccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEecccc-CCceeeccCCCccccchhhhccCCCCCceEeccCCccc
Q 042962          197 ELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLHM-LPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~~-~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~  273 (377)
                      .+..+++|+.|.+.++.  .++......++|+.|+++++.. .++.              ..+.++++|+.|++++|.+.
T Consensus       107 ~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          107 VFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPH--------------GAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             TTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCT--------------TTTTTCTTCCEEECTTSCBC
T ss_pred             HhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCH--------------HHHhCCCCCCEEEeeCCCcc
Confidence            23456889999998887  3333335667888888866531 1110              13456777888888888765

>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=98.59  E-value=6.3e-08  Score=98.13  Aligned_cols=116  Identities=13%  Similarity=0.075  Sum_probs=77.3

Q ss_pred             CCCCcEEEEcccC---CCchhhhcCCcccEEEEeccc--c-CCceeeccCCCccccchh---------hhccCCCCCceE
Q 042962          201 LGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGLH--M-LPHISVVPCKNLKKLKLC---------QEIVDCMKLRSI  265 (377)
Q Consensus       201 l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~~--~-~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L  265 (377)
                      +++++.+.+..+.   .........++|+.|.++++.  . ..+..+..+++|++|+|+         ..++++++|+.|
T Consensus       444 l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L  523 (635)
T 4g8a_A          444 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL  523 (635)
T ss_dssp             CTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEE
T ss_pred             ccccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEE
Confidence            4566666666665   122333456778888887663  1 233346778888888887         346788899999


Q ss_pred             eccCCccceEE---ccCcccccccccccCCcceEEEcccccccCccc--cccceEEEEecCC
Q 042962          266 KISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSSTA--LALSEIALVFNPD  322 (377)
Q Consensus       266 ~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~--~~L~~l~l~~n~~  322 (377)
                      ++++|+++.+.   +.++++|+.++++.+++...      .|..+..  ++|+.++++.|+-
T Consensus       524 ~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~------~~~~l~~l~~~L~~L~L~~Np~  579 (635)
T 4g8a_A          524 NMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS------KKQELQHFPSSLAFLNLTQNDF  579 (635)
T ss_dssp             ECTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBC------CSSCTTCCCTTCCEEECTTCCB
T ss_pred             ECCCCcCCCCChhHHhCCCCCCEEECCCCcCCCC------CHHHHHhhhCcCCEEEeeCCCC
Confidence            99998888764   45667788888887776432      2333322  4789999987764

>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=98.58  E-value=8.4e-08  Score=97.20  Aligned_cols=129  Identities=13%  Similarity=0.104  Sum_probs=85.8

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee--
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL--  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l--  196 (377)
                      ....+|..+  -+++++|+|++|.+. .| ..+.++++|++|+|++|.+..- ....+.++++|++|+|+++. +..+  
T Consensus        42 ~l~~vP~~l--p~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i-~~~~f~~L~~L~~L~Ls~N~-l~~l~~  117 (635)
T 4g8a_A           42 NFYKIPDNL--PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTI-EDGAYQSLSHLSTLILTGNP-IQSLAL  117 (635)
T ss_dssp             CCSSCCSSS--CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEE-CTTTTTTCTTCCEEECTTCC-CCEECG
T ss_pred             CcCccCCCC--CcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCc-ChhHhcCCCCCCEEEccCCc-CCCCCH
Confidence            455677654  357899999988873 33 3688899999999999877321 12236778999999998874 3333  


Q ss_pred             -ccCCCCCCcEEEEcccC--CCch-hhhcCCcccEEEEeccc-c--CCceeeccCCCccccchh
Q 042962          197 -ELPNLGKLKEFKVYDEY--GLEQ-VYIQGMNAHSVHIIGLH-M--LPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       197 -~i~~l~~L~~L~i~~~~--~~~~-~~~~~p~L~~L~l~g~~-~--~~~~~~~~~~~L~~L~L~  253 (377)
                       .+.++++|++|++.+|.  .++. ....+++|++|+++++. .  ..+..++.+++|++|+++
T Consensus       118 ~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~  181 (635)
T 4g8a_A          118 GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLS  181 (635)
T ss_dssp             GGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECC
T ss_pred             HHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhccc
Confidence             24567889999998886  2222 22456888888887764 1  223334556666666655

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.58  E-value=3.2e-09  Score=101.04  Aligned_cols=58  Identities=12%  Similarity=0.019  Sum_probs=27.0

Q ss_pred             CcccEEEeccccccCC-CC-----CCCC-CCCCeeeccceeeCh---HHHHHHhcC-Cccccccccccc
Q 042962          133 KSMSLLGLDSCKLESP-RG-----NVTL-SCLRELRPRHVCADD---QVIKDLISG-CPLIEFISIISC  190 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p-~~-----~~~l-~~L~~L~L~~~~~~~---~~l~~l~~~-cp~Le~L~L~~c  190 (377)
                      ++|++|+|++|.+... +.     +..+ ++|++|+|++|.+++   ..+...+.. +++|++|++++|
T Consensus        80 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N  148 (362)
T 3goz_A           80 ANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGN  148 (362)
T ss_dssp             TTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTS
T ss_pred             CCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCC
Confidence            5566666665554311 10     2223 456666666655532   222222333 345666666554

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

Probab=98.56  E-value=7.8e-08  Score=83.83  Aligned_cols=138  Identities=12%  Similarity=0.060  Sum_probs=89.5

Q ss_pred             cEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee---ccCCCCCCcEEEEcc
Q 042962          136 SLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPNLGKLKEFKVYD  211 (377)
Q Consensus       136 ~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~l~~L~~L~i~~  211 (377)
                      +.++.+++.+. .|..  -.++|++|+++++.+++ .....+.++++|++|+++++. +..+   .+..+++|+.|++.+
T Consensus        10 ~~v~c~~~~l~~~p~~--~~~~l~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~   85 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTG--IPAQTTYLDLETNSLKS-LPNGVFDELTSLTQLYLGGNK-LQSLPNGVFNKLTSLTYLNLST   85 (208)
T ss_dssp             TEEECCSSCCSSCCSC--CCTTCSEEECCSSCCCC-CCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEecCCCccCCCCC--CCCCCcEEEcCCCccCc-CChhhhcccccCcEEECCCCc-cCccChhhcCCCCCcCEEECCC
Confidence            45666666653 3322  35689999999998852 122346789999999999873 2222   234568999999998


Q ss_pred             cC--CCch-hhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE---ccCccccc
Q 042962          212 EY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL---FIGYDTLD  284 (377)
Q Consensus       212 ~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~  284 (377)
                      +.  .+.. .....++|++|+++++. ..++.              ..+.++++|+.|++++|.++.+.   +..+.+|+
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~  151 (208)
T 2o6s_A           86 NQLQSLPNGVFDKLTQLKELALNTNQLQSLPD--------------GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQ  151 (208)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT--------------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCC
T ss_pred             CcCCccCHhHhcCccCCCEEEcCCCcCcccCH--------------hHhccCCcCCEEECCCCccceeCHHHhccCCCcc
Confidence            87  2222 22456888888886653 11110              13466788888999888887654   34456677


Q ss_pred             ccccccC
Q 042962          285 ELKLCTP  291 (377)
Q Consensus       285 ~l~l~~~  291 (377)
                      .+.+..+
T Consensus       152 ~L~l~~N  158 (208)
T 2o6s_A          152 YIWLHDN  158 (208)
T ss_dssp             EEECCSC
T ss_pred             EEEecCC
Confidence            7666554

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.56  E-value=1.4e-08  Score=96.57  Aligned_cols=214  Identities=11%  Similarity=0.067  Sum_probs=120.0

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCC-----ccccccC-cccEEEeccccccCC--CCCCC-----CCCCCeeeccceeeC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLP-----QLVFYAK-SMSLLGLDSCKLESP--RGNVT-----LSCLRELRPRHVCAD  168 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp-----~~l~~~~-~L~~L~L~~~~~~~p--~~~~~-----l~~L~~L~L~~~~~~  168 (377)
                      .++++|++...        .....+     ..+..++ +|++|+|++|.+...  ..+..     +++|++|+|++|.++
T Consensus        22 ~~L~~L~Ls~n--------~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~   93 (362)
T 3goz_A           22 HGVTSLDLSLN--------NLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLS   93 (362)
T ss_dssp             TTCCEEECTTS--------CGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGG
T ss_pred             CCceEEEccCC--------CCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCC
Confidence            45777777521        223333     3344566 899999999887432  12233     288999999999874


Q ss_pred             h---HHHHHHhcCC-cccccccccccc--ccee--e--ccCC-CCCCcEEEEcccC-C---Cchh---hhcCC-cccEEE
Q 042962          169 D---QVIKDLISGC-PLIEFISIISCR--GLKH--L--ELPN-LGKLKEFKVYDEY-G---LEQV---YIQGM-NAHSVH  229 (377)
Q Consensus       169 ~---~~l~~l~~~c-p~Le~L~L~~c~--~l~~--l--~i~~-l~~L~~L~i~~~~-~---~~~~---~~~~p-~L~~L~  229 (377)
                      +   ..+...+..+ ++|+.|++++|.  ....  +  .+.. .++|++|++++|. .   ...+   ....+ +|++|+
T Consensus        94 ~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~  173 (362)
T 3goz_A           94 YKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLN  173 (362)
T ss_dssp             GSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEE
T ss_pred             hHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEee
Confidence            3   4444555666 899999999874  1111  1  1222 2589999999887 1   1111   12334 899999


Q ss_pred             Eeccc-c-CCce----eeccC-CCccccchh-------------hhccC-CCCCceEeccCCccceEEc-------cCcc
Q 042962          230 IIGLH-M-LPHI----SVVPC-KNLKKLKLC-------------QEIVD-CMKLRSIKISSFCLKSFLF-------IGYD  281 (377)
Q Consensus       230 l~g~~-~-~~~~----~~~~~-~~L~~L~L~-------------~~l~~-~~~L~~L~i~~~~L~~l~l-------~~c~  281 (377)
                      ++++. . ..+.    .+..+ .+|+.|+|+             ..+.. .++|+.|++++|.+.....       ..+.
T Consensus       174 Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~  253 (362)
T 3goz_A          174 LRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLK  253 (362)
T ss_dssp             CTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTT
T ss_pred             ecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCC
Confidence            97764 1 1111    13344 488888887             11222 4588888888888765432       2333


Q ss_pred             cccccccccCCcceEEEcc-cccccCcc-ccccceEEEEecCCC
Q 042962          282 TLDELKLCTPNLSIFKYHG-DLISFSST-ALALSEIALVFNPDN  323 (377)
Q Consensus       282 ~L~~l~l~~~~L~~~~~~~-~~~p~~l~-~~~L~~l~l~~n~~~  323 (377)
                      +|+.+.++.+.+....-.+ ..++..+. .++|++++++.|.-.
T Consensus       254 ~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N~l~  297 (362)
T 3goz_A          254 HLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGKEIH  297 (362)
T ss_dssp             TCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSCBCC
T ss_pred             CccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCCcCC
Confidence            4444444433321110000 11122222 356888888877543

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

Probab=98.56  E-value=3.2e-08  Score=83.27  Aligned_cols=99  Identities=13%  Similarity=0.100  Sum_probs=62.1

Q ss_pred             cCcccEEEecccccc---CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccce--eeccCCCCCCcE
Q 042962          132 AKSMSLLGLDSCKLE---SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLK--HLELPNLGKLKE  206 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~---~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~--~l~i~~l~~L~~  206 (377)
                      .++|+.|+|++|.+.   .|..+..+++|+.|++.+|.+.+-   ..+..+++|+.|++++|.-..  +-.+..+++|+.
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   99 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV---SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC---SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh---hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            467899999988874   444567888899999988887433   346667777777777663111  111112567777


Q ss_pred             EEEcccC--CCc--hhhhcCCcccEEEEecc
Q 042962          207 FKVYDEY--GLE--QVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       207 L~i~~~~--~~~--~~~~~~p~L~~L~l~g~  233 (377)
                      |.+.+|.  .++  .....+++|+.|+++++
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N  130 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNC  130 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSS
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCC
Confidence            7777665  222  12234566666666554

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

Probab=98.56  E-value=1.3e-07  Score=95.42  Aligned_cols=168  Identities=15%  Similarity=0.041  Sum_probs=114.0

Q ss_pred             cCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEc
Q 042962          132 AKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVY  210 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~  210 (377)
                      +.+|+.|+|++|.+. +|..+  +++|++|+|++|.++.  +.   ..+++|+.|+++++. +..+..- ..+|+.|.++
T Consensus        58 ~~~L~~L~Ls~n~L~~lp~~l--~~~L~~L~Ls~N~l~~--ip---~~l~~L~~L~Ls~N~-l~~ip~l-~~~L~~L~Ls  128 (571)
T 3cvr_A           58 INQFSELQLNRLNLSSLPDNL--PPQITVLEITQNALIS--LP---ELPASLEYLDACDNR-LSTLPEL-PASLKHLDVD  128 (571)
T ss_dssp             HTTCSEEECCSSCCSCCCSCC--CTTCSEEECCSSCCSC--CC---CCCTTCCEEECCSSC-CSCCCCC-CTTCCEEECC
T ss_pred             cCCccEEEeCCCCCCccCHhH--cCCCCEEECcCCCCcc--cc---cccCCCCEEEccCCC-CCCcchh-hcCCCEEECC
Confidence            358999999999874 44333  4899999999998852  22   568999999999883 2222221 1499999999


Q ss_pred             ccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-hhccCC----CCCceEeccCCccceEEccCccc
Q 042962          211 DEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-QEIVDC----MKLRSIKISSFCLKSFLFIGYDT  282 (377)
Q Consensus       211 ~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-~~l~~~----~~L~~L~i~~~~L~~l~l~~c~~  282 (377)
                      +|.  .++.   ..++|+.|+++++. ..++.   .+++|+.|+++ ..+..+    ++|+.|++++|.++.+.- -..+
T Consensus       129 ~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~L~~lp~l~~~L~~L~Ls~N~L~~lp~-~~~~  201 (571)
T 3cvr_A          129 NNQLTMLPE---LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNNQLTFLPELPESLEALDVSTNLLESLPA-VPVR  201 (571)
T ss_dssp             SSCCSCCCC---CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCC-CC--
T ss_pred             CCcCCCCCC---cCccccEEeCCCCccCcCCC---cCCCcCEEECCCCCCCCcchhhCCCCEEECcCCCCCchhh-HHHh
Confidence            997  3333   67899999998875 33332   56788888887 222222    688899999988875443 2225


Q ss_pred             c-------cccccccCCcceEEEcccccccCc-cccccceEEEEecCC
Q 042962          283 L-------DELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNPD  322 (377)
Q Consensus       283 L-------~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~~  322 (377)
                      |       +.+.++.+++.       .+|..+ ..++|+.|+++.|+-
T Consensus       202 L~~~~~~L~~L~Ls~N~l~-------~lp~~l~~l~~L~~L~L~~N~l  242 (571)
T 3cvr_A          202 NHHSEETEIFFRCRENRIT-------HIPENILSLDPTCTIILEDNPL  242 (571)
T ss_dssp             ------CCEEEECCSSCCC-------CCCGGGGGSCTTEEEECCSSSC
T ss_pred             hhcccccceEEecCCCcce-------ecCHHHhcCCCCCEEEeeCCcC
Confidence            5       66666666654       344332 236788888887755

>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=98.56  E-value=1.1e-07  Score=84.45  Aligned_cols=140  Identities=14%  Similarity=0.054  Sum_probs=94.1

Q ss_pred             cccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee---ccCCCCCCcEEEE
Q 042962          134 SMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPNLGKLKEFKV  209 (377)
Q Consensus       134 ~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~l~~L~~L~i  209 (377)
                      +-+.++.+++.+. +|..+  .++|++|+|+++.+.+-. ...+.++++|+.|+|+++. +..+   .+..+++|+.|++
T Consensus        20 s~~~v~c~~~~l~~ip~~~--~~~L~~L~Ls~n~i~~~~-~~~~~~l~~L~~L~L~~N~-l~~i~~~~~~~l~~L~~L~L   95 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPAGI--PTNAQILYLHDNQITKLE-PGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDL   95 (229)
T ss_dssp             ETTEEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEEC
T ss_pred             eCCEeEccCCCcCccCCCC--CCCCCEEEcCCCccCccC-HHHhhCccCCcEEECCCCC-CCCcChhhcccCCCcCEEEC
Confidence            3567888887763 44333  389999999999885422 2336789999999999874 2322   2345789999999


Q ss_pred             cccC--CCch-hhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE---ccCccc
Q 042962          210 YDEY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL---FIGYDT  282 (377)
Q Consensus       210 ~~~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~  282 (377)
                      +++.  .+.. .....++|++|.++++. ..++               ..+.++++|+.|++++|.++.+.   +..+.+
T Consensus        96 s~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp---------------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  160 (229)
T 3e6j_A           96 GTNQLTVLPSAVFDRLVHLKELFMCCNKLTELP---------------RGIERLTHLTHLALDQNQLKSIPHGAFDRLSS  160 (229)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCSCC---------------TTGGGCTTCSEEECCSSCCCCCCTTTTTTCTT
T ss_pred             CCCcCCccChhHhCcchhhCeEeccCCcccccC---------------cccccCCCCCEEECCCCcCCccCHHHHhCCCC
Confidence            9987  2222 22357889999887653 2111               23456778888888888888765   344556


Q ss_pred             ccccccccCC
Q 042962          283 LDELKLCTPN  292 (377)
Q Consensus       283 L~~l~l~~~~  292 (377)
                      |+.+.+..+.
T Consensus       161 L~~L~l~~N~  170 (229)
T 3e6j_A          161 LTHAYLFGNP  170 (229)
T ss_dssp             CCEEECTTSC
T ss_pred             CCEEEeeCCC
Confidence            6666665544

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.54  E-value=9.7e-08  Score=84.31  Aligned_cols=136  Identities=9%  Similarity=0.085  Sum_probs=90.2

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|+.|+|++|.+. .+ ..+.++++|+.|+|++|.+.+-. ...+.++++|+.|+|+++.  .+..-
T Consensus        22 ~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~-~~~~~~l~~L~~L~Ls~N~l~~l~~~   98 (220)
T 2v9t_B           22 GLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELA-PDAFQGLRSLNSLVLYGNKITELPKS   98 (220)
T ss_dssp             CCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEEC-TTTTTTCSSCCEEECCSSCCCCCCTT
T ss_pred             CcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcC-HHHhhCCcCCCEEECCCCcCCccCHh
Confidence            4556776653  68999999998873 33 36788999999999999874321 2236778999999998773  22221


Q ss_pred             ccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          197 ELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      .+.++++|+.|.+.++.  .+ .......++|+.|+++++. ..++.              ..+..+++|+.|++++|.+
T Consensus        99 ~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B           99 LFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAK--------------GTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             TTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT--------------TTTTTCTTCCEEECCSSCE
T ss_pred             HccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECH--------------HHHhCCCCCCEEEeCCCCc
Confidence            23446888888888887  22 2222356788888886653 11111              1345677788888888876


Q ss_pred             c
Q 042962          273 K  273 (377)
Q Consensus       273 ~  273 (377)
                      .
T Consensus       165 ~  165 (220)
T 2v9t_B          165 I  165 (220)
T ss_dssp             E
T ss_pred             C
Confidence            4

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

Probab=98.53  E-value=9.2e-08  Score=78.70  Aligned_cols=118  Identities=11%  Similarity=-0.009  Sum_probs=84.3

Q ss_pred             cCcccEEEecccccc---CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccce--eeccCCCCCCcE
Q 042962          132 AKSMSLLGLDSCKLE---SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLK--HLELPNLGKLKE  206 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~---~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~--~l~i~~l~~L~~  206 (377)
                      .++|+.|++++|.+.   .|..+..+++|+.|++++|.+.+-   ..++.++.|+.|++++|.-..  +-.+..+++|+.
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~---~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~   92 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI---ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTH   92 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC---TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc---hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCE
Confidence            467999999999875   455678999999999999988543   457889999999999884221  112223699999


Q ss_pred             EEEcccC--CCc--hhhhcCCcccEEEEeccc-cCCce----eeccCCCccccch
Q 042962          207 FKVYDEY--GLE--QVYIQGMNAHSVHIIGLH-MLPHI----SVVPCKNLKKLKL  252 (377)
Q Consensus       207 L~i~~~~--~~~--~~~~~~p~L~~L~l~g~~-~~~~~----~~~~~~~L~~L~L  252 (377)
                      |.+++|.  ..+  .....+++|++|+++++. ...+.    .+..+++|+.|++
T Consensus        93 L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           93 LNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             EECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETT
T ss_pred             EECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccC
Confidence            9999998  222  334568999999998774 22221    2455555555544

>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=98.52  E-value=5e-09  Score=102.56  Aligned_cols=238  Identities=13%  Similarity=0.099  Sum_probs=145.1

Q ss_pred             CceEEEEEEeccCCccchhhHHHHHH-HHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccC--C
Q 042962           72 SLEKFTFIVQLSDDVKFVSSIYRCLR-YAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLES--P  148 (377)
Q Consensus        72 ~i~~l~l~~~~~~~~~~~~~i~~wi~-~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~--p  148 (377)
                      .++.+.+...   ..   ... .|.. ...-.+++.|++....-.   +.....+|..+..+++|++|+|++|.+..  +
T Consensus         4 ~l~~L~Ls~~---~l---~~~-~~~~~~~~~~~L~~L~L~~~~l~---~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~   73 (461)
T 1z7x_W            4 DIQSLDIQCE---EL---SDA-RWAELLPLLQQCQVVRLDDCGLT---EARCKDISSALRVNPALAELNLRSNELGDVGV   73 (461)
T ss_dssp             EEEEEEEESC---CC---CHH-HHHHHHHHHTTCSEEEEESSCCC---HHHHHHHHHHHHTCTTCCEEECTTCCCHHHHH
T ss_pred             cceehhhhhc---cc---Cch-hHHHHHhhcCCccEEEccCCCCC---HHHHHHHHHHHHhCCCcCEEeCCCCcCChHHH
Confidence            3667777433   21   111 2444 333478999999732210   00112456667788999999999987632  1


Q ss_pred             CC-CCCCC----CCCeeeccceeeCh---HHHHHHhcCCccccccccccccc----ceeec---cCCCCCCcEEEEcccC
Q 042962          149 RG-NVTLS----CLRELRPRHVCADD---QVIKDLISGCPLIEFISIISCRG----LKHLE---LPNLGKLKEFKVYDEY  213 (377)
Q Consensus       149 ~~-~~~l~----~L~~L~L~~~~~~~---~~l~~l~~~cp~Le~L~L~~c~~----l~~l~---i~~l~~L~~L~i~~~~  213 (377)
                      .. ...++    +|++|+|++|.+++   ..+...+..+++|++|++++|.-    ...+.   ....++|++|.+.+|.
T Consensus        74 ~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~  153 (461)
T 1z7x_W           74 HCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCS  153 (461)
T ss_dssp             HHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC
T ss_pred             HHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCC
Confidence            11 12233    79999999999964   35566688999999999998841    11111   1123689999999997


Q ss_pred             CC-------chhhhcCCcccEEEEecccc-CC-ceee-----ccCCCccccchh-------------hhccCCCCCceEe
Q 042962          214 GL-------EQVYIQGMNAHSVHIIGLHM-LP-HISV-----VPCKNLKKLKLC-------------QEIVDCMKLRSIK  266 (377)
Q Consensus       214 ~~-------~~~~~~~p~L~~L~l~g~~~-~~-~~~~-----~~~~~L~~L~L~-------------~~l~~~~~L~~L~  266 (377)
                      ..       ......+++|++|+++++.. .. ...+     ...++|++|+++             ..+.++++|+.|+
T Consensus       154 l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~  233 (461)
T 1z7x_W          154 LSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELA  233 (461)
T ss_dssp             CBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEE
T ss_pred             CCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEe
Confidence            11       12223468999999987641 10 0011     124578888876             2346789999999


Q ss_pred             ccCCccceEEc--------cCcccccccccccCCcceEEEcccccccCcc-ccccceEEEEecC
Q 042962          267 ISSFCLKSFLF--------IGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEIALVFNP  321 (377)
Q Consensus       267 i~~~~L~~l~l--------~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l~l~~n~  321 (377)
                      +++|.+....+        ..+.+|+.+.++.+++....  ...++..+. .++|++|+++.|.
T Consensus       234 Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~--~~~l~~~l~~~~~L~~L~Ls~n~  295 (461)
T 1z7x_W          234 LGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKG--CGDLCRVLRAKESLKELSLAGNE  295 (461)
T ss_dssp             CCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHH--HHHHHHHHHHCTTCCEEECTTCC
T ss_pred             ccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHH--HHHHHHHHhhCCCcceEECCCCC
Confidence            99988764321        13556777776665542200  011332222 3689999998774

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

Probab=98.48  E-value=1.1e-07  Score=90.48  Aligned_cols=129  Identities=16%  Similarity=0.161  Sum_probs=77.9

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCC-CCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNV-TLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~-~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-  196 (377)
                      ....+|..+.  +.++.|+|++|.+. .++ .+. ++++|++|+|++|.+.+-. ...+.++++|+.|+|+++. +..+ 
T Consensus        29 ~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~-~~~~~~l~~L~~L~Ls~N~-l~~~~  104 (361)
T 2xot_A           29 QLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFIS-SEAFVPVPNLRYLDLSSNH-LHTLD  104 (361)
T ss_dssp             CCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSSC-CCEEC
T ss_pred             CcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccC-hhhccCCCCCCEEECCCCc-CCcCC
Confidence            3455666543  45788888888763 232 344 7888888888888774221 1235678888888888764 3222 


Q ss_pred             --ccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc-cCCceee----ccCCCccccchh
Q 042962          197 --ELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH-MLPHISV----VPCKNLKKLKLC  253 (377)
Q Consensus       197 --~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~~~~----~~~~~L~~L~L~  253 (377)
                        .+.++++|+.|.+.+|.  .+ ......+++|+.|+++++. ..++..+    ..+++|+.|+|+
T Consensus       105 ~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A          105 EFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECC
T ss_pred             HHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECC
Confidence              23456888888888876  11 2223356788888887664 2233221    345556655554

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.47  E-value=1.7e-07  Score=82.79  Aligned_cols=140  Identities=11%  Similarity=0.134  Sum_probs=92.3

Q ss_pred             cEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEccc
Q 042962          136 SLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       136 ~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      +.++++++.+. +|..+  .++|+.|+|.++.+..-. ...+.++++|+.|+|+++.  ++..-.+.++++|+.|.++++
T Consensus        14 ~~v~c~~~~l~~iP~~l--~~~l~~L~l~~n~i~~i~-~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNL--PETITEIRLEQNTIKVIP-PGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSC--CTTCCEEECCSSCCCEEC-TTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCcc--CcCCCEEECCCCcCCCcC-HhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            56788887763 34333  268999999999874321 1236778999999999874  222224556789999999988


Q ss_pred             C--CCch-hhhcCCcccEEEEecccc-CCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE---ccCcccccc
Q 042962          213 Y--GLEQ-VYIQGMNAHSVHIIGLHM-LPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDE  285 (377)
Q Consensus       213 ~--~~~~-~~~~~p~L~~L~l~g~~~-~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~  285 (377)
                      .  .++. ....+++|++|+++++.- ..+.              ..+.++++|+.|++++|.++.+.   +..+.+|+.
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  156 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNANKINCLRV--------------DAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQT  156 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCT--------------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCE
T ss_pred             cCCccCHhHccCCCCCCEEECCCCCCCEeCH--------------HHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCE
Confidence            7  2222 223568888888876531 1110              24567788889999999888765   344556666


Q ss_pred             cccccCC
Q 042962          286 LKLCTPN  292 (377)
Q Consensus       286 l~l~~~~  292 (377)
                      +.+..+.
T Consensus       157 L~L~~N~  163 (220)
T 2v9t_B          157 MHLAQNP  163 (220)
T ss_dssp             EECCSSC
T ss_pred             EEeCCCC
Confidence            6666554

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

Probab=98.45  E-value=7.3e-08  Score=81.84  Aligned_cols=101  Identities=11%  Similarity=-0.041  Sum_probs=61.8

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCC-CCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCCCCCC
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLS-CLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPNLGKL  204 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~-~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~l~~L  204 (377)
                      ...+.+|+.|++++|.+...+.+..+. +|+.|++++|.+.+-   ..+..+++|+.|+++++. +..+.   +..+++|
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~---~~l~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L   90 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL---DGFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDL   90 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE---CCCCCCSSCCEEECCSSC-CCEECSCHHHHCTTC
T ss_pred             cCCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc---cccccCCCCCEEECCCCc-ccccCcchhhcCCCC
Confidence            345777888888888764334444444 888888888877432   235667777777777663 22221   1335777


Q ss_pred             cEEEEcccC--CCch--hhhcCCcccEEEEecc
Q 042962          205 KEFKVYDEY--GLEQ--VYIQGMNAHSVHIIGL  233 (377)
Q Consensus       205 ~~L~i~~~~--~~~~--~~~~~p~L~~L~l~g~  233 (377)
                      +.|.+++|.  .++.  ....+++|+.|.++++
T Consensus        91 ~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N  123 (176)
T 1a9n_A           91 TELILTNNSLVELGDLDPLASLKSLTYLCILRN  123 (176)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS
T ss_pred             CEEECCCCcCCcchhhHhhhcCCCCCEEEecCC
Confidence            777777775  2222  2234567777777655

>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=98.42  E-value=3.2e-07  Score=80.90  Aligned_cols=96  Identities=9%  Similarity=0.077  Sum_probs=41.8

Q ss_pred             cEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEccc
Q 042962          136 SLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       136 ~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      +.++++++.+. +|..+  .+.++.|+|+++.+.+-.....+..+++|+.|+++++.  ++..-.+.++++|+.|.++++
T Consensus        14 ~~l~~s~n~l~~iP~~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   91 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSN   91 (220)
T ss_dssp             TEEECCSSCCSSCCSCC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEeEeCCCCcccCccCC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCC
Confidence            34555555442 22211  23445566655555322111224455556666655542  111112333455566665555


Q ss_pred             C--CC-chhhhcCCcccEEEEecc
Q 042962          213 Y--GL-EQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       213 ~--~~-~~~~~~~p~L~~L~l~g~  233 (377)
                      .  .+ ......+++|++|+++++
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~Ls~N  115 (220)
T 2v70_A           92 RLENVQHKMFKGLESLKTLMLRSN  115 (220)
T ss_dssp             CCCCCCGGGGTTCSSCCEEECTTS
T ss_pred             ccCccCHhHhcCCcCCCEEECCCC
Confidence            4  11 111223455555555444

>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=98.33  E-value=2.7e-07  Score=78.26  Aligned_cols=93  Identities=18%  Similarity=0.199  Sum_probs=70.6

Q ss_pred             CcCCCccccccCcccEEEeccccccCC--CCCCCCCCCCeeecccee-eChHHHHHHhcC---Cccccccccccccccee
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLESP--RGNVTLSCLRELRPRHVC-ADDQVIKDLISG---CPLIEFISIISCRGLKH  195 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~~p--~~~~~l~~L~~L~L~~~~-~~~~~l~~l~~~---cp~Le~L~L~~c~~l~~  195 (377)
                      ...+|......-.|+.|+|++|.+...  ..+.++++|++|+|++|. +++..+..+...   |++|++|+|++|..++.
T Consensus        50 ~~~LP~~~~~~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD  129 (176)
T 3e4g_A           50 YNHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTD  129 (176)
T ss_dssp             GGGSCCCSTTCCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCH
T ss_pred             cccCCcccCCCceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCH
Confidence            455675433445799999999985321  245789999999999995 799999996653   78999999999975543


Q ss_pred             ---eccCCCCCCcEEEEcccCC
Q 042962          196 ---LELPNLGKLKEFKVYDEYG  214 (377)
Q Consensus       196 ---l~i~~l~~L~~L~i~~~~~  214 (377)
                         ..+..+++|++|.+.+|..
T Consensus       130 ~Gl~~L~~~~~L~~L~L~~c~~  151 (176)
T 3e4g_A          130 KGIIALHHFRNLKYLFLSDLPG  151 (176)
T ss_dssp             HHHHHGGGCTTCCEEEEESCTT
T ss_pred             HHHHHHhcCCCCCEEECCCCCC
Confidence               1334579999999999973

>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=98.32  E-value=6.8e-08  Score=94.41  Aligned_cols=195  Identities=14%  Similarity=0.088  Sum_probs=115.6

Q ss_pred             CCccccccCcccEEEeccccccCC--CCC-----CCCCCCCeeeccceeeChHH---HHHHhcCCcccccccccccc---
Q 042962          125 LPQLVFYAKSMSLLGLDSCKLESP--RGN-----VTLSCLRELRPRHVCADDQV---IKDLISGCPLIEFISIISCR---  191 (377)
Q Consensus       125 lp~~l~~~~~L~~L~L~~~~~~~p--~~~-----~~l~~L~~L~L~~~~~~~~~---l~~l~~~cp~Le~L~L~~c~---  191 (377)
                      ++..+..+++|++|+|++|.+...  ..+     ...++|++|++++|.+++..   +...+..+++|++|++++|.   
T Consensus       162 l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~  241 (461)
T 1z7x_W          162 LASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGD  241 (461)
T ss_dssp             HHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHH
T ss_pred             HHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCCh
Confidence            455566788999999998876321  111     13568999999999885433   44556788999999999873   


Q ss_pred             -cceee---ccCCCCCCcEEEEcccCC-------CchhhhcCCcccEEEEeccccC------Cceee-ccCCCccccchh
Q 042962          192 -GLKHL---ELPNLGKLKEFKVYDEYG-------LEQVYIQGMNAHSVHIIGLHML------PHISV-VPCKNLKKLKLC  253 (377)
Q Consensus       192 -~l~~l---~i~~l~~L~~L~i~~~~~-------~~~~~~~~p~L~~L~l~g~~~~------~~~~~-~~~~~L~~L~L~  253 (377)
                       +...+   ....+++|++|.+.+|..       +......+++|++|+++++...      +...+ ...++|++|+++
T Consensus       242 ~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~  321 (461)
T 1z7x_W          242 VGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVK  321 (461)
T ss_dssp             HHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECT
T ss_pred             HHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcC
Confidence             11111   111358899999998861       1222234788999998776310      00001 123577777776


Q ss_pred             -------------hhccCCCCCceEeccCCccceEEc---cC-----cccccccccccCCcceEEEcc-cccccCcc-cc
Q 042962          254 -------------QEIVDCMKLRSIKISSFCLKSFLF---IG-----YDTLDELKLCTPNLSIFKYHG-DLISFSST-AL  310 (377)
Q Consensus       254 -------------~~l~~~~~L~~L~i~~~~L~~l~l---~~-----c~~L~~l~l~~~~L~~~~~~~-~~~p~~l~-~~  310 (377)
                                   ..+.++++|+.|++++|.+.....   ..     +.+|+.+.++.+++..   .| ..+|..+. .+
T Consensus       322 ~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~---~~~~~l~~~l~~~~  398 (461)
T 1z7x_W          322 SCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSD---SSCSSLAATLLANH  398 (461)
T ss_dssp             TSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCH---HHHHHHHHHHHHCC
T ss_pred             CCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCCh---hhHHHHHHHHHhCC
Confidence                         224567888888888887654211   11     3356666555544321   00 12332222 36


Q ss_pred             ccceEEEEecCC
Q 042962          311 ALSEIALVFNPD  322 (377)
Q Consensus       311 ~L~~l~l~~n~~  322 (377)
                      +|++++++.|.-
T Consensus       399 ~L~~L~l~~N~i  410 (461)
T 1z7x_W          399 SLRELDLSNNCL  410 (461)
T ss_dssp             CCCEEECCSSSC
T ss_pred             CccEEECCCCCC
Confidence            788888876643

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

Probab=98.28  E-value=7.5e-07  Score=76.73  Aligned_cols=90  Identities=16%  Similarity=0.146  Sum_probs=54.0

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC--CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--ccee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR--GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKH  195 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~--~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~  195 (377)
                      ....+|..+..  +|++|+|++|.+. .++  .+..+++|++|+|++|.+++-.. ..+.+++.|+.|+|+++.  ++..
T Consensus        19 ~l~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l~~L~~L~Ls~N~l~~~~~   95 (192)
T 1w8a_A           19 GLKEIPRDIPL--HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEP-NAFEGASHIQELQLGENKIKEISN   95 (192)
T ss_dssp             CCSSCCSCCCT--TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCT-TTTTTCTTCCEEECCSCCCCEECS
T ss_pred             CcCcCccCCCC--CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCH-hHcCCcccCCEEECCCCcCCccCH
Confidence            34556765543  7888888888763 333  26778888888888887743211 235567777777777653  1111


Q ss_pred             eccCCCCCCcEEEEcccC
Q 042962          196 LELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~  213 (377)
                      -.+.++++|+.|.+.++.
T Consensus        96 ~~~~~l~~L~~L~L~~N~  113 (192)
T 1w8a_A           96 KMFLGLHQLKTLNLYDNQ  113 (192)
T ss_dssp             SSSTTCTTCCEEECCSSC
T ss_pred             HHhcCCCCCCEEECCCCc
Confidence            123334566666666554

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

Probab=98.26  E-value=8.1e-07  Score=76.69  Aligned_cols=66  Identities=12%  Similarity=0.070  Sum_probs=34.7

Q ss_pred             CcCCCccccccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ...+|..+.  ++|+.|+|++|.+. .|..+.++++|+.|+|++|.+++-. ...+.++++|+.|+|+++
T Consensus        22 l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~-~~~f~~l~~L~~L~Ls~N   88 (193)
T 2wfh_A           22 LKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLS-NQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             CSSCCSCCC--TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCC-TTTTTTCTTCCEEECCSS
T ss_pred             CCcCCCCCC--CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeC-HhHccCCCCCCEEECCCC
Confidence            344554432  46667777766653 3345556666666666666553211 112344555555555544

>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=98.26  E-value=1.8e-08  Score=87.33  Aligned_cols=109  Identities=14%  Similarity=0.068  Sum_probs=73.3

Q ss_pred             CcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccC
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELP  199 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~  199 (377)
                      ...+|..+..+++|++|+|++|.+...+.+.++++|++|++++|.+.  .+...+..+|+|+.|++++|.  ++.  .+.
T Consensus        37 l~~l~~~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~~L~~L~L~~N~l~~l~--~~~  112 (198)
T 1ds9_A           37 IEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK--KIENLDAVADTLEELWISYNQIASLS--GIE  112 (198)
T ss_dssp             CCCCHHHHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEEC--SCSSHHHHHHHCSEEEEEEEECCCHH--HHH
T ss_pred             HhhhhHHHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcc--cccchhhcCCcCCEEECcCCcCCcCC--ccc
Confidence            44566677788889999998888743346777888999999888874  223345557888888888773  221  233


Q ss_pred             CCCCCcEEEEcccC--CCch--hhhcCCcccEEEEeccc
Q 042962          200 NLGKLKEFKVYDEY--GLEQ--VYIQGMNAHSVHIIGLH  234 (377)
Q Consensus       200 ~l~~L~~L~i~~~~--~~~~--~~~~~p~L~~L~l~g~~  234 (377)
                      .+++|+.|.+.+|.  .++.  ....+++|++|+++++.
T Consensus       113 ~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A          113 KLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCH
T ss_pred             cCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCc
Confidence            35778888888776  2122  22356778888886653

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

Probab=98.25  E-value=5.2e-07  Score=85.68  Aligned_cols=138  Identities=16%  Similarity=0.125  Sum_probs=93.3

Q ss_pred             ccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhc-CCcccccccccccccceee---ccCCCCCCcEEEE
Q 042962          135 MSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLIS-GCPLIEFISIISCRGLKHL---ELPNLGKLKEFKV  209 (377)
Q Consensus       135 L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~-~cp~Le~L~L~~c~~l~~l---~i~~l~~L~~L~i  209 (377)
                      -+.++++++.+. .|..+  .+.++.|+|++|.+++-.. ..+. ++++|+.|+|+++. +..+   .+..+++|+.|++
T Consensus        20 ~~~l~c~~~~l~~iP~~~--~~~l~~L~Ls~N~l~~l~~-~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~~L~~L~L   95 (361)
T 2xot_A           20 SNILSCSKQQLPNVPQSL--PSYTALLDLSHNNLSRLRA-EWTPTRLTNLHSLLLSHNH-LNFISSEAFVPVPNLRYLDL   95 (361)
T ss_dssp             TTEEECCSSCCSSCCSSC--CTTCSEEECCSSCCCEECT-TSSSSCCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCCcCccCccC--CCCCCEEECCCCCCCccCh-hhhhhcccccCEEECCCCc-CCccChhhccCCCCCCEEEC
Confidence            367888888774 34332  3569999999998853221 2244 89999999999874 3332   3556799999999


Q ss_pred             cccC--CC-chhhhcCCcccEEEEecccc-C-CceeeccCCCccccchh---------hhc---cCCCCCceEeccCCcc
Q 042962          210 YDEY--GL-EQVYIQGMNAHSVHIIGLHM-L-PHISVVPCKNLKKLKLC---------QEI---VDCMKLRSIKISSFCL  272 (377)
Q Consensus       210 ~~~~--~~-~~~~~~~p~L~~L~l~g~~~-~-~~~~~~~~~~L~~L~L~---------~~l---~~~~~L~~L~i~~~~L  272 (377)
                      +++.  .+ ......+++|+.|+++++.- . .+..+.++++|+.|+|+         ..+   .++++|+.|++++|.+
T Consensus        96 s~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l  175 (361)
T 2xot_A           96 SSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKL  175 (361)
T ss_dssp             CSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCC
T ss_pred             CCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCC
Confidence            9987  11 22234678999999987742 1 12336677888888876         112   4578888888888877


Q ss_pred             ceEE
Q 042962          273 KSFL  276 (377)
Q Consensus       273 ~~l~  276 (377)
                      +.+.
T Consensus       176 ~~l~  179 (361)
T 2xot_A          176 KKLP  179 (361)
T ss_dssp             CCCC
T ss_pred             CccC
Confidence            7654

>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=98.22  E-value=6.8e-07  Score=83.68  Aligned_cols=161  Identities=14%  Similarity=0.169  Sum_probs=96.1

Q ss_pred             cCcccEEEeccccc-cCC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccc-----------------ccc
Q 042962          132 AKSMSLLGLDSCKL-ESP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIIS-----------------CRG  192 (377)
Q Consensus       132 ~~~L~~L~L~~~~~-~~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~-----------------c~~  192 (377)
                      |++|+.|.|.+ .+ .++ ..|.++++|+.+++.++.+.. .....+.+|..+..+.+..                 |..
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~-i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPN-LLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCE-ECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCCccc-cchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            89999999988 43 333 468899999999999885420 1112355677777666543                 211


Q ss_pred             ce-eeccC--------------CCCCCcEEEEcccC---CCchhhhcCCcccEEEEecc-ccCCce-eeccCCCccccch
Q 042962          193 LK-HLELP--------------NLGKLKEFKVYDEY---GLEQVYIQGMNAHSVHIIGL-HMLPHI-SVVPCKNLKKLKL  252 (377)
Q Consensus       193 l~-~l~i~--------------~l~~L~~L~i~~~~---~~~~~~~~~p~L~~L~l~g~-~~~~~~-~~~~~~~L~~L~L  252 (377)
                      +. .+.+.              ...+++.+.+.+..   ....+...+++|+++++.++ ...++. .+.+|.+|+.+.+
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l  257 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKL  257 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEEC
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEEC
Confidence            11 00000              01333444444332   11112223788888888764 222222 2678888888887


Q ss_pred             h--------hhccCCCCCc-eEeccCCccceEE---ccCcccccccccccCCcce
Q 042962          253 C--------QEIVDCMKLR-SIKISSFCLKSFL---FIGYDTLDELKLCTPNLSI  295 (377)
Q Consensus       253 ~--------~~l~~~~~L~-~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~  295 (377)
                      .        ..+.+|++|+ .+.+.. .++.+.   +.+|.+|+.+.+..+++..
T Consensus       258 ~~ni~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~~  311 (329)
T 3sb4_A          258 PHNLKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITT  311 (329)
T ss_dssp             CTTCCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCE
T ss_pred             CcccceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCc
Confidence            6        3467888898 888877 666654   5677888888776666544

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

Probab=98.20  E-value=2.7e-07  Score=78.27  Aligned_cols=125  Identities=13%  Similarity=0.022  Sum_probs=79.7

Q ss_pred             CCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccccee-eccCCCCCCcEEEEcccC--CCc-hhhhcCCc
Q 042962          149 RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH-LELPNLGKLKEFKVYDEY--GLE-QVYIQGMN  224 (377)
Q Consensus       149 ~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~-l~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~  224 (377)
                      +.+..+++|+.|++.+|.++.  ++.+...+|+|+.|+++++. +.. -.+..+++|+.|.+++|.  .++ .+...+++
T Consensus        13 ~~~~~~~~L~~L~l~~n~l~~--i~~~~~~~~~L~~L~Ls~N~-l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~   89 (176)
T 1a9n_A           13 AQYTNAVRDRELDLRGYKIPV--IENLGATLDQFDAIDFSDNE-IRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPD   89 (176)
T ss_dssp             CEEECTTSCEEEECTTSCCCS--CCCGGGGTTCCSEEECCSSC-CCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTT
T ss_pred             HhcCCcCCceEEEeeCCCCch--hHHhhhcCCCCCEEECCCCC-CCcccccccCCCCCEEECCCCcccccCcchhhcCCC
Confidence            345677899999999998852  23444445699999999884 222 244557899999999997  222 23356789


Q ss_pred             ccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccceEE------ccCcccccccccc
Q 042962          225 AHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKSFL------FIGYDTLDELKLC  289 (377)
Q Consensus       225 L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~l~------l~~c~~L~~l~l~  289 (377)
                      |++|+++++. ..++.       +      ..+.++++|+.|++++|.+..+.      +..+++|+.+++.
T Consensus        90 L~~L~L~~N~i~~~~~-------~------~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~  148 (176)
T 1a9n_A           90 LTELILTNNSLVELGD-------L------DPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQ  148 (176)
T ss_dssp             CCEEECCSCCCCCGGG-------G------GGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTE
T ss_pred             CCEEECCCCcCCcchh-------h------HhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCC
Confidence            9999997764 22121       1      13455666777777776665431      3344455555443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.18  E-value=1.8e-06  Score=87.17  Aligned_cols=63  Identities=16%  Similarity=0.232  Sum_probs=32.7

Q ss_pred             CCCccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      .+|. +..+++|+.|+|++|.+ ..|..+.++++|+.|+|++|.+++  ++ -++++++|+.|+|+++
T Consensus       455 ~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~--lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          455 VLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN--VD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             SCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC--CG-GGTTCSSCCEEECCSS
T ss_pred             CCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCC--Cc-ccCCCCCCcEEECCCC
Confidence            3444 55555666666665554 233445555566666666655532  22 2445555555555544

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

Probab=98.16  E-value=3.3e-06  Score=71.38  Aligned_cols=66  Identities=17%  Similarity=0.131  Sum_probs=39.6

Q ss_pred             CcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ...+|..+.  ++|+.|++++|.+. .++ .+.++++|++|+++++.+.+- ....+.++++|+.|+++++
T Consensus        19 l~~~p~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A           19 LTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSL-PDGVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             CSSCCTTCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCC-CTTTTTTCTTCCEEECCSS
T ss_pred             CccCCCCCC--CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEe-ChhHccCCCccCEEECCCC
Confidence            445565433  57888888887763 232 356778888888888766321 1122445666666666655

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.10  E-value=2.5e-06  Score=86.02  Aligned_cols=75  Identities=15%  Similarity=0.150  Sum_probs=31.7

Q ss_pred             ccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEccc
Q 042962          135 MSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       135 L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      |+.|+|++|.+...+.+.++++|+.|+|++|.++  .++..++++++|+.|+|+++.  ++.  .+..+++|+.|.+++|
T Consensus       443 L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~Ls~N~l~~lp--~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLR--ALPPALAALRCLEVLQASDNALENVD--GVANLPRLQELLLCNN  518 (567)
T ss_dssp             CSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCC--CCCGGGGGCTTCCEEECCSSCCCCCG--GGTTCSSCCEEECCSS
T ss_pred             ceEEEecCCCCCCCcCccccccCcEeecCccccc--ccchhhhcCCCCCEEECCCCCCCCCc--ccCCCCCCcEEECCCC
Confidence            4445555444422223444555555555555442  111223444555555554441  111  2333444444444444


Q ss_pred             C
Q 042962          213 Y  213 (377)
Q Consensus       213 ~  213 (377)
                      .
T Consensus       519 ~  519 (567)
T 1dce_A          519 R  519 (567)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=98.05  E-value=2.1e-06  Score=73.86  Aligned_cols=122  Identities=10%  Similarity=0.096  Sum_probs=79.8

Q ss_pred             cEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEccc
Q 042962          136 SLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       136 ~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      +.++++++.+. +|..+  .++|+.|++.++.+.+-.....+..+++|+.|+++++.  ++..-.+.++++|+.|+++++
T Consensus        11 ~~l~~s~~~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N   88 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEcCCCCcCcCccCC--CCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCC
Confidence            78999998874 34333  34899999999988432222246788999999999873  332234555788999999888


Q ss_pred             C--C-CchhhhcCCcccEEEEeccccC-CceeeccCCCccccchhhhccCCCCCceEeccCCccc
Q 042962          213 Y--G-LEQVYIQGMNAHSVHIIGLHML-PHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       213 ~--~-~~~~~~~~p~L~~L~l~g~~~~-~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~  273 (377)
                      .  . ........++|++|+++++.-. ...              ..+..+++|+.|++++|.+.
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~--------------~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           89 KIKEISNKMFLGLHQLKTLNLYDNQISCVMP--------------GSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSSCCCEECT--------------TSSTTCTTCCEEECTTCCBC
T ss_pred             cCCccCHHHhcCCCCCCEEECCCCcCCeeCH--------------HHhhcCCCCCEEEeCCCCcc
Confidence            7  1 1122234678888888665311 000              13455677888888888775

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

Probab=98.03  E-value=5.1e-06  Score=71.58  Aligned_cols=102  Identities=14%  Similarity=0.162  Sum_probs=68.5

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccC-C-CCCCCCCCCCeeeccceeeChHHHHHHhcCC
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLES-P-RGNVTLSCLRELRPRHVCADDQVIKDLISGC  179 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~-p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~c  179 (377)
                      .++++|.+..        .....+|..+..+++|+.|+|++|.+.. + ..+.++++|++|+|++|.+..-.. ..+.++
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  101 (193)
T 2wfh_A           31 RDVTELYLDG--------NQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPP-RTFDGL  101 (193)
T ss_dssp             TTCCEEECCS--------SCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCT-TTTTTC
T ss_pred             CCCCEEECCC--------CcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCH-HHhCCC
Confidence            4677777752        2345788888899999999999998743 3 358899999999999998843211 235667


Q ss_pred             cccccccccccccceee---ccCCCCCCcEEEEcccC
Q 042962          180 PLIEFISIISCRGLKHL---ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       180 p~Le~L~L~~c~~l~~l---~i~~l~~L~~L~i~~~~  213 (377)
                      ++|+.|+|+++. +..+   .+..+++|+.|.+.++.
T Consensus       102 ~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A          102 KSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             TTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCCEEECCCCC-CCeeChhhhhcCccccEEEeCCCC
Confidence            777777777653 2111   12234556666665544

>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=98.03  E-value=8.7e-06  Score=76.77  Aligned_cols=174  Identities=16%  Similarity=0.110  Sum_probs=114.5

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec-
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE-  197 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~-  197 (377)
                      +...+|..+  .+++++|+|++|.+. +|+ .+.++++|++|+|++|.+.+......+.++++|.++.+.++..+..+. 
T Consensus        20 ~Lt~iP~~l--~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~   97 (350)
T 4ay9_X           20 KVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINP   97 (350)
T ss_dssp             TCCSCCTTC--CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECT
T ss_pred             CCCccCcCc--CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCc
Confidence            456788766  468999999999873 444 578999999999999976332223346788888877776666565553 


Q ss_pred             --cCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc--cCCce-eeccC-CCccccchh--------hhccCCC
Q 042962          198 --LPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH--MLPHI-SVVPC-KNLKKLKLC--------QEIVDCM  260 (377)
Q Consensus       198 --i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~--~~~~~-~~~~~-~~L~~L~L~--------~~l~~~~  260 (377)
                        +..+++|+.|.+.++.  ... .......++..+.+.+..  ..++. .+..+ ..++.|+++        ......+
T Consensus        98 ~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~  177 (350)
T 4ay9_X           98 EAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGT  177 (350)
T ss_dssp             TSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTE
T ss_pred             hhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhcccc
Confidence              4457899999999987  222 223455677788886543  11111 12233 346666665        1223446


Q ss_pred             CCceEecc-CCccceEE---ccCcccccccccccCCcceE
Q 042962          261 KLRSIKIS-SFCLKSFL---FIGYDTLDELKLCTPNLSIF  296 (377)
Q Consensus       261 ~L~~L~i~-~~~L~~l~---l~~c~~L~~l~l~~~~L~~~  296 (377)
                      +++.+.+. +|.++.+.   +.++.+|+.++++.+++..+
T Consensus       178 ~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~l  217 (350)
T 4ay9_X          178 QLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSL  217 (350)
T ss_dssp             EEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCC
T ss_pred             chhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCcc
Confidence            77778776 46677664   35566788888887777654

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.02  E-value=3.5e-07  Score=87.44  Aligned_cols=58  Identities=19%  Similarity=0.218  Sum_probs=26.9

Q ss_pred             CcccEEEeccccccCC--C-CCCCCCCCCeeeccceeeChHHHHHH---h-cCCccccccccccc
Q 042962          133 KSMSLLGLDSCKLESP--R-GNVTLSCLRELRPRHVCADDQVIKDL---I-SGCPLIEFISIISC  190 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p--~-~~~~l~~L~~L~L~~~~~~~~~l~~l---~-~~cp~Le~L~L~~c  190 (377)
                      ++|++|+|++|.+...  . -...+++|++|+|++|.+++.....+   + ..++.|++|+|++|
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n  165 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNN  165 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSS
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCC
Confidence            4555666655544210  0 11123455566666655544333322   1 23455555555555

>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=98.02  E-value=4.4e-06  Score=78.06  Aligned_cols=69  Identities=20%  Similarity=0.129  Sum_probs=47.1

Q ss_pred             cCCCccccchh---------hhccCCCCCceEeccCCccceEE---ccCccccc-ccccccCCcceEEEcccccc-cCc-
Q 042962          243 PCKNLKKLKLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLD-ELKLCTPNLSIFKYHGDLIS-FSS-  307 (377)
Q Consensus       243 ~~~~L~~L~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~-~l~l~~~~L~~~~~~~~~~p-~~l-  307 (377)
                      .|++|+.+++.         ..+.+|++|+.+.+..+ ++.+.   +.+|.+|+ .+.+.. ++..       ++ ..+ 
T Consensus       224 ~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~-------I~~~aF~  294 (329)
T 3sb4_A          224 YMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTA-------IEFGAFM  294 (329)
T ss_dssp             HCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCE-------ECTTTTT
T ss_pred             hcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceE-------Echhhhh
Confidence            48899998887         34688999999999886 77664   56777787 776654 4332       22 122 


Q ss_pred             cccccceEEEEec
Q 042962          308 TALALSEIALVFN  320 (377)
Q Consensus       308 ~~~~L~~l~l~~n  320 (377)
                      ..++|+++++..|
T Consensus       295 ~c~~L~~l~l~~n  307 (329)
T 3sb4_A          295 GCDNLRYVLATGD  307 (329)
T ss_dssp             TCTTEEEEEECSS
T ss_pred             CCccCCEEEeCCC
Confidence            2367888887543

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.93  E-value=2.1e-05  Score=75.75  Aligned_cols=32  Identities=19%  Similarity=0.350  Sum_probs=16.1

Q ss_pred             ccCCCCCceEeccCCccceEE---ccCccccccccc
Q 042962          256 IVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKL  288 (377)
Q Consensus       256 l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l  288 (377)
                      +.+|++|+.+.+. +.++.+.   +.+|.+|+.+.+
T Consensus       296 F~~c~~L~~l~l~-~~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          296 LEGCPKLARFEIP-ESIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             TTTCTTCCEECCC-TTCCEECTTTTTTCCSCCEEEE
T ss_pred             hhCCccCCeEEeC-CceEEEhhhhhcCCCCccEEEE
Confidence            3556666666655 2344432   344555555544

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.92  E-value=2.2e-05  Score=75.64  Aligned_cols=154  Identities=12%  Similarity=0.166  Sum_probs=86.5

Q ss_pred             ccCcccEEEeccccc-cCCCCCCCCCCCCeeeccce--eeChHHHHHHhcCCcccccccccccccceee---ccCCCCCC
Q 042962          131 YAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHV--CADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPNLGKL  204 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~--~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~l~~L  204 (377)
                      .|++|+.++|.++.+ .++...-...+|+.+.|...  .+..    ..+.+|++|+.+.+...  +..+   ...+ .+|
T Consensus       178 ~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~l~~I~~----~aF~~~~~L~~l~l~~~--l~~I~~~aF~~-~~L  250 (401)
T 4fdw_A          178 YCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVTLKEIGS----QAFLKTSQLKTIEIPEN--VSTIGQEAFRE-SGI  250 (401)
T ss_dssp             TCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTTCCEECT----TTTTTCTTCCCEECCTT--CCEECTTTTTT-CCC
T ss_pred             CcccCCeeecCCCcceEechhhEeecccCEEEeCCchheehh----hHhhCCCCCCEEecCCC--ccCcccccccc-CCc
Confidence            455555555554433 12221112345555555432  1111    23566777777777542  2222   2233 678


Q ss_pred             cEEEEcccC-CC-chhhhcCCcccEEEEeccccC------Cc-eeeccCCCccccchh--------hhccCCCCCceEec
Q 042962          205 KEFKVYDEY-GL-EQVYIQGMNAHSVHIIGLHML------PH-ISVVPCKNLKKLKLC--------QEIVDCMKLRSIKI  267 (377)
Q Consensus       205 ~~L~i~~~~-~~-~~~~~~~p~L~~L~l~g~~~~------~~-~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i  267 (377)
                      +.+.+.+.- .+ ......+++|+.+.+.++...      ++ ..+.+|.+|+.+.+.        ..+.+|++|+.+.+
T Consensus       251 ~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          251 TTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPESIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             SEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTTCCEECTTTTTTCCSCCEEEE
T ss_pred             cEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCceEEEhhhhhcCCCCccEEEE
Confidence            888875433 11 222346789999998765421      11 227789999988886        44678899999998


Q ss_pred             cCCccceEE---ccCcccccccccccCCc
Q 042962          268 SSFCLKSFL---FIGYDTLDELKLCTPNL  293 (377)
Q Consensus       268 ~~~~L~~l~---l~~c~~L~~l~l~~~~L  293 (377)
                      .. .++.+.   +.+| +|+.+.+..+++
T Consensus       331 p~-~l~~I~~~aF~~~-~L~~l~l~~n~~  357 (401)
T 4fdw_A          331 PA-NVTQINFSAFNNT-GIKEVKVEGTTP  357 (401)
T ss_dssp             CT-TCCEECTTSSSSS-CCCEEEECCSSC
T ss_pred             Cc-cccEEcHHhCCCC-CCCEEEEcCCCC
Confidence            54 466553   4566 677776665543

>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=97.90  E-value=3.8e-07  Score=78.86  Aligned_cols=107  Identities=15%  Similarity=0.091  Sum_probs=59.3

Q ss_pred             CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec--cCCCCCCcEEEEcccC--CCchhhhcCCcc
Q 042962          150 GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE--LPNLGKLKEFKVYDEY--GLEQVYIQGMNA  225 (377)
Q Consensus       150 ~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~--i~~l~~L~~L~i~~~~--~~~~~~~~~p~L  225 (377)
                      .+..+++|++|++++|.+.+  +. .+.++++|+.|++++|. +..+.  +..+++|+.|.+.+|.  .++. ...+++|
T Consensus        43 ~~~~l~~L~~L~ls~n~l~~--l~-~~~~l~~L~~L~l~~n~-l~~l~~~~~~~~~L~~L~L~~N~l~~l~~-~~~l~~L  117 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIEK--IS-SLSGMENLRILSLGRNL-IKKIENLDAVADTLEELWISYNQIASLSG-IEKLVNL  117 (198)
T ss_dssp             HHHHTTTCSEEECSEEEESC--CC-CHHHHTTCCEEEEEEEE-ECSCSSHHHHHHHCSEEEEEEEECCCHHH-HHHHHHS
T ss_pred             HHhcCCCCCEEECCCCCCcc--cc-ccccCCCCCEEECCCCC-cccccchhhcCCcCCEEECcCCcCCcCCc-cccCCCC
Confidence            45677888888888887743  22 35567777777777663 11111  1113567777776665  2221 1234566


Q ss_pred             cEEEEecccc-CCceeeccCCCccccchhhhccCCCCCceEeccCCccce
Q 042962          226 HSVHIIGLHM-LPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       226 ~~L~l~g~~~-~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~  274 (377)
                      +.|+++++.- ..+.       +      ..+.++++|+.|++++|.+..
T Consensus       118 ~~L~l~~N~i~~~~~-------~------~~l~~l~~L~~L~l~~N~l~~  154 (198)
T 1ds9_A          118 RVLYMSNNKITNWGE-------I------DKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             SEEEESEEECCCHHH-------H------HHHTTTTTCSEEEECSCHHHH
T ss_pred             CEEECCCCcCCchhH-------H------HHHhcCCCCCEEEecCCcccc
Confidence            6666654421 1000       0      134566777777777776643

>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=97.87  E-value=1.4e-05  Score=67.25  Aligned_cols=90  Identities=13%  Similarity=0.085  Sum_probs=50.1

Q ss_pred             CCcCCCccccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHL  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l  196 (377)
                      ....+|..+.  ++|+.|+|++|.+. . |..+.++++|++|+|++|.+.+ .....+.++++|+.|+|+++.  ++..-
T Consensus        20 ~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~f~~l~~L~~L~L~~N~l~~~~~~   96 (170)
T 3g39_A           20 SLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTV-LPAGVFDKLTQLTQLSLNDNQLKSIPRG   96 (170)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             CcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCc-cChhhccCCCCCCEEECCCCccCEeCHH
Confidence            3455666553  67888888887763 2 3356777888888888887632 112234556666666666552  11111


Q ss_pred             ccCCCCCCcEEEEcccC
Q 042962          197 ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       197 ~i~~l~~L~~L~i~~~~  213 (377)
                      .+..+++|+.|.+.++.
T Consensus        97 ~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           97 AFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             TTTTCTTCCEEECCSSC
T ss_pred             HhcCCCCCCEEEeCCCC
Confidence            12234555555555543

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

Probab=97.84  E-value=1.9e-05  Score=66.76  Aligned_cols=66  Identities=11%  Similarity=0.037  Sum_probs=39.4

Q ss_pred             CcCCCccccccCcccEEEecccccc-C-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLE-S-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~-~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ...+|..+.  ++|+.|+|++|.+. . |..+.++++|++|+|++|.+.+ .....+.++++|+.|+|+++
T Consensus        24 l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           24 LASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTA-IPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             CSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSS
T ss_pred             CCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCc-cChhHhCCcchhhEEECCCC
Confidence            445666543  67777788777763 2 2356677777777777776632 11122345566666666554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.80  E-value=1.1e-05  Score=83.83  Aligned_cols=102  Identities=12%  Similarity=-0.006  Sum_probs=66.8

Q ss_pred             CCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccccee--eccCCCCCCcEEEEcccC--CCchhhhcCCc
Q 042962          149 RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH--LELPNLGKLKEFKVYDEY--GLEQVYIQGMN  224 (377)
Q Consensus       149 ~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~--l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~  224 (377)
                      ..+..+++|+.|+|++|.+.  .+..-+.+++.|+.|+|+++. +..  -.+..+++|+.|++++|.  .++.....+++
T Consensus       218 ~~~~~l~~L~~L~Ls~n~l~--~l~~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~  294 (727)
T 4b8c_D          218 DSKYDDQLWHALDLSNLQIF--NISANIFKYDFLTRLYLNGNS-LTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQ  294 (727)
T ss_dssp             ----CCCCCCEEECTTSCCS--CCCGGGGGCCSCSCCBCTTSC-CSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTT
T ss_pred             hhhccCCCCcEEECCCCCCC--CCChhhcCCCCCCEEEeeCCc-CcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCC
Confidence            45778899999999999874  122224578999999999874 222  234457899999999887  33333456788


Q ss_pred             ccEEEEeccc-cCCceeeccCCCccccchh
Q 042962          225 AHSVHIIGLH-MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       225 L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~  253 (377)
                      |++|.++++. ..+|..++.+++|+.|+|+
T Consensus       295 L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~  324 (727)
T 4b8c_D          295 LKYFYFFDNMVTTLPWEFGNLCNLQFLGVE  324 (727)
T ss_dssp             CSEEECCSSCCCCCCSSTTSCTTCCCEECT
T ss_pred             CCEEECCCCCCCccChhhhcCCCccEEeCC
Confidence            9999987764 3444445555555555554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.79  E-value=6e-06  Score=85.74  Aligned_cols=105  Identities=15%  Similarity=0.114  Sum_probs=56.3

Q ss_pred             CccccccCcccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccccee--eccCCCC
Q 042962          126 PQLVFYAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH--LELPNLG  202 (377)
Q Consensus       126 p~~l~~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~--l~i~~l~  202 (377)
                      |..+..++.|+.|+|++|.+ .+|..+.++++|++|+|++|.++  .+..-++++++|+.|+|+++. +..  -.+..++
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~--~lp~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~  293 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLT--ELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCF  293 (727)
T ss_dssp             -----CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCS--CCCGGGGGGTTCCEEECTTSC-CSSCCSSGGGGT
T ss_pred             hhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCc--ccChhhhCCCCCCEEeCcCCc-CCccChhhcCCC
Confidence            34445566677777776665 33444556667777777776664  122224566677777776653 111  1233456


Q ss_pred             CCcEEEEcccC--CCchhhhcCCcccEEEEecc
Q 042962          203 KLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       203 ~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~  233 (377)
                      +|+.|.+.+|.  .++.....+++|+.|+++++
T Consensus       294 ~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N  326 (727)
T 4b8c_D          294 QLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGN  326 (727)
T ss_dssp             TCSEEECCSSCCCCCCSSTTSCTTCCCEECTTS
T ss_pred             CCCEEECCCCCCCccChhhhcCCCccEEeCCCC
Confidence            67777776665  22222334566777766555

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.79  E-value=9.8e-06  Score=76.99  Aligned_cols=102  Identities=18%  Similarity=0.139  Sum_probs=60.7

Q ss_pred             HHHHhcCCcccccccccccccceeeccCCCCCCcEEEEcccCC----Cchhh-hcCCcccEEEEec--cc--cCC-----
Q 042962          172 IKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDEYG----LEQVY-IQGMNAHSVHIIG--LH--MLP-----  237 (377)
Q Consensus       172 l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~~----~~~~~-~~~p~L~~L~l~g--~~--~~~-----  237 (377)
                      +..++..+|+|++|.|.++.++....+. +++|++|.+..|..    ...+. ..+|+|++|.++.  +.  +..     
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~l~l~~~~-~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l  242 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNNLSIGKKP-RPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVF  242 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBTCBCCSCB-CTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGT
T ss_pred             HHHHHhcCCCCcEEEEeCCCCceecccc-CCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHH
Confidence            4466788999999999887443322233 58999999987761    11222 2579999999852  11  110     


Q ss_pred             --ceeeccCCCccccchh---------hhc---cCCCCCceEeccCCccce
Q 042962          238 --HISVVPCKNLKKLKLC---------QEI---VDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       238 --~~~~~~~~~L~~L~L~---------~~l---~~~~~L~~L~i~~~~L~~  274 (377)
                        ......+++|++|.|.         ..+   ..+++|+.|+++.|.+..
T Consensus       243 ~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d  293 (362)
T 2ra8_A          243 RPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTD  293 (362)
T ss_dssp             GGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBH
T ss_pred             HHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCCh
Confidence              0111245677777664         111   235667777776666543

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

Probab=97.76  E-value=2.5e-05  Score=65.88  Aligned_cols=124  Identities=12%  Similarity=-0.007  Sum_probs=79.8

Q ss_pred             cccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEEEcc
Q 042962          134 SMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYD  211 (377)
Q Consensus       134 ~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~  211 (377)
                      +.+.++++++.+...+ ..-.++|+.|++.++.+.+ .....+.++++|++|+++++.  ++..-.+..+++|+.|.+.+
T Consensus         8 ~~~~l~~~~~~l~~~p-~~~~~~l~~L~l~~n~l~~-~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A            8 SGTEIRCNSKGLTSVP-TGIPSSATRLELESNKLQS-LPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             ETTEEECCSSCCSSCC-TTCCTTCSEEECCSSCCCC-CCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEecCCCCccCC-CCCCCCCcEEEeCCCcccE-eCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            4577888888764322 2234799999999998842 122346788999999999873  22211234568899999988


Q ss_pred             cC--CCch-hhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccc
Q 042962          212 EY--GLEQ-VYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       212 ~~--~~~~-~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~  273 (377)
                      +.  .+.. .....++|++|+++++. ..++.              ..+.++++|+.|++++|.+.
T Consensus        86 N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~--------------~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           86 NKLQSLPNGVFDKLTQLKELALDTNQLKSVPD--------------GIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT--------------TTTTTCTTCCEEECCSSCBC
T ss_pred             CCccccCHHHhhCCcccCEEECcCCcceEeCH--------------HHhcCCcccCEEEecCCCee
Confidence            87  2222 22356788888886653 11111              12356778888888888765

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.71  E-value=2.1e-05  Score=74.73  Aligned_cols=204  Identities=13%  Similarity=0.039  Sum_probs=115.0

Q ss_pred             hHHHHHHHHhhcCCCcCceEEEEEEeccCC-ccchhhHHHHHHHHH-hCCceEEEEEeeCCC-CCCC-CCCcCCCccccc
Q 042962           56 LKCLVKTLLNHYGDDFSLEKFTFIVQLSDD-VKFVSSIYRCLRYAV-ETNVKELKLGFCCPH-SNYP-DSYYNLPQLVFY  131 (377)
Q Consensus        56 ~~~v~~~L~~~~~~~~~i~~l~l~~~~~~~-~~~~~~i~~wi~~a~-~~~v~~L~L~~~~~~-~~~~-~~~~~lp~~l~~  131 (377)
                      .+.+.++|......  .++.+.+.... .+ ......+..++..+. -.++++|.+...... .... .....++..+..
T Consensus        94 ~~~~~~fl~~~~~~--~v~~L~lg~~~-~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~  170 (362)
T 2ra8_A           94 VNLMDKILKDKKLP--SLKQITIGXWG-YEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDA  170 (362)
T ss_dssp             CCHHHHHHHCTTGG--GCSEEEECCCC-SSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHT
T ss_pred             HHHHHHHhcCCCch--hcceEEEcccc-cCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhc
Confidence            44556666443332  47787775321 11 011124444444332 368999988522110 0000 001135555567


Q ss_pred             cCcccEEEecccc-ccCCCCCCCCCCCCeeeccceeeChHHHHHHh-cCCcccccccccccc-------cce---e-ecc
Q 042962          132 AKSMSLLGLDSCK-LESPRGNVTLSCLRELRPRHVCADDQVIKDLI-SGCPLIEFISIISCR-------GLK---H-LEL  198 (377)
Q Consensus       132 ~~~L~~L~L~~~~-~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~-~~cp~Le~L~L~~c~-------~l~---~-l~i  198 (377)
                      +++|+.|.|++|. +..++  ...++|++|.|..+.+++..+..+. +.+|+|+.|.|+.+.       ++.   . +..
T Consensus       171 ~P~L~~L~L~g~~~l~l~~--~~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~  248 (362)
T 2ra8_A          171 MPLLNNLKIKGTNNLSIGK--KPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSK  248 (362)
T ss_dssp             CTTCCEEEEECCBTCBCCS--CBCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCT
T ss_pred             CCCCcEEEEeCCCCceecc--ccCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhc
Confidence            8999999999874 44433  3489999999999999888887765 479999999986321       111   1 122


Q ss_pred             CCCCCCcEEEEcccCCC----chhh--hcCCcccEEEEeccccCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          199 PNLGKLKEFKVYDEYGL----EQVY--IQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~~~----~~~~--~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      ..+|+|+.|.+.+|...    ..+.  ..+|+|++|+++.+... ..   +...+     ...+.++++|+.|+++.|.+
T Consensus       249 ~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~-d~---G~~~L-----~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          249 DRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLT-DE---GARLL-----LDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             TTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCB-HH---HHHHH-----HTTHHHHTTCSEEECCSBBC
T ss_pred             CCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCC-hH---HHHHH-----HhhcccCCcceEEECCCCcC
Confidence            24689999999888711    1111  13578888888554210 00   00000     01224567788888877755


Q ss_pred             c
Q 042962          273 K  273 (377)
Q Consensus       273 ~  273 (377)
                      .
T Consensus       320 ~  320 (362)
T 2ra8_A          320 S  320 (362)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=97.56  E-value=6.3e-05  Score=63.19  Aligned_cols=76  Identities=13%  Similarity=0.109  Sum_probs=46.9

Q ss_pred             cccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCCCCCCcEEEE
Q 042962          134 SMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPNLGKLKEFKV  209 (377)
Q Consensus       134 ~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~l~~L~~L~i  209 (377)
                      +.+.++++++.+. +|..+  .++|+.|+|++|.+.+-. ...+.++++|+.|+|+++. +..+.   +.++++|+.|.+
T Consensus        10 ~~~~l~~s~n~l~~ip~~~--~~~l~~L~L~~N~i~~~~-~~~~~~l~~L~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLE-PGVFDRLTQLTRLDLDNNQ-LTVLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCC-TTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEEeCCCCcCccCccC--CCCCcEEEcCCCcCCccC-hhhhcCcccCCEEECCCCC-cCccChhhccCCCCCCEEEC
Confidence            4688999998874 34333  488999999999884321 1235567777777777653 22211   223455666666


Q ss_pred             cccC
Q 042962          210 YDEY  213 (377)
Q Consensus       210 ~~~~  213 (377)
                      .++.
T Consensus        86 ~~N~   89 (170)
T 3g39_A           86 NDNQ   89 (170)
T ss_dssp             CSSC
T ss_pred             CCCc
Confidence            5554

>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=97.55  E-value=1.6e-05  Score=67.37  Aligned_cols=84  Identities=13%  Similarity=0.195  Sum_probs=60.7

Q ss_pred             CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCC----CCCCcEEEEcccCC-----C
Q 042962          148 PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPN----LGKLKEFKVYDEYG-----L  215 (377)
Q Consensus       148 p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~----l~~L~~L~i~~~~~-----~  215 (377)
                      |.....-..|+.|+++++.+++..+.. +++|++|+.|+|++|..++.-.   ++.    +++|++|++++|..     +
T Consensus        54 P~~~~~~~~L~~LDLs~~~Itd~GL~~-L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl  132 (176)
T 3e4g_A           54 PTGPLDKYKIQAIDATDSCIMSIGFDH-MEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI  132 (176)
T ss_dssp             CCCSTTCCCEEEEEEESCCCCGGGGGG-GTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH
T ss_pred             CcccCCCceEeEEeCcCCCccHHHHHH-hcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH
Confidence            433333357999999999998888887 4899999999999997554322   222    24799999999972     2


Q ss_pred             chhhhcCCcccEEEEecc
Q 042962          216 EQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       216 ~~~~~~~p~L~~L~l~g~  233 (377)
                      ..+ ..+++|++|++++.
T Consensus       133 ~~L-~~~~~L~~L~L~~c  149 (176)
T 3e4g_A          133 IAL-HHFRNLKYLFLSDL  149 (176)
T ss_dssp             HHG-GGCTTCCEEEEESC
T ss_pred             HHH-hcCCCCCEEECCCC
Confidence            233 25788888888554

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

Probab=97.49  E-value=9e-05  Score=62.56  Aligned_cols=75  Identities=13%  Similarity=0.157  Sum_probs=46.2

Q ss_pred             ccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCCCCCCcEEEEc
Q 042962          135 MSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPNLGKLKEFKVY  210 (377)
Q Consensus       135 L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~l~~L~~L~i~  210 (377)
                      -+.++++++.+. +|..+  .++|++|+|++|.+.+-. ...+.++++|+.|+|+++. +..+.   +..+++|+.|++.
T Consensus        14 ~~~l~~~~n~l~~iP~~~--~~~L~~L~Ls~N~l~~~~-~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI--PTDKQRLWLNNNQITKLE-PGVFDHLVNLQQLYFNSNK-LTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC--CTTCSEEECCSSCCCCCC-TTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECC
T ss_pred             CcEEEeCCCCCCccCCCc--CCCCcEEEeCCCCccccC-HHHhcCCcCCCEEECCCCC-CCccChhHhCCcchhhEEECC
Confidence            478899988874 44433  388999999999884321 2235667777777777662 22221   2234556666665


Q ss_pred             ccC
Q 042962          211 DEY  213 (377)
Q Consensus       211 ~~~  213 (377)
                      ++.
T Consensus        90 ~N~   92 (174)
T 2r9u_A           90 DNH   92 (174)
T ss_dssp             SSC
T ss_pred             CCc
Confidence            554

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.40  E-value=2e-05  Score=75.11  Aligned_cols=103  Identities=10%  Similarity=0.064  Sum_probs=71.0

Q ss_pred             cCcccEEEeccccccCC------CCC-CCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc----ceeec--c
Q 042962          132 AKSMSLLGLDSCKLESP------RGN-VTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG----LKHLE--L  198 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~~p------~~~-~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~----l~~l~--i  198 (377)
                      .+.|+.|+|++|.+...      ..+ ...++|+.|+|++|.+++..+..+...+++|+.|+|++|.-    ...+.  +
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            46799999999886321      011 13368999999999998888888777788999999998831    11111  1


Q ss_pred             -CCCCCCcEEEEcccCC----Cchh---hhcCCcccEEEEeccc
Q 042962          199 -PNLGKLKEFKVYDEYG----LEQV---YIQGMNAHSVHIIGLH  234 (377)
Q Consensus       199 -~~l~~L~~L~i~~~~~----~~~~---~~~~p~L~~L~l~g~~  234 (377)
                       ...++|+.|++.+|..    ...+   ....++|++|+++++.
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~  194 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG  194 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS
T ss_pred             HhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC
Confidence             2247899999999871    1111   1346889999987763

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.32  E-value=0.00013  Score=68.22  Aligned_cols=89  Identities=17%  Similarity=0.098  Sum_probs=65.6

Q ss_pred             CCcCCCccccccCcccEEEecc-cccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDS-CKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-  196 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~-~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-  196 (377)
                      ....+|. +..+++|+.|+|++ |.+. .+ ..+.++++|+.|+|++|.+.+- ....+.++++|+.|+|+++. +..+ 
T Consensus        20 ~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-~~~~~~~l~~L~~L~l~~N~-l~~~~   96 (347)
T 2ifg_A           20 ALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV-APDAFHFTPRLSRLNLSFNA-LESLS   96 (347)
T ss_dssp             CCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEE-CTTGGGSCSCCCEEECCSSC-CSCCC
T ss_pred             CCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCcccee-CHHHhcCCcCCCEEeCCCCc-cceeC
Confidence            3566888 88899999999996 8773 33 3588999999999999988542 22346789999999999773 2222 


Q ss_pred             --ccCCCCCCcEEEEcccC
Q 042962          197 --ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       197 --~i~~l~~L~~L~i~~~~  213 (377)
                        .+.. .+|+.|.+.++.
T Consensus        97 ~~~~~~-~~L~~l~l~~N~  114 (347)
T 2ifg_A           97 WKTVQG-LSLQELVLSGNP  114 (347)
T ss_dssp             STTTCS-CCCCEEECCSSC
T ss_pred             HHHccc-CCceEEEeeCCC
Confidence              2222 348899988776

>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB: 1ldk_E

Probab=97.23  E-value=0.00014  Score=48.42  Aligned_cols=28  Identities=25%  Similarity=0.402  Sum_probs=23.3

Q ss_pred             CCCCCCCcHHHHHHHhhcCChhHH---------hhcC
Q 042962           12 GDMISALLAPILHHILSFLSIEQV---------WHSH   39 (377)
Q Consensus        12 ~DriS~LPD~lL~~ILs~Lp~~da---------Wr~l   39 (377)
                      .+.++.||+|++.+||++||.+|.         |+.+
T Consensus         6 ~~~~~~LP~eil~~I~~~L~~~dl~~~~~Vck~w~~~   42 (53)
T 1fs1_A            6 GVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL   42 (53)
T ss_dssp             ---CCSSCHHHHHHHHTTSCGGGHHHHHTTCHHHHHH
T ss_pred             CCCHHHCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            467999999999999999999987         8776

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.91  E-value=0.00025  Score=60.46  Aligned_cols=38  Identities=11%  Similarity=0.122  Sum_probs=18.2

Q ss_pred             CCCCCCeeeccceeeChHHHH---HHhcCCccccccccccc
Q 042962          153 TLSCLRELRPRHVCADDQVIK---DLISGCPLIEFISIISC  190 (377)
Q Consensus       153 ~l~~L~~L~L~~~~~~~~~l~---~l~~~cp~Le~L~L~~c  190 (377)
                      ..++|++|+|++|.+++....   ..+..++.|++|+|++|
T Consensus        63 ~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N  103 (185)
T 1io0_A           63 TNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN  103 (185)
T ss_dssp             TCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             hCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC
Confidence            345555555555555433322   22334455555555544

>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=96.90  E-value=0.00055  Score=63.99  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=67.0

Q ss_pred             EEEeccc-cc-cCCCCCCCCCCCCeeeccc-eeeChHHHHHHhcCCcccccccccccccceee---ccCCCCCCcEEEEc
Q 042962          137 LLGLDSC-KL-ESPRGNVTLSCLRELRPRH-VCADDQVIKDLISGCPLIEFISIISCRGLKHL---ELPNLGKLKEFKVY  210 (377)
Q Consensus       137 ~L~L~~~-~~-~~p~~~~~l~~L~~L~L~~-~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l---~i~~l~~L~~L~i~  210 (377)
                      .++++++ .+ .+|. +..+++|+.|+|++ |.+.+- ....+.++++|+.|+|+++. +..+   .+.++++|+.|+++
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~-~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHL-ELRDLRGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEE-CGGGSCSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECC
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCc-ChhHhccccCCCEEECCCCc-cceeCHHHhcCCcCCCEEeCC
Confidence            4577776 66 4566 88899999999996 877432 12347789999999999874 3333   34557999999999


Q ss_pred             ccC--CCchhhhcCCcccEEEEeccc
Q 042962          211 DEY--GLEQVYIQGMNAHSVHIIGLH  234 (377)
Q Consensus       211 ~~~--~~~~~~~~~p~L~~L~l~g~~  234 (377)
                      ++.  .++.-.+....|+.|.+.++.
T Consensus        89 ~N~l~~~~~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           89 FNALESLSWKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             SSCCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             CCccceeCHHHcccCCceEEEeeCCC
Confidence            997  333223333449999987663

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.60  E-value=0.0068  Score=57.67  Aligned_cols=177  Identities=17%  Similarity=0.225  Sum_probs=80.0

Q ss_pred             ccCcccEEEeccccccCC-CCCCCCCCCCeeeccce--eeChHHHHHHhcCCcccccccccccc-cceeeccCCCCCCcE
Q 042962          131 YAKSMSLLGLDSCKLESP-RGNVTLSCLRELRPRHV--CADDQVIKDLISGCPLIEFISIISCR-GLKHLELPNLGKLKE  206 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p-~~~~~l~~L~~L~L~~~--~~~~~~l~~l~~~cp~Le~L~L~~c~-~l~~l~i~~l~~L~~  206 (377)
                      .|++|+.+.+.......+ ..+.++++|+.+.+..+  .+.+    ..+.+|+.|+.+.+.... ........ ..+|+.
T Consensus       160 ~c~~L~~i~l~~~~~~I~~~~F~~c~~L~~i~l~~~~~~I~~----~~F~~~~~L~~i~~~~~~~~i~~~~~~-~~~l~~  234 (394)
T 4fs7_A          160 TCESLEYVSLPDSMETLHNGLFSGCGKLKSIKLPRNLKIIRD----YCFAECILLENMEFPNSLYYLGDFALS-KTGVKN  234 (394)
T ss_dssp             TCTTCCEEECCTTCCEECTTTTTTCTTCCBCCCCTTCCEECT----TTTTTCTTCCBCCCCTTCCEECTTTTT-TCCCCE
T ss_pred             ccCCCcEEecCCccceeccccccCCCCceEEEcCCCceEeCc----hhhccccccceeecCCCceEeehhhcc-cCCCce
Confidence            456666666654332222 24555666666666443  1111    224556666666554321 11111111 245666


Q ss_pred             EEEcccC-CC-chhhhcCCcccEEEEeccccCC----------------------ceeeccCCCccccchh--------h
Q 042962          207 FKVYDEY-GL-EQVYIQGMNAHSVHIIGLHMLP----------------------HISVVPCKNLKKLKLC--------Q  254 (377)
Q Consensus       207 L~i~~~~-~~-~~~~~~~p~L~~L~l~g~~~~~----------------------~~~~~~~~~L~~L~L~--------~  254 (377)
                      +.+.... .+ ......+..|+.+.+......+                      ...+..|.+|+.+.+.        .
T Consensus       235 i~ip~~~~~i~~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~i~~~~F~~~~~L~~i~l~~~i~~I~~~  314 (394)
T 4fs7_A          235 IIIPDSFTELGKSVFYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVIVPEKTFYGCSSLTEVKLLDSVKFIGEE  314 (394)
T ss_dssp             EEECTTCCEECSSTTTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSEECTTTTTTCTTCCEEEECTTCCEECTT
T ss_pred             EEECCCceecccccccccccceeEEcCCCcceeeccccccccccceeccCceeeccccccccccccccccccccceechh
Confidence            6554332 01 1112234555555553221000                      0013455666655553        2


Q ss_pred             hccCCCCCceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEec
Q 042962          255 EIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFN  320 (377)
Q Consensus       255 ~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n  320 (377)
                      .+.+|.+|+.+.+.. .++.+.   +.+|.+|+.+.+.. ++...   |.   ..+ +..+|+++++..+
T Consensus       315 aF~~c~~L~~i~lp~-~v~~I~~~aF~~c~~L~~i~lp~-~l~~I---~~---~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          315 AFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPL-SLRKI---GA---NAFQGCINLKKVELPKR  376 (394)
T ss_dssp             TTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCT-TCCEE---CT---TTBTTCTTCCEEEEEGG
T ss_pred             hhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECc-cccEe---hH---HHhhCCCCCCEEEECCC
Confidence            346677777776643 244442   45666676665532 23221   11   112 2357788877644

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.50  E-value=0.0025  Score=60.74  Aligned_cols=69  Identities=17%  Similarity=0.266  Sum_probs=47.7

Q ss_pred             hcCCcccEEEEeccccCCc-eeeccCCCccccchh--------hhccCCCCCceEeccCCccceE---EccCcccccccc
Q 042962          220 IQGMNAHSVHIIGLHMLPH-ISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKSF---LFIGYDTLDELK  287 (377)
Q Consensus       220 ~~~p~L~~L~l~g~~~~~~-~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~l---~l~~c~~L~~l~  287 (377)
                      ..+.+|+.+.+......+. ..+.+|.+|+.+.+.        ..+.+|.+|+.+.+..+ ++.+   .+.+|.+|+++.
T Consensus       294 ~~~~~L~~i~l~~~i~~I~~~aF~~c~~L~~i~lp~~v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~  372 (394)
T 4fs7_A          294 YGCSSLTEVKLLDSVKFIGEEAFESCTSLVSIDLPYLVEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVE  372 (394)
T ss_dssp             TTCTTCCEEEECTTCCEECTTTTTTCTTCCEECCCTTCCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEE
T ss_pred             cccccccccccccccceechhhhcCCCCCCEEEeCCcccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEE
Confidence            3567888888754432221 126789999988875        34678999999988654 6665   366788888776


Q ss_pred             cc
Q 042962          288 LC  289 (377)
Q Consensus       288 l~  289 (377)
                      +.
T Consensus       373 lp  374 (394)
T 4fs7_A          373 LP  374 (394)
T ss_dssp             EE
T ss_pred             EC
Confidence            54

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=96.31  E-value=0.002  Score=54.68  Aligned_cols=112  Identities=13%  Similarity=0.047  Sum_probs=62.2

Q ss_pred             CCCCCCCeeeccce-eeChHHHHH---HhcCCcccccccccccc----cceee--ccCCCCCCcEEEEcccC-C------
Q 042962          152 VTLSCLRELRPRHV-CADDQVIKD---LISGCPLIEFISIISCR----GLKHL--ELPNLGKLKEFKVYDEY-G------  214 (377)
Q Consensus       152 ~~l~~L~~L~L~~~-~~~~~~l~~---l~~~cp~Le~L~L~~c~----~l~~l--~i~~l~~L~~L~i~~~~-~------  214 (377)
                      ...++|++|+|++| .+++.....   .+..++.|++|+|++|.    +...+  .+...++|++|++++|. .      
T Consensus        33 ~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~  112 (185)
T 1io0_A           33 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA  112 (185)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHH
Confidence            45688999999998 887655443   45678888888888773    11111  11113678888888776 1      


Q ss_pred             CchhhhcCCcccEEEE--eccccCCceeeccCCCccccchhhhccCCCCCceEeccCCcc
Q 042962          215 LEQVYIQGMNAHSVHI--IGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       215 ~~~~~~~~p~L~~L~l--~g~~~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L  272 (377)
                      +.......++|++|++  +++... .   .++..     +...+...+.|+.|+++.|.+
T Consensus       113 l~~~L~~n~~L~~L~L~~~~N~i~-~---~g~~~-----l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          113 LVEALQSNTSLIELRIDNQSQPLG-N---NVEME-----IANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCC-H---HHHHH-----HHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHhCCCceEEEecCCCCCCC-H---HHHHH-----HHHHHHhCCCcCEEeccCCCC
Confidence            1111123456777776  333210 0   00000     002344556677777766654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=95.20  E-value=0.011  Score=56.33  Aligned_cols=90  Identities=14%  Similarity=0.250  Sum_probs=50.9

Q ss_pred             CCCCCcEEEEcccC-CC-chhhhcCCcccEEEEeccccCCc-eeeccCCCccccchh--------hhccCCCCCceEecc
Q 042962          200 NLGKLKEFKVYDEY-GL-EQVYIQGMNAHSVHIIGLHMLPH-ISVVPCKNLKKLKLC--------QEIVDCMKLRSIKIS  268 (377)
Q Consensus       200 ~l~~L~~L~i~~~~-~~-~~~~~~~p~L~~L~l~g~~~~~~-~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~  268 (377)
                      +|..|+.+.+.... .+ ......+++|+.+.+......++ ..+.+|.+|+.+.+.        ..+.+|.+|+.+.+.
T Consensus       263 ~c~~L~~i~lp~~~~~I~~~aF~~c~~L~~i~l~~~i~~I~~~aF~~c~~L~~i~lp~~v~~I~~~aF~~C~~L~~i~ip  342 (394)
T 4gt6_A          263 SCAYLASVKMPDSVVSIGTGAFMNCPALQDIEFSSRITELPESVFAGCISLKSIDIPEGITQILDDAFAGCEQLERIAIP  342 (394)
T ss_dssp             TCSSCCEEECCTTCCEECTTTTTTCTTCCEEECCTTCCEECTTTTTTCTTCCEEECCTTCCEECTTTTTTCTTCCEEEEC
T ss_pred             ecccccEEecccccceecCcccccccccccccCCCcccccCceeecCCCCcCEEEeCCcccEehHhHhhCCCCCCEEEEC
Confidence            35667777665433 11 11223467777777743322111 125677788777764        345778888888874


Q ss_pred             CCccceE---EccCccccccccccc
Q 042962          269 SFCLKSF---LFIGYDTLDELKLCT  290 (377)
Q Consensus       269 ~~~L~~l---~l~~c~~L~~l~l~~  290 (377)
                      . .++.+   .+.+|.+|+.+.+..
T Consensus       343 ~-sv~~I~~~aF~~C~~L~~i~~~~  366 (394)
T 4gt6_A          343 S-SVTKIPESAFSNCTALNNIEYSG  366 (394)
T ss_dssp             T-TCCBCCGGGGTTCTTCCEEEESS
T ss_pred             c-ccCEEhHhHhhCCCCCCEEEECC
Confidence            3 24443   356677777665543

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.13  E-value=0.0079  Score=54.27  Aligned_cols=40  Identities=25%  Similarity=0.225  Sum_probs=18.5

Q ss_pred             cccccCcccEEEeccccccCCCCCCCCC--CCCeeeccceee
Q 042962          128 LVFYAKSMSLLGLDSCKLESPRGNVTLS--CLRELRPRHVCA  167 (377)
Q Consensus       128 ~l~~~~~L~~L~L~~~~~~~p~~~~~l~--~L~~L~L~~~~~  167 (377)
                      .+..+++|+.|+|++|.+.....+..++  +|+.|+|.+|.+
T Consensus       191 ~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l~L~~L~L~~Npl  232 (267)
T 3rw6_A          191 IVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSL  232 (267)
T ss_dssp             HHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTTSTT
T ss_pred             HHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccCCcC
Confidence            3344555555555555543222222222  555555555544

>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=94.94  E-value=0.0064  Score=54.87  Aligned_cols=76  Identities=11%  Similarity=0.109  Sum_probs=38.1

Q ss_pred             CCCCCCeeeccceeeCh-HHHHHHhcCCcccccccccccc--cceee-ccCCCCCCcEEEEcccCCC----------chh
Q 042962          153 TLSCLRELRPRHVCADD-QVIKDLISGCPLIEFISIISCR--GLKHL-ELPNLGKLKEFKVYDEYGL----------EQV  218 (377)
Q Consensus       153 ~l~~L~~L~L~~~~~~~-~~l~~l~~~cp~Le~L~L~~c~--~l~~l-~i~~l~~L~~L~i~~~~~~----------~~~  218 (377)
                      ++++|++|+|++|.+.+ ..+...+..+|+|+.|+|+++.  ++..+ .+..+ +|+.|.+.++...          ..+
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~~~i  246 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGL-KLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTS-CCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccC-CcceEEccCCcCccccCcchhHHHHH
Confidence            45566666666665532 1222334456666666666542  22111 11122 6777777776511          112


Q ss_pred             hhcCCcccEEE
Q 042962          219 YIQGMNAHSVH  229 (377)
Q Consensus       219 ~~~~p~L~~L~  229 (377)
                      ....|+|+.|+
T Consensus       247 l~~~P~L~~LD  257 (267)
T 3rw6_A          247 RERFPKLLRLD  257 (267)
T ss_dssp             HHHCTTCCEES
T ss_pred             HHHCcccCeEC
Confidence            34567777765

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.92  E-value=0.027  Score=53.44  Aligned_cols=70  Identities=14%  Similarity=0.147  Sum_probs=34.6

Q ss_pred             cCCcccEEEEeccccCCc-eeeccCCCccccchh--------hhccCCCCCceEeccCCccceEEccCccccccccccc
Q 042962          221 QGMNAHSVHIIGLHMLPH-ISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKSFLFIGYDTLDELKLCT  290 (377)
Q Consensus       221 ~~p~L~~L~l~g~~~~~~-~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~l~l~~c~~L~~l~l~~  290 (377)
                      .|.+|+.+.+......+. ..+.+|.+|+.+.+.        ..+.+|++|+.+.+.++....-.+..|.+|+.+.+..
T Consensus       309 ~c~~L~~i~lp~~v~~I~~~aF~~C~~L~~i~ip~sv~~I~~~aF~~C~~L~~i~~~~~~~~~~~~~~~~~L~~i~i~~  387 (394)
T 4gt6_A          309 GCISLKSIDIPEGITQILDDAFAGCEQLERIAIPSSVTKIPESAFSNCTALNNIEYSGSRSQWNAISTDSGLQNLPVAP  387 (394)
T ss_dssp             TCTTCCEEECCTTCCEECTTTTTTCTTCCEEEECTTCCBCCGGGGTTCTTCCEEEESSCHHHHHTCBCCCCC-------
T ss_pred             CCCCcCEEEeCCcccEehHhHhhCCCCCCEEEECcccCEEhHhHhhCCCCCCEEEECCceeehhhhhccCCCCEEEeCC
Confidence            345566665533221111 114566666666553        3467788888888876644333345566666665543

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=94.82  E-value=0.0073  Score=54.85  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=19.9

Q ss_pred             CCCCcHHHHHHHhhcCChhHH
Q 042962           15 ISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        15 iS~LPD~lL~~ILs~Lp~~da   35 (377)
                      |++||+||+++|||||+.+|.
T Consensus         5 l~~LP~ei~l~IlsfL~p~DL   25 (312)
T 3l2o_B            5 LTRLPIDVQLYILSFLSPHDL   25 (312)
T ss_dssp             HHHSCHHHHHHHHHTSCHHHH
T ss_pred             hHhCCHHHHHHHHhcCCHHHH
Confidence            678999999999999999998

>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1; 2.40A {Mus musculus} PDB: 2e32_A

Probab=94.26  E-value=0.017  Score=52.62  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             CCCCCCcHHHHHHHhhcCChhHH
Q 042962           13 DMISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        13 DriS~LPD~lL~~ILs~Lp~~da   35 (377)
                      ..+..||||||.+||++||.++.
T Consensus        49 ~~~~~LP~ell~~Il~~Lp~~~L   71 (297)
T 2e31_A           49 EYLAELPEPLLLRVLAELPATEL   71 (297)
T ss_dssp             CCTTSSCHHHHHHHHHTSCHHHH
T ss_pred             cChhhCCHHHHHHHHHcCCHHHH
Confidence            46889999999999999999887

>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=93.96  E-value=0.036  Score=52.12  Aligned_cols=140  Identities=16%  Similarity=0.128  Sum_probs=72.7

Q ss_pred             ccCcccEEEeccccc-cCCCCCCCCCCCCeeeccce--eeChHHHHHHhcCCccccccccccc-ccceeeccCCCCCCcE
Q 042962          131 YAKSMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHV--CADDQVIKDLISGCPLIEFISIISC-RGLKHLELPNLGKLKE  206 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~--~~~~~~l~~l~~~cp~Le~L~L~~c-~~l~~l~i~~l~~L~~  206 (377)
                      .+.+++...+..... .....+..+.+|+.+.+...  .+..    ..+.+|..|+.+.+... ..+..-....+.+|+.
T Consensus       192 ~~~~~~~~~~~~~~~~i~~~~f~~~~~l~~i~~~~~~~~i~~----~~f~~~~~L~~i~lp~~v~~I~~~aF~~~~~l~~  267 (379)
T 4h09_A          192 AAKTGTEFTIPSTVKTVTAYGFSYGKNLKKITITSGVTTLGD----GAFYGMKALDEIAIPKNVTSIGSFLLQNCTALKT  267 (379)
T ss_dssp             TTCCCSEEECCTTCCEECTTTTTTCSSCSEEECCTTCCEECT----TTTTTCSSCCEEEECTTCCEECTTTTTTCTTCCE
T ss_pred             ccccccccccccceeEEeecccccccccceeeeccceeEEcc----ccccCCccceEEEcCCCccEeCccccceeehhcc
Confidence            445555555543221 11224455667777776543  1111    22456777777776532 1122222333566777


Q ss_pred             EEEcccC-CC-chhhhcCCcccEEEEecc-ccCCc-eeeccCCCccccchh--------hhccCCCCCceEeccCCccce
Q 042962          207 FKVYDEY-GL-EQVYIQGMNAHSVHIIGL-HMLPH-ISVVPCKNLKKLKLC--------QEIVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       207 L~i~~~~-~~-~~~~~~~p~L~~L~l~g~-~~~~~-~~~~~~~~L~~L~L~--------~~l~~~~~L~~L~i~~~~L~~  274 (377)
                      +.+...- .+ ......+++|+.+.+.+. ...+. ..+.+|.+|+.+.|.        ..+.+|.+|+.+.+.. .++.
T Consensus       268 i~l~~~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~l~~I~~~aF~~C~~L~~i~ip~-~v~~  346 (379)
T 4h09_A          268 LNFYAKVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTALKTIQVYAFKNCKALSTISYPK-SITL  346 (379)
T ss_dssp             EEECCCCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTTCCEECTTTTTTCTTCCCCCCCT-TCCE
T ss_pred             ccccccceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCccccEEHHHHhhCCCCCCEEEECC-ccCE
Confidence            7765432 11 112235677887777543 11111 125677777777764        3457788888877743 3555


Q ss_pred             E
Q 042962          275 F  275 (377)
Q Consensus       275 l  275 (377)
                      +
T Consensus       347 I  347 (379)
T 4h09_A          347 I  347 (379)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*

Probab=91.63  E-value=0.037  Score=52.95  Aligned_cols=26  Identities=27%  Similarity=0.475  Sum_probs=23.6

Q ss_pred             CCCCCCCCCcHHHHHHHhhcCChhHH
Q 042962           10 ANGDMISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        10 ~~~DriS~LPD~lL~~ILs~Lp~~da   35 (377)
                      -..|.|+.||+||+.+||||||.++.
T Consensus        10 ~~~d~~~~lp~~~~~~i~~~l~~~~l   35 (464)
T 3v7d_B           10 LKRDLITSLPFEISLKIFNYLQFEDI   35 (464)
T ss_dssp             CCCCHHHHSCHHHHHHHHTTSCHHHH
T ss_pred             cccCChHHCCHHHHHHHHhcCCHHHH
Confidence            34689999999999999999999987

>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=90.63  E-value=0.47  Score=44.30  Aligned_cols=18  Identities=11%  Similarity=0.416  Sum_probs=8.1

Q ss_pred             cCCCCCceEeccCCccce
Q 042962          257 VDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       257 ~~~~~L~~L~i~~~~L~~  274 (377)
                      .+|++|+.+.+..+.++.
T Consensus       283 ~~c~~L~~i~l~~~~i~~  300 (379)
T 4h09_A          283 SGCSNLTKVVMDNSAIET  300 (379)
T ss_dssp             TTCTTCCEEEECCTTCCE
T ss_pred             ccccccccccccccccce
Confidence            444455544444443433

>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double phosphorylation, transcription-C complex; HET: TPO; 2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB: 2ovp_B* 2ovq_B*

Probab=90.42  E-value=0.14  Score=48.63  Aligned_cols=27  Identities=30%  Similarity=0.354  Sum_probs=24.3

Q ss_pred             CCCCCCCCCCcHHHHHHHhhcCChhHH
Q 042962            9 AANGDMISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus         9 ~~~~DriS~LPD~lL~~ILs~Lp~~da   35 (377)
                      ....|.|+.||+|++.+||+||+.+|.
T Consensus        13 ~~~~d~~~~lp~e~~~~i~~~l~~~~l   39 (445)
T 2ovr_B           13 QFQRDFISLLPKELALYVLSFLEPKDL   39 (445)
T ss_dssp             CCCCSTTTSSCHHHHHHHHTTSCHHHH
T ss_pred             cccCChhHHCCHHHHHHHHHhCCHHHH
Confidence            345799999999999999999999887

>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation, signaling protein; HET: SEP; 2.95A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1

Probab=84.94  E-value=0.19  Score=47.80  Aligned_cols=26  Identities=38%  Similarity=0.546  Sum_probs=23.7

Q ss_pred             CCCCCCCCCcHH----HHHHHhhcCChhHH
Q 042962           10 ANGDMISALLAP----ILHHILSFLSIEQV   35 (377)
Q Consensus        10 ~~~DriS~LPD~----lL~~ILs~Lp~~da   35 (377)
                      -..|.|+.||+|    |+.+||+||+.++.
T Consensus         6 ~~~d~~~~lp~e~~~~~~~~i~~~l~~~~l   35 (435)
T 1p22_A            6 LQRDFITALPARGLDHIAENILSYLDAKSL   35 (435)
T ss_dssp             SCCCHHHHTGGGTCHHHHHHHHTTCCHHHH
T ss_pred             hhcChHHHCCcchHHHHHHHHHhcCCHHHH
Confidence            346999999999    99999999999987

>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=80.82  E-value=0.47  Score=40.43  Aligned_cols=99  Identities=14%  Similarity=0.104  Sum_probs=51.6

Q ss_pred             hhHHHHHHHHHhC--CceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCC------CCCCCCCCCCeee
Q 042962           90 SSIYRCLRYAVET--NVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESP------RGNVTLSCLRELR  161 (377)
Q Consensus        90 ~~i~~wi~~a~~~--~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~  161 (377)
                      .+++..+..+...  .+++|.|.-.....  +.....+-..+..-++|+.|+|++|.+...      ..+..-+.|++|+
T Consensus        27 t~v~~~l~~ll~~n~~L~~L~L~~nn~ig--d~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~  104 (197)
T 1pgv_A           27 TDVESCINRLREDDTDLKEVNINNMKRVS--KERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLN  104 (197)
T ss_dssp             CCHHHHHHHHHTTCSSCCEEECTTCCSSC--HHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEE
T ss_pred             CCHHHHHHHHHhcCCCccEEECCCCCCCC--HHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEe
Confidence            4566667666553  35555553100000  001111223344556788888888776321      0122346788888


Q ss_pred             ccceeeChHHHHHH---hcCCccccccccccc
Q 042962          162 PRHVCADDQVIKDL---ISGCPLIEFISIISC  190 (377)
Q Consensus       162 L~~~~~~~~~l~~l---~~~cp~Le~L~L~~c  190 (377)
                      |++|.+++.....+   +..-+.|++|.|+++
T Consensus       105 L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A          105 VESNFLTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             CCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             cCCCcCCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            88888866555543   333445666666543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=80.62  E-value=1.5  Score=34.43  Aligned_cols=42  Identities=21%  Similarity=0.093  Sum_probs=32.7

Q ss_pred             CCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceee
Q 042962          124 NLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       124 ~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~  167 (377)
                      .+|..+  ..+|+.|+|++|.+. +|. .+..+++|++|+|.+|.+
T Consensus        24 ~vP~~l--p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           24 SLPTAF--PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TSCSCC--CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             cCCCCC--CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            667553  356999999999884 333 467899999999999977

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	377
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.22
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.21
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.2
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.14
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.1
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.08
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.08
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.99
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.98
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.96
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.95
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.9
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.89
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.88
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.88
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.85
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.8
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.64
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.44
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.38
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.37
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.36
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.34
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.33
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.31
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.12
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	97.92
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.67
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	97.64
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.51
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.47
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.34
d1fs1a1	41	Skp2 {Human (Homo sapiens) [TaxId: 9606]}	97.33
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.19
d2ifga3	156	High affinity nerve growth factor receptor, N-term	97.05
d2ovrb1	102	F-box/WD repeat-containing protein 7, FBXW7 {Human	97.0
d1nexb1	100	Cdc4 F-box and linker domains {Baker's yeast (Sacc	96.48
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.43
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	96.25
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.75
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.47
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	95.37
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.1
d1p22a1	118	F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Hom	94.93
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.79
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.82

>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=99.22  E-value=1.6e-11  Score=105.13  Aligned_cols=140  Identities=14%  Similarity=0.110  Sum_probs=58.6

Q ss_pred             CcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEccc
Q 042962          133 KSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      +++++|++++|.+....++..+++|++|++++|.+++-  .. ++++++|+.|.++++.......+.++++|+.|.+.++
T Consensus        40 ~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~--~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~~  116 (199)
T d2omxa2          40 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDI--TP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNN  116 (199)
T ss_dssp             TTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCC--GG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCSS
T ss_pred             cCCCEEECCCCCCCCccccccCCCcCcCccccccccCc--cc-ccCCccccccccccccccccccccccccccccccccc
Confidence            44455555554443223344455555555555544221  11 3445555555555442111112333455555555544


Q ss_pred             CCC-chhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceE
Q 042962          213 YGL-EQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSF  275 (377)
Q Consensus       213 ~~~-~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l  275 (377)
                      ... ......+++|+.|.++++.-.....+..+++|+.|++.       ..++++++|+.|++++|+++.+
T Consensus       117 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~~~~L~~L~l~~n~l~~l~~l~~l~~L~~L~ls~N~i~~i  187 (199)
T d2omxa2         117 QITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDLKPLANLTTLERLDISSNKVSDI  187 (199)
T ss_dssp             CCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC
T ss_pred             ccccccccchhhhhHHhhhhhhhhcccccccccccccccccccccccCCccccCCCCCCEEECCCCCCCCC
Confidence            410 01112344555555544321100112233333333222       1245566666777766666543

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.21  E-value=3.8e-11  Score=104.70  Aligned_cols=177  Identities=13%  Similarity=0.057  Sum_probs=80.1

Q ss_pred             cCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEcc
Q 042962          132 AKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYD  211 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~  211 (377)
                      +++|+.|++.+|.+...+++..+++|++|+++++.+.+-  .. +..++.|+.+.++++..-..-.+..+++|+.+.+.+
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~--~~-l~~l~~l~~l~~~~n~~~~i~~l~~l~~L~~l~l~~  116 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDL--AP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTS  116 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCC--GG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTT
T ss_pred             cCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeecc--cc-cccccccccccccccccccccccccccccccccccc
Confidence            344444444444442223344444455555544444211  01 344444444444443211101122334444444444


Q ss_pred             cCCCc-hhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-ccCccc
Q 042962          212 EYGLE-QVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-FIGYDT  282 (377)
Q Consensus       212 ~~~~~-~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-l~~c~~  282 (377)
                      +.... ......+.++.+.+.+........+.++++|+.|.+.       ..++++++|+.|++++|+++.+. +.++++
T Consensus       117 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~Ls~n~l~~l~~l~~l~~  196 (227)
T d1h6ua2         117 TQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPN  196 (227)
T ss_dssp             SCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTT
T ss_pred             ccccccchhccccchhhhhchhhhhchhhhhccccccccccccccccccchhhcccccceecccCCCccCCChhhcCCCC
Confidence            43110 0111233444444432221111113344444444443       23566777888888777777653 456667


Q ss_pred             ccccccccCCcceEEEcccccccCccccccceEEEE
Q 042962          283 LDELKLCTPNLSIFKYHGDLISFSSTALALSEIALV  318 (377)
Q Consensus       283 L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~  318 (377)
                      |+.+.++.+++..+       |..-..++|+.++++
T Consensus       197 L~~L~Ls~N~lt~i-------~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         197 LIEVHLKNNQISDV-------SPLANTSNLFIVTLT  225 (227)
T ss_dssp             CCEEECTTSCCCBC-------GGGTTCTTCCEEEEE
T ss_pred             CCEEECcCCcCCCC-------cccccCCCCCEEEee
Confidence            77777766665432       211223577877776

>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=99.20  E-value=9.9e-12  Score=113.74  Aligned_cols=124  Identities=15%  Similarity=0.100  Sum_probs=83.5

Q ss_pred             CceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEecc-ccc--cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCC
Q 042962          103 NVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDS-CKL--ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGC  179 (377)
Q Consensus       103 ~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~-~~~--~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~c  179 (377)
                      +|.+|+|.-..-     .....+|..++++++|++|+|++ +.+  ..|+.++++++|++|+|+++.+.+... ..+..+
T Consensus        51 ~v~~L~L~~~~l-----~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~-~~~~~~  124 (313)
T d1ogqa_          51 RVNNLDLSGLNL-----PKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIP-DFLSQI  124 (313)
T ss_dssp             CEEEEEEECCCC-----SSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECC-GGGGGC
T ss_pred             EEEEEECCCCCC-----CCCCCCChHHhcCccccccccccccccccccccccccccccchhhhcccccccccc-ccccch
Confidence            467777753221     23457899999999999999987 455  467788999999999999998743222 235678


Q ss_pred             cccccccccccccc--eeeccCCCCCCcEEEEcccC---CCchhhhcCCcc-cEEEEec
Q 042962          180 PLIEFISIISCRGL--KHLELPNLGKLKEFKVYDEY---GLEQVYIQGMNA-HSVHIIG  232 (377)
Q Consensus       180 p~Le~L~L~~c~~l--~~l~i~~l~~L~~L~i~~~~---~~~~~~~~~p~L-~~L~l~g  232 (377)
                      +.|+.+.++.+...  .+-.+..+++|+.+.+.++.   .++......+.+ +.+.+++
T Consensus       125 ~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~  183 (313)
T d1ogqa_         125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR  183 (313)
T ss_dssp             TTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCS
T ss_pred             hhhcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccc
Confidence            88999999876322  22345567889999988876   222333344443 5555544

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.14  E-value=6.9e-11  Score=102.98  Aligned_cols=175  Identities=13%  Similarity=0.048  Sum_probs=126.5

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .+++.|.+.-        .....++ .+..+++|++|++++|.+.....+..+++|+.+.+.++.++.  +.. ++.++.
T Consensus        41 ~~L~~L~l~~--------~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~--i~~-l~~l~~  108 (227)
T d1h6ua2          41 DGITTLSAFG--------TGVTTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKN--VSA-IAGLQS  108 (227)
T ss_dssp             HTCCEEECTT--------SCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSC--CGG-GTTCTT
T ss_pred             CCcCEEECCC--------CCCCcch-hHhcCCCCcEeecCCceeeccccccccccccccccccccccc--ccc-cccccc
Confidence            4677777642        1334553 467899999999999987554468899999999999997732  223 678999


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccCC-CchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEYG-LEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~~-~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------  253 (377)
                      |+.+.+++|.......+...+.++.+.+.++.. .......+++|+.|.+.++...-...+.++++|+.|+++       
T Consensus       109 L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~Ls~n~l~~l  188 (227)
T d1h6ua2         109 IKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDI  188 (227)
T ss_dssp             CCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCC
T ss_pred             ccccccccccccccchhccccchhhhhchhhhhchhhhhccccccccccccccccccchhhcccccceecccCCCccCCC
Confidence            999999988644333444458899999888772 122235678999999977653222336788999999987       


Q ss_pred             hhccCCCCCceEeccCCccceEE-ccCccccccccc
Q 042962          254 QEIVDCMKLRSIKISSFCLKSFL-FIGYDTLDELKL  288 (377)
Q Consensus       254 ~~l~~~~~L~~L~i~~~~L~~l~-l~~c~~L~~l~l  288 (377)
                      ..++++++|+.|++++|+++.+. ++++++|+.+.+
T Consensus       189 ~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~l  224 (227)
T d1h6ua2         189 SPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTL  224 (227)
T ss_dssp             GGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEE
T ss_pred             hhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEe
Confidence            34688899999999999888764 556666666554

>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=99.10  E-value=1.4e-10  Score=100.00  Aligned_cols=58  Identities=17%  Similarity=0.111  Sum_probs=24.3

Q ss_pred             cccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          130 FYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ..+++|++|+|++|.+...+.+..+++|+.|++++|.+++  +.. +.++++|+.|.+.+|
T Consensus        65 ~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~--l~~-l~~l~~L~~L~l~~~  122 (210)
T d1h6ta2          65 QYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKD--LSS-LKDLKKLKSLSLEHN  122 (210)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC--GGG-GTTCTTCCEEECTTS
T ss_pred             hhCCCCCEEeCCCccccCccccccCccccccccccccccc--ccc-ccccccccccccccc
Confidence            3444455555544444222223344444444444444421  111 334444444444444

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=2.7e-11  Score=109.51  Aligned_cols=81  Identities=14%  Similarity=0.214  Sum_probs=39.6

Q ss_pred             cCcccEEEeccccccC---CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec----cCCCCCC
Q 042962          132 AKSMSLLGLDSCKLES---PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE----LPNLGKL  204 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~~---p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~----i~~l~~L  204 (377)
                      ..+|++|+|++|.+..   ...+.++++|++|+|.++.+++..+.. ++.+|+|+.|++++|.+++...    ..++++|
T Consensus        45 ~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L  123 (284)
T d2astb2          45 PFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL  123 (284)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTC
T ss_pred             CCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHHHhc
Confidence            3455556665554321   112344555666666655555554444 3455556666665554443211    1124556


Q ss_pred             cEEEEcccC
Q 042962          205 KEFKVYDEY  213 (377)
Q Consensus       205 ~~L~i~~~~  213 (377)
                      ++|++++|.
T Consensus       124 ~~L~ls~c~  132 (284)
T d2astb2         124 DELNLSWCF  132 (284)
T ss_dssp             CEEECCCCT
T ss_pred             ccccccccc
Confidence            666665554

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=2.4e-11  Score=109.93  Aligned_cols=143  Identities=13%  Similarity=0.150  Sum_probs=100.6

Q ss_pred             ccccccCcccEEEeccccccC--CCCCCCCCCCCeeeccce-eeChHHHHHHhcCCcccccccccccccceeec----c-
Q 042962          127 QLVFYAKSMSLLGLDSCKLES--PRGNVTLSCLRELRPRHV-CADDQVIKDLISGCPLIEFISIISCRGLKHLE----L-  198 (377)
Q Consensus       127 ~~l~~~~~L~~L~L~~~~~~~--p~~~~~l~~L~~L~L~~~-~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~----i-  198 (377)
                      ..+..|++|++|+|++|.+..  +..++.+++|++|++++| .+++..+..+..+||+|++|++++|..+....    + 
T Consensus        65 ~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~  144 (284)
T d2astb2          65 GILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVA  144 (284)
T ss_dssp             HHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHH
T ss_pred             HHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchhhhc
Confidence            345579999999999997632  234667899999999997 56888898888999999999999996553211    1 


Q ss_pred             CCCCCCcEEEEcccC------CCchhhhcCCcccEEEEecccc---CCceeeccCCCccccchh----------hhccCC
Q 042962          199 PNLGKLKEFKVYDEY------GLEQVYIQGMNAHSVHIIGLHM---LPHISVVPCKNLKKLKLC----------QEIVDC  259 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~------~~~~~~~~~p~L~~L~l~g~~~---~~~~~~~~~~~L~~L~L~----------~~l~~~  259 (377)
                      ..+++|+.|.+.+|.      .+..+...+|+|++|+++++..   .....+..|++|++|+++          ..++++
T Consensus       145 ~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~  224 (284)
T d2astb2         145 HVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEI  224 (284)
T ss_dssp             HSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGC
T ss_pred             ccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcC
Confidence            124899999999874      1333445689999999976531   122235667777777765          224455


Q ss_pred             CCCceEeccC
Q 042962          260 MKLRSIKISS  269 (377)
Q Consensus       260 ~~L~~L~i~~  269 (377)
                      ++|+.|++++
T Consensus       225 ~~L~~L~l~~  234 (284)
T d2astb2         225 PTLKTLQVFG  234 (284)
T ss_dssp             TTCCEEECTT
T ss_pred             CCCCEEeeeC
Confidence            5555555543

>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=98.99  E-value=7.4e-10  Score=103.14  Aligned_cols=183  Identities=13%  Similarity=0.078  Sum_probs=127.4

Q ss_pred             ccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcE
Q 042962          127 QLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKE  206 (377)
Q Consensus       127 ~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~  206 (377)
                      .....+++++.|.++++.+.........++|++|++.++.+.+  +. .+..+++|+.|.+.++.-.....+..+++|+.
T Consensus       191 ~~~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l~~--~~-~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~  267 (384)
T d2omza2         191 SVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKD--IG-TLASLTNLTDLDLANNQISNLAPLSGLTKLTE  267 (384)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCC--CG-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             cccccccccceeeccCCccCCCCcccccCCCCEEECCCCCCCC--cc-hhhcccccchhccccCccCCCCcccccccCCE
Confidence            3445678888999988876443345667889999999998743  22 25678899999998874222224555689999


Q ss_pred             EEEcccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-
Q 042962          207 FKVYDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-  276 (377)
Q Consensus       207 L~i~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-  276 (377)
                      |.++++.  .... ....+.++.+...++...-...+..+++++.|+++       ..+.++++|++|++++|.++.+. 
T Consensus       268 L~l~~~~l~~~~~-~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n~l~~l~~  346 (384)
T d2omza2         268 LKLGANQISNISP-LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSS  346 (384)
T ss_dssp             EECCSSCCCCCGG-GTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCCGG
T ss_pred             eeccCcccCCCCc-cccccccccccccccccccccccchhcccCeEECCCCCCCCCcccccCCCCCEEECCCCCCCCChh
Confidence            9998876  2222 23467778887765542212235677778888776       34678899999999999988874 


Q ss_pred             ccCcccccccccccCCcceEEEcccccccCccccccceEEEEec
Q 042962          277 FIGYDTLDELKLCTPNLSIFKYHGDLISFSSTALALSEIALVFN  320 (377)
Q Consensus       277 l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~~~L~~l~l~~n  320 (377)
                      +.++++|+.++++.+++..+      .| ....++|++|+|+.|
T Consensus       347 l~~l~~L~~L~l~~N~l~~l------~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         347 LANLTNINWLSAGHNQISDL------TP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCBC------GG-GTTCTTCSEEECCCE
T ss_pred             HcCCCCCCEEECCCCcCCCC------hh-hccCCCCCEeeCCCC
Confidence            78888899888887776432      22 223368999998866

>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=98.98  E-value=9.9e-10  Score=97.90  Aligned_cols=175  Identities=16%  Similarity=0.053  Sum_probs=110.3

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccc-eeec
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGL-KHLE  197 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l-~~l~  197 (377)
                      ....+|..+.  ++|++|+|++|.+. .| ..+.++++|++|+|++|.++.  ++. .+.+++|+.|+++++.-- ....
T Consensus        21 ~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~--l~~-~~~l~~L~~L~Ls~N~l~~~~~~   95 (266)
T d1p9ag_          21 NLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTK--LQV-DGTLPVLGTLDLSHNQLQSLPLL   95 (266)
T ss_dssp             CCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCE--EEC-CSCCTTCCEEECCSSCCSSCCCC
T ss_pred             CCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhhccccccccccccccccc--ccc-ccccccccccccccccccccccc
Confidence            4566787653  57899999998873 33 357788999999999987742  111 356788888888876311 1112


Q ss_pred             cCCCCCCcEEEEcccC--C-CchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccc
Q 042962          198 LPNLGKLKEFKVYDEY--G-LEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       198 i~~l~~L~~L~i~~~~--~-~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~  273 (377)
                      +.++++|+.|.+.++.  . ........++++.|.+.++. ..++.              ..+..+++++.+++++|+++
T Consensus        96 ~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~--------------~~~~~l~~l~~l~l~~N~l~  161 (266)
T d1p9ag_          96 GQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPP--------------GLLTPTPKLEKLSLANNNLT  161 (266)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCT--------------TTTTTCTTCCEEECTTSCCS
T ss_pred             cccccccccccccccccceeeccccccccccccccccccccceecc--------------ccccccccchhccccccccc
Confidence            3345788888887776  1 12222345667777765542 11111              13345677888888888887


Q ss_pred             eEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecC
Q 042962          274 SFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNP  321 (377)
Q Consensus       274 ~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~  321 (377)
                      .+.   +..+.+|+.++++.++|++       +|..+ ..++|+.++|+.|+
T Consensus       162 ~~~~~~~~~l~~L~~L~Ls~N~L~~-------lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         162 ELPAGLLNGLENLDTLLLQENSLYT-------IPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCC-------CCTTTTTTCCCSEEECCSCC
T ss_pred             ccCccccccccccceeecccCCCcc-------cChhHCCCCCCCEEEecCCC
Confidence            765   3455677777777776643       33222 23678889888776

>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=98.96  E-value=6.7e-10  Score=95.55  Aligned_cols=153  Identities=18%  Similarity=0.197  Sum_probs=113.7

Q ss_pred             ccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-ccCCCCCCcEEEE
Q 042962          131 YAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-ELPNLGKLKEFKV  209 (377)
Q Consensus       131 ~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-~i~~l~~L~~L~i  209 (377)
                      .+.+|+.|++++|.+...+++..+++|++|+|+++.+++  +.. ++++++|+.|++++|. +..+ .+..+++|+.|.+
T Consensus        44 ~L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~--l~~-~~~l~~L~~L~l~~n~-i~~l~~l~~l~~L~~L~l  119 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTD--IKP-LANLKNLGWLFLDENK-VKDLSSLKDLKKLKSLSL  119 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCC--CGG-GTTCTTCCEEECCSSC-CCCGGGGTTCTTCCEEEC
T ss_pred             HhcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccccC--ccc-cccCcccccccccccc-cccccccccccccccccc
Confidence            357899999999988655677889999999999998854  222 5789999999999874 3222 3556799999999


Q ss_pred             cccC--CCchhhhcCCcccEEEEeccccCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-ccC
Q 042962          210 YDEY--GLEQVYIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-FIG  279 (377)
Q Consensus       210 ~~~~--~~~~~~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-l~~  279 (377)
                      .++.  .+.. ....++++.+.+.++.-.-...+..+++|+.++++       ..+.++++|+.|++++|+++.+. +.+
T Consensus       120 ~~~~~~~~~~-l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~l~~i~~l~~l~~L~~L~Ls~N~i~~l~~l~~  198 (210)
T d1h6ta2         120 EHNGISDING-LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRALAG  198 (210)
T ss_dssp             TTSCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCGGGTT
T ss_pred             cccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccCCCCCCEEECCCCCCCCChhhcC
Confidence            9987  3332 34678899999876642222235678888888887       35688899999999999988654 555


Q ss_pred             ccccccccc
Q 042962          280 YDTLDELKL  288 (377)
Q Consensus       280 c~~L~~l~l  288 (377)
                      +++|+.+.+
T Consensus       199 l~~L~~L~L  207 (210)
T d1h6ta2         199 LKNLDVLEL  207 (210)
T ss_dssp             CTTCSEEEE
T ss_pred             CCCCCEEEc
Confidence            556665544

>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=98.95  E-value=1.2e-09  Score=98.18  Aligned_cols=192  Identities=16%  Similarity=0.088  Sum_probs=132.3

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccccee---
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKH---  195 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~---  195 (377)
                      +...+|..+.  +++++|+|++|.+. .|+ .+.++++|++|+++++.+..-. .....+++.++.+.+.....+..   
T Consensus        22 ~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~-~~~~~~~~~~~~l~~~~~~~~~~l~~   98 (284)
T d1ozna_          22 GLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARID-AAAFTGLALLEQLDLSDNAQLRSVDP   98 (284)
T ss_dssp             CCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEEC-TTTTTTCTTCCEEECCSCTTCCCCCT
T ss_pred             CCCccCCCCC--CCCCEEECcCCcCCCCCHHHhhccccccccccccccccccc-cccccccccccccccccccccccccc
Confidence            4556776653  57899999999873 343 5889999999999999773221 12356678888887765544433   


Q ss_pred             eccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc-cCCc-eeeccCCCccccchh---------hhccCCCC
Q 042962          196 LELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH-MLPH-ISVVPCKNLKKLKLC---------QEIVDCMK  261 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~-~~~~~~~~L~~L~L~---------~~l~~~~~  261 (377)
                      ..+.++++|+.|.+.++.  .. .......++|+.+.+.++. ..++ ..+..+++|+.|++.         ..+.++++
T Consensus        99 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~  178 (284)
T d1ozna_          99 ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHS  178 (284)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             hhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccc
Confidence            345567899999999887  22 2233346789999997764 3333 236677888888776         34678899


Q ss_pred             CceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCc-cccccceEEEEecC
Q 042962          262 LRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSS-TALALSEIALVFNP  321 (377)
Q Consensus       262 L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l-~~~~L~~l~l~~n~  321 (377)
                      |+.+.++.|++..+.   +.++++|+.+++..+++...      .|..+ ..++|+.++++.|+
T Consensus       179 L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~------~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         179 LDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSAL------PTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCC------CHHHHTTCTTCCEEECCSSC
T ss_pred             cchhhhhhccccccChhHhhhhhhcccccccccccccc------cccccccccccCEEEecCCC
Confidence            999999999988765   45666788888877775432      22222 23679999988664

>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=98.90  E-value=2e-09  Score=100.08  Aligned_cols=156  Identities=11%  Similarity=0.095  Sum_probs=117.0

Q ss_pred             ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEE
Q 042962          129 VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFK  208 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~  208 (377)
                      ...+++|+.|++++|.+..++.+..+++|+.|++.++.+.+-  .. ++.+++|+.|.++++.-.....+..++.++.+.
T Consensus       215 ~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~--~~-~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~  291 (384)
T d2omza2         215 LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNL--AP-LSGLTKLTELKLGANQISNISPLAGLTALTNLE  291 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCC--GG-GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             ccccCCCCEEECCCCCCCCcchhhcccccchhccccCccCCC--Cc-ccccccCCEeeccCcccCCCCcccccccccccc
Confidence            346789999999999886666778899999999999988432  22 678999999999877422222445568899999


Q ss_pred             EcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccceEE-c
Q 042962          209 VYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLKSFL-F  277 (377)
Q Consensus       209 i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~~l~-l  277 (377)
                      +..+.  .+.. ...+++++.|+++++. ...+ .+..+++|++|+++       ..+++|++|+.|++++|+++.+. +
T Consensus       292 ~~~n~l~~~~~-~~~~~~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         292 LNENQLEDISP-ISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLTPL  369 (384)
T ss_dssp             CCSSCCSCCGG-GGGCTTCSEEECCSSCCSCCG-GGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCBCGGG
T ss_pred             ccccccccccc-cchhcccCeEECCCCCCCCCc-ccccCCCCCEEECCCCCCCCChhHcCCCCCCEEECCCCcCCCChhh
Confidence            88876  2222 3567899999997764 2222 36788999999887       45788999999999999988764 5


Q ss_pred             cCcccccccccc
Q 042962          278 IGYDTLDELKLC  289 (377)
Q Consensus       278 ~~c~~L~~l~l~  289 (377)
                      .++++|+.+.++
T Consensus       370 ~~l~~L~~L~L~  381 (384)
T d2omza2         370 ANLTRITQLGLN  381 (384)
T ss_dssp             TTCTTCSEEECC
T ss_pred             ccCCCCCEeeCC
Confidence            666677766554

>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=98.89  E-value=4.9e-10  Score=102.15  Aligned_cols=181  Identities=14%  Similarity=0.035  Sum_probs=114.9

Q ss_pred             cccEEEeccccc----cCCCCCCCCCCCCeeeccc-eeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcE
Q 042962          134 SMSLLGLDSCKL----ESPRGNVTLSCLRELRPRH-VCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKE  206 (377)
Q Consensus       134 ~L~~L~L~~~~~----~~p~~~~~l~~L~~L~L~~-~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~  206 (377)
                      .++.|+|+++.+    ..|+.++++++|++|+|++ +.+.+..+.. ++++++|++|+|+++.  +.....+..+++|+.
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~-i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccc-cccccccchhhhccccccccccccccchhhhcc
Confidence            589999999876    3567889999999999987 5665443333 7889999999999884  222223344689999


Q ss_pred             EEEcccC---CCchhhhcCCcccEEEEeccc--cCCceeeccCCCc-cccchh---------------------------
Q 042962          207 FKVYDEY---GLEQVYIQGMNAHSVHIIGLH--MLPHISVVPCKNL-KKLKLC---------------------------  253 (377)
Q Consensus       207 L~i~~~~---~~~~~~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L-~~L~L~---------------------------  253 (377)
                      +.+..+.   .++......++|+.+.++++.  +.++..+....++ +.+.+.                           
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~  209 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNML  209 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEE
T ss_pred             cccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999886   333444578999999997763  2233222233222 222221                           


Q ss_pred             -----hhccCCCCCceEeccCCccceE--EccCcccccccccccCCcceEEEcccccccCccc-cccceEEEEecC
Q 042962          254 -----QEIVDCMKLRSIKISSFCLKSF--LFIGYDTLDELKLCTPNLSIFKYHGDLISFSSTA-LALSEIALVFNP  321 (377)
Q Consensus       254 -----~~l~~~~~L~~L~i~~~~L~~l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~~-~~L~~l~l~~n~  321 (377)
                           ..++.+++++.++++.+.+...  .+..+.+++.++++.+++      .+.+|..+.. ++|+.|+|++|.
T Consensus       210 ~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l------~g~iP~~l~~L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         210 EGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRI------YGTLPQGLTQLKFLHSLNVSFNN  279 (313)
T ss_dssp             EECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCC------EECCCGGGGGCTTCCEEECCSSE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccCccCee------cccCChHHhCCCCCCEEECcCCc
Confidence                 2234556666666666655432  233345566666665553      2356655543 678888888763

>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=98.88  E-value=2.1e-09  Score=97.37  Aligned_cols=119  Identities=18%  Similarity=0.212  Sum_probs=72.3

Q ss_pred             CCCCcEEEEcccCCCchh-hhcCCcccEEEEeccc--cCCceeeccCCCccccchh---------hhccCCCCCceEecc
Q 042962          201 LGKLKEFKVYDEYGLEQV-YIQGMNAHSVHIIGLH--MLPHISVVPCKNLKKLKLC---------QEIVDCMKLRSIKIS  268 (377)
Q Consensus       201 l~~L~~L~i~~~~~~~~~-~~~~p~L~~L~l~g~~--~~~~~~~~~~~~L~~L~L~---------~~l~~~~~L~~L~i~  268 (377)
                      +++|+.+.+.++. +..+ ....++|+.|.+.++.  ...+..+.+++.+++|.++         ..+.++++|+.|+++
T Consensus       149 l~~L~~l~l~~n~-l~~l~~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~  227 (305)
T d1xkua_         149 MKKLSYIRIADTN-ITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLN  227 (305)
T ss_dssp             CTTCCEEECCSSC-CCSCCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECC
T ss_pred             ccccCccccccCC-ccccCcccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeecc
Confidence            4567777776665 1111 1124677777776553  1222335666777777665         345778888888888


Q ss_pred             CCccceE--EccCcccccccccccCCcceEEEccccc-c--cCccccccceEEEEecCC
Q 042962          269 SFCLKSF--LFIGYDTLDELKLCTPNLSIFKYHGDLI-S--FSSTALALSEIALVFNPD  322 (377)
Q Consensus       269 ~~~L~~l--~l~~c~~L~~l~l~~~~L~~~~~~~~~~-p--~~l~~~~L~~l~l~~n~~  322 (377)
                      +|.++.+  .+..+++|+.+.++.++|+.+..  ... +  ......+|+.+.|+.|+-
T Consensus       228 ~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~--~~f~~~~~~~~~~~L~~L~L~~N~~  284 (305)
T d1xkua_         228 NNKLVKVPGGLADHKYIQVVYLHNNNISAIGS--NDFCPPGYNTKKASYSGVSLFSNPV  284 (305)
T ss_dssp             SSCCSSCCTTTTTCSSCCEEECCSSCCCCCCT--TSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             cccccccccccccccCCCEEECCCCccCccCh--hhccCcchhcccCCCCEEECCCCcC
Confidence            8888876  35667788888887777665421  110 1  111235788888887763

>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=98.88  E-value=2.5e-09  Score=91.00  Aligned_cols=138  Identities=11%  Similarity=0.102  Sum_probs=100.8

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPL  181 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~  181 (377)
                      .++++|.+...        ....++ .+..+++|++|+|++|.+...+.+.++++|++|++.++.+..  +.. +++++.
T Consensus        40 ~~l~~L~l~~~--------~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~~~~--~~~-l~~l~~  107 (199)
T d2omxa2          40 DQVTTLQADRL--------GIKSID-GVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIAD--ITP-LANLTN  107 (199)
T ss_dssp             TTCCEEECTTS--------CCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC--CGG-GTTCTT
T ss_pred             cCCCEEECCCC--------CCCCcc-ccccCCCcCcCccccccccCcccccCCccccccccccccccc--ccc-cccccc
Confidence            56777776421        223343 356789999999999988554568899999999999997732  122 678999


Q ss_pred             cccccccccccceeeccCCCCCCcEEEEcccC--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh
Q 042962          182 IEFISIISCRGLKHLELPNLGKLKEFKVYDEY--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC  253 (377)
Q Consensus       182 Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~  253 (377)
                      |+.|.+++|.......+..+++|+.|.++++.  .++. ....++|++|.+.++. ..++ .++++++|++|+++
T Consensus       108 L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-l~~~~~L~~L~l~~n~l~~l~-~l~~l~~L~~L~ls  180 (199)
T d2omxa2         108 LTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISA-LSGLTSLQQLNFSSNQVTDLK-PLANLTTLERLDIS  180 (199)
T ss_dssp             CSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECC
T ss_pred             cccccccccccccccccchhhhhHHhhhhhhhhccccc-ccccccccccccccccccCCc-cccCCCCCCEEECC
Confidence            99999998854443445667999999999987  2332 2457899999998764 2222 37788999999887

>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=98.85  E-value=1e-09  Score=97.77  Aligned_cols=161  Identities=17%  Similarity=0.127  Sum_probs=107.4

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCcc-ccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQL-VFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCP  180 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~-l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp  180 (377)
                      ++++.|+|..        .....+|.. +..+++|++|+|++|.+...+.++.+++|++|+|++|++..  ....+.+.+
T Consensus        31 ~~l~~L~Ls~--------N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~--~~~~~~~l~  100 (266)
T d1p9ag_          31 KDTTILHLSE--------NLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQS--LPLLGQTLP  100 (266)
T ss_dssp             TTCCEEECTT--------SCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSS--CCCCTTTCT
T ss_pred             cCCCEEECcC--------CcCCCcCHHHhhccccccccccccccccccccccccccccccccccccccc--ccccccccc
Confidence            4678777652        234556644 56789999999999987544466789999999999998842  123467899


Q ss_pred             ccccccccccc--cceeeccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEeccc-cCCce-eeccCCCccccchh
Q 042962          181 LIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGLH-MLPHI-SVVPCKNLKKLKLC  253 (377)
Q Consensus       181 ~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~~-~~~~~~~L~~L~L~  253 (377)
                      +|+.|+++++.  .+.......+.+++.|.+.++.  .+ .......++|+.+.++++. ..++. .+..+++|++|+|+
T Consensus       101 ~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls  180 (266)
T d1p9ag_         101 ALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ  180 (266)
T ss_dssp             TCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             ccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCccccccccccceeecc
Confidence            99999999874  2333333446899999999887  22 2333457889999997764 22222 24556666666665


Q ss_pred             --------hhccCCCCCceEeccCCcc
Q 042962          254 --------QEIVDCMKLRSIKISSFCL  272 (377)
Q Consensus       254 --------~~l~~~~~L~~L~i~~~~L  272 (377)
                              ..+.++++|+.|++++|.+
T Consensus       181 ~N~L~~lp~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         181 ENSLYTIPKGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             SSCCCCCCTTTTTTCCCSEEECCSCCB
T ss_pred             cCCCcccChhHCCCCCCCEEEecCCCC
Confidence                    2234445566666665544

>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=98.80  E-value=1.5e-08  Score=91.61  Aligned_cols=188  Identities=15%  Similarity=0.068  Sum_probs=110.1

Q ss_pred             CCcCCCccccccCcccEEEeccccc-cCCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeecc
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKL-ESPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLEL  198 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~-~~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i  198 (377)
                      ....+|..+.  +++++|+|++|.+ ..|+ .+.++++|++|++.++.+..- ....+.+++.|+.|.++++. ++.+..
T Consensus        21 ~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i-~~~~f~~l~~L~~L~l~~n~-l~~l~~   96 (305)
T d1xkua_          21 GLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKI-SPGAFAPLVKLERLYLSKNQ-LKELPE   96 (305)
T ss_dssp             CCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCB-CTTTTTTCTTCCEEECCSSC-CSBCCS
T ss_pred             CCCccCCCCC--CCCCEEECcCCcCCCcChhHhhcccccccccccccccccc-chhhhhCCCccCEecccCCc-cCcCcc
Confidence            3455666553  5678888887776 3333 467777888888877766321 11235667777777777652 222221


Q ss_pred             CCCCCCcEEEEcccC--C---------------------------CchhhhcCCcccEEEEeccc-cCCceeeccCCCcc
Q 042962          199 PNLGKLKEFKVYDEY--G---------------------------LEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLK  248 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~--~---------------------------~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~  248 (377)
                      ...+.++.|.+.++.  .                           ........++|+.+.+.++. ..++  ...+++|+
T Consensus        97 ~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~--~~~~~~L~  174 (305)
T d1xkua_          97 KMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIP--QGLPPSLT  174 (305)
T ss_dssp             SCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCC--SSCCTTCS
T ss_pred             chhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccC--cccCCccC
Confidence            112344444443332  0                           01112234566666665543 2222  23356677


Q ss_pred             ccchh---------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCCcceEEEcccccccCcc-ccccceE
Q 042962          249 KLKLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPNLSIFKYHGDLISFSST-ALALSEI  315 (377)
Q Consensus       249 ~L~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~L~~~~~~~~~~p~~l~-~~~L~~l  315 (377)
                      .|++.         ..+.+++.++.|.++.+.++.+.   +.++++|+++.++.+++.       .+|..+. .++|+.|
T Consensus       175 ~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~-------~lp~~l~~l~~L~~L  247 (305)
T d1xkua_         175 ELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-------KVPGGLADHKYIQVV  247 (305)
T ss_dssp             EEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-------SCCTTTTTCSSCCEE
T ss_pred             EEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeeccccccc-------ccccccccccCCCEE
Confidence            77765         34677788888888888888764   355667777777766653       3444443 3789999


Q ss_pred             EEEecC
Q 042962          316 ALVFNP  321 (377)
Q Consensus       316 ~l~~n~  321 (377)
                      +++.|.
T Consensus       248 ~Ls~N~  253 (305)
T d1xkua_         248 YLHNNN  253 (305)
T ss_dssp             ECCSSC
T ss_pred             ECCCCc
Confidence            999874

>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=98.64  E-value=1.9e-08  Score=90.09  Aligned_cols=182  Identities=15%  Similarity=0.126  Sum_probs=113.8

Q ss_pred             CCceEEEEEeeCCCCCCCCCCcCCCcc-ccccCcccEEEeccccccC--CCCCCCCCCCCeeeccce-eeChHHHHHHhc
Q 042962          102 TNVKELKLGFCCPHSNYPDSYYNLPQL-VFYAKSMSLLGLDSCKLES--PRGNVTLSCLRELRPRHV-CADDQVIKDLIS  177 (377)
Q Consensus       102 ~~v~~L~L~~~~~~~~~~~~~~~lp~~-l~~~~~L~~L~L~~~~~~~--p~~~~~l~~L~~L~L~~~-~~~~~~l~~l~~  177 (377)
                      .++++|+|..        .....+|+. +..+++|++|+++++.+..  +..+..++.++.+..... .+.. .....++
T Consensus        32 ~~~~~L~Ls~--------N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~-l~~~~~~  102 (284)
T d1ozna_          32 AASQRIFLHG--------NRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRS-VDPATFH  102 (284)
T ss_dssp             TTCSEEECTT--------SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCC-CCTTTTT
T ss_pred             CCCCEEECcC--------CcCCCCCHHHhhcccccccccccccccccccccccccccccccccccccccccc-ccchhhc
Confidence            4567777642        134456653 5578899999999887632  234556777777765543 2211 1122367


Q ss_pred             CCcccccccccccc--cceeeccCCCCCCcEEEEcccC--CCc-hhhhcCCcccEEEEeccc-cCC-ceeeccCCCcccc
Q 042962          178 GCPLIEFISIISCR--GLKHLELPNLGKLKEFKVYDEY--GLE-QVYIQGMNAHSVHIIGLH-MLP-HISVVPCKNLKKL  250 (377)
Q Consensus       178 ~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~i~~~~--~~~-~~~~~~p~L~~L~l~g~~-~~~-~~~~~~~~~L~~L  250 (377)
                      ++++|++|.++.+.  .+.......+++|+.+.+.++.  .+. ......++|+.|++.++. ..+ +..+.++++|+++
T Consensus       103 ~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l  182 (284)
T d1ozna_         103 GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRL  182 (284)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             ccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchh
Confidence            78888888888774  2222233334778888888876  222 222356788888887654 222 2235677788877


Q ss_pred             chh---------hhccCCCCCceEeccCCccceEE---ccCcccccccccccCC
Q 042962          251 KLC---------QEIVDCMKLRSIKISSFCLKSFL---FIGYDTLDELKLCTPN  292 (377)
Q Consensus       251 ~L~---------~~l~~~~~L~~L~i~~~~L~~l~---l~~c~~L~~l~l~~~~  292 (377)
                      ++.         ..+.++++++.|+++.|.+..+.   ++++.+|+.+.++.+.
T Consensus       183 ~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~  236 (284)
T d1ozna_         183 LLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNP  236 (284)
T ss_dssp             ECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSC
T ss_pred             hhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCC
Confidence            776         34677788888888888887653   4566677777666554

>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=98.44  E-value=1.8e-07  Score=81.29  Aligned_cols=91  Identities=15%  Similarity=0.135  Sum_probs=63.3

Q ss_pred             CCcCCCccccccCcccEEEecccccc-CCC-CCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec-
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE-SPR-GNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE-  197 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~-~p~-~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~-  197 (377)
                      ....+|..+.  +++++|+|+++.+. .|+ .+.++++|++|+++++.+........+.+++.++++.+..+..+.... 
T Consensus        19 ~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~   96 (242)
T d1xwdc1          19 KVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINP   96 (242)
T ss_dssp             SCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECT
T ss_pred             CCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccccccc
Confidence            3456776654  57899999988873 343 578899999999998865322112235678888888888776554443 


Q ss_pred             --cCCCCCCcEEEEcccC
Q 042962          198 --LPNLGKLKEFKVYDEY  213 (377)
Q Consensus       198 --i~~l~~L~~L~i~~~~  213 (377)
                        +.++++|+.|.+.++.
T Consensus        97 ~~~~~l~~L~~l~l~~~~  114 (242)
T d1xwdc1          97 EAFQNLPNLQYLLISNTG  114 (242)
T ss_dssp             TSEECCTTCCEEEEESCC
T ss_pred             ccccccccccccccchhh
Confidence              2346889999998876

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.38  E-value=1e-07  Score=74.43  Aligned_cols=59  Identities=15%  Similarity=0.276  Sum_probs=34.0

Q ss_pred             ccccCcccEEEecccccc-CCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          129 VFYAKSMSLLGLDSCKLE-SPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~-~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      +..+++|++|++++|.+. .|+.+..+++|++|++++|.+++  ++. +..+|+|+.|+++++
T Consensus        16 l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~--l~~-~~~l~~L~~L~l~~N   75 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN--VDG-VANLPRLQELLLCNN   75 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC--CGG-GTTCSSCCEEECCSS
T ss_pred             cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccc--cCc-cccccccCeEECCCC
Confidence            556666777777766653 33445666667777776666632  112 445555666655544

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=4.6e-08  Score=80.27  Aligned_cols=80  Identities=13%  Similarity=0.046  Sum_probs=49.7

Q ss_pred             cccCcccEEEeccccccC-CCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCCCCCCc
Q 042962          130 FYAKSMSLLGLDSCKLES-PRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPNLGKLK  205 (377)
Q Consensus       130 ~~~~~L~~L~L~~~~~~~-p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~l~~L~  205 (377)
                      .++.+|+.|+|++|.+.. +..+..+++|+.|+|++|.+..  ++. ++.+|+|+.|++++|. +..+.   ...+++|+
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~--l~~-~~~l~~L~~L~ls~N~-i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRK--LDG-FPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLT   90 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCE--ECC-CCCCSSCCEEECCSSC-CCEECSCHHHHCTTCC
T ss_pred             cCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCc--cCC-cccCcchhhhhccccc-ccCCCccccccccccc
Confidence            466788899999988743 3334567888888888887732  112 4566777777777663 22221   11245666


Q ss_pred             EEEEcccC
Q 042962          206 EFKVYDEY  213 (377)
Q Consensus       206 ~L~i~~~~  213 (377)
                      .|.+.+|.
T Consensus        91 ~L~L~~N~   98 (162)
T d1a9na_          91 ELILTNNS   98 (162)
T ss_dssp             EEECCSCC
T ss_pred             cceecccc
Confidence            66666654

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.36  E-value=9.4e-08  Score=78.33  Aligned_cols=118  Identities=14%  Similarity=0.059  Sum_probs=80.9

Q ss_pred             CceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccc
Q 042962          103 NVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLI  182 (377)
Q Consensus       103 ~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~L  182 (377)
                      .+++|++.  .      .....+|.....+++|+.|+|++|.+...+.+..+++|++|++++|.+..- ...++.++|.|
T Consensus        19 ~lr~L~L~--~------n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l-~~~~~~~l~~L   89 (162)
T d1a9na_          19 RDRELDLR--G------YKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRI-GEGLDQALPDL   89 (162)
T ss_dssp             SCEEEECT--T------SCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEE-CSCHHHHCTTC
T ss_pred             cCcEEECC--C------CCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCC-Ccccccccccc
Confidence            35666654  2      245566655567899999999999875445688899999999999988421 11234569999


Q ss_pred             ccccccccc--cceee-ccCCCCCCcEEEEcccC--CCc----hhhhcCCcccEEE
Q 042962          183 EFISIISCR--GLKHL-ELPNLGKLKEFKVYDEY--GLE----QVYIQGMNAHSVH  229 (377)
Q Consensus       183 e~L~L~~c~--~l~~l-~i~~l~~L~~L~i~~~~--~~~----~~~~~~p~L~~L~  229 (377)
                      +.|.++++.  .+..+ .+..+++|+.|.+.+|.  ..+    .+...+|+|++|+
T Consensus        90 ~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          90 TELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             ccceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            999999873  33222 34457899999998886  111    1234567777765

>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=98.34  E-value=1.4e-06  Score=78.99  Aligned_cols=97  Identities=24%  Similarity=0.298  Sum_probs=57.1

Q ss_pred             HHHHhCCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHh
Q 042962           97 RYAVETNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLI  176 (377)
Q Consensus        97 ~~a~~~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~  176 (377)
                      +.+...++++|++.  .      .....+|..   .++|++|+|++|.+...+.  .+.+|+.|++.++.++.      +
T Consensus        33 ~~c~~~~l~~LdLs--~------~~L~~lp~~---~~~L~~L~Ls~N~l~~lp~--~~~~L~~L~l~~n~l~~------l   93 (353)
T d1jl5a_          33 RDCLDRQAHELELN--N------LGLSSLPEL---PPHLESLVASCNSLTELPE--LPQSLKSLLVDNNNLKA------L   93 (353)
T ss_dssp             HHHHHHTCSEEECT--T------SCCSCCCSC---CTTCSEEECCSSCCSSCCC--CCTTCCEEECCSSCCSC------C
T ss_pred             HHHHHcCCCEEEeC--C------CCCCCCCCC---CCCCCEEECCCCCCccccc--chhhhhhhhhhhcccch------h
Confidence            34444577777764  2      134467753   4678888888887743222  24678888888876631      2


Q ss_pred             cCC-cccccccccccccceee-ccCCCCCCcEEEEcccC
Q 042962          177 SGC-PLIEFISIISCRGLKHL-ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       177 ~~c-p~Le~L~L~~c~~l~~l-~i~~l~~L~~L~i~~~~  213 (377)
                      ... +.|++|+++++. +..+ ....+++|+.|.+.++.
T Consensus        94 ~~lp~~L~~L~L~~n~-l~~lp~~~~l~~L~~L~l~~~~  131 (353)
T d1jl5a_          94 SDLPPLLEYLGVSNNQ-LEKLPELQNSSFLKIIDVDNNS  131 (353)
T ss_dssp             CSCCTTCCEEECCSSC-CSSCCCCTTCTTCCEEECCSSC
T ss_pred             hhhccccccccccccc-cccccchhhhccceeecccccc
Confidence            223 357888887663 2211 22335677777776654

>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=98.33  E-value=4e-09  Score=89.81  Aligned_cols=110  Identities=14%  Similarity=0.094  Sum_probs=79.6

Q ss_pred             CcCCCccccccCcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-ccCC
Q 042962          122 YYNLPQLVFYAKSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-ELPN  200 (377)
Q Consensus       122 ~~~lp~~l~~~~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-~i~~  200 (377)
                      ...+|..+..+++|++|+|++|.+...+.+.++++|++|+|++|.+..  ++.+...++.|+.|+++++. +..+ .+..
T Consensus        37 i~~l~~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~--i~~~~~~~~~L~~L~l~~N~-i~~l~~~~~  113 (198)
T d1m9la_          37 IEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKK--IENLDAVADTLEELWISYNQ-IASLSGIEK  113 (198)
T ss_dssp             CCCCHHHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECS--CSSHHHHHHHCCEEECSEEE-CCCHHHHHH
T ss_pred             hhhhhhHHhcccccceeECcccCCCCcccccCCccccChhhccccccc--cccccccccccccccccccc-ccccccccc
Confidence            456777888899999999999987554567789999999999998842  22334446789999998773 3222 2334


Q ss_pred             CCCCcEEEEcccC--CCchh--hhcCCcccEEEEeccc
Q 042962          201 LGKLKEFKVYDEY--GLEQV--YIQGMNAHSVHIIGLH  234 (377)
Q Consensus       201 l~~L~~L~i~~~~--~~~~~--~~~~p~L~~L~l~g~~  234 (377)
                      +++|+.|.+++|.  .+..+  ...+|+|++|.++|+.
T Consensus       114 l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         114 LVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             cccccccccccchhccccccccccCCCccceeecCCCc
Confidence            5889999998886  22322  2357899999998763

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.31  E-value=2.9e-07  Score=71.81  Aligned_cols=96  Identities=14%  Similarity=0.116  Sum_probs=71.3

Q ss_pred             cEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceee-ccCCCCCCcEEEEcccC-
Q 042962          136 SLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHL-ELPNLGKLKEFKVYDEY-  213 (377)
Q Consensus       136 ~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l-~i~~l~~L~~L~i~~~~-  213 (377)
                      +.|+|++|.+...+.+.++++|++|++++|.+..  +...++.+++|+.|+++++. +..+ .+..+++|+.|.+.++. 
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~~L~~L~ls~N~l~~--lp~~~~~l~~L~~L~l~~N~-i~~l~~~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRA--LPPALAALRCLEVLQASDNA-LENVDGVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCC--CCGGGGGCTTCCEEECCSSC-CCCCGGGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCc--chhhhhhhhccccccccccc-ccccCccccccccCeEECCCCcc
Confidence            4689999988666678889999999999998842  22336789999999999873 2222 35567899999999887 


Q ss_pred             -CCch--hhhcCCcccEEEEeccc
Q 042962          214 -GLEQ--VYIQGMNAHSVHIIGLH  234 (377)
Q Consensus       214 -~~~~--~~~~~p~L~~L~l~g~~  234 (377)
                       ..+.  ....+|+|+.++++|+.
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             CCCCCchhhcCCCCCCEEECCCCc
Confidence             2332  23467899999998764

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.12  E-value=9.9e-07  Score=73.91  Aligned_cols=110  Identities=15%  Similarity=0.125  Sum_probs=72.0

Q ss_pred             CCcCCCccccccCcccEEEecccccc--CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--ccee
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCKLE--SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKH  195 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~~~--~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~  195 (377)
                      +...+|..+.  +++++|+|++|.+.  .+ ..+.++++|+.|+|.++.+..-. ...+.+.+.|++|+++++.  .+..
T Consensus        19 ~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~-~~~~~~~~~L~~L~Ls~N~l~~l~~   95 (192)
T d1w8aa_          19 GLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIE-PNAFEGASHIQELQLGENKIKEISN   95 (192)
T ss_dssp             CCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBC-TTTTTTCTTCCEEECCSCCCCEECS
T ss_pred             CcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeecccccccccc-ccccccccccceeeeccccccccCH
Confidence            4567787663  67999999999873  22 35678999999999998774221 2335678888888888763  2222


Q ss_pred             eccCCCCCCcEEEEcccC--CC-chhhhcCCcccEEEEecc
Q 042962          196 LELPNLGKLKEFKVYDEY--GL-EQVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       196 l~i~~l~~L~~L~i~~~~--~~-~~~~~~~p~L~~L~l~g~  233 (377)
                      -.+.++++|+.|.+.++.  .+ +......++|+++.+.++
T Consensus        96 ~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          96 KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             SSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTC
T ss_pred             HHHhCCCcccccccCCccccccCHHHhcCCccccccccccc
Confidence            234456788888888776  11 112224566777776555

>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=97.92  E-value=1.2e-06  Score=73.37  Aligned_cols=124  Identities=10%  Similarity=0.067  Sum_probs=77.8

Q ss_pred             cccEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccccc--ceeeccCCCCCCcEEEEc
Q 042962          134 SMSLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRG--LKHLELPNLGKLKEFKVY  210 (377)
Q Consensus       134 ~L~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~--l~~l~i~~l~~L~~L~i~  210 (377)
                      +.++++.+++.+ .+|..+  .+++++|+|++|.++.......+.+.++|+.|.++++.-  +..-....+++|+.|.++
T Consensus         9 ~~~~v~Cs~~~L~~iP~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls   86 (192)
T d1w8aa_           9 EGTTVDCTGRGLKEIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             ETTEEECTTSCCSSCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             cCCEEEEeCCCcCccCCCC--CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeec
Confidence            346778888777 344433  368999999999885433334467788999999987642  222233345788888888


Q ss_pred             ccC--CC-chhhhcCCcccEEEEeccc-cCCceeeccCCCccccchhhhccCCCCCceEeccCCccc
Q 042962          211 DEY--GL-EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       211 ~~~--~~-~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~  273 (377)
                      ++.  .+ +......++|+.|+++++. ..++.              ..+.++++|+.|++++|.+.
T Consensus        87 ~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~--------------~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          87 ENKIKEISNKMFLGLHQLKTLNLYDNQISCVMP--------------GSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             SCCCCEECSSSSTTCTTCCEEECCSSCCCEECT--------------TSSTTCTTCCEEECTTCCBC
T ss_pred             cccccccCHHHHhCCCcccccccCCccccccCH--------------HHhcCCcccccccccccccc
Confidence            886  11 2222356778888876653 11111              13455667777777777654

>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=97.67  E-value=5e-06  Score=75.86  Aligned_cols=182  Identities=14%  Similarity=0.120  Sum_probs=106.7

Q ss_pred             hhhHHHHHHHHHh-CCceEEEEEeeCCCCCCCCCCcCCCccccccCcccEEEeccccccCC------------CCCCCCC
Q 042962           89 VSSIYRCLRYAVE-TNVKELKLGFCCPHSNYPDSYYNLPQLVFYAKSMSLLGLDSCKLESP------------RGNVTLS  155 (377)
Q Consensus        89 ~~~i~~wi~~a~~-~~v~~L~L~~~~~~~~~~~~~~~lp~~l~~~~~L~~L~L~~~~~~~p------------~~~~~l~  155 (377)
                      ..++..++..... ..+++|+|....- .  +.....+...+...++|+.|+++++.....            ..+..++
T Consensus        17 ~e~~~~l~~~L~~~~~l~~L~Ls~n~i-~--~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~   93 (344)
T d2ca6a1          17 TEDEKSVFAVLLEDDSVKEIVLSGNTI-G--TEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCP   93 (344)
T ss_dssp             SHHHHTTSHHHHHCSCCCEEECTTSEE-C--HHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhhCCCCCEEECcCCcC-C--HHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCC
Confidence            4556666665543 5588877642100 0  011122334455678899999987653211            1234578


Q ss_pred             CCCeeeccceeeChH---HHHHHhcCCccccccccccccc-----------ceeec----cCCCCCCcEEEEcccC-C--
Q 042962          156 CLRELRPRHVCADDQ---VIKDLISGCPLIEFISIISCRG-----------LKHLE----LPNLGKLKEFKVYDEY-G--  214 (377)
Q Consensus       156 ~L~~L~L~~~~~~~~---~l~~l~~~cp~Le~L~L~~c~~-----------l~~l~----i~~l~~L~~L~i~~~~-~--  214 (377)
                      +|+.|+|++|.+++.   .+...+..++.|+.|.+++|.-           +..+.    ....+.|+.+.+.++. .  
T Consensus        94 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~  173 (344)
T d2ca6a1          94 KLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG  173 (344)
T ss_dssp             TCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG
T ss_pred             CcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccc
Confidence            899999999888543   3444456788999999987731           10000    0124788888887765 1  


Q ss_pred             ----CchhhhcCCcccEEEEeccccC-------CceeeccCCCccccchh-------------hhccCCCCCceEeccCC
Q 042962          215 ----LEQVYIQGMNAHSVHIIGLHML-------PHISVVPCKNLKKLKLC-------------QEIVDCMKLRSIKISSF  270 (377)
Q Consensus       215 ----~~~~~~~~p~L~~L~l~g~~~~-------~~~~~~~~~~L~~L~L~-------------~~l~~~~~L~~L~i~~~  270 (377)
                          +.......+.|+.|.++++.-.       ....+..+++|+.|+++             ..+..+++|+.|++++|
T Consensus       174 ~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n  253 (344)
T d2ca6a1         174 SMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDC  253 (344)
T ss_dssp             GHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTC
T ss_pred             ccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcC
Confidence                1111234678888888665311       11124566777777776             23567778888888777


Q ss_pred             ccc
Q 042962          271 CLK  273 (377)
Q Consensus       271 ~L~  273 (377)
                      .+.
T Consensus       254 ~i~  256 (344)
T d2ca6a1         254 LLS  256 (344)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            664

>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=97.64  E-value=9.4e-05  Score=63.31  Aligned_cols=175  Identities=19%  Similarity=0.127  Sum_probs=97.7

Q ss_pred             cEEEeccccc-cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeec---cCCCCCCcEEEEcc
Q 042962          136 SLLGLDSCKL-ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLE---LPNLGKLKEFKVYD  211 (377)
Q Consensus       136 ~~L~L~~~~~-~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~---i~~l~~L~~L~i~~  211 (377)
                      +.++.++..+ ..|..+  ++++++|+|+++.+.. .....+.++++|++|+++++.....+.   +.++++++++.+..
T Consensus        11 ~~i~c~~~~l~~iP~~l--~~~l~~L~Ls~n~i~~-l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~   87 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDL--PRNAIELRFVLTKLRV-IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   87 (242)
T ss_dssp             SEEEEESCSCSSCCSCS--CSCCSEEEEESCCCCE-ECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEEC
T ss_pred             CEEEEeCCCCCCcCCCC--CCCCCEEECcCCcCCc-cChhHhhccchhhhhhhccccccceeeccccccccccccccccc
Confidence            5566666555 344333  3589999999998742 112246789999999999885443332   33468899999877


Q ss_pred             cCCC----chhhhcCCcccEEEEeccc-cCCceeeccCCCccccch---h---------hhccCC-CCCceEeccCCccc
Q 042962          212 EYGL----EQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKL---C---------QEIVDC-MKLRSIKISSFCLK  273 (377)
Q Consensus       212 ~~~~----~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L---~---------~~l~~~-~~L~~L~i~~~~L~  273 (377)
                      +..+    ......+++|+.+.+.++. ...+ ....+.+++.+..   .         ..+.++ ..++.+.++++.++
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~-~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~  166 (242)
T d1xwdc1          88 ANNLLYINPEAFQNLPNLQYLLISNTGIKHLP-DVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQ  166 (242)
T ss_dssp             CTTCCEECTTSEECCTTCCEEEEESCCCCSCC-CCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCC
T ss_pred             cccccccccccccccccccccccchhhhcccc-cccccccccccccccccccccccccccccccccccceeeeccccccc
Confidence            6522    2223457999999998764 2211 1223333333221   1         122333 36667777777776


Q ss_pred             eEEccCc--ccccccc-cccCCcceEEEcccccccC-cc-ccccceEEEEecC
Q 042962          274 SFLFIGY--DTLDELK-LCTPNLSIFKYHGDLISFS-ST-ALALSEIALVFNP  321 (377)
Q Consensus       274 ~l~l~~c--~~L~~l~-l~~~~L~~~~~~~~~~p~~-l~-~~~L~~l~l~~n~  321 (377)
                      .+.-..+  .++.++. +..+++.       .+|.. +. .++|+.|+++.|.
T Consensus       167 ~i~~~~~~~~~l~~~~~l~~n~l~-------~l~~~~f~~l~~L~~L~Ls~N~  212 (242)
T d1xwdc1         167 EIHNCAFNGTQLDELNLSDNNNLE-------ELPNDVFHGASGPVILDISRTR  212 (242)
T ss_dssp             EECTTTTTTCCEEEEECTTCTTCC-------CCCTTTTTTSCCCSEEECTTSC
T ss_pred             ccccccccchhhhccccccccccc-------cccHHHhcCCCCCCEEECCCCc
Confidence            6543222  2233222 2333332       23321 22 2678888887653

>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=97.51  E-value=1.4e-06  Score=73.45  Aligned_cols=124  Identities=12%  Similarity=0.104  Sum_probs=74.5

Q ss_pred             cccEEEeccccc---cCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccc--cceeeccCCCCCCcEEE
Q 042962          134 SMSLLGLDSCKL---ESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCR--GLKHLELPNLGKLKEFK  208 (377)
Q Consensus       134 ~L~~L~L~~~~~---~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~--~l~~l~i~~l~~L~~L~  208 (377)
                      .++.+++.+..-   ..+..+..+++|++|+|+++.+..  +.. +.++++|+.|++++|.  .+..+.- .+++|+.|.
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~I~~--i~~-l~~l~~L~~L~Ls~N~i~~i~~~~~-~~~~L~~L~   99 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEK--ISS-LSGMENLRILSLGRNLIKKIENLDA-VADTLEELW   99 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEEESC--CCC-HHHHTTCCEEECCEEEECSCSSHHH-HHHHCCEEE
T ss_pred             ccceeeeecccCchhhhhhHHhcccccceeECcccCCCC--ccc-ccCCccccChhhccccccccccccc-ccccccccc
Confidence            345556654321   111245678999999999998842  222 5668899999998873  2221111 125788888


Q ss_pred             EcccCCCchh--hhcCCcccEEEEeccccCCceeeccCCCccccchhhhccCCCCCceEeccCCccce
Q 042962          209 VYDEYGLEQV--YIQGMNAHSVHIIGLHMLPHISVVPCKNLKKLKLCQEIVDCMKLRSIKISSFCLKS  274 (377)
Q Consensus       209 i~~~~~~~~~--~~~~p~L~~L~l~g~~~~~~~~~~~~~~L~~L~L~~~l~~~~~L~~L~i~~~~L~~  274 (377)
                      +.+|. +..+  ...+++|+.|+++++.-.      ....+      ..+.++++|+.|++++|.+..
T Consensus       100 l~~N~-i~~l~~~~~l~~L~~L~L~~N~i~------~~~~~------~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_         100 ISYNQ-IASLSGIEKLVNLRVLYMSNNKIT------NWGEI------DKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             CSEEE-CCCHHHHHHHHHSSEEEESEEECC------CHHHH------HHHTTTTTCSEEEECSSHHHH
T ss_pred             ccccc-ccccccccccccccccccccchhc------ccccc------ccccCCCccceeecCCCcccc
Confidence            88876 2222  235678888888665311      10001      245677888888888876653

>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=97.47  E-value=4e-05  Score=61.64  Aligned_cols=14  Identities=21%  Similarity=-0.062  Sum_probs=6.5

Q ss_pred             CCCCCCCCCeeecc
Q 042962          150 GNVTLSCLRELRPR  163 (377)
Q Consensus       150 ~~~~l~~L~~L~L~  163 (377)
                      .+.++++|+.|++.
T Consensus        26 ~l~~l~~l~~L~l~   39 (156)
T d2ifga3          26 HLPGAENLTELYIE   39 (156)
T ss_dssp             TSCSCSCCSEEECC
T ss_pred             cccCccccCeeecC
Confidence            34444444554444

>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=97.34  E-value=5.2e-05  Score=68.81  Aligned_cols=146  Identities=11%  Similarity=0.075  Sum_probs=92.2

Q ss_pred             ccccCcccEEEeccccccCC------CCCCCCCCCCeeeccceeeChHHHHHH------------hcCCccccccccccc
Q 042962          129 VFYAKSMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVCADDQVIKDL------------ISGCPLIEFISIISC  190 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~~~~~~l~~l------------~~~cp~Le~L~L~~c  190 (377)
                      +..+++|+.|+|++|.+...      ..+...++|+.|++.++.+++.....+            ....+.|+.|.++++
T Consensus        89 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n  168 (344)
T d2ca6a1          89 LLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRN  168 (344)
T ss_dssp             HTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSS
T ss_pred             HhhCCCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccc
Confidence            44688999999999876431      122356889999999998744322221            236788888888765


Q ss_pred             c----cceee--ccCCCCCCcEEEEcccC-C---C----chhhhcCCcccEEEEecccc------CCceeeccCCCcccc
Q 042962          191 R----GLKHL--ELPNLGKLKEFKVYDEY-G---L----EQVYIQGMNAHSVHIIGLHM------LPHISVVPCKNLKKL  250 (377)
Q Consensus       191 ~----~l~~l--~i~~l~~L~~L~i~~~~-~---~----~~~~~~~p~L~~L~l~g~~~------~~~~~~~~~~~L~~L  250 (377)
                      .    +...+  .+..+++|+.|.+..|. .   .    .......++|+.|+++++..      .+...+..+++|++|
T Consensus       169 ~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L  248 (344)
T d2ca6a1         169 RLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLREL  248 (344)
T ss_dssp             CCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEE
T ss_pred             cccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhh
Confidence            2    11111  11224789999998887 1   1    11123468899999977631      112236788899999


Q ss_pred             chh-------------hhccC--CCCCceEeccCCccce
Q 042962          251 KLC-------------QEIVD--CMKLRSIKISSFCLKS  274 (377)
Q Consensus       251 ~L~-------------~~l~~--~~~L~~L~i~~~~L~~  274 (377)
                      +++             ..+..  .+.|+.|++++|.+..
T Consensus       249 ~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~  287 (344)
T d2ca6a1         249 GLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIEL  287 (344)
T ss_dssp             ECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBH
T ss_pred             hhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCCh
Confidence            887             12232  3567788888776543

>d1fs1a1 a.158.1.1 (A:109-149) Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=4e-05  Score=46.75  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=22.6

Q ss_pred             CCCCcHHHHHHHhhcCChhHH---------hhcC
Q 042962           15 ISALLAPILHHILSFLSIEQV---------WHSH   39 (377)
Q Consensus        15 iS~LPD~lL~~ILs~Lp~~da---------Wr~l   39 (377)
                      ++.||+||+.+||+|||.+|.         |+++
T Consensus         1 f~~LP~eil~~If~~L~~~dl~~~~~Vcr~w~~l   34 (41)
T d1fs1a1           1 WDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRL   34 (41)
T ss_dssp             CCSSCHHHHHHHHTTSCGGGHHHHHTTCHHHHHH
T ss_pred             CCcCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            468999999999999999998         8876

>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=97.19  E-value=0.00072  Score=60.32  Aligned_cols=128  Identities=15%  Similarity=0.010  Sum_probs=79.4

Q ss_pred             CcccEEEeccccccCCCCCCCCCCCCeeeccceeeChHHHHHHhcCCcccccccccccccceeeccCCCCCCcEEEEccc
Q 042962          133 KSMSLLGLDSCKLESPRGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISCRGLKHLELPNLGKLKEFKVYDE  212 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c~~l~~l~i~~l~~L~~L~i~~~  212 (377)
                      .++++|+|+++.+...|.  ..++|++|+|++++++     .+-...++|+.|.+.++. +..+.-- .+.|++|++.++
T Consensus        38 ~~l~~LdLs~~~L~~lp~--~~~~L~~L~Ls~N~l~-----~lp~~~~~L~~L~l~~n~-l~~l~~l-p~~L~~L~L~~n  108 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPE--LPPHLESLVASCNSLT-----ELPELPQSLKSLLVDNNN-LKALSDL-PPLLEYLGVSNN  108 (353)
T ss_dssp             HTCSEEECTTSCCSCCCS--CCTTCSEEECCSSCCS-----SCCCCCTTCCEEECCSSC-CSCCCSC-CTTCCEEECCSS
T ss_pred             cCCCEEEeCCCCCCCCCC--CCCCCCEEECCCCCCc-----ccccchhhhhhhhhhhcc-cchhhhh-cccccccccccc
Confidence            579999999998743232  3578999999999884     122345689999998763 2222211 157999999988


Q ss_pred             C--CCchhhhcCCcccEEEEeccc-cCCceeeccCCCccccchh-------hhccCCCCCceEeccCCccc
Q 042962          213 Y--GLEQVYIQGMNAHSVHIIGLH-MLPHISVVPCKNLKKLKLC-------QEIVDCMKLRSIKISSFCLK  273 (377)
Q Consensus       213 ~--~~~~~~~~~p~L~~L~l~g~~-~~~~~~~~~~~~L~~L~L~-------~~l~~~~~L~~L~i~~~~L~  273 (377)
                      .  .++.. ..+++|+.|++.++. ...+...   ..+..+.+.       ..+..++.++.+.+..+...
T Consensus       109 ~l~~lp~~-~~l~~L~~L~l~~~~~~~~~~~~---~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~  175 (353)
T d1jl5a_         109 QLEKLPEL-QNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLK  175 (353)
T ss_dssp             CCSSCCCC-TTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCS
T ss_pred             ccccccch-hhhccceeecccccccccccccc---ccccchhhccccccccccccccccceeccccccccc
Confidence            7  33332 457899999987653 1111111   222222222       23455667777777665443

>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=97.05  E-value=0.00022  Score=57.04  Aligned_cols=69  Identities=14%  Similarity=0.033  Sum_probs=49.4

Q ss_pred             CCcCCCccccccCcccEEEecccc-cc-CC-CCCCCCCCCCeeeccceeeChHHHHHHhcCCccccccccccc
Q 042962          121 SYYNLPQLVFYAKSMSLLGLDSCK-LE-SP-RGNVTLSCLRELRPRHVCADDQVIKDLISGCPLIEFISIISC  190 (377)
Q Consensus       121 ~~~~lp~~l~~~~~L~~L~L~~~~-~~-~p-~~~~~l~~L~~L~L~~~~~~~~~l~~l~~~cp~Le~L~L~~c  190 (377)
                      ....+|..+...++|++|.+.++. +. ++ ..+.++++|+.|+|++|++..-. ...+.+.++|+.|+|+++
T Consensus        19 ~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~-~~~f~~l~~L~~L~Ls~N   90 (156)
T d2ifga3          19 GALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVA-PDAFHFTPRLSRLNLSFN   90 (156)
T ss_dssp             CCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEEC-TTGGGSCSCCCEEECCSS
T ss_pred             CCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcc-cccccccccccceeccCC
Confidence            445667777788999999998764 42 23 36888999999999999773211 223566777777777765

>d2ovrb1 a.158.1.1 (B:2263-2364) F-box/WD repeat-containing protein 7, FBXW7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD repeat-containing protein 7, FBXW7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.00  E-value=0.00018  Score=53.09  Aligned_cols=25  Identities=32%  Similarity=0.416  Sum_probs=23.6

Q ss_pred             CCCCCCCCcHHHHHHHhhcCChhHH
Q 042962           11 NGDMISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        11 ~~DriS~LPD~lL~~ILs~Lp~~da   35 (377)
                      ..|.|+.||+||+.+||+|||.+|.
T Consensus        15 ~~D~i~~LP~Eil~~Ils~Ld~~dL   39 (102)
T d2ovrb1          15 QRDFISLLPKELALYVLSFLEPKDL   39 (102)
T ss_dssp             CCSTTTSSCHHHHHHHHTTSCHHHH
T ss_pred             ccCChhhCCHHHHHHHHHcCCHHHH
Confidence            4699999999999999999999998

>d1nexb1 a.158.1.1 (B:270-369) Cdc4 F-box and linker domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: Cdc4 F-box and linker domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.48  E-value=0.00019  Score=52.89  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=22.7

Q ss_pred             CCCCCCCcHHHHHHHhhcCChhHH
Q 042962           12 GDMISALLAPILHHILSFLSIEQV   35 (377)
Q Consensus        12 ~DriS~LPD~lL~~ILs~Lp~~da   35 (377)
                      .|.|+.||+||+.+|||||+.+|.
T Consensus         3 ~D~~~~LP~Ell~~I~s~Ld~~dL   26 (100)
T d1nexb1           3 RDLITSLPFEISLKIFNYLQFEDI   26 (100)
T ss_dssp             CCHHHHSCHHHHHHHHTTSCHHHH
T ss_pred             CCchhhCCHHHHHHHHHCCCHHHH
Confidence            588999999999999999999998

>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=96.43  E-value=0.00025  Score=65.75  Aligned_cols=84  Identities=23%  Similarity=0.286  Sum_probs=58.2

Q ss_pred             ccccCcccEEEeccccccCC------CCCCCCCCCCeeeccceeeChHHHHHHhc----CCccccccccccccccee---
Q 042962          129 VFYAKSMSLLGLDSCKLESP------RGNVTLSCLRELRPRHVCADDQVIKDLIS----GCPLIEFISIISCRGLKH---  195 (377)
Q Consensus       129 l~~~~~L~~L~L~~~~~~~p------~~~~~l~~L~~L~L~~~~~~~~~l~~l~~----~cp~Le~L~L~~c~~l~~---  195 (377)
                      +..++++++|+|++|.+...      ..+..+++|+.|+|++|.+++..+..+..    ..+.|++|++++|. ++.   
T Consensus        23 ~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-it~~~~  101 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCC-LTGAGC  101 (460)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSC-CBGGGH
T ss_pred             HHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCC-cccccc
Confidence            44678888999998876321      12356788999999999886666655443    34579999998884 221   


Q ss_pred             --e--ccCCCCCCcEEEEcccC
Q 042962          196 --L--ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       196 --l--~i~~l~~L~~L~i~~~~  213 (377)
                        +  .+..+++|++|.+.++.
T Consensus       102 ~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1         102 GVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             HHHHHHTTSCTTCCEEECCSSB
T ss_pred             ccccchhhcccccccccccccc
Confidence              1  23345889999988876

>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=96.25  E-value=0.00046  Score=63.88  Aligned_cols=100  Identities=12%  Similarity=0.099  Sum_probs=65.7

Q ss_pred             CcccEEEeccccccCC---CCCCCCCCCCeeeccceeeChHHHHH---HhcCCcccccccccccc----cceee----cc
Q 042962          133 KSMSLLGLDSCKLESP---RGNVTLSCLRELRPRHVCADDQVIKD---LISGCPLIEFISIISCR----GLKHL----EL  198 (377)
Q Consensus       133 ~~L~~L~L~~~~~~~p---~~~~~l~~L~~L~L~~~~~~~~~l~~---l~~~cp~Le~L~L~~c~----~l~~l----~i  198 (377)
                      .+|+.|+++++.+...   .-+..++++|+|+|.+|.+++..++.   .+..+|+|++|+|+++.    +...+    ..
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            3588999988776321   12345788999999999997665544   45789999999998763    11111    11


Q ss_pred             CCCCCCcEEEEcccCC--C--c---hhhhcCCcccEEEEecc
Q 042962          199 PNLGKLKEFKVYDEYG--L--E---QVYIQGMNAHSVHIIGL  233 (377)
Q Consensus       199 ~~l~~L~~L~i~~~~~--~--~---~~~~~~p~L~~L~l~g~  233 (377)
                      . ..+|++|.+.+|..  .  .   ......++|++|+++++
T Consensus        82 ~-~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          82 P-SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             T-TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             C-CCCCCEEECCCCCccccccccccchhhccccccccccccc
Confidence            2 25799999988871  1  1   11124677888887665

>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=95.75  E-value=0.0031  Score=50.60  Aligned_cols=60  Identities=17%  Similarity=0.193  Sum_probs=33.7

Q ss_pred             CCCCCeeeccce-eeChHHHHHH---hcCCccccccccccccc----ceee--ccCCCCCCcEEEEcccC
Q 042962          154 LSCLRELRPRHV-CADDQVIKDL---ISGCPLIEFISIISCRG----LKHL--ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       154 l~~L~~L~L~~~-~~~~~~l~~l---~~~cp~Le~L~L~~c~~----l~~l--~i~~l~~L~~L~i~~~~  213 (377)
                      .+.|+.|+|+++ .++++.+..+   +..++.|++|+|++|.-    ...+  .+...++|++|.+++|.
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~   83 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF   83 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh
Confidence            467778888764 4555544433   45667777777776621    1111  11112667777776665

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0011  Score=53.17  Aligned_cols=61  Identities=13%  Similarity=0.220  Sum_probs=28.5

Q ss_pred             HHHhcCCcccccccccccc--cceeec--cCCCCCCcEEEEcccC--CCchh-hhcCCcccEEEEecc
Q 042962          173 KDLISGCPLIEFISIISCR--GLKHLE--LPNLGKLKEFKVYDEY--GLEQV-YIQGMNAHSVHIIGL  233 (377)
Q Consensus       173 ~~l~~~cp~Le~L~L~~c~--~l~~l~--i~~l~~L~~L~i~~~~--~~~~~-~~~~p~L~~L~l~g~  233 (377)
                      ..+...||.|++|+|+++.  .+..+.  +..+++|+.|+++++.  .+..+ ....++|+.+.+.|+
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~N  125 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGN  125 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTS
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCC
Confidence            3344456666666666552  111110  1124566666666665  22221 123345555555554

>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=95.37  E-value=0.002  Score=51.78  Aligned_cols=38  Identities=13%  Similarity=0.223  Sum_probs=19.8

Q ss_pred             CCCCCCeeeccceeeChHHH---HHHhcCCccccccccccc
Q 042962          153 TLSCLRELRPRHVCADDQVI---KDLISGCPLIEFISIISC  190 (377)
Q Consensus       153 ~l~~L~~L~L~~~~~~~~~l---~~l~~~cp~Le~L~L~~c  190 (377)
                      ..+.|++|+|+++.+++...   ...+..++.|++|+|++|
T Consensus        42 ~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n   82 (167)
T d1pgva_          42 NSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN   82 (167)
T ss_dssp             TCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS
T ss_pred             hCCccceeeccccccchhHHHHHhhhhhhcccccceeeehh
Confidence            34556666666665543322   223445566666666655

>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=95.10  E-value=0.006  Score=48.62  Aligned_cols=61  Identities=18%  Similarity=0.163  Sum_probs=37.2

Q ss_pred             CCCCCCeeeccce-eeChHHHHHH---hcCCcccccccccccc----cceee--ccCCCCCCcEEEEcccC
Q 042962          153 TLSCLRELRPRHV-CADDQVIKDL---ISGCPLIEFISIISCR----GLKHL--ELPNLGKLKEFKVYDEY  213 (377)
Q Consensus       153 ~l~~L~~L~L~~~-~~~~~~l~~l---~~~cp~Le~L~L~~c~----~l~~l--~i~~l~~L~~L~i~~~~  213 (377)
                      +.++|++|+|.++ .++++.+..+   +..++.|++|++++|.    +...+  .+...++++.+.+.+|.
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~   85 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF   85 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhcccc
Confidence            4578888888874 4666665544   3467888888888772    11111  11113677777777766

>d1p22a1 a.158.1.1 (A:135-252) F-box/WD-repeat protein 1 (beta-TRCP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD-repeat protein 1 (beta-TRCP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.93  E-value=0.002  Score=48.62  Aligned_cols=26  Identities=35%  Similarity=0.508  Sum_probs=23.2

Q ss_pred             CCCCCCCCCc----HHHHHHHhhcCChhHH
Q 042962           10 ANGDMISALL----APILHHILSFLSIEQV   35 (377)
Q Consensus        10 ~~~DriS~LP----D~lL~~ILs~Lp~~da   35 (377)
                      -..|.|+.||    |||+.+|||||+.+|.
T Consensus         6 l~~D~i~~LP~~l~~EI~~~Ils~Ld~~dL   35 (118)
T d1p22a1           6 LQRDFITALPARGLDHIAENILSYLDAKSL   35 (118)
T ss_dssp             SCCCHHHHTGGGTCHHHHHHHHTTCCHHHH
T ss_pred             HcccHHHHCCCCChHHHHHHHHHcCCHHHH
Confidence            3468999999    6999999999999998

>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=94.79  E-value=0.001  Score=53.33  Aligned_cols=36  Identities=14%  Similarity=-0.054  Sum_probs=17.3

Q ss_pred             cCcccEEEeccccccCCC----CCCCCCCCCeeeccceee
Q 042962          132 AKSMSLLGLDSCKLESPR----GNVTLSCLRELRPRHVCA  167 (377)
Q Consensus       132 ~~~L~~L~L~~~~~~~p~----~~~~l~~L~~L~L~~~~~  167 (377)
                      +++|++|+|++|.+...+    .+.++++|+.|+|++|.+
T Consensus        64 ~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i  103 (162)
T d1koha1          64 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNEL  103 (162)
T ss_dssp             CTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCC
T ss_pred             CCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCcc
Confidence            455555555555542211    123345555555555555

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=93.82  E-value=0.012  Score=46.83  Aligned_cols=60  Identities=10%  Similarity=0.131  Sum_probs=35.7

Q ss_pred             ccCcccEEEeccc-cccCC------CCCCCCCCCCeeeccceeeChHHHHH---HhcCCccccccccccc
Q 042962          131 YAKSMSLLGLDSC-KLESP------RGNVTLSCLRELRPRHVCADDQVIKD---LISGCPLIEFISIISC  190 (377)
Q Consensus       131 ~~~~L~~L~L~~~-~~~~p------~~~~~l~~L~~L~L~~~~~~~~~l~~---l~~~cp~Le~L~L~~c  190 (377)
                      +.++|++|+|+++ .+...      ..+...+.|++|+|+++.++++....   .+...+.|+.+.+.+|
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~   84 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN   84 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccc
Confidence            3566777777653 23110      12345677777777777775544443   3455677777777766