Citrus Sinensis ID: 042890

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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----
Protein Sequence
MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Secondary Structure (PSIPRED)
ccccccccccHHHHcccccccEEEEcccccccccccccccccccccccccEEEcccccccccccccHHHHHHcccccccccEEcccccccccccccccccccccccccEEccccccccccccccccccccccEEEcccccccccccccccccccEEEccccccccccHHHHccccccEEEcccccccccccccccccccccEEEEccccccccccccccccccccEEEccccccccccHHHHccccccEEEccc
Secondary Structure Prediction (SSPRO)
cccccEcEccHHHHHHcHccEEEEEEccccccccEEccccccccccHHcEEEccccccccccccHHHHHcccccccHHcccEEEccccHHHHHcccccccHHHHHcccEEEccccccHccccccHHHHHHccEEEcccccHHHccccccHHHHHEEEccccccHcccccHHHHHcccEEEccccccHHccccHHcccccccEEEcccccHHcccccccccHHHHHHEccccccccccccHHHHHHcccEEEccc
Coil and Loop (DISEMBL)
mskvkelrlnpntftkmpklRFLKFYSSLfngenkckmsylqdpgfaevkylhwhgyplkslpsndiEQLWDRVKRYSKLNQIIHAACHKLIakipnptlmpRMKKLVILNLrgskslkslpsgifnlefltkldlsgcsklkrlpeissgnisWLFLRGIAIEELPSSIERQLRLSWldlsdckrlkslpsslyrlkslgildlhgcsnlqrlpeclgqlsspitcnlaktnieRIPESIIQLFVSGYLLLSY
Flexible Loop (DISEMBL)
mskvkelrlnpntftkmpklrFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIakipnptlmPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLkrlpeissgnisWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Low Complexity Region (SEG)
MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Disordered region (IsUnstruct)
*************FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL**
Disordered Region (DISOPRED)
*SKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Disordered Region (DISEMBL)
MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Disordered Region (DISPRO)
**KVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY
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	254	2.2.26 [Sep-21-2011]
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.940	0.126	0.341	4e-28
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.712	0.139	0.371	3e-18
Q40392	1144	TMV resistance protein N	N/A	no	0.724	0.160	0.330	2e-14
Q9FL92	1372	Probable WRKY transcripti	no	no	0.834	0.154	0.290	2e-12
O82500	1095	Putative disease resistan	no	no	0.881	0.204	0.271	4e-12
Q9FH83	1288	Probable WRKY transcripti	no	no	0.846	0.166	0.293	3e-11
P0CB16	1201	Putative disease resistan	no	no	0.641	0.135	0.292	7e-11
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.893	0.140	0.242	1e-08
Q9RBS2	1024	Protein PopC OS=Ralstonia	no	no	0.606	0.150	0.317	2e-08
O81825	919	Probable disease resistan	no	no	0.677	0.187	0.288	7e-08

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

 Score =  125 bits (313), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 98/287 (34%), Positives = 146/287 (50%), Gaps = 48/287 (16%)

Query: 10   NPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF--AEVKYLHWHGYPLKS------ 61
            NPN F KM  LR LK Y S    E K  +S+ Q   +  ++++ LHW  YPL S      
Sbjct: 1168 NPNVFEKMCNLRLLKLYCS--KAEEKHGVSFPQGLEYLPSKLRLLHWEYYPLSSLPKSFN 1225

Query: 62   --------LPSNDIEQLWDRVK-RYSKLNQIIHAACHKLIAKIPNPTLMPRM-------- 104
                    LPS+  ++LW   K R+   N  +       ++     T +PR+        
Sbjct: 1226 PENLVELNLPSSCAKKLWKGKKARFCTTNSSLEKLKKMRLSYSDQLTKIPRLSSATNLEH 1285

Query: 105  -------------------KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL 145
                               KKLV LNL+G   L+++PS + +LE L  L+LSGCSKL   
Sbjct: 1286 IDLEGCNSLLSLSQSISYLKKLVFLNLKGCSKLENIPS-MVDLESLEVLNLSGCSKLGNF 1344

Query: 146  PEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL 205
            PEIS  N+  L++ G  I+E+PSSI+  + L  LDL + + LK+LP+S+Y+LK L  L+L
Sbjct: 1345 PEISP-NVKELYMGGTMIQEIPSSIKNLVLLEKLDLENSRHLKNLPTSIYKLKHLETLNL 1403

Query: 206  HGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL 252
             GC +L+R P+   ++      +L++T+I+ +P SI  L     LL 
Sbjct: 1404 SGCISLERFPDSSRRMKCLRFLDLSRTDIKELPSSISYLTALDELLF 1450

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.
Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score = 92.4 bits (228), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 72/194 (37%), Positives = 106/194 (54%), Gaps = 13/194 (6%)

Query: 62   LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL 121
            L +  IE++ D + + + L  +    C  L+     PT +  ++KLV   ++    L+ L
Sbjct: 938  LENTAIEEIPD-LSKATNLKNLKLNNCKSLVTL---PTTIGNLQKLVSFEMKECTGLEVL 993

Query: 122  PSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDL 181
            P  + NL  L  LDLSGCS L+  P IS+ NI WL+L   AIEE+PS+I    RL  L++
Sbjct: 994  PIDV-NLSSLMILDLSGCSSLRTFPLIST-NIVWLYLENTAIEEIPSTIGNLHRLVKLEM 1051

Query: 182  SDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITC-NLAKTNIERIPES 240
             +C  L+ LP+ +  L SL ILDL GCS+L+  P     +S+ I C  L  T IE +P  
Sbjct: 1052 KECTGLEVLPTDV-NLSSLMILDLSGCSSLRTFP----LISTRIECLYLQNTAIEEVP-C 1105

Query: 241  IIQLFVSGYLLLSY 254
             I+ F    +L+ Y
Sbjct: 1106 CIEDFTRLTVLMMY 1119

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 79.7 bits (195), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 75/227 (33%), Positives = 107/227 (47%), Gaps = 43/227 (18%)

Query: 57  YPLKSLPS--------------NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP 102
           YP +S PS              N +  LW   K    L +I   +  K + + P+ T MP
Sbjct: 584 YPWESFPSTFELKMLVHLQLRHNSLRHLWTETKHLPSLRRI-DLSWSKRLTRTPDFTGMP 642

Query: 103 RMK---------------------KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSK 141
            ++                     K++ L L   KSLK  P    N+E L  L L  C  
Sbjct: 643 NLEYVNLYQCSNLEEVHHSLGCCSKVIGLYLNDCKSLKRFP--CVNVESLEYLGLRSCDS 700

Query: 142 LKRLPEISSGNIS---WLFLRGIAIEELPSSI-ERQLRLSWLDLSDCKRLKSLPSSLYRL 197
           L++LPEI  G +     + ++G  I ELPSSI + +  ++ L L + K L +LPSS+ RL
Sbjct: 701 LEKLPEIY-GRMKPEIQIHMQGSGIRELPSSIFQYKTHVTKLLLWNMKNLVALPSSICRL 759

Query: 198 KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           KSL  L + GCS L+ LPE +G L +    + + T I R P SII+L
Sbjct: 760 KSLVSLSVSGCSKLESLPEEIGDLDNLRVFDASDTLILRPPSSIIRL 806

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

Nicotiana glutinosa (taxid: 35889)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score = 73.2 bits (178), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 84/289 (29%), Positives = 123/289 (42%), Gaps = 77/289 (26%)

Query: 13  TFTKMPKLRFLKFYSS---LFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSN---- 65
            F  M  LR  K YSS   + +  N  K S    P    ++ LHW  YPL+ LP N    
Sbjct: 512 AFDNMLNLRLFKIYSSNPEVHHVNNFLKGSLSSLPNV--LRLLHWENYPLQFLPQNFDPI 569

Query: 66  ----------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGS 115
                      +++LW   K    L  I    CH    ++ +   + + + L +++L+G 
Sbjct: 570 HLVEINMPYSQLKKLWGGTKDLEMLKTI--RLCHS--QQLVDIDDLLKAQNLEVVDLQGC 625

Query: 116 KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSI----E 171
             L+S P+    L  L  ++LSGC+++K  PEI   NI  L L+G  I ELP SI     
Sbjct: 626 TRLQSFPA-TGQLLHLRVVNLSGCTEIKSFPEIPP-NIETLNLQGTGIIELPLSIVKPNY 683

Query: 172 RQL--------------------------------------RLSWLDLSDCKRLKSLPSS 193
           R+L                                      +LS L+L+DC RL+SLP +
Sbjct: 684 RELLNLLAEIPGLSGVSNLEQSDLKPLTSLMKISTSYQNPGKLSCLELNDCSRLRSLP-N 742

Query: 194 LYRLKSLGILDLHGCSNL---QRLPECLGQLSSPITCNLAKTNIERIPE 239
           +  L+ L  LDL GCS L   Q  P  L +L       L  T + ++P+
Sbjct: 743 MVNLELLKALDLSGCSELETIQGFPRNLKELY------LVGTAVRQVPQ 785

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

Arabidopsis thaliana (taxid: 3702)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score = 72.0 bits (175), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 79/291 (27%), Positives = 129/291 (44%), Gaps = 67/291 (23%)

Query: 5   KELRLNPNTFTKMPKLRFLKFY-SSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLK 60
           +EL ++  TF +M  L +LKFY SS  + + K K+  L + G +   +++ LHW  YPL+
Sbjct: 541 EELYISEKTFEEMRNLVYLKFYMSSPIDDKMKVKLQ-LPEEGLSYLPQLRLLHWDAYPLE 599

Query: 61  SLPSN--------------DIEQLWDRVK-----------------------RYSKLNQI 83
             PS+               +++LW  V+                         +KLN++
Sbjct: 600 FFPSSFRPECLVELNMSHSKLKKLWSGVQPLRNLRTMNLNSSRNLEILPNLMEATKLNRL 659

Query: 84  IHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK 143
               C  L+     P+ +  ++ L++L +   K L+ +P+ I NL  L  L    C++L+
Sbjct: 660 DLGWCESLVEL---PSSIKNLQHLILLEMSCCKKLEIIPTNI-NLPSLEVLHFRYCTRLQ 715

Query: 144 RLPEISSGNISWLFLRGIAIEELPSSI-----------ERQ---------LRLSWLDLSD 183
             PEIS+ NI  L L G AI E+P S+           ER            L  L L +
Sbjct: 716 TFPEIST-NIRLLNLIGTAITEVPPSVKYWSKIDEICMERAKVKRLVHVPYVLEKLCLRE 774

Query: 184 CKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI 234
            K L+++P  L  L  L ++D+  C N+  LP+  G +S+    N     I
Sbjct: 775 NKELETIPRYLKYLPRLQMIDISYCINIISLPKLPGSVSALTAVNCESLQI 825

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score = 68.9 bits (167), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 84/286 (29%), Positives = 121/286 (42%), Gaps = 71/286 (24%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           L P+ F  M  LR LK Y S  N E    +++      +   E++ LHW  YPLKSLP N
Sbjct: 515 LQPSAFKNMLNLRLLKIYCS--NPEVHPVINFPTGSLHSLPNELRLLHWENYPLKSLPQN 572

Query: 66  --------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILN 111
                          +++LW   K    L  I     H L+    +   + + + L +++
Sbjct: 573 FDPRHLVEINMPYSQLQKLWGGTKNLEMLRTIRLCHSHHLV----DIDDLLKAENLEVID 628

Query: 112 LRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSI- 170
           L+G   L++ P+    L  L  ++LSGC K+K + EI   NI  L L+G  I  LP S  
Sbjct: 629 LQGCTRLQNFPAA-GRLLRLRVVNLSGCIKIKSVLEIPP-NIEKLHLQGTGILALPVSTV 686

Query: 171 ---ERQL-------------------------------RLSWLDLSDCKRLKSLPSSLYR 196
               R+L                               +L  L+L DC  L+SLP ++  
Sbjct: 687 KPNHRELVNFLTEIPGLSEELERLTSLLESNSSCQDLGKLICLELKDCSCLQSLP-NMAN 745

Query: 197 LKSLGILDLHGCSNL---QRLPECLGQLSSPITCNLAKTNIERIPE 239
           L  L +LDL GCS+L   Q  P  L QL       L  T I  +P+
Sbjct: 746 L-DLNVLDLSGCSSLNSIQGFPRFLKQLY------LGGTAIREVPQ 784

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 67.8 bits (164), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 57/195 (29%), Positives = 92/195 (47%), Gaps = 32/195 (16%)

Query: 45  GFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRM 104
            F E+ YLH       +L   ++ +L D++   S L ++I   C KL   +PN   + ++
Sbjct: 744 SFGEMSYLHE-----VNLSETNLSELPDKISELSNLKELIIRKCSKL-KTLPN---LEKL 794

Query: 105 KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIE 164
             L I ++ G   L+++     NL  L K++LS         E + G             
Sbjct: 795 TNLEIFDVSGCTELETIEGSFENLSCLHKVNLS---------ETNLG------------- 832

Query: 165 ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSP 224
           ELP+ I     L  L L +C +LK+LP+ L +L  L I D+ GC+NL ++ E    +S  
Sbjct: 833 ELPNKISELSNLKELILRNCSKLKALPN-LEKLTHLVIFDVSGCTNLDKIEESFESMSYL 891

Query: 225 ITCNLAKTNIERIPE 239
              NL+ TN++  PE
Sbjct: 892 CEVNLSGTNLKTFPE 906

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score = 60.1 bits (144), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 67/276 (24%), Positives = 120/276 (43%), Gaps = 49/276 (17%)

Query: 12  NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSN-DIEQL 70
           + F  M  L+FLK Y+S     +        D    E++ LHW  YPL+SLP + D   L
Sbjct: 536 DAFKNMFNLKFLKIYNSCSKYISGLNFPKGLDSLPYELRLLHWENYPLQSLPQDFDFGHL 595

Query: 71  WDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRM-----------------KKLVILNLR 113
                 YS+L        HKL  ++ +  ++ R+                 + + +++L+
Sbjct: 596 VKLSMPYSQL--------HKLGTRVKDLVMLKRLILSHSLQLVECDILIYAQNIELIDLQ 647

Query: 114 GSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELP------ 167
           G   L+  P     L+ L  ++LSGC+++K    +   NI  L L+G  I E+P      
Sbjct: 648 GCTGLQRFPD-TSQLQNLRVVNLSGCTEIKCFSGVPP-NIEELHLQGTRIREIPIFNATH 705

Query: 168 ------------SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLP 215
                       + +E    +  +DL     L ++ S+ + +  L  L++  CSNL+ LP
Sbjct: 706 PPKVKLDRKKLWNLLENFSDVEHIDLECVTNLATVTSNNHVMGKLVCLNMKYCSNLRGLP 765

Query: 216 ECLGQLSSPITCNLAKTNIERI---PESIIQLFVSG 248
           + +   S  +      + +E+I   P ++ +L+V G
Sbjct: 766 DMVSLESLKVLYLSGCSELEKIMGFPRNLKKLYVGG 801

Arabidopsis thaliana (taxid: 3702)

>sp|Q9RBS2|POPC_RALSO Protein PopC OS=Ralstonia solanacearum (strain GMI1000) GN=popC PE=4 SV=2

 Score = 59.3 bits (142), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 52/164 (31%), Positives = 85/164 (51%), Gaps = 10/164 (6%)

Query: 59  LKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL 118
           LKSLP  ++  +   +     L + +    H L A + N  L      L  L+L+G+K+ 
Sbjct: 208 LKSLPVPELPDVTFEIAHLKNL-ETVDCDLHALPATLENLFL------LETLSLKGAKNF 260

Query: 119 KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGN-ISWLFLRGIAIEELPSSIERQLRLS 177
           K+LP  ++ L  L +L LS  + LK LP +  G+ +  L +    +E+LP+      +L+
Sbjct: 261 KALPDAVWRLPALQELKLSE-TGLKSLPPVGGGSALQRLTIEDSPLEQLPAGFADLDQLA 319

Query: 178 WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL 221
            L LS+ K L+ L S + +L +L  L L     L+RLP+ LGQ+
Sbjct: 320 SLSLSNTK-LEKLSSGIGQLPALKSLSLQDNPKLERLPKSLGQV 362

Probably involved in host-pathogen interactions. May interact with plant target proteins; may modulate a plant signal transduction pathway.

Ralstonia solanacearum (strain GMI1000) (taxid: 267608)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score = 57.8 bits (138), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 54/187 (28%), Positives = 94/187 (50%), Gaps = 15/187 (8%)

Query: 25  FYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQII 84
           F+S +  G  +  + + QD   + V+ +      L+ LP+N IE +         L  ++
Sbjct: 450 FHSLVMAG--RGLIEFPQDKFVSSVQRVSLMANKLERLPNNVIEGV-------ETLVLLL 500

Query: 85  HAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR 144
               H  + ++PN  L      L IL+L G + +++LP    NL  L  L L  C KL+ 
Sbjct: 501 QGNSH--VKEVPNGFLQA-FPNLRILDLSGVR-IRTLPDSFSNLHSLRSLVLRNCKKLRN 556

Query: 145 LPEISS-GNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPS-SLYRLKSLGI 202
           LP + S   + +L L   AI ELP  +E    L ++ +S+  +L+S+P+ ++ +L SL +
Sbjct: 557 LPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEV 616

Query: 203 LDLHGCS 209
           LD+ G +
Sbjct: 617 LDMAGSA 623

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	254
298205188	1027	unnamed protein product [Vitis vinifera]	0.948	0.234	0.383	3e-33
359486071	1261	PREDICTED: TMV resistance protein N-like	0.952	0.191	0.377	1e-32
317415950	807	nematode resistance-like protein [Prunus	0.803	0.252	0.434	1e-32
317415955	806	nematode resistance-like protein [Prunus	0.795	0.250	0.442	2e-32
359486073	1296	PREDICTED: TMV resistance protein N-like	0.976	0.191	0.380	5e-32
359486075	1291	PREDICTED: TMV resistance protein N-like	0.976	0.192	0.373	3e-31
225460354	1174	PREDICTED: TMV resistance protein N-like	0.921	0.199	0.366	6e-31
147770134	1414	hypothetical protein VITISV_040107 [Viti	0.976	0.175	0.367	6e-30
255563202	1158	leucine-rich repeat containing protein,	0.921	0.202	0.365	7e-30
359496026	1250	PREDICTED: TMV resistance protein N-like	0.940	0.191	0.362	1e-29

>gi|298205188|emb|CBI17247.3| unnamed protein product [Vitis vinifera]

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 110/287 (38%), Positives = 150/287 (52%), Gaps = 46/287 (16%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNG--ENKCKMSYLQDPGF--AEVKYLHWHG 56
           +S+   L ++   F KM KLR LK YSS + G  E + K+   +D  F   E++YLHW G
Sbjct: 402 LSRSTPLEVSTKIFAKMKKLRLLKIYSSGYYGTMEKQLKVILPEDFQFPAHELRYLHWEG 461

Query: 57  YPLKSLPSN--------------DIEQLWDRVKRYSKL---------------------- 80
           YP KSLPSN              +I+QL  R +R  +L                      
Sbjct: 462 YPFKSLPSNFLGVNLIELNMKDSNIKQLMQRNERLEQLKFLNLSGSRQLTETSFSNMPNL 521

Query: 81  NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCS 140
             +I A C  L   + +P++   +KKL +LNL G ++L SLPS I  L+ L  ++L  CS
Sbjct: 522 ETLILADCTSL--NVVDPSI-GDLKKLTVLNLLGCENLTSLPSSIQYLDSLEAMNLMTCS 578

Query: 141 KLKRLPEISSG---NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRL 197
            L+  PE+       +S L L G  I+ELPSSIE   RL  L LS CK L+SLPSS+ RL
Sbjct: 579 NLEEFPEMKGSPMKALSDLLLDGCGIKELPSSIELLTRLKRLYLSKCKNLRSLPSSICRL 638

Query: 198 KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           KSL  LDLHGCSNL   PE +  +    + ++  + I+ +P SI  L
Sbjct: 639 KSLVQLDLHGCSNLDTFPEIMEDMKCLESLDIRSSGIKELPSSIQNL 685

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486071|ref|XP_002272667.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 112/297 (37%), Positives = 149/297 (50%), Gaps = 55/297 (18%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGEN--------------KCKMSYLQDPGF 46
           +S +KEL  + N FTKM KLR L+FY +   G +              +CK     D  F
Sbjct: 541 LSTLKELHFSVNVFTKMNKLRVLRFYDAQIWGSSWIGRHNDRYKSPYTECKFHLSGDFKF 600

Query: 47  --AEVKYLHWHGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHK 90
               ++ LHW GYPLKSLPSN               +EQLW+  K + KL  I  +    
Sbjct: 601 LSNHLRSLHWDGYPLKSLPSNFHPEKLLELKMCFSQLEQLWEGNKSFQKLKFIELSHSQH 660

Query: 91  LIAKIPNPTLMPRM---------------------KKLVILNLRGSKSLKSLPSGIFNLE 129
           LI K P+ +  P++                     KKL+ LNL G K+LKS  S I +LE
Sbjct: 661 LI-KTPDFSGAPKLRRIILEGCTSLVKVHPSIGALKKLIFLNLEGCKNLKSFSSSI-HLE 718

Query: 130 FLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRL 187
            L  + LSGCSKLK+ PE+     N+  L L+G AI+ LP SIE    LS L+L +CK L
Sbjct: 719 SLQTITLSGCSKLKKFPEVQGAMDNLPELSLKGTAIKGLPLSIEYLNGLSLLNLEECKSL 778

Query: 188 KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           +SLP  +++LKSL  L L  CS L++LPE    + S     L  T +  +P SI  L
Sbjct: 779 ESLPGCIFKLKSLKTLILSNCSRLKKLPEIQENMESLKKLFLDDTGLRELPSSIEHL 835

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317415950|emb|CAR94516.1| nematode resistance-like protein [Prunus cerasifera]

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 102/235 (43%), Positives = 137/235 (58%), Gaps = 31/235 (13%)

Query: 5   KELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPS 64
           +++ L  + F+ M  LR LK Y+  F+G   C + YL D    E+ +L WH YPLKSLPS
Sbjct: 557 EKVHLKKDPFSNMDNLRLLKIYNVEFSG---C-LEYLSD----ELSFLEWHKYPLKSLPS 608

Query: 65  N--------------DIEQLWDRVKR-YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVI 109
           +              +IEQLW+ ++R   KL  +  + C KLI KIP+   +P +++L+ 
Sbjct: 609 SFEPDKLVELNLSESEIEQLWEEIERPLEKLLILNLSDCQKLI-KIPDFDKVPNLEQLI- 666

Query: 110 LNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELP 167
             L+G  SL  +P  I NL  LT  +LSGCSKL+++PEI      +  L L G AIEELP
Sbjct: 667 --LKGCTSLSEVPD-IINLRSLTNFNLSGCSKLEKIPEIGEDMKQLRKLHLDGTAIEELP 723

Query: 168 SSIERQLRLSWLDLSDCKRLKSLPSSL-YRLKSLGILDLHGCSNLQRLPECLGQL 221
           +SIE    L+ LDL DCK L SLP      L SL IL+L GCSNL +LP+ LG L
Sbjct: 724 TSIEHLSGLTLLDLRDCKNLLSLPDVFCDSLTSLQILNLSGCSNLDKLPDNLGSL 778

Source: Prunus cerasifera

Species: Prunus cerasifera

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317415955|emb|CAR94520.1| nematode resistance-like protein [Prunus cerasifera]

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 103/233 (44%), Positives = 135/233 (57%), Gaps = 31/233 (13%)

Query: 7   LRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSN- 65
           + L  + F+ M  LR LK Y+  F+G   C + YL D    E+ +L WH YPLKSLPS+ 
Sbjct: 559 VHLKKDPFSNMDNLRLLKIYNVEFSG---C-LEYLSD----ELSFLEWHKYPLKSLPSSF 610

Query: 66  -------------DIEQLWDRVKR-YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILN 111
                        +IEQLW+ ++R   KL  +  + C KLI KIP+   +P +++L+   
Sbjct: 611 EPDKLVELNLSESEIEQLWEEIERPLEKLLILNLSDCQKLI-KIPDFDKVPNLEQLI--- 666

Query: 112 LRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSS 169
           L+G  SL  +P  I NL  LT   LSGCSKL++LPEI      +  L L G AIEELP+S
Sbjct: 667 LKGCTSLSEVPD-IINLRSLTNFILSGCSKLEKLPEIGEDMKQLRKLHLDGTAIEELPTS 725

Query: 170 IERQLRLSWLDLSDCKRLKSLPSSL-YRLKSLGILDLHGCSNLQRLPECLGQL 221
           IE    L+ LDL DCK L SLP  L   L SL +L+L GCSNL +LP+ LG L
Sbjct: 726 IEHLSGLTLLDLRDCKNLLSLPDVLCDSLTSLQVLNLSGCSNLDKLPDNLGSL 778

Source: Prunus cerasifera

Species: Prunus cerasifera

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486073|ref|XP_002272820.2| PREDICTED: TMV resistance protein N-like, partial [Vitis vinifera]

 Score =  144 bits (362), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 116/305 (38%), Positives = 155/305 (50%), Gaps = 57/305 (18%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGEN--------------KCKMSYLQDPGF 46
           +S +KEL  + N FTKM KLR L+FY +   G +              +CK     D  F
Sbjct: 546 LSTLKELHFSVNVFTKMNKLRVLRFYDAQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKF 605

Query: 47  --AEVKYLHWHGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHK 90
               ++ L+W GYPLKSLPSN               +EQLW+  K + KL  I  +    
Sbjct: 606 LSNHLRSLYWDGYPLKSLPSNFHPEKLLELKMCFSQLEQLWEGNKSFQKLKFIELSHSQH 665

Query: 91  LIAKIPNPTLMPRM---------------------KKLVILNLRGSKSLKSLPSGIFNLE 129
           LI K P+ +  P++                     KKL+ LNL G K+LKS  S I +LE
Sbjct: 666 LI-KTPDFSGAPKLRRIILEGCTSLVKVHPSIGALKKLIFLNLEGCKNLKSFLSSI-HLE 723

Query: 130 FLTKLDLSGCSKLKRLPEISS--GNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRL 187
            L  L LSGCSKLK+ PE+     N S L L+G AI+ LP SIE    L+ L+L +CK L
Sbjct: 724 SLQILTLSGCSKLKKFPEVQGPMDNFSELSLKGTAIKGLPLSIEYLNGLALLNLEECKSL 783

Query: 188 KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVS 247
           +SLPS +++LKSL  L L  CS L++LPE    + S     L  T +  +P SI  L  +
Sbjct: 784 ESLPSCIFKLKSLKTLILSNCSRLKKLPEIGENMESLKELFLDDTGLRELPSSIEHL--N 841

Query: 248 GYLLL 252
           G +LL
Sbjct: 842 GLVLL 846

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486075|ref|XP_002273047.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 114/305 (37%), Positives = 154/305 (50%), Gaps = 57/305 (18%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGEN--------------KCKMSYLQDPGF 46
           +S +KEL  + N FTKM KLR L+FY +   G +              +CK     D  F
Sbjct: 541 LSTLKELHFSVNVFTKMNKLRVLRFYDAQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKF 600

Query: 47  --AEVKYLHWHGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHK 90
               ++ L+W GYPLKSLPSN               +EQLW+  K + KL  I  +    
Sbjct: 601 LSNHLRSLYWDGYPLKSLPSNFHPEKLLELKMCFSQLEQLWEGNKSFQKLKFIELSHSQH 660

Query: 91  LIAKIPNPTLMPRM---------------------KKLVILNLRGSKSLKSLPSGIFNLE 129
           LI K P+ +  P++                     KKL+ LNL G K+LKS  S I +LE
Sbjct: 661 LI-KAPDFSGAPKLRRIILEGCTSLVKVHPSIGALKKLIFLNLEGCKNLKSFLSSI-HLE 718

Query: 130 FLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRL 187
            L  L LSGCSKLK+LPE+     N+S L L+G AI+ LP SIE    L+  +L +CK L
Sbjct: 719 SLQILTLSGCSKLKKLPEVQGAMDNLSELSLKGTAIKGLPLSIEYLNGLALFNLEECKSL 778

Query: 188 KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVS 247
           +SLP  +++LKSL  L L  C  L++LPE    + S     L  T +  +P SI  L  +
Sbjct: 779 ESLPGCIFKLKSLKTLILSNCLRLKKLPEIQENMESLKELFLDDTGLRELPSSIEHL--N 836

Query: 248 GYLLL 252
           G +LL
Sbjct: 837 GLVLL 841

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460354|ref|XP_002263146.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  140 bits (353), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 103/281 (36%), Positives = 148/281 (52%), Gaps = 47/281 (16%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLK 60
           +S  KEL  +   FT+M +LR L+FY+   NG     + +L +     ++ L+WH YPLK
Sbjct: 545 LSASKELHFSAGAFTEMNRLRVLRFYNVKMNG----NLKFLSN----NLRSLYWHEYPLK 596

Query: 61  SLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRM-- 104
           SLPSN               +EQLW   K + KL + I  +  + + + P+ +  P +  
Sbjct: 597 SLPSNFHPKKLVELNMCSSRLEQLWKGDKSFEKL-KFIKLSHSQYLTRTPDFSGAPNLER 655

Query: 105 -------------------KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL 145
                              +KL+ LNL G K+LKS  S I ++  L  L LSGCSKLK+ 
Sbjct: 656 LILEGCTSMVKVHPSIGALQKLIFLNLEGCKNLKSFASSI-HMNSLQILTLSGCSKLKKF 714

Query: 146 PEI--SSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL 203
           PE+  +  ++  L L   A+ ELPSSI R   L  L+L++CK+L SLP SL +L SL IL
Sbjct: 715 PEMLENMKSLRQLLLDETALRELPSSIGRLNGLVLLNLTNCKKLVSLPQSLCKLTSLQIL 774

Query: 204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
            L GCS L++LP+ LG L   +  N   + I+ +P SI  L
Sbjct: 775 TLAGCSELKKLPDELGSLRCLVNLNADGSGIQEVPPSITLL 815

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147770134|emb|CAN76615.1| hypothetical protein VITISV_040107 [Vitis vinifera]

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 112/305 (36%), Positives = 151/305 (49%), Gaps = 57/305 (18%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGEN--------------KCKMSYLQDPGF 46
           +S +KEL  + N FTKM KLR  +FY +   G +              +CK     D  F
Sbjct: 514 LSTLKELHFSVNVFTKMNKLRVXRFYDAQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKF 573

Query: 47  --AEVKYLHWHGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHK 90
               ++ L+W GYPLKSLPSN               +EQLW+  K + KL  I  +    
Sbjct: 574 LSNHLRSLYWDGYPLKSLPSNFHPEKLLELKMCFSQLEQLWEGNKSFQKLKFIELSHSQH 633

Query: 91  LIAKIPNPTLMPRM---------------------KKLVILNLRGSKSLKSLPSGIFNLE 129
           LI K P+ +  P++                     KKL+ LNL G K+LKS  S I +LE
Sbjct: 634 LI-KXPDFSGAPKLRRIILEGCTSLVKVHPSIGALKKLIFLNLEGCKNLKSFLSSI-HLE 691

Query: 130 FLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRL 187
            L  L LSGCSKLK+ PE+     N+S L L+G AI+ LP SIE    L+  +L +CK L
Sbjct: 692 SLQILTLSGCSKLKKXPEVQGAMDNLSELSLKGTAIKGLPLSIEYLNGLALFNLEECKSL 751

Query: 188 KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVS 247
           +SLP   ++LKSL  L L  C  L++LPE    + S     L  T +  +P SI  L  +
Sbjct: 752 ESLPGCXFKLKSLKTLILSNCLRLKKLPEIQENMESLKELFLDDTGLRELPSSIEHL--N 809

Query: 248 GYLLL 252
           G +LL
Sbjct: 810 GLVLL 814

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  136 bits (343), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 91/249 (36%), Positives = 147/249 (59%), Gaps = 15/249 (6%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNG--ENKCKMSYLQ--DPGFAEVKYLHWHG 56
           MS+ ++L LN N FT++  L+FL    S   G  E +CK+ + +  +    +++YL+WHG
Sbjct: 576 MSEARKLELNRNAFTRISNLKFLILRMSNNCGGFEEECKVQFPEGLESLPQQLRYLYWHG 635

Query: 57  YPLKSLPSN-DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGS 115
           YPLK LP+N     L +    YS+L  +          K+P+   + ++ KL  ++LR S
Sbjct: 636 YPLKFLPANFHPTNLIELNFPYSRLEGLWEGD------KVPSS--IGQLTKLTFMSLRCS 687

Query: 116 KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR 175
           K+++S P+ I +L+ L  LDLSGCS LK  PE+S  NI +L+L   AI+E+P SIE   +
Sbjct: 688 KNIRSFPTTI-DLQSLETLDLSGCSNLKIFPEVSR-NIRYLYLNETAIQEVPLSIEHLSK 745

Query: 176 LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE 235
           L  L++ +C  L+ +PS++++LKSLG+L L GC  L+  PE L   +     +L +T + 
Sbjct: 746 LVVLNMKNCNELECIPSTIFKLKSLGVLILSGCKKLESFPEILETTNHLQHLSLDETAMV 805

Query: 236 RIPESIIQL 244
            +P++   L
Sbjct: 806 NLPDTFCNL 814

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  136 bits (342), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 104/287 (36%), Positives = 147/287 (51%), Gaps = 48/287 (16%)

Query: 4   VKELRLNPNTFTKMPKLRFLKFYSSLFNGE-------NKCKMSYLQDPGF--AEVKYLHW 54
           +KE+      F +M KLR LK Y+S  +G+          K  + QD  F   +++YL+W
Sbjct: 553 LKEIHYTTEAFAEMKKLRLLKVYNSHNSGDFEYASRNENYKRPFSQDFEFPSNKLRYLYW 612

Query: 55  HGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTL 100
           H YPLKSLPSN               +E+LW  VK   KL + I  +  + + + P+ + 
Sbjct: 613 HRYPLKSLPSNFHPKNLVELNLCCCYVEELWKGVKHMEKL-ECIDLSHSQYLVRTPDFSG 671

Query: 101 MPRMK---------------------KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGC 139
           +P ++                     KL+ LNL+  K+L+  PS I  LE L  L LSGC
Sbjct: 672 IPNLERLIFEGCTDLREVHQSLGVLSKLIFLNLKDCKNLQCFPSSI-ELESLKVLILSGC 730

Query: 140 SKLKRLPEI--SSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRL 197
           SKL   PEI  +   +  LFL G AI+ELP S+E    L  L+L +C+RL +LPSS+  L
Sbjct: 731 SKLDNFPEILENMEGLRELFLDGTAIKELPLSVEHLNGLVLLNLRNCERLITLPSSICNL 790

Query: 198 KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           KSL  L L GCS L++LPE LG L   +      + + + P SI+ L
Sbjct: 791 KSLSTLTLSGCSQLEKLPENLGNLECLVELVADGSAVIQPPSSIVLL 837

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	254
TAIR|locus:2118116	1895	WRKY19 [Arabidopsis thaliana (	0.736	0.098	0.372	3e-24
TAIR|locus:2081810	1226	AT3G51570 [Arabidopsis thalian	0.917	0.190	0.357	6e-22
TAIR|locus:2153363	1261	AT5G45200 [Arabidopsis thalian	0.913	0.183	0.332	1.3e-21
TAIR|locus:2153207	1165	AT5G45060 [Arabidopsis thalian	0.901	0.196	0.347	1.5e-21
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.551	0.114	0.436	3e-20
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.893	0.175	0.338	5.3e-20
TAIR|locus:2170333	1197	CSA1 "constitutive shade-avoid	0.535	0.113	0.467	6.1e-20
TAIR|locus:2129236	1301	SNC1 "SUPPRESSOR OF NPR1-1, CO	0.712	0.139	0.371	1.1e-19
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.862	0.184	0.330	7.1e-19
TAIR|locus:2158475	1217	RPS4 "RESISTANT TO P. SYRINGAE	0.744	0.155	0.377	9.3e-19

TAIR|locus:2118116 WRKY19 [Arabidopsis thaliana (taxid:3702)]

 Score = 293 (108.2 bits), Expect = 3.0e-24, P = 3.0e-24
 Identities = 73/196 (37%), Positives = 117/196 (59%)

Query:    59 LKSLPSNDIEQLWDRVKRYSKLNQIIHA---ACHKLIAKIPNPTLMPRMKKLVILNLRGS 115
             LK +  +  +QL  ++ R S    + H     C+ L++   +   +  +KKLV LNL+G 
Sbjct:  1260 LKKMRLSYSDQL-TKIPRLSSATNLEHIDLEGCNSLLSLSQS---ISYLKKLVFLNLKGC 1315

Query:   116 KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR 175
               L+++PS + +LE L  L+LSGCSKL   PEIS  N+  L++ G  I+E+PSSI+  + 
Sbjct:  1316 SKLENIPSMV-DLESLEVLNLSGCSKLGNFPEISP-NVKELYMGGTMIQEIPSSIKNLVL 1373

Query:   176 LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE 235
             L  LDL + + LK+LP+S+Y+LK L  L+L GC +L+R P+   ++      +L++T+I+
Sbjct:  1374 LEKLDLENSRHLKNLPTSIYKLKHLETLNLSGCISLERFPDSSRRMKCLRFLDLSRTDIK 1433

Query:   236 RIPESIIQLFVSGYLL 251
              +P SI  L     LL
Sbjct:  1434 ELPSSISYLTALDELL 1449

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0004672 "protein kinase activity" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

GO:0052543 "callose deposition in cell wall" evidence=RCA

TAIR|locus:2081810 AT3G51570 [Arabidopsis thaliana (taxid:3702)]

 Score = 269 (99.8 bits), Expect = 6.0e-22, P = 6.0e-22
 Identities = 92/257 (35%), Positives = 127/257 (49%)

Query:     1 MSKVK-ELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSY---LQDP-GFA--EVKYLH 53
             M+++K E+ L+  TF  M  LR+LK YSS  +   +CK +    L D   F   EV+YLH
Sbjct:   556 MNEMKREMSLDSCTFKSMCGLRYLKIYSS--HCPQQCKPNNKINLPDGLNFPLKEVRYLH 613

Query:    54 WHGYPLKSLPSN-DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTL-----------M 101
             W  +PLK +P + + + L D    +SK+ +I     HK   K+    L           +
Sbjct:   614 WLEFPLKEIPPDFNPQNLVDLKLPHSKIERIWSDDKHKDTPKLKWVNLSHSSNLWDISGL 673

Query:   102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI 161
              + ++LV LNL+G  SLKSLP    NL  L  L LS CS LK    IS  N+  L+L G 
Sbjct:   674 SKAQRLVFLNLKGCTSLKSLPE--INLVSLEILILSNCSNLKEFRVISQ-NLETLYLDGT 730

Query:   162 AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL 221
             +I+ELP +     RL  L++  C +LK  P  L  LK+L  L L  C  LQ  P    ++
Sbjct:   731 SIKELPLNFNILQRLVILNMKGCAKLKEFPDCLDDLKALKELILSDCWKLQNFPAICERI 790

Query:   222 SSPITCNLAKTNIERIP 238
                    L  T I  IP
Sbjct:   791 KVLEILRLDTTTITEIP 807

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2153363 AT5G45200 [Arabidopsis thaliana (taxid:3702)]

 Score = 266 (98.7 bits), Expect = 1.3e-21, P = 1.3e-21
 Identities = 86/259 (33%), Positives = 134/259 (51%)

Query:     1 MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDP-GFA----EVKYLHWH 55
             M +VKE+ L+ +TF KM  LR+LKFY+S  + E + + S L  P G      E++YL+W 
Sbjct:   566 MFEVKEMGLDSDTFNKMDDLRYLKFYNSHCHRECEAEDSKLNFPEGLEFLPQELRYLNWL 625

Query:    56 GYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLM 101
              YP K+LP N               IEQ+W+  K  S L  +     H   +K+ + + +
Sbjct:   626 KYPEKNLPINFDPKNLIDLKLPYSQIEQIWEEEKDTSNLQWL--DLNHS--SKLHSLSGL 681

Query:   102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI 161
              R +KL  +NL G   LK+LP  + N+E L  L+L GC+ L+ LP+I+   +  L L   
Sbjct:   682 SRAQKLQSINLEGCTGLKTLPQVLQNMESLMFLNLRGCTSLESLPDITLVGLRTLILSNC 741

Query:   162 AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL 221
             +  +    I + L   +LD +    +K LPS++  L+ L  L L  C NL  LP+ +G L
Sbjct:   742 SRFKEFKLIAKNLEELYLDGT---AIKELPSTIGDLQKLISLKLKDCKNLLSLPDSIGNL 798

Query:   222 SSPITCNLAK-TNIERIPE 239
              +     L+  +++E  PE
Sbjct:   799 KAIQEIILSGCSSLESFPE 817

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153207 AT5G45060 [Arabidopsis thaliana (taxid:3702)]

 Score = 265 (98.3 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 90/259 (34%), Positives = 133/259 (51%)

Query:     1 MSKVK-ELRLNPNTFTKMPKLRFLKFYSSLFNGE----NKCKM-SYLQDPGFAEVKYLHW 54
             +S+VK E  L+   F  M  LR+LK Y+S    E    NK  M   L+ P   EV+ LHW
Sbjct:   564 LSEVKVETSLDREHFKNMRNLRYLKLYNSHCPHECLTNNKINMPDGLELP-LKEVRCLHW 622

Query:    55 HGYPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTL 100
               +PL+ LP++              +IE+LWD VK    L  +     H   +K+ + + 
Sbjct:   623 LKFPLEELPNDFDPINLVDLKLPYSEIERLWDGVKDTPVLKWV--DLNHS--SKLCSLSG 678

Query:   101 MPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRG 160
             + + + L  LNL G  SL+SL     NL  L  L LS CS  K  P I   N+  L+L G
Sbjct:   679 LSKAQNLQRLNLEGCTSLESLRD--VNLTSLKTLTLSNCSNFKEFPLIPE-NLKALYLDG 735

Query:   161 IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQ 220
              +I +LP ++    RL  L++ DCK L+++P+ +  LK+L  L L GCS L+  PE + +
Sbjct:   736 TSISQLPDNVGNLKRLVLLNMKDCKVLETIPTCVSELKTLQKLVLSGCSKLKEFPE-INK 794

Query:   221 LSSPITCNLAKTNIERIPE 239
              S  I   L  T+I+ +P+
Sbjct:   795 SSLKILL-LDGTSIKTMPQ 812

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 253 (94.1 bits), Expect = 3.0e-20, P = 3.0e-20
 Identities = 62/142 (43%), Positives = 84/142 (59%)

Query:    98 PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLF 157
             P+ +  ++KL+ LNLR   SL+SLP GI   + L  L LSGCS LK+ P IS  N+  L 
Sbjct:   683 PSTINCLEKLIYLNLRDCTSLRSLPKGI-KTQSLQTLILSGCSSLKKFPLISE-NVEVLL 740

Query:   158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
             L G  I+ LP SI+   RL+ L+L +CK+LK L S LY+LK L  L L GCS L+  PE 
Sbjct:   741 LDGTVIKSLPESIQTFRRLALLNLKNCKKLKHLSSDLYKLKCLQELILSGCSQLEVFPEI 800

Query:   218 LGQLSSPITCNLAKTNIERIPE 239
                + S     +  T+I  +P+
Sbjct:   801 KEDMESLEILLMDDTSITEMPK 822

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

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

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

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

 Score = 251 (93.4 bits), Expect = 5.3e-20, P = 5.3e-20
 Identities = 83/245 (33%), Positives = 127/245 (51%)

Query:     6 ELRLN-PNTFTKMP-KLRFLKFYS-SLFNGENKCKMSYLQD--PGFAEVKYLHWHGY-PL 59
             E R++ PN  + +P KLR+L++    L    ++    +L +     + ++ L W G  PL
Sbjct:   566 ETRVHLPNGLSYLPRKLRYLRWDGYPLKTMPSRFFPEFLVELCMSNSNLEKL-WDGIQPL 624

Query:    60 KSLPSNDIEQLWDRVK-----RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRG 114
             ++L   D+ +    V+     + + L ++  + C  L+   P+   +  +K L    L  
Sbjct:   625 RNLKKMDLSRCKYLVEVPDLSKATNLEELNLSYCQSLVEVTPS---IKNLKGLSCFYLTN 681

Query:   115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQL 174
                LK +P GI  L+ L  + +SGCS LK  PEIS  N   L+L    IEELPSSI R  
Sbjct:   682 CIQLKDIPIGII-LKSLETVGMSGCSSLKHFPEIS-WNTRRLYLSSTKIEELPSSISRLS 739

Query:   175 RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT-N 233
              L  LD+SDC+RL++LPS L  L SL  L+L GC  L+ LP+ L  L+S  T  ++   N
Sbjct:   740 CLVKLDMSDCQRLRTLPSYLGHLVSLKSLNLDGCRRLENLPDTLQNLTSLETLEVSGCLN 799

Query:   234 IERIP 238
             +   P
Sbjct:   800 VNEFP 804

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 250 (93.1 bits), Expect = 6.1e-20, P = 6.1e-20
 Identities = 65/139 (46%), Positives = 80/139 (57%)

Query:   101 MPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRG 160
             M  MK LV LNLRG  SLKSLP     L  L  L LSGCSK K   ++ S  +  L+L G
Sbjct:   703 MENMKFLVFLNLRGCTSLKSLPE--IQLISLKTLILSGCSKFKTF-QVISDKLEALYLDG 759

Query:   161 IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQ 220
              AI+ELP  I R  RL  L++  CK+LK LP SL +LK+L  L L GCS L   PE  G 
Sbjct:   760 TAIKELPCDIGRLQRLVMLNMKGCKKLKRLPDSLGQLKALEELILSGCSKLNEFPETWGN 819

Query:   221 LSSPITCNLAKTNIERIPE 239
             +S      L +T I+ +P+
Sbjct:   820 MSRLEILLLDETAIKDMPK 838

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009416 "response to light stimulus" evidence=IMP

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

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

TAIR|locus:2129236 SNC1 "SUPPRESSOR OF NPR1-1, CONSTITUTIVE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 248 (92.4 bits), Expect = 1.1e-19, P = 1.1e-19
 Identities = 72/194 (37%), Positives = 106/194 (54%)

Query:    62 LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL 121
             L +  IE++ D + + + L  +    C  L+     PT +  ++KLV   ++    L+ L
Sbjct:   938 LENTAIEEIPD-LSKATNLKNLKLNNCKSLVTL---PTTIGNLQKLVSFEMKECTGLEVL 993

Query:   122 PSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDL 181
             P  + NL  L  LDLSGCS L+  P IS+ NI WL+L   AIEE+PS+I    RL  L++
Sbjct:   994 PIDV-NLSSLMILDLSGCSSLRTFPLIST-NIVWLYLENTAIEEIPSTIGNLHRLVKLEM 1051

Query:   182 SDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITC-NLAKTNIERIPES 240
              +C  L+ LP+ +  L SL ILDL GCS+L+  P     +S+ I C  L  T IE +P  
Sbjct:  1052 KECTGLEVLPTDV-NLSSLMILDLSGCSSLRTFP----LISTRIECLYLQNTAIEEVP-C 1105

Query:   241 IIQLFVSGYLLLSY 254
              I+ F    +L+ Y
Sbjct:  1106 CIEDFTRLTVLMMY 1119

GO:0000166 "nucleotide binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IDA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=NAS

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

GO:0043531 "ADP binding" evidence=IEA

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

GO:0009733 "response to auxin stimulus" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

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

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

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

 Score = 240 (89.5 bits), Expect = 7.1e-19, P = 7.1e-19
 Identities = 82/248 (33%), Positives = 118/248 (47%)

Query:     5 KELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPS 64
             +E  +N   F  M  L+FL+F       +    +SYL      +++ L W  +P+  LPS
Sbjct:   593 EEFDMNERVFEGMSNLQFLRFDCDHDTLQLSRGLSYLS----RKLQLLDWIYFPMTCLPS 648

Query:    65 --------------NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVIL 110
                           + ++ LW+ VK    L Q+  +    L  ++P+ +    ++KL++ 
Sbjct:   649 TVNVEFLIELNLTHSKLDMLWEGVKPLHNLRQMDLSYSVNL-KELPDLSTAINLRKLILS 707

Query:   111 NLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG-NISWLFLRGIA-IEELPS 168
             N     SL  LPS I N   L  LDL+GCS L  LP      N+  L LR  + + ELPS
Sbjct:   708 NC---SSLIKLPSCIGNAINLEDLDLNGCSSLVELPSFGDAINLQKLLLRYCSNLVELPS 764

Query:   169 SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCN 228
             SI   + L  LDL  C  L  LPSS+    +L ILDL+GCSNL  LP  +G        N
Sbjct:   765 SIGNAINLRELDLYYCSSLIRLPSSIGNAINLLILDLNGCSNLLELPSSIGN-----AIN 819

Query:   229 LAKTNIER 236
             L K ++ R
Sbjct:   820 LQKLDLRR 827

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 239 (89.2 bits), Expect = 9.3e-19, P = 9.3e-19
 Identities = 77/204 (37%), Positives = 108/204 (52%)

Query:    20 LRFLKF-YSSLFNGENKCKMSYLQDPGFAEVKYLHWHG---YP-LKSLPSNDIEQLWDR- 73
             L +LKF   +L N  N   +  L+ P ++E++ L W G    P L+ +  N   +L    
Sbjct:   620 LHWLKFPLETLPNDFNPINLVDLKLP-YSEMEQL-WEGDKDTPCLRWVDLNHSSKLCSLS 677

Query:    74 -VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLT 132
              + +  KL ++    C  L A  P+   M +MK L  LNL+G  SL+SLP    NL  L 
Sbjct:   678 GLSKAEKLQRLNLEGCTTLKA-FPHD--MKKMKMLAFLNLKGCTSLESLPE--MNLISLK 732

Query:   133 KLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPS 192
              L LSGCS  K  P IS  NI  L+L G AI +LP ++E+  RL  L++ DCK L+ +P 
Sbjct:   733 TLTLSGCSTFKEFPLISD-NIETLYLDGTAISQLPMNMEKLQRLVVLNMKDCKMLEEIPG 791

Query:   193 SLYRLKSLGILDLHGCSNLQRLPE 216
              +  LK+L  L L  C NL+  PE
Sbjct:   792 RVGELKALQELILSDCLNLKIFPE 815

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0004872 "receptor activity" evidence=ISS

GO:0016020 "membrane" evidence=ISS

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

GO:0012505 "endomembrane system" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	254
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-25
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-21
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	3e-04
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	0.001

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

 Score =  103 bits (259), Expect = 4e-25
 Identities = 97/342 (28%), Positives = 149/342 (43%), Gaps = 100/342 (29%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF----AEVKYLHWHG 56
           + ++ EL ++ N F  M  L FLKFY+  +  + K ++ +    GF     +++ L W  
Sbjct: 541 IDEIDELHIHENAFKGMRNLLFLKFYTKKW--DQKKEVRWHLPEGFDYLPPKLRLLRWDK 598

Query: 57  YPLKSLPSN--------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP 102
           YPL+ +PSN               +E+LWD V   + L  I       L  +IP+ ++  
Sbjct: 599 YPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLK-EIPDLSMAT 657

Query: 103 RMKKLVI---------------------LNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSK 141
            ++ L +                     L++   ++L+ LP+GI NL+ L +L+LSGCS+
Sbjct: 658 NLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSR 716

Query: 142 LKRLPEISSGNISWLFLRGIAIEELPSSI--------------------ERQLR------ 175
           LK  P+IS+ NISWL L   AIEE PS++                      Q        
Sbjct: 717 LKSFPDIST-NISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTM 775

Query: 176 ----LSWLDLSDCKRLKSLPSS---LYRLKSLGI--------------------LDLHGC 208
               L+ L LSD   L  LPSS   L++L+ L I                    LDL GC
Sbjct: 776 LSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGC 835

Query: 209 SNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYL 250
           S L+  P+    +S     NL++T IE +P  I +     +L
Sbjct: 836 SRLRTFPDISTNISD---LNLSRTGIEEVPWWIEKFSNLSFL 874

syringae 6; Provisional. Length = 1153

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

 Score = 91.9 bits (228), Expect = 4e-21
 Identities = 56/149 (37%), Positives = 90/149 (60%), Gaps = 7/149 (4%)

Query: 68  EQLWDRVKRYSKLNQIIHAACHKL-IAKIPN----PTLMPRMKKLVILNLRGSKSLKSLP 122
           E+LW+RV+  + L  ++  +  +L ++ IP+    P+ +  + KL  L +    +L++LP
Sbjct: 760 EKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLP 819

Query: 123 SGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLS 182
           +GI NLE L  LDLSGCS+L+  P+IS+ NIS L L    IEE+P  IE+   LS+LD++
Sbjct: 820 TGI-NLESLESLDLSGCSRLRTFPDIST-NISDLNLSRTGIEEVPWWIEKFSNLSFLDMN 877

Query: 183 DCKRLKSLPSSLYRLKSLGILDLHGCSNL 211
            C  L+ +  ++ +LK L  +D   C  L
Sbjct: 878 GCNNLQRVSLNISKLKHLETVDFSDCGAL 906

syringae 6; Provisional. Length = 1153

>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]

 Score = 41.1 bits (96), Expect = 3e-04
 Identities = 40/129 (31%), Positives = 57/129 (44%), Gaps = 4/129 (3%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSG--CSKLKRLPEISSGNISWLFLRGIAIEELPSSIER 172
              L+S  S +  L  LT LDL     + +  L  +   N+  L L    IE LPS +  
Sbjct: 102 LNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRN 161

Query: 173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT 232
              L  LDLS    L  LP  L  L +L  LDL G + +  LP  +  LS+    +L+  
Sbjct: 162 LPNLKNLDLSFND-LSDLPKLLSNLSNLNNLDLSG-NKISDLPPEIELLSALEELDLSNN 219

Query: 233 NIERIPESI 241
           +I  +  S+
Sbjct: 220 SIIELLSSL 228

Length = 394

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

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 32/80 (40%), Positives = 42/80 (52%), Gaps = 7/80 (8%)

Query: 140 SKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKS 199
           SKL+ L  I   N+S   +RG     +P S+     L  LDLS      S+P SL +L S
Sbjct: 439 SKLRHLQSI---NLSGNSIRG----NIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTS 491

Query: 200 LGILDLHGCSNLQRLPECLG 219
           L IL+L+G S   R+P  LG
Sbjct: 492 LRILNLNGNSLSGRVPAALG 511

Length = 623

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	254
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.9
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.86
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.83
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.83
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.78
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.7
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.68
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.66
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.65
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.64
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.62
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.57
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.55
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.53
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.51
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.51
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.48
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.47
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.45
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.26
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.25
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.24
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.09
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.08
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.06
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.03
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.01
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.0
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.96
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.92
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.88
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.88
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.82
PLN03150	623	hypothetical protein; Provisional	98.8
PLN03150	623	hypothetical protein; Provisional	98.78
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.72
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.54
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.53
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.48
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.44
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.43
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.42
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.33
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.11
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.08
PRK15386	426	type III secretion protein GogB; Provisional	98.07
PRK15386	426	type III secretion protein GogB; Provisional	97.9
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.89
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.84
KOG4341	483	consensus F-box protein containing LRR [General fu	97.83
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.81
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.79
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.76
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.76
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.72
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.62
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.52
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.14
KOG4341	483	consensus F-box protein containing LRR [General fu	97.04
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.04
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.03
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.92
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.58
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.43
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.1
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.73
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.13
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.02
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.99
KOG4308	478	consensus LRR-containing protein [Function unknown	94.68
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.88
smart00370	26	LRR Leucine-rich repeats, outliers.	92.78
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	92.78
KOG1947	482	consensus Leucine rich repeat proteins, some prote	92.38
KOG4308	478	consensus LRR-containing protein [Function unknown	92.23
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.02
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	83.13
KOG0473	326	consensus Leucine-rich repeat protein [Function un	82.42
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	82.13

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

Probab=99.90  E-value=2e-23  Score=194.99  Aligned_cols=229  Identities=25%  Similarity=0.303  Sum_probs=132.1

Q ss_pred             cCCCCcceEEEeeccccCCCccC----------------cccccCCCCC-CceeeeeeCCCCCC-CCCCcchhhcchhhh
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKC----------------KMSYLQDPGF-AEVKYLHWHGYPLK-SLPSNDIEQLWDRVK   75 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~----------------~~~~~~~l~~-~~L~~L~l~~~~~~-~l~~~~l~~l~~~~~   75 (254)
                      |..+++|++|++++|.+.+..+.                ....+..+.. ++|++|++.+|.+. .+|        ..+.
T Consensus       114 ~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p--------~~~~  185 (968)
T PLN00113        114 FTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIP--------NSLT  185 (968)
T ss_pred             hccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCC--------hhhh
Confidence            34777888888888776433211                0012222333 44444554444422 222        2255


Q ss_pred             cccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCc
Q 042890           76 RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNI  153 (254)
Q Consensus        76 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L  153 (254)
                      .+++|++|+++++.. .+.+|.  .+..+++|++|++++|.+.+.+|..+..+++|+.|++++|...+..|...  .++|
T Consensus       186 ~l~~L~~L~L~~n~l-~~~~p~--~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L  262 (968)
T PLN00113        186 NLTSLEFLTLASNQL-VGQIPR--ELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNL  262 (968)
T ss_pred             hCcCCCeeeccCCCC-cCcCCh--HHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCC
Confidence            566666666665442 233444  55566666666666666555566556666666666666665554444332  3556


Q ss_pred             CeEeccccccc-ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC
Q 042890          154 SWLFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       154 ~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      +.|++.+|.++ .+|..+..+++|+.|++++|.+.+.+|..+.++++|+.|++++|.+.+..|..+..+++|+.|++++|
T Consensus       263 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n  342 (968)
T PLN00113        263 QYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSN  342 (968)
T ss_pred             CEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCC
Confidence            66666666655 45556666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CCC-CCChhhhhhcccCccccc
Q 042890          233 NIE-RIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       233 ~l~-~l~~~~~~~~~L~~L~ls  253 (254)
                      .+. .+|..+..+++|+.|+++
T Consensus       343 ~l~~~~p~~l~~~~~L~~L~Ls  364 (968)
T PLN00113        343 KFSGEIPKNLGKHNNLTVLDLS  364 (968)
T ss_pred             CCcCcCChHHhCCCCCcEEECC
Confidence            665 556666666666666654

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

Probab=99.90  E-value=4e-23  Score=193.00  Aligned_cols=234  Identities=21%  Similarity=0.263  Sum_probs=166.5

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCC-C-CceeeeeeCCCCCC-CCCCc-------------ch-hhcchh
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPG-F-AEVKYLHWHGYPLK-SLPSN-------------DI-EQLWDR   73 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~-~-~~L~~L~l~~~~~~-~l~~~-------------~l-~~l~~~   73 (254)
                      +.+|..+++|++|++++|.+.+      .+|..+. . .+|++|++++|.+. .+|..             .+ ..++..
T Consensus        86 ~~~~~~l~~L~~L~Ls~n~~~~------~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~  159 (968)
T PLN00113         86 SSAIFRLPYIQTINLSNNQLSG------PIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPND  159 (968)
T ss_pred             ChHHhCCCCCCEEECCCCccCC------cCChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChH
Confidence            4568899999999999999843      3444433 3 77888888887653 23321             11 122344


Q ss_pred             hhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cC
Q 042890           74 VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SG  151 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~  151 (254)
                      +..+++|++|+++++.. ...+|.  .+..+++|++|++++|.+.+.+|..+..+++|+.|++++|...+..|...  .+
T Consensus       160 ~~~l~~L~~L~L~~n~l-~~~~p~--~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~  236 (968)
T PLN00113        160 IGSFSSLKVLDLGGNVL-VGKIPN--SLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLT  236 (968)
T ss_pred             HhcCCCCCEEECccCcc-cccCCh--hhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCC
Confidence            66677777777776542 344555  67777777777777777666677777777777777777777666665433  36


Q ss_pred             CcCeEeccccccc-ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEecc
Q 042890          152 NISWLFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLA  230 (254)
Q Consensus       152 ~L~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  230 (254)
                      +|+.|++.+|.++ .+|..+..+++|+.|++++|.+.+.+|..+..+++|+.|++++|.+.+.+|..+.++++|+.|+++
T Consensus       237 ~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~l~  316 (968)
T PLN00113        237 SLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLF  316 (968)
T ss_pred             CCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECC
Confidence            7778888777776 567777777788888888877777777777778888888888877777777777778888888888


Q ss_pred             CCCCC-CCChhhhhhcccCccccc
Q 042890          231 KTNIE-RIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       231 ~n~l~-~l~~~~~~~~~L~~L~ls  253 (254)
                      +|.+. .+|..+..+++|+.|+++
T Consensus       317 ~n~~~~~~~~~~~~l~~L~~L~L~  340 (968)
T PLN00113        317 SNNFTGKIPVALTSLPRLQVLQLW  340 (968)
T ss_pred             CCccCCcCChhHhcCCCCCEEECc
Confidence            88876 667777788888888775

>PLN03210 Resistant to P

Probab=99.86  E-value=1.3e-20  Score=177.54  Aligned_cols=248  Identities=34%  Similarity=0.561  Sum_probs=153.7

Q ss_pred             CCCcceeeeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC--CceeeeeeCCCCCCCCCCc-------------
Q 042890            1 MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF--AEVKYLHWHGYPLKSLPSN-------------   65 (254)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~--~~L~~L~l~~~~~~~l~~~-------------   65 (254)
                      |++++++.+...+|.+|++|++|.+..+.++........+|.++..  .+|+.|++.+++++.+|..             
T Consensus       541 ~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~  620 (1153)
T PLN03210        541 IDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQG  620 (1153)
T ss_pred             cCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcC
Confidence            3556777888899999999999999876543322223455666655  5688888888887777753             


Q ss_pred             -chhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcc
Q 042890           66 -DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR  144 (254)
Q Consensus        66 -~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~  144 (254)
                       .++.+|.++..+++|+.++++++.. ...+|   .++.+++|+.|++.+|.....+|.++..+++|+.|++++|.....
T Consensus       621 s~l~~L~~~~~~l~~Lk~L~Ls~~~~-l~~ip---~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~  696 (1153)
T PLN03210        621 SKLEKLWDGVHSLTGLRNIDLRGSKN-LKEIP---DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEI  696 (1153)
T ss_pred             ccccccccccccCCCCCEEECCCCCC-cCcCC---ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCc
Confidence             4555666677778888888876554 24444   455666677777766655555665565666666666665544444


Q ss_pred             ccccc-c---------------------CCcCeEecccccccccchhh------------------------------hh
Q 042890          145 LPEIS-S---------------------GNISWLFLRGIAIEELPSSI------------------------------ER  172 (254)
Q Consensus       145 ~p~~~-~---------------------~~L~~L~l~~~~~~~l~~~~------------------------------~~  172 (254)
                      +|... .                     .+|+.|++.+|.++.+|..+                              ..
T Consensus       697 Lp~~i~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~  776 (1153)
T PLN03210        697 LPTGINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTML  776 (1153)
T ss_pred             cCCcCCCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccccccccccccccccchhhccccccccchhhhhc
Confidence            33321 1                     34445555555544444321                              01


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCC---------------------CCCcEEeccC
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL---------------------SSPITCNLAK  231 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l---------------------~~L~~L~l~~  231 (254)
                      .++|+.|++++|.....+|..++++++|+.|++++|...+.+|..+ .+                     .+|+.|++++
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~Ls~  855 (1153)
T PLN03210        777 SPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDISTNISDLNLSR  855 (1153)
T ss_pred             cccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCccccccccccccCEeECCC
Confidence            1345566666665555566666666677777776665444444322 12                     3456666666


Q ss_pred             CCCCCCChhhhhhcccCccccc
Q 042890          232 TNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       232 n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      |.+..+|.++..+++|++|+++
T Consensus       856 n~i~~iP~si~~l~~L~~L~L~  877 (1153)
T PLN03210        856 TGIEEVPWWIEKFSNLSFLDMN  877 (1153)
T ss_pred             CCCccChHHHhcCCCCCEEECC
Confidence            6677778778888888888765

syringae 6; Provisional

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

Probab=99.86  E-value=3.9e-23  Score=172.85  Aligned_cols=195  Identities=18%  Similarity=0.145  Sum_probs=147.0

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|+.|.+.+|.+..+.+.       ++-.+.++++|+++.+.  ...+.. ..+.+++.|+.|++++|.+...-++++.
T Consensus       245 ~Sl~nlklqrN~I~kL~DG-------~Fy~l~kme~l~L~~N~--l~~vn~-g~lfgLt~L~~L~lS~NaI~rih~d~Ws  314 (873)
T KOG4194|consen  245 PSLQNLKLQRNDISKLDDG-------AFYGLEKMEHLNLETNR--LQAVNE-GWLFGLTSLEQLDLSYNAIQRIHIDSWS  314 (873)
T ss_pred             hhhhhhhhhhcCcccccCc-------ceeeecccceeecccch--hhhhhc-ccccccchhhhhccchhhhheeecchhh
Confidence            4455555555544444432       35567788888888554  333332 2667889999999999987666677788


Q ss_pred             CCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCc---cccCCCc
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPS---SLYRLKS  199 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~---~l~~l~~  199 (254)
                      ..++|++|+++.|++. .+++..   +..|+.|.++.|.++.+.++ +..+.+|+.||+..|.+.+-+.+   .+.+++.
T Consensus       315 ftqkL~~LdLs~N~i~-~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~  393 (873)
T KOG4194|consen  315 FTQKLKELDLSSNRIT-RLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPS  393 (873)
T ss_pred             hcccceeEeccccccc-cCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchh
Confidence            8889999999986644 444443   36788899999998887765 77889999999999998875433   4778999


Q ss_pred             cCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCC-ChhhhhhcccCccccc
Q 042890          200 LGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI-PESIIQLFVSGYLLLS  253 (254)
Q Consensus       200 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l-~~~~~~~~~L~~L~ls  253 (254)
                      |+.|++.||++..+...+|.+++.|++|++.+|.|..+ |.++..+ .|++|.++
T Consensus       394 LrkL~l~gNqlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m-~Lk~Lv~n  447 (873)
T KOG4194|consen  394 LRKLRLTGNQLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPM-ELKELVMN  447 (873)
T ss_pred             hhheeecCceeeecchhhhccCcccceecCCCCcceeecccccccc-hhhhhhhc
Confidence            99999999999888888999999999999999999866 4556666 88877653

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

Probab=99.83  E-value=2.6e-22  Score=169.57  Aligned_cols=233  Identities=20%  Similarity=0.258  Sum_probs=145.0

Q ss_pred             CCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc----------------chhhcch
Q 042890           10 NPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN----------------DIEQLWD   72 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~----------------~l~~l~~   72 (254)
                      .|+.+.+++.|+.|++++|.+       ...|..+.. +++-+|+|++|.++.+|..                .++.+|-
T Consensus        95 iP~diF~l~dLt~lDLShNqL-------~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPP  167 (1255)
T KOG0444|consen   95 IPTDIFRLKDLTILDLSHNQL-------REVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPP  167 (1255)
T ss_pred             CCchhcccccceeeecchhhh-------hhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCH
Confidence            355677899999999999987       677888888 8899999999998888865                3444454


Q ss_pred             hhhcccccceehhhccC------------------------CceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCC
Q 042890           73 RVKRYSKLNQIIHAACH------------------------KLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNL  128 (254)
Q Consensus        73 ~~~~~~~L~~l~l~~~~------------------------~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l  128 (254)
                      ...++.+|++|.+++++                        .+...+|.  ++..+.+|+.+|++.|. ...+|+.+-++
T Consensus       168 Q~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Pt--sld~l~NL~dvDlS~N~-Lp~vPecly~l  244 (1255)
T KOG0444|consen  168 QIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPT--SLDDLHNLRDVDLSENN-LPIVPECLYKL  244 (1255)
T ss_pred             HHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCC--chhhhhhhhhccccccC-CCcchHHHhhh
Confidence            45555555555555443                        22333333  44444444444444443 23344444444


Q ss_pred             CcccEEeccCCCCCcccc-ccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcc-cCCccccCCCccCEEEec
Q 042890          129 EFLTKLDLSGCSKLKRLP-EISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLK-SLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       129 ~~L~~L~l~~~~~~~~~p-~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~-~~~~~l~~l~~L~~L~l~  206 (254)
                      ++|+.|++++|.+..... .....+++.|.++.|.++.+|..+..+++|+.|...+|++.- .+|+.++++.+|+.+...
T Consensus       245 ~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aa  324 (1255)
T KOG0444|consen  245 RNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAA  324 (1255)
T ss_pred             hhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhh
Confidence            455555555544332111 111245555566666666666666666666666666665433 466667777777777666


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      + +..+.+|+.++.|..|+.|.++.|.+-.+|+++.-++.|+.|++.
T Consensus       325 n-N~LElVPEglcRC~kL~kL~L~~NrLiTLPeaIHlL~~l~vLDlr  370 (1255)
T KOG0444|consen  325 N-NKLELVPEGLCRCVKLQKLKLDHNRLITLPEAIHLLPDLKVLDLR  370 (1255)
T ss_pred             c-cccccCchhhhhhHHHHHhcccccceeechhhhhhcCCcceeecc
Confidence            5 344667777777777777777777777777777777777777764

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

Probab=99.83  E-value=4.6e-21  Score=160.57  Aligned_cols=220  Identities=18%  Similarity=0.153  Sum_probs=106.3

Q ss_pred             CCcceeeeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhccccc
Q 042890            2 SKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKL   80 (254)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L   80 (254)
                      |+.+.-.++...|.++++|+.+++.+|++       ..+|..... .+|+.|+|.+|.+.++...       .+..++.|
T Consensus        86 snNkl~~id~~~f~nl~nLq~v~l~~N~L-------t~IP~f~~~sghl~~L~L~~N~I~sv~se-------~L~~l~al  151 (873)
T KOG4194|consen   86 SNNKLSHIDFEFFYNLPNLQEVNLNKNEL-------TRIPRFGHESGHLEKLDLRHNLISSVTSE-------ELSALPAL  151 (873)
T ss_pred             cccccccCcHHHHhcCCcceeeeeccchh-------hhcccccccccceeEEeeeccccccccHH-------HHHhHhhh
Confidence            33344445556677888888888888886       445554444 5577777777766665543       23344444


Q ss_pred             ceehhhccCCceeecCCC-----------------------CccCCcccccEEeccCCcCCCccCCCCCCCCcccEEecc
Q 042890           81 NQIIHAACHKLIAKIPNP-----------------------TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLS  137 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~-----------------------~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  137 (254)
                      +.+|++.  +.+.+++.+                       ..|..+.+|..|.++.|.++..-+.+|.++++|+.|++.
T Consensus       152 rslDLSr--N~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLn  229 (873)
T KOG4194|consen  152 RSLDLSR--NLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLN  229 (873)
T ss_pred             hhhhhhh--chhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhcc
Confidence            4444442  212333210                       134444455555555554332223345556667766666


Q ss_pred             CCCCCcc--ccccccCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCccc
Q 042890          138 GCSKLKR--LPEISSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL  214 (254)
Q Consensus       138 ~~~~~~~--~p~~~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  214 (254)
                      +|.+...  +.-..+.+|+.|.+..|++..+..+ |..+.++++|++..|.+...-...+.+++.|+.|+++.|.+.++.
T Consensus       230 rN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih  309 (873)
T KOG4194|consen  230 RNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIH  309 (873)
T ss_pred             ccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheee
Confidence            6542211  1111123444444444444433222 333444444444444443333333444444444444444444444


Q ss_pred             CccccCCCCCcEEeccCCCCCCC
Q 042890          215 PECLGQLSSPITCNLAKTNIERI  237 (254)
Q Consensus       215 ~~~~~~l~~L~~L~l~~n~l~~l  237 (254)
                      ++.+..++.|++|+++.|.|+++
T Consensus       310 ~d~WsftqkL~~LdLs~N~i~~l  332 (873)
T KOG4194|consen  310 IDSWSFTQKLKELDLSSNRITRL  332 (873)
T ss_pred             cchhhhcccceeEeccccccccC
Confidence            44444444444444444444444

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

Probab=99.78  E-value=1.9e-21  Score=164.40  Aligned_cols=159  Identities=22%  Similarity=0.316  Sum_probs=130.9

Q ss_pred             hhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccc
Q 042890           67 IEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP  146 (254)
Q Consensus        67 l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p  146 (254)
                      +..+|..+..+.+|..++++.+.  .-.+|.  .+-.+++|+.|++++|.++ .+.-....+.+|+.|++++|. ...+|
T Consensus       211 l~N~Ptsld~l~NL~dvDlS~N~--Lp~vPe--cly~l~~LrrLNLS~N~it-eL~~~~~~W~~lEtLNlSrNQ-Lt~LP  284 (1255)
T KOG0444|consen  211 LDNIPTSLDDLHNLRDVDLSENN--LPIVPE--CLYKLRNLRRLNLSGNKIT-ELNMTEGEWENLETLNLSRNQ-LTVLP  284 (1255)
T ss_pred             hhcCCCchhhhhhhhhccccccC--CCcchH--HHhhhhhhheeccCcCcee-eeeccHHHHhhhhhhccccch-hccch
Confidence            44445667788889999998544  556676  8888999999999999954 444446678899999999965 56677


Q ss_pred             ccc--cCCcCeEeccccccc--ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCC
Q 042890          147 EIS--SGNISWLFLRGIAIE--ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLS  222 (254)
Q Consensus       147 ~~~--~~~L~~L~l~~~~~~--~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~  222 (254)
                      ...  ++.|+.|++.+|+++  .+|.+++.+.+|+.+..++|+ ..-+|..+..|..|+.|.++.|.+. .+|+++--++
T Consensus       285 ~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~-LElVPEglcRC~kL~kL~L~~NrLi-TLPeaIHlL~  362 (1255)
T KOG0444|consen  285 DAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNK-LELVPEGLCRCVKLQKLKLDHNRLI-TLPEAIHLLP  362 (1255)
T ss_pred             HHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccc-cccCchhhhhhHHHHHhccccccee-echhhhhhcC
Confidence            654  478889999999877  899999999999999999887 6678889999999999999987664 4788877789


Q ss_pred             CCcEEeccCCC
Q 042890          223 SPITCNLAKTN  233 (254)
Q Consensus       223 ~L~~L~l~~n~  233 (254)
                      .|+.|++..|+
T Consensus       363 ~l~vLDlreNp  373 (1255)
T KOG0444|consen  363 DLKVLDLRENP  373 (1255)
T ss_pred             CcceeeccCCc
Confidence            99999999987

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

Probab=99.70  E-value=8.1e-19  Score=141.29  Aligned_cols=224  Identities=23%  Similarity=0.279  Sum_probs=134.2

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc--------------chhhcch-hhhccccc
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN--------------DIEQLWD-RVKRYSKL   80 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~--------------~l~~l~~-~~~~~~~L   80 (254)
                      |+.|+.|+...|.+       ..+|..+.. .+|.-|++..|.+..+|.+              .++.+++ ..+.++.+
T Consensus       182 m~~L~~ld~~~N~L-------~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l  254 (565)
T KOG0472|consen  182 MKRLKHLDCNSNLL-------ETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSL  254 (565)
T ss_pred             HHHHHhcccchhhh-------hcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccc
Confidence            55555555555544       344555555 5566666666655555544              3333332 34467777


Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCC-------------------
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSK-------------------  141 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~-------------------  141 (254)
                      ..+|++++.  ..++|.  .+..+++|.+||+++|. +..+|.+++++ +|++|-+.+|..                   
T Consensus       255 ~vLDLRdNk--lke~Pd--e~clLrsL~rLDlSNN~-is~Lp~sLgnl-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyL  328 (565)
T KOG0472|consen  255 LVLDLRDNK--LKEVPD--EICLLRSLERLDLSNND-ISSLPYSLGNL-HLKFLALEGNPLRTIRREIISKGTQEVLKYL  328 (565)
T ss_pred             eeeeccccc--cccCch--HHHHhhhhhhhcccCCc-cccCCcccccc-eeeehhhcCCchHHHHHHHHcccHHHHHHHH
Confidence            777777554  667776  77777778888888776 34566667776 677666655420                   


Q ss_pred             ---------------------------------------------Ccccccccc--C---CcCeEeccccccccc-----
Q 042890          142 ---------------------------------------------LKRLPEISS--G---NISWLFLRGIAIEEL-----  166 (254)
Q Consensus       142 ---------------------------------------------~~~~p~~~~--~---~L~~L~l~~~~~~~l-----  166 (254)
                                                                   .+.+|...+  .   -+..+++++|.+.++     
T Consensus       329 rs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~  408 (565)
T KOG0472|consen  329 RSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLV  408 (565)
T ss_pred             HHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhH
Confidence                                                         000111000  0   022334444433333     


Q ss_pred             -------------------chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC-----------------
Q 042890          167 -------------------PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN-----------------  210 (254)
Q Consensus       167 -------------------~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~-----------------  210 (254)
                                         |..+..+++|..|++++|- ..++|..++.+-.|+.++++.|.+                 
T Consensus       409 ~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~-Ln~LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtll  487 (565)
T KOG0472|consen  409 ELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNL-LNDLPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLL  487 (565)
T ss_pred             HHHHHHHHHHhhcCccccchHHHHhhhcceeeecccch-hhhcchhhhhhhhhheecccccccccchHHHhhHHHHHHHH
Confidence                               3334556667777776653 445666666666677777766543                 


Q ss_pred             ------CcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          211 ------LQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       211 ------~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                            ....++.+..+.+|..||+.+|.+..+|+.+++|.+|+.|++++
T Consensus       488 as~nqi~~vd~~~l~nm~nL~tLDL~nNdlq~IPp~LgnmtnL~hLeL~g  537 (565)
T KOG0472|consen  488 ASNNQIGSVDPSGLKNMRNLTTLDLQNNDLQQIPPILGNMTNLRHLELDG  537 (565)
T ss_pred             hccccccccChHHhhhhhhcceeccCCCchhhCChhhccccceeEEEecC
Confidence                  12233346778889999999999999999999999999988864

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

Probab=99.68  E-value=1.4e-19  Score=145.62  Aligned_cols=222  Identities=22%  Similarity=0.233  Sum_probs=153.9

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc---------------chhhcchhhhcccccc
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN---------------DIEQLWDRVKRYSKLN   81 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~---------------~l~~l~~~~~~~~~L~   81 (254)
                      ..++.|.++.|.+       .++.+.+.. ..|.++++.+|.+..+|+.               .+..+|+++.+..++.
T Consensus        45 v~l~~lils~N~l-------~~l~~dl~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~  117 (565)
T KOG0472|consen   45 VDLQKLILSHNDL-------EVLREDLKNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLV  117 (565)
T ss_pred             cchhhhhhccCch-------hhccHhhhcccceeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhh
Confidence            3455555555554       333344444 5556666665555555543               2333445577777777


Q ss_pred             eehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEeccc
Q 042890           82 QIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRG  160 (254)
Q Consensus        82 ~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~  160 (254)
                      .++++.++  ..++++  .++.+..+..++..+|. +...|+.+..+.++..+++.+|......|... .+.++.++...
T Consensus       118 ~l~~s~n~--~~el~~--~i~~~~~l~dl~~~~N~-i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~  192 (565)
T KOG0472|consen  118 KLDCSSNE--LKELPD--SIGRLLDLEDLDATNNQ-ISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNS  192 (565)
T ss_pred             hhhccccc--eeecCc--hHHHHhhhhhhhccccc-cccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccch
Confidence            77777544  566666  77777788888877777 34556667777778888887766433323222 47788888888


Q ss_pred             ccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCcccc-CCCCCcEEeccCCCCCCCCh
Q 042890          161 IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLG-QLSSPITCNLAKTNIERIPE  239 (254)
Q Consensus       161 ~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~n~l~~l~~  239 (254)
                      |-++.+|+.++.+.+|..|++..|++ ...| +|.+++.|++++++.|.+ +.+|.+.+ +++++..||+.+|+++++|.
T Consensus       193 N~L~tlP~~lg~l~~L~~LyL~~Nki-~~lP-ef~gcs~L~Elh~g~N~i-~~lpae~~~~L~~l~vLDLRdNklke~Pd  269 (565)
T KOG0472|consen  193 NLLETLPPELGGLESLELLYLRRNKI-RFLP-EFPGCSLLKELHVGENQI-EMLPAEHLKHLNSLLVLDLRDNKLKEVPD  269 (565)
T ss_pred             hhhhcCChhhcchhhhHHHHhhhccc-ccCC-CCCccHHHHHHHhcccHH-HhhHHHHhcccccceeeeccccccccCch
Confidence            88888898888888888888888874 4455 688888888888877544 45555544 78888999999999999998


Q ss_pred             hhhhhcccCcccccC
Q 042890          240 SIIQLFVSGYLLLSY  254 (254)
Q Consensus       240 ~~~~~~~L~~L~ls~  254 (254)
                      .+..+++|.+||+|+
T Consensus       270 e~clLrsL~rLDlSN  284 (565)
T KOG0472|consen  270 EICLLRSLERLDLSN  284 (565)
T ss_pred             HHHHhhhhhhhcccC
Confidence            888888898888874

>PLN03210 Resistant to P

Probab=99.66  E-value=2e-15  Score=142.72  Aligned_cols=102  Identities=32%  Similarity=0.541  Sum_probs=71.8

Q ss_pred             CCcCeEeccccc-ccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCC------------------
Q 042890          151 GNISWLFLRGIA-IEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL------------------  211 (254)
Q Consensus       151 ~~L~~L~l~~~~-~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~------------------  211 (254)
                      ++|+.|++++|. +..+|..++++++|+.|++++|.....+|..+ .+++|+.|++++|...                  
T Consensus       778 ~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n  856 (1153)
T PLN03210        778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDISTNISDLNLSRT  856 (1153)
T ss_pred             ccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECCCCCccccccccccccCEeECCCC
Confidence            356777777764 44688888888888888888887666666543 4556666666655332                  


Q ss_pred             --cccCccccCCCCCcEEeccCCC-CCCCChhhhhhcccCccccc
Q 042890          212 --QRLPECLGQLSSPITCNLAKTN-IERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       212 --~~~~~~~~~l~~L~~L~l~~n~-l~~l~~~~~~~~~L~~L~ls  253 (254)
                        ..+|.++..+++|+.|++.+|. +..+|..+..+++|+.++++
T Consensus       857 ~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~  901 (1153)
T PLN03210        857 GIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFS  901 (1153)
T ss_pred             CCccChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecC
Confidence              2356667778999999999854 66777777777777777665

syringae 6; Provisional

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.65  E-value=1.7e-15  Score=135.20  Aligned_cols=112  Identities=23%  Similarity=0.244  Sum_probs=71.2

Q ss_pred             cccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCC
Q 042890          130 FLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCS  209 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~  209 (254)
                      +|+.|++++|++. .+|... .+++.|++++|.++.+|..   ..+|+.|++++|.+.. +|..   .++|+.|++++|.
T Consensus       343 ~Lq~LdLS~N~Ls-~LP~lp-~~L~~L~Ls~N~L~~LP~l---~~~L~~LdLs~N~Lt~-LP~l---~s~L~~LdLS~N~  413 (788)
T PRK15387        343 GLQELSVSDNQLA-SLPTLP-SELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRLTS-LPVL---PSELKELMVSGNR  413 (788)
T ss_pred             ccceEecCCCccC-CCCCCC-cccceehhhccccccCccc---ccccceEEecCCcccC-CCCc---ccCCCEEEccCCc
Confidence            5666666665433 344333 4566666666666655543   2467777777776553 4432   3567778888776


Q ss_pred             CCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          210 NLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       210 ~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      +.+ +|..   ..+|+.|++++|.++.+|..+..+++|+.+++++
T Consensus       414 Lss-IP~l---~~~L~~L~Ls~NqLt~LP~sl~~L~~L~~LdLs~  454 (788)
T PRK15387        414 LTS-LPML---PSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEG  454 (788)
T ss_pred             CCC-CCcc---hhhhhhhhhccCcccccChHHhhccCCCeEECCC
Confidence            543 5542   3467778888888888888888888888888764

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.64  E-value=2.2e-15  Score=135.03  Aligned_cols=200  Identities=23%  Similarity=0.291  Sum_probs=96.3

Q ss_pred             cceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCC
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNP   98 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~   98 (254)
                      +|+.|++++|.+       ..+|..+. .+|++|++.+|.++.+|..        +  ...|+.|++++|.  ...+|. 
T Consensus       200 ~L~~L~Ls~N~L-------tsLP~~l~-~nL~~L~Ls~N~LtsLP~~--------l--~~~L~~L~Ls~N~--L~~LP~-  258 (754)
T PRK15370        200 QITTLILDNNEL-------KSLPENLQ-GNIKTLYANSNQLTSIPAT--------L--PDTIQEMELSINR--ITELPE-  258 (754)
T ss_pred             CCcEEEecCCCC-------CcCChhhc-cCCCEEECCCCccccCChh--------h--hccccEEECcCCc--cCcCCh-
Confidence            577888888776       23333221 5677777777777666642        1  1245555555443  223332 


Q ss_pred             CccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCc--------------------cccccccCCcCeEec
Q 042890           99 TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK--------------------RLPEISSGNISWLFL  158 (254)
Q Consensus        99 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~--------------------~~p~~~~~~L~~L~l  158 (254)
                       .+.  ..|+.|++++|.+. .+|..+.  ++|+.|++++|++..                    .+|.....+|+.|++
T Consensus       259 -~l~--s~L~~L~Ls~N~L~-~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp~sL~~L~Ls~N~Lt~LP~~l~~sL~~L~L  332 (754)
T PRK15370        259 -RLP--SALQSLDLFHNKIS-CLPENLP--EELRYLSVYDNSIRTLPAHLPSGITHLNVQSNSLTALPETLPPGLKTLEA  332 (754)
T ss_pred             -hHh--CCCCEEECcCCccC-ccccccC--CCCcEEECCCCccccCcccchhhHHHHHhcCCccccCCccccccceeccc
Confidence             221  34555555555432 3343322  245555555543321                    222222244555555


Q ss_pred             ccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          159 RGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       159 ~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      .+|.++.+|..+.  ++|+.|++++|.+. .+|..+  .+.|+.|++++|++. .+|..+.  ..|+.|++++|.+..+|
T Consensus       333 s~N~Lt~LP~~l~--~sL~~L~Ls~N~L~-~LP~~l--p~~L~~LdLs~N~Lt-~LP~~l~--~sL~~LdLs~N~L~~LP  404 (754)
T PRK15370        333 GENALTSLPASLP--PELQVLDVSKNQIT-VLPETL--PPTITTLDVSRNALT-NLPENLP--AALQIMQASRNNLVRLP  404 (754)
T ss_pred             cCCccccCChhhc--CcccEEECCCCCCC-cCChhh--cCCcCEEECCCCcCC-CCCHhHH--HHHHHHhhccCCcccCc
Confidence            5555555544332  45555555555543 233322  235555666555443 2333322  24555666666665555


Q ss_pred             hhhhhh----cccCccccc
Q 042890          239 ESIIQL----FVSGYLLLS  253 (254)
Q Consensus       239 ~~~~~~----~~L~~L~ls  253 (254)
                      ..+..+    +++..+++.
T Consensus       405 ~sl~~~~~~~~~l~~L~L~  423 (754)
T PRK15370        405 ESLPHFRGEGPQPTRIIVE  423 (754)
T ss_pred             hhHHHHhhcCCCccEEEee
Confidence            443332    444555443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.62  E-value=1.8e-15  Score=135.49  Aligned_cols=199  Identities=20%  Similarity=0.240  Sum_probs=126.3

Q ss_pred             cceeeeCCcccCCC-----CcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhccc
Q 042890            4 VKELRLNPNTFTKM-----PKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYS   78 (254)
Q Consensus         4 ~~~~~~~~~~~~~~-----~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~   78 (254)
                      +..+++....+..+     ++|++|++++|.+.       .+|..+. .+|+.|++++|.+..+|..        +  ..
T Consensus       201 L~~L~Ls~N~LtsLP~~l~~nL~~L~Ls~N~Lt-------sLP~~l~-~~L~~L~Ls~N~L~~LP~~--------l--~s  262 (754)
T PRK15370        201 ITTLILDNNELKSLPENLQGNIKTLYANSNQLT-------SIPATLP-DTIQEMELSINRITELPER--------L--PS  262 (754)
T ss_pred             CcEEEecCCCCCcCChhhccCCCEEECCCCccc-------cCChhhh-ccccEEECcCCccCcCChh--------H--hC
Confidence            33444444444433     37889999888872       2333221 4677777777776666543        1  13


Q ss_pred             ccceehhhccCCceeecCCCCccCCcccccEEeccCCcCC--------------------CccCCCCCCCCcccEEeccC
Q 042890           79 KLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL--------------------KSLPSGIFNLEFLTKLDLSG  138 (254)
Q Consensus        79 ~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~--------------------~~~~~~~~~l~~L~~L~l~~  138 (254)
                      +|+.|+++++.  ...+|.  .+.  +.|+.|++++|.+.                    ..+|..+  .++|+.|++++
T Consensus       263 ~L~~L~Ls~N~--L~~LP~--~l~--~sL~~L~Ls~N~Lt~LP~~lp~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~  334 (754)
T PRK15370        263 ALQSLDLFHNK--ISCLPE--NLP--EELRYLSVYDNSIRTLPAHLPSGITHLNVQSNSLTALPETL--PPGLKTLEAGE  334 (754)
T ss_pred             CCCEEECcCCc--cCcccc--ccC--CCCcEEECCCCccccCcccchhhHHHHHhcCCccccCCccc--cccceeccccC
Confidence            45555555332  223332  221  24555555554432                    1233222  35799999999


Q ss_pred             CCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCcc-
Q 042890          139 CSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC-  217 (254)
Q Consensus       139 ~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-  217 (254)
                      |.+.. +|.....+|+.|++++|.++.+|..+.  ++|+.|++++|.+. .+|..+.  ..|+.|++++|++. .+|.. 
T Consensus       335 N~Lt~-LP~~l~~sL~~L~Ls~N~L~~LP~~lp--~~L~~LdLs~N~Lt-~LP~~l~--~sL~~LdLs~N~L~-~LP~sl  407 (754)
T PRK15370        335 NALTS-LPASLPPELQVLDVSKNQITVLPETLP--PTITTLDVSRNALT-NLPENLP--AALQIMQASRNNLV-RLPESL  407 (754)
T ss_pred             Ccccc-CChhhcCcccEEECCCCCCCcCChhhc--CCcCEEECCCCcCC-CCCHhHH--HHHHHHhhccCCcc-cCchhH
Confidence            87554 665545799999999999999987653  68999999999866 4555443  36899999998775 44543 


Q ss_pred             ---ccCCCCCcEEeccCCCCC
Q 042890          218 ---LGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       218 ---~~~l~~L~~L~l~~n~l~  235 (254)
                         ...++.+..+++.+|++.
T Consensus       408 ~~~~~~~~~l~~L~L~~Npls  428 (754)
T PRK15370        408 PHFRGEGPQPTRIIVEYNPFS  428 (754)
T ss_pred             HHHhhcCCCccEEEeeCCCcc
Confidence               344688999999999986

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

Probab=99.57  E-value=1e-16  Score=115.52  Aligned_cols=158  Identities=26%  Similarity=0.343  Sum_probs=114.0

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ..+..|-++.|.++.+|+.        +..+.+|+.+++.++.  +.++|.  .++.++.|+.|++.-|+ ...+|..|+
T Consensus        33 s~ITrLtLSHNKl~~vppn--------ia~l~nlevln~~nnq--ie~lp~--~issl~klr~lnvgmnr-l~~lprgfg   99 (264)
T KOG0617|consen   33 SNITRLTLSHNKLTVVPPN--------IAELKNLEVLNLSNNQ--IEELPT--SISSLPKLRILNVGMNR-LNILPRGFG   99 (264)
T ss_pred             hhhhhhhcccCceeecCCc--------HHHhhhhhhhhcccch--hhhcCh--hhhhchhhhheecchhh-hhcCccccC
Confidence            5566666777776666665        5667777777777444  666766  77777888888877776 456677788


Q ss_pred             CCCcccEEeccCCCCCccc-cccc--cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRL-PEIS--SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~-p~~~--~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      .+|-|+.||++.|+..... |..+  ...++.|+++.|.++.+|+.++.+++|+.|.+.+|.+. ..|..++.+.+|+.|
T Consensus       100 s~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrel  178 (264)
T KOG0617|consen  100 SFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLREL  178 (264)
T ss_pred             CCchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHH
Confidence            8888888888877766543 3322  25677778888888888998999999999999888744 467778888889999


Q ss_pred             EecCCCCCcccCcccc
Q 042890          204 DLHGCSNLQRLPECLG  219 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~  219 (254)
                      ++++|.+ ..+|.+++
T Consensus       179 hiqgnrl-~vlppel~  193 (264)
T KOG0617|consen  179 HIQGNRL-TVLPPELA  193 (264)
T ss_pred             hccccee-eecChhhh
Confidence            9988655 44554444

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

Probab=99.55  E-value=3.9e-16  Score=128.50  Aligned_cols=71  Identities=13%  Similarity=0.115  Sum_probs=30.6

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      .+++|+.|+++++.+.....  ..++..+.. +.++.+++.++.+...+ ..+..++.++..+++|+.|+++++.
T Consensus        21 ~l~~L~~l~l~~~~l~~~~~--~~i~~~l~~~~~l~~l~l~~~~~~~~~-~~~~~~~~~l~~~~~L~~L~l~~~~   92 (319)
T cd00116          21 KLLCLQVLRLEGNTLGEEAA--KALASALRPQPSLKELCLSLNETGRIP-RGLQSLLQGLTKGCGLQELDLSDNA   92 (319)
T ss_pred             HHhhccEEeecCCCCcHHHH--HHHHHHHhhCCCceEEeccccccCCcc-hHHHHHHHHHHhcCceeEEEccCCC
Confidence            34456666666655532211  122222333 44555555555433211 1222333334445555555555443

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

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

Probab=99.53  E-value=3.4e-16  Score=137.61  Aligned_cols=199  Identities=26%  Similarity=0.316  Sum_probs=109.9

Q ss_pred             CceeeeeeCCCCCCCCCCc---------------chhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEe
Q 042890           47 AEVKYLHWHGYPLKSLPSN---------------DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILN  111 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~---------------~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~  111 (254)
                      .+|++++++.+.+..+|.+               .+..++..+...++|+.+.+..+.  ...+|.  .....+.|++|+
T Consensus       241 ~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~ne--l~yip~--~le~~~sL~tLd  316 (1081)
T KOG0618|consen  241 LNLQYLDISHNNLSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNE--LEYIPP--FLEGLKSLRTLD  316 (1081)
T ss_pred             ccceeeecchhhhhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhh--hhhCCC--cccccceeeeee
Confidence            6677777777666666643               112222334445555555555444  556665  555677777777


Q ss_pred             ccCCcCCCccCCCCC--------------------------CCCcccEEeccCCCCCccc-cccc-cCCcCeEecccccc
Q 042890          112 LRGSKSLKSLPSGIF--------------------------NLEFLTKLDLSGCSKLKRL-PEIS-SGNISWLFLRGIAI  163 (254)
Q Consensus       112 l~~~~~~~~~~~~~~--------------------------~l~~L~~L~l~~~~~~~~~-p~~~-~~~L~~L~l~~~~~  163 (254)
                      +..|.+ ..+|+.+.                          .++.|+.|++.+|.+.... |... +..|+.|++++|.+
T Consensus       317 L~~N~L-~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL  395 (1081)
T KOG0618|consen  317 LQSNNL-PSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRL  395 (1081)
T ss_pred             ehhccc-cccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeeccccc
Confidence            777763 33332110                          1223444555554444332 2211 36677777777777


Q ss_pred             cccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCC--CChh
Q 042890          164 EELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER--IPES  240 (254)
Q Consensus       164 ~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~--l~~~  240 (254)
                      +.+|.. +.++..|+.|++++|++ ..+|.++..+..|++|...+|++ ..+| .+..++.|+.+|++.|.++.  +|..
T Consensus       396 ~~fpas~~~kle~LeeL~LSGNkL-~~Lp~tva~~~~L~tL~ahsN~l-~~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~  472 (1081)
T KOG0618|consen  396 NSFPASKLRKLEELEELNLSGNKL-TTLPDTVANLGRLHTLRAHSNQL-LSFP-ELAQLPQLKVLDLSCNNLSEVTLPEA  472 (1081)
T ss_pred             ccCCHHHHhchHHhHHHhcccchh-hhhhHHHHhhhhhHHHhhcCCce-eech-hhhhcCcceEEecccchhhhhhhhhh
Confidence            777654 55666677777777763 33445555566666665555433 3355 45566777777777777652  3332


Q ss_pred             hhhhcccCcccccC
Q 042890          241 IIQLFVSGYLLLSY  254 (254)
Q Consensus       241 ~~~~~~L~~L~ls~  254 (254)
                      . ..++|++||+++
T Consensus       473 ~-p~p~LkyLdlSG  485 (1081)
T KOG0618|consen  473 L-PSPNLKYLDLSG  485 (1081)
T ss_pred             C-CCcccceeeccC
Confidence            2 226777777664

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.51  E-value=1.5e-13  Score=122.96  Aligned_cols=123  Identities=27%  Similarity=0.245  Sum_probs=94.6

Q ss_pred             ccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCC
Q 042890          105 KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDC  184 (254)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n  184 (254)
                      ..|+.|++++|.+. .+|..   .++|+.|++++|.+. .+|... .+|+.|++++|.++.+|..   .++|+.|++++|
T Consensus       342 ~~Lq~LdLS~N~Ls-~LP~l---p~~L~~L~Ls~N~L~-~LP~l~-~~L~~LdLs~N~Lt~LP~l---~s~L~~LdLS~N  412 (788)
T PRK15387        342 SGLQELSVSDNQLA-SLPTL---PSELYKLWAYNNRLT-SLPALP-SGLKELIVSGNRLTSLPVL---PSELKELMVSGN  412 (788)
T ss_pred             cccceEecCCCccC-CCCCC---Ccccceehhhccccc-cCcccc-cccceEEecCCcccCCCCc---ccCCCEEEccCC
Confidence            37899999998854 45542   356888899987654 566654 7899999999999988864   367999999999


Q ss_pred             cCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhh
Q 042890          185 KRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESI  241 (254)
Q Consensus       185 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~  241 (254)
                      .+.. +|..   ...|+.|++++|++. .+|..++.+++|+.+++++|++. ..+..+
T Consensus       413 ~Lss-IP~l---~~~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~~~~~L  465 (788)
T PRK15387        413 RLTS-LPML---PSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSERTLQAL  465 (788)
T ss_pred             cCCC-CCcc---hhhhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCchHHHHH
Confidence            8654 5643   346788999997765 67888889999999999999987 334434

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

Probab=99.51  E-value=4.8e-16  Score=112.05  Aligned_cols=163  Identities=23%  Similarity=0.321  Sum_probs=131.6

Q ss_pred             hhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cC
Q 042890           74 VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SG  151 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~  151 (254)
                      +-.+.+++.|.++.+.  ...+|.  .++.+.+|+.|++.+|+ +..+|.++..+++|+.|+++.|. ...+|..+  ++
T Consensus        29 Lf~~s~ITrLtLSHNK--l~~vpp--nia~l~nlevln~~nnq-ie~lp~~issl~klr~lnvgmnr-l~~lprgfgs~p  102 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNK--LTVVPP--NIAELKNLEVLNLSNNQ-IEELPTSISSLPKLRILNVGMNR-LNILPRGFGSFP  102 (264)
T ss_pred             ccchhhhhhhhcccCc--eeecCC--cHHHhhhhhhhhcccch-hhhcChhhhhchhhhheecchhh-hhcCccccCCCc
Confidence            4456677777888544  566666  88899999999999998 57788889999999999998855 45566554  57


Q ss_pred             CcCeEeccccccc--ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEec
Q 042890          152 NISWLFLRGIAIE--ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNL  229 (254)
Q Consensus       152 ~L~~L~l~~~~~~--~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l  229 (254)
                      .++.|++.+|++.  .+|..|..++.|+.|.+++|.+ ..+|..++++++|+.|.+..|.+. .+|.+++.+..|++|++
T Consensus       103 ~levldltynnl~e~~lpgnff~m~tlralyl~dndf-e~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhi  180 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDF-EILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHI  180 (264)
T ss_pred             hhhhhhccccccccccCCcchhHHHHHHHHHhcCCCc-ccCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhc
Confidence            8899999999887  6899999999999999999874 446667899999999999887654 47788888999999999


Q ss_pred             cCCCCCCCChhhhhh
Q 042890          230 AKTNIERIPESIIQL  244 (254)
Q Consensus       230 ~~n~l~~l~~~~~~~  244 (254)
                      ++|.++-+|..++++
T Consensus       181 qgnrl~vlppel~~l  195 (264)
T KOG0617|consen  181 QGNRLTVLPPELANL  195 (264)
T ss_pred             ccceeeecChhhhhh
Confidence            999998888776644

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

Probab=99.48  E-value=2.7e-15  Score=123.49  Aligned_cols=234  Identities=18%  Similarity=0.086  Sum_probs=153.1

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      +...+.+++|+++++.+++........+..+.. ++|+.|++++|.+.......+..   .... ++|++|+++++....
T Consensus        47 l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~---l~~~-~~L~~L~ls~~~~~~  122 (319)
T cd00116          47 LRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLES---LLRS-SSLQELKLNNNGLGD  122 (319)
T ss_pred             HhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHH---Hhcc-CcccEEEeeCCccch
Confidence            446677999999998874210001122333444 89999999999865322211111   1222 569999999776421


Q ss_pred             ---eecCCCCccCCc-ccccEEeccCCcCCC----ccCCCCCCCCcccEEeccCCCCCcc----ccccc--cCCcCeEec
Q 042890           93 ---AKIPNPTLMPRM-KKLVILNLRGSKSLK----SLPSGIFNLEFLTKLDLSGCSKLKR----LPEIS--SGNISWLFL  158 (254)
Q Consensus        93 ---~~~~~~~~~~~~-~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~----~p~~~--~~~L~~L~l  158 (254)
                         ..+..  .+..+ +.|+.|++++|.+.+    .++..+..+++|+.|++++|.+...    ++...  .+.|+.|++
T Consensus       123 ~~~~~l~~--~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L  200 (319)
T cd00116         123 RGLRLLAK--GLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDL  200 (319)
T ss_pred             HHHHHHHH--HHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEec
Confidence               12222  44556 899999999998763    2333455678899999999876632    11111  258999999


Q ss_pred             cccccc-----ccchhhhhccccCEEeccCCcCcccCCcccc-----CCCccCEEEecCCCCCc----ccCccccCCCCC
Q 042890          159 RGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKSLPSSLY-----RLKSLGILDLHGCSNLQ----RLPECLGQLSSP  224 (254)
Q Consensus       159 ~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~-----~l~~L~~L~l~~~~~~~----~~~~~~~~l~~L  224 (254)
                      ++|.++     .++..+..+++|++|++++|.+.+.....+.     ..+.|+.+++++|.+..    .+...+..++.|
T Consensus       201 ~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L  280 (319)
T cd00116         201 NNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESL  280 (319)
T ss_pred             cCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCc
Confidence            999886     2444566778999999999987752222221     24789999999987752    233445566899


Q ss_pred             cEEeccCCCCCCC-----Chhhhhh-cccCccccc
Q 042890          225 ITCNLAKTNIERI-----PESIIQL-FVSGYLLLS  253 (254)
Q Consensus       225 ~~L~l~~n~l~~l-----~~~~~~~-~~L~~L~ls  253 (254)
                      +.+++++|.+..-     ...+... +.|+++++.
T Consensus       281 ~~l~l~~N~l~~~~~~~~~~~~~~~~~~~~~~~~~  315 (319)
T cd00116         281 LELDLRGNKFGEEGAQLLAESLLEPGNELESLWVK  315 (319)
T ss_pred             cEEECCCCCCcHHHHHHHHHHHhhcCCchhhcccC
Confidence            9999999998632     3334444 678888775

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

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

Probab=99.47  E-value=6.5e-16  Score=124.35  Aligned_cols=226  Identities=20%  Similarity=0.176  Sum_probs=119.5

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCC-CCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHG-YPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~-~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      +.+.+|+.+++||.|++++|.|      ...-|..+.. .+|-.|.+.+ |.++++|..       .+..+..++-|.+.
T Consensus        82 iP~~aF~~l~~LRrLdLS~N~I------s~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~-------~F~gL~slqrLllN  148 (498)
T KOG4237|consen   82 IPPGAFKTLHRLRRLDLSKNNI------SFIAPDAFKGLASLLSLVLYGNNKITDLPKG-------AFGGLSSLQRLLLN  148 (498)
T ss_pred             CChhhccchhhhceecccccch------hhcChHhhhhhHhhhHHHhhcCCchhhhhhh-------HhhhHHHHHHHhcC
Confidence            4566888999999999999987      3444555666 7777777666 678888865       35556666666665


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCcc--cccc-------------c-
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKR--LPEI-------------S-  149 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~--~p~~-------------~-  149 (254)
                      .++  ...++. ..|..++++..|++.+|.+. .++. .+..+..++.+.+..|.+...  +|+.             + 
T Consensus       149 an~--i~Cir~-~al~dL~~l~lLslyDn~~q-~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgar  224 (498)
T KOG4237|consen  149 ANH--INCIRQ-DALRDLPSLSLLSLYDNKIQ-SICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGAR  224 (498)
T ss_pred             hhh--hcchhH-HHHHHhhhcchhcccchhhh-hhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccce
Confidence            443  333331 26666777777777777632 2322 444555555555444332111  0000             0 


Q ss_pred             --------------------cCCcCeE---eccccccc-ccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEE
Q 042890          150 --------------------SGNISWL---FLRGIAIE-ELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILD  204 (254)
Q Consensus       150 --------------------~~~L~~L---~l~~~~~~-~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~  204 (254)
                                          ..+++.+   ....+... ..|. .|+.+++|++|++++|++...-+.+|.+.+.++.|.
T Consensus       225 c~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~  304 (498)
T KOG4237|consen  225 CVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELY  304 (498)
T ss_pred             ecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhh
Confidence                                0000000   00001011 1122 245556666666666665554444555555666666


Q ss_pred             ecCCCCCcccCccccCCCCCcEEeccCCCCCCC-ChhhhhhcccCccc
Q 042890          205 LHGCSNLQRLPECLGQLSSPITCNLAKTNIERI-PESIIQLFVSGYLL  251 (254)
Q Consensus       205 l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l-~~~~~~~~~L~~L~  251 (254)
                      +..|++...-...|..+..|+.|++.+|+|+.+ |..+....+|.+|+
T Consensus       305 L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~  352 (498)
T KOG4237|consen  305 LTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLN  352 (498)
T ss_pred             cCcchHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeee
Confidence            655555444444455555666666666665532 33444444444443

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

Probab=99.45  E-value=2.3e-15  Score=132.45  Aligned_cols=224  Identities=20%  Similarity=0.222  Sum_probs=137.6

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCc--------------chhhcchhhhccc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSN--------------DIEQLWDRVKRYS   78 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~--------------~l~~l~~~~~~~~   78 (254)
                      .+..+.+|+.+....+.+       ..+  .+..++|+.|+...|++..+...              .+..+|..+..+.
T Consensus       194 dls~~~~l~~l~c~rn~l-------s~l--~~~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi~~~~  264 (1081)
T KOG0618|consen  194 DLSNLANLEVLHCERNQL-------SEL--EISGPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWIGACA  264 (1081)
T ss_pred             hhhhccchhhhhhhhccc-------ceE--EecCcchheeeeccCcceeeccccccccceeeecchhhhhcchHHHHhcc
Confidence            355677778887777765       100  12238899999999986533222              4555566677777


Q ss_pred             ccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---------
Q 042890           79 KLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---------  149 (254)
Q Consensus        79 ~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---------  149 (254)
                      +|+.+....+.  ...+|.  .+....+|+.|+...|. ...+|+...++..|+.|++..|++ ..+|+..         
T Consensus       265 nle~l~~n~N~--l~~lp~--ri~~~~~L~~l~~~~ne-l~yip~~le~~~sL~tLdL~~N~L-~~lp~~~l~v~~~~l~  338 (1081)
T KOG0618|consen  265 NLEALNANHNR--LVALPL--RISRITSLVSLSAAYNE-LEYIPPFLEGLKSLRTLDLQSNNL-PSLPDNFLAVLNASLN  338 (1081)
T ss_pred             cceEecccchh--HHhhHH--HHhhhhhHHHHHhhhhh-hhhCCCcccccceeeeeeehhccc-cccchHHHhhhhHHHH
Confidence            77777777444  456665  66677788888888877 456677677788899999988653 3333211         


Q ss_pred             -------------------cCCcCeEeccccccc-ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCC
Q 042890          150 -------------------SGNISWLFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCS  209 (254)
Q Consensus       150 -------------------~~~L~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~  209 (254)
                                         ...|+.|++.+|.++ ..-+.+.++.+|+.|++++|.+.......+.++..|+.|+++||.
T Consensus       339 ~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNk  418 (1081)
T KOG0618|consen  339 TLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNK  418 (1081)
T ss_pred             HHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccch
Confidence                               123445555555555 222334455666666666665444333345566666666666643


Q ss_pred             CCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          210 NLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       210 ~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      + ..+|..+..+..|+.|...+|.+..+| .+.+++.|+.+|+|
T Consensus       419 L-~~Lp~tva~~~~L~tL~ahsN~l~~fP-e~~~l~qL~~lDlS  460 (1081)
T KOG0618|consen  419 L-TTLPDTVANLGRLHTLRAHSNQLLSFP-ELAQLPQLKVLDLS  460 (1081)
T ss_pred             h-hhhhHHHHhhhhhHHHhhcCCceeech-hhhhcCcceEEecc
Confidence            3 344555556666666666666666666 46666777776665

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

Probab=99.26  E-value=1.9e-13  Score=108.67  Aligned_cols=238  Identities=16%  Similarity=0.077  Sum_probs=166.9

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc---chhhcchhhhcccccceehhhcc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN---DIEQLWDRVKRYSKLNQIIHAAC   88 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~---~l~~l~~~~~~~~~L~~l~l~~~   88 (254)
                      .+..+..++.+++++|.|+.+-  ...+...+.. ++|+..++++-....+-+.   .+.-+..++..+++|+++++|++
T Consensus        25 ~~~~~~s~~~l~lsgnt~G~EA--a~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDN  102 (382)
T KOG1909|consen   25 ELEPMDSLTKLDLSGNTFGTEA--ARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDN  102 (382)
T ss_pred             HhcccCceEEEeccCCchhHHH--HHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeecccc
Confidence            4567889999999999995552  2455666777 8999999988654433222   44455567788899999999965


Q ss_pred             CCc---eeecCCCCccCCcccccEEeccCCcCCCc-------------cCCCCCCCCcccEEeccCCCCCccccc----c
Q 042890           89 HKL---IAKIPNPTLMPRMKKLVILNLRGSKSLKS-------------LPSGIFNLEFLTKLDLSGCSKLKRLPE----I  148 (254)
Q Consensus        89 ~~~---~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-------------~~~~~~~l~~L~~L~l~~~~~~~~~p~----~  148 (254)
                      -.-   ...+-.  .++.+..|++|++.+|++...             ...-...-++|+.+..++|.....-..    .
T Consensus       103 A~G~~g~~~l~~--ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~  180 (382)
T KOG1909|consen  103 AFGPKGIRGLEE--LLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEA  180 (382)
T ss_pred             ccCccchHHHHH--HHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHH
Confidence            421   112222  456688999999999985311             111234557899999999764433211    1


Q ss_pred             --ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc----CCccccCCCccCEEEecCCCCCcc----
Q 042890          149 --SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSNLQR----  213 (254)
Q Consensus       149 --~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~----  213 (254)
                        ..+.++.+.+..|.|.     .+...+.++++|+.||+.+|.+...    +...+..+++|+.+++++|.+...    
T Consensus       181 ~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a  260 (382)
T KOG1909|consen  181 FQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIA  260 (382)
T ss_pred             HHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHH
Confidence              1268889999998776     2345688899999999999988652    344567789999999999988653    


Q ss_pred             cCccc-cCCCCCcEEeccCCCCC-----CCChhhhhhcccCcccccC
Q 042890          214 LPECL-GQLSSPITCNLAKTNIE-----RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       214 ~~~~~-~~l~~L~~L~l~~n~l~-----~l~~~~~~~~~L~~L~ls~  254 (254)
                      +..++ ...|+|+++.+.+|.++     .+...+...|.|.+|++++
T Consensus       261 ~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLng  307 (382)
T KOG1909|consen  261 FVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNG  307 (382)
T ss_pred             HHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCc
Confidence            22333 24789999999999985     2334456678888888874

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

Probab=99.25  E-value=1.4e-13  Score=111.06  Aligned_cols=61  Identities=15%  Similarity=0.056  Sum_probs=52.2

Q ss_pred             cccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCccccc
Q 042890          193 SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLLS  253 (254)
Q Consensus       193 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~ls  253 (254)
                      .|.++++|+++++++|.+.++-+.+|....++++|.+.+|++..+.. .+..+..|++|++.
T Consensus       269 cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~  330 (498)
T KOG4237|consen  269 CFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLY  330 (498)
T ss_pred             HHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhccccceeeeec
Confidence            47789999999999999988888899999999999999999987654 35678888888875

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

Probab=99.24  E-value=1.9e-12  Score=101.51  Aligned_cols=137  Identities=20%  Similarity=0.105  Sum_probs=108.3

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEE
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWL  179 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L  179 (254)
                      .+..++.|+++|+++|. +..+.+++.-.|+++.|++++|.+...-.-..+.+|+.|++++|.++.+..+-..+.|+++|
T Consensus       279 ~~dTWq~LtelDLS~N~-I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL  357 (490)
T KOG1259|consen  279 SADTWQELTELDLSGNL-ITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTL  357 (490)
T ss_pred             ecchHhhhhhccccccc-hhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeee
Confidence            44567899999999997 45566667778999999999987554333333589999999999999888887788899999


Q ss_pred             eccCCcCcccCCccccCCCccCEEEecCCCCCcc-cCccccCCCCCcEEeccCCCCCCCCh
Q 042890          180 DLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQR-LPECLGQLSSPITCNLAKTNIERIPE  239 (254)
Q Consensus       180 ~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~n~l~~l~~  239 (254)
                      .+++|.+.+ . +.++++-+|..||+.+|++... -...++++|.|+.+.+.+|++..+++
T Consensus       358 ~La~N~iE~-L-SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  358 KLAQNKIET-L-SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             ehhhhhHhh-h-hhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccccch
Confidence            999987543 2 3467788899999999887542 23567889999999999999876654

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

Probab=99.09  E-value=1e-10  Score=86.92  Aligned_cols=130  Identities=23%  Similarity=0.142  Sum_probs=47.9

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCC-CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhh-hhccccC
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSI-ERQLRLS  177 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~-~~~~~L~  177 (254)
                      .+.+...+++|++.+|.+. .+. .++ .+.+|+.|++++|.+...-.-..+..|+.|++++|.++.+.+.+ ..+++|+
T Consensus        14 ~~~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   14 QYNNPVKLRELNLRGNQIS-TIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQ   91 (175)
T ss_dssp             ------------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--
T ss_pred             ccccccccccccccccccc-ccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCC
Confidence            4556678899999999853 333 354 57889999999977554322222578888889999888887655 4578888


Q ss_pred             EEeccCCcCcc-cCCccccCCCccCEEEecCCCCCcccC---ccccCCCCCcEEeccC
Q 042890          178 WLDLSDCKRLK-SLPSSLYRLKSLGILDLHGCSNLQRLP---ECLGQLSSPITCNLAK  231 (254)
Q Consensus       178 ~L~l~~n~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~l~~L~~L~l~~  231 (254)
                      .|++++|++.+ .-...+..+++|+.|++.+|++.+.--   ..+..+|+|+.||-..
T Consensus        92 ~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   92 ELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             EEECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEE
Confidence            89988888755 222346678888888888877654311   1245678888887544

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

Probab=99.08  E-value=1.3e-10  Score=86.31  Aligned_cols=126  Identities=23%  Similarity=0.262  Sum_probs=45.2

Q ss_pred             hcccccceehhhccCCceeecCCCCccC-CcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccC
Q 042890           75 KRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSG  151 (254)
Q Consensus        75 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~  151 (254)
                      .+..++++|+++++.  +..+.   .++ .+.+|+.|++++|.+ ..+.. +..+++|+.|++++|.+....+..  .++
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   88 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQ--ISTIE---NLGATLDKLEVLDLSNNQI-TKLEG-LPGLPRLKTLDLSNNRISSISEGLDKNLP   88 (175)
T ss_dssp             -------------------------S--TT-TT--EEE-TTS---S--TT-----TT--EEE--SS---S-CHHHHHH-T
T ss_pred             ccccccccccccccc--ccccc---chhhhhcCCCEEECCCCCC-ccccC-ccChhhhhhcccCCCCCCccccchHHhCC
Confidence            455577888888665  33332   343 467888888888874 34443 677888888888887765532221  247


Q ss_pred             CcCeEecccccccccc--hhhhhccccCEEeccCCcCcccCC---ccccCCCccCEEEecC
Q 042890          152 NISWLFLRGIAIEELP--SSIERQLRLSWLDLSDCKRLKSLP---SSLYRLKSLGILDLHG  207 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~--~~~~~~~~L~~L~l~~n~~~~~~~---~~l~~l~~L~~L~l~~  207 (254)
                      +|+.|++++|.|..+.  ..+..+++|+.|++.+|.++..-.   ..+..+|+|+.||-..
T Consensus        89 ~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   89 NLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             T--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             cCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEE
Confidence            8888888888877543  345677888888888887765311   1255678888887654

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

Probab=99.06  E-value=2.7e-11  Score=102.32  Aligned_cols=176  Identities=23%  Similarity=0.317  Sum_probs=114.0

Q ss_pred             eeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCC
Q 042890           49 VKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNL  128 (254)
Q Consensus        49 L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l  128 (254)
                      -...+++.|.+..+|..        +..|.-|+.+.+..+.  ...+|.  .+..+..|+.|+++.|+ ...+|..+..+
T Consensus        77 t~~aDlsrNR~~elp~~--------~~~f~~Le~liLy~n~--~r~ip~--~i~~L~~lt~l~ls~Nq-lS~lp~~lC~l  143 (722)
T KOG0532|consen   77 TVFADLSRNRFSELPEE--------ACAFVSLESLILYHNC--IRTIPE--AICNLEALTFLDLSSNQ-LSHLPDGLCDL  143 (722)
T ss_pred             hhhhhccccccccCchH--------HHHHHHHHHHHHHhcc--ceecch--hhhhhhHHHHhhhccch-hhcCChhhhcC
Confidence            34455666655555543        5566666666665333  455665  77777777777777776 45566666666


Q ss_pred             CcccEEeccCCCCCccccccc--cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          129 EFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       129 ~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      + |+.|.+++|+ .+.+|...  ...+..++.+.|.+..+|..+.++.+|+.|.+..|... .+|..+..++ |..||++
T Consensus       144 p-Lkvli~sNNk-l~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~-~lp~El~~Lp-Li~lDfS  219 (722)
T KOG0532|consen  144 P-LKVLIVSNNK-LTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLE-DLPEELCSLP-LIRLDFS  219 (722)
T ss_pred             c-ceeEEEecCc-cccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhh-hCCHHHhCCc-eeeeecc
Confidence            6 7777777755 33344333  25566777777777777777777777777777776633 3445555444 6777877


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCCCCChhhh
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIERIPESII  242 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~  242 (254)
                      .| ....+|-.|++|..|++|-+.+|+++.-|..+.
T Consensus       220 cN-kis~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC  254 (722)
T KOG0532|consen  220 CN-KISYLPVDFRKMRHLQVLQLENNPLQSPPAQIC  254 (722)
T ss_pred             cC-ceeecchhhhhhhhheeeeeccCCCCCChHHHH
Confidence            64 445677778888888888888888776665544

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

Probab=99.03  E-value=4e-10  Score=95.65  Aligned_cols=174  Identities=26%  Similarity=0.299  Sum_probs=110.7

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhccc-ccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYS-KLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~-~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~  125 (254)
                      +.+..|++.++.+..+++.        ..... +|+.++++++.  ...++.  .+..++.|+.|++++|. +..++...
T Consensus       116 ~~l~~L~l~~n~i~~i~~~--------~~~~~~nL~~L~l~~N~--i~~l~~--~~~~l~~L~~L~l~~N~-l~~l~~~~  182 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPL--------IGLLKSNLKELDLSDNK--IESLPS--PLRNLPNLKNLDLSFND-LSDLPKLL  182 (394)
T ss_pred             cceeEEecCCcccccCccc--------cccchhhcccccccccc--hhhhhh--hhhccccccccccCCch-hhhhhhhh
Confidence            5677777777777777654        33342 77777777554  445443  56677777777777777 34455534


Q ss_pred             CCCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          126 FNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       126 ~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      ...+.|+.|++++|+ ...+|..  ....++.+.+++|.+...+..+....++..+.+..|++... +..++.++.++.+
T Consensus       183 ~~~~~L~~L~ls~N~-i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~-~~~~~~l~~l~~L  260 (394)
T COG4886         183 SNLSNLNNLDLSGNK-ISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDL-PESIGNLSNLETL  260 (394)
T ss_pred             hhhhhhhheeccCCc-cccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeec-cchhcccccccee
Confidence            466777777777755 3344443  22447777777776666666666667777777666654332 3456677777888


Q ss_pred             EecCCCCCcccCccccCCCCCcEEeccCCCCCCC
Q 042890          204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI  237 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l  237 (254)
                      ++++|.+.....  +.....++.++++++.+...
T Consensus       261 ~~s~n~i~~i~~--~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         261 DLSNNQISSISS--LGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             cccccccccccc--ccccCccCEEeccCcccccc
Confidence            887766554333  56677778888877766533

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

Probab=99.01  E-value=3.4e-10  Score=96.09  Aligned_cols=181  Identities=29%  Similarity=0.344  Sum_probs=137.9

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-C-ceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCC
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-A-EVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHK   90 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~-~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~   90 (254)
                      .+...+.++.|++.++.+       ..++..... . +|+.|++.+|.+..++..        +..+++|+.|+++++. 
T Consensus       111 ~~~~~~~l~~L~l~~n~i-------~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~--------~~~l~~L~~L~l~~N~-  174 (394)
T COG4886         111 ELLELTNLTSLDLDNNNI-------TDIPPLIGLLKSNLKELDLSDNKIESLPSP--------LRNLPNLKNLDLSFND-  174 (394)
T ss_pred             hhhcccceeEEecCCccc-------ccCccccccchhhcccccccccchhhhhhh--------hhccccccccccCCch-
Confidence            445567899999999887       555555555 4 899999999998888633        7889999999999776 


Q ss_pred             ceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccc-ccccCCcCeEecccccccccchh
Q 042890           91 LIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EISSGNISWLFLRGIAIEELPSS  169 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p-~~~~~~L~~L~l~~~~~~~l~~~  169 (254)
                       ..+++.  .....+.|+.|++++|. +..+|........|+.+++++|....... .....++..+.+..|.+..++..
T Consensus       175 -l~~l~~--~~~~~~~L~~L~ls~N~-i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~  250 (394)
T COG4886         175 -LSDLPK--LLSNLSNLNNLDLSGNK-ISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPES  250 (394)
T ss_pred             -hhhhhh--hhhhhhhhhheeccCCc-cccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccch
Confidence             667764  44478999999999998 46677655566679999999985333322 22246777777888888877788


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLP  215 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  215 (254)
                      +..+++++.|++++|.+...-.  ++...+++.++++++......+
T Consensus       251 ~~~l~~l~~L~~s~n~i~~i~~--~~~~~~l~~L~~s~n~~~~~~~  294 (394)
T COG4886         251 IGNLSNLETLDLSNNQISSISS--LGSLTNLRELDLSGNSLSNALP  294 (394)
T ss_pred             hccccccceecccccccccccc--ccccCccCEEeccCccccccch
Confidence            8888999999999988655432  7888999999999977654433

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

Probab=99.00  E-value=4.6e-11  Score=97.85  Aligned_cols=197  Identities=16%  Similarity=0.113  Sum_probs=105.9

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc-eeecCCCCccCCcccccEEeccCCcCCCccCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL-IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~-~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~  125 (254)
                      .+|+...|.++.+...+..      +..+.|++++.|+++.+-.. +..+..  ...-+++|+.|+++.|.+........
T Consensus       121 kkL~~IsLdn~~V~~~~~~------~~~k~~~~v~~LdLS~NL~~nw~~v~~--i~eqLp~Le~LNls~Nrl~~~~~s~~  192 (505)
T KOG3207|consen  121 KKLREISLDNYRVEDAGIE------EYSKILPNVRDLDLSRNLFHNWFPVLK--IAEQLPSLENLNLSSNRLSNFISSNT  192 (505)
T ss_pred             HhhhheeecCccccccchh------hhhhhCCcceeecchhhhHHhHHHHHH--HHHhcccchhcccccccccCCccccc
Confidence            5677777777765544321      22566777777777733211 222221  22346777777777776432222111


Q ss_pred             -CCCCcccEEeccCCCCCcccc-cc--ccCCcCeEeccccc-ccccchhhhhccccCEEeccCCcCcccC-CccccCCCc
Q 042890          126 -FNLEFLTKLDLSGCSKLKRLP-EI--SSGNISWLFLRGIA-IEELPSSIERQLRLSWLDLSDCKRLKSL-PSSLYRLKS  199 (254)
Q Consensus       126 -~~l~~L~~L~l~~~~~~~~~p-~~--~~~~L~~L~l~~~~-~~~l~~~~~~~~~L~~L~l~~n~~~~~~-~~~l~~l~~  199 (254)
                       ..+++|+.|.++.|.+...-- ..  .+++++.|++.+|. +........-...|+.||+++|.+.+.. ....+.++.
T Consensus       193 ~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~  272 (505)
T KOG3207|consen  193 TLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPG  272 (505)
T ss_pred             hhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccc
Confidence             135677777777776553211 11  13677777777773 2211111223356777777777766532 123556777


Q ss_pred             cCEEEecCCCCCcc-cCcc-----ccCCCCCcEEeccCCCCCCCCh--hhhhhcccCccc
Q 042890          200 LGILDLHGCSNLQR-LPEC-----LGQLSSPITCNLAKTNIERIPE--SIIQLFVSGYLL  251 (254)
Q Consensus       200 L~~L~l~~~~~~~~-~~~~-----~~~l~~L~~L~l~~n~l~~l~~--~~~~~~~L~~L~  251 (254)
                      |..++++.|.+.+. .|+.     ...+++|+.|++..|++.+.+.  .+..+++|+.+.
T Consensus       273 L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~  332 (505)
T KOG3207|consen  273 LNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLR  332 (505)
T ss_pred             hhhhhccccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhh
Confidence            77777776665442 2222     2346778888888888755443  244445554443

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

Probab=98.96  E-value=9.8e-11  Score=95.97  Aligned_cols=131  Identities=13%  Similarity=0.037  Sum_probs=58.0

Q ss_pred             cccccEEeccCCcCCC-ccCCCCCCCCcccEEeccCCCCCc--cccccccCCcCeEecccccccccc--hhhhhccccCE
Q 042890          104 MKKLVILNLRGSKSLK-SLPSGIFNLEFLTKLDLSGCSKLK--RLPEISSGNISWLFLRGIAIEELP--SSIERQLRLSW  178 (254)
Q Consensus       104 ~~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~--~~p~~~~~~L~~L~l~~~~~~~l~--~~~~~~~~L~~  178 (254)
                      +++|+.|.++.|++.. .+...+..+|.|+.|++..|....  ..+...+..|+.|++++|.+-.++  .....++.|..
T Consensus       196 l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~  275 (505)
T KOG3207|consen  196 LSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQ  275 (505)
T ss_pred             hhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhh
Confidence            4455555555555431 111122345555555555542111  112222345555555555555444  22444455555


Q ss_pred             EeccCCcCcc-cCCcc-----ccCCCccCEEEecCCCCCcc-cCccccCCCCCcEEeccCCCC
Q 042890          179 LDLSDCKRLK-SLPSS-----LYRLKSLGILDLHGCSNLQR-LPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       179 L~l~~n~~~~-~~~~~-----l~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      |.++.+.+.+ ..|+.     ...+++|++|++..|++.+. ....+..+++|+.|.+..|++
T Consensus       276 Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~l  338 (505)
T KOG3207|consen  276 LNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYL  338 (505)
T ss_pred             hhccccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhcccccc
Confidence            5555555443 22221     22345566666665554221 111223345555555555554

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

Probab=98.92  E-value=2.8e-11  Score=102.21  Aligned_cols=164  Identities=27%  Similarity=0.272  Sum_probs=135.4

Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEecc
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLR  159 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~  159 (254)
                      ...+++.++  ..++|.  .+..+..|+.+.++.|. +..+|..+..+..|+++|++.|. ...+|... ...|+.+.++
T Consensus        78 ~~aDlsrNR--~~elp~--~~~~f~~Le~liLy~n~-~r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~lpLkvli~s  151 (722)
T KOG0532|consen   78 VFADLSRNR--FSELPE--EACAFVSLESLILYHNC-IRTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDLPLKVLIVS  151 (722)
T ss_pred             hhhhccccc--cccCch--HHHHHHHHHHHHHHhcc-ceecchhhhhhhHHHHhhhccch-hhcCChhhhcCcceeEEEe
Confidence            344566444  567777  78888899999999887 56788889999999999999966 45556544 5789999999


Q ss_pred             cccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh
Q 042890          160 GIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE  239 (254)
Q Consensus       160 ~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~  239 (254)
                      +|+++.+|..++....|..||.+.|.+. .+|..++++.+|+.+.+..|+.. .+|..++.+ .|..||++.|++..+|-
T Consensus       152 NNkl~~lp~~ig~~~tl~~ld~s~nei~-slpsql~~l~slr~l~vrRn~l~-~lp~El~~L-pLi~lDfScNkis~iPv  228 (722)
T KOG0532|consen  152 NNKLTSLPEEIGLLPTLAHLDVSKNEIQ-SLPSQLGYLTSLRDLNVRRNHLE-DLPEELCSL-PLIRLDFSCNKISYLPV  228 (722)
T ss_pred             cCccccCCcccccchhHHHhhhhhhhhh-hchHHhhhHHHHHHHHHhhhhhh-hCCHHHhCC-ceeeeecccCceeecch
Confidence            9999999999998889999999999854 45667899999999999987664 466667744 58999999999999999


Q ss_pred             hhhhhcccCccccc
Q 042890          240 SIIQLFVSGYLLLS  253 (254)
Q Consensus       240 ~~~~~~~L~~L~ls  253 (254)
                      .+.+|+.|++|.|.
T Consensus       229 ~fr~m~~Lq~l~Le  242 (722)
T KOG0532|consen  229 DFRKMRHLQVLQLE  242 (722)
T ss_pred             hhhhhhhheeeeec
Confidence            99999999999875

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

Probab=98.88  E-value=5.1e-10  Score=88.08  Aligned_cols=125  Identities=23%  Similarity=0.190  Sum_probs=90.0

Q ss_pred             CCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCE
Q 042890          124 GIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGI  202 (254)
Q Consensus       124 ~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~  202 (254)
                      ++..+..|+++|+++|.+...-.... .+.++.|+++.|++..+.. +..+++|+.||+++|.+..- ...-.++.+.++
T Consensus       279 ~~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N~Ls~~-~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  279 SADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN-LAELPQLQLLDLSGNLLAEC-VGWHLKLGNIKT  356 (490)
T ss_pred             ecchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh-hhhcccceEeecccchhHhh-hhhHhhhcCEee
Confidence            34567788999999976554332222 2788999999999887765 77888999999999885442 222335678889


Q ss_pred             EEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC--hhhhhhcccCcccc
Q 042890          203 LDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP--ESIIQLFVSGYLLL  252 (254)
Q Consensus       203 L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~--~~~~~~~~L~~L~l  252 (254)
                      |.+.+|.+.+ + +.+..+-+|..|++.+|+|..+.  ..++++|-|+.+.+
T Consensus       357 L~La~N~iE~-L-SGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L  406 (490)
T KOG1259|consen  357 LKLAQNKIET-L-SGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRL  406 (490)
T ss_pred             eehhhhhHhh-h-hhhHhhhhheeccccccchhhHHHhcccccccHHHHHhh
Confidence            9998875533 2 33567889999999999987553  45788888877655

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

Probab=98.88  E-value=1.4e-10  Score=92.50  Aligned_cols=196  Identities=16%  Similarity=0.146  Sum_probs=91.7

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhh----cc--hhhhccccccee
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQ----LW--DRVKRYSKLNQI   83 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~----l~--~~~~~~~~L~~l   83 (254)
                      .+++..+++|++|++|.|.|+-..+  ..+.+-+.. ..|+.|+|.+|.+.......+..    +.  .-...-+.|+++
T Consensus        85 ~~aL~~~~~L~~ldLSDNA~G~~g~--~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~  162 (382)
T KOG1909|consen   85 SKALLGCPKLQKLDLSDNAFGPKGI--RGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVF  162 (382)
T ss_pred             HHHHhcCCceeEeeccccccCccch--HHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEE
Confidence            4566677788888888877733321  111122233 66777777777665443321111    00  112233455555


Q ss_pred             hhhccCCc---eeecCCCCccCCcccccEEeccCCcCCC----ccCCCCCCCCcccEEeccCCCCCcc----ccc--ccc
Q 042890           84 IHAACHKL---IAKIPNPTLMPRMKKLVILNLRGSKSLK----SLPSGIFNLEFLTKLDLSGCSKLKR----LPE--ISS  150 (254)
Q Consensus        84 ~l~~~~~~---~~~~~~~~~~~~~~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~----~p~--~~~  150 (254)
                      ....++-.   ...+..  .|...+.|+.+.+.+|.+..    .+...+..+++|+.||+.+|.+...    +..  ..+
T Consensus       163 i~~rNrlen~ga~~~A~--~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~  240 (382)
T KOG1909|consen  163 ICGRNRLENGGATALAE--AFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSW  240 (382)
T ss_pred             EeeccccccccHHHHHH--HHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhccc
Confidence            55533211   001111  33444555555555554321    1122344555666666655543321    110  011


Q ss_pred             CCcCeEeccccccc-----ccchhh-hhccccCEEeccCCcCccc----CCccccCCCccCEEEecCCCC
Q 042890          151 GNISWLFLRGIAIE-----ELPSSI-ERQLRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       151 ~~L~~L~l~~~~~~-----~l~~~~-~~~~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      +.|+.+++++|.+.     .+-..+ ...++|+.|.+.+|.+...    +...+...+.|..|++++|..
T Consensus       241 ~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  241 PHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             chheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            34555555555544     111121 2345667777776665542    111233456666777776655

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

Probab=98.82  E-value=5.5e-09  Score=64.03  Aligned_cols=59  Identities=29%  Similarity=0.327  Sum_probs=32.5

Q ss_pred             ccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCC
Q 042890          175 RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTN  233 (254)
Q Consensus       175 ~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~  233 (254)
                      +|++|++++|++....+..|.++++|+.+++++|.+.+..+.+|.++++|+.|++++|.
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45555555555444333445555566666666555554445555556666666665554

...

>PLN03150 hypothetical protein; Provisional

Probab=98.80  E-value=1.6e-08  Score=90.38  Aligned_cols=104  Identities=19%  Similarity=0.186  Sum_probs=62.6

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEeccccccc-ccchhhhhccccCEEecc
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE-ELPSSIERQLRLSWLDLS  182 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~  182 (254)
                      .++.|++.+|.+.+.+|..+..+++|+.|++++|.+.+.+|...  +.+|+.|++++|.++ .+|..+..+++|+.|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            36667777777666667667777777777777766655555432  355666666666655 455556666666666666


Q ss_pred             CCcCcccCCccccCC-CccCEEEecCCC
Q 042890          183 DCKRLKSLPSSLYRL-KSLGILDLHGCS  209 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l-~~L~~L~l~~~~  209 (254)
                      +|.+.+.+|..+... .++..+++.+|.
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCc
Confidence            666655555554432 344555555543

>PLN03150 hypothetical protein; Provisional

Probab=98.78  E-value=1.8e-08  Score=90.13  Aligned_cols=91  Identities=31%  Similarity=0.372  Sum_probs=68.9

Q ss_pred             cCeEeccccccc-ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccC
Q 042890          153 ISWLFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       153 L~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      ++.|++.+|.+. .+|..+..+++|+.|++++|.+.+.+|..++.+++|+.|++++|++.+.+|..++++++|+.|++++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            556777777776 5677777778888888888877777777777788888888888777777777777788888888888


Q ss_pred             CCCC-CCChhhhh
Q 042890          232 TNIE-RIPESIIQ  243 (254)
Q Consensus       232 n~l~-~l~~~~~~  243 (254)
                      |.+. .+|..+..
T Consensus       500 N~l~g~iP~~l~~  512 (623)
T PLN03150        500 NSLSGRVPAALGG  512 (623)
T ss_pred             CcccccCChHHhh
Confidence            8776 66766543

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

Probab=98.72  E-value=1.6e-08  Score=61.97  Aligned_cols=60  Identities=28%  Similarity=0.302  Sum_probs=50.3

Q ss_pred             CCcCeEecccccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          151 GNISWLFLRGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      ++|++|++.+|.++.+|. .+..+++|++|++++|++....+..|.++++|+.+++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            357788888888888876 478899999999999998777777889999999999998853

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.54  E-value=4.2e-08  Score=90.14  Aligned_cols=87  Identities=23%  Similarity=0.343  Sum_probs=53.6

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCC
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHK   90 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~   90 (254)
                      ..|..+|.|++|++++|.-      -..+|+.+.. -+||+|+++++.+..+|..        ++++..|.+|++.....
T Consensus       565 ~ff~~m~~LrVLDLs~~~~------l~~LP~~I~~Li~LryL~L~~t~I~~LP~~--------l~~Lk~L~~Lnl~~~~~  630 (889)
T KOG4658|consen  565 EFFRSLPLLRVLDLSGNSS------LSKLPSSIGELVHLRYLDLSDTGISHLPSG--------LGNLKKLIYLNLEVTGR  630 (889)
T ss_pred             HHHhhCcceEEEECCCCCc------cCcCChHHhhhhhhhcccccCCCccccchH--------HHHHHhhheeccccccc
Confidence            3466677777777776542      2455666666 7777777777766666654        67777777777775443


Q ss_pred             ceeecCCCCccCCcccccEEeccCC
Q 042890           91 LIAKIPNPTLMPRMKKLVILNLRGS  115 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~~L~~L~l~~~  115 (254)
                      + ..++.  ....+++|++|.+...
T Consensus       631 l-~~~~~--i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  631 L-ESIPG--ILLELQSLRVLRLPRS  652 (889)
T ss_pred             c-ccccc--hhhhcccccEEEeecc
Confidence            2 22232  4444677777776654

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

Probab=98.53  E-value=1.9e-09  Score=84.74  Aligned_cols=37  Identities=32%  Similarity=0.398  Sum_probs=15.8

Q ss_pred             hccccCEEeccCCcCcc-cCCccccCCCccCEEEecCC
Q 042890          172 RQLRLSWLDLSDCKRLK-SLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~-~~~~~l~~l~~L~~L~l~~~  208 (254)
                      .++-|++|.++.|.... ...-.+...+.|.+|++.||
T Consensus       336 kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  336 KFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             hcchheeeehhhhcCCChHHeeeeccCcceEEEEeccc
Confidence            34445555555543211 00012334455555555554

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

Probab=98.48  E-value=7.1e-09  Score=80.56  Aligned_cols=217  Identities=12%  Similarity=0.043  Sum_probs=140.3

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc---chhhcchhhhcccccceehhhccC
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN---DIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~---~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      +..+..+..+++++|.|+.+.  ...++..+.. .+|++.+++.-.....-+.   ++.-+..++-.||.|+.++++++.
T Consensus        26 l~~~d~~~evdLSGNtigtEA--~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEA--MEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             HHhhcceeEEeccCCcccHHH--HHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            345888999999999995552  2456666777 9999999988655443322   445555677889999999999654


Q ss_pred             CceeecCC--CCccCCcccccEEeccCCcCCCccCC--------------CCCCCCcccEEeccCCCCCcccccc-----
Q 042890           90 KLIAKIPN--PTLMPRMKKLVILNLRGSKSLKSLPS--------------GIFNLEFLTKLDLSGCSKLKRLPEI-----  148 (254)
Q Consensus        90 ~~~~~~~~--~~~~~~~~~L~~L~l~~~~~~~~~~~--------------~~~~l~~L~~L~l~~~~~~~~~p~~-----  148 (254)
                      . ..+.|.  ...+++.+.|.+|.+++|++ +.+..              -...-|.|+.+..++|++.......     
T Consensus       104 f-g~~~~e~L~d~is~~t~l~HL~l~NnGl-Gp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l  181 (388)
T COG5238         104 F-GSEFPEELGDLISSSTDLVHLKLNNNGL-GPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALL  181 (388)
T ss_pred             c-CcccchHHHHHHhcCCCceeEEeecCCC-CccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHH
Confidence            2 122222  12556778999999999974 32211              1234577888888887644322111     


Q ss_pred             -ccCCcCeEeccccccc--cc----chhhhhccccCEEeccCCcCcccCC----ccccCCCccCEEEecCCCCCcccC--
Q 042890          149 -SSGNISWLFLRGIAIE--EL----PSSIERQLRLSWLDLSDCKRLKSLP----SSLYRLKSLGILDLHGCSNLQRLP--  215 (254)
Q Consensus       149 -~~~~L~~L~l~~~~~~--~l----~~~~~~~~~L~~L~l~~n~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~--  215 (254)
                       ....++.+.+..|.|.  .+    -.++.+..+|+.||+.+|.++-.-+    ..+..|+.|+.|.+..|-+...-.  
T Consensus       182 ~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls~~G~~~  261 (388)
T COG5238         182 ESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNEGVKS  261 (388)
T ss_pred             HhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhccccHHH
Confidence             0147788888888776  12    2235566788899998888764322    235567778888888876543211  


Q ss_pred             --cccc--CCCCCcEEeccCCCC
Q 042890          216 --ECLG--QLSSPITCNLAKTNI  234 (254)
Q Consensus       216 --~~~~--~l~~L~~L~l~~n~l  234 (254)
                        ..|.  ..|+|+.|....|.+
T Consensus       262 v~~~f~e~~~p~l~~L~~~Yne~  284 (388)
T COG5238         262 VLRRFNEKFVPNLMPLPGDYNER  284 (388)
T ss_pred             HHHHhhhhcCCCccccccchhhh
Confidence              1121  247778888877765

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.44  E-value=8.5e-08  Score=88.15  Aligned_cols=80  Identities=28%  Similarity=0.417  Sum_probs=47.5

Q ss_pred             CceeeeeeCCCC-CCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCC
Q 042890           47 AEVKYLHWHGYP-LKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~-~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~  125 (254)
                      +.|++|||++|. +..+|..        ++.+-+|++|+++++.  ...+|.  .+.+++.|.+|++..+.....+|...
T Consensus       571 ~~LrVLDLs~~~~l~~LP~~--------I~~Li~LryL~L~~t~--I~~LP~--~l~~Lk~L~~Lnl~~~~~l~~~~~i~  638 (889)
T KOG4658|consen  571 PLLRVLDLSGNSSLSKLPSS--------IGELVHLRYLDLSDTG--ISHLPS--GLGNLKKLIYLNLEVTGRLESIPGIL  638 (889)
T ss_pred             cceEEEECCCCCccCcCChH--------HhhhhhhhcccccCCC--ccccch--HHHHHHhhheeccccccccccccchh
Confidence            666777776654 4445443        6666666666666555  445665  66666667777666655444444433


Q ss_pred             CCCCcccEEeccC
Q 042890          126 FNLEFLTKLDLSG  138 (254)
Q Consensus       126 ~~l~~L~~L~l~~  138 (254)
                      ..+++|++|.+..
T Consensus       639 ~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  639 LELQSLRVLRLPR  651 (889)
T ss_pred             hhcccccEEEeec
Confidence            3466666666554

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

Probab=98.43  E-value=3e-08  Score=84.70  Aligned_cols=105  Identities=19%  Similarity=0.149  Sum_probs=57.4

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|..+++.+|.++.+...        +..+++|++++++++.  +..+.   .+..++.|+.|++.+|.+ ..+.. +.
T Consensus        95 ~~l~~l~l~~n~i~~i~~~--------l~~~~~L~~L~ls~N~--I~~i~---~l~~l~~L~~L~l~~N~i-~~~~~-~~  159 (414)
T KOG0531|consen   95 KSLEALDLYDNKIEKIENL--------LSSLVNLQVLDLSFNK--ITKLE---GLSTLTLLKELNLSGNLI-SDISG-LE  159 (414)
T ss_pred             cceeeeeccccchhhcccc--------hhhhhcchheeccccc--ccccc---chhhccchhhheeccCcc-hhccC-Cc
Confidence            6666666666666555432        4456666666666444  34433   455555666666666653 22222 44


Q ss_pred             CCCcccEEeccCCCCCcccc--ccccCCcCeEeccccccccc
Q 042890          127 NLEFLTKLDLSGCSKLKRLP--EISSGNISWLFLRGIAIEEL  166 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p--~~~~~~L~~L~l~~~~~~~l  166 (254)
                      .++.|+.+++++|.+...-+  .....+++.+++.+|.+..+
T Consensus       160 ~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i  201 (414)
T KOG0531|consen  160 SLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREI  201 (414)
T ss_pred             cchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhcc
Confidence            46666666666655444333  12235566666666655533

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

Probab=98.42  E-value=2.3e-08  Score=85.36  Aligned_cols=107  Identities=23%  Similarity=0.230  Sum_probs=65.0

Q ss_pred             hhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCc
Q 042890           74 VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNI  153 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L  153 (254)
                      +..+.+|+.+++.++.  +..+..  .+..+++|++|++++|.+. .+.. +..++.|+.|++.+|.+...-....+..+
T Consensus        91 l~~~~~l~~l~l~~n~--i~~i~~--~l~~~~~L~~L~ls~N~I~-~i~~-l~~l~~L~~L~l~~N~i~~~~~~~~l~~L  164 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNK--IEKIEN--LLSSLVNLQVLDLSFNKIT-KLEG-LSTLTLLKELNLSGNLISDISGLESLKSL  164 (414)
T ss_pred             cccccceeeeeccccc--hhhccc--chhhhhcchheeccccccc-cccc-hhhccchhhheeccCcchhccCCccchhh
Confidence            4566677777776444  344432  2566777777777777643 3332 55666677777777654443222224677


Q ss_pred             CeEecccccccccchh-hhhccccCEEeccCCcC
Q 042890          154 SWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKR  186 (254)
Q Consensus       154 ~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~  186 (254)
                      +.+++++|.+..+... ...+.+++.+.+++|.+
T Consensus       165 ~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  165 KLLDLSYNRIVDIENDELSELISLEELDLGGNSI  198 (414)
T ss_pred             hcccCCcchhhhhhhhhhhhccchHHHhccCCch
Confidence            7777777777766553 35566677777777664

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

Probab=98.33  E-value=3.9e-08  Score=85.95  Aligned_cols=148  Identities=23%  Similarity=0.141  Sum_probs=94.6

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCC-CcccEEeccCC---------CCCcccccc-ccCCcCeEecccccccccch
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNL-EFLTKLDLSGC---------SKLKRLPEI-SSGNISWLFLRGIAIEELPS  168 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l-~~L~~L~l~~~---------~~~~~~p~~-~~~~L~~L~l~~~~~~~l~~  168 (254)
                      .+..+++|++|.+++|.+.. . ..+..+ .+|+.|...+.         ...+++... ....|...+.+.|.+..+..
T Consensus       104 ~ifpF~sLr~LElrg~~L~~-~-~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~L~~mD~  181 (1096)
T KOG1859|consen  104 SIFPFRSLRVLELRGCDLST-A-KGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNRLVLMDE  181 (1096)
T ss_pred             eeccccceeeEEecCcchhh-h-hhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhhHHhHHH
Confidence            56678899999999998533 1 112121 34554433221         011111111 12456666777888888888


Q ss_pred             hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCcc-ccCCCCCcEEeccCCCCCCCChhhhhhccc
Q 042890          169 SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC-LGQLSSPITCNLAKTNIERIPESIIQLFVS  247 (254)
Q Consensus       169 ~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L  247 (254)
                      .++-++.++.|++++|++.+.-  .+..++.|++||++.|.+. .+|.. ...+. |+.|.+.+|.++.+- ++.++++|
T Consensus       182 SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~L~-~vp~l~~~gc~-L~~L~lrnN~l~tL~-gie~LksL  256 (1096)
T KOG1859|consen  182 SLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNCLR-HVPQLSMVGCK-LQLLNLRNNALTTLR-GIENLKSL  256 (1096)
T ss_pred             HHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccchhc-cccccchhhhh-heeeeecccHHHhhh-hHHhhhhh
Confidence            8888888999999998876642  5777888999999887654 33331 12233 888888888877664 37777888


Q ss_pred             CcccccC
Q 042890          248 GYLLLSY  254 (254)
Q Consensus       248 ~~L~ls~  254 (254)
                      +-||++|
T Consensus       257 ~~LDlsy  263 (1096)
T KOG1859|consen  257 YGLDLSY  263 (1096)
T ss_pred             hccchhH
Confidence            7777764

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

Probab=98.11  E-value=1.2e-08  Score=88.94  Aligned_cols=16  Identities=25%  Similarity=0.528  Sum_probs=12.0

Q ss_pred             CCceeeeeeCCCCCCC
Q 042890           46 FAEVKYLHWHGYPLKS   61 (254)
Q Consensus        46 ~~~L~~L~l~~~~~~~   61 (254)
                      +..|++|.+.+|.+..
T Consensus       108 F~sLr~LElrg~~L~~  123 (1096)
T KOG1859|consen  108 FRSLRVLELRGCDLST  123 (1096)
T ss_pred             ccceeeEEecCcchhh
Confidence            3788888888887654

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

Probab=98.08  E-value=2.4e-08  Score=78.60  Aligned_cols=179  Identities=21%  Similarity=0.213  Sum_probs=111.2

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCc--cCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKS--LPSG  124 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~--~~~~  124 (254)
                      ..|+++||++..++   ..   .+...++.|.+|+.|.+.+.+- .+.+..  .++.-..|+.++++.|.-...  +.-.
T Consensus       185 sRlq~lDLS~s~it---~s---tl~~iLs~C~kLk~lSlEg~~L-dD~I~~--~iAkN~~L~~lnlsm~sG~t~n~~~ll  255 (419)
T KOG2120|consen  185 SRLQHLDLSNSVIT---VS---TLHGILSQCSKLKNLSLEGLRL-DDPIVN--TIAKNSNLVRLNLSMCSGFTENALQLL  255 (419)
T ss_pred             hhhHHhhcchhhee---HH---HHHHHHHHHHhhhhcccccccc-CcHHHH--HHhccccceeeccccccccchhHHHHH
Confidence            55888888876443   21   2223367788888888886553 233333  566677888888887752211  1122


Q ss_pred             CCCCCcccEEeccCCCCCcccccc----ccCCcCeEeccccccc----ccchhhhhccccCEEeccCCcCcc-cCCcccc
Q 042890          125 IFNLEFLTKLDLSGCSKLKRLPEI----SSGNISWLFLRGIAIE----ELPSSIERQLRLSWLDLSDCKRLK-SLPSSLY  195 (254)
Q Consensus       125 ~~~l~~L~~L~l~~~~~~~~~p~~----~~~~L~~L~l~~~~~~----~l~~~~~~~~~L~~L~l~~n~~~~-~~~~~l~  195 (254)
                      +..++.|..|+++.|.........    ....+..|.++|+.-.    .+..-....+++.+||+++|.-.. ..-..+.
T Consensus       256 ~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~  335 (419)
T KOG2120|consen  256 LSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF  335 (419)
T ss_pred             HHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHH
Confidence            456778888888887654432110    1256778888876322    333445677889999998875333 2223456


Q ss_pred             CCCccCEEEecCCCCCc-ccCccccCCCCCcEEeccCCCC
Q 042890          196 RLKSLGILDLHGCSNLQ-RLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       196 ~l~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      +++-|+++.++.|.... ...-.+...|+|..|++.++--
T Consensus       336 kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  336 KFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             hcchheeeehhhhcCCChHHeeeeccCcceEEEEeccccC
Confidence            77888889888875432 1122456778888998887653

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.07  E-value=2.4e-05  Score=65.60  Aligned_cols=136  Identities=26%  Similarity=0.422  Sum_probs=87.8

Q ss_pred             hhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCc
Q 042890           74 VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNI  153 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L  153 (254)
                      +..+.+++.|++++|.  +..+|.   +  -.+|+.|.+++|.....+|..+  .++|+.|++++|.....+|    ..|
T Consensus        48 ~~~~~~l~~L~Is~c~--L~sLP~---L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP----~sL  114 (426)
T PRK15386         48 IEEARASGRLYIKDCD--IESLPV---L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP----ESV  114 (426)
T ss_pred             HHHhcCCCEEEeCCCC--CcccCC---C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc----ccc
Confidence            4567889999999874  455542   1  2369999999887666666544  3589999999986555555    567


Q ss_pred             CeEecccccc---cccchhhhhccccCEEeccCCcCc--ccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEe
Q 042890          154 SWLFLRGIAI---EELPSSIERQLRLSWLDLSDCKRL--KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCN  228 (254)
Q Consensus       154 ~~L~l~~~~~---~~l~~~~~~~~~L~~L~l~~n~~~--~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~  228 (254)
                      +.|.+..+..   ..+|.      +|+.|.+.++...  ..++..  -.++|+.|++++|... ..|..+  ..+|+.|.
T Consensus       115 e~L~L~~n~~~~L~~LPs------sLk~L~I~~~n~~~~~~lp~~--LPsSLk~L~Is~c~~i-~LP~~L--P~SLk~L~  183 (426)
T PRK15386        115 RSLEIKGSATDSIKNVPN------GLTSLSINSYNPENQARIDNL--ISPSLKTLSLTGCSNI-ILPEKL--PESLQSIT  183 (426)
T ss_pred             ceEEeCCCCCcccccCcc------hHhheeccccccccccccccc--cCCcccEEEecCCCcc-cCcccc--cccCcEEE
Confidence            8888876653   34554      4566766543211  111111  1257999999988754 244433  25889999


Q ss_pred             ccCCC
Q 042890          229 LAKTN  233 (254)
Q Consensus       229 l~~n~  233 (254)
                      +..+.
T Consensus       184 ls~n~  188 (426)
T PRK15386        184 LHIEQ  188 (426)
T ss_pred             ecccc
Confidence            87763

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.90  E-value=0.0001  Score=61.90  Aligned_cols=133  Identities=21%  Similarity=0.332  Sum_probs=86.3

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+++.|++++|.++.+|..           -.+|++|.+++|..+ ..+|.  .+  .+.|+.|++.+|..+..+|.   
T Consensus        52 ~~l~~L~Is~c~L~sLP~L-----------P~sLtsL~Lsnc~nL-tsLP~--~L--P~nLe~L~Ls~Cs~L~sLP~---  112 (426)
T PRK15386         52 RASGRLYIKDCDIESLPVL-----------PNELTEITIENCNNL-TTLPG--SI--PEGLEKLTVCHCPEISGLPE---  112 (426)
T ss_pred             cCCCEEEeCCCCCcccCCC-----------CCCCcEEEccCCCCc-ccCCc--hh--hhhhhheEccCccccccccc---
Confidence            7899999999998888732           246999999988774 55554  33  35899999999954555554   


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEeccccccc---ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIE---ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~---~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                         .|+.|++.++.. ..++..+ .+|+.|.+.++...   .+|.  .-.++|++|++++|.... .|..+  ..+|+.|
T Consensus       113 ---sLe~L~L~~n~~-~~L~~LP-ssLk~L~I~~~n~~~~~~lp~--~LPsSLk~L~Is~c~~i~-LP~~L--P~SLk~L  182 (426)
T PRK15386        113 ---SVRSLEIKGSAT-DSIKNVP-NGLTSLSINSYNPENQARIDN--LISPSLKTLSLTGCSNII-LPEKL--PESLQSI  182 (426)
T ss_pred             ---ccceEEeCCCCC-cccccCc-chHhheecccccccccccccc--ccCCcccEEEecCCCccc-Ccccc--cccCcEE
Confidence               466677765432 2233222 67888887543211   2221  112589999999887442 33222  2578999


Q ss_pred             EecCC
Q 042890          204 DLHGC  208 (254)
Q Consensus       204 ~l~~~  208 (254)
                      +++.+
T Consensus       183 ~ls~n  187 (426)
T PRK15386        183 TLHIE  187 (426)
T ss_pred             Eeccc
Confidence            98765

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

Probab=97.89  E-value=1.7e-05  Score=44.76  Aligned_cols=36  Identities=28%  Similarity=0.280  Sum_probs=20.0

Q ss_pred             CcCeEecccccccccchhhhhccccCEEeccCCcCc
Q 042890          152 NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRL  187 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~  187 (254)
                      +|++|++++|.++.+|+.++.+++|+.|++++|.+.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCS
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCC
Confidence            455555666666666555566666666666666543

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.84  E-value=6.9e-06  Score=65.07  Aligned_cols=178  Identities=15%  Similarity=0.087  Sum_probs=93.7

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc--eeecCCCCccCCcccccEEeccCCcCC-CccCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL--IAKIPNPTLMPRMKKLVILNLRGSKSL-KSLPS  123 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~--~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~~  123 (254)
                      +.++.+||.+|.+....+  +.   .-+..+|.|++|+++.+.-.  ++.+|.     -..+|++|-+.+.... .....
T Consensus        71 ~~v~elDL~~N~iSdWse--I~---~ile~lP~l~~LNls~N~L~s~I~~lp~-----p~~nl~~lVLNgT~L~w~~~~s  140 (418)
T KOG2982|consen   71 TDVKELDLTGNLISDWSE--IG---AILEQLPALTTLNLSCNSLSSDIKSLPL-----PLKNLRVLVLNGTGLSWTQSTS  140 (418)
T ss_pred             hhhhhhhcccchhccHHH--HH---HHHhcCccceEeeccCCcCCCccccCcc-----cccceEEEEEcCCCCChhhhhh
Confidence            667778888875543321  11   22567788888888754321  222221     2456777777765421 12233


Q ss_pred             CCCCCCcccEEeccCCCCCc-----cccccccCCcCeEeccccccc---ccchhhhhccccCEEeccCCcCccc-CCccc
Q 042890          124 GIFNLEFLTKLDLSGCSKLK-----RLPEISSGNISWLFLRGIAIE---ELPSSIERQLRLSWLDLSDCKRLKS-LPSSL  194 (254)
Q Consensus       124 ~~~~l~~L~~L~l~~~~~~~-----~~p~~~~~~L~~L~l~~~~~~---~l~~~~~~~~~L~~L~l~~n~~~~~-~~~~l  194 (254)
                      .+..+|++++|.++.|+...     .....+.+.+..+...+|...   .+..-.+.++++..+.++.|.+.+. .-...
T Consensus       141 ~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~s  220 (418)
T KOG2982|consen  141 SLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGS  220 (418)
T ss_pred             hhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccC
Confidence            45567777788777763221     111122244555555555433   1222233456677777776654331 11223


Q ss_pred             cCCCccCEEEecCCCCCcc-cCccccCCCCCcEEeccCCCC
Q 042890          195 YRLKSLGILDLHGCSNLQR-LPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       195 ~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      ..++.+..|++..+++-+. ..+++.++++|..|.+.++++
T Consensus       221 e~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl  261 (418)
T KOG2982|consen  221 EPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPL  261 (418)
T ss_pred             CCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcc
Confidence            4455555666666554332 234456677777777777765

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

Probab=97.83  E-value=3e-07  Score=75.53  Aligned_cols=89  Identities=20%  Similarity=0.345  Sum_probs=45.4

Q ss_pred             CCCCcceEEEeeccccCCCccCcccccCCCC-C-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           15 TKMPKLRFLKFYSSLFNGENKCKMSYLQDPG-F-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        15 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~-~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      ..+++++.|.+.++.-..+     .....+. + ++|+++++..|.  .+++..++.+   -..|++|+++++++|+...
T Consensus       161 ~~CpnIehL~l~gc~~iTd-----~s~~sla~~C~~l~~l~L~~c~--~iT~~~Lk~l---a~gC~kL~~lNlSwc~qi~  230 (483)
T KOG4341|consen  161 SNCPNIEHLALYGCKKITD-----SSLLSLARYCRKLRHLNLHSCS--SITDVSLKYL---AEGCRKLKYLNLSWCPQIS  230 (483)
T ss_pred             hhCCchhhhhhhcceeccH-----HHHHHHHHhcchhhhhhhcccc--hhHHHHHHHH---HHhhhhHHHhhhccCchhh
Confidence            4577777777777653111     1111222 2 677777777765  2333333333   3456677777777665432


Q ss_pred             ee-cCCCCccCCcccccEEeccCC
Q 042890           93 AK-IPNPTLMPRMKKLVILNLRGS  115 (254)
Q Consensus        93 ~~-~~~~~~~~~~~~L~~L~l~~~  115 (254)
                      +. +..  .+.+++.++.+...+|
T Consensus       231 ~~gv~~--~~rG~~~l~~~~~kGC  252 (483)
T KOG4341|consen  231 GNGVQA--LQRGCKELEKLSLKGC  252 (483)
T ss_pred             cCcchH--Hhccchhhhhhhhccc
Confidence            21 111  3344555555544444

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.81  E-value=1.9e-06  Score=68.11  Aligned_cols=201  Identities=13%  Similarity=0.035  Sum_probs=112.7

Q ss_pred             CCCcceEEEeeccccCCCccCccc-ccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCcee
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMS-YLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~-~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      .+++++.|++.+|.|.     ... +..-+.. +.|++|+++.|++..--+    .+|   --..+|++|.+.+..-.+.
T Consensus        69 ~~~~v~elDL~~N~iS-----dWseI~~ile~lP~l~~LNls~N~L~s~I~----~lp---~p~~nl~~lVLNgT~L~w~  136 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLIS-----DWSEIGAILEQLPALTTLNLSCNSLSSDIK----SLP---LPLKNLRVLVLNGTGLSWT  136 (418)
T ss_pred             Hhhhhhhhhcccchhc-----cHHHHHHHHhcCccceEeeccCCcCCCccc----cCc---ccccceEEEEEcCCCCChh
Confidence            3566777777777761     111 1222344 888888888886543211    111   1345788887777665555


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCcc--CCCCCCC-CcccEEeccCCCCCccccc----cccCCcCeEeccccccccc
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKSL--PSGIFNL-EFLTKLDLSGCSKLKRLPE----ISSGNISWLFLRGIAIEEL  166 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~--~~~~~~l-~~L~~L~l~~~~~~~~~p~----~~~~~L~~L~l~~~~~~~l  166 (254)
                      ....  .+..+|.++.|.++.|......  ....... +.+..+....|....+...    -.++++..+.+..|.+...
T Consensus       137 ~~~s--~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~  214 (418)
T KOG2982|consen  137 QSTS--SLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTE  214 (418)
T ss_pred             hhhh--hhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccch
Confidence            5554  6677888888888887421110  1111111 1333444444322211110    0125777777777766633


Q ss_pred             c--hhhhhccccCEEeccCCcCcc-cCCccccCCCccCEEEecCCCCCcccCc------cccCCCCCcEEecc
Q 042890          167 P--SSIERQLRLSWLDLSDCKRLK-SLPSSLYRLKSLGILDLHGCSNLQRLPE------CLGQLSSPITCNLA  230 (254)
Q Consensus       167 ~--~~~~~~~~L~~L~l~~n~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~------~~~~l~~L~~L~l~  230 (254)
                      .  +....++.+.-|.++.+.+.+ .-.+.+.++++|.-+.++++.+.+.+..      .++++++++.|+=+
T Consensus       215 s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  215 SSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             hhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            2  234455566677777776543 2234677888899999988877654321      24567888887644

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

Probab=97.79  E-value=4.4e-06  Score=75.18  Aligned_cols=150  Identities=14%  Similarity=0.080  Sum_probs=83.5

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|++|++++..  .+.....+++   -.-+|.|+.|.+.+.....+++..  ....+++|..||++++++ ..+ ..+.
T Consensus       122 ~nL~~LdI~G~~--~~s~~W~~ki---g~~LPsL~sL~i~~~~~~~~dF~~--lc~sFpNL~sLDIS~TnI-~nl-~GIS  192 (699)
T KOG3665|consen  122 QNLQHLDISGSE--LFSNGWPKKI---GTMLPSLRSLVISGRQFDNDDFSQ--LCASFPNLRSLDISGTNI-SNL-SGIS  192 (699)
T ss_pred             HhhhhcCccccc--hhhccHHHHH---hhhCcccceEEecCceecchhHHH--HhhccCccceeecCCCCc-cCc-HHHh
Confidence            778888887743  3333333333   235677777777754433333333  555677788888887763 333 3366


Q ss_pred             CCCcccEEeccCCCCCccc---cccccCCcCeEecccccccccchh-------hhhccccCEEeccCCcCcccCCcc-cc
Q 042890          127 NLEFLTKLDLSGCSKLKRL---PEISSGNISWLFLRGIAIEELPSS-------IERQLRLSWLDLSDCKRLKSLPSS-LY  195 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~---p~~~~~~L~~L~l~~~~~~~l~~~-------~~~~~~L~~L~l~~n~~~~~~~~~-l~  195 (254)
                      .+++|+.|.+.+-.+....   .-+.+++|+.|+++...-...+..       -..+|+|+.||.++..+...+.+. +.
T Consensus       193 ~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~  272 (699)
T KOG3665|consen  193 RLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLN  272 (699)
T ss_pred             ccccHHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHH
Confidence            6777777766653333211   112246777777777654433321       223578888888877765543322 23


Q ss_pred             CCCccCEEEe
Q 042890          196 RLKSLGILDL  205 (254)
Q Consensus       196 ~l~~L~~L~l  205 (254)
                      ..++|+.+..
T Consensus       273 sH~~L~~i~~  282 (699)
T KOG3665|consen  273 SHPNLQQIAA  282 (699)
T ss_pred             hCccHhhhhh
Confidence            3455555543

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

Probab=97.76  E-value=7.1e-06  Score=73.91  Aligned_cols=130  Identities=26%  Similarity=0.271  Sum_probs=72.7

Q ss_pred             ccccEEeccCCcCC-CccCCCCC-CCCcccEEeccCCCCCcc-cccc--ccCCcCeEecccccccccchhhhhccccCEE
Q 042890          105 KKLVILNLRGSKSL-KSLPSGIF-NLEFLTKLDLSGCSKLKR-LPEI--SSGNISWLFLRGIAIEELPSSIERQLRLSWL  179 (254)
Q Consensus       105 ~~L~~L~l~~~~~~-~~~~~~~~-~l~~L~~L~l~~~~~~~~-~p~~--~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L  179 (254)
                      .+|++|++++.... ...|..++ -+|.|+.|.+++-.+... +...  .+++|..|++++++++.+ .+++++.+|+.|
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L  200 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVL  200 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHH
Confidence            45667777664321 11122222 356777776666222111 1110  136777777777777766 567777778777


Q ss_pred             eccCCcCcc-cCCccccCCCccCEEEecCCCCCcc------cCccccCCCCCcEEeccCCCCC
Q 042890          180 DLSDCKRLK-SLPSSLYRLKSLGILDLHGCSNLQR------LPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       180 ~l~~n~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~------~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      .+.+-.+.. ..-..+..+++|+.||++.......      ..+.-..+|+|+.||.+++.+.
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchh
Confidence            777655443 1122466778888888876432211      1122234788888888887764

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

Probab=97.76  E-value=4.2e-05  Score=43.13  Aligned_cols=38  Identities=34%  Similarity=0.363  Sum_probs=18.3

Q ss_pred             ccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCC
Q 042890          199 SLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI  237 (254)
Q Consensus       199 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l  237 (254)
                      +|++|++++|++.+ +|..+.++++|+.|++++|.++.+
T Consensus         2 ~L~~L~l~~N~i~~-l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    2 NLEELDLSNNQITD-LPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             T-SEEEETSSS-SS-HGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             cceEEEccCCCCcc-cCchHhCCCCCCEEEecCCCCCCC
Confidence            45555555554432 333345555555555555555544

...

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

Probab=97.72  E-value=9.9e-05  Score=55.38  Aligned_cols=100  Identities=23%  Similarity=0.276  Sum_probs=50.1

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch--hhhhccccCEEec
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS--SIERQLRLSWLDL  181 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~--~~~~~~~L~~L~l  181 (254)
                      +...+|+++|.+ ..++. +..++.|.+|.+++|.+...-|...  +++++.|.+.+|++..+-.  .+..++.|++|.+
T Consensus        43 ~~d~iDLtdNdl-~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   43 QFDAIDLTDNDL-RKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             ccceecccccch-hhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            455566666652 33333 5566666666666655544444322  2456666666665553321  1334455666665


Q ss_pred             cCCcCcccC-C--ccccCCCccCEEEecC
Q 042890          182 SDCKRLKSL-P--SSLYRLKSLGILDLHG  207 (254)
Q Consensus       182 ~~n~~~~~~-~--~~l~~l~~L~~L~l~~  207 (254)
                      -+|.....- .  -.+..+++|+.||+++
T Consensus       121 l~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  121 LGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             cCCchhcccCceeEEEEecCcceEeehhh
Confidence            555543310 0  1234555666666543

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

Probab=97.62  E-value=6.9e-06  Score=57.77  Aligned_cols=86  Identities=14%  Similarity=0.150  Sum_probs=46.6

Q ss_pred             CcCeEecccccccccchhhhh-ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEecc
Q 042890          152 NISWLFLRGIAIEELPSSIER-QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLA  230 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~~~~~-~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  230 (254)
                      .|...++++|.+..+|+.+.. .+.+..+++++|++ .++|.++..++.|+.+++..|.+ ...|+.+..+.++..|+..
T Consensus        54 el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~nei-sdvPeE~Aam~aLr~lNl~~N~l-~~~p~vi~~L~~l~~Lds~  131 (177)
T KOG4579|consen   54 ELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEI-SDVPEELAAMPALRSLNLRFNPL-NAEPRVIAPLIKLDMLDSP  131 (177)
T ss_pred             eEEEEecccchhhhCCHHHhhccchhhhhhcchhhh-hhchHHHhhhHHhhhcccccCcc-ccchHHHHHHHhHHHhcCC
Confidence            444556666666666655433 23556666666653 33455566666666666665443 2334434445556666666


Q ss_pred             CCCCCCCCh
Q 042890          231 KTNIERIPE  239 (254)
Q Consensus       231 ~n~l~~l~~  239 (254)
                      +|.+..++-
T Consensus       132 ~na~~eid~  140 (177)
T KOG4579|consen  132 ENARAEIDV  140 (177)
T ss_pred             CCccccCcH
Confidence            665544443

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

Probab=97.52  E-value=0.00014  Score=54.62  Aligned_cols=124  Identities=21%  Similarity=0.196  Sum_probs=84.5

Q ss_pred             ccEEeccCCcCCCccCCCCC-CCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhhh-ccccCEEeccC
Q 042890          107 LVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIER-QLRLSWLDLSD  183 (254)
Q Consensus       107 L~~L~l~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~-~~~L~~L~l~~  183 (254)
                      =+.+++++.++. .+.. ++ -..+...+|+++|.+. .++.+. +..|.+|.+.+|.|+.+.+.+.. .++|+.|.+.+
T Consensus        21 e~e~~LR~lkip-~ien-lg~~~d~~d~iDLtdNdl~-~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~Ltn   97 (233)
T KOG1644|consen   21 ERELDLRGLKIP-VIEN-LGATLDQFDAIDLTDNDLR-KLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTN   97 (233)
T ss_pred             cccccccccccc-chhh-ccccccccceecccccchh-hcccCCCccccceEEecCCcceeeccchhhhccccceEEecC
Confidence            456666665421 1111 11 1346678899997644 333333 47899999999999988777554 57899999999


Q ss_pred             CcCcc--cCCccccCCCccCEEEecCCCCCcccC---ccccCCCCCcEEeccCCCC
Q 042890          184 CKRLK--SLPSSLYRLKSLGILDLHGCSNLQRLP---ECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       184 n~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~l~~L~~L~l~~n~l  234 (254)
                      |++..  .+ .-+..++.|++|.+-+|+....--   -.+..+|+|+.||+++-..
T Consensus        98 Nsi~~l~dl-~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt~  152 (233)
T KOG1644|consen   98 NSIQELGDL-DPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVTR  152 (233)
T ss_pred             cchhhhhhc-chhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhhhH
Confidence            98765  22 226678899999999887764321   2346789999999887654

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

Probab=97.14  E-value=2.4e-05  Score=55.14  Aligned_cols=107  Identities=21%  Similarity=0.176  Sum_probs=67.6

Q ss_pred             ccccEEeccCCcCC--CccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccchhhhhccccCEE
Q 042890          105 KKLVILNLRGSKSL--KSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPSSIERQLRLSWL  179 (254)
Q Consensus       105 ~~L~~L~l~~~~~~--~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L  179 (254)
                      +.+..++++.|++.  ...+..+.+...|+.+++++|. ...+|+..   ++.++.+.+.+|.+..+|..+..++.|+.|
T Consensus        27 kE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~-fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~l  105 (177)
T KOG4579|consen   27 KELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNG-FKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSL  105 (177)
T ss_pred             HHhhhcccccchhhHHHHHHHHHhCCceEEEEecccch-hhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhc
Confidence            34555666666532  1222234445566667777754 33344322   246677788888888888888888889999


Q ss_pred             eccCCcCcccCCccccCCCccCEEEecCCCCCcc
Q 042890          180 DLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQR  213 (254)
Q Consensus       180 ~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  213 (254)
                      +++.|.+.. .|..+..+.++-.|+..+|.....
T Consensus       106 Nl~~N~l~~-~p~vi~~L~~l~~Lds~~na~~ei  138 (177)
T KOG4579|consen  106 NLRFNPLNA-EPRVIAPLIKLDMLDSPENARAEI  138 (177)
T ss_pred             ccccCcccc-chHHHHHHHhHHHhcCCCCccccC
Confidence            988887544 344455577777777777655443

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

Probab=97.04  E-value=5.9e-06  Score=68.14  Aligned_cols=57  Identities=16%  Similarity=0.099  Sum_probs=30.6

Q ss_pred             CCCccCEEEecCCCCCcc-----cCccccCCCCCcEEeccCCCCC--CCChhhhhhcccCcccc
Q 042890          196 RLKSLGILDLHGCSNLQR-----LPECLGQLSSPITCNLAKTNIE--RIPESIIQLFVSGYLLL  252 (254)
Q Consensus       196 ~l~~L~~L~l~~~~~~~~-----~~~~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~~L~~L~l  252 (254)
                      +++.|+.+.+++|.....     +...-+++..|+.+-+++++..  ..-+.+..+++|+.+++
T Consensus       370 ~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l  433 (483)
T KOG4341|consen  370 NCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIEL  433 (483)
T ss_pred             CCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeee
Confidence            455666666665543321     1222344566666666666642  33445666777776654

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

Probab=97.04  E-value=8e-05  Score=58.48  Aligned_cols=173  Identities=15%  Similarity=0.087  Sum_probs=104.1

Q ss_pred             CCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcc------hhhhcccccce
Q 042890           10 NPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLW------DRVKRYSKLNQ   82 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~------~~~~~~~~L~~   82 (254)
                      -.+++.+||+|+..+++.|.|+...+  ..+.+.+.. ..|.+|.+++|.+..+....|.+-.      .-...-|.|++
T Consensus        84 Ll~aLlkcp~l~~v~LSDNAfg~~~~--e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~  161 (388)
T COG5238          84 LLKALLKCPRLQKVDLSDNAFGSEFP--EELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEV  161 (388)
T ss_pred             HHHHHhcCCcceeeeccccccCcccc--hHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceE
Confidence            34578899999999999999844422  122233455 8999999999999887765333221      11234567888


Q ss_pred             ehhhccCCceeecCC---CCccCCcccccEEeccCCcCCCc-----cCCCCCCCCcccEEeccCCCCCcc--------cc
Q 042890           83 IIHAACHKLIAKIPN---PTLMPRMKKLVILNLRGSKSLKS-----LPSGIFNLEFLTKLDLSGCSKLKR--------LP  146 (254)
Q Consensus        83 l~l~~~~~~~~~~~~---~~~~~~~~~L~~L~l~~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~--------~p  146 (254)
                      +....++.  ...+.   ...+..-..|+++.+.+|.+...     +-..+..+.+|+.||+.+|.+...        ++
T Consensus       162 vicgrNRl--engs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~  239 (388)
T COG5238         162 VICGRNRL--ENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALC  239 (388)
T ss_pred             EEeccchh--ccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhc
Confidence            77664432  11111   00233335788888888875322     011234567899999998765432        22


Q ss_pred             ccccCCcCeEeccccccc--ccc---hhh--hhccccCEEeccCCcCcc
Q 042890          147 EISSGNISWLFLRGIAIE--ELP---SSI--ERQLRLSWLDLSDCKRLK  188 (254)
Q Consensus       147 ~~~~~~L~~L~l~~~~~~--~l~---~~~--~~~~~L~~L~l~~n~~~~  188 (254)
                      .|  ..|+.|.+..|-+.  ...   ..+  ...++|..|-..+|...+
T Consensus       240 ~W--~~lrEL~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~  286 (388)
T COG5238         240 EW--NLLRELRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRG  286 (388)
T ss_pred             cc--chhhhccccchhhccccHHHHHHHhhhhcCCCccccccchhhhcC
Confidence            22  34778888877655  111   111  134677777777776544

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

Probab=97.03  E-value=0.00036  Score=54.38  Aligned_cols=41  Identities=27%  Similarity=0.263  Sum_probs=19.8

Q ss_pred             ccCCcccccEEeccCC--cCCCccCCCCCCCCcccEEeccCCC
Q 042890          100 LMPRMKKLVILNLRGS--KSLKSLPSGIFNLEFLTKLDLSGCS  140 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~--~~~~~~~~~~~~l~~L~~L~l~~~~  140 (254)
                      .+..+++|+.|.+++|  ...+.++..+..+|+|+++++++|.
T Consensus        60 ~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nk  102 (260)
T KOG2739|consen   60 NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNK  102 (260)
T ss_pred             cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCc
Confidence            3444556666666655  2222233223344555555555544

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

Probab=96.92  E-value=0.00065  Score=52.99  Aligned_cols=84  Identities=24%  Similarity=0.173  Sum_probs=42.8

Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccc--ccc-ccchhhhhccccCEEeccCCcCcc--cCCccccCCCccC
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI--AIE-ELPSSIERQLRLSWLDLSDCKRLK--SLPSSLYRLKSLG  201 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~--~~~-~l~~~~~~~~~L~~L~l~~n~~~~--~~~~~l~~l~~L~  201 (254)
                      .+..|+.+.+.++..++..-...+++|+.|.++.|  ++. .++.-+...++|+++.+++|++..  .+ ..+..+.+|.
T Consensus        41 ~~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl-~pl~~l~nL~  119 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTL-RPLKELENLK  119 (260)
T ss_pred             cccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCcccccccc-chhhhhcchh
Confidence            45556666665544333222222346666666666  333 344444445666666666666543  11 1234455566


Q ss_pred             EEEecCCCCC
Q 042890          202 ILDLHGCSNL  211 (254)
Q Consensus       202 ~L~l~~~~~~  211 (254)
                      .|++..|...
T Consensus       120 ~Ldl~n~~~~  129 (260)
T KOG2739|consen  120 SLDLFNCSVT  129 (260)
T ss_pred             hhhcccCCcc
Confidence            6666655443

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

Probab=96.58  E-value=0.019  Score=40.31  Aligned_cols=38  Identities=11%  Similarity=0.071  Sum_probs=14.7

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccC
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSG  138 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  138 (254)
                      .|.++.+|+.+.+... +...-...+..+++++.+.+.+
T Consensus         7 ~F~~~~~l~~i~~~~~-~~~I~~~~F~~~~~l~~i~~~~   44 (129)
T PF13306_consen    7 AFYNCSNLESITFPNT-IKKIGENAFSNCTSLKSINFPN   44 (129)
T ss_dssp             TTTT-TT--EEEETST---EE-TTTTTT-TT-SEEEESS
T ss_pred             HHhCCCCCCEEEECCC-eeEeChhhcccccccccccccc
Confidence            4555556666665532 1211123344555566555544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.43  E-value=0.00011  Score=57.99  Aligned_cols=85  Identities=13%  Similarity=0.156  Sum_probs=59.0

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      +.+.+.|+.++|.+++.     +++   .. +.|++|.|+-|.++.+.+         +..|++|++|++..+.  +..+
T Consensus        18 l~~vkKLNcwg~~L~DI-----sic---~kMp~lEVLsLSvNkIssL~p---------l~rCtrLkElYLRkN~--I~sl   78 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI-----SIC---EKMPLLEVLSLSVNKISSLAP---------LQRCTRLKELYLRKNC--IESL   78 (388)
T ss_pred             HHHhhhhcccCCCccHH-----HHH---HhcccceeEEeeccccccchh---------HHHHHHHHHHHHHhcc--cccH
Confidence            45677788888887222     222   23 789999999998887754         6788999999988544  2333


Q ss_pred             CCCCccCCcccccEEeccCCcCCCc
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKS  120 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~  120 (254)
                      .+...+.++++|+.|.+..|+.-+.
T Consensus        79 dEL~YLknlpsLr~LWL~ENPCc~~  103 (388)
T KOG2123|consen   79 DELEYLKNLPSLRTLWLDENPCCGE  103 (388)
T ss_pred             HHHHHHhcCchhhhHhhccCCcccc
Confidence            2212677888999999988876544

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.10  E-value=0.00036  Score=55.10  Aligned_cols=57  Identities=21%  Similarity=0.264  Sum_probs=30.3

Q ss_pred             ccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCC
Q 042890           77 YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCS  140 (254)
Q Consensus        77 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~  140 (254)
                      +.+.+.|++-||.  ...+.   ....++.|++|.++-|.+. .+.+ +..+.+|++|++..|.
T Consensus        18 l~~vkKLNcwg~~--L~DIs---ic~kMp~lEVLsLSvNkIs-sL~p-l~rCtrLkElYLRkN~   74 (388)
T KOG2123|consen   18 LENVKKLNCWGCG--LDDIS---ICEKMPLLEVLSLSVNKIS-SLAP-LQRCTRLKELYLRKNC   74 (388)
T ss_pred             HHHhhhhcccCCC--ccHHH---HHHhcccceeEEeeccccc-cchh-HHHHHHHHHHHHHhcc
Confidence            3445555544444  22322   3335667777777776642 2222 5566666666666644

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

Probab=95.73  E-value=0.0013  Score=57.11  Aligned_cols=65  Identities=25%  Similarity=0.255  Sum_probs=28.6

Q ss_pred             hcccccceehhhccCCceeecCCCCccC-CcccccEEeccCCcC-CC-ccCCCCCCCCcccEEeccCCCC
Q 042890           75 KRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKS-LK-SLPSGIFNLEFLTKLDLSGCSK  141 (254)
Q Consensus        75 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~-~~-~~~~~~~~l~~L~~L~l~~~~~  141 (254)
                      ..+++|+.++++.+....+..-.  .++ .++.|++|.+..|.- +. .+......++.|++|+++.|..
T Consensus       240 ~~~~~L~~l~l~~~~~isd~~l~--~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  240 SICRKLKSLDLSGCGLVTDIGLS--ALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hhcCCcCccchhhhhccCchhHH--HHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCcc
Confidence            34456666666655432111111  111 255666666555541 11 1111123455566666665544

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

Probab=95.13  E-value=0.18  Score=35.16  Aligned_cols=107  Identities=14%  Similarity=0.189  Sum_probs=48.3

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      +...+|..+++|+.+.+.. .+       ..+.. .+.. .+|+.+.+.++ +..++..       ++..++.++.+.+.
T Consensus         3 i~~~~F~~~~~l~~i~~~~-~~-------~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~-------~F~~~~~l~~i~~~   66 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-TI-------KKIGENAFSNCTSLKSINFPNN-LTSIGDN-------AFSNCKSLESITFP   66 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-T---------EE-TTTTTT-TT-SEEEESST-TSCE-TT-------TTTT-TT-EEEEET
T ss_pred             ECHHHHhCCCCCCEEEECC-Ce-------eEeChhhccccccccccccccc-cccccee-------eeeccccccccccc
Confidence            5667888888888888764 23       22322 2344 57888888774 5555543       35556667777665


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEecc
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLS  137 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  137 (254)
                      ..   ...++. ..|..++.++.+++..+ +...-...+.+. +++.+.+.
T Consensus        67 ~~---~~~i~~-~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~~  111 (129)
T PF13306_consen   67 NN---LKSIGD-NAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-NLKEINIP  111 (129)
T ss_dssp             ST---T-EE-T-TTTTT-TTECEEEETTT--BEEHTTTTTT--T--EEE-T
T ss_pred             cc---cccccc-ccccccccccccccCcc-ccEEchhhhcCC-CceEEEEC
Confidence            31   122221 15555667777776543 221112334444 55555543

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

Probab=95.02  E-value=0.013  Score=27.44  Aligned_cols=20  Identities=35%  Similarity=0.509  Sum_probs=11.2

Q ss_pred             cccEEeccCCcCCCccCCCCC
Q 042890          106 KLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      +|++|++++|.+. .+|+.+.
T Consensus         1 ~L~~Ldls~n~l~-~ip~~~~   20 (22)
T PF00560_consen    1 NLEYLDLSGNNLT-SIPSSFS   20 (22)
T ss_dssp             TESEEEETSSEES-EEGTTTT
T ss_pred             CccEEECCCCcCE-eCChhhc
Confidence            3566666666544 5555443

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

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

Probab=94.99  E-value=0.013  Score=25.47  Aligned_cols=15  Identities=27%  Similarity=0.344  Sum_probs=6.5

Q ss_pred             ceeeeeeCCCCCCCC
Q 042890           48 EVKYLHWHGYPLKSL   62 (254)
Q Consensus        48 ~L~~L~l~~~~~~~l   62 (254)
                      +|++|++.+|.++.+
T Consensus         2 ~L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSL   16 (17)
T ss_dssp             T-SEEEETSS--SSE
T ss_pred             ccCEEECCCCCCCCC
Confidence            455566665555443

...

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=94.68  E-value=0.00022  Score=61.77  Aligned_cols=183  Identities=18%  Similarity=0.163  Sum_probs=84.2

Q ss_pred             ceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcc-cccceehhhccCCc---eee
Q 042890           20 LRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRY-SKLNQIIHAACHKL---IAK   94 (254)
Q Consensus        20 L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~-~~L~~l~l~~~~~~---~~~   94 (254)
                      +..|.+.+|.+.....  ......+.. ..|..|++++|.+.   +.+.+.+.+++... ..+++|.+..|.-.   ...
T Consensus        89 l~~L~L~~~~l~~~~~--~~l~~~l~t~~~L~~L~l~~n~l~---~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~  163 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGA--EELAQALKTLPTLGQLDLSGNNLG---DEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAP  163 (478)
T ss_pred             HHHhhhhhCccccchH--HHHHHHhcccccHhHhhcccCCCc---cHhHHHHHhhcccchHHHHHHHhhcccccccchHH
Confidence            5566666666532211  122223334 66677777777654   33444444444443 44555555544332   111


Q ss_pred             cCCCCccCCcccccEEeccCCcCCC----ccCCCC----CCCCcccEEeccCCCCCccc--------cccccCCcCeEec
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLK----SLPSGI----FNLEFLTKLDLSGCSKLKRL--------PEISSGNISWLFL  158 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~----~~~~~~----~~l~~L~~L~l~~~~~~~~~--------p~~~~~~L~~L~l  158 (254)
                      +..  .+....+++.++++.|.+..    .++..+    ....+++.|.+.+|......        +... ..+..+++
T Consensus       164 l~~--~L~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~-~~~~el~l  240 (478)
T KOG4308|consen  164 LAA--VLEKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGE-SLLRELDL  240 (478)
T ss_pred             HHH--HHhcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccc-hhhHHHHH
Confidence            222  33445666666666665421    111112    22445666666665433211        1111 11334555


Q ss_pred             ccccccc-----cchhhhhc-cccCEEeccCCcCccc----CCccccCCCccCEEEecCCCC
Q 042890          159 RGIAIEE-----LPSSIERQ-LRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       159 ~~~~~~~-----l~~~~~~~-~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      ..|.+..     +.+.+..+ ..++.++++.|++.+.    ....+..+++++.+.++.|.+
T Consensus       241 ~~n~l~d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l  302 (478)
T KOG4308|consen  241 ASNKLGDVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPL  302 (478)
T ss_pred             HhcCcchHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCcc
Confidence            5555441     22233333 3456666666665542    222333445566666655544

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.88  E-value=0.022  Score=43.04  Aligned_cols=83  Identities=22%  Similarity=0.191  Sum_probs=51.9

Q ss_pred             CCcCeEeccccccccc-chhhhhccccCEEeccCCcCccc-CCcccc-CCCccCEEEecCCCCCcc-cCccccCCCCCcE
Q 042890          151 GNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKS-LPSSLY-RLKSLGILDLHGCSNLQR-LPECLGQLSSPIT  226 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~-~~~~l~-~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~  226 (254)
                      ..++.++.+++.|... -..+..++.++.|.+.+|+-.+. -.+.++ ..++|+.|++++|.-++. -...+..+++|+.
T Consensus       101 ~~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~  180 (221)
T KOG3864|consen  101 VKIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRR  180 (221)
T ss_pred             ceEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHH
Confidence            5566777777765521 23355667778888887765442 111122 346899999998865543 3345667788888


Q ss_pred             EeccCCC
Q 042890          227 CNLAKTN  233 (254)
Q Consensus       227 L~l~~n~  233 (254)
                      |.+.+-.
T Consensus       181 L~l~~l~  187 (221)
T KOG3864|consen  181 LHLYDLP  187 (221)
T ss_pred             HHhcCch
Confidence            8876543

>smart00370 LRR Leucine-rich repeats, outliers

Probab=92.78  E-value=0.12  Score=25.01  Aligned_cols=21  Identities=14%  Similarity=0.328  Sum_probs=16.1

Q ss_pred             CCCCcEEeccCCCCCCCChhh
Q 042890          221 LSSPITCNLAKTNIERIPESI  241 (254)
Q Consensus       221 l~~L~~L~l~~n~l~~l~~~~  241 (254)
                      +++|+.|++.+|.+..+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            357888888888888887654

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

Probab=92.78  E-value=0.12  Score=25.01  Aligned_cols=21  Identities=14%  Similarity=0.328  Sum_probs=16.1

Q ss_pred             CCCCcEEeccCCCCCCCChhh
Q 042890          221 LSSPITCNLAKTNIERIPESI  241 (254)
Q Consensus       221 l~~L~~L~l~~n~l~~l~~~~  241 (254)
                      +++|+.|++.+|.+..+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            357888888888888887654

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

Probab=92.38  E-value=0.026  Score=49.11  Aligned_cols=15  Identities=53%  Similarity=0.798  Sum_probs=7.4

Q ss_pred             CCCccCEEEecCCCC
Q 042890          196 RLKSLGILDLHGCSN  210 (254)
Q Consensus       196 ~l~~L~~L~l~~~~~  210 (254)
                      .++.|+.+++++|..
T Consensus       293 ~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  293 RCPSLRELDLSGCHG  307 (482)
T ss_pred             hcCcccEEeeecCcc
Confidence            344455555555443

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=92.23  E-value=0.00097  Score=57.83  Aligned_cols=184  Identities=21%  Similarity=0.119  Sum_probs=112.4

Q ss_pred             eeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCC-CCccCCc-ccccEEeccCCcCCCc----cC
Q 042890           49 VKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPN-PTLMPRM-KKLVILNLRGSKSLKS----LP  122 (254)
Q Consensus        49 L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~-~~~~~~~-~~L~~L~l~~~~~~~~----~~  122 (254)
                      +..+.|.+|.+..   ...+.+..++...+.|+.++++++......... -..+... +.++.|++..|.+...    +.
T Consensus        89 l~~L~L~~~~l~~---~~~~~l~~~l~t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~  165 (478)
T KOG4308|consen   89 LLHLSLANNRLGD---RGAEELAQALKTLPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLA  165 (478)
T ss_pred             HHHhhhhhCcccc---chHHHHHHHhcccccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHH
Confidence            7778888886543   355667777888888999998876543111110 0022222 5677788888875422    33


Q ss_pred             CCCCCCCcccEEeccCCCCCcc--------ccc--cccCCcCeEecccccccc-----cchhhhhccc-cCEEeccCCcC
Q 042890          123 SGIFNLEFLTKLDLSGCSKLKR--------LPE--ISSGNISWLFLRGIAIEE-----LPSSIERQLR-LSWLDLSDCKR  186 (254)
Q Consensus       123 ~~~~~l~~L~~L~l~~~~~~~~--------~p~--~~~~~L~~L~l~~~~~~~-----l~~~~~~~~~-L~~L~l~~n~~  186 (254)
                      ..+.....++.++++.|.+...        ++.  ....++++|.+.+|.++.     +...+...+. +..+++..|++
T Consensus       166 ~~L~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~~el~l~~n~l  245 (478)
T KOG4308|consen  166 AVLEKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLLRELDLASNKL  245 (478)
T ss_pred             HHHhcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhhHHHHHHhcCc
Confidence            3444566778888887765321        111  112567788888887661     2233444444 56688888876


Q ss_pred             ccc----CCccccCC-CccCEEEecCCCCCcc----cCccccCCCCCcEEeccCCCCC
Q 042890          187 LKS----LPSSLYRL-KSLGILDLHGCSNLQR----LPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       187 ~~~----~~~~l~~l-~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      .+.    ..+.+..+ ..++.++++.|++.+.    ....+..++.++.+.++.|.+.
T Consensus       246 ~d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~  303 (478)
T KOG4308|consen  246 GDVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLAEVLVSCRQLEELSLSNNPLT  303 (478)
T ss_pred             chHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHHHHHhhhHHHHHhhcccCccc
Confidence            653    22334455 5678888888877643    3344556778888888888863

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.02  E-value=0.011  Score=44.67  Aligned_cols=83  Identities=12%  Similarity=0.160  Sum_probs=44.6

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccC-CcccccEEeccCCcCCCcc-CCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKSLKSL-PSG  124 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~-~~~  124 (254)
                      ..++.++-+++.+....   +    +.+..++.++.+.+.+|.....+.-.  .++ ..++|+.|++++|..+..- -..
T Consensus       101 ~~IeaVDAsds~I~~eG---l----e~L~~l~~i~~l~l~~ck~~dD~~L~--~l~~~~~~L~~L~lsgC~rIT~~GL~~  171 (221)
T KOG3864|consen  101 VKIEAVDASDSSIMYEG---L----EHLRDLRSIKSLSLANCKYFDDWCLE--RLGGLAPSLQDLDLSGCPRITDGGLAC  171 (221)
T ss_pred             ceEEEEecCCchHHHHH---H----HHHhccchhhhheeccccchhhHHHH--HhcccccchheeeccCCCeechhHHHH
Confidence            44555555555432211   1    12455666666677766655333222  222 3578888888888654322 122


Q ss_pred             CCCCCcccEEeccC
Q 042890          125 IFNLEFLTKLDLSG  138 (254)
Q Consensus       125 ~~~l~~L~~L~l~~  138 (254)
                      +.++++|+.|.+.+
T Consensus       172 L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  172 LLKLKNLRRLHLYD  185 (221)
T ss_pred             HHHhhhhHHHHhcC
Confidence            44566777776655

>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=83.13  E-value=0.22  Score=23.55  Aligned_cols=17  Identities=24%  Similarity=0.362  Sum_probs=9.4

Q ss_pred             CCcceEEEeeccccCCC
Q 042890           17 MPKLRFLKFYSSLFNGE   33 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~   33 (254)
                      +++|++|++++|.|+++
T Consensus         1 ~~~L~~L~l~~n~i~~~   17 (24)
T PF13516_consen    1 NPNLETLDLSNNQITDE   17 (24)
T ss_dssp             -TT-SEEE-TSSBEHHH
T ss_pred             CCCCCEEEccCCcCCHH
Confidence            46777788877776433

...

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

Probab=82.42  E-value=0.051  Score=42.24  Aligned_cols=58  Identities=14%  Similarity=-0.017  Sum_probs=29.8

Q ss_pred             CcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          152 NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      .+..++++.|.+..+|..+.....++.+++..|. .+..|.+++..+.+++++..++.+
T Consensus        66 ~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~~k~~~~k~~e~k~~~~  123 (326)
T KOG0473|consen   66 RLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNN-HSQQPKSQKKEPHPKKNEQKKTEF  123 (326)
T ss_pred             HHHHHhccHhhHhhChhhHHHHHHHHHHHhhccc-hhhCCccccccCCcchhhhccCcc
Confidence            3344444445555555555555555555554443 334444555555566655555443

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=82.13  E-value=0.99  Score=21.99  Aligned_cols=18  Identities=22%  Similarity=0.405  Sum_probs=15.0

Q ss_pred             CCCcEEeccCCCCCCCCh
Q 042890          222 SSPITCNLAKTNIERIPE  239 (254)
Q Consensus       222 ~~L~~L~l~~n~l~~l~~  239 (254)
                      ++|+.|++++|.++.+|+
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            468889999999888886

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	254
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		1e-08

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/130 (33%), Positives = 57/130 (43%), Gaps = 24/130 (18%)
Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLF 157
           P  +  ++ L  L +R S  L +L   I +L  L +LDL GC+ L+  P I  G      
Sbjct: 199 PASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP--- 254
Query: 158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
                             L  L L DC  L +LP  ++RL  L  LDL GC NL RLP  
Sbjct: 255 ------------------LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Query: 218 LGQLSSPITC 227
           + QL  P  C
Sbjct: 297 IAQL--PANC 304

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	254
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-25
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-22
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-19
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-19
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-19
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-16
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	9e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-09
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-09
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	9e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	8e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	8e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-05
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	8e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	4e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-04
3m19_A	251	Variable lymphocyte receptor A diversity region; a	1e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-05
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	2e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	9e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	7e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	4e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	6e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	9e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-04
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	2e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	4e-04

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

 Score = 99.6 bits (249), Expect = 8e-25
 Identities = 41/154 (26%), Positives = 65/154 (42%), Gaps = 14/154 (9%)

Query: 103 RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-----------ISSG 151
           +   L  L L  +  L++LP+ I +L  L +L +  C +L  LPE               
Sbjct: 125 QFAGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLV 183

Query: 152 NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL 211
           N+  L L    I  LP+SI     L  L + +   L +L  +++ L  L  LDL GC+ L
Sbjct: 184 NLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTAL 242

Query: 212 QRLPECLGQLSSPITCNLAKTN-IERIPESIIQL 244
           +  P   G  +      L   + +  +P  I +L
Sbjct: 243 RNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRL 276

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

 Score = 93.5 bits (233), Expect = 1e-22
 Identities = 44/135 (32%), Positives = 60/135 (44%), Gaps = 5/135 (3%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EISS 150
           +A          +  L  L L  +  ++SLP+ I NL+ L  L +     L  L   I  
Sbjct: 170 LASTDASGEHQGLVNLQSLRLEWTG-IRSLPASIANLQNLKSLKIRNS-PLSALGPAIHH 227

Query: 151 -GNISWLFLRGI-AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGC 208
              +  L LRG  A+   P     +  L  L L DC  L +LP  ++RL  L  LDL GC
Sbjct: 228 LPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC 287

Query: 209 SNLQRLPECLGQLSS 223
            NL RLP  + QL +
Sbjct: 288 VNLSRLPSLIAQLPA 302

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

 Score = 90.0 bits (224), Expect = 2e-21
 Identities = 35/167 (20%), Positives = 57/167 (34%), Gaps = 14/167 (8%)

Query: 89  HKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-E 147
            + +    +          V L LR    L   P   F L  L  + +     L  LP  
Sbjct: 65  GRALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLMELPDT 122

Query: 148 ISS-GNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYR---------L 197
           +     +  L L    +  LP+SI    RL  L +  C  L  LP  L           L
Sbjct: 123 MQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL 182

Query: 198 KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
            +L  L L   + ++ LP  +  L +  +  +  + +  +  +I  L
Sbjct: 183 VNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHL 228

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

 Score = 83.5 bits (207), Expect = 6e-19
 Identities = 36/124 (29%), Positives = 54/124 (43%), Gaps = 4/124 (3%)

Query: 103 RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRG 160
            ++ L  L +R S  L +L   I +L  L +LDL GC+ L+  P I  G   +  L L+ 
Sbjct: 204 NLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD 262

Query: 161 I-AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLG 219
              +  LP  I R  +L  LDL  C  L  LPS + +L +  I+ +      Q       
Sbjct: 263 CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRPV 322

Query: 220 QLSS 223
              +
Sbjct: 323 ARPA 326

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

 Score = 71.1 bits (175), Expect = 1e-14
 Identities = 28/151 (18%), Positives = 48/151 (31%), Gaps = 26/151 (17%)

Query: 118 LKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI----------------------SSGNISW 155
           + S      +      L   G + L+   ++                      +S N   
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQI 60

Query: 156 LFLRGIAIEELPSSIER--QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQR 213
               G A++     +E   Q     L+L     L   P   +RL  L  + +     L  
Sbjct: 61  ETRTGRALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAAG-LME 118

Query: 214 LPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           LP+ + Q +   T  LA+  +  +P SI  L
Sbjct: 119 LPDTMQQFAGLETLTLARNPLRALPASIASL 149

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 65.3 bits (159), Expect = 3e-12
 Identities = 32/143 (22%), Positives = 52/143 (36%), Gaps = 17/143 (11%)

Query: 102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI 161
               +L  L + G++ L SLP     L  L+       + L  LP      +  L++ G 
Sbjct: 78  ALPPELRTLEVSGNQ-LTSLPVLPPGLLELSIFSNPL-THLPALPS----GLCKLWIFGN 131

Query: 162 AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL 221
            +  LP        L  L +SD  +L SLP+    L  L   +      L  LP     L
Sbjct: 132 QLTSLPVLPP---GLQELSVSDN-QLASLPALPSELCKLWAYNNQ----LTSLPMLPSGL 183

Query: 222 SSPITCNLAKTNIERIPESIIQL 244
                 +++   +  +P    +L
Sbjct: 184 QE---LSVSDNQLASLPTLPSEL 203

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 63.0 bits (153), Expect = 1e-11
 Identities = 25/114 (21%), Positives = 42/114 (36%), Gaps = 12/114 (10%)

Query: 131 LTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSL 190
              L++     L  LP+    +I+ L +    +  LP+       L  L++S   +L SL
Sbjct: 42  NAVLNVGES-GLTTLPDCLPAHITTLVIPDNNLTSLPALPP---ELRTLEVSGN-QLTSL 96

Query: 191 PSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           P     L  L I      ++L  LP  L +L       +    +  +P     L
Sbjct: 97  PVLPPGLLELSIFSNPL-THLPALPSGLCKL------WIFGNQLTSLPVLPPGL 143

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 62.2 bits (151), Expect = 3e-11
 Identities = 34/123 (27%), Positives = 47/123 (38%), Gaps = 14/123 (11%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLF 157
           PTL   + KL   N R    L SLP+    L    +L +SG  +L  LP      +  L 
Sbjct: 197 PTLPSELYKLWAYNNR----LTSLPALPSGL---KELIVSGN-RLTSLPV-LPSELKELM 247

Query: 158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
           + G  +  LP        L  L +    +L  LP SL  L S   ++L G   L      
Sbjct: 248 VSGNRLTSLPMLPSG---LLSLSVYRN-QLTRLPESLIHLSSETTVNLEGN-PLSERTLQ 302

Query: 218 LGQ 220
             +
Sbjct: 303 ALR 305

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.8 bits (124), Expect = 8e-08
 Identities = 20/107 (18%), Positives = 44/107 (41%), Gaps = 7/107 (6%)

Query: 142 LKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLG 201
           ++++    +   + L +    +  LP  +   +    L + D   L SLP+    L++L 
Sbjct: 31  VQKMRACLNNGNAVLNVGESGLTTLPDCLPAHIT--TLVIPDN-NLTSLPALPPELRTL- 86

Query: 202 ILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSG 248
             ++ G   L  LP     L      +   T++  +P  + +L++ G
Sbjct: 87  --EVSGN-QLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFG 130

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

 Score = 61.9 bits (150), Expect = 3e-11
 Identities = 29/151 (19%), Positives = 53/151 (35%), Gaps = 14/151 (9%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIFN-LEFLTKLDLSGCSK---LKRLPEISSGNI 153
             ++P      +       ++    +  F+  +   K  L G ++   +  L E      
Sbjct: 2   SIMLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQF 61

Query: 154 SWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQR 213
           S L L  + +  LP ++  Q+    L+++    L SLP     L+ L   D      L  
Sbjct: 62  SELQLNRLNLSSLPDNLPPQIT--VLEITQN-ALISLPELPASLEYLDACDNR----LST 114

Query: 214 LPECLGQLSSPITCNLAKTNIERIPESIIQL 244
           LPE    L      ++    +  +PE    L
Sbjct: 115 LPELPASLKH---LDVDNNQLTMLPELPALL 142

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

 Score = 61.1 bits (148), Expect = 5e-11
 Identities = 32/153 (20%), Positives = 52/153 (33%), Gaps = 15/153 (9%)

Query: 99  TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFL 158
           TL      L  L++  ++ L  LP     LE    ++     +L  LPE    ++  L +
Sbjct: 114 TLPELPASLKHLDVDNNQ-LTMLPELPALLE---YINADNN-QLTMLPE-LPTSLEVLSV 167

Query: 159 RGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSL----GILDLHGCSNLQRL 214
           R   +  LP   E    L  LD+S    L+SLP+   R                  +  +
Sbjct: 168 RNNQLTFLPELPES---LEALDVSTN-LLESLPAVPVRNHHSEETEIFFRCREN-RITHI 222

Query: 215 PECLGQLSSPITCNLAKTNIERIPESIIQLFVS 247
           PE +  L    T  L    +       +    +
Sbjct: 223 PENILSLDPTCTIILEDNPLSSRIRESLSQQTA 255

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 61.2 bits (149), Expect = 4e-11
 Identities = 34/138 (24%), Positives = 55/138 (39%), Gaps = 13/138 (9%)

Query: 111 NLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSI 170
            LR S +L  +P    N++  T+   +     +  P            R +A+  L   +
Sbjct: 16  PLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPP------GNGEQREMAVSRLRDCL 69

Query: 171 ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLA 230
           +RQ     L+L++   L SLP     L+SL       C++L  LPE    L S +  N  
Sbjct: 70  DRQAH--ELELNNLG-LSSLPELPPHLESLVA----SCNSLTELPELPQSLKSLLVDNNN 122

Query: 231 KTNIERIPESIIQLFVSG 248
              +  +P  +  L VS 
Sbjct: 123 LKALSDLPPLLEYLGVSN 140

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 53.5 bits (129), Expect = 2e-08
 Identities = 30/169 (17%), Positives = 61/169 (36%), Gaps = 34/169 (20%)

Query: 102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRG 160
                L I+++  +  LK LP    +L     +      +L+ LPE+ +   ++ ++   
Sbjct: 150 QNSSFLKIIDVDNNS-LKKLPDLPPSL---EFIAAGNN-QLEELPELQNLPFLTAIYADN 204

Query: 161 IAIEELPSSIERQLRLSWLDLSDCK---------------------RLKSLPSSLYRLKS 199
            ++++LP      L L  +   +                        LK+LP     L++
Sbjct: 205 NSLKKLPDLP---LSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEA 261

Query: 200 LGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSG 248
           L + D +    L  LPE    L+         + +  +P ++  L  S 
Sbjct: 262 LNVRDNY----LTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASS 306

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 50.0 bits (120), Expect = 3e-07
 Identities = 27/147 (18%), Positives = 48/147 (32%), Gaps = 21/147 (14%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLF 157
           P L   +  L +           L     NL     L+ S   +++ L +    ++  L 
Sbjct: 273 PELPQSLTFLDVSEN----IFSGLSELPPNL---YYLNASSN-EIRSLCD-LPPSLEELN 323

Query: 158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
           +    + ELP+   R   L  L  S    L  +P     LK    L +     L+  P+ 
Sbjct: 324 VSNNKLIELPALPPR---LERLIASFN-HLAEVPELPQNLKQ---LHVEYN-PLREFPDI 375

Query: 218 LGQLSSPITCNLAKTNIERIPESIIQL 244
              +      +    ++  +PE    L
Sbjct: 376 PESVEDLRMNS----HLAEVPELPQNL 398

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 49.6 bits (119), Expect = 4e-07
 Identities = 31/147 (21%), Positives = 51/147 (34%), Gaps = 16/147 (10%)

Query: 99  TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFL 158
           +L      L  LN+  +K L  LP+    LE   +L  S    L  +PE    N+  L +
Sbjct: 311 SLCDLPPSLEELNVSNNK-LIELPALPPRLE---RLIASFN-HLAEVPE-LPQNLKQLHV 364

Query: 159 RGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECL 218
               + E P   E    +  L ++    L  +P     LK    L +     L+  P+  
Sbjct: 365 EYNPLREFPDIPES---VEDLRMNS--HLAEVPELPQNLKQ---LHVETN-PLREFPDIP 415

Query: 219 GQLSS-PITCNLAKTNIERIPESIIQL 244
             +    +         E   E+  +L
Sbjct: 416 ESVEDLRMNSERVVDPYEFAHETTDKL 442

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 16/111 (14%), Positives = 33/111 (29%), Gaps = 15/111 (13%)

Query: 146 PEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL 205
             +S+  +         + E+P   E     +    +  +  ++ P      + + +  L
Sbjct: 6   RNVSNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRL 65

Query: 206 HGCS------------NLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
             C              L  LPE    L S      +  ++  +PE    L
Sbjct: 66  RDCLDRQAHELELNNLGLSSLPELPPHLES---LVASCNSLTELPELPQSL 113

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

 Score = 60.1 bits (146), Expect = 9e-11
 Identities = 43/161 (26%), Positives = 69/161 (42%), Gaps = 17/161 (10%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS 150
           I  I   +    ++ L IL L  +  ++++  G F  L  L  L+L       RL  I +
Sbjct: 76  IQIIKVNSF-KHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN----RLTTIPN 129

Query: 151 G------NISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPS-SLYRLKSLGI 202
           G       +  L+LR   IE +PS    ++  L  LDL + KRL  +   +   L +L  
Sbjct: 130 GAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRY 189

Query: 203 LDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQ 243
           L+L  C NL+ +P  L  L      +L+  ++  I     Q
Sbjct: 190 LNLAMC-NLREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQ 228

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

 Score = 57.8 bits (140), Expect = 6e-10
 Identities = 43/215 (20%), Positives = 81/215 (37%), Gaps = 28/215 (13%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           +  N+F  +  L  L+         ++  +  ++   F     +  L      L ++P+ 
Sbjct: 79  IKVNSFKHLRHLEILQL--------SRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNG 130

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI 125
               L       SKL ++        I  IP+      +  L  L+L   K L  +  G 
Sbjct: 131 AFVYL-------SKLKELWLRNNP--IESIPSYAFNR-IPSLRRLDLGELKRLSYISEGA 180

Query: 126 F-NLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIAIEELPSSIERQL-RLSWLDLS 182
           F  L  L  L+L+ C  L+ +P ++    +  L L G  +  +     + L  L  L + 
Sbjct: 181 FEGLSNLRYLNLAMC-NLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMI 239

Query: 183 DCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE 216
              +++ +   +   L+SL  ++L    NL  LP 
Sbjct: 240 QS-QIQVIERNAFDNLQSLVEINLAHN-NLTLLPH 272

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

 Score = 60.4 bits (147), Expect = 1e-10
 Identities = 11/137 (8%), Positives = 40/137 (29%), Gaps = 4/137 (2%)

Query: 95  IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNIS 154
                      K   +    +  +  +   +  L  L +  +     +      +  N +
Sbjct: 173 KSIKKSSRITLKDTQIGQLSNN-ITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENEN 231

Query: 155 WLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL 214
             + +    +      +    L+ +++ +C  L  LP+ L  L  + ++++         
Sbjct: 232 SEYAQQY--KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN-RGISG 288

Query: 215 PECLGQLSSPITCNLAK 231
            +      +     + +
Sbjct: 289 EQLKDDWQALADAPVGE 305

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

 Score = 55.0 bits (133), Expect = 6e-09
 Identities = 22/169 (13%), Positives = 47/169 (27%), Gaps = 38/169 (22%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRG-------SKSLKSLPSGIFNLEFLTKLDLSGCSKLKR 144
           +  IPN      +  +  ++           K+   L    F    ++ ++LS   ++ +
Sbjct: 389 LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISK 447

Query: 145 LPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCK-------RLKSLPSSLYRL 197
            P                             LS ++L            LK    +    
Sbjct: 448 FP--------------------KELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNT 487

Query: 198 KSLGILDLHGCSNLQRLPE--CLGQLSSPITCNLAKTNIERIPESIIQL 244
             L  +DL     L +L +      L   +  +L+  +  + P   +  
Sbjct: 488 YLLTSIDLRFN-KLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNS 535

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

 Score = 52.4 bits (126), Expect = 5e-08
 Identities = 28/167 (16%), Positives = 67/167 (40%), Gaps = 16/167 (9%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---I 148
           +   P  T + +MKKL +L    ++ L+       +   L  L+L+   ++  +P     
Sbjct: 317 LKTFPVETSLQKMKKLGMLECLYNQ-LEGKLPAFGSEIKLASLNLAYN-QITEIPANFCG 374

Query: 149 SSGNISWLFLRGIAIEELPSSIE-RQLR-LSWLDLS-------DCKRLKSLPSSLYRLKS 199
            +  +  L      ++ +P+  + + +  +S +D S       D K    L  + ++  +
Sbjct: 375 FTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGIN 434

Query: 200 LGILDLHGCSNLQRLP-ECLGQLSSPITCNLAKTNIERIPESIIQLF 245
           +  ++L     + + P E     S   + NL    +  IP++ ++  
Sbjct: 435 VSSINLSNN-QISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDE 480

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

 Score = 52.0 bits (125), Expect = 7e-08
 Identities = 17/147 (11%), Positives = 39/147 (26%), Gaps = 19/147 (12%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG 151
           + K+ +      +  LV ++L  +      P+   N   L    +               
Sbjct: 500 LTKLSDDFRATTLPYLVGIDLSYNS-FSKFPTQPLNSSTLKGFGIRNQRDA------QGN 552

Query: 152 NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL 211
                        E P  I     L+ L +     ++ +   +    ++ +LD+    N+
Sbjct: 553 RTL---------REWPEGITLCPSLTQLQIGSN-DIRKVNEKI--TPNISVLDIKDNPNI 600

Query: 212 QRLPECLGQLSSPITCNLAKTNIERIP 238
                 +          L     + I 
Sbjct: 601 SIDLSYVCPYIEAGMYMLFYDKTQDIR 627

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

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 14/133 (10%), Positives = 34/133 (25%), Gaps = 21/133 (15%)

Query: 127 NLEFLTKLDLSGC-------------SKLKRLPEISSGNISWLFLRGIAIEELPSSIERQ 173
           +   +T L L G              ++L+ L       +     +       P  I   
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIGQLTELEVL------ALGSHGEKVNERLFGPKGISAN 132

Query: 174 LRLSWLDLSDCKRLKSLPSSLYRLK--SLGILDLHGCSNLQRLPECLGQLSSPITCNLAK 231
           +             K+      R     L    ++     + + +               
Sbjct: 133 MSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLS 192

Query: 232 TNIERIPESIIQL 244
            NI  + +++++L
Sbjct: 193 NNITFVSKAVMRL 205

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 59.3 bits (144), Expect = 2e-10
 Identities = 50/246 (20%), Positives = 86/246 (34%), Gaps = 36/246 (14%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPS 64
            LN + F   P L  L+         N+  +S ++   F     ++ L      LK +P 
Sbjct: 46  TLNQDEFASFPHLEELEL--------NENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPL 97

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
                L       S L ++  +     I  + +      +  L  L +  +  L  +   
Sbjct: 98  GVFTGL-------SNLTKLDISENK--IVILLDYMFQD-LYNLKSLEVGDND-LVYISHR 146

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPEISSG------NISWLFLRGIAIEELPSSIERQL-RL 176
            F  L  L +L L  C     L  I +        +  L LR + I  +     ++L RL
Sbjct: 147 AFSGLNSLEQLTLEKC----NLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRL 202

Query: 177 SWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC-LGQLSSPITCNLAKTNIE 235
             L++S    L ++  +     +L  L +  C NL  +P   +  L      NL+   I 
Sbjct: 203 KVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYNPIS 261

Query: 236 RIPESI 241
            I  S+
Sbjct: 262 TIEGSM 267

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

 Score = 57.1 bits (138), Expect = 1e-09
 Identities = 39/157 (24%), Positives = 64/157 (40%), Gaps = 17/157 (10%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS 150
           I  I   T    +  L +L L  +  ++ +  G F  L  L  L+L        L  I S
Sbjct: 87  IQMIQADTF-RHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDN----WLTVIPS 140

Query: 151 G------NISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPS-SLYRLKSLGI 202
           G       +  L+LR   IE +PS    ++  L  LDL + K+L+ +   +   L +L  
Sbjct: 141 GAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKY 200

Query: 203 LDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE 239
           L+L  C N++ +P  L  L       ++  +   I  
Sbjct: 201 LNLGMC-NIKDMPN-LTPLVGLEELEMSGNHFPEIRP 235

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

 Score = 55.5 bits (134), Expect = 3e-09
 Identities = 46/215 (21%), Positives = 78/215 (36%), Gaps = 28/215 (13%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           +  +TF  +  L  L+             +  ++   F     +  L      L  +PS 
Sbjct: 90  IQADTFRHLHHLEVLQLGR--------NSIRQIEVGAFNGLASLNTLELFDNWLTVIPSG 141

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI 125
             E L       SKL ++        I  IP+      +  L+ L+L   K L+ +  G 
Sbjct: 142 AFEYL-------SKLRELWLRNNP--IESIPSYAFNR-VPSLMRLDLGELKKLEYISEGA 191

Query: 126 F-NLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIAIEELPSSIERQL-RLSWLDLS 182
           F  L  L  L+L  C  +K +P ++    +  L + G    E+       L  L  L + 
Sbjct: 192 FEGLFNLKYLNLGMC-NIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVM 250

Query: 183 DCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE 216
           +  ++  +   +   L SL  L+L    NL  LP 
Sbjct: 251 NS-QVSLIERNAFDGLASLVELNLAHN-NLSSLPH 283

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

 Score = 57.2 bits (138), Expect = 1e-09
 Identities = 26/144 (18%), Positives = 47/144 (32%), Gaps = 20/144 (13%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRG-------SKSLKSLPSGIFNLEFLTKLDLSGCSKLKR 144
           I K P   L      +  + L           SLK       N   LT +DL    KL  
Sbjct: 685 IQKFP-TELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFN-KLTS 742

Query: 145 LP-EISSG---NISWLFLRGIAIEELPSSIERQLRLSWLDL------SDCKRLKSLPSSL 194
           L  +  +     +S + +        P+      +L    +         + L+  P+ +
Sbjct: 743 LSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGI 802

Query: 195 YRLKSLGILDLHGCSNLQRLPECL 218
               SL  L +    +++++ E L
Sbjct: 803 TTCPSLIQLQIGSN-DIRKVDEKL 825

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

 Score = 55.7 bits (134), Expect = 4e-09
 Identities = 24/189 (12%), Positives = 50/189 (26%), Gaps = 45/189 (23%)

Query: 98  PTLMPRMKKLVILNLRG---------SKSLKSLPSGIFNLEFLTKLDLSGCS-------- 140
           P  +  + +L  LN+                 L         +    +   +        
Sbjct: 508 PDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASA 567

Query: 141 ----------------KLKRLPEISS-GNISWLFLRGIAIEELPSSIERQLR-LSWLDLS 182
                           K++ L    +   ++ L L    IEE+P         +  L  S
Sbjct: 568 SLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFS 627

Query: 183 DCKRLKSLPS--SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITC------NLAKTNI 234
             K LK +P+  +   +  +G +D      +      +                L+   I
Sbjct: 628 HNK-LKYIPNIFNAKSVYVMGSVDFSYN-KIGSEGRNISCSMDDYKGINASTVTLSYNEI 685

Query: 235 ERIPESIIQ 243
           ++ P  +  
Sbjct: 686 QKFPTELFA 694

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

 Score = 53.3 bits (128), Expect = 2e-08
 Identities = 16/165 (9%), Positives = 42/165 (25%), Gaps = 14/165 (8%)

Query: 101 MPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRG 160
           +    ++  L+L G  +   +P  I  L  L  L             +         +  
Sbjct: 319 LDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTH-SETVSGRLFGDEELTPDMSE 377

Query: 161 IAIEELPSSIE----------RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN 210
                +    +              L    ++    +K +        SL    +   +N
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKD--SRISLKDTQIGNLTN 435

Query: 211 -LQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY 254
            +  + + + +L+       A +       ++     +      Y
Sbjct: 436 RITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQY 480

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

 Score = 52.6 bits (126), Expect = 5e-08
 Identities = 17/127 (13%), Positives = 35/127 (27%), Gaps = 26/127 (20%)

Query: 118 LKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLS 177
           +  +   I  L  L  +  +                                    +   
Sbjct: 437 ITFISKAIQRLTKLQIIYFANS-PFTYDNI-------------------------AVDWE 470

Query: 178 WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI 237
             +    K+ ++   S   LK L  ++L+ C N+ +LP+ L  L    + N+A       
Sbjct: 471 DANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISA 530

Query: 238 PESIIQL 244
            +     
Sbjct: 531 AQLKADW 537

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

 Score = 41.4 bits (97), Expect = 2e-04
 Identities = 15/135 (11%), Positives = 46/135 (34%), Gaps = 5/135 (3%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAI--EELPSSIER 172
            ++ + +            LD             +  +++W F + + +  ++    ++ 
Sbjct: 262 KETAEYIKDYKALKAIWEALDGKNWRYYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDN 321

Query: 173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT 232
             R++ L L+       +P ++ +L  L +L      +        G        ++++ 
Sbjct: 322 NGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTH-SETVSGRLFGDEELTP--DMSEE 378

Query: 233 NIERIPESIIQLFVS 247
              RI     ++F+ 
Sbjct: 379 RKHRIRMHYKKMFLD 393

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

 Score = 55.4 bits (134), Expect = 3e-09
 Identities = 47/157 (29%), Positives = 82/157 (52%), Gaps = 12/157 (7%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPE-IS 149
           ++ +P      R+ KL +L L     L++LP+GIF  L+ L  L ++   KL+ LP  + 
Sbjct: 49  LSSLP-SKAFHRLTKLRLLYL-NDNKLQTLPAGIFKELKNLETLWVTDN-KLQALPIGVF 105

Query: 150 SG--NISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDL 205
               N++ L L    ++ LP  +   L +L++L L   + L+SLP  ++ +L SL  L L
Sbjct: 106 DQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRL 164

Query: 206 HGCSNLQRLPECL-GQLSSPITCNLAKTNIERIPESI 241
           +  + L+R+PE    +L+   T  L    ++R+PE  
Sbjct: 165 Y-NNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGA 200

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

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 34/108 (31%), Positives = 54/108 (50%), Gaps = 12/108 (11%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
           SK L ++PS I       KLDL   +KL  LP         +  L+L    ++ LP+ I 
Sbjct: 25  SKKLTAIPSNIPA--DTKKLDLQS-NKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIF 81

Query: 172 RQL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSN-LQRLPE 216
           ++L  L  L ++D  +L++LP  ++ +L +L  L L    N L+ LP 
Sbjct: 82  KELKNLETLWVTD-NKLQALPIGVFDQLVNLAELRLD--RNQLKSLPP 126

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 55.1 bits (133), Expect = 4e-09
 Identities = 38/222 (17%), Positives = 72/222 (32%), Gaps = 20/222 (9%)

Query: 2   SKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKS 61
                LRL+  T   M +                     L   GF E            +
Sbjct: 180 KHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESM----AKRFFDA 235

Query: 62  LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKSLKS 120
           +    I+ L       S    +  +  H       N T        +   +L     + +
Sbjct: 236 IAGTKIQSLI-----LSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLS-KSKIFA 289

Query: 121 LPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIERQL-R 175
           L   +F +   L +L L+  +++ ++ +       ++  L L    +  + S +   L +
Sbjct: 290 LLKSVFSHFTDLEQLTLAQ-NEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDK 348

Query: 176 LSWLDLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE 216
           L  LDLS    +++L   S   L +L  L L     L+ +P+
Sbjct: 349 LEVLDLSYNH-IRALGDQSFLGLPNLKELALDTN-QLKSVPD 388

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 42.4 bits (100), Expect = 9e-05
 Identities = 27/134 (20%), Positives = 50/134 (37%), Gaps = 13/134 (9%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE--- 147
           IA++   T   R++ L  L +        + +  F  L  L  L L   ++  +L     
Sbjct: 42  IAELN-ETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY-NQFLQLETGAF 99

Query: 148 ISSGNISWLFLRG--IAIEELPSSIERQLR-LSWLDLSDCKRLKSLP--SSLYRLKSLGI 202
               N+  L L    +    L  +  + L  L  L L D   +K +   S    ++   +
Sbjct: 100 NGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDN-NIKKIQPASFFLNMRRFHV 158

Query: 203 LDLHGCSNLQRLPE 216
           LDL   + ++ + E
Sbjct: 159 LDLTF-NKVKSICE 171

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

 Score = 54.2 bits (131), Expect = 6e-09
 Identities = 32/143 (22%), Positives = 54/143 (37%), Gaps = 10/143 (6%)

Query: 105 KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS----GNISWLFLRG 160
             L  L+L  +  + ++ S    LE L  LD      LK++ E S      N+ +L +  
Sbjct: 78  TSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISH 135

Query: 161 IAIEELPSSIERQL-RLSWLDLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE-C 217
                  + I   L  L  L ++     ++        L++L  LDL  C  L++L    
Sbjct: 136 THTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTA 194

Query: 218 LGQLSSPITCNLAKTNIERIPES 240
              LSS    N++  N   +   
Sbjct: 195 FNSLSSLQVLNMSHNNFFSLDTF 217

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

 Score = 51.2 bits (123), Expect = 9e-08
 Identities = 40/218 (18%), Positives = 79/218 (36%), Gaps = 28/218 (12%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF---AEVKYLHWHGYPLKSLPS 64
            L    F K+ +L  L   S      N                 +KYL         L  
Sbjct: 42  SLPHGVFDKLTQLTKLSLSS------NGLSFKGCCSQSDFGTTSLKYLD--------LSF 87

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
           N +  +        +L  +     +  + ++   ++   ++ L+ L++  +   +   +G
Sbjct: 88  NGVITMSSNFLGLEQLEHLDFQHSN--LKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNG 144

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIERQL-RLSWL 179
           IF  L  L  L ++G S  +           N+++L L    +E+L  +    L  L  L
Sbjct: 145 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL 204

Query: 180 DLSDCKRLKSLPSSLYR-LKSLGILDLHGCSNLQRLPE 216
           ++S      SL +  Y+ L SL +LD    +++    +
Sbjct: 205 NMSHN-NFFSLDTFPYKCLNSLQVLDYSL-NHIMTSKK 240

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

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 34/135 (25%), Positives = 59/135 (43%), Gaps = 13/135 (9%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRG--IAIEELPSS 169
           SK L S+P+GI      T+L+L    KL+ LP         ++ L L    ++ +   S 
Sbjct: 16  SKGLTSVPTGIP--SSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQ 72

Query: 170 IERQL-RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC--LGQLSSPIT 226
            +     L +LDLS    + ++ S+   L+ L  LD     NL+++ E      L + I 
Sbjct: 73  SDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIY 130

Query: 227 CNLAKTNIERIPESI 241
            +++ T+       I
Sbjct: 131 LDISHTHTRVAFNGI 145

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

 Score = 53.5 bits (129), Expect = 1e-08
 Identities = 19/151 (12%), Positives = 54/151 (35%), Gaps = 7/151 (4%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIF--NLEFLTKLDLSGCSKLKRLP-EISSGNISWLFLRG 160
             ++  L+L+ ++ + ++       + + L  L+L     +  +  ++    +  L L  
Sbjct: 143 RSRVQYLDLKLNE-IDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSS 200

Query: 161 IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQ 220
             +  +    +    ++W+ L + K L  +  +L   ++L   DL G             
Sbjct: 201 NKLAFMGPEFQSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLRGN-GFHCGTLRDFF 258

Query: 221 LSSPITCNLAKTNIERIPESIIQLFVSGYLL 251
             +     +AK  ++++     +      L 
Sbjct: 259 SKNQRVQTVAKQTVKKLTGQNEEECTVPTLG 289

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

 Score = 39.2 bits (92), Expect = 8e-04
 Identities = 31/147 (21%), Positives = 50/147 (34%), Gaps = 30/147 (20%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNISWL 156
             +     +  I  +  S  LK   + +  +   + +LDLSG   L ++           
Sbjct: 3   HEIKQNGNRYKIEKVTDSS-LKQALASLRQSAWNVKELDLSGN-PLSQIS---------- 50

Query: 157 FLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE 216
                      + +    +L  L+LS    L      L  L +L  LDL+    +Q L  
Sbjct: 51  ----------AADLAPFTKLELLNLSSNV-LYETL-DLESLSTLRTLDLNNN-YVQELL- 96

Query: 217 CLGQLSSPITCNLAKTNIERIPESIIQ 243
                 S  T + A  NI R+  S  Q
Sbjct: 97  ---VGPSIETLHAANNNISRVSCSRGQ 120

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 53.3 bits (128), Expect = 2e-08
 Identities = 33/146 (22%), Positives = 61/146 (41%), Gaps = 10/146 (6%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLR 159
           + KL  + +  + +L  +    F NL  L  L +S    +K LP+   I S     L ++
Sbjct: 78  LPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQ 136

Query: 160 G-IAIEELPSSIERQL--RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE 216
             I I  +  +    L      L L+    ++ + +S +    L  L+L   +NL+ LP 
Sbjct: 137 DNINIHTIERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPN 195

Query: 217 -CLGQLSSPITCNLAKTNIERIPESI 241
                 S P+  ++++T I  +P   
Sbjct: 196 DVFHGASGPVILDISRTRIHSLPSYG 221

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 52.5 bits (126), Expect = 3e-08
 Identities = 26/160 (16%), Positives = 59/160 (36%), Gaps = 10/160 (6%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE--- 147
           +  I           L  + +  +  L+ + + +F NL  L ++ +   + L  +     
Sbjct: 42  LRVIQ-KGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAF 100

Query: 148 ISSGNISWLFLRGIAIEELPSSI-ERQLRLSWLDLSDCKRLKSLPSSLYR--LKSLGILD 204
            +  N+ +L +    I+ LP       L+   LD+ D   + ++  + +        IL 
Sbjct: 101 QNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILW 160

Query: 205 LHGCSNLQRLPECLGQLSSPITCNLAKTN-IERIPESIIQ 243
           L+    +Q +       +     NL+  N +E +P  +  
Sbjct: 161 LNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFH 199

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 52.1 bits (125), Expect = 4e-08
 Identities = 44/202 (21%), Positives = 79/202 (39%), Gaps = 21/202 (10%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDI 67
            +  + F+ +PKL  ++        E    + Y+    F  +  L +    L  + +  I
Sbjct: 69  VIEADVFSNLPKLHEIRI-------EKANNLLYINPEAFQNLPNLQY----L-LISNTGI 116

Query: 68  EQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFN 127
           + L D  K +S    ++    +  I  I   + +    + VIL L  +  ++ + +  FN
Sbjct: 117 KHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNSAFN 175

Query: 128 LEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIERQL-RLSWLDLSD 183
              L +L+LS  + L+ LP      +     L +    I  LPS     L +L       
Sbjct: 176 GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTY- 234

Query: 184 CKRLKSLPSSLYRLKSLGILDL 205
              LK LP +L +L +L    L
Sbjct: 235 --NLKKLP-TLEKLVALMEASL 253

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 51.8 bits (124), Expect = 5e-08
 Identities = 28/131 (21%), Positives = 48/131 (36%), Gaps = 9/131 (6%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS- 149
           +  I        +  L  L +  +  +K LP     +      LD+     +  +   S 
Sbjct: 92  LLYINPEAFQN-LPNLQYLLISNTG-IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 150 ---SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPS-SLYRLKSLGILDL 205
              S     L+L    I+E+ +S     +L  L+LSD   L+ LP+   +      ILD+
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDI 209

Query: 206 HGCSNLQRLPE 216
                +  LP 
Sbjct: 210 SRT-RIHSLPS 219

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

 Score = 52.6 bits (127), Expect = 4e-08
 Identities = 35/158 (22%), Positives = 58/158 (36%), Gaps = 7/158 (4%)

Query: 103 RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIA 162
               L  L++ G+K        I     L  L++S    +  +P +   ++ +L L    
Sbjct: 221 DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENK 280

Query: 163 IE-ELPSSIERQLR-LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ-RLP-ECL 218
              E+P  +      L+ LDLS      ++P        L  L L    N    LP + L
Sbjct: 281 FTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN-NFSGELPMDTL 339

Query: 219 GQLSSPITCNLAKTNIE-RIPESIIQLFVS-GYLLLSY 254
            ++      +L+       +PES+  L  S   L LS 
Sbjct: 340 LKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSS 377

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

 Score = 46.4 bits (111), Expect = 4e-06
 Identities = 33/161 (20%), Positives = 61/161 (37%), Gaps = 8/161 (4%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE--ISSGNISW 155
           P+ +  + KL  L L  +     +P  +  ++ L  L L        +P    +  N++W
Sbjct: 435 PSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNW 494

Query: 156 LFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ-R 213
           + L    +  E+P  I R   L+ L LS+     ++P+ L   +SL  LDL+  +     
Sbjct: 495 ISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT-NLFNGT 553

Query: 214 LPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY 254
           +P  + + S  I  N            I    +      + 
Sbjct: 554 IPAAMFKQSGKIAANFIAGK---RYVYIKNDGMKKECHGAG 591

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

 Score = 43.4 bits (103), Expect = 4e-05
 Identities = 20/111 (18%), Positives = 41/111 (36%), Gaps = 8/111 (7%)

Query: 107 LVILNLRG---SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIA 162
           +  ++L     +    ++ S + +L  L  L LS       +       +++ L L   +
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNS 111

Query: 163 IE-ELPSSIE-RQL-RLSWLDLSDCKRLKSLP-SSLYRLKSLGILDLHGCS 209
           +   + +         L +L++S          S   +L SL +LDL   S
Sbjct: 112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANS 162

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

 Score = 50.4 bits (121), Expect = 1e-07
 Identities = 41/242 (16%), Positives = 92/242 (38%), Gaps = 37/242 (15%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           +    F  +  L  L             K+S +    FA   +++ L+     LK LP  
Sbjct: 67  IKDGDFKNLKNLHTLIL--------INNKISKISPGAFAPLVKLERLYLSKNQLKELPEK 118

Query: 66  ---DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSK-SLKSL 121
               +++L         ++          I K+   ++   + +++++ L  +      +
Sbjct: 119 MPKTLQELR--------VH-------ENEITKVR-KSVFNGLNQMIVVELGTNPLKSSGI 162

Query: 122 PSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR-LSWL 179
            +G F  ++ L+ + ++    +  +P+    +++ L L G  I ++ ++  + L  L+ L
Sbjct: 163 ENGAFQGMKKLSYIRIADT-NITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKL 221

Query: 180 DLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP 238
            LS    + ++ + SL     L  L L+    L ++P  L          L   NI  I 
Sbjct: 222 GLSFNS-ISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNNNISAIG 279

Query: 239 ES 240
            +
Sbjct: 280 SN 281

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

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 33/218 (15%), Positives = 75/218 (34%), Gaps = 42/218 (19%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAE---VKYLHWHGYPLKSLPS 64
           ++  + F  + ++  ++       G N  K S +++  F     + Y+      + ++P 
Sbjct: 135 KVRKSVFNGLNQMIVVEL------GTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQ 188

Query: 65  N---DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL 121
                + +L         L+          I K+   +L   +  L  L L  +  + ++
Sbjct: 189 GLPPSLTELH--------LD-------GNKITKVDAASL-KGLNNLAKLGLSFNS-ISAV 231

Query: 122 PSGIF-NLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIERQL---- 174
            +G   N   L +L L+   KL ++P   +    I  ++L    I  + S+         
Sbjct: 232 DNGSLANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNT 290

Query: 175 ---RLSWLDLSDCK-RLKSLPSSLYR-LKSLGILDLHG 207
                S + L     +   +  S +R +     + L  
Sbjct: 291 KKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGN 328

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 50.0 bits (120), Expect = 1e-07
 Identities = 21/148 (14%), Positives = 53/148 (35%), Gaps = 12/148 (8%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS-----SGNISWLF 157
           + K+  + +R +++L  +       L  L  L +     LK  P+++             
Sbjct: 79  LSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEI 137

Query: 158 LRGIAIEELPSSIERQLR--LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLP 215
                +  +P +  + L      L L +     S+    +    L  + L+    L  + 
Sbjct: 138 TDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVID 196

Query: 216 E-CLGQLSSPITC-NLAKTNIERIPESI 241
           +   G + S  +  ++++T++  +P   
Sbjct: 197 KDAFGGVYSGPSLLDVSQTSVTALPSKG 224

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 41.9 bits (99), Expect = 8e-05
 Identities = 34/199 (17%), Positives = 60/199 (30%), Gaps = 58/199 (29%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIE 68
           ++P+   ++P L+FL     +FN      +    D               + S     I 
Sbjct: 96  IDPDALKELPLLKFL----GIFN----TGLKMFPDLTK------------VYSTDIFFIL 135

Query: 69  QLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNL 128
           ++ D                +  +  IP         + + L L  +    S+    FN 
Sbjct: 136 EITD----------------NPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQGYAFNG 178

Query: 129 EFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLK 188
             L  + L+    L  + +              A   + S        S LD+S    + 
Sbjct: 179 TKLDAVYLNKNKYLTVIDK-------------DAFGGVYSG------PSLLDVSQT-SVT 218

Query: 189 SLPS-SLYRLKSLGILDLH 206
           +LPS  L  LK L   +  
Sbjct: 219 ALPSKGLEHLKELIARNTW 237

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

 Score = 50.0 bits (120), Expect = 2e-07
 Identities = 46/256 (17%), Positives = 88/256 (34%), Gaps = 36/256 (14%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPS 64
            L  + F  +  L  L             K+S + +  F+   +++ L+     L  +P 
Sbjct: 68  ELRKDDFKGLQHLYALVL--------VNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPP 119

Query: 65  N---DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSK-SLKS 120
           N    + +L         ++          I K+P   +   ++ +  + + G+      
Sbjct: 120 NLPSSLVELR--------IH-------DNRIRKVP-KGVFSGLRNMNCIEMGGNPLENSG 163

Query: 121 LPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR-LSWL 179
              G F+   L  L +S   KL  +P+     ++ L L    I+ +      +   L  L
Sbjct: 164 FEPGAFDGLKLNYLRISEA-KLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRL 222

Query: 180 DLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP 238
            L   + ++ + + SL  L +L  L L     L R+P  L  L       L   NI ++ 
Sbjct: 223 GLGHNQ-IRMIENGSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVVYLHTNNITKVG 280

Query: 239 ESIIQLFVSGYLLLSY 254
            +       G     Y
Sbjct: 281 VNDFCPVGFGVKRAYY 296

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

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 34/223 (15%), Positives = 76/223 (34%), Gaps = 44/223 (19%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVK--YLHWHGYPLKSLPSN 65
           ++    F+ +  +  +     +  G N  + S  +   F  +K  YL      L  +P +
Sbjct: 137 KVPKGVFSGLRNMNCI----EM--GGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKD 190

Query: 66  ---DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLP 122
               + +L      +   N+         I  I    L  R  KL  L L  ++ ++ + 
Sbjct: 191 LPETLNEL------HLDHNK---------IQAIELEDL-LRYSKLYRLGLGHNQ-IRMIE 233

Query: 123 SGIF-NLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSI-------ER 172
           +G    L  L +L L    KL R+P        +  ++L    I ++  +         +
Sbjct: 234 NGSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVK 292

Query: 173 QLRLSWLDLSDCK-RLKSLPSSLYR-LKSLGILDLHGCSNLQR 213
           +   + + L +       +  + +R +     +      N ++
Sbjct: 293 RAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQF---GNYKK 332

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

 Score = 50.0 bits (120), Expect = 2e-07
 Identities = 46/212 (21%), Positives = 81/212 (38%), Gaps = 34/212 (16%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           L   +F   P+L+ L            C++  ++D  +     +  L   G P++SL   
Sbjct: 43  LGSYSFFSFPELQVLDLSR--------CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALG 94

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-G 124
               L       S L +++    +  +A +     +  +K L  LN+     ++S     
Sbjct: 95  AFSGL-------SSLQKLVAVETN--LASLE-NFPIGHLKTLKELNV-AHNLIQSFKLPE 143

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPEIS-------SGNISWLFLRGIAIEELPSSIERQLRL 176
            F NL  L  LDLS   K++ +                 L L    +  +     +++RL
Sbjct: 144 YFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRL 202

Query: 177 SWLDLSDCKRLKSLPSSLY-RLKSLGILDLHG 207
             L L   + LKS+P  ++ RL SL  + LH 
Sbjct: 203 KELALDTNQ-LKSVPDGIFDRLTSLQKIWLHT 233

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

 Score = 43.0 bits (102), Expect = 4e-05
 Identities = 26/130 (20%), Positives = 44/130 (33%), Gaps = 32/130 (24%)

Query: 115 SKSLKSLPSGIF----------------------NLEFLTKLDLSGCSKLKRLPE---IS 149
             +   +P  +                       +   L  LDLS C +++ + +    S
Sbjct: 16  ELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQS 74

Query: 150 SGNISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHG 207
             ++S L L G  I+ L       L  L  L   +   L SL +     LK+L  L++  
Sbjct: 75  LSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVA- 132

Query: 208 CSN-LQRLPE 216
             N +Q    
Sbjct: 133 -HNLIQSFKL 141

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 49.7 bits (118), Expect = 3e-07
 Identities = 25/114 (21%), Positives = 38/114 (33%), Gaps = 23/114 (20%)

Query: 95  IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNI 153
           + +   +P  + L  L +   + L+ L       L  L  L +        L  ++    
Sbjct: 21  LDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS----GLRFVAPD-- 74

Query: 154 SWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG 207
                   A    P       RLS L+LS    L+SL     +  SL  L L G
Sbjct: 75  --------AFHFTP-------RLSRLNLSFN-ALESLSWKTVQGLSLQELVLSG 112

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

 Score = 50.0 bits (120), Expect = 3e-07
 Identities = 52/245 (21%), Positives = 79/245 (32%), Gaps = 17/245 (6%)

Query: 3   KVKELRLNPNTFTKMPKLRF-LKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKS 61
               L LN N    +    F    + SL  G  +  +   +    + ++ L        +
Sbjct: 180 TNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLG-----T 234

Query: 62  LPSNDIEQLWDRVKRYSKLNQIIH-AACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKS 120
               D E +   V        +            I + T       L  L+L  +  L  
Sbjct: 235 FEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHC-FSGLQELDLTATH-LSE 292

Query: 121 LPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNIS---WLFLRG--IAIEELPSSIERQLR 175
           LPSG+  L  L KL LS   K + L +IS+ N      L ++G    +E     +E    
Sbjct: 293 LPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLEN 351

Query: 176 LSWLDLSDCK--RLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTN 233
           L  LDLS             L  L  L  L+L     L    E   +       +LA T 
Sbjct: 352 LRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTR 411

Query: 234 IERIP 238
           ++   
Sbjct: 412 LKVKD 416

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

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 31/171 (18%), Positives = 50/171 (29%), Gaps = 12/171 (7%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS 150
           +  I N T   R+  L  L+L   + +  +    F +   L  L L+    L  + E + 
Sbjct: 45  LPTIQNTTF-SRLINLTFLDLTRCQ-IYWIHEDTFQSQHRLDTLVLTAN-PLIFMAETAL 101

Query: 151 GNIS---WLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH 206
                   LF     I  +          L  L L             +  + L +LD  
Sbjct: 102 SGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQ 161

Query: 207 GCSNLQRL-PECLGQLSS--PITCNLAKTNIERIPESIIQLFVSGYLLLSY 254
               +  L  E +  L     ++ NL   +I  I        V   L    
Sbjct: 162 NN-AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGG 211

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

 Score = 44.6 bits (106), Expect = 1e-05
 Identities = 31/247 (12%), Positives = 70/247 (28%), Gaps = 54/247 (21%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAE---VKYLHWHGYPLKSLPS 64
            ++         L  L   S          +S ++ P       +K L +    +  L  
Sbjct: 119 SIDFIPLHNQKTLESLYLGS--------NHISSIKLPKGFPTEKLKVLDFQNNAIHYLSK 170

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSK-SLKSLPS 123
            D+  L                                  ++   L+L  +   +  +  
Sbjct: 171 EDMSSL----------------------------------QQATNLSLNLNGNDIAGIEP 196

Query: 124 GIFNLEFLTKLDLSGCSKLKRLPEISSG----NISWLFLRGIAIEELPSSIE---RQLRL 176
           G F+      L+  G   L  + +        ++       +  E++  ++     ++ +
Sbjct: 197 GAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSV 256

Query: 177 SWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER 236
             ++L          ++ +    L  LDL    +L  LP  L  LS+     L+    E 
Sbjct: 257 ESINLQKHYFFNISSNTFHCFSGLQELDLTAT-HLSELPSGLVGLSTLKKLVLSANKFEN 315

Query: 237 IPESIIQ 243
           + +    
Sbjct: 316 LCQISAS 322

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

 Score = 43.1 bits (102), Expect = 5e-05
 Identities = 43/260 (16%), Positives = 74/260 (28%), Gaps = 34/260 (13%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHW---HGYPLKSLPSN 65
           +   TF+++  L FL            C++ ++ +  F     L        PL  +   
Sbjct: 48  IQNTTFSRLINLTFLDLTR--------CQIYWIHEDTFQSQHRLDTLVLTANPLIFMAET 99

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI 125
            +            L  +        I+ I    L    K L  L L  +  + S+    
Sbjct: 100 ALSGP-------KALKHLFFIQTG--ISSIDFIPL-HNQKTLESLYLGSNH-ISSIKLPK 148

Query: 126 F-NLEFLTKLDLSGCSKLKRLPEISSGNIS-----WLFLRGIAIEELPSSIERQLRLSWL 179
               E L  LD      +  L +    ++       L L G  I  +            L
Sbjct: 149 GFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSL 207

Query: 180 DLSDCKRLKSLPSSL--YRLKSLGILDLHGCSNLQRLPECLGQLS--SPITCNLAKTNIE 235
           +    + L  +   L    ++SL +       +    P     L   S  + NL K    
Sbjct: 208 NFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFF 267

Query: 236 RIPESIIQLFVS-GYLLLSY 254
            I  +    F     L L+ 
Sbjct: 268 NISSNTFHCFSGLQELDLTA 287

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

 Score = 42.7 bits (101), Expect = 7e-05
 Identities = 24/117 (20%), Positives = 42/117 (35%), Gaps = 7/117 (5%)

Query: 97  NPTLMPRMKKLVILNLRG---SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNI 153
           +  L   +  L  LNL+G    K      + +  L  L  L LS C  L  + + +  ++
Sbjct: 441 SEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC-DLSSIDQHAFTSL 499

Query: 154 S---WLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG 207
                + L    +          L+  +L+L+       LPS L  L     ++L  
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQ 556

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

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 27/155 (17%), Positives = 48/155 (30%), Gaps = 13/155 (8%)

Query: 104 MKKLVILNLRGSK--SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFL 158
           ++ L  L+L      +       + NL  L  L+LS   +   L          +  L L
Sbjct: 349 LENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYN-EPLSLKTEAFKECPQLELLDL 407

Query: 159 RG--IAIEELPSSIERQLRLSWLDLSDCKRLKSLP-SSLYRLKSLGILDLHGCS---NLQ 212
               + +++  S  +    L  L+LS    L          L +L  L+L G        
Sbjct: 408 AFTRLKVKDAQSPFQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQGNHFPKGNI 466

Query: 213 RLPECLGQLSSPITCNLAKTNIERIPESIIQLFVS 247
           +    L  L       L+  ++  I +        
Sbjct: 467 QKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKM 501

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

 Score = 49.7 bits (119), Expect = 3e-07
 Identities = 31/122 (25%), Positives = 63/122 (51%), Gaps = 8/122 (6%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCS-KLKRLPEIS 149
           + ++   ++   ++ L+ L++  +   +   +GIF  L  L  L ++G S +   LP+I 
Sbjct: 408 LKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 466

Query: 150 SG--NISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDL 205
           +   N+++L L    +E+L  +    L  L  L+++   +LKS+P  ++ RL SL  + L
Sbjct: 467 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWL 525

Query: 206 HG 207
           H 
Sbjct: 526 HT 527

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

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 51/257 (19%), Positives = 98/257 (38%), Gaps = 39/257 (15%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHW---HGYPLKSLPS 64
            L   +F   P+L+ L            C++  ++D  +  + +L      G P++SL  
Sbjct: 42  HLGSYSFFSFPELQVLDLSR--------CEIQTIEDGAYQSLSHLSTLILTGNPIQSLAL 93

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
                L       S L +++    +  +A + N  +   +K L  LN+  +  ++S    
Sbjct: 94  GAFSGL-------SSLQKLVAVETN--LASLENFPIGH-LKTLKELNVAHNL-IQSFKLP 142

Query: 125 IF--NLEFLTKLDLSG-------CSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR 175
            +  NL  L  LDLS        C+ L+ L ++   N+S L L    +  +     +++R
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS-LDLSLNPMNFIQPGAFKEIR 201

Query: 176 LSWLDLSDCKRLKSLPS-SLYRLKSLGILDL-----HGCSNLQRLPE-CLGQLSSPITCN 228
           L  L L +     ++    +  L  L +  L         NL++  +  L  L +     
Sbjct: 202 LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEE 261

Query: 229 LAKTNIERIPESIIQLF 245
                ++   + II LF
Sbjct: 262 FRLAYLDYYLDDIIDLF 278

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 49.6 bits (119), Expect = 4e-07
 Identities = 32/157 (20%), Positives = 61/157 (38%), Gaps = 13/157 (8%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG 151
           I  + +     + + L I+  +    LK  P+   +L FL  L L+         +++  
Sbjct: 297 IKYLEDVPKHFKWQSLSIIRCQ----LKQFPT--LDLPFLKSLTLTMNKGSISFKKVALP 350

Query: 152 NISWLFLRGIAIEELPSSIERQLRLS---WLDLSDCKRLKSLPSSLYRLKSLGILDLHGC 208
           ++S+L L   A+          L  +    LDLS       + ++   L+ L  LD    
Sbjct: 351 SLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AIIMSANFMGLEELQHLDFQH- 408

Query: 209 SNLQRLPEC--LGQLSSPITCNLAKTNIERIPESIIQ 243
           S L+R+ E      L   +  +++ TN +   + I  
Sbjct: 409 STLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFL 445

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 48.5 bits (116), Expect = 1e-06
 Identities = 31/122 (25%), Positives = 51/122 (41%), Gaps = 8/122 (6%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS 150
           + ++   +    ++KL+ L++  +   K    GIF  L  L  L ++G S          
Sbjct: 411 LKRVTEFSAFLSLEKLLYLDISYTN-TKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVF 469

Query: 151 GNIS---WLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLYR-LKSLGILDL 205
            N +   +L L    +E++   +   L RL  L++S    L  L SS Y  L SL  LD 
Sbjct: 470 ANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYNQLYSLSTLDC 528

Query: 206 HG 207
             
Sbjct: 529 SF 530

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 29/174 (16%), Positives = 61/174 (35%), Gaps = 15/174 (8%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS- 149
           +  + + +      +L  L+L   + ++++    +  L  L+ L L+G   ++     S 
Sbjct: 44  LKILKSYSF-SNFSELQWLDLSRCE-IETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSF 100

Query: 150 --SGNISWLFLRGIAIEELPSSIERQLR-LSWLDLSDCK-RLKSLPSSLYRLKSLGILDL 205
               ++  L      +  L S    QL  L  L+++        LP+    L +L  +DL
Sbjct: 101 SGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDL 160

Query: 206 HGCSNLQRLPECLGQLSSPITC-----NLAKTNIERIPESIIQLFVSGYLLLSY 254
                +Q +     Q            +++   I+ I +   Q      L L  
Sbjct: 161 SYN-YIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRG 213

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 39.2 bits (92), Expect = 8e-04
 Identities = 23/113 (20%), Positives = 37/113 (32%), Gaps = 2/113 (1%)

Query: 132 TKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR-LSWLDLSDCKRLKSL 190
                    KL ++P+    +   + L    ++ L S        L WLDLS C+     
Sbjct: 14  ITYQCMD-QKLSKVPDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIE 72

Query: 191 PSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQ 243
             + + L  L  L L G       P     L+S       +T +  +    I 
Sbjct: 73  DKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIG 125

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

 Score = 48.3 bits (116), Expect = 7e-07
 Identities = 32/157 (20%), Positives = 59/157 (37%), Gaps = 26/157 (16%)

Query: 103 RMKKLVILNLRGSK--SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRG 160
           +  ++  L+L G        +PS + NL +L  L + G + L        G I       
Sbjct: 48  QTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNL-------VGPI------- 93

Query: 161 IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ-RLPECLG 219
                 P +I +  +L +L ++      ++P  L ++K+L  LD      L   LP  + 
Sbjct: 94  ------PPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYN-ALSGTLPPSIS 146

Query: 220 QLSSPITCNLAKTNIE-RIPESIIQLF-VSGYLLLSY 254
            L + +        I   IP+S      +   + +S 
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR 183

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

 Score = 47.5 bits (114), Expect = 1e-06
 Identities = 34/167 (20%), Positives = 61/167 (36%), Gaps = 27/167 (16%)

Query: 103 RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSG-------------CSKLKRLPEIS 149
           ++K LV L+   +    +LP  I +L  L  +   G              SKL     IS
Sbjct: 123 QIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTIS 182

Query: 150 SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCS 209
              ++     G    ++P +    L L+++DLS               K+   + L    
Sbjct: 183 RNRLT-----G----KIPPTF-ANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN- 231

Query: 210 NLQ-RLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSGYLLLSY 254
           +L   L + +G   +    +L    I   +P+ + QL     L +S+
Sbjct: 232 SLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSF 277

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

 Score = 48.6 bits (116), Expect = 8e-07
 Identities = 18/104 (17%), Positives = 40/104 (38%), Gaps = 7/104 (6%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAI 163
           +K L  L++  +     +P      E +  L+LS    ++ +       +  L +    +
Sbjct: 386 LKNLTSLDISRNT-FHPMPDSCQWPEKMRFLNLSST-GIRVVKTCIPQTLEVLDVSNNNL 443

Query: 164 EELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG 207
           +     +    RL  L +S   +LK+LP +      L ++ +  
Sbjct: 444 DSFSLFLP---RLQELYISRN-KLKTLPDASL-FPVLLVMKISR 482

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

 Score = 43.9 bits (104), Expect = 3e-05
 Identities = 36/236 (15%), Positives = 70/236 (29%), Gaps = 26/236 (11%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHW---HGYPLKSLPS 64
            +          L+ L   S         +++ ++   F  +  L         L SL S
Sbjct: 40  YIGHGDLRACANLQVLILKS--------SRINTIEGDAFYSLGSLEHLDLSDNHLSSLSS 91

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
           +    L       S L + ++         +   +L P +  L  L +   ++   +   
Sbjct: 92  SWFGPL-------SSL-KYLNLM-GNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRI 142

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPEISSG---NISWLFLRGIAIEELPSSIERQLR-LSWL 179
            F  L  L +L++     L+     S     +I  L L       L       L  + +L
Sbjct: 143 DFAGLTSLNELEIKA-LSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYL 201

Query: 180 DLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE 235
           +L D    +   S L   +    +            E   +L   +   L  + +E
Sbjct: 202 ELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVE 257

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

 Score = 40.9 bits (96), Expect = 3e-04
 Identities = 24/145 (16%), Positives = 49/145 (33%), Gaps = 11/145 (7%)

Query: 107 LVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIA 162
           +  L+L  +K +  +  G       L  L L    ++  +      S G++  L L    
Sbjct: 28  MKSLDLSFNK-ITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDNH 85

Query: 163 IEELPSSIERQLR-LSWLDLSDCKRLKSLPSS--LYRLKSLGILDLHGCSNLQRLPE-CL 218
           +  L SS    L  L +L+L      ++L  +     L +L  L +        +     
Sbjct: 86  LSSLSSSWFGPLSSLKYLNLMGNP-YQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF 144

Query: 219 GQLSSPITCNLAKTNIERIPESIIQ 243
             L+S     +   ++       ++
Sbjct: 145 AGLTSLNELEIKALSLRNYQSQSLK 169

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 47.8 bits (114), Expect = 8e-07
 Identities = 33/115 (28%), Positives = 51/115 (44%), Gaps = 8/115 (6%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNI 153
           P L   +  L +L++  ++ L SLP G    L  L +L L G ++LK LP      +  +
Sbjct: 93  PLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKL 150

Query: 154 SWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG 207
             L L    + ELP+ +   L  L  L L +   L ++P   +    L    LHG
Sbjct: 151 EKLSLANNNLTELPAGLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHG 204

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 47.0 bits (112), Expect = 2e-06
 Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 9/105 (8%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
            ++L +LP  +      T L LS  + L        +    ++ L L    + +L     
Sbjct: 19  KRNLTALPPDLPKD--TTILHLSE-NLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-G 74

Query: 172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE 216
               L  LDLS   +L+SLP     L +L +LD+     L  LP 
Sbjct: 75  TLPVLGTLDLSH-NQLQSLPLLGQTLPALTVLDVSFN-RLTSLPL 117

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

 Score = 47.8 bits (114), Expect = 1e-06
 Identities = 41/256 (16%), Positives = 88/256 (34%), Gaps = 49/256 (19%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPSN 65
           ++ +   +   L+ L   S          ++ +++  F+    +++L      L +L S+
Sbjct: 67  ISNSDLQRCVNLQALVLTS--------NGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSS 118

Query: 66  DIEQLWDRVKRYSKL-------NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL 118
             + L       S L       N             +   +L   + KL IL +    + 
Sbjct: 119 WFKPL-------SSLTFLNLLGNPYKT---------LGETSLFSHLTKLQILRVGNMDTF 162

Query: 119 KSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIERQL 174
             +    F  L FL +L++     L+        S  N+S L L       L        
Sbjct: 163 TKIQRKDFAGLTFLEELEIDAS-DLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVT 221

Query: 175 -RLSWLDLSD----CKRLKSLPS----SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPI 225
             +  L+L D          L +    SL +  +   + +    +L ++ + L Q+S  +
Sbjct: 222 SSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITD-ESLFQVMKLLNQISGLL 280

Query: 226 TCNLAKTNIERIPESI 241
               ++  ++ +P+ I
Sbjct: 281 ELEFSRNQLKSVPDGI 296

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

 Score = 40.1 bits (94), Expect = 4e-04
 Identities = 34/107 (31%), Positives = 48/107 (44%), Gaps = 10/107 (9%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
           S SL S+PSG+   E +  LDLS  +++  +         N+  L L    I  +     
Sbjct: 40  SGSLNSIPSGLT--EAVKSLDLSN-NRITYISNSDLQRCVNLQALVLTSNGINTIEEDSF 96

Query: 172 RQL-RLSWLDLSDCKRLKSLPSSLYR-LKSLGILDLHGCSNLQRLPE 216
             L  L  LDLS    L +L SS ++ L SL  L+L G    + L E
Sbjct: 97  SSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGN-PYKTLGE 141

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

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 37/213 (17%), Positives = 73/213 (34%), Gaps = 36/213 (16%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSND- 66
           R+  +TF     L+ L+  S         +++++       + + +     L +L     
Sbjct: 155 RIEDDTFQATTSLQNLQLSS--------NRLTHVDLSLIPSLFHANVSYNLLSTLAIPIA 206

Query: 67  IEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF 126
           +E+L                A H  I  +  P       +L IL L+ +  L      + 
Sbjct: 207 VEELD---------------ASHNSINVVRGPVN----VELTILKLQHNN-LTDTAW-LL 245

Query: 127 NLEFLTKLDLSGCSKLKRLPEISSGNIS---WLFLRGIAIEELPSSIERQLRLSWLDLSD 183
           N   L ++DLS   +L+++       +     L++    +  L    +    L  LDLS 
Sbjct: 246 NYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH 304

Query: 184 CKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE 216
              L  +  +  +   L  L L    ++  L  
Sbjct: 305 N-HLLHVERNQPQFDRLENLYLDHN-SIVTLKL 335

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

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 35/238 (14%), Positives = 74/238 (31%), Gaps = 33/238 (13%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPS 64
           +L         ++  L          N  ++  +    FA    ++ L+     ++ LP 
Sbjct: 59  KLPAALLDSFRQVELLNL--------NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPP 110

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
           +  + +         L  ++       ++ +P         KL  L++  +  L+ +   
Sbjct: 111 HVFQNV-------PLLTVLV--LERNDLSSLPRGIFH-NTPKLTTLSMSNNN-LERIEDD 159

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSD 183
            F     L  L LS   +L  +      ++    +    +  L   I     +  LD S 
Sbjct: 160 TFQATTSLQNLQLSSN-RLTHVDLSLIPSLFHANVSYNLLSTLAIPI----AVEELDASH 214

Query: 184 CKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESI 241
              +  +   +     L IL L    NL      L      +  +L+   +E+I    
Sbjct: 215 N-SINVVRGPV--NVELTILKLQHN-NLTDTAW-LLNYPGLVEVDLSYNELEKIMYHP 267

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 47/255 (18%), Positives = 84/255 (32%), Gaps = 24/255 (9%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLK 60
           ++ V    L   T  ++    +   +  L     K             +K L +      
Sbjct: 281 LTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK--FGQFPTLKLKSLKRLTFTSNKGG 338

Query: 61  SLPSN-DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLK 119
           +  S  D+  L           + +  + + L  K            L  L+L  +  + 
Sbjct: 339 NAFSEVDLPSL-----------EFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG-VI 386

Query: 120 SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG----NISWLFLRGIAIEELPSSIERQLR 175
           ++ S    LE L  LD      LK++ E S      N+ +L +         + I   L 
Sbjct: 387 TMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLS 445

Query: 176 -LSWLDLSDCKRLKSL-PSSLYRLKSLGILDLHGCSNLQRL-PECLGQLSSPITCNLAKT 232
            L  L ++     ++  P     L++L  LDL  C  L++L P     LSS    N++  
Sbjct: 446 SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHN 504

Query: 233 NIERIPESIIQLFVS 247
           N   +     +   S
Sbjct: 505 NFFSLDTFPYKCLNS 519

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 49/256 (19%), Positives = 94/256 (36%), Gaps = 39/256 (15%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHW---HGYPLKSLPSN 65
           L   +F   P+L+ L            C++  ++D  +  + +L      G P++SL   
Sbjct: 43  LGSYSFFSFPELQVLDLSR--------CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALG 94

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL--PS 123
               L       S L +++    +  +A + N  +   +K L  LN+  +  ++S   P 
Sbjct: 95  AFSGL-------SSLQKLVAVETN--LASLENFPIGH-LKTLKELNVAHNL-IQSFKLPE 143

Query: 124 GIFNLEFLTKLDLSGCSKLKRLPEISSGNIS-------WLFLRGIAIEELPSSIERQLRL 176
              NL  L  LDLS   K++ +       +         L L    +  +     +++RL
Sbjct: 144 YFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRL 202

Query: 177 SWLDLSDCK-RLKSLPSSLYRLKSLGILDL-----HGCSNLQRLPEC-LGQLSSPITCNL 229
             L L +    L  + + +  L  L +  L         NL++  +  L  L +      
Sbjct: 203 HKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEF 262

Query: 230 AKTNIERIPESIIQLF 245
               ++   + II LF
Sbjct: 263 RLAYLDYYLDDIIDLF 278

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 25/129 (19%), Positives = 34/129 (26%), Gaps = 23/129 (17%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQL 174
             +   +P  +        LDLS                    LR +       S     
Sbjct: 16  ELNFYKIPDNLPF--STKNLDLSFNP-----------------LRHL----GSYSFFSFP 52

Query: 175 RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI 234
            L  LDLS C+       +   L  L  L L G             LSS       +TN+
Sbjct: 53  ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNL 112

Query: 235 ERIPESIIQ 243
             +    I 
Sbjct: 113 ASLENFPIG 121

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 47.4 bits (113), Expect = 1e-06
 Identities = 46/167 (27%), Positives = 76/167 (45%), Gaps = 29/167 (17%)

Query: 59  LKSLPSN---DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGS 115
           L S+PS    D E+L     + + L  +  A    L              KL  LNL   
Sbjct: 26  LDSVPSGIPADTEKLD---LQSTGLATLSDATFRGL-------------TKLTWLNL-DY 68

Query: 116 KSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
             L++L +G+F+ L  L  L L+  ++L  LP         +  L+L G  ++ LPS + 
Sbjct: 69  NQLQTLSAGVFDDLTELGTLGLAN-NQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVF 127

Query: 172 RQL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSNLQRLPE 216
            +L +L  L L +  +L+S+P+  + +L +L  L L   + LQ +P 
Sbjct: 128 DRLTKLKELRL-NTNQLQSIPAGAFDKLTNLQTLSLST-NQLQSVPH 172

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 43.5 bits (103), Expect = 2e-05
 Identities = 33/106 (31%), Positives = 49/106 (46%), Gaps = 8/106 (7%)

Query: 115 SKSLKSLPSGI-FNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQ 173
            KSL S+PSGI  + E L  L  +G + L          ++WL L    ++ L + +   
Sbjct: 23  GKSLDSVPSGIPADTEKL-DLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDD 81

Query: 174 LR-LSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSN-LQRLPE 216
           L  L  L L++  +L SLP  ++  L  L  L L    N L+ LP 
Sbjct: 82  LTELGTLGLAN-NQLASLPLGVFDHLTQLDKLYLG--GNQLKSLPS 124

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

 Score = 47.3 bits (113), Expect = 1e-06
 Identities = 41/160 (25%), Positives = 64/160 (40%), Gaps = 17/160 (10%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS 150
           +A+I        +  L  L+L  +  L+S+    F  L  L  L L  C     L E+  
Sbjct: 68  LARIDAAAFTG-LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC----GLQELGP 122

Query: 151 G------NISWLFLRGIAIEELPSSIERQL-RLSWLDLSDCKRLKSLPSSLYR-LKSLGI 202
           G       + +L+L+  A++ LP    R L  L+ L L    R+ S+P   +R L SL  
Sbjct: 123 GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDR 181

Query: 203 LDLHGCSNLQRLPE-CLGQLSSPITCNLAKTNIERIPESI 241
           L LH    +  +       L   +T  L   N+  +P   
Sbjct: 182 LLLHQN-RVAHVHPHAFRDLGRLMTLYLFANNLSALPTEA 220

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

 Score = 43.4 bits (103), Expect = 2e-05
 Identities = 41/210 (19%), Positives = 75/210 (35%), Gaps = 31/210 (14%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHW----HGYPLKSLP 63
            +   +F     L  L  +S          ++ +    F  +  L          L+S+ 
Sbjct: 46  HVPAASFRACRNLTILWLHS--------NVLARIDAAAFTGLALLEQLDLSDNAQLRSVD 97

Query: 64  SNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS 123
                 L        +L+ +    C   + ++        +  L  L L+ +  L++LP 
Sbjct: 98  PATFHGL-------GRLHTLHLDRCG--LQELGPGLFR-GLAALQYLYLQDNA-LQALPD 146

Query: 124 GIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIERQL-RLSW 178
             F +L  LT L L G +++  +PE       ++  L L    +  +     R L RL  
Sbjct: 147 DTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMT 205

Query: 179 LDLSDCKRLKSLPSSLYR-LKSLGILDLHG 207
           L L     L +LP+     L++L  L L+ 
Sbjct: 206 LYLFANN-LSALPTEALAPLRALQYLRLND 234

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

 Score = 43.1 bits (102), Expect = 4e-05
 Identities = 30/131 (22%), Positives = 59/131 (45%), Gaps = 10/131 (7%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
            + L+++P GI       ++ L G +++  +P     +  N++ L+L    +  + ++  
Sbjct: 20  QQGLQAVPVGIP--AASQRIFLHG-NRISHVPAASFRACRNLTILWLHSNVLARIDAAAF 76

Query: 172 RQL-RLSWLDLSDCKRLKSLPSS-LYRLKSLGILDLHGCSNLQRLPE-CLGQLSSPITCN 228
             L  L  LDLSD  +L+S+  +  + L  L  L L  C  LQ L       L++     
Sbjct: 77  TGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLY 135

Query: 229 LAKTNIERIPE 239
           L    ++ +P+
Sbjct: 136 LQDNALQALPD 146

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

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 49/212 (23%), Positives = 85/212 (40%), Gaps = 28/212 (13%)

Query: 5   KELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF---AEVKYLHWHGYPLKS 61
            +  L   + T       L     +    +  K       G      V+YL   G  L  
Sbjct: 22  IKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSV----QGIQYLPNVRYLALGGNKLHD 77

Query: 62  LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL 121
           + +    +L +        NQ+           +P   +  ++  L  L L     L+SL
Sbjct: 78  ISALK--ELTNLTYLILTGNQL---------QSLP-NGVFDKLTNLKELVLV-ENQLQSL 124

Query: 122 PSGIFN-LEFLTKLDLSGCSKLKRLPEI---SSGNISWLFLRGIAIEELPSSI-ERQLRL 176
           P G+F+ L  LT L+L+  ++L+ LP+       N++ L L    ++ LP  + ++  +L
Sbjct: 125 PDGVFDKLTNLTYLNLAH-NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQL 183

Query: 177 SWLDLSDCKRLKSLPSSLY-RLKSLGILDLHG 207
             L L    +LKS+P  ++ RL SL  + LH 
Sbjct: 184 KDLRLYQ-NQLKSVPDGVFDRLTSLQYIWLHD 214

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 47.1 bits (112), Expect = 2e-06
 Identities = 38/255 (14%), Positives = 80/255 (31%), Gaps = 48/255 (18%)

Query: 1   MSKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLK 60
           +S ++ L LN N   ++     ++   +L    N   +S +        K ++     + 
Sbjct: 79  LSTLRTLDLNNNYVQELLVGPSIE---TLHAANNN--ISRVSCSRGQGKKNIYLANNKIT 133

Query: 61  SLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKS 120
            L   D           S++ Q +       I  +    L      L  LNL+ +  +  
Sbjct: 134 MLRDLDEGCR-------SRV-QYLDLK-LNEIDTVNFAELAASSDTLEHLNLQYNF-IYD 183

Query: 121 LPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLD 180
           +   +     L  LDLS                         +  +    +    ++W+ 
Sbjct: 184 VKGQVV-FAKLKTLDLSSNK----------------------LAFMGPEFQSAAGVTWIS 220

Query: 181 LSDCKRLKSLPSSLYRLKSLGILDLHG----CSNLQRLPECLGQLSSPITCNLAKTNIER 236
           L + K L  +  +L   ++L   DL G    C  L+       ++       +AK  +++
Sbjct: 221 LRNNK-LVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQ-----TVAKQTVKK 274

Query: 237 IPESIIQLFVSGYLL 251
           +     +      L 
Sbjct: 275 LTGQNEEECTVPTLG 289

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

 Score = 46.8 bits (111), Expect = 2e-06
 Identities = 22/111 (19%), Positives = 43/111 (38%), Gaps = 17/111 (15%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG-------NISWLFLRGIAIEELP 167
            + L ++P  + +  +   LDLS       L  + +        N+  L L    +  + 
Sbjct: 27  KQQLPNVPQSLPS--YTALLDLSHN----NLSRLRAEWTPTRLTNLHSLLLSHNHLNFIS 80

Query: 168 SSIERQLR-LSWLDLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE 216
           S     +  L +LDLS    L +L       L++L +L L+   ++  +  
Sbjct: 81  SEAFVPVPNLRYLDLSSNH-LHTLDEFLFSDLQALEVLLLYNN-HIVVVDR 129

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

 Score = 45.2 bits (107), Expect = 9e-06
 Identities = 30/149 (20%), Positives = 54/149 (36%), Gaps = 21/149 (14%)

Query: 109 ILNLRGSKSLKSLPSGIF--NLEFLTKLDLSGCSKLKRLPEISSG------NISWLFLRG 160
           +L+L  +  L  L +      L  L  L LS       L  ISS       N+ +L L  
Sbjct: 43  LLDLSHNN-LSRLRAEWTPTRLTNLHSLLLSHN----HLNFISSEAFVPVPNLRYLDLSS 97

Query: 161 IAIEELPSSIERQL-RLSWLDLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPE-- 216
             +  L   +   L  L  L L +   +  +   +   +  L  L L     + R P   
Sbjct: 98  NHLHTLDEFLFSDLQALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYLSQN-QISRFPVEL 155

Query: 217 --CLGQLSSPITCNLAKTNIERIPESIIQ 243
                +L   +  +L+   ++++P + +Q
Sbjct: 156 IKDGNKLPKLMLLDLSSNKLKKLPLTDLQ 184

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

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 47/244 (19%), Positives = 83/244 (34%), Gaps = 36/244 (14%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGE-NKCKMSYLQDPGFA---EVKYLHWHGYPLKSLP 63
            L  ++   +  +R+L    S      +   +  + D  F     +++L+     +  + 
Sbjct: 286 HLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIK 345

Query: 64  SNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKSLKSLP 122
           SN    L         L  +  +     +  + N T +      L ILNL  +K +  + 
Sbjct: 346 SNMFTGL-------INLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNK-ISKIE 397

Query: 123 SGIF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDL 181
           S  F  L  L  LDL          EI         L G     L +       +  + L
Sbjct: 398 SDAFSWLGHLEVLDLGLN-------EIGQ------ELTGQEWRGLEN-------IFEIYL 437

Query: 182 SDCKRLKSLPSSLYRLKSLGILDLHGC--SNLQRLPECLGQLSSPITCNLAKTNIERIPE 239
           S  K L+   +S   + SL  L L      N+   P     L +    +L+  NI  I +
Sbjct: 438 SYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANIND 497

Query: 240 SIIQ 243
            +++
Sbjct: 498 DMLE 501

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

 Score = 42.7 bits (101), Expect = 6e-05
 Identities = 29/156 (18%), Positives = 51/156 (32%), Gaps = 12/156 (7%)

Query: 98  PTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG---NI 153
                    L  L+L  +  ++ + +  F   + L  LDLS    L      +     N+
Sbjct: 90  DKTFAFCTNLTELHLMSNS-IQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENL 147

Query: 154 SWLFLRGIAIEELPSSIERQLRLS---WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN 210
             L L    I+ L S        S    L+LS  +  +  P   + +  L  L L+    
Sbjct: 148 QELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQL 207

Query: 211 LQRLPECLG---QLSSPITCNLAKTNIERIPESIIQ 243
              L E L      +S    +L+ + +     +   
Sbjct: 208 GPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFL 243

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

 Score = 42.7 bits (101), Expect = 7e-05
 Identities = 38/253 (15%), Positives = 71/253 (28%), Gaps = 56/253 (22%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEV-----KYLHWHGYPLKSLP 63
               T  ++  L+ L   +         K+  L+            K L      +K   
Sbjct: 136 TKLGTQVQLENLQELLLSN--------NKIQALKSEELDIFANSSLKKLELSSNQIKEFS 187

Query: 64  SNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP-NPTLMPRMKKLVILNLRGSKSLKSLP 122
                 +        +L   +     +L   +     L      +  L+L  S  L +  
Sbjct: 188 PGCFHAI-------GRL-FGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNS-QLSTTS 238

Query: 123 SGIF-NLEF--LTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWL 179
           +  F  L++  LT LDLS       L  + + + +WL                  +L + 
Sbjct: 239 NTTFLGLKWTNLTMLDLSYN----NLNVVGNDSFAWLP-----------------QLEYF 277

Query: 180 DLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL---------PECLGQLSSPITCNLA 230
            L           SL+ L ++  L+L      Q +               L      N+ 
Sbjct: 278 FLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNME 337

Query: 231 KTNIERIPESIIQ 243
             +I  I  ++  
Sbjct: 338 DNDIPGIKSNMFT 350

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 46.7 bits (110), Expect = 3e-06
 Identities = 32/189 (16%), Positives = 58/189 (30%), Gaps = 7/189 (3%)

Query: 59  LKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL 118
            K L   + E  W  +     +  +      K   +  +        +   L+   SK L
Sbjct: 371 CKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL 430

Query: 119 KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIAIEELPSSIERQLRLS 177
                       +  L L+    L  L  +     ++ L L    +  LP ++     L 
Sbjct: 431 LENSVLKMEYADVRVLHLAHK-DLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLE 489

Query: 178 WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE--CLGQLSSPITCNLAKTNIE 235
            L  SD   L+++   +  L  L  L L     LQ+      L      +  NL   ++ 
Sbjct: 490 VLQASDN-ALENVD-GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGNSLC 546

Query: 236 RIPESIIQL 244
           +      +L
Sbjct: 547 QEEGIQERL 555

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

 Score = 44.8 bits (106), Expect = 2e-05
 Identities = 33/174 (18%), Positives = 62/174 (35%), Gaps = 16/174 (9%)

Query: 92  IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE--- 147
           I  +   +  P +++L +L L    +  ++    F NL  L  LDL    K+  L     
Sbjct: 36  IRTVTASSF-PFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS-KIYFLHPDAF 93

Query: 148 ISSGNISWLFLRGIAIEEL---PSSIERQLRLSWLDLSDCKRLKSLP--SSLYRLKSLGI 202
               ++  L L    + +             L+ LDLS  + ++SL    S  +L SL  
Sbjct: 94  QGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQ-IRSLYLHPSFGKLNSLKS 152

Query: 203 LDLHGCSNLQRLPEC-LGQLSSP--ITCNLAKTNIERIPESIIQLFVSGYLLLS 253
           +D      +  + E  L  L        +LA  ++           ++ +  + 
Sbjct: 153 IDFSSN-QIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMV 205

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

 Score = 39.8 bits (93), Expect = 7e-04
 Identities = 40/246 (16%), Positives = 82/246 (33%), Gaps = 31/246 (12%)

Query: 5   KELRLNPNTFTKMPKLRFLK----FYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLK 60
            +  L    F  +  L  L        SL+   +  K++ L+         + +    + 
Sbjct: 110 SDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLK--------SIDFSSNQIF 161

Query: 61  SLPSNDIEQLWDRVKRYSKLNQI-IHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLK 119
            +  +++E L  +   +  L    +++       K  NP    R   L IL++ G+    
Sbjct: 162 LVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPF---RNMVLEILDVSGNG-WT 217

Query: 120 SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLR---L 176
              +G F+         +  SK +    I + +I         I++   +    L    +
Sbjct: 218 VDITGNFS---------NAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSV 268

Query: 177 SWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE-CLGQLSSPITCNLAKTNIE 235
             LDLS              LK L +L+L     + ++ +     L +    NL+   + 
Sbjct: 269 RHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN-KINKIADEAFYGLDNLQVLNLSYNLLG 327

Query: 236 RIPESI 241
            +  S 
Sbjct: 328 ELYSSN 333

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.5 bits (104), Expect = 2e-05
 Identities = 30/215 (13%), Positives = 73/215 (33%), Gaps = 71/215 (33%)

Query: 42  QDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLM 101
           + P      Y+               ++L++  + ++K N                   +
Sbjct: 103 RQPSMMTRMYIEQR------------DRLYNDNQVFAKYN-------------------V 131

Query: 102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI 161
            R++    L LR  ++L  L       + +    + G  K            +W+     
Sbjct: 132 SRLQP--YLKLR--QALLELRPA----KNVLIDGVLGSGK------------TWV----- 166

Query: 162 AIEELPSSIERQLRLS----WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
           A++    S + Q ++     WL+L +C   +++   L +L  L  +D +  S        
Sbjct: 167 ALDVC-LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL--LYQIDPNWTSRSDHSS-- 221

Query: 218 LGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL 252
               +  +  +  +  + R+ +S  + + +  L+L
Sbjct: 222 ----NIKLRIHSIQAELRRLLKS--KPYENCLLVL 250

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 44.1 bits (104), Expect = 3e-05
 Identities = 37/245 (15%), Positives = 83/245 (33%), Gaps = 38/245 (15%)

Query: 8   RLNPNTFTKMPKLRFLKFY--------SSLFNGE--------NKCKMSYLQDPGFAEVKY 51
            L    F   PKL  L              F           +  +++++       + +
Sbjct: 137 SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFH 196

Query: 52  LHWHGYPLKSLPSND-IEQLWDRVKRYSKLNQIIHAACHKLIA------KIPNPTLMPRM 104
            +     L +L     +E+L      ++ +N +      +L         + +   +   
Sbjct: 197 ANVSYNLLSTLAIPIAVEELDA---SHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNY 253

Query: 105 KKLVILNLRGSKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGI 161
             LV ++L  ++ L+ +    F  ++ L +L +S  ++L  L         +  L L   
Sbjct: 254 PGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISN-NRLVALNLYGQPIPTLKVLDLSHN 311

Query: 162 AIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG----CSNLQRLPEC 217
            +  +  +  +  RL  L L     + +L  S     +L  L L      C++L+ L   
Sbjct: 312 HLLHVERNQPQFDRLENLYLDHN-SIVTLKLST--HHTLKNLTLSHNDWDCNSLRALFRN 368

Query: 218 LGQLS 222
           + + +
Sbjct: 369 VARPA 373

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.0 bits (101), Expect = 6e-05
 Identities = 33/240 (13%), Positives = 77/240 (32%), Gaps = 34/240 (14%)

Query: 9   LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEV---KYLHWHGYPLKSLPSN 65
           L P+ F  +P L  L           +  +S L    F        L      L+ +  +
Sbjct: 114 LPPHVFQNVPLLTVLVL--------ERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDD 165

Query: 66  DIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI 125
             +         + L Q +  +    +  +    +      L   N+  +  L +L    
Sbjct: 166 TFQAT-------TSL-QNLQLS-SNRLTHVDLSLI----PSLFHANVSYNL-LSTLA--- 208

Query: 126 FNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCK 185
                + +LD S    +  +    +  ++ L L+   + +    +     L  +DLS   
Sbjct: 209 -IPIAVEELDASHN-SINVVRGPVNVELTILKLQHNNLTDTA-WLLNYPGLVEVDLSYN- 264

Query: 186 RLKSLP-SSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQL 244
            L+ +      +++ L  L +   + L  L      + +    +L+  ++  +  +  Q 
Sbjct: 265 ELEKIMYHPFVKMQRLERLYISN-NRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQF 323

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 36/207 (17%), Positives = 73/207 (35%), Gaps = 27/207 (13%)

Query: 2   SKVKELRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKS 61
             +    ++ N  + +     ++    L    N   ++ ++ P   E+  L         
Sbjct: 192 PSLFHANVSYNLLSTLAIPIAVE---ELDASHNS--INVVRGPVNVELTILK-------- 238

Query: 62  LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL 121
           L  N++      +  Y  L ++  +  +  + KI       +M++L  L +  ++ L +L
Sbjct: 239 LQHNNLTDT-AWLLNYPGLVEVDLS--YNELEKIMYHPF-VKMQRLERLYISNNR-LVAL 293

Query: 122 PSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIERQLRLSWL 179
                 +  L  LDLS    L  +         +  L+L   +I  L  S    L+   L
Sbjct: 294 NLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHHTLK--NL 350

Query: 180 DLSD----CKRLKSLPSSLYRLKSLGI 202
            LS     C  L++L  ++ R      
Sbjct: 351 TLSHNDWDCNSLRALFRNVARPAVDDA 377

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 40.3 bits (94), Expect = 4e-04
 Identities = 30/263 (11%), Positives = 72/263 (27%), Gaps = 53/263 (20%)

Query: 8   RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFA---EVKYLHWHGYPLKSLPS 64
           +L         ++  L          N  ++  +    FA    ++ L+     ++ LP 
Sbjct: 65  KLPAALLDSFRQVELLNL--------NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPP 116

Query: 65  NDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSG 124
           +  + +         L  ++       ++ +P         KL  L++  +  L+ +   
Sbjct: 117 HVFQNV-------PLL-TVLVLE-RNDLSSLPRGIFH-NTPKLTTLSMSNNN-LERIEDD 165

Query: 125 IF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSD 183
            F     L  L LS   +L  +      ++    +    +  L   I     +  LD S 
Sbjct: 166 TFQATTSLQNLQLSSN-RLTHVDLSLIPSLFHANVSYNLLSTLAIPI----AVEELDASH 220

Query: 184 CKRLKSLPSSLYRLKSLGILDLH-----------GCSNLQRL-----------PECLGQL 221
              +  +   +     L IL L                L  +                ++
Sbjct: 221 N-SINVVRGPV--NVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKM 277

Query: 222 SSPITCNLAKTNIERIPESIIQL 244
                  ++   +  +      +
Sbjct: 278 QRLERLYISNNRLVALNLYGQPI 300

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 43.7 bits (103), Expect = 3e-05
 Identities = 29/120 (24%), Positives = 56/120 (46%), Gaps = 8/120 (6%)

Query: 103 RMKKLVILNLRGSKSLKSLP--SGIF-NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLR 159
            + +L  L L+ ++ LK L   + +   ++ L +LD+S  S      +        L   
Sbjct: 346 HLTELETLILQMNQ-LKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSL 404

Query: 160 GIAIEELPSSIERQL--RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC 217
            ++   L  +I R L  R+  LDL   K +KS+P  + +L++L  L++     L+ +P+ 
Sbjct: 405 NMSSNILTDTIFRCLPPRIKVLDLHSNK-IKSIPKQVVKLEALQELNVASN-QLKSVPDG 462

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 33/145 (22%), Positives = 55/145 (37%), Gaps = 13/145 (8%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNIS---WLFLRGIAIEELPSSIE 171
              L  +P  +      T L++S  + +  L      ++S    L +    I+ L  S+ 
Sbjct: 9   KNGLIHVPKDLSQK--TTILNISQ-NYISELWTSDILSLSKLRILIISHNRIQYLDISVF 65

Query: 172 RQLR-LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC--LGQLSSPITCN 228
           +  + L +LDLS  K L  +        +L  LDL        LP C   G +S      
Sbjct: 66  KFNQELEYLDLSHNK-LVKISCH--PTVNLKHLDLSFN-AFDALPICKEFGNMSQLKFLG 121

Query: 229 LAKTNIERIPESIIQLFVSGYLLLS 253
           L+ T++E+     I       +LL 
Sbjct: 122 LSTTHLEKSSVLPIAHLNISKVLLV 146

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 42.4 bits (100), Expect = 4e-05
 Identities = 36/127 (28%), Positives = 59/127 (46%), Gaps = 4/127 (3%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQL 174
           SK   S+P+GI     +  L  +  +KL+     S  N+  L+L    +  LP  +   L
Sbjct: 28  SKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSL 87

Query: 175 R-LSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT 232
             L+ LDL    +L  LPS+++ RL  L  L +  C+ L  LP  + +L+      L + 
Sbjct: 88  TQLTVLDLGT-NQLTVLPSAVFDRLVHLKELFMC-CNKLTELPRGIERLTHLTHLALDQN 145

Query: 233 NIERIPE 239
            ++ IP 
Sbjct: 146 QLKSIPH 152

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 42.0 bits (99), Expect = 6e-05
 Identities = 30/105 (28%), Positives = 56/105 (53%), Gaps = 6/105 (5%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQL 174
           S+   S+P+GI        L+ +    L         +++ L+L G  ++ LP+ +  +L
Sbjct: 16  SQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKL 75

Query: 175 R-LSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSN-LQRLPE 216
             L++L+LS   +L+SLP+ ++ +L  L  L L+  +N LQ LP+
Sbjct: 76  TSLTYLNLS-TNQLQSLPNGVFDKLTQLKELALN--TNQLQSLPD 117

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 41.1 bits (97), Expect = 9e-05
 Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 9/106 (8%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIEELPSSIER 172
           +K LK LP GI     +T+L L G ++   +P+  S   +++ + L    I  L +    
Sbjct: 19  NKGLKVLPKGIP--RDVTELYLDG-NQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFS 75

Query: 173 QL-RLSWLDLSDCKRLKSLPSSLY-RLKSLGILDLHGCSNLQRLPE 216
            + +L  L LS   RL+ +P   +  LKSL +L LHG +++  +PE
Sbjct: 76  NMTQLLTLILSY-NRLRCIPPRTFDGLKSLRLLSLHG-NDISVVPE 119

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 26/141 (18%), Positives = 53/141 (37%), Gaps = 10/141 (7%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAI 163
           + KL  L+   +  L  +   + +   L      GC K+K L    +  +  L  +   I
Sbjct: 253 LSKLTTLHCIQTD-LLEID--LTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGI 309

Query: 164 EELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSS 223
            EL   + +  +L +L L++ + L  L  S      L  L      ++Q     +G++ +
Sbjct: 310 TELD--LSQNPKLVYLYLNNTE-LTELDVS--HNTKLKSLSCVNA-HIQDFSS-VGKIPA 362

Query: 224 PITCNLAKTNIERIPESIIQL 244
                 A+     +P+  +  
Sbjct: 363 LNNNFEAEGQTITMPKETLTN 383

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

 Score = 41.4 bits (98), Expect = 1e-04
 Identities = 26/137 (18%), Positives = 51/137 (37%), Gaps = 8/137 (5%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIA 162
           + K+  LNL  +    S  S + N+  L  L ++   K+K +  I++  ++  L L    
Sbjct: 131 LTKMYSLNLGANH-NLSDLSPLSNMTGLNYLTVTES-KVKDVTPIANLTDLYSLSLNYNQ 188

Query: 163 IEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLS 222
           IE++ S +     L +      + +  +   +  +  L  L +     +  L   L  LS
Sbjct: 189 IEDI-SPLASLTSLHYFTAYVNQ-ITDIT-PVANMTRLNSLKIGNN-KITDLSP-LANLS 243

Query: 223 SPITCNLAKTNIERIPE 239
                 +    I  I  
Sbjct: 244 QLTWLEIGTNQISDINA 260

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 28/107 (26%), Positives = 46/107 (42%), Gaps = 10/107 (9%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNISWLFLRGIAIEELPSSIE 171
            K L  +P+ +   E +T++ L   + +K +P         +  + L    I EL     
Sbjct: 20  GKGLTEIPTNLP--ETITEIRLEQ-NTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAF 76

Query: 172 RQLR-LSWLDLSDCKRLKSLPSSL-YRLKSLGILDLHGCSNLQRLPE 216
           + LR L+ L L   K +  LP SL   L SL +L L+  + +  L  
Sbjct: 77  QGLRSLNSLVLYGNK-ITELPKSLFEGLFSLQLLLLNA-NKINCLRV 121

>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 Length = 176

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 16/106 (15%), Positives = 37/106 (34%), Gaps = 11/106 (10%)

Query: 116 KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRG------IAIEELP 167
           K    LP+G  +   +  +D +    +    +   G   +  + L          +E L 
Sbjct: 48  KDYNHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLS 107

Query: 168 SSIERQLRLSWLDLSDCKRL--KSLPSSLYRLKSLGILDLHGCSNL 211
                Q  +  +++  C  +  K +  +L+  ++L  L L     +
Sbjct: 108 QLENLQKSMLEMEIISCGNVTDKGI-IALHHFRNLKYLFLSDLPGV 152

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 15/108 (13%), Positives = 39/108 (36%), Gaps = 11/108 (10%)

Query: 115 SKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS----GNISWLFLRGIAIEELPSSI 170
           ++ L  +P  I   ++  +L L+  ++   L           +  +      I ++    
Sbjct: 20  NQKLNKIPEHIP--QYTAELRLNN-NEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGA 76

Query: 171 ERQL-RLSWLDLSDCKRLKSLPSSL-YRLKSLGILDLHGCSNLQRLPE 216
                 ++ + L+   RL+++   +   L+SL  L L     +  +  
Sbjct: 77  FEGASGVNEILLTS-NRLENVQHKMFKGLESLKTLMLRSN-RITCVGN 122

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 39.6 bits (93), Expect = 3e-04
 Identities = 23/136 (16%), Positives = 47/136 (34%), Gaps = 6/136 (4%)

Query: 104 MKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNISWLFLRGIA 162
           M  L  + L     +  L +GI     +  L ++          IS   N+  L + G  
Sbjct: 43  MNSLTYITLANIN-VTDL-TGIEYAHNIKDLTINNI-HATNYNPISGLSNLERLRIMGKD 99

Query: 163 I-EELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL 221
           +  +   ++     L+ LD+S      S+ + +  L  +  +DL     +  +   L  L
Sbjct: 100 VTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDI-MPLKTL 158

Query: 222 SSPITCNLAKTNIERI 237
               + N+    +   
Sbjct: 159 PELKSLNIQFDGVHDY 174

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 39.9 bits (93), Expect = 4e-04
 Identities = 26/124 (20%), Positives = 50/124 (40%), Gaps = 11/124 (8%)

Query: 99  TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR--LPEISSG--NIS 154
            ++ +  KL  L+L G +    + + +     L +L+LSGCS      L  + S    + 
Sbjct: 112 GILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD 171

Query: 155 WLFLRG---IAIEELPSSIERQLR-LSWLDLSDCKRL---KSLPSSLYRLKSLGILDLHG 207
            L L        + +  ++      ++ L+LS  ++      L + + R  +L  LDL  
Sbjct: 172 ELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSD 231

Query: 208 CSNL 211
              L
Sbjct: 232 SVML 235

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	254
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.96
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.95
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.94
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.93
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.93
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.93
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.93
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.93
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.93
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.92
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.92
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.92
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.92
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.92
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.92
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.92
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.92
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.92
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.92
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.92
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.91
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.91
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.91
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.91
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.91
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.91
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.9
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.9
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.9
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.9
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.9
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.9
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.9
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.9
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.89
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.89
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.89
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.89
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.88
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.88
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.87
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.87
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.87
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.87
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.87
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.87
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.87
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.87
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.86
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.86
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.86
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.86
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.85
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.85
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.85
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.85
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.85
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.85
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.85
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.85
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.85
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.85
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.84
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.84
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.83
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.83
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.82
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.81
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.81
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.81
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.81
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.79
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.79
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.78
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.78
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.78
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.77
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.76
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.76
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.76
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.75
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.75
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.75
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.75
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.74
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.73
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.73
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.73
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.72
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.72
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.71
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.7
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.7
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.69
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.69
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.69
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.68
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.67
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.67
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.66
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.65
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.65
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.65
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.65
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.64
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.64
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.59
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.58
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.58
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.57
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.57
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.55
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.55
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.54
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.54
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.52
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.52
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.51
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.47
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.47
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.46
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.44
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.44
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.43
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.43
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.41
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.34
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.34
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.33
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.33
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.33
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.27
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.17
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.13
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.12
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.1
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.09
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.91
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.8
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.69
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.62
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.5
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.45
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.44
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.41
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.24
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.19
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.12
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.11
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.03
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.9
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.45
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.36
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	96.84
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.42
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.22

>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=99.96  E-value=1e-27  Score=196.99  Aligned_cols=217  Identities=23%  Similarity=0.296  Sum_probs=192.4

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      .+++++|+++++.+       ..+|..+.. ++|++|++++|.++.+|..        +..+++|++|+++++.  ...+
T Consensus        80 ~~~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           80 QPGRVALELRSVPL-------PQFPDQAFRLSHLQHMTIDAAGLMELPDT--------MQQFAGLETLTLARNP--LRAL  142 (328)
T ss_dssp             STTCCEEEEESSCC-------SSCCSCGGGGTTCSEEEEESSCCCCCCSC--------GGGGTTCSEEEEESCC--CCCC
T ss_pred             ccceeEEEccCCCc-------hhcChhhhhCCCCCEEECCCCCccchhHH--------HhccCCCCEEECCCCc--cccC
Confidence            47899999999998       456777777 9999999999998888865        7889999999999876  4477


Q ss_pred             CCCCccCCcccccEEeccCCcCCCccCCCCCC---------CCcccEEeccCCCCCccccccc--cCCcCeEeccccccc
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFN---------LEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE  164 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~---------l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~  164 (254)
                      |.  .+..+++|++|++++|.+.+.+|..+..         +++|+.|++++|.+. .+|...  .++|+.|++++|.++
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~  219 (328)
T 4fcg_A          143 PA--SIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRNSPLS  219 (328)
T ss_dssp             CG--GGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCC-CCCGGGGGCTTCCEEEEESSCCC
T ss_pred             cH--HHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcC-cchHhhcCCCCCCEEEccCCCCC
Confidence            76  8999999999999999888888877654         999999999998766 666543  479999999999999


Q ss_pred             ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhh
Q 042890          165 ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQ  243 (254)
Q Consensus       165 ~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~  243 (254)
                      .+|..+..+++|+.|++++|.+.+.+|..++++++|+.|++++|+..+.+|..+..+++|+.|++++|.+. .+|..+..
T Consensus       220 ~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~  299 (328)
T 4fcg_A          220 ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQ  299 (328)
T ss_dssp             CCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGG
T ss_pred             cCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999998875 89999999


Q ss_pred             hcccCccccc
Q 042890          244 LFVSGYLLLS  253 (254)
Q Consensus       244 ~~~L~~L~ls  253 (254)
                      +++|+.+++.
T Consensus       300 L~~L~~l~l~  309 (328)
T 4fcg_A          300 LPANCIILVP  309 (328)
T ss_dssp             SCTTCEEECC
T ss_pred             ccCceEEeCC
Confidence            9999988764

>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=99.95  E-value=1.5e-26  Score=209.77  Aligned_cols=229  Identities=21%  Similarity=0.264  Sum_probs=161.8

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCC-CCCCcchhhcchhhhcccccceehhh
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLK-SLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~-~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      ..+..|..+++|++|++++|.+.+      ..|..+.. ++|++|++.+|.+. .+|.        .+..+++|++|+++
T Consensus       409 ~~p~~l~~l~~L~~L~Ls~N~l~~------~~p~~l~~l~~L~~L~L~~n~l~~~~p~--------~~~~l~~L~~L~L~  474 (768)
T 3rgz_A          409 KIPPTLSNCSELVSLHLSFNYLSG------TIPSSLGSLSKLRDLKLWLNMLEGEIPQ--------ELMYVKTLETLILD  474 (768)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEES------CCCGGGGGCTTCCEEECCSSCCCSCCCG--------GGGGCTTCCEEECC
T ss_pred             ccCHHHhcCCCCCEEECcCCcccC------cccHHHhcCCCCCEEECCCCcccCcCCH--------HHcCCCCceEEEec
Confidence            344556667777777777776632      23334444 66777777777654 3333        35667777777777


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEeccccccc
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE  164 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~  164 (254)
                      ++.. .+.+|.  .+..+++|++|++++|.+.+.+|..+..+++|+.|++++|.+.+..|...  .++|+.|++++|.++
T Consensus       475 ~N~l-~~~~p~--~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  551 (768)
T 3rgz_A          475 FNDL-TGEIPS--GLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN  551 (768)
T ss_dssp             SSCC-CSCCCG--GGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEE
T ss_pred             CCcc-cCcCCH--HHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccC
Confidence            6543 234554  66677777777777777666677767777777777777777666666543  366777777777665


Q ss_pred             -ccchhh----------------------------------------------------------------------hhc
Q 042890          165 -ELPSSI----------------------------------------------------------------------ERQ  173 (254)
Q Consensus       165 -~l~~~~----------------------------------------------------------------------~~~  173 (254)
                       .+|..+                                                                      ..+
T Consensus       552 g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l  631 (768)
T 3rgz_A          552 GTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNN  631 (768)
T ss_dssp             SBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSS
T ss_pred             CcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhcc
Confidence             444332                                                                      224


Q ss_pred             cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcccCcccc
Q 042890          174 LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSGYLLL  252 (254)
Q Consensus       174 ~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~l  252 (254)
                      ++|+.|++++|.+.+.+|..++.++.|+.|++++|.+.+.+|..++.+++|+.|++++|.+. .+|..+..+++|++|++
T Consensus       632 ~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~l  711 (768)
T 3rgz_A          632 GSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL  711 (768)
T ss_dssp             BCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEEC
T ss_pred             ccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEEC
Confidence            56788888888888888888888888888888888888888888888888888888888887 78888888888888888


Q ss_pred             cC
Q 042890          253 SY  254 (254)
Q Consensus       253 s~  254 (254)
                      ++
T Consensus       712 s~  713 (768)
T 3rgz_A          712 SN  713 (768)
T ss_dssp             CS
T ss_pred             cC
Confidence            75

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

Probab=99.94  E-value=9e-27  Score=190.18  Aligned_cols=226  Identities=16%  Similarity=0.177  Sum_probs=166.4

Q ss_pred             CCcccCCCCcceEEEeec-cccCCCccCcccccCCCCC-CceeeeeeCCCCCC-CCCCcchhhcchhhhcccccceehhh
Q 042890           10 NPNTFTKMPKLRFLKFYS-SLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLK-SLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~-~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~-~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      .+.+|+++++|++|++++ +.+.      ...|..+.. ++|++|++++|.+. .+|..        +..+++|++|+++
T Consensus        68 ~~~~l~~l~~L~~L~L~~~n~l~------~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~--------~~~l~~L~~L~Ls  133 (313)
T 1ogq_A           68 IPSSLANLPYLNFLYIGGINNLV------GPIPPAIAKLTQLHYLYITHTNVSGAIPDF--------LSQIKTLVTLDFS  133 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEE------SCCCGGGGGCTTCSEEEEEEECCEEECCGG--------GGGCTTCCEEECC
T ss_pred             cChhHhCCCCCCeeeCCCCCccc------ccCChhHhcCCCCCEEECcCCeeCCcCCHH--------HhCCCCCCEEeCC
Confidence            355677788888888884 6662      234445555 78888888888765 44443        6778888888888


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCC-cccEEeccCCCCCccccccc-cCCcCeEeccccccc
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLE-FLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIE  164 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~  164 (254)
                      ++.. .+.+|.  .+..+++|++|++++|.+.+.+|..+..++ +|+.|++++|.+.+..|... ...|+.|++++|.++
T Consensus       134 ~N~l-~~~~p~--~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~L~~L~Ls~N~l~  210 (313)
T 1ogq_A          134 YNAL-SGTLPP--SISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLE  210 (313)
T ss_dssp             SSEE-ESCCCG--GGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEE
T ss_pred             CCcc-CCcCCh--HHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCcccEEECcCCccc
Confidence            6552 224555  777888888888888887667777777776 88888888877665655443 234888888888877


Q ss_pred             -ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhh
Q 042890          165 -ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESII  242 (254)
Q Consensus       165 -~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~  242 (254)
                       ..|..+..+++|+.|++++|.+.+.++. +..+++|+.|++++|.+.+.+|..+..+++|+.|++++|.+. .+|.. .
T Consensus       211 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~-~  288 (313)
T 1ogq_A          211 GDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-G  288 (313)
T ss_dssp             ECCGGGCCTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS-T
T ss_pred             CcCCHHHhcCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCC-c
Confidence             4555677788888888888887666554 677888888888888887788888888888888888888887 66654 7


Q ss_pred             hhcccCcccccC
Q 042890          243 QLFVSGYLLLSY  254 (254)
Q Consensus       243 ~~~~L~~L~ls~  254 (254)
                      .+++|+.+++++
T Consensus       289 ~l~~L~~l~l~~  300 (313)
T 1ogq_A          289 NLQRFDVSAYAN  300 (313)
T ss_dssp             TGGGSCGGGTCS
T ss_pred             cccccChHHhcC
Confidence            788888887764

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

Probab=99.93  E-value=3.1e-25  Score=182.14  Aligned_cols=194  Identities=26%  Similarity=0.338  Sum_probs=175.0

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ..++.|++.+|.++.+|+.        +..+++|++|+++++.  ...+|.  .+..+++|++|++++|.+. .+|..+.
T Consensus        81 ~~l~~L~L~~n~l~~lp~~--------l~~l~~L~~L~L~~n~--l~~lp~--~~~~l~~L~~L~Ls~n~l~-~lp~~l~  147 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQ--------AFRLSHLQHMTIDAAG--LMELPD--TMQQFAGLETLTLARNPLR-ALPASIA  147 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSC--------GGGGTTCSEEEEESSC--CCCCCS--CGGGGTTCSEEEEESCCCC-CCCGGGG
T ss_pred             cceeEEEccCCCchhcChh--------hhhCCCCCEEECCCCC--ccchhH--HHhccCCCCEEECCCCccc-cCcHHHh
Confidence            7899999999999888876        7789999999999776  447776  8999999999999999865 7888899


Q ss_pred             CCCcccEEeccCCCCCccccccc-----------cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCcccc
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS-----------SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLY  195 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~-----------~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~  195 (254)
                      .+++|+.|++++|+..+.+|...           .++|+.|++++|.++.+|..+..+++|+.|++++|.+.+ +|..+.
T Consensus       148 ~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~-l~~~l~  226 (328)
T 4fcg_A          148 SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSA-LGPAIH  226 (328)
T ss_dssp             GCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCC-CCGGGG
T ss_pred             cCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCc-Cchhhc
Confidence            99999999999998888887643           579999999999999999999999999999999999775 666799


Q ss_pred             CCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcccCcccccC
Q 042890          196 RLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       196 ~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+++|+.|++++|+..+.+|..+..+++|+.|++++|.+. .+|..+..+++|++|++++
T Consensus       227 ~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~  286 (328)
T 4fcg_A          227 HLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRG  286 (328)
T ss_dssp             GCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTT
T ss_pred             cCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCC
Confidence            9999999999999999999999999999999999998865 8898999999999999874

>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=99.93  E-value=4.8e-25  Score=199.98  Aligned_cols=203  Identities=23%  Similarity=0.234  Sum_probs=165.8

Q ss_pred             cCCCCC-CceeeeeeCCCCCC-CCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCC
Q 042890           41 LQDPGF-AEVKYLHWHGYPLK-SLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL  118 (254)
Q Consensus        41 ~~~l~~-~~L~~L~l~~~~~~-~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~  118 (254)
                      +..+.. ++|++|++++|.+. .+|        ..+..+++|++|+++++.. .+.+|.  .+..+++|++|++++|.+.
T Consensus       411 p~~l~~l~~L~~L~Ls~N~l~~~~p--------~~l~~l~~L~~L~L~~n~l-~~~~p~--~~~~l~~L~~L~L~~N~l~  479 (768)
T 3rgz_A          411 PPTLSNCSELVSLHLSFNYLSGTIP--------SSLGSLSKLRDLKLWLNML-EGEIPQ--ELMYVKTLETLILDFNDLT  479 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSEEESCCC--------GGGGGCTTCCEEECCSSCC-CSCCCG--GGGGCTTCCEEECCSSCCC
T ss_pred             CHHHhcCCCCCEEECcCCcccCccc--------HHHhcCCCCCEEECCCCcc-cCcCCH--HHcCCCCceEEEecCCccc
Confidence            334444 66777777776644 233        2477888899999887763 345665  7888999999999999988


Q ss_pred             CccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEeccccccc-ccchhhhhccccCEEeccCCcCcccCCcc--
Q 042890          119 KSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE-ELPSSIERQLRLSWLDLSDCKRLKSLPSS--  193 (254)
Q Consensus       119 ~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~-~l~~~~~~~~~L~~L~l~~n~~~~~~~~~--  193 (254)
                      +.+|..+..+++|+.|++++|.+.+..|...  .++|+.|++++|.++ .+|..+..+++|+.|++++|.+.+.+|..  
T Consensus       480 ~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~  559 (768)
T 3rgz_A          480 GEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF  559 (768)
T ss_dssp             SCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGG
T ss_pred             CcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHh
Confidence            8888888899999999999998887777654  478999999999988 78888999999999999999877655543  


Q ss_pred             --------------------------------------------------------------------ccCCCccCEEEe
Q 042890          194 --------------------------------------------------------------------LYRLKSLGILDL  205 (254)
Q Consensus       194 --------------------------------------------------------------------l~~l~~L~~L~l  205 (254)
                                                                                          ++.+++|+.|++
T Consensus       560 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdL  639 (768)
T 3rgz_A          560 KQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDM  639 (768)
T ss_dssp             TTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEEC
T ss_pred             cccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEEC
Confidence                                                                                334567899999


Q ss_pred             cCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcccCcccccC
Q 042890          206 HGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~ls~  254 (254)
                      ++|.+.+.+|..++.++.|+.|++++|.+. .+|..++.+++|+.|++++
T Consensus       640 s~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~  689 (768)
T 3rgz_A          640 SYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS  689 (768)
T ss_dssp             CSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCS
T ss_pred             cCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCC
Confidence            999999999999999999999999999998 8999999999999999985

>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=99.93  E-value=1.1e-24  Score=186.43  Aligned_cols=103  Identities=17%  Similarity=0.074  Sum_probs=58.1

Q ss_pred             CCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEec
Q 042890          151 GNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNL  229 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l  229 (254)
                      ++|+.|++++|.++.+ |..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..|..+..+++|+.|++
T Consensus       299 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  378 (455)
T 3v47_A          299 TDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELAL  378 (455)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccccChhhccccccccEEEC
Confidence            3444555555555533 224455555555555555554444455555666666666666555555555666666666666


Q ss_pred             cCCCCCCCCh-hhhhhcccCccccc
Q 042890          230 AKTNIERIPE-SIIQLFVSGYLLLS  253 (254)
Q Consensus       230 ~~n~l~~l~~-~~~~~~~L~~L~ls  253 (254)
                      ++|.++.+|. .+..+++|++|+++
T Consensus       379 ~~N~l~~~~~~~~~~l~~L~~L~l~  403 (455)
T 3v47_A          379 DTNQLKSVPDGIFDRLTSLQKIWLH  403 (455)
T ss_dssp             CSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CCCccccCCHhHhccCCcccEEEcc
Confidence            6666665543 23556666666655

>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=99.93  E-value=1.3e-24  Score=187.08  Aligned_cols=236  Identities=17%  Similarity=0.159  Sum_probs=167.9

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCC-CCC-CceeeeeeCCCCCCCCCCcchh----------------hc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQD-PGF-AEVKYLHWHGYPLKSLPSNDIE----------------QL   70 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-l~~-~~L~~L~l~~~~~~~l~~~~l~----------------~l   70 (254)
                      +.+.+|+.+++|++|++++|.+       ..++.. +.. ++|++|++++|.+..+++..+.                .+
T Consensus        71 ~~~~~~~~l~~L~~L~L~~n~l-------~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~  143 (477)
T 2id5_A           71 VEPGAFNNLFNLRTLGLRSNRL-------KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYI  143 (477)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCC-------CSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEE
T ss_pred             eChhhhhCCccCCEEECCCCcC-------CccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCcccee
Confidence            4466788999999999999887       233332 445 7888888888876655432100                00


Q ss_pred             -chhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc
Q 042890           71 -WDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS  149 (254)
Q Consensus        71 -~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~  149 (254)
                       +..+..+++|++|+++++.  ...++. ..+..+++|+.|++++|.+....+..+..+++|+.|++++|.....+|...
T Consensus       144 ~~~~~~~l~~L~~L~l~~n~--l~~~~~-~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  220 (477)
T 2id5_A          144 SHRAFSGLNSLEQLTLEKCN--LTSIPT-EALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNC  220 (477)
T ss_dssp             CTTSSTTCTTCCEEEEESCC--CSSCCH-HHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTT
T ss_pred             ChhhccCCCCCCEEECCCCc--CcccCh-hHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCccc
Confidence             1123344445555554433  122221 134455555555555555444334456667777777777776666666544


Q ss_pred             c--CCcCeEecccccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcE
Q 042890          150 S--GNISWLFLRGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPIT  226 (254)
Q Consensus       150 ~--~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~  226 (254)
                      +  .+|+.|++++|.++.+|. .+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.
T Consensus       221 ~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  300 (477)
T 2id5_A          221 LYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRV  300 (477)
T ss_dssp             TTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCE
T ss_pred             ccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceECHHHhcCcccCCE
Confidence            2  589999999999999885 5788999999999999988777777899999999999999998888899999999999


Q ss_pred             EeccCCCCCCCCh-hhhhhcccCcccccC
Q 042890          227 CNLAKTNIERIPE-SIIQLFVSGYLLLSY  254 (254)
Q Consensus       227 L~l~~n~l~~l~~-~~~~~~~L~~L~ls~  254 (254)
                      |++++|.++.++. .+..+++|++|++++
T Consensus       301 L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  329 (477)
T 2id5_A          301 LNVSGNQLTTLEESVFHSVGNLETLILDS  329 (477)
T ss_dssp             EECCSSCCSCCCGGGBSCGGGCCEEECCS
T ss_pred             EECCCCcCceeCHhHcCCCcccCEEEccC
Confidence            9999999998765 467899999999874

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

Probab=99.93  E-value=4.2e-25  Score=180.24  Aligned_cols=220  Identities=16%  Similarity=0.191  Sum_probs=187.3

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCC-CCCC-CCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHG-YPLK-SLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~-~~~~-~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      .+++.|+++++.+.+.    ..++..+.. ++|++|++++ |.+. .+|..        +..+++|++|+++++.. .+.
T Consensus        50 ~~l~~L~L~~~~l~~~----~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~--------l~~l~~L~~L~Ls~n~l-~~~  116 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKP----YPIPSSLANLPYLNFLYIGGINNLVGPIPPA--------IAKLTQLHYLYITHTNV-SGA  116 (313)
T ss_dssp             CCEEEEEEECCCCSSC----EECCGGGGGCTTCSEEEEEEETTEESCCCGG--------GGGCTTCSEEEEEEECC-EEE
T ss_pred             ceEEEEECCCCCccCC----cccChhHhCCCCCCeeeCCCCCcccccCChh--------HhcCCCCCEEECcCCee-CCc
Confidence            5899999999998431    135566666 9999999995 6644 55544        88899999999998763 346


Q ss_pred             cCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cC-CcCeEeccccccc-ccchhh
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SG-NISWLFLRGIAIE-ELPSSI  170 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~-~L~~L~l~~~~~~-~l~~~~  170 (254)
                      +|.  .+..+++|++|++++|.+.+.+|..+..+++|++|++++|.+.+..|...  .. .|+.|++++|.++ .+|..+
T Consensus       117 ~p~--~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~  194 (313)
T 1ogq_A          117 IPD--FLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF  194 (313)
T ss_dssp             CCG--GGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGG
T ss_pred             CCH--HHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHH
Confidence            776  89999999999999999887889889999999999999998876777654  24 8999999999998 678888


Q ss_pred             hhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcccCc
Q 042890          171 ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSGY  249 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~  249 (254)
                      ..+. |+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+. +..+++|+.|++++|.+. .+|..+..+++|++
T Consensus       195 ~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~  272 (313)
T 1ogq_A          195 ANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHS  272 (313)
T ss_dssp             GGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCE
T ss_pred             hCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCCcccCcCChHHhcCcCCCE
Confidence            8877 99999999999888888899999999999999988766655 778999999999999998 88999999999999


Q ss_pred             ccccC
Q 042890          250 LLLSY  254 (254)
Q Consensus       250 L~ls~  254 (254)
                      |++++
T Consensus       273 L~Ls~  277 (313)
T 1ogq_A          273 LNVSF  277 (313)
T ss_dssp             EECCS
T ss_pred             EECcC
Confidence            99874

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

Probab=99.93  E-value=2.4e-25  Score=198.01  Aligned_cols=233  Identities=16%  Similarity=0.154  Sum_probs=177.9

Q ss_pred             CCcccCCCCcceEEEeeccccCCCccCccc-----------ccCCCC--C-CceeeeeeCCCC-CCCCCCcchhhcchhh
Q 042890           10 NPNTFTKMPKLRFLKFYSSLFNGENKCKMS-----------YLQDPG--F-AEVKYLHWHGYP-LKSLPSNDIEQLWDRV   74 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~-----------~~~~l~--~-~~L~~L~l~~~~-~~~l~~~~l~~l~~~~   74 (254)
                      .|.+|+++++|++|++++|.+.+.+....+           +|..+.  . ++|++|++++|. ...+|+.        +
T Consensus       198 ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~--------l  269 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTF--------L  269 (636)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTT--------T
T ss_pred             CCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHH--------H
Confidence            567899999999999999999653222122           788888  7 999999999997 4455654        7


Q ss_pred             hcccccceehhhccCCcee-ecCCCCccCCc------ccccEEeccCCcCCCccCC--CCCCCCcccEEeccCCCCCccc
Q 042890           75 KRYSKLNQIIHAACHKLIA-KIPNPTLMPRM------KKLVILNLRGSKSLKSLPS--GIFNLEFLTKLDLSGCSKLKRL  145 (254)
Q Consensus        75 ~~~~~L~~l~l~~~~~~~~-~~~~~~~~~~~------~~L~~L~l~~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~  145 (254)
                      ..+++|++|+++++....+ .+|.  .++.+      ++|++|++++|.+. .+|.  .+..+++|+.|++++|.+.+.+
T Consensus       270 ~~l~~L~~L~Ls~n~~l~~~~lp~--~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~i  346 (636)
T 4eco_A          270 KALPEMQLINVACNRGISGEQLKD--DWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKL  346 (636)
T ss_dssp             TTCSSCCEEECTTCTTSCHHHHHH--HHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEEC
T ss_pred             hcCCCCCEEECcCCCCCccccchH--HHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCccch
Confidence            7888999999997763344 5665  56555      88999999998866 7777  7888889999999988877677


Q ss_pred             cccc-cCCcCeEecccccccccchhhhhccc-cCEEeccCCcCcccCCccccCCC--ccCEEEecCCCCCcccCcccc--
Q 042890          146 PEIS-SGNISWLFLRGIAIEELPSSIERQLR-LSWLDLSDCKRLKSLPSSLYRLK--SLGILDLHGCSNLQRLPECLG--  219 (254)
Q Consensus       146 p~~~-~~~L~~L~l~~~~~~~l~~~~~~~~~-L~~L~l~~n~~~~~~~~~l~~l~--~L~~L~l~~~~~~~~~~~~~~--  219 (254)
                      |... .++|+.|++++|.++.+|..+..+++ |+.|++++|.+. .+|..+...+  +|+.|++++|.+.+..|..+.  
T Consensus       347 p~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~  425 (636)
T 4eco_A          347 PAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPL  425 (636)
T ss_dssp             CCCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTT
T ss_pred             hhhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCc-ccchhhhhcccCccCEEECcCCcCCCcchhhhccc
Confidence            7332 37888888888888888888888888 888888888866 6676666544  788888888877777776666  


Q ss_pred             -----CCCCCcEEeccCCCCCCCChhhh-hhcccCcccccC
Q 042890          220 -----QLSSPITCNLAKTNIERIPESII-QLFVSGYLLLSY  254 (254)
Q Consensus       220 -----~l~~L~~L~l~~n~l~~l~~~~~-~~~~L~~L~ls~  254 (254)
                           .+++|+.|++++|.+..+|..+. .+++|++|++++
T Consensus       426 ~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~  466 (636)
T 4eco_A          426 DPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMG  466 (636)
T ss_dssp             CSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCS
T ss_pred             ccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCC
Confidence                 66778888888888877776544 377777777753

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

Probab=99.92  E-value=1.1e-23  Score=176.97  Aligned_cols=224  Identities=12%  Similarity=0.087  Sum_probs=137.0

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      .|..+++|++|++++|.+.      ...+..+.. ++|++|++.+|.++.+++.       .+..+++|++|+++++.  
T Consensus        64 ~~~~l~~L~~L~L~~n~i~------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L~~n~--  128 (390)
T 3o6n_A           64 LLDSFRQVELLNLNDLQIE------EIDTYAFAYAHTIQKLYMGFNAIRYLPPH-------VFQNVPLLTVLVLERND--  128 (390)
T ss_dssp             HHHHCCCCSEEECTTSCCC------EECTTTTTTCTTCCEEECCSSCCCCCCTT-------TTTTCTTCCEEECCSSC--
T ss_pred             HhcccccCcEEECCCCccc------ccChhhccCCCCcCEEECCCCCCCcCCHH-------HhcCCCCCCEEECCCCc--
Confidence            3455566666666666551      111223344 5566666666555554432       13444555555555443  


Q ss_pred             eeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcc---------------------------
Q 042890           92 IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR---------------------------  144 (254)
Q Consensus        92 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~---------------------------  144 (254)
                      ...++. ..|..+++|++|++++|.+....+..+..+++|+.|++++|.+...                           
T Consensus       129 l~~l~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L  207 (390)
T 3o6n_A          129 LSSLPR-GIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAV  207 (390)
T ss_dssp             CCCCCT-TTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCSSC
T ss_pred             cCcCCH-HHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccccccccccceeecccccccccCCCCcc
Confidence            223332 1234455555555555544333333444455555555554432211                           


Q ss_pred             ------------ccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCc
Q 042890          145 ------------LPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ  212 (254)
Q Consensus       145 ------------~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~  212 (254)
                                  .|.....+|+.|++++|.++.. ..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+
T Consensus       208 ~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~  286 (390)
T 3o6n_A          208 EELDASHNSINVVRGPVNVELTILKLQHNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA  286 (390)
T ss_dssp             SEEECCSSCCCEEECCCCSSCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCE
T ss_pred             eEEECCCCeeeeccccccccccEEECCCCCCccc-HHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcc
Confidence                        1122224566777777776655 357778899999999998888778888899999999999987654


Q ss_pred             ccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          213 RLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       213 ~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                       ++..+..+++|+.|++++|.+..+|..+..+++|++|++++
T Consensus       287 -~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~  327 (390)
T 3o6n_A          287 -LNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH  327 (390)
T ss_dssp             -EECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEECCS
T ss_pred             -cCcccCCCCCCCEEECCCCcceecCccccccCcCCEEECCC
Confidence             45555678899999999999988888888889999888764

>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=99.92  E-value=4.4e-24  Score=188.61  Aligned_cols=226  Identities=12%  Similarity=0.078  Sum_probs=154.8

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      +..|+.+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.+++.       .+..+++|++|+++++.
T Consensus        68 ~~~~~~l~~L~~L~L~~n~l~------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L~~n~  134 (597)
T 3oja_B           68 AALLDSFRQVELLNLNDLQIE------EIDTYAFAYAHTIQKLYMGFNAIRYLPPH-------VFQNVPLLTVLVLERND  134 (597)
T ss_dssp             THHHHHCCCCSEEECTTSCCC------EECTTTTTTCTTCCEEECCSSCCCCCCTT-------TTTTCTTCCEEECCSSC
T ss_pred             HHHHccCCCCcEEECCCCCCC------CCChHHhcCCCCCCEEECCCCcCCCCCHH-------HHcCCCCCCEEEeeCCC
Confidence            334556677777777777762      122234455 7777777777776666543       24566677777777554


Q ss_pred             CceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccc------------------------
Q 042890           90 KLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL------------------------  145 (254)
Q Consensus        90 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~------------------------  145 (254)
                        ...+|. ..|..+++|++|++++|.+.+..|..+..+++|+.|++++|.+...-                        
T Consensus       135 --l~~l~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~  211 (597)
T 3oja_B          135 --LSSLPR-GIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPI  211 (597)
T ss_dssp             --CCCCCT-TTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCT
T ss_pred             --CCCCCH-HHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCc
Confidence              334443 13466677777777777655555555666667777777666543211                        


Q ss_pred             ---------------cccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          146 ---------------PEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       146 ---------------p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                                     +.....+|+.|++++|.++.. ..+..+++|+.|++++|.+.+..|..++.+++|+.|++++|.+
T Consensus       212 ~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l  290 (597)
T 3oja_B          212 AVEELDASHNSINVVRGPVNVELTILKLQHNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRL  290 (597)
T ss_dssp             TCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCC
T ss_pred             hhheeeccCCcccccccccCCCCCEEECCCCCCCCC-hhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCC
Confidence                           111123456666666666653 4577888999999999998888888899999999999999877


Q ss_pred             CcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          211 LQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       211 ~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+ +|..+..+++|+.|++++|.+..+|..+..+++|++|++++
T Consensus       291 ~~-l~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~l~~L~~L~L~~  333 (597)
T 3oja_B          291 VA-LNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH  333 (597)
T ss_dssp             CE-EECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEECCS
T ss_pred             CC-CCcccccCCCCcEEECCCCCCCccCcccccCCCCCEEECCC
Confidence            55 45666778999999999999999998888899999988864

>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=99.92  E-value=7.2e-24  Score=174.15  Aligned_cols=222  Identities=16%  Similarity=0.143  Sum_probs=136.9

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      +.+|+.+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.+|..        +  .++|++|+++++.
T Consensus        69 ~~~~~~l~~L~~L~L~~n~l~------~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~--------~--~~~L~~L~l~~n~  132 (330)
T 1xku_A           69 DGDFKNLKNLHTLILINNKIS------KISPGAFAPLVKLERLYLSKNQLKELPEK--------M--PKTLQELRVHENE  132 (330)
T ss_dssp             TTTTTTCTTCCEEECCSSCCC------CBCTTTTTTCTTCCEEECCSSCCSBCCSS--------C--CTTCCEEECCSSC
T ss_pred             hhhhccCCCCCEEECCCCcCC------eeCHHHhcCCCCCCEEECCCCcCCccChh--------h--cccccEEECCCCc
Confidence            335556666666666666651      112334444 6666666666666555543        1  2566666666554


Q ss_pred             CceeecCCCCccCCcccccEEeccCCcCCC--ccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEeccccccccc-
Q 042890           90 KLIAKIPNPTLMPRMKKLVILNLRGSKSLK--SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEEL-  166 (254)
Q Consensus        90 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l-  166 (254)
                        ...++. ..+..+++|++|++++|.+..  ..+..+..+++|+.|++++|.+. .+|....++|+.|++++|.++.+ 
T Consensus       133 --l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~L~~L~l~~n~l~~~~  208 (330)
T 1xku_A          133 --ITKVRK-SVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQGLPPSLTELHLDGNKITKVD  208 (330)
T ss_dssp             --CCBBCH-HHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCSSCCTTCSEEECTTSCCCEEC
T ss_pred             --ccccCH-hHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccc-cCCccccccCCEEECCCCcCCccC
Confidence              223321 145667777777777776532  34555666777777777776543 34444446777777777777755 


Q ss_pred             chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhh----
Q 042890          167 PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESII----  242 (254)
Q Consensus       167 ~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~----  242 (254)
                      |..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+. .+|..+..+++|+.|++++|.++.++....    
T Consensus       209 ~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~  287 (330)
T 1xku_A          209 AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPG  287 (330)
T ss_dssp             TGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSS
T ss_pred             HHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCc-cCChhhccCCCcCEEECCCCcCCccChhhcCCcc
Confidence            455777777888888877776665556777777888888776554 566667777778888888877776553221    


Q ss_pred             ---hhcccCccccc
Q 042890          243 ---QLFVSGYLLLS  253 (254)
Q Consensus       243 ---~~~~L~~L~ls  253 (254)
                         ..++++.++++
T Consensus       288 ~~~~~~~l~~l~l~  301 (330)
T 1xku_A          288 YNTKKASYSGVSLF  301 (330)
T ss_dssp             CCTTSCCCSEEECC
T ss_pred             cccccccccceEee
Confidence               23555566554

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

Probab=99.92  E-value=6.8e-24  Score=180.90  Aligned_cols=220  Identities=20%  Similarity=0.211  Sum_probs=163.0

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      +++++|++++|.+.      ...+..+.. ++|++|++++|.++.++..       .+..+++|++|+++++.  ...++
T Consensus        64 ~~l~~L~L~~n~i~------~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~-------~~~~l~~L~~L~L~~n~--l~~~~  128 (440)
T 3zyj_A           64 TNTRLLNLHENQIQ------IIKVNSFKHLRHLEILQLSRNHIRTIEIG-------AFNGLANLNTLELFDNR--LTTIP  128 (440)
T ss_dssp             TTCSEEECCSCCCC------EECTTTTSSCSSCCEEECCSSCCCEECGG-------GGTTCSSCCEEECCSSC--CSSCC
T ss_pred             CCCcEEEccCCcCC------eeCHHHhhCCCCCCEEECCCCcCCccChh-------hccCCccCCEEECCCCc--CCeeC
Confidence            46888888888872      222344555 8888888888877766532       36678888888888665  34444


Q ss_pred             CCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccchhhhhc
Q 042890           97 NPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPSSIERQ  173 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~~~~~~  173 (254)
                      . ..|..+++|++|++++|.+....+..+..+++|+.|++++|+....++...   ..+|+.|++++|.++.+|. +..+
T Consensus       129 ~-~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l  206 (440)
T 3zyj_A          129 N-GAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPL  206 (440)
T ss_dssp             T-TTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-CTTC
T ss_pred             H-hHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccc-cCCC
Confidence            2 257788888888888887654445567778888888888877666665532   3678888888888887774 6677


Q ss_pred             cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCcccc
Q 042890          174 LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLL  252 (254)
Q Consensus       174 ~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~l  252 (254)
                      ++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..|..+++|+.|++++|.++.++. .+..+++|+.|++
T Consensus       207 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  286 (440)
T 3zyj_A          207 IKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL  286 (440)
T ss_dssp             SSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEEC
T ss_pred             cccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEc
Confidence            888888888888777777778888888888888888777777778888888888888888886654 3566788888877


Q ss_pred             cC
Q 042890          253 SY  254 (254)
Q Consensus       253 s~  254 (254)
                      ++
T Consensus       287 ~~  288 (440)
T 3zyj_A          287 HH  288 (440)
T ss_dssp             CS
T ss_pred             CC
Confidence            63

>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=99.92  E-value=5.8e-24  Score=181.89  Aligned_cols=239  Identities=19%  Similarity=0.151  Sum_probs=155.5

Q ss_pred             eeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchh------h-----------
Q 042890            8 RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIE------Q-----------   69 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~------~-----------   69 (254)
                      .+.+.+|+++++|++|++++|.+.+.     ..+..+.. ++|++|++++|.+..+++..+.      .           
T Consensus        44 ~~~~~~~~~l~~L~~L~L~~n~~~~~-----i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~  118 (455)
T 3v47_A           44 ELNETSFSRLQDLQFLKVEQQTPGLV-----IRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGA  118 (455)
T ss_dssp             EECTTTTSSCTTCCEEECCCCSTTCE-----ECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTH
T ss_pred             cCChhHhccCccccEEECcCCcccce-----ECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCcc
Confidence            34466777888888888888776211     11334555 7777777777766554322000      0           


Q ss_pred             cch--hhhcccccceehhhccCCceeec-CCCCccCCcccccEEeccCCcCCCccCCCCCC-------------------
Q 042890           70 LWD--RVKRYSKLNQIIHAACHKLIAKI-PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFN-------------------  127 (254)
Q Consensus        70 l~~--~~~~~~~L~~l~l~~~~~~~~~~-~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~-------------------  127 (254)
                      ++.  .+..+++|++|+++++.  ...+ +. ..+..+++|++|++++|.+.+..+..+..                   
T Consensus       119 ~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~  195 (455)
T 3v47_A          119 VLSGNFFKPLTSLEMLVLRDNN--IKKIQPA-SFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDM  195 (455)
T ss_dssp             HHHSSTTTTCTTCCEEECCSSB--CCSCCCC-GGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTC
T ss_pred             ccCcccccCcccCCEEECCCCc--cCccCcc-cccCCCCcccEEeCCCCcccccChhhhhccccccccccccccCccccc
Confidence            001  14445555555555443  2222 21 01455666666666666544433332222                   


Q ss_pred             ---------------CCcccEEeccCCCCCcccccc-----------------------------------------ccC
Q 042890          128 ---------------LEFLTKLDLSGCSKLKRLPEI-----------------------------------------SSG  151 (254)
Q Consensus       128 ---------------l~~L~~L~l~~~~~~~~~p~~-----------------------------------------~~~  151 (254)
                                     +++|+.|++++|.+.+..|..                                         ...
T Consensus       196 ~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  275 (455)
T 3v47_A          196 NEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEAS  275 (455)
T ss_dssp             STTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTS
T ss_pred             chhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCccccccccccc
Confidence                           245555566555433211110                                         013


Q ss_pred             CcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEecc
Q 042890          152 NISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLA  230 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  230 (254)
                      +++.+++++|.++.+ |..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|+++
T Consensus       276 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  355 (455)
T 3v47_A          276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLS  355 (455)
T ss_dssp             CCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECC
T ss_pred             CceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECC
Confidence            677777777777754 5568889999999999999888878889999999999999998877778888999999999999


Q ss_pred             CCCCCCC-ChhhhhhcccCcccccC
Q 042890          231 KTNIERI-PESIIQLFVSGYLLLSY  254 (254)
Q Consensus       231 ~n~l~~l-~~~~~~~~~L~~L~ls~  254 (254)
                      +|.+..+ |..+..+++|++|++++
T Consensus       356 ~N~l~~~~~~~~~~l~~L~~L~L~~  380 (455)
T 3v47_A          356 YNHIRALGDQSFLGLPNLKELALDT  380 (455)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CCcccccChhhccccccccEEECCC
Confidence            9999855 77888999999999874

>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=99.92  E-value=1.4e-23  Score=179.62  Aligned_cols=220  Identities=20%  Similarity=0.189  Sum_probs=162.6

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      +++++|++++|.+.      ...+..+.. ++|++|++++|.++.++..       .+..+++|++|+++++.  ...++
T Consensus        75 ~~l~~L~L~~n~i~------~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~-------~~~~l~~L~~L~L~~n~--l~~~~  139 (452)
T 3zyi_A           75 SNTRYLNLMENNIQ------MIQADTFRHLHHLEVLQLGRNSIRQIEVG-------AFNGLASLNTLELFDNW--LTVIP  139 (452)
T ss_dssp             TTCSEEECCSSCCC------EECTTTTTTCTTCCEEECCSSCCCEECTT-------TTTTCTTCCEEECCSSC--CSBCC
T ss_pred             CCccEEECcCCcCc------eECHHHcCCCCCCCEEECCCCccCCcChh-------hccCcccCCEEECCCCc--CCccC
Confidence            46888888888872      223445566 8888888888877766532       36677888888888665  34444


Q ss_pred             CCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccchhhhhc
Q 042890           97 NPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPSSIERQ  173 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~~~~~~  173 (254)
                      . ..|..+++|++|++++|.+....+..+..+++|+.|++++|+..+.++...   ..+|++|++++|.++.+|. +..+
T Consensus       140 ~-~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l  217 (452)
T 3zyi_A          140 S-GAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN-LTPL  217 (452)
T ss_dssp             T-TTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC-CTTC
T ss_pred             h-hhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc-cccc
Confidence            2 257778888888888887654444567778888888888877666666532   3678888888888887763 6677


Q ss_pred             cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCcccc
Q 042890          174 LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLL  252 (254)
Q Consensus       174 ~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~l  252 (254)
                      ++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++|.++.++. .+..+++|++|++
T Consensus       218 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  297 (452)
T 3zyi_A          218 VGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHL  297 (452)
T ss_dssp             TTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEEC
T ss_pred             ccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEc
Confidence            788888888888777777778888888888888888777777778888888888888888886654 3567788888877


Q ss_pred             cC
Q 042890          253 SY  254 (254)
Q Consensus       253 s~  254 (254)
                      ++
T Consensus       298 ~~  299 (452)
T 3zyi_A          298 HH  299 (452)
T ss_dssp             CS
T ss_pred             cC
Confidence            63

>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=99.92  E-value=1.7e-23  Score=171.98  Aligned_cols=215  Identities=16%  Similarity=0.136  Sum_probs=140.4

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      +++++|++++|.+.+      ..+..+.. ++|++|++++|.++.+.+.       ++..+++|++|+++++.  ...+|
T Consensus        52 ~~l~~L~L~~n~i~~------~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~Ls~n~--l~~l~  116 (330)
T 1xku_A           52 PDTALLDLQNNKITE------IKDGDFKNLKNLHTLILINNKISKISPG-------AFAPLVKLERLYLSKNQ--LKELP  116 (330)
T ss_dssp             TTCCEEECCSSCCCC------BCTTTTTTCTTCCEEECCSSCCCCBCTT-------TTTTCTTCCEEECCSSC--CSBCC
T ss_pred             CCCeEEECCCCcCCE------eChhhhccCCCCCEEECCCCcCCeeCHH-------HhcCCCCCCEEECCCCc--CCccC
Confidence            467777777777621      11223455 7777777777776655321       25667777777777655  34555


Q ss_pred             CCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCc--cccccc--cCCcCeEecccccccccchhhhh
Q 042890           97 NPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPEIS--SGNISWLFLRGIAIEELPSSIER  172 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~p~~~--~~~L~~L~l~~~~~~~l~~~~~~  172 (254)
                      .  .+.  ++|++|++++|.+....+..+.++++|+.|++++|....  ..+...  .++|+.|++++|.++.+|..+. 
T Consensus       117 ~--~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~-  191 (330)
T 1xku_A          117 E--KMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLP-  191 (330)
T ss_dssp             S--SCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCC-
T ss_pred             h--hhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCcccc-
Confidence            3  332  677777777777554444456677777777777766532  222211  3677777777777777665443 


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccc
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL  252 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~l  252 (254)
                       ++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++|.+..+|.++..+++|++|++
T Consensus       192 -~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l  270 (330)
T 1xku_A          192 -PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYL  270 (330)
T ss_dssp             -TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEEC
T ss_pred             -ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCCCcCccCChhhccCCCcCEEEC
Confidence             6777777777776666666677777777777777776666666667777777777777777777777777777777776


Q ss_pred             c
Q 042890          253 S  253 (254)
Q Consensus       253 s  253 (254)
                      +
T Consensus       271 ~  271 (330)
T 1xku_A          271 H  271 (330)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.92  E-value=4.7e-24  Score=173.40  Aligned_cols=220  Identities=17%  Similarity=0.131  Sum_probs=130.6

Q ss_pred             CcceEEEeeccccCCCccCcccccCC-CCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQD-PGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~-l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      ++|++|++++|.+       ..++.. +.. ++|++|++++|.++.+..     .+..+..+++|++|+++++.  ...+
T Consensus        28 ~~l~~L~L~~n~l-------~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-----~~~~~~~~~~L~~L~Ls~n~--i~~l   93 (306)
T 2z66_A           28 SSATRLELESNKL-------QSLPHGVFDKLTQLTKLSLSSNGLSFKGC-----CSQSDFGTTSLKYLDLSFNG--VITM   93 (306)
T ss_dssp             TTCCEEECCSSCC-------CCCCTTTTTTCTTCSEEECCSSCCCEEEE-----EEHHHHSCSCCCEEECCSCS--EEEE
T ss_pred             CCCCEEECCCCcc-------CccCHhHhhccccCCEEECCCCccCcccC-----cccccccccccCEEECCCCc--cccC
Confidence            4677777777776       233333 344 777777777776553310     11224456667777776554  3445


Q ss_pred             CCCCccCCcccccEEeccCCcCCCccC-CCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccc--cchhh
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEE--LPSSI  170 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~--l~~~~  170 (254)
                      +.  .+..+++|++|++++|.+....+ ..+..+++|+.|++++|......+...  .++|+.|++++|.++.  +|..+
T Consensus        94 ~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~  171 (306)
T 2z66_A           94 SS--NFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF  171 (306)
T ss_dssp             EE--EEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCC
T ss_pred             hh--hcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHH
Confidence            54  56666677777777666433322 345566667777776665544433322  3566666666666653  55556


Q ss_pred             hhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCC-CChhhhhhc-ccC
Q 042890          171 ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER-IPESIIQLF-VSG  248 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~-l~~~~~~~~-~L~  248 (254)
                      ..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.. .+..+..++ +|+
T Consensus       172 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~  251 (306)
T 2z66_A          172 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLA  251 (306)
T ss_dssp             TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCC
T ss_pred             hhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCC
Confidence            666667777777666665555566666666777776666655555556666666777776666653 344455553 666


Q ss_pred             ccccc
Q 042890          249 YLLLS  253 (254)
Q Consensus       249 ~L~ls  253 (254)
                      +|+++
T Consensus       252 ~L~L~  256 (306)
T 2z66_A          252 FLNLT  256 (306)
T ss_dssp             EEECT
T ss_pred             EEEcc
Confidence            66665

>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=99.92  E-value=9e-24  Score=186.86  Aligned_cols=235  Identities=17%  Similarity=0.088  Sum_probs=148.6

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhh-----------------c
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQ-----------------L   70 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~-----------------l   70 (254)
                      +.+.+|+.+++|++|++++|.+       ..+|..+.. ++|++|++.+|.++.+++..+..                 +
T Consensus       269 ~~~~~~~~l~~L~~L~l~~n~l-------~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~  341 (606)
T 3t6q_A          269 ISSNTFHCFSGLQELDLTATHL-------SELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLEL  341 (606)
T ss_dssp             CCTTTTTTCTTCSEEECTTSCC-------SCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBC
T ss_pred             cCHHHhccccCCCEEeccCCcc-------CCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCccccc
Confidence            4455688889999999999887       356666766 88999999988877654321110                 1


Q ss_pred             c-hhhhcccccceehhhccCCceee-cCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc
Q 042890           71 W-DRVKRYSKLNQIIHAACHKLIAK-IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI  148 (254)
Q Consensus        71 ~-~~~~~~~~L~~l~l~~~~~~~~~-~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~  148 (254)
                      + ..+..+++|++|+++++...... .+.  .+..+++|++|++++|.+.+..+..+..+++|+.|++++|......+..
T Consensus       342 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  419 (606)
T 3t6q_A          342 GTGCLENLENLRELDLSHDDIETSDCCNL--QLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQS  419 (606)
T ss_dssp             CSSTTTTCTTCCEEECCSSCCCEEEESTT--TTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCC
T ss_pred             chhhhhccCcCCEEECCCCccccccCcch--hcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccch
Confidence            1 12445555666665554422111 133  5556666666666666654444555666666777777666554443332


Q ss_pred             ---ccCCcCeEeccccccccc-chhhhhccccCEEeccCCcCccc---CCccccCCCccCEEEecCCCCCcccCccccCC
Q 042890          149 ---SSGNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKS---LPSSLYRLKSLGILDLHGCSNLQRLPECLGQL  221 (254)
Q Consensus       149 ---~~~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~---~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l  221 (254)
                         ..++|+.|++++|.++.. |..+..+++|+.|++++|.+.+.   .+..+..+++|+.|++++|.+.+..|..+..+
T Consensus       420 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l  499 (606)
T 3t6q_A          420 PFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSL  499 (606)
T ss_dssp             TTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTC
T ss_pred             hhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccc
Confidence               135677777777776643 44466677777777777776552   22346677777777777777766667777777


Q ss_pred             CCCcEEeccCCCCC-CCChhhhhhcccCccccc
Q 042890          222 SSPITCNLAKTNIE-RIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       222 ~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~ls  253 (254)
                      ++|+.|++++|.+. ..|..+..+++| .|+++
T Consensus       500 ~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~  531 (606)
T 3t6q_A          500 KMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLA  531 (606)
T ss_dssp             TTCCEEECCSSCCCGGGGGGGTTCCSC-EEECC
T ss_pred             cCCCEEECCCCccCcCChhHhCccccc-EEECc
Confidence            77777777777776 345667777777 66665

>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=99.92  E-value=7.6e-24  Score=182.32  Aligned_cols=231  Identities=18%  Similarity=0.161  Sum_probs=154.5

Q ss_pred             eeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            8 RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      .+.+.+|..+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.+|..       .+..+++|++|+++
T Consensus        46 ~~~~~~~~~l~~L~~L~L~~n~i~------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~Ls  112 (477)
T 2id5_A           46 TLNQDEFASFPHLEELELNENIVS------AVEPGAFNNLFNLRTLGLRSNRLKLIPLG-------VFTGLSNLTKLDIS  112 (477)
T ss_dssp             EECTTTTTTCTTCCEEECTTSCCC------EECTTTTTTCTTCCEEECCSSCCCSCCTT-------SSTTCTTCCEEECT
T ss_pred             eECHhHccCCCCCCEEECCCCccC------EeChhhhhCCccCCEEECCCCcCCccCcc-------cccCCCCCCEEECC
Confidence            445667888899999999988872      233555666 8899999999888877753       25667788888888


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEeccccccc
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIE  164 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~  164 (254)
                      ++.. ....+.  .+..+++|++|++++|.+....+..+..+++|+.|++++|.+....+..  ..++|+.|++.+|.++
T Consensus       113 ~n~i-~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~  189 (477)
T 2id5_A          113 ENKI-VILLDY--MFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNIN  189 (477)
T ss_dssp             TSCC-CEECTT--TTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCC
T ss_pred             CCcc-ccCChh--HccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCc
Confidence            6653 222343  6777788888888887765555666777777888888776644322211  1256666666666655


Q ss_pred             ccch-hhhhccc------------------------cCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCcccc
Q 042890          165 ELPS-SIERQLR------------------------LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLG  219 (254)
Q Consensus       165 ~l~~-~~~~~~~------------------------L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  219 (254)
                      .++. .+..+++                        |+.|++++|.+....+..+..+++|+.|++++|.+.+..+..+.
T Consensus       190 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~  269 (477)
T 2id5_A          190 AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLH  269 (477)
T ss_dssp             EECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCT
T ss_pred             EeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhcc
Confidence            4433 2344444                        44444444444332223466777888888888777666666777


Q ss_pred             CCCCCcEEeccCCCCCCC-ChhhhhhcccCcccccC
Q 042890          220 QLSSPITCNLAKTNIERI-PESIIQLFVSGYLLLSY  254 (254)
Q Consensus       220 ~l~~L~~L~l~~n~l~~l-~~~~~~~~~L~~L~ls~  254 (254)
                      .+++|+.|++++|.+..+ |..+..+++|++|++++
T Consensus       270 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  305 (477)
T 2id5_A          270 ELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSG  305 (477)
T ss_dssp             TCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCS
T ss_pred             ccccCCEEECCCCccceECHHHhcCcccCCEEECCC
Confidence            788888888888888744 56677888888888764

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

Probab=99.92  E-value=9.7e-24  Score=173.54  Aligned_cols=205  Identities=19%  Similarity=0.182  Sum_probs=102.1

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCC
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHK   90 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~   90 (254)
                      .+|..+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.+|..        +  .++|++|+++++. 
T Consensus        72 ~~~~~l~~L~~L~L~~n~l~------~~~~~~~~~l~~L~~L~L~~n~l~~l~~~--------~--~~~L~~L~l~~n~-  134 (332)
T 2ft3_A           72 DDFKGLQHLYALVLVNNKIS------KIHEKAFSPLRKLQKLYISKNHLVEIPPN--------L--PSSLVELRIHDNR-  134 (332)
T ss_dssp             TTTTTCTTCCEEECCSSCCC------EECGGGSTTCTTCCEEECCSSCCCSCCSS--------C--CTTCCEEECCSSC-
T ss_pred             hHhhCCCCCcEEECCCCccC------ccCHhHhhCcCCCCEEECCCCcCCccCcc--------c--cccCCEEECCCCc-
Confidence            34444555555555554441      111223333 4455555555544444432        1  1445555555433 


Q ss_pred             ceeecCCCCccCCcccccEEeccCCcCC--CccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccc-
Q 042890           91 LIAKIPNPTLMPRMKKLVILNLRGSKSL--KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELP-  167 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~--~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~-  167 (254)
                       ...++. ..+..+++|++|++++|.+.  +..+..+..+ +|+.|++++|.+.. +|.....+|+.|++++|.++.++ 
T Consensus       135 -i~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~-l~~~~~~~L~~L~l~~n~i~~~~~  210 (332)
T 2ft3_A          135 -IRKVPK-GVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTG-IPKDLPETLNELHLDHNKIQAIEL  210 (332)
T ss_dssp             -CCCCCS-GGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSS-CCSSSCSSCSCCBCCSSCCCCCCT
T ss_pred             -cCccCH-hHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCc-cCccccCCCCEEECCCCcCCccCH
Confidence             223321 13445555555555555432  1233334334 55555555544332 33333355666666666666544 


Q ss_pred             hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          168 SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       168 ~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      ..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+. .+|..+..+++|+.|++++|.++.++
T Consensus       211 ~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~L~~L~l~~N~l~~~~  280 (332)
T 2ft3_A          211 EDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS-RVPAGLPDLKLLQVVYLHTNNITKVG  280 (332)
T ss_dssp             TSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCC-BCCTTGGGCTTCCEEECCSSCCCBCC
T ss_pred             HHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCe-ecChhhhcCccCCEEECCCCCCCccC
Confidence            34555666666666666655554445666666666666665544 45555556666666666666665443

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

Probab=99.91  E-value=1.2e-23  Score=173.03  Aligned_cols=215  Identities=16%  Similarity=0.159  Sum_probs=127.5

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      +++++|++++|.+.      ...+..+.. ++|++|++++|.++.+++.       ++..+++|++|+++++.  ...+|
T Consensus        54 ~~l~~L~l~~n~i~------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L~~n~--l~~l~  118 (332)
T 2ft3_A           54 PDTTLLDLQNNDIS------ELRKDDFKGLQHLYALVLVNNKISKIHEK-------AFSPLRKLQKLYISKNH--LVEIP  118 (332)
T ss_dssp             TTCCEEECCSSCCC------EECTTTTTTCTTCCEEECCSSCCCEECGG-------GSTTCTTCCEEECCSSC--CCSCC
T ss_pred             CCCeEEECCCCcCC------ccCHhHhhCCCCCcEEECCCCccCccCHh-------HhhCcCCCCEEECCCCc--CCccC
Confidence            45667777766651      112234444 6677777777665544321       35566667777776554  33444


Q ss_pred             CCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCc--cccccc-cCCcCeEecccccccccchhhhhc
Q 042890           97 NPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPEIS-SGNISWLFLRGIAIEELPSSIERQ  173 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~~  173 (254)
                      .  .+.  ++|++|++++|.+....+..+..+++|+.|++++|.+..  ..+... ..+|+.|++++|.++.+|..+.  
T Consensus       119 ~--~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~--  192 (332)
T 2ft3_A          119 P--NLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLP--  192 (332)
T ss_dssp             S--SCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSC--
T ss_pred             c--ccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCcccc--
Confidence            3  332  667777777766543333445666677777776665432  222111 1256666777776666665433  


Q ss_pred             cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          174 LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       174 ~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      ++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+..+|..+..+++|++|+++
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            56667777776666555555666667777777766666555556666667777777777766666666666677766665

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

Probab=99.91  E-value=3.9e-24  Score=190.16  Aligned_cols=219  Identities=17%  Similarity=0.172  Sum_probs=133.6

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhccc-------------
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYS-------------   78 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~-------------   78 (254)
                      .|+.+++|++|++++|.+.|.      +| .+.. ++|++|++++|.++.+|..        +..++             
T Consensus       325 ~l~~l~~L~~L~L~~N~l~g~------ip-~~~~l~~L~~L~L~~N~l~~lp~~--------l~~l~~~L~~L~Ls~N~l  389 (636)
T 4eco_A          325 SLQKMKKLGMLECLYNQLEGK------LP-AFGSEIKLASLNLAYNQITEIPAN--------FCGFTEQVENLSFAHNKL  389 (636)
T ss_dssp             HHTTCTTCCEEECCSCCCEEE------CC-CCEEEEEESEEECCSSEEEECCTT--------SEEECTTCCEEECCSSCC
T ss_pred             hhccCCCCCEEeCcCCcCccc------hh-hhCCCCCCCEEECCCCccccccHh--------hhhhcccCcEEEccCCcC
Confidence            567777788888887776322      22 3333 4555555555544433332        33333             


Q ss_pred             -------------ccceehhhccCCceeecCCCCccC-------CcccccEEeccCCcCCCccCCC-CCCCCcccEEecc
Q 042890           79 -------------KLNQIIHAACHKLIAKIPNPTLMP-------RMKKLVILNLRGSKSLKSLPSG-IFNLEFLTKLDLS  137 (254)
Q Consensus        79 -------------~L~~l~l~~~~~~~~~~~~~~~~~-------~~~~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~  137 (254)
                                   +|++|+++++.. .+..|.  .+.       .+++|++|++++|.+. .+|.. +..+++|+.|+++
T Consensus       390 ~~lp~~~~~~~l~~L~~L~Ls~N~l-~~~~p~--~l~~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~~~l~~L~~L~Ls  465 (636)
T 4eco_A          390 KYIPNIFDAKSVSVMSAIDFSYNEI-GSVDGK--NFDPLDPTPFKGINVSSINLSNNQIS-KFPKELFSTGSPLSSINLM  465 (636)
T ss_dssp             SSCCSCCCTTCSSCEEEEECCSSCT-TTTTTC--SSCTTCSSCCCCCCEEEEECCSSCCC-SCCTHHHHTTCCCSEEECC
T ss_pred             cccchhhhhcccCccCEEECcCCcC-CCcchh--hhcccccccccCCCCCEEECcCCccC-cCCHHHHccCCCCCEEECC
Confidence                         455555554432 122222  333       4456666666666543 33332 2235666667776


Q ss_pred             CCCCCccccccccC----------CcCeEecccccccccchhhh--hccccCEEeccCCcCcccCCccccCCCccCEEEe
Q 042890          138 GCSKLKRLPEISSG----------NISWLFLRGIAIEELPSSIE--RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL  205 (254)
Q Consensus       138 ~~~~~~~~p~~~~~----------~L~~L~l~~~~~~~l~~~~~--~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l  205 (254)
                      +|.+. .+|...+.          +|+.|++++|.++.+|..+.  .+++|+.|++++|.+.+ +|..+..+++|+.|++
T Consensus       466 ~N~l~-~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~-ip~~~~~l~~L~~L~L  543 (636)
T 4eco_A          466 GNMLT-EIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSK-FPTQPLNSSTLKGFGI  543 (636)
T ss_dssp             SSCCS-BCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCSSCCEEEC
T ss_pred             CCCCC-CcCHHHhccccccccccCCccEEECcCCcCCccChhhhhccCCCcCEEECCCCCCCC-cChhhhcCCCCCEEEC
Confidence            66554 44443321          67777777777777777765  77778888888877666 6777777778888877


Q ss_pred             c------CCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          206 H------GCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       206 ~------~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      +      +|.+.+.+|..+..+++|+.|++++|.+..+|..+.  ++|++|++++
T Consensus       544 s~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~  596 (636)
T 4eco_A          544 RNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKIT--PNISVLDIKD  596 (636)
T ss_dssp             CSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCCCBCCSCCC--TTCCEEECCS
T ss_pred             CCCcccccCcccccChHHHhcCCCCCEEECCCCcCCccCHhHh--CcCCEEECcC
Confidence            3      455566777777777888888888888777776654  6777777764

>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=99.91  E-value=8.4e-24  Score=187.07  Aligned_cols=230  Identities=17%  Similarity=0.099  Sum_probs=177.7

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCC-CCCCCCc-------------chhhc---chhhh
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYP-LKSLPSN-------------DIEQL---WDRVK   75 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~-~~~l~~~-------------~l~~l---~~~~~   75 (254)
                      .+..+++|++|++++|.+ +      .++ .+..++|++|++.+|. +..++..             .+..+   +..+.
T Consensus       302 ~l~~~~~L~~L~l~~n~l-~------~lp-~~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~~~~~~~~~~  373 (606)
T 3vq2_A          302 DVPKHFKWQSLSIIRCQL-K------QFP-TLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDL  373 (606)
T ss_dssp             CCCTTCCCSEEEEESCCC-S------SCC-CCCCSSCCEEEEESCSSCEECCCCCCTTCCEEECCSSCEEEEEECCHHHH
T ss_pred             hccccccCCEEEcccccC-c------ccc-cCCCCccceeeccCCcCccchhhccCCCCCEEECcCCccCCCcchhhhhc
Confidence            466677888888888876 1      222 2211555555555541 1111100             11111   34577


Q ss_pred             cccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccC-CCCCCCCcccEEeccCCCCCccccccc--cCC
Q 042890           76 RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEIS--SGN  152 (254)
Q Consensus        76 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~  152 (254)
                      .+++|++|+++++.  ...++.  .+..+++|+.|++++|.+.+..+ ..+..+++|+.|++++|......|...  .++
T Consensus       374 ~~~~L~~L~L~~n~--l~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  449 (606)
T 3vq2_A          374 GTNSLRHLDLSFNG--AIIMSA--NFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTS  449 (606)
T ss_dssp             CCSCCCEEECCSCS--EEEECC--CCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTT
T ss_pred             cCCcccEeECCCCc--cccchh--hccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCC
Confidence            88999999999776  556666  88899999999999998766665 568889999999999988777666543  478


Q ss_pred             cCeEecccccccc--cchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEecc
Q 042890          153 ISWLFLRGIAIEE--LPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLA  230 (254)
Q Consensus       153 L~~L~l~~~~~~~--l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~  230 (254)
                      |+.|++++|.++.  +|..+..+++|+.|++++|.+.+..|..+.++++|+.|++++|.+.+..|..+..+++|+.|+++
T Consensus       450 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~  529 (606)
T 3vq2_A          450 LNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCS  529 (606)
T ss_dssp             CCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECT
T ss_pred             CCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECC
Confidence            9999999999885  67778899999999999999888888889999999999999999988889999999999999999


Q ss_pred             CCCCCCCChhhhhhc-ccCcccccC
Q 042890          231 KTNIERIPESIIQLF-VSGYLLLSY  254 (254)
Q Consensus       231 ~n~l~~l~~~~~~~~-~L~~L~ls~  254 (254)
                      +|.++.+|..+..++ +|+++++++
T Consensus       530 ~N~l~~~p~~~~~l~~~L~~l~l~~  554 (606)
T 3vq2_A          530 FNRIETSKGILQHFPKSLAFFNLTN  554 (606)
T ss_dssp             TSCCCCEESCGGGSCTTCCEEECCS
T ss_pred             CCcCcccCHhHhhhcccCcEEEccC
Confidence            999999988888887 599998864

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

Probab=99.91  E-value=9.7e-24  Score=177.21  Aligned_cols=217  Identities=13%  Similarity=0.082  Sum_probs=164.6

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCC-CC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCcee
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDP-GF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l-~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      .++++++|+++++.+       ..++..+ .. ++|++|++.+|.++.+++.       .+..+++|++|+++++.  ..
T Consensus        43 ~l~~l~~l~l~~~~l-------~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~-------~~~~l~~L~~L~L~~n~--l~  106 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTM-------RKLPAALLDSFRQVELLNLNDLQIEEIDTY-------AFAYAHTIQKLYMGFNA--IR  106 (390)
T ss_dssp             GGCCCSEEEEESCEE-------SEECTHHHHHCCCCSEEECTTSCCCEECTT-------TTTTCTTCCEEECCSSC--CC
T ss_pred             ccCCceEEEecCCch-------hhCChhHhcccccCcEEECCCCcccccChh-------hccCCCCcCEEECCCCC--CC
Confidence            468999999999987       4455443 44 8999999999998877653       37789999999999776  34


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchhh
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSSI  170 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~~  170 (254)
                      .++. ..+..+++|++|++++|.+. .+|. .+..+++|+.|++++|.+....+...  .++|+.|++++|.++.++.  
T Consensus       107 ~~~~-~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~--  182 (390)
T 3o6n_A          107 YLPP-HVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDL--  182 (390)
T ss_dssp             CCCT-TTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCCG--
T ss_pred             cCCH-HHhcCCCCCCEEECCCCccC-cCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCcccc--
Confidence            4432 26889999999999999865 4554 45789999999999988765544322  4789999999998886542  


Q ss_pred             hhcc----------------------------------------ccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          171 ERQL----------------------------------------RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       171 ~~~~----------------------------------------~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      ..++                                        +|+.|++++|.+.+.  ..+..+++|+.|++++|.+
T Consensus       183 ~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~Ls~n~l  260 (390)
T 3o6n_A          183 SLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDT--AWLLNYPGLVEVDLSYNEL  260 (390)
T ss_dssp             GGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCC
T ss_pred             ccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCccc--HHHcCCCCccEEECCCCcC
Confidence            2223                                        344444444443332  3467788899999999888


Q ss_pred             CcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          211 LQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       211 ~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+..|..+..+++|+.|++++|.+..++.....+++|++|++++
T Consensus       261 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~  304 (390)
T 3o6n_A          261 EKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH  304 (390)
T ss_dssp             CEEESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCS
T ss_pred             CCcChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCC
Confidence            77778888889999999999999988877777888999988874

>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=99.91  E-value=6e-23  Score=165.24  Aligned_cols=204  Identities=17%  Similarity=0.098  Sum_probs=139.4

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      .++|++|+++++.+.      ...+..+.. ++|++|++++|.++.+++.       .+..+++|++|+++++.......
T Consensus        31 ~~~l~~L~l~~n~i~------~~~~~~~~~~~~L~~L~l~~n~l~~~~~~-------~~~~l~~L~~L~l~~n~~l~~~~   97 (285)
T 1ozn_A           31 PAASQRIFLHGNRIS------HVPAASFRACRNLTILWLHSNVLARIDAA-------AFTGLALLEQLDLSDNAQLRSVD   97 (285)
T ss_dssp             CTTCSEEECTTSCCC------EECTTTTTTCTTCCEEECCSSCCCEECTT-------TTTTCTTCCEEECCSCTTCCCCC
T ss_pred             CCCceEEEeeCCcCC------ccCHHHcccCCCCCEEECCCCccceeCHh-------hcCCccCCCEEeCCCCCCccccC
Confidence            457788888887762      112233555 7788888888776655322       35667788888887664322222


Q ss_pred             CCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hhh
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IER  172 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~~  172 (254)
                      +.  .+..+++|++|++++|.+....+..+..+++|+.|++++|.+....+...  .++|+.|++++|.++.++.. +..
T Consensus        98 ~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  175 (285)
T 1ozn_A           98 PA--TFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRG  175 (285)
T ss_dssp             TT--TTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTT
T ss_pred             HH--HhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcC
Confidence            43  67777888888888887665556667777888888888776554333221  36777888888877776654 667


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|++.
T Consensus       176 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          176 LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             ccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCcc
Confidence            778888888888777766777777788888888877776655566777788888888887764

>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=99.91  E-value=9.4e-23  Score=174.44  Aligned_cols=212  Identities=19%  Similarity=0.177  Sum_probs=176.4

Q ss_pred             eeeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehh
Q 042890            7 LRLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIH   85 (254)
Q Consensus         7 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l   85 (254)
                      ..+.+.+|..+++|++|++++|.+.      ...+..+.. ++|++|+|++|.++.++..       .+..+++|++|++
T Consensus        88 ~~~~~~~~~~l~~L~~L~Ls~n~i~------~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L  154 (452)
T 3zyi_A           88 QMIQADTFRHLHHLEVLQLGRNSIR------QIEVGAFNGLASLNTLELFDNWLTVIPSG-------AFEYLSKLRELWL  154 (452)
T ss_dssp             CEECTTTTTTCTTCCEEECCSSCCC------EECTTTTTTCTTCCEEECCSSCCSBCCTT-------TSSSCTTCCEEEC
T ss_pred             ceECHHHcCCCCCCCEEECCCCccC------CcChhhccCcccCCEEECCCCcCCccChh-------hhcccCCCCEEEC
Confidence            3455778999999999999999982      223455666 9999999999998888754       3677899999999


Q ss_pred             hccCCceeecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccc
Q 042890           86 AACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAI  163 (254)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~  163 (254)
                      +++.  ...++. ..|..+++|+.|++++|...+.++. .+..+++|+.|++++|.+.. +|... ..+|+.|++++|.+
T Consensus       155 ~~N~--l~~~~~-~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~-~~~~~~l~~L~~L~Ls~N~l  230 (452)
T 3zyi_A          155 RNNP--IESIPS-YAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKD-MPNLTPLVGLEELEMSGNHF  230 (452)
T ss_dssp             CSCC--CCEECT-TTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSS-CCCCTTCTTCCEEECTTSCC
T ss_pred             CCCC--cceeCH-hHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccc-cccccccccccEEECcCCcC
Confidence            9776  445542 3788999999999999766666654 57889999999999987654 45443 58999999999999


Q ss_pred             ccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          164 EEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       164 ~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +.+ |..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++|++.
T Consensus       231 ~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          231 PEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             SEECGGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECCSSCEE
T ss_pred             cccCcccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEccCCCcC
Confidence            976 556889999999999999998888888999999999999999888777778889999999999999863

>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=99.91  E-value=8e-24  Score=172.04  Aligned_cols=213  Identities=19%  Similarity=0.217  Sum_probs=172.5

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      +.+..|+++++|++|++++|.+....    ..+..+.. ++|++|++++|.+..++..        +..+++|++|++++
T Consensus        43 i~~~~~~~l~~L~~L~L~~n~l~~~~----~~~~~~~~~~~L~~L~Ls~n~i~~l~~~--------~~~l~~L~~L~l~~  110 (306)
T 2z66_A           43 LPHGVFDKLTQLTKLSLSSNGLSFKG----CCSQSDFGTTSLKYLDLSFNGVITMSSN--------FLGLEQLEHLDFQH  110 (306)
T ss_dssp             CCTTTTTTCTTCSEEECCSSCCCEEE----EEEHHHHSCSCCCEEECCSCSEEEEEEE--------EETCTTCCEEECTT
T ss_pred             cCHhHhhccccCCEEECCCCccCccc----CcccccccccccCEEECCCCccccChhh--------cCCCCCCCEEECCC
Confidence            44456889999999999999983221    11222234 8999999999987766543        77899999999997


Q ss_pred             cCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCc-cccccc--cCCcCeEeccccccc
Q 042890           88 CHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK-RLPEIS--SGNISWLFLRGIAIE  164 (254)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~p~~~--~~~L~~L~l~~~~~~  164 (254)
                      +.  ...++....+..+++|++|++++|.+....+..+..+++|+.|++++|.+.+ ..|...  .++|+.|++++|.++
T Consensus       111 n~--l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~  188 (306)
T 2z66_A          111 SN--LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE  188 (306)
T ss_dssp             SE--EESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCC
T ss_pred             Cc--ccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcC
Confidence            65  4444421268889999999999999777777778899999999999988765 345433  479999999999999


Q ss_pred             cc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCC-CCcEEeccCCCCC
Q 042890          165 EL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLS-SPITCNLAKTNIE  235 (254)
Q Consensus       165 ~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~n~l~  235 (254)
                      .+ |..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..++ +|+.|++++|.+.
T Consensus       189 ~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N~~~  261 (306)
T 2z66_A          189 QLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA  261 (306)
T ss_dssp             EECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTCCEE
T ss_pred             CcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEEccCCCee
Confidence            76 56688899999999999998876666788999999999999999888888888884 9999999999985

>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=99.91  E-value=8.5e-23  Score=180.63  Aligned_cols=235  Identities=17%  Similarity=0.124  Sum_probs=176.9

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCc------------------ccccC-CCCC-CceeeeeeCCCCCCCCCCcchhhc
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCK------------------MSYLQ-DPGF-AEVKYLHWHGYPLKSLPSNDIEQL   70 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~------------------~~~~~-~l~~-~~L~~L~l~~~~~~~l~~~~l~~l   70 (254)
                      +..|..+++|++|++++|.+.+..+..                  ...+. .+.. ++|++|++++|.+..++     ..
T Consensus       294 p~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-----~~  368 (606)
T 3t6q_A          294 PSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSD-----CC  368 (606)
T ss_dssp             CSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEE-----ES
T ss_pred             ChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCcccccc-----Cc
Confidence            345667778888888888763221100                  01111 1223 45555555555443321     00


Q ss_pred             chhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCccccccc
Q 042890           71 WDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEIS  149 (254)
Q Consensus        71 ~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~p~~~  149 (254)
                      +..+..+++|++|+++++.. ....+.  .+..+++|++|++++|.+.+..+. .+..+++|+.|++++|......|...
T Consensus       369 ~~~~~~l~~L~~L~l~~n~l-~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  445 (606)
T 3t6q_A          369 NLQLRNLSHLQSLNLSYNEP-LSLKTE--AFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLF  445 (606)
T ss_dssp             TTTTTTCTTCCEEECCSCSC-EEECTT--TTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTT
T ss_pred             chhcccCCCCCEEECCCCcC-CcCCHH--HhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHH
Confidence            23477899999999998763 334455  888999999999999987665554 37889999999999988766655433


Q ss_pred             --cCCcCeEecccccccc--c--chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCC
Q 042890          150 --SGNISWLFLRGIAIEE--L--PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSS  223 (254)
Q Consensus       150 --~~~L~~L~l~~~~~~~--l--~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~  223 (254)
                        .++|+.|++++|.++.  +  +..+..+++|+.|++++|.+.+..|..+..+++|+.|++++|.+.+..|..+.+++.
T Consensus       446 ~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~  525 (606)
T 3t6q_A          446 DGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKG  525 (606)
T ss_dssp             TTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCS
T ss_pred             hCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCccCcCChhHhCcccc
Confidence              4899999999999874  2  245888999999999999998888888999999999999999998888999999999


Q ss_pred             CcEEeccCCCCCCC-ChhhhhhcccCcccccC
Q 042890          224 PITCNLAKTNIERI-PESIIQLFVSGYLLLSY  254 (254)
Q Consensus       224 L~~L~l~~n~l~~l-~~~~~~~~~L~~L~ls~  254 (254)
                      | .|++++|.+..+ |..+..+++|+++++++
T Consensus       526 L-~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  556 (606)
T 3t6q_A          526 I-YLNLASNHISIILPSLLPILSQQRTINLRQ  556 (606)
T ss_dssp             C-EEECCSSCCCCCCGGGHHHHHTSSEEECTT
T ss_pred             c-EEECcCCcccccCHhhcccCCCCCEEeCCC
Confidence            9 999999999865 45688999999999874

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

Probab=99.91  E-value=8.6e-23  Score=174.09  Aligned_cols=210  Identities=19%  Similarity=0.196  Sum_probs=175.4

Q ss_pred             eeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            8 RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      .+.+.+|..+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.++..       .+..+++|++|+++
T Consensus        78 ~~~~~~~~~l~~L~~L~Ls~n~i~------~i~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L~  144 (440)
T 3zyj_A           78 IIKVNSFKHLRHLEILQLSRNHIR------TIEIGAFNGLANLNTLELFDNRLTTIPNG-------AFVYLSKLKELWLR  144 (440)
T ss_dssp             EECTTTTSSCSSCCEEECCSSCCC------EECGGGGTTCSSCCEEECCSSCCSSCCTT-------TSCSCSSCCEEECC
T ss_pred             eeCHHHhhCCCCCCEEECCCCcCC------ccChhhccCCccCCEEECCCCcCCeeCHh-------HhhccccCceeeCC
Confidence            455678999999999999999982      222344566 9999999999999888763       36788999999999


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCccccccc-cCCcCeEeccccccc
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIE  164 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~  164 (254)
                      ++.  ...++. ..|..+++|++|++++|.....++. .+.++++|+.|++++|.+. .+|... ..+|+.|++++|.++
T Consensus       145 ~N~--i~~~~~-~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~l~~L~~L~Ls~N~l~  220 (440)
T 3zyj_A          145 NNP--IESIPS-YAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR-EIPNLTPLIKLDELDLSGNHLS  220 (440)
T ss_dssp             SCC--CCEECT-TTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS-SCCCCTTCSSCCEEECTTSCCC
T ss_pred             CCc--ccccCH-HHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc-cccccCCCcccCEEECCCCccC
Confidence            776  445542 3788999999999999766666654 6788999999999998755 455443 589999999999999


Q ss_pred             cc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCC
Q 042890          165 EL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       165 ~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      .+ |..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++|++
T Consensus       221 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          221 AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPW  291 (440)
T ss_dssp             EECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEECCSSCE
T ss_pred             ccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEcCCCCc
Confidence            76 55688999999999999999888888899999999999999988877778888999999999999986

>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=99.90  E-value=9.8e-23  Score=168.39  Aligned_cols=223  Identities=15%  Similarity=0.156  Sum_probs=151.9

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCC-CCCCCCc--------------chhhcchhhh
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYP-LKSLPSN--------------DIEQLWDRVK   75 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~-~~~l~~~--------------~l~~l~~~~~   75 (254)
                      ++|..+++|++|++++|.+.+.       +. +.. ++|++|++.+|. +..++..              .+..+ ..+.
T Consensus       104 ~~~~~l~~L~~L~l~~n~i~~~-------~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~  174 (347)
T 4fmz_A          104 SALQNLTNLRELYLNEDNISDI-------SP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDV-TPIA  174 (347)
T ss_dssp             GGGTTCTTCSEEECTTSCCCCC-------GG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCC-GGGG
T ss_pred             hHHcCCCcCCEEECcCCcccCc-------hh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCc-hhhc
Confidence            3578889999999999887322       22 334 667777777664 2222211              00000 0144


Q ss_pred             cccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCe
Q 042890           76 RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISW  155 (254)
Q Consensus        76 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~  155 (254)
                      .+++|++|+++++.  ...++   .+..+++|+.|++++|.+... +. +..+++|+.|++++|.+....+....++|+.
T Consensus       175 ~l~~L~~L~l~~n~--l~~~~---~~~~l~~L~~L~l~~n~l~~~-~~-~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~  247 (347)
T 4fmz_A          175 NLTDLYSLSLNYNQ--IEDIS---PLASLTSLHYFTAYVNQITDI-TP-VANMTRLNSLKIGNNKITDLSPLANLSQLTW  247 (347)
T ss_dssp             GCTTCSEEECTTSC--CCCCG---GGGGCTTCCEEECCSSCCCCC-GG-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCE
T ss_pred             cCCCCCEEEccCCc--ccccc---cccCCCccceeecccCCCCCC-ch-hhcCCcCCEEEccCCccCCCcchhcCCCCCE
Confidence            56666666666554  23333   355666777777777664332 22 6677788888888876554433223478888


Q ss_pred             EecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          156 LFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       156 L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      |++++|.++.++ .+..+++|+.|++++|.+.+.  +.+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.
T Consensus       248 L~l~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~l~  324 (347)
T 4fmz_A          248 LEIGTNQISDIN-AVKDLTKLKMLNVGSNQISDI--SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHIT  324 (347)
T ss_dssp             EECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSSCC
T ss_pred             EECCCCccCCCh-hHhcCCCcCEEEccCCccCCC--hhhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCccc
Confidence            888888888764 467788888888888876553  35778889999999998887777788888999999999999988


Q ss_pred             CCChhhhhhcccCcccccC
Q 042890          236 RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       236 ~l~~~~~~~~~L~~L~ls~  254 (254)
                      .++. +..+++|++|++++
T Consensus       325 ~~~~-~~~l~~L~~L~l~~  342 (347)
T 4fmz_A          325 DIRP-LASLSKMDSADFAN  342 (347)
T ss_dssp             CCGG-GGGCTTCSEESSSC
T ss_pred             cccC-hhhhhccceeehhh
Confidence            7765 78889999998874

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

Probab=99.90  E-value=9.2e-23  Score=185.64  Aligned_cols=218  Identities=16%  Similarity=0.154  Sum_probs=135.0

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccc-cceehhhccCC
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSK-LNQIIHAACHK   90 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~-L~~l~l~~~~~   90 (254)
                      .|+.+++|++|++++|.+       ..+| .+.. ++|+.|++++|.+..+|..        +..+++ |++|+++++. 
T Consensus       568 ~l~~L~~L~~L~Ls~N~l-------~~lp-~~~~L~~L~~L~Ls~N~l~~lp~~--------l~~l~~~L~~L~Ls~N~-  630 (876)
T 4ecn_A          568 SLQKMVKLGLLDCVHNKV-------RHLE-AFGTNVKLTDLKLDYNQIEEIPED--------FCAFTDQVEGLGFSHNK-  630 (876)
T ss_dssp             HHTTCTTCCEEECTTSCC-------CBCC-CCCTTSEESEEECCSSCCSCCCTT--------SCEECTTCCEEECCSSC-
T ss_pred             hhhcCCCCCEEECCCCCc-------ccch-hhcCCCcceEEECcCCccccchHH--------HhhccccCCEEECcCCC-
Confidence            566777777777777776       2334 4445 6777777777766665543        455555 6666666544 


Q ss_pred             ceeecCCCCccCCcc--cccEEeccCCcCCC----------------------------ccCCCC-CCCCcccEEeccCC
Q 042890           91 LIAKIPNPTLMPRMK--KLVILNLRGSKSLK----------------------------SLPSGI-FNLEFLTKLDLSGC  139 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~--~L~~L~l~~~~~~~----------------------------~~~~~~-~~l~~L~~L~l~~~  139 (254)
                       ...+|.  .+...+  +|+.|++++|.+.+                            .+|..+ ..+++|+.|++++|
T Consensus       631 -L~~lp~--~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          631 -LKYIPN--IFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNN  707 (876)
T ss_dssp             -CCSCCS--CCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSC
T ss_pred             -CCcCch--hhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCC
Confidence             224443  333332  24455555444333                            233222 24566666666665


Q ss_pred             CCCccccccccC----------CcCeEecccccccccchhhh--hccccCEEeccCCcCcccCCccccCCCccCEEEecC
Q 042890          140 SKLKRLPEISSG----------NISWLFLRGIAIEELPSSIE--RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHG  207 (254)
Q Consensus       140 ~~~~~~p~~~~~----------~L~~L~l~~~~~~~l~~~~~--~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~  207 (254)
                      .+. .+|...+.          +|+.|++++|.++.+|..+.  .+++|+.|++++|.+.+ +|..+..+++|+.|++++
T Consensus       708 ~L~-~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp~~l~~L~~L~~L~Ls~  785 (876)
T 4ecn_A          708 LMT-SIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSS-FPTQPLNSSQLKAFGIRH  785 (876)
T ss_dssp             CCS-CCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTTCTTCCEEECCSSCCSS-CCCGGGGCTTCCEEECCC
T ss_pred             cCC-ccChHHhccccccccccCCccEEECCCCCCccchHHhhhccCCCcCEEEeCCCCCCc-cchhhhcCCCCCEEECCC
Confidence            544 44443321          67777777777777777665  67777777777777665 666677777777777755


Q ss_pred             ------CCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          208 ------CSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       208 ------~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                            |.+.+.+|..+.++++|+.|++++|.+..+|..+.  ++|+.|++++
T Consensus       786 N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~L~~Ip~~l~--~~L~~LdLs~  836 (876)
T 4ecn_A          786 QRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKLT--PQLYILDIAD  836 (876)
T ss_dssp             CBCTTCCBCCCCCCTTGGGCSSCCEEECCSSCCCBCCSCCC--SSSCEEECCS
T ss_pred             CCCcccccccccChHHHhcCCCCCEEECCCCCCCccCHhhc--CCCCEEECCC
Confidence                  55566677777777777777777777777776554  5777777764

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.90  E-value=9.5e-23  Score=177.22  Aligned_cols=125  Identities=18%  Similarity=0.145  Sum_probs=63.5

Q ss_pred             CCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccc---cchhhhhccccCEEeccCCcCcccCCcc-ccCCCc
Q 042890          126 FNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEE---LPSSIERQLRLSWLDLSDCKRLKSLPSS-LYRLKS  199 (254)
Q Consensus       126 ~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~---l~~~~~~~~~L~~L~l~~n~~~~~~~~~-l~~l~~  199 (254)
                      ..+++|+.|++++|.+.+..|...  .++|+.|++++|.++.   +|..+..+++|++|++++|.+.+.+|.. +..+++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~  400 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            345566666666665555444322  3566666666666663   3344566666666666666665534432 444555


Q ss_pred             cCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccc
Q 042890          200 LGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL  252 (254)
Q Consensus       200 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~l  252 (254)
                      |+.|++++|.+.+..+..+.  ++|+.|++++|.+..+|..+..+++|++|++
T Consensus       401 L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L  451 (520)
T 2z7x_B          401 LLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIKSIPKQVVKLEALQELNV  451 (520)
T ss_dssp             CCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCCCCCGGGGGCTTCCEEEC
T ss_pred             CCEEECcCCCCCcchhhhhc--ccCCEEECCCCcccccchhhhcCCCCCEEEC
Confidence            55555555544333333221  3444444444444444444444444444443

>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=99.90  E-value=2e-22  Score=166.55  Aligned_cols=214  Identities=17%  Similarity=0.175  Sum_probs=125.7

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      |..+++|++|++++|.+.+       .+. +.. ++|++|++++|.++.++.         +..+++|++|+++++.  .
T Consensus        62 ~~~~~~L~~L~l~~n~i~~-------~~~-~~~l~~L~~L~L~~n~i~~~~~---------~~~l~~L~~L~l~~n~--i  122 (347)
T 4fmz_A           62 IEYLTNLEYLNLNGNQITD-------ISP-LSNLVKLTNLYIGTNKITDISA---------LQNLTNLRELYLNEDN--I  122 (347)
T ss_dssp             GGGCTTCCEEECCSSCCCC-------CGG-GTTCTTCCEEECCSSCCCCCGG---------GTTCTTCSEEECTTSC--C
T ss_pred             hhhcCCccEEEccCCcccc-------chh-hhcCCcCCEEEccCCcccCchH---------HcCCCcCCEEECcCCc--c
Confidence            5567777777777777622       222 444 677777777776655532         3444455555554433  1


Q ss_pred             eecCC--------------------CCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCC
Q 042890           93 AKIPN--------------------PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGN  152 (254)
Q Consensus        93 ~~~~~--------------------~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~  152 (254)
                      ..++.                    ...+..+++|++|++++|.+.. ++. +..+++|+.|++++|.+....+-...++
T Consensus       123 ~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~-~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~  200 (347)
T 4fmz_A          123 SDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKD-VTP-IANLTDLYSLSLNYNQIEDISPLASLTS  200 (347)
T ss_dssp             CCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCC-CGG-GGGCTTCSEEECTTSCCCCCGGGGGCTT
T ss_pred             cCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCC-chh-hccCCCCCEEEccCCcccccccccCCCc
Confidence            22220                    0034444555555555554322 222 4455555566665554333222122356


Q ss_pred             cCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC
Q 042890          153 ISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       153 L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      ++.+++.+|.++.++. +..+++|+.|++++|.+.+..+  +..+++|+.|++++|.+.+.  ..+..+++|+.|++++|
T Consensus       201 L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~l~~n  275 (347)
T 4fmz_A          201 LHYFTAYVNQITDITP-VANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISDI--NAVKDLTKLKMLNVGSN  275 (347)
T ss_dssp             CCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSS
T ss_pred             cceeecccCCCCCCch-hhcCCcCCEEEccCCccCCCcc--hhcCCCCCEEECCCCccCCC--hhHhcCCCcCEEEccCC
Confidence            6666666666665544 5667777888887777555332  67778888888888766542  34677888888888888


Q ss_pred             CCCCCChhhhhhcccCcccccC
Q 042890          233 NIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       233 ~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+..++ .+..+++|++|++++
T Consensus       276 ~l~~~~-~~~~l~~L~~L~L~~  296 (347)
T 4fmz_A          276 QISDIS-VLNNLSQLNSLFLNN  296 (347)
T ss_dssp             CCCCCG-GGGGCTTCSEEECCS
T ss_pred             ccCCCh-hhcCCCCCCEEECcC
Confidence            887764 477788888888764

>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=99.90  E-value=3.2e-23  Score=181.28  Aligned_cols=103  Identities=18%  Similarity=0.152  Sum_probs=69.6

Q ss_pred             CcCeEecccccccccchhh-hhccccCEEeccCCcCcccCC---ccccCCCccCEEEecCCCCCcccC--ccccCCCCCc
Q 042890          152 NISWLFLRGIAIEELPSSI-ERQLRLSWLDLSDCKRLKSLP---SSLYRLKSLGILDLHGCSNLQRLP--ECLGQLSSPI  225 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~~~-~~~~~L~~L~l~~n~~~~~~~---~~l~~l~~L~~L~l~~~~~~~~~~--~~~~~l~~L~  225 (254)
                      +++.+++.+|.++.+|..+ ..+++|+.|++++|.+.+.++   ..++.+++|+.|++++|.+.+..+  ..+..+++|+
T Consensus       311 ~L~~L~l~~n~l~~ip~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~  390 (549)
T 2z81_A          311 KVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLT  390 (549)
T ss_dssp             TCCEEEEESSCCCCCCHHHHHHCTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCC
T ss_pred             cceEEEeccCccccCCHHHHhcCccccEEEccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCC
Confidence            3445555555555566654 467888888888888776543   235667778888888776654322  3466677888


Q ss_pred             EEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          226 TCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       226 ~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .|++++|.++.+|..+..+++|++|++++
T Consensus       391 ~L~Ls~N~l~~lp~~~~~~~~L~~L~Ls~  419 (549)
T 2z81_A          391 SLDISRNTFHPMPDSCQWPEKMRFLNLSS  419 (549)
T ss_dssp             EEECTTCCCCCCCSCCCCCTTCCEEECTT
T ss_pred             EEECCCCCCccCChhhcccccccEEECCC
Confidence            88888888777777777777777777653

>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=99.90  E-value=2.7e-23  Score=172.28  Aligned_cols=231  Identities=16%  Similarity=0.161  Sum_probs=142.2

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      +.+.+|.++++|++|++++|.+.      ...+..+.. ++|++|++++|.++.++..       .+..+++|++|++++
T Consensus        67 ~~~~~~~~l~~L~~L~L~~n~l~------~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~-------~~~~l~~L~~L~L~~  133 (353)
T 2z80_A           67 ISNSDLQRCVNLQALVLTSNGIN------TIEEDSFSSLGSLEHLDLSYNYLSNLSSS-------WFKPLSSLTFLNLLG  133 (353)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCC------EECTTTTTTCTTCCEEECCSSCCSSCCHH-------HHTTCTTCSEEECTT
T ss_pred             cCHHHhccCCCCCEEECCCCccC------ccCHhhcCCCCCCCEEECCCCcCCcCCHh-------HhCCCccCCEEECCC
Confidence            33446777777777777777762      122334555 7777777777776666542       256677788887776


Q ss_pred             cCCceeecCCCCccCCcccccEEeccCCcCCCcc-CCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEeccccccc
Q 042890           88 CHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL-PSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE  164 (254)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~  164 (254)
                      +.  ...++....+..+++|++|++++|.....+ +..+..+++|+.|++++|.+.+..|...  .++|+.|++++|.++
T Consensus       134 n~--l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~  211 (353)
T 2z80_A          134 NP--YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI  211 (353)
T ss_dssp             CC--CSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCST
T ss_pred             CC--CcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccc
Confidence            65  334431125667778888888777433333 4556677778888887776655444332  356777778777777


Q ss_pred             ccchh-hhhccccCEEeccCCcCcccCCccc---cCCCccCEEEecCCCCCc----ccCccccCCCCCcEEeccCCCCCC
Q 042890          165 ELPSS-IERQLRLSWLDLSDCKRLKSLPSSL---YRLKSLGILDLHGCSNLQ----RLPECLGQLSSPITCNLAKTNIER  236 (254)
Q Consensus       165 ~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l---~~l~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~n~l~~  236 (254)
                      .+|.. +..+++|+.|++++|.+.+..+..+   ...+.++.+++.++.+.+    .+|..+..+++|+.|++++|.++.
T Consensus       212 ~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~  291 (353)
T 2z80_A          212 LLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKS  291 (353)
T ss_dssp             THHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCC
T ss_pred             cchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCCCCCc
Confidence            76665 3346778888888777665332221   123445555555544432    244556667777777777777776


Q ss_pred             CChhh-hhhcccCcccccC
Q 042890          237 IPESI-IQLFVSGYLLLSY  254 (254)
Q Consensus       237 l~~~~-~~~~~L~~L~ls~  254 (254)
                      +|..+ ..+++|++|++++
T Consensus       292 i~~~~~~~l~~L~~L~L~~  310 (353)
T 2z80_A          292 VPDGIFDRLTSLQKIWLHT  310 (353)
T ss_dssp             CCTTTTTTCTTCCEEECCS
T ss_pred             cCHHHHhcCCCCCEEEeeC
Confidence            66653 5677777776653

>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=99.90  E-value=1.3e-22  Score=163.39  Aligned_cols=215  Identities=19%  Similarity=0.211  Sum_probs=172.0

Q ss_pred             eEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec-CCCC
Q 042890           21 RFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI-PNPT   99 (254)
Q Consensus        21 ~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~-~~~~   99 (254)
                      ++++.+++.+       ..+|..+ .++|++|++++|.++.++..       .+..+++|++|+++++.  ...+ +.  
T Consensus        14 ~~~~c~~~~l-------~~ip~~~-~~~l~~L~l~~n~i~~~~~~-------~~~~~~~L~~L~l~~n~--l~~~~~~--   74 (285)
T 1ozn_A           14 VTTSCPQQGL-------QAVPVGI-PAASQRIFLHGNRISHVPAA-------SFRACRNLTILWLHSNV--LARIDAA--   74 (285)
T ss_dssp             CEEECCSSCC-------SSCCTTC-CTTCSEEECTTSCCCEECTT-------TTTTCTTCCEEECCSSC--CCEECTT--
T ss_pred             eEEEcCcCCc-------ccCCcCC-CCCceEEEeeCCcCCccCHH-------HcccCCCCCEEECCCCc--cceeCHh--
Confidence            4566666554       3334322 27899999999988877643       36788999999999775  3344 54  


Q ss_pred             ccCCcccccEEeccCCc-CCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hhhccc
Q 042890          100 LMPRMKKLVILNLRGSK-SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IERQLR  175 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~~~~~  175 (254)
                      .+..+++|++|++++|. +....+..+..+++|+.|++++|.+....+...  .++|++|++++|.++.++.. +..+++
T Consensus        75 ~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  154 (285)
T 1ozn_A           75 AFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGN  154 (285)
T ss_dssp             TTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             hcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCC
Confidence            88899999999999997 444446778889999999999988766545332  47899999999999988765 788899


Q ss_pred             cCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCcccccC
Q 042890          176 LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLLSY  254 (254)
Q Consensus       176 L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~ls~  254 (254)
                      |+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++|.+..++. .+..+++|++|++++
T Consensus       155 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  234 (285)
T 1ozn_A          155 LTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLND  234 (285)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCS
T ss_pred             ccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEeccC
Confidence            9999999998777666668889999999999998888888889999999999999999997764 488899999998874

>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=99.90  E-value=2.1e-22  Score=177.90  Aligned_cols=227  Identities=16%  Similarity=0.027  Sum_probs=168.2

Q ss_pred             eeCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            8 RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      .+.+.+|+.+++|++|++++|.+.+      ..+..+.. ++|++|++++|.++.+|+.       .+..+++|++|+++
T Consensus        89 ~~~~~~~~~l~~L~~L~L~~n~l~~------~~~~~~~~l~~L~~L~L~~n~l~~l~~~-------~~~~l~~L~~L~Ls  155 (597)
T 3oja_B           89 EIDTYAFAYAHTIQKLYMGFNAIRY------LPPHVFQNVPLLTVLVLERNDLSSLPRG-------IFHNTPKLTTLSMS  155 (597)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSSCCCCCCTT-------TTTTCTTCCEEECC
T ss_pred             CCChHHhcCCCCCCEEECCCCcCCC------CCHHHHcCCCCCCEEEeeCCCCCCCCHH-------HhccCCCCCEEEee
Confidence            3445688999999999999999832      22334556 8999999999998888764       24678888888888


Q ss_pred             ccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC-------------------------------------CCC
Q 042890           87 ACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF-------------------------------------NLE  129 (254)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~-------------------------------------~l~  129 (254)
                      ++.. ....+.  .+..+++|++|++++|.+.+.....+.                                     ..+
T Consensus       156 ~N~l-~~~~~~--~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~  232 (597)
T 3oja_B          156 NNNL-ERIEDD--TFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNV  232 (597)
T ss_dssp             SSCC-CBCCTT--TTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCS
T ss_pred             CCcC-CCCChh--hhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccccccCC
Confidence            7653 222333  677888888888888875432111111                                     113


Q ss_pred             cccEEeccCCCCCccccccccCCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCC
Q 042890          130 FLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~  208 (254)
                      +|+.|++++|.+.+...-...++|+.|++++|.++.+ |..+..+++|+.|++++|.+.+ +|..+..+++|+.|++++|
T Consensus       233 ~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N  311 (597)
T 3oja_B          233 ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHN  311 (597)
T ss_dssp             CCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSS
T ss_pred             CCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCC
Confidence            4666777776655431112258999999999999865 6678899999999999998766 4556677999999999998


Q ss_pred             CCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          209 SNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       209 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+. .+|..+..+++|+.|++++|.+..++  +..+++|+.|++++
T Consensus       312 ~l~-~i~~~~~~l~~L~~L~L~~N~l~~~~--~~~~~~L~~L~l~~  354 (597)
T 3oja_B          312 HLL-HVERNQPQFDRLENLYLDHNSIVTLK--LSTHHTLKNLTLSH  354 (597)
T ss_dssp             CCC-CCGGGHHHHTTCSEEECCSSCCCCCC--CCTTCCCSEEECCS
T ss_pred             CCC-ccCcccccCCCCCEEECCCCCCCCcC--hhhcCCCCEEEeeC
Confidence            776 56777788999999999999998775  66789999998874

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

Probab=99.90  E-value=2.2e-22  Score=183.20  Aligned_cols=236  Identities=16%  Similarity=0.126  Sum_probs=148.4

Q ss_pred             CCcccCCCCcceEEEeeccc-cCC-CccCcccc-cCCCCC-CceeeeeeCCCCCCCCCC--c---------------chh
Q 042890           10 NPNTFTKMPKLRFLKFYSSL-FNG-ENKCKMSY-LQDPGF-AEVKYLHWHGYPLKSLPS--N---------------DIE   68 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~~~-~~~-~~~~~~~~-~~~l~~-~~L~~L~l~~~~~~~l~~--~---------------~l~   68 (254)
                      .|..|+++++|++|++++|. +.+ ..+..... ...+.. ++|++|++.+|.+..+|.  .               .+.
T Consensus       507 iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~  586 (876)
T 4ecn_A          507 LPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVR  586 (876)
T ss_dssp             CCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCC
T ss_pred             ChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcc
Confidence            35678888888888888887 644 21110000 002222 567777777666666655  2               111


Q ss_pred             hcchhhhcccccceehhhccCCceeecCCCCccCCccc-ccEEeccCCcCCCccCCCCCCCC--cccEEeccCCCCCccc
Q 042890           69 QLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKK-LVILNLRGSKSLKSLPSGIFNLE--FLTKLDLSGCSKLKRL  145 (254)
Q Consensus        69 ~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~~~~~~~~~~~l~--~L~~L~l~~~~~~~~~  145 (254)
                      .++ .+..+++|+.|+++++.  ...+|.  .+..+++ |+.|++++|.+. .+|..+..++  +|+.|++++|.+.+..
T Consensus       587 ~lp-~~~~L~~L~~L~Ls~N~--l~~lp~--~l~~l~~~L~~L~Ls~N~L~-~lp~~~~~~~~~~L~~L~Ls~N~l~g~i  660 (876)
T 4ecn_A          587 HLE-AFGTNVKLTDLKLDYNQ--IEEIPE--DFCAFTDQVEGLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEG  660 (876)
T ss_dssp             BCC-CCCTTSEESEEECCSSC--CSCCCT--TSCEECTTCCEEECCSSCCC-SCCSCCCTTCSSCEEEEECCSSCTTTTS
T ss_pred             cch-hhcCCCcceEEECcCCc--cccchH--HHhhccccCCEEECcCCCCC-cCchhhhccccCCCCEEECcCCcCCCcc
Confidence            222 35566777777777655  235665  6777777 778888777754 5666555443  3777777777665544


Q ss_pred             cccc-------cCCcCeEecccccccccchhhh-hccccCEEeccCCcCcccCCccccC--------CCccCEEEecCCC
Q 042890          146 PEIS-------SGNISWLFLRGIAIEELPSSIE-RQLRLSWLDLSDCKRLKSLPSSLYR--------LKSLGILDLHGCS  209 (254)
Q Consensus       146 p~~~-------~~~L~~L~l~~~~~~~l~~~~~-~~~~L~~L~l~~n~~~~~~~~~l~~--------l~~L~~L~l~~~~  209 (254)
                      |...       ..+|+.|++++|.++.+|..+. .+++|+.|++++|.+. .+|..+..        +++|+.|++++|.
T Consensus       661 p~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~  739 (876)
T 4ecn_A          661 RNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT-SIPENSLKPKDGNYKNTYLLTTIDLRFNK  739 (876)
T ss_dssp             SSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCS-CCCTTSSSCTTSCCTTGGGCCEEECCSSC
T ss_pred             ccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCC-ccChHHhccccccccccCCccEEECCCCC
Confidence            3221       1367788888888887777643 6778888888887765 44443222        2377777777776


Q ss_pred             CCcccCcccc--CCCCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          210 NLQRLPECLG--QLSSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       210 ~~~~~~~~~~--~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      +. .+|..+.  .+++|+.|++++|.+..+|..+..+++|+.|+++
T Consensus       740 L~-~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~~L~Ls  784 (876)
T 4ecn_A          740 LT-SLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIR  784 (876)
T ss_dssp             CC-CCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCCEEECC
T ss_pred             Cc-cchHHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCCEEECC
Confidence            65 5666665  6777777777777777777777777777777664

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.89  E-value=2.8e-22  Score=175.92  Aligned_cols=126  Identities=16%  Similarity=0.154  Sum_probs=67.3

Q ss_pred             CCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccc---hhhhhccccCEEeccCCcCcccCCc-cccCCC--
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELP---SSIERQLRLSWLDLSDCKRLKSLPS-SLYRLK--  198 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~---~~~~~~~~L~~L~l~~n~~~~~~~~-~l~~l~--  198 (254)
                      .+++|++|++++|.+.+..|...  .++|+.|++++|.++.++   ..+..+++|+.|++++|.+.+.+|. .+..++  
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            34555555555555444333322  245556666666555433   2344555566666666555443332 233333  


Q ss_pred             --------------------ccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChh-hhhhcccCccccc
Q 042890          199 --------------------SLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPES-IIQLFVSGYLLLS  253 (254)
Q Consensus       199 --------------------~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~-~~~~~~L~~L~ls  253 (254)
                                          +|+.|++++|.+. .+|..+..+++|+.|++++|.++.+|.. +..+++|+.++++
T Consensus       431 ~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~  505 (562)
T 3a79_B          431 LVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIM-SIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLH  505 (562)
T ss_dssp             CEEECCSSCCCGGGGSSCCTTCSEEECCSSCCC-CCCTTTTSSCCCSEEECCSSCCCCCCTTSTTTCTTCCCEECC
T ss_pred             CEEECCCCCCCcchhhhhcCcCCEEECCCCcCc-ccChhhcCCCCCCEEECCCCCCCCCCHHHHhcCCCCCEEEec
Confidence                                4555555554433 3444444566666677766666666655 5666666666665

>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=99.89  E-value=3.5e-22  Score=176.68  Aligned_cols=103  Identities=21%  Similarity=0.122  Sum_probs=53.5

Q ss_pred             CCcCeEeccccccccc---chhhhhccccCEEeccCCcCc-----------------------ccCC-ccccCCCccCEE
Q 042890          151 GNISWLFLRGIAIEEL---PSSIERQLRLSWLDLSDCKRL-----------------------KSLP-SSLYRLKSLGIL  203 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l---~~~~~~~~~L~~L~l~~n~~~-----------------------~~~~-~~l~~l~~L~~L  203 (254)
                      ++|++|++++|.++.+   |..+..+++|+.|++++|.+.                       +..+ ..+..+++|+.|
T Consensus       350 ~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L  429 (606)
T 3vq2_A          350 PSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYL  429 (606)
T ss_dssp             TTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEE
T ss_pred             CCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccccCCEE
Confidence            4555556665555533   455555556666666655533                       2222 234444455555


Q ss_pred             EecCCCCCcccCccccCCCCCcEEeccCCCCCC--CChhhhhhcccCccccc
Q 042890          204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIER--IPESIIQLFVSGYLLLS  253 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~--l~~~~~~~~~L~~L~ls  253 (254)
                      ++++|.+.+..|..+..+++|+.|++++|.+..  +|..+..+++|++|+++
T Consensus       430 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls  481 (606)
T 3vq2_A          430 DISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLS  481 (606)
T ss_dssp             ECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECT
T ss_pred             ECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccCCCCCEEECC
Confidence            555554444444555555555555555555542  44455555666665554

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

Probab=99.89  E-value=1.7e-22  Score=180.94  Aligned_cols=226  Identities=21%  Similarity=0.153  Sum_probs=132.9

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      +.+|+++++|++|++++|.+.+.      .+..+.. ++|++|++++|.++.+|+.       .+..+++|++|+++++.
T Consensus        42 ~~~~~~l~~L~~L~Ls~n~l~~~------~~~~~~~l~~L~~L~L~~n~l~~l~~~-------~~~~l~~L~~L~L~~n~  108 (680)
T 1ziw_A           42 AANFTRYSQLTSLDVGFNTISKL------EPELCQKLPMLKVLNLQHNELSQLSDK-------TFAFCTNLTELHLMSNS  108 (680)
T ss_dssp             GGGGGGGTTCSEEECCSSCCCCC------CTTHHHHCTTCCEEECCSSCCCCCCTT-------TTTTCTTCSEEECCSSC
T ss_pred             HHHHhCCCcCcEEECCCCccCcc------CHHHHhcccCcCEEECCCCccCccChh-------hhccCCCCCEEECCCCc
Confidence            34566677777777777766221      2222333 6777777777777666642       25667777777777665


Q ss_pred             CceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc----ccCCcCeEecccccccc
Q 042890           90 KLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI----SSGNISWLFLRGIAIEE  165 (254)
Q Consensus        90 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~----~~~~L~~L~l~~~~~~~  165 (254)
                        ...++. ..|..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..    ...+|+.|++++|.++.
T Consensus       109 --l~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~  185 (680)
T 1ziw_A          109 --IQKIKN-NPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKE  185 (680)
T ss_dssp             --CCCCCS-CTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCCCCC
T ss_pred             --cCccCh-hHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCcccc
Confidence              234431 26777777888888777766666666667777777777776654433321    12566777777776664


Q ss_pred             cch-hhhhc---------------------------cccCEEeccCCcCcccCCccccCCCc--cCEEEecCCCCCcccC
Q 042890          166 LPS-SIERQ---------------------------LRLSWLDLSDCKRLKSLPSSLYRLKS--LGILDLHGCSNLQRLP  215 (254)
Q Consensus       166 l~~-~~~~~---------------------------~~L~~L~l~~n~~~~~~~~~l~~l~~--L~~L~l~~~~~~~~~~  215 (254)
                      +++ .+..+                           ++|+.|++++|.+.+..+..+.+++.  |+.|++++|.+.+..+
T Consensus       186 ~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~~~~  265 (680)
T 1ziw_A          186 FSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGN  265 (680)
T ss_dssp             BCTTGGGGSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEECTTSCCCEECT
T ss_pred             cChhhhhhhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEECCCCCcCccCc
Confidence            432 22221                           34455555555555544445555433  6666666666655555


Q ss_pred             ccccCCCCCcEEeccCCCCCC-CChhhhhhcccCcccc
Q 042890          216 ECLGQLSSPITCNLAKTNIER-IPESIIQLFVSGYLLL  252 (254)
Q Consensus       216 ~~~~~l~~L~~L~l~~n~l~~-l~~~~~~~~~L~~L~l  252 (254)
                      ..+..+++|+.|++++|.+.. .|..+..+++|++|++
T Consensus       266 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  303 (680)
T 1ziw_A          266 DSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNL  303 (680)
T ss_dssp             TTTTTCTTCCEEECCSCCBSEECTTTTTTCTTCCEEEC
T ss_pred             ccccCcccccEeeCCCCccCccChhhhcCCCCccEEec
Confidence            566666666666666666653 3334555555555544

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.89  E-value=3.7e-23  Score=179.84  Aligned_cols=82  Identities=15%  Similarity=0.035  Sum_probs=45.1

Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCc--ccCccccCCCCCcEEeccCCCCCC-CChh-hhhhccc
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ--RLPECLGQLSSPITCNLAKTNIER-IPES-IIQLFVS  247 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~~~~l~~L~~L~l~~n~l~~-l~~~-~~~~~~L  247 (254)
                      .+++|++|++++|.+.+.+|..++.+++|+.|++++|.+.+  .+|..+..+++|+.|++++|.+.. +|.. +..+++|
T Consensus       322 ~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L  401 (520)
T 2z7x_B          322 KISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSL  401 (520)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTC
T ss_pred             hCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccC
Confidence            34556666666666555555555566666666666655543  334445556666666666666553 5443 3444555


Q ss_pred             Cccccc
Q 042890          248 GYLLLS  253 (254)
Q Consensus       248 ~~L~ls  253 (254)
                      ++|+++
T Consensus       402 ~~L~Ls  407 (520)
T 2z7x_B          402 LSLNMS  407 (520)
T ss_dssp             CEEECC
T ss_pred             CEEECc
Confidence            555544

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

Probab=99.88  E-value=2.6e-21  Score=173.29  Aligned_cols=155  Identities=20%  Similarity=0.069  Sum_probs=93.8

Q ss_pred             ccCCcccccEEeccCCcCC--CccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-------
Q 042890          100 LMPRMKKLVILNLRGSKSL--KSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-------  168 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~--~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-------  168 (254)
                      .+..+++|+.|++++|.+.  +..|..+..+++|+.|++++|.+....+...  ..+|++|++++|.++.++.       
T Consensus       449 ~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~  528 (680)
T 1ziw_A          449 SFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGP  528 (680)
T ss_dssp             TTTTCTTCCEEECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSC
T ss_pred             hhhcCcccccchhccccccccccCCcccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCc
Confidence            4444455555555554432  3345556666677777777665443322211  3566777777776664421       


Q ss_pred             --hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChh-hh-hh
Q 042890          169 --SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPES-II-QL  244 (254)
Q Consensus       169 --~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~-~~-~~  244 (254)
                        .+..+++|+.|++++|.+....+..+.++++|+.+++++|.+.+..+..|..+++|+.|++++|.++.++.. +. .+
T Consensus       529 ~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~  608 (680)
T 1ziw_A          529 IYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAF  608 (680)
T ss_dssp             CCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCCCBCCHHHHHHHH
T ss_pred             chhhcCCCCCCEEECCCCCCCCCCHHHcccccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCcCCccChhHhcccc
Confidence              145666777777777765533333467777777777777766655555666777777777777777766543 33 57


Q ss_pred             cccCcccccC
Q 042890          245 FVSGYLLLSY  254 (254)
Q Consensus       245 ~~L~~L~ls~  254 (254)
                      ++|+++++++
T Consensus       609 ~~L~~l~l~~  618 (680)
T 1ziw_A          609 RNLTELDMRF  618 (680)
T ss_dssp             TTCSEEECTT
T ss_pred             cccCEEEccC
Confidence            7777777653

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

Probab=99.88  E-value=4.8e-23  Score=168.35  Aligned_cols=212  Identities=13%  Similarity=0.016  Sum_probs=139.1

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      +|..+++|++|++++|.+.+       .+. +.. ++|++|++++|.++.+            ...++|++|+++++.. 
T Consensus        53 ~~~~l~~L~~L~Ls~n~l~~-------~~~-~~~l~~L~~L~Ls~n~l~~l------------~~~~~L~~L~l~~n~l-  111 (317)
T 3o53_A           53 DLAPFTKLELLNLSSNVLYE-------TLD-LESLSTLRTLDLNNNYVQEL------------LVGPSIETLHAANNNI-  111 (317)
T ss_dssp             HHTTCTTCCEEECTTSCCEE-------EEE-ETTCTTCCEEECCSSEEEEE------------EECTTCCEEECCSSCC-
T ss_pred             HhhCCCcCCEEECCCCcCCc-------chh-hhhcCCCCEEECcCCccccc------------cCCCCcCEEECCCCcc-
Confidence            45555566666666655521       111 333 5566666666644332            2336677777765542 


Q ss_pred             eeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccch
Q 042890           92 IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPS  168 (254)
Q Consensus        92 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~  168 (254)
                       ..++.    ..+++|++|++++|.+....+..+..+++|+.|++++|.+....+...   .++|++|++++|.++.++.
T Consensus       112 -~~~~~----~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  186 (317)
T 3o53_A          112 -SRVSC----SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG  186 (317)
T ss_dssp             -SEEEE----CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC
T ss_pred             -CCcCc----cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccccc
Confidence             22221    235678888888887666555567778888888888877665444322   3678888888888887654


Q ss_pred             hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC--CCChhhhhhcc
Q 042890          169 SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE--RIPESIIQLFV  246 (254)
Q Consensus       169 ~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~~  246 (254)
                      .. .+++|+.|++++|.+.+. +..+..+++|+.|++++|.+. .+|..+..+++|+.|++++|.+.  .++.++..+++
T Consensus       187 ~~-~l~~L~~L~Ls~N~l~~l-~~~~~~l~~L~~L~L~~N~l~-~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~  263 (317)
T 3o53_A          187 QV-VFAKLKTLDLSSNKLAFM-GPEFQSAAGVTWISLRNNKLV-LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQR  263 (317)
T ss_dssp             CC-CCTTCCEEECCSSCCCEE-CGGGGGGTTCSEEECTTSCCC-EECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHH
T ss_pred             cc-ccccCCEEECCCCcCCcc-hhhhcccCcccEEECcCCccc-chhhHhhcCCCCCEEEccCCCccCcCHHHHHhcccc
Confidence            33 467888888888876653 445778888888888887665 46666777888888888888886  56677777777


Q ss_pred             cCccccc
Q 042890          247 SGYLLLS  253 (254)
Q Consensus       247 L~~L~ls  253 (254)
                      |+.++++
T Consensus       264 L~~l~l~  270 (317)
T 3o53_A          264 VQTVAKQ  270 (317)
T ss_dssp             HHHHHHH
T ss_pred             ceEEECC
Confidence            7776653

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.88  E-value=1.9e-21  Score=170.57  Aligned_cols=132  Identities=17%  Similarity=0.178  Sum_probs=95.1

Q ss_pred             CCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCc--ccccc--ccCCcCeEecccccccc-cchh-hhhc--
Q 042890          102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPEI--SSGNISWLFLRGIAIEE-LPSS-IERQ--  173 (254)
Q Consensus       102 ~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~--~~p~~--~~~~L~~L~l~~~~~~~-l~~~-~~~~--  173 (254)
                      ..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.+  ..|..  ..++|+.|++++|.++. +|.. +..+  
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            556788888888888777677777788888888888876554  22221  23667777777777664 5432 2222  


Q ss_pred             --------------------cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCcc-ccCCCCCcEEeccCC
Q 042890          174 --------------------LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPEC-LGQLSSPITCNLAKT  232 (254)
Q Consensus       174 --------------------~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~l~~L~~L~l~~n  232 (254)
                                          ++|+.|++++|.+. .+|..+.++++|+.|++++|.+.+ +|.. +..+++|+.+++++|
T Consensus       430 L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~-l~~~~~~~l~~L~~L~l~~N  507 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIM-SIPKDVTHLQALQELNVASNQLKS-VPDGVFDRLTSLQYIWLHDN  507 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCCTTCSEEECCSSCCC-CCCTTTTSSCCCSEEECCSSCCCC-CCTTSTTTCTTCCCEECCSC
T ss_pred             CCEEECCCCCCCcchhhhhcCcCCEEECCCCcCc-ccChhhcCCCCCCEEECCCCCCCC-CCHHHHhcCCCCCEEEecCC
Confidence                                46667777766644 566667789999999999988874 5544 889999999999999


Q ss_pred             CCC
Q 042890          233 NIE  235 (254)
Q Consensus       233 ~l~  235 (254)
                      ++.
T Consensus       508 ~~~  510 (562)
T 3a79_B          508 PWD  510 (562)
T ss_dssp             CBC
T ss_pred             CcC
Confidence            986

>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=99.88  E-value=4.7e-21  Score=164.50  Aligned_cols=144  Identities=22%  Similarity=0.220  Sum_probs=67.3

Q ss_pred             cCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEe
Q 042890          101 MPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLD  180 (254)
Q Consensus       101 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~  180 (254)
                      +..+++|++|++++|.+. .++ .+..+++|+.|++++|......|....++|+.|++++|.++.++ .+..+++|+.|+
T Consensus       173 ~~~l~~L~~L~l~~n~l~-~~~-~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~  249 (466)
T 1o6v_A          173 LANLTTLERLDISSNKVS-DIS-VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLD  249 (466)
T ss_dssp             GTTCTTCCEEECCSSCCC-CCG-GGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEE
T ss_pred             hccCCCCCEEECcCCcCC-CCh-hhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccch-hhhcCCCCCEEE
Confidence            445556666666666532 222 24555666666666655444333222355555555555555443 244455555555


Q ss_pred             ccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccc
Q 042890          181 LSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL  252 (254)
Q Consensus       181 l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~l  252 (254)
                      +++|.+.+..+  +..+++|+.|++++|.+.+..+  +..+++|+.|++++|.+..++. +..+++|++|++
T Consensus       250 l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~L  316 (466)
T 1o6v_A          250 LANNQISNLAP--LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP-ISNLKNLTYLTL  316 (466)
T ss_dssp             CCSSCCCCCGG--GTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG-GGGCTTCSEEEC
T ss_pred             CCCCccccchh--hhcCCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh-hcCCCCCCEEEC
Confidence            55555433222  4444445555554444332221  3334444444444444433322 333344444333

>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=99.88  E-value=3.2e-21  Score=165.56  Aligned_cols=211  Identities=15%  Similarity=0.122  Sum_probs=140.7

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      ++.+++|++|++++|.+.+.        ..+.. ++|++|++++|.+..+++         +..+++|++|+++++.  .
T Consensus       173 ~~~l~~L~~L~l~~n~l~~~--------~~l~~l~~L~~L~l~~n~l~~~~~---------~~~l~~L~~L~l~~n~--l  233 (466)
T 1o6v_A          173 LANLTTLERLDISSNKVSDI--------SVLAKLTNLESLIATNNQISDITP---------LGILTNLDELSLNGNQ--L  233 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCC--------GGGGGCTTCSEEECCSSCCCCCGG---------GGGCTTCCEEECCSSC--C
T ss_pred             hccCCCCCEEECcCCcCCCC--------hhhccCCCCCEEEecCCccccccc---------ccccCCCCEEECCCCC--c
Confidence            44555555666655554111        11233 566666666665544432         3456777777777655  2


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhh
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIER  172 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~  172 (254)
                      ..++   .+..+++|+.|++++|.+.+. +. +..+++|+.|++++|.+....+....++|+.|++++|.++.++. +..
T Consensus       234 ~~~~---~l~~l~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~  307 (466)
T 1o6v_A          234 KDIG---TLASLTNLTDLDLANNQISNL-AP-LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP-ISN  307 (466)
T ss_dssp             CCCG---GGGGCTTCSEEECCSSCCCCC-GG-GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGG-GGG
T ss_pred             ccch---hhhcCCCCCEEECCCCccccc-hh-hhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcccCchh-hcC
Confidence            3333   566777888888888875443 32 66778888888888765554332234778888888888887665 667


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccc
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLL  252 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~l  252 (254)
                      +++|+.|++++|.+.+..+  +..+++|+.|++++|.+.+.  ..+..+++|+.|++++|.+...+. +..+++|+.|++
T Consensus       308 l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l  382 (466)
T 1o6v_A          308 LKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDV--SSLANLTNINWLSAGHNQISDLTP-LANLTRITQLGL  382 (466)
T ss_dssp             CTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSSCCCBCGG-GTTCTTCCEEEC
T ss_pred             CCCCCEEECcCCcCCCchh--hccCccCCEeECCCCccCCc--hhhccCCCCCEEeCCCCccCccch-hhcCCCCCEEec
Confidence            7888888888887766544  66788888888888766553  356778888888888888876554 777888888877


Q ss_pred             cC
Q 042890          253 SY  254 (254)
Q Consensus       253 s~  254 (254)
                      ++
T Consensus       383 ~~  384 (466)
T 1o6v_A          383 ND  384 (466)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

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

Probab=99.87  E-value=1.1e-21  Score=179.56  Aligned_cols=101  Identities=22%  Similarity=0.102  Sum_probs=57.5

Q ss_pred             cCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccC
Q 042890          153 ISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       153 L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      ++.|++++|.++.+ +..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++++
T Consensus       268 L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~  347 (844)
T 3j0a_A          268 VRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQK  347 (844)
T ss_dssp             CCEEECTTCCCCEECSCCSSSCCCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEECCS
T ss_pred             ccEEECCCCcccccChhhhhcCCCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEECCC
Confidence            44444444444432 22344555566666666655555555566666666666666655555555666666666666666


Q ss_pred             CCCCCCCh-hhhhhcccCccccc
Q 042890          232 TNIERIPE-SIIQLFVSGYLLLS  253 (254)
Q Consensus       232 n~l~~l~~-~~~~~~~L~~L~ls  253 (254)
                      |.+..++. .+..+++|++|+++
T Consensus       348 N~i~~~~~~~~~~l~~L~~L~Ls  370 (844)
T 3j0a_A          348 NHIAIIQDQTFKFLEKLQTLDLR  370 (844)
T ss_dssp             CCCCCCCSSCSCSCCCCCEEEEE
T ss_pred             CCCCccChhhhcCCCCCCEEECC
Confidence            66654432 35556666666664

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

Probab=99.87  E-value=2.1e-21  Score=177.78  Aligned_cols=87  Identities=18%  Similarity=0.116  Sum_probs=46.6

Q ss_pred             CCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEec
Q 042890          151 GNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNL  229 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l  229 (254)
                      ++|+.|++++|.++.+ |..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+....+..+..+++|+.|++
T Consensus       290 ~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L  369 (844)
T 3j0a_A          290 KDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDL  369 (844)
T ss_dssp             CCCCEEEEESCCCCEECTTTTTTCSSCCEEEEESCCCSCCCSCSCSSCTTCCEEECCSCCCCCCCSSCSCSCCCCCEEEE
T ss_pred             CCCCEEECCCCcCCCCChHHhcCCCCCCEEECCCCCCCccCHHHhcCCCCCCEEECCCCCCCccChhhhcCCCCCCEEEC
Confidence            4555555555555543 233455555555555555554444445555555555555555554444444555555555555


Q ss_pred             cCCCCCCC
Q 042890          230 AKTNIERI  237 (254)
Q Consensus       230 ~~n~l~~l  237 (254)
                      ++|.++.+
T Consensus       370 s~N~l~~i  377 (844)
T 3j0a_A          370 RDNALTTI  377 (844)
T ss_dssp             ETCCSCCC
T ss_pred             CCCCCCcc
Confidence            55555544

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

Probab=99.87  E-value=1.1e-20  Score=150.86  Aligned_cols=199  Identities=18%  Similarity=0.177  Sum_probs=155.5

Q ss_pred             cceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCC
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNP   98 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~   98 (254)
                      +.++++++++.+       ..+|..+. ++++.|++++|.++.++..       ++..+++|++|+++++.  ...++. 
T Consensus        17 ~~~~l~~~~~~l-------~~ip~~~~-~~l~~L~l~~n~l~~~~~~-------~~~~l~~L~~L~l~~n~--l~~i~~-   78 (270)
T 2o6q_A           17 NKNSVDCSSKKL-------TAIPSNIP-ADTKKLDLQSNKLSSLPSK-------AFHRLTKLRLLYLNDNK--LQTLPA-   78 (270)
T ss_dssp             TTTEEECTTSCC-------SSCCSCCC-TTCSEEECCSSCCSCCCTT-------SSSSCTTCCEEECCSSC--CSCCCT-
T ss_pred             CCCEEEccCCCC-------CccCCCCC-CCCCEEECcCCCCCeeCHH-------HhcCCCCCCEEECCCCc--cCeeCh-
Confidence            567888888776       33444332 6799999999988877753       36778899999998765  445553 


Q ss_pred             CccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhccc
Q 042890           99 TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLR  175 (254)
Q Consensus        99 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~  175 (254)
                      ..|..+++|++|++++|.+....+..+..+++|+.|++++|.+....+..  ..++|++|++++|.++.+|.. +..+++
T Consensus        79 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  158 (270)
T 2o6q_A           79 GIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTS  158 (270)
T ss_dssp             TTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             hhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcc
Confidence            25678999999999999866554556778899999999998765544432  247899999999999988765 678899


Q ss_pred             cCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          176 LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       176 L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      |+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++.+|++.
T Consensus       159 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          159 LKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             CCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             cceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecCCCee
Confidence            999999999877766666888999999999998887666667888999999999999874

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

Probab=99.87  E-value=5.5e-23  Score=167.64  Aligned_cols=192  Identities=19%  Similarity=0.169  Sum_probs=121.2

Q ss_pred             CceeeeeeCCCCCC-CCCCcchhhcchhh--hcccccceehhhccCCceeecCCCCccCCc-----ccccEEeccCCcCC
Q 042890           47 AEVKYLHWHGYPLK-SLPSNDIEQLWDRV--KRYSKLNQIIHAACHKLIAKIPNPTLMPRM-----KKLVILNLRGSKSL  118 (254)
Q Consensus        47 ~~L~~L~l~~~~~~-~l~~~~l~~l~~~~--~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~-----~~L~~L~l~~~~~~  118 (254)
                      ++|++|++++|.++ .+|..        +  ..+++|++|+++++.  ....|.  .+..+     ++|++|++++|.+.
T Consensus        95 ~~L~~L~L~~n~l~~~~~~~--------~~~~~l~~L~~L~Ls~N~--l~~~~~--~~~~l~~~~~~~L~~L~L~~N~l~  162 (312)
T 1wwl_A           95 SGLQELTLENLEVTGTAPPP--------LLEATGPDLNILNLRNVS--WATRDA--WLAELQQWLKPGLKVLSIAQAHSL  162 (312)
T ss_dssp             SCCCEEEEEEEBCBSCCCCC--------SSSCCSCCCSEEEEESCB--CSSSSS--HHHHHHTTCCTTCCEEEEESCSCC
T ss_pred             CCccEEEccCCcccchhHHH--------HHHhcCCCccEEEccCCC--CcchhH--HHHHHHHhhcCCCcEEEeeCCCCc
Confidence            56666666666554 33332        2  456666666666544  222233  44444     67777777777765


Q ss_pred             CccCCCCCCCCcccEEeccCCCCCccc--c-c---cccCCcCeEecccccccccch---h-hhhccccCEEeccCCcCcc
Q 042890          119 KSLPSGIFNLEFLTKLDLSGCSKLKRL--P-E---ISSGNISWLFLRGIAIEELPS---S-IERQLRLSWLDLSDCKRLK  188 (254)
Q Consensus       119 ~~~~~~~~~l~~L~~L~l~~~~~~~~~--p-~---~~~~~L~~L~l~~~~~~~l~~---~-~~~~~~L~~L~l~~n~~~~  188 (254)
                      +..+..+..+++|++|++++|...+..  + .   ...++|++|++++|.++.++.   . +..+++|+.|++++|.+.+
T Consensus       163 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~  242 (312)
T 1wwl_A          163 NFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRD  242 (312)
T ss_dssp             CCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCS
T ss_pred             cchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCc
Confidence            555566667777777777776654431  1 1   223677777777777774332   2 3455778888888887766


Q ss_pred             cCC-ccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          189 SLP-SSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       189 ~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      ..+ ..+..+++|+.|++++|.+. .+|..+.  ++|+.|++++|.++.+|. +..+++|++|++++
T Consensus       243 ~~~~~~~~~l~~L~~L~Ls~N~l~-~ip~~~~--~~L~~L~Ls~N~l~~~p~-~~~l~~L~~L~L~~  305 (312)
T 1wwl_A          243 AAGAPSCDWPSQLNSLNLSFTGLK-QVPKGLP--AKLSVLDLSYNRLDRNPS-PDELPQVGNLSLKG  305 (312)
T ss_dssp             SCCCSCCCCCTTCCEEECTTSCCS-SCCSSCC--SEEEEEECCSSCCCSCCC-TTTSCEEEEEECTT
T ss_pred             ccchhhhhhcCCCCEEECCCCccC-hhhhhcc--CCceEEECCCCCCCCChh-HhhCCCCCEEeccC
Confidence            553 34556777888888887665 5565554  678888888888877765 77778888877764

>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=99.87  E-value=4.1e-21  Score=154.97  Aligned_cols=201  Identities=19%  Similarity=0.135  Sum_probs=160.4

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      .+++++++++++++++.+       ..+|..+. +++++|++++|.++.++..       .+..+++|++|+++++.  .
T Consensus         5 ~~~~l~~l~~l~~~~~~l-------~~ip~~~~-~~l~~L~L~~N~l~~~~~~-------~~~~l~~L~~L~L~~n~--l   67 (290)
T 1p9a_G            5 EVSKVASHLEVNCDKRNL-------TALPPDLP-KDTTILHLSENLLYTFSLA-------TLMPYTRLTQLNLDRAE--L   67 (290)
T ss_dssp             EEECSTTCCEEECTTSCC-------SSCCSCCC-TTCCEEECTTSCCSEEEGG-------GGTTCTTCCEEECTTSC--C
T ss_pred             cccccCCccEEECCCCCC-------CcCCCCCC-CCCCEEEcCCCcCCccCHH-------HhhcCCCCCEEECCCCc--c
Confidence            467889999999999887       34454433 7899999999988766432       47788999999999776  4


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-  169 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-  169 (254)
                      ..++.   ...+++|++|++++|.+ ..+|..+..+++|+.|++++|.+....+...  .++|+.|++++|.++.+|.. 
T Consensus        68 ~~~~~---~~~l~~L~~L~Ls~N~l-~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~  143 (290)
T 1p9a_G           68 TKLQV---DGTLPVLGTLDLSHNQL-QSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGL  143 (290)
T ss_dssp             CEEEC---CSCCTTCCEEECCSSCC-SSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTT
T ss_pred             CcccC---CCCCCcCCEEECCCCcC-CcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhh
Confidence            55553   37889999999999985 4677778889999999999987665433322  47899999999999988765 


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +..+++|+.|++++|.+....+..+..+++|+.|++++|.+. .+|..+...+.|+.+++.+|++.
T Consensus       144 ~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          144 LTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             TTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             cccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCC-ccChhhcccccCCeEEeCCCCcc
Confidence            577899999999999977655556788999999999998775 56776777889999999999874

>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=99.87  E-value=7e-21  Score=152.45  Aligned_cols=201  Identities=15%  Similarity=0.045  Sum_probs=151.6

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      ++|++|++++|.+.+      ..+..+.. ++|++|++++|.++.++..       .+..+++|++|+++++.  ...++
T Consensus        28 ~~l~~L~ls~n~l~~------~~~~~~~~l~~L~~L~l~~n~l~~~~~~-------~~~~l~~L~~L~L~~n~--l~~~~   92 (276)
T 2z62_A           28 FSTKNLDLSFNPLRH------LGSYSFFSFPELQVLDLSRCEIQTIEDG-------AYQSLSHLSTLILTGNP--IQSLA   92 (276)
T ss_dssp             TTCCEEECTTCCCCE------ECTTTTTTCTTCSEEECTTCCCCEECTT-------TTTTCTTCCEEECTTCC--CCEEC
T ss_pred             CCccEEECCCCcccc------cCHhHhccccCCcEEECCCCcCCccCHH-------HccCCcCCCEEECCCCc--cCccC
Confidence            469999999998722      12224555 8899999999988776643       36778899999999776  33433


Q ss_pred             CCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcc-ccccc--cCCcCeEecccccccccch-hhhh
Q 042890           97 NPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR-LPEIS--SGNISWLFLRGIAIEELPS-SIER  172 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~-~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~  172 (254)
                      . ..+..+++|++|++++|.+....+..+..+++|+.|++++|.+... +|...  .++|+.|++++|.++.++. .+..
T Consensus        93 ~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  171 (276)
T 2z62_A           93 L-GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRV  171 (276)
T ss_dssp             T-TTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHH
T ss_pred             h-hhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhh
Confidence            1 2788899999999999986655555688899999999999876652 35433  4789999999999987654 4666


Q ss_pred             ccccC----EEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          173 QLRLS----WLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       173 ~~~L~----~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++++    .|++++|.+.+..+..+ ...+|+.|++++|.+.+..+..+..+++|+.|++++|++.
T Consensus       172 l~~L~~l~l~L~ls~n~l~~~~~~~~-~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          172 LHQMPLLNLSLDLSLNPMNFIQPGAF-KEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             HHTCTTCCEEEECCSSCCCEECTTSS-CSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             hhhccccceeeecCCCcccccCcccc-CCCcccEEECCCCceeecCHhHhcccccccEEEccCCccc
Confidence            66676    89999998766544433 4457999999998877666666788999999999999886

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

Probab=99.87  E-value=1.2e-20  Score=161.33  Aligned_cols=190  Identities=17%  Similarity=0.122  Sum_probs=125.4

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      .|+.+++|++|++++|.+.+       ++  +.. ++|++|++++|.++.++          +..+++|++|+++++.- 
T Consensus        59 ~l~~l~~L~~L~Ls~n~l~~-------~~--~~~l~~L~~L~Ls~N~l~~~~----------~~~l~~L~~L~L~~N~l-  118 (457)
T 3bz5_A           59 GIEKLTGLTKLICTSNNITT-------LD--LSQNTNLTYLACDSNKLTNLD----------VTPLTKLTYLNCDTNKL-  118 (457)
T ss_dssp             TGGGCTTCSEEECCSSCCSC-------CC--CTTCTTCSEEECCSSCCSCCC----------CTTCTTCCEEECCSSCC-
T ss_pred             hhcccCCCCEEEccCCcCCe-------Ec--cccCCCCCEEECcCCCCceee----------cCCCCcCCEEECCCCcC-
Confidence            45566777777777777622       11  444 77777777777666553          45677778887776642 


Q ss_pred             eeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhh
Q 042890           92 IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIE  171 (254)
Q Consensus        92 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~  171 (254)
                       ..+    .++.+++|++|++++|.+.+ ++  +..+++|+.|++++|...+..+....++|+.|++++|.++.+|  +.
T Consensus       119 -~~l----~~~~l~~L~~L~l~~N~l~~-l~--l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--l~  188 (457)
T 3bz5_A          119 -TKL----DVSQNPLLTYLNCARNTLTE-ID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--VS  188 (457)
T ss_dssp             -SCC----CCTTCTTCCEEECTTSCCSC-CC--CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--CT
T ss_pred             -Cee----cCCCCCcCCEEECCCCccce-ec--cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceec--cc
Confidence             222    35567778888888777544 22  5667777777777775555554444567777888777777776  56


Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      .+++|+.|++++|.+.+.   .++.+++|+.|++++|.+.+ +|  +..+++|+.|++++|.+..+|
T Consensus       189 ~l~~L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l~~-ip--~~~l~~L~~L~l~~N~l~~~~  249 (457)
T 3bz5_A          189 QNKLLNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKLTE-ID--VTPLTQLTYFDCSVNPLTELD  249 (457)
T ss_dssp             TCTTCCEEECCSSCCSCC---CCTTCTTCSEEECCSSCCSC-CC--CTTCTTCSEEECCSSCCSCCC
T ss_pred             cCCCCCEEECcCCcCCee---ccccCCCCCEEECcCCcccc-cC--ccccCCCCEEEeeCCcCCCcC
Confidence            677777777777776553   26667777777777776655 44  566777777777777766544

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

Probab=99.87  E-value=2.9e-22  Score=172.78  Aligned_cols=212  Identities=13%  Similarity=0.019  Sum_probs=123.4

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCC
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHK   90 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~   90 (254)
                      .+|+.+++|++|++++|.+.+.       ++ +.. ++|++|++++|.++.++            ..++|++|+++++..
T Consensus        52 ~~~~~l~~L~~L~Ls~N~l~~~-------~~-l~~l~~L~~L~Ls~N~l~~l~------------~~~~L~~L~L~~N~l  111 (487)
T 3oja_A           52 ADLAPFTKLELLNLSSNVLYET-------LD-LESLSTLRTLDLNNNYVQELL------------VGPSIETLHAANNNI  111 (487)
T ss_dssp             GGGTTCTTCCEEECTTSCCEEE-------EE-CTTCTTCCEEECCSSEEEEEE------------ECTTCCEEECCSSCC
T ss_pred             HHHhCCCCCCEEEeeCCCCCCC-------cc-cccCCCCCEEEecCCcCCCCC------------CCCCcCEEECcCCcC
Confidence            3455555555555555554211       11 333 55555555555443322            225566666665442


Q ss_pred             ceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccc
Q 042890           91 LIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELP  167 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~  167 (254)
                        ..++.    ..++.|+.|++++|.+.+..|..+..+++|+.|++++|.+.+..|...   +++|+.|++++|.++.+|
T Consensus       112 --~~~~~----~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~  185 (487)
T 3oja_A          112 --SRVSC----SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVK  185 (487)
T ss_dssp             --CCEEE----CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEE
T ss_pred             --CCCCc----cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCcccccc
Confidence              22221    134667777777777665556566667777777777776655444332   266777777777777654


Q ss_pred             hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC--CCChhhhhhc
Q 042890          168 SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE--RIPESIIQLF  245 (254)
Q Consensus       168 ~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~  245 (254)
                      ... .+++|+.|++++|.+.+. |..+..+++|+.|++++|.+.+ +|..+..+++|+.|++++|.+.  .+|.++..++
T Consensus       186 ~~~-~l~~L~~L~Ls~N~l~~~-~~~~~~l~~L~~L~Ls~N~l~~-lp~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~  262 (487)
T 3oja_A          186 GQV-VFAKLKTLDLSSNKLAFM-GPEFQSAAGVTWISLRNNKLVL-IEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQ  262 (487)
T ss_dssp             CCC-CCTTCCEEECCSSCCCEE-CGGGGGGTTCSEEECTTSCCCE-ECTTCCCCTTCCEEECTTCCBCHHHHHHHHTTCH
T ss_pred             ccc-cCCCCCEEECCCCCCCCC-CHhHcCCCCccEEEecCCcCcc-cchhhccCCCCCEEEcCCCCCcCcchHHHHHhCC
Confidence            432 466777777777776553 3346677777777777766553 5555666777777777777765  4555566666


Q ss_pred             ccCcccc
Q 042890          246 VSGYLLL  252 (254)
Q Consensus       246 ~L~~L~l  252 (254)
                      .|+.+++
T Consensus       263 ~L~~l~~  269 (487)
T 3oja_A          263 RVQTVAK  269 (487)
T ss_dssp             HHHHHHH
T ss_pred             CCcEEec
Confidence            6655543

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

Probab=99.87  E-value=9.9e-22  Score=172.45  Aligned_cols=235  Identities=16%  Similarity=0.108  Sum_probs=163.8

Q ss_pred             CCcccCCCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhc---c---------hhhhcc
Q 042890           10 NPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQL---W---------DRVKRY   77 (254)
Q Consensus        10 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l---~---------~~~~~~   77 (254)
                      .+..|..+++|++|+++++.+.       .++..+...+|++|++.+|.+..+|...+..+   .         .....+
T Consensus       274 ~~~~~~~l~~L~~L~l~~~~l~-------~l~~~~~~~~L~~L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~~~~~~~~  346 (570)
T 2z63_A          274 IIDLFNCLTNVSSFSLVSVTIE-------RVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDL  346 (570)
T ss_dssp             STTTTGGGTTCSEEEEESCEEC-------SCCBCCSCCCCSEEEEESCBCSSCCBCBCSSCCEEEEESCBSCCBCCCCBC
T ss_pred             chhhhcCcCcccEEEecCccch-------hhhhhhccCCccEEeeccCcccccCcccccccCEEeCcCCccccccccccC
Confidence            3456777888999999888772       23333332477777777777666664311111   0         001456


Q ss_pred             cccceehhhccCCcee-ecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc---ccCCc
Q 042890           78 SKLNQIIHAACHKLIA-KIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNI  153 (254)
Q Consensus        78 ~~L~~l~l~~~~~~~~-~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~---~~~~L  153 (254)
                      ++|++|+++++..... ..+.  .+..+++|++|++++|.+.+ ++..+..+++|+.|++++|......+..   ..++|
T Consensus       347 ~~L~~L~l~~n~l~~~~~~~~--~~~~~~~L~~L~l~~n~l~~-~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  423 (570)
T 2z63_A          347 PSLEFLDLSRNGLSFKGCCSQ--SDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNL  423 (570)
T ss_dssp             TTCCEEECCSSCCBEEEEEEH--HHHTCSCCCEEECCSCSEEE-EEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTC
T ss_pred             CCCCEEeCcCCccCccccccc--cccccCccCEEECCCCcccc-ccccccccCCCCEEEccCCccccccchhhhhcCCCC
Confidence            7788888876653211 1233  56677888888888887543 3333777888888888887765544422   13788


Q ss_pred             CeEecccccccc-cchhhhhccccCEEeccCCcCc-ccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccC
Q 042890          154 SWLFLRGIAIEE-LPSSIERQLRLSWLDLSDCKRL-KSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       154 ~~L~l~~~~~~~-l~~~~~~~~~L~~L~l~~n~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      ++|++++|.++. .|..+..+++|+.|++++|.+. +.+|..+..+++|+.|++++|.+.+..|..+..+++|+.|++++
T Consensus       424 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  503 (570)
T 2z63_A          424 IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS  503 (570)
T ss_dssp             CEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCC
Confidence            888888888774 4556778888888888888876 46777788888888888888888777788888888888999888


Q ss_pred             CCCCCCC-hhhhhhcccCcccccC
Q 042890          232 TNIERIP-ESIIQLFVSGYLLLSY  254 (254)
Q Consensus       232 n~l~~l~-~~~~~~~~L~~L~ls~  254 (254)
                      |.+..++ ..+..+++|++|++++
T Consensus       504 n~l~~~~~~~~~~l~~L~~L~l~~  527 (570)
T 2z63_A          504 NQLKSVPDGIFDRLTSLQKIWLHT  527 (570)
T ss_dssp             SCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             CcCCCCCHHHhhcccCCcEEEecC
Confidence            8888654 4577888888888764

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

Probab=99.86  E-value=1.9e-20  Score=149.48  Aligned_cols=195  Identities=18%  Similarity=0.173  Sum_probs=159.6

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ...+.++++++.++.+|..        +  .+++++|+++++.  ...++. ..|..+++|++|++++|.+....+..+.
T Consensus        16 ~~~~~l~~~~~~l~~ip~~--------~--~~~l~~L~l~~n~--l~~~~~-~~~~~l~~L~~L~l~~n~l~~i~~~~~~   82 (270)
T 2o6q_A           16 NNKNSVDCSSKKLTAIPSN--------I--PADTKKLDLQSNK--LSSLPS-KAFHRLTKLRLLYLNDNKLQTLPAGIFK   82 (270)
T ss_dssp             TTTTEEECTTSCCSSCCSC--------C--CTTCSEEECCSSC--CSCCCT-TSSSSCTTCCEEECCSSCCSCCCTTTTS
T ss_pred             CCCCEEEccCCCCCccCCC--------C--CCCCCEEECcCCC--CCeeCH-HHhcCCCCCCEEECCCCccCeeChhhhc
Confidence            5678999999999888864        2  3689999999776  344442 2788999999999999986544445567


Q ss_pred             CCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      .+++|+.|++++|.+....+...  .++|++|++++|.++.++.. +..+++|++|++++|.+.+..+..+..+++|+.|
T Consensus        83 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  162 (270)
T 2o6q_A           83 ELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKEL  162 (270)
T ss_dssp             SCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCccccee
Confidence            89999999999987654433322  47899999999999987764 7889999999999999877666668899999999


Q ss_pred             EecCCCCCcccCccccCCCCCcEEeccCCCCCCCChh-hhhhcccCcccccC
Q 042890          204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPES-IIQLFVSGYLLLSY  254 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~-~~~~~~L~~L~ls~  254 (254)
                      ++++|.+.+..+..+..+++|+.|++++|.++.++.. +..+++|+.|++++
T Consensus       163 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~  214 (270)
T 2o6q_A          163 RLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQE  214 (270)
T ss_dssp             ECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             EecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEecC
Confidence            9999988877777788999999999999999987754 77899999998864

>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=99.86  E-value=3.7e-21  Score=168.18  Aligned_cols=90  Identities=20%  Similarity=0.098  Sum_probs=62.3

Q ss_pred             cCCcCeEecccccccc-cch---hhhhccccCEEeccCCcCcccCC--ccccCCCccCEEEecCCCCCcccCccccCCCC
Q 042890          150 SGNISWLFLRGIAIEE-LPS---SIERQLRLSWLDLSDCKRLKSLP--SSLYRLKSLGILDLHGCSNLQRLPECLGQLSS  223 (254)
Q Consensus       150 ~~~L~~L~l~~~~~~~-l~~---~~~~~~~L~~L~l~~n~~~~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~  223 (254)
                      .++|+.|++++|.++. +|.   .+..+++|+.|++++|.+.+..+  ..+..+++|+.|++++|.+. .+|..+..+++
T Consensus       333 l~~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~~~~  411 (549)
T 2z81_A          333 LKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEK  411 (549)
T ss_dssp             CTTCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTCCCC-CCCSCCCCCTT
T ss_pred             CccccEEEccCCccccccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCCCCc-cCChhhccccc
Confidence            4778888888888774 332   25567788888888887655321  34667788888888887665 56666677777


Q ss_pred             CcEEeccCCCCCCCChh
Q 042890          224 PITCNLAKTNIERIPES  240 (254)
Q Consensus       224 L~~L~l~~n~l~~l~~~  240 (254)
                      |+.|++++|.+..+|..
T Consensus       412 L~~L~Ls~N~l~~l~~~  428 (549)
T 2z81_A          412 MRFLNLSSTGIRVVKTC  428 (549)
T ss_dssp             CCEEECTTSCCSCCCTT
T ss_pred             ccEEECCCCCcccccch
Confidence            77777777777665543

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

Probab=99.86  E-value=3.7e-22  Score=163.10  Aligned_cols=213  Identities=10%  Similarity=-0.023  Sum_probs=165.6

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      .+..+++|++|++++|.+.+      ..+..+.. ++|++|++++|.+...++         +..+++|++|+++++.  
T Consensus        29 ~~~~~~~L~~L~L~~n~l~~------~~~~~~~~l~~L~~L~Ls~n~l~~~~~---------~~~l~~L~~L~Ls~n~--   91 (317)
T 3o53_A           29 LRQSAWNVKELDLSGNPLSQ------ISAADLAPFTKLELLNLSSNVLYETLD---------LESLSTLRTLDLNNNY--   91 (317)
T ss_dssp             HHTTGGGCSEEECTTSCCCC------CCHHHHTTCTTCCEEECTTSCCEEEEE---------ETTCTTCCEEECCSSE--
T ss_pred             HhccCCCCCEEECcCCccCc------CCHHHhhCCCcCCEEECCCCcCCcchh---------hhhcCCCCEEECcCCc--
Confidence            34567799999999999832      22334556 899999999998765432         5678999999999765  


Q ss_pred             eeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccc-h
Q 042890           92 IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELP-S  168 (254)
Q Consensus        92 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~-~  168 (254)
                      ...++      ..++|++|++++|.+.+..+.   .+++|+.|++++|.+....+...  .++|++|++++|.++.++ .
T Consensus        92 l~~l~------~~~~L~~L~l~~n~l~~~~~~---~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~  162 (317)
T 3o53_A           92 VQELL------VGPSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFA  162 (317)
T ss_dssp             EEEEE------ECTTCCEEECCSSCCSEEEEC---CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGG
T ss_pred             ccccc------CCCCcCEEECCCCccCCcCcc---ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHH
Confidence            44444      248999999999986554333   46789999999988766544332  478999999999999754 3


Q ss_pred             hh-hhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhccc
Q 042890          169 SI-ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVS  247 (254)
Q Consensus       169 ~~-~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L  247 (254)
                      .+ ..+++|+.|++++|.+.+. + ....+++|+.|++++|.+.+ ++..+..+++|+.|++++|.+..+|..+..+++|
T Consensus       163 ~~~~~l~~L~~L~L~~N~l~~~-~-~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L  239 (317)
T 3o53_A          163 ELAASSDTLEHLNLQYNFIYDV-K-GQVVFAKLKTLDLSSNKLAF-MGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNL  239 (317)
T ss_dssp             GGGGGTTTCCEEECTTSCCCEE-E-CCCCCTTCCEEECCSSCCCE-ECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTC
T ss_pred             HHhhccCcCCEEECCCCcCccc-c-cccccccCCEEECCCCcCCc-chhhhcccCcccEEECcCCcccchhhHhhcCCCC
Confidence            34 4679999999999997665 2 24458999999999987765 4445888999999999999999999888899999


Q ss_pred             CcccccC
Q 042890          248 GYLLLSY  254 (254)
Q Consensus       248 ~~L~ls~  254 (254)
                      +.|++++
T Consensus       240 ~~L~l~~  246 (317)
T 3o53_A          240 EHFDLRG  246 (317)
T ss_dssp             CEEECTT
T ss_pred             CEEEccC
Confidence            9999874

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

Probab=99.86  E-value=6.3e-21  Score=167.34  Aligned_cols=142  Identities=20%  Similarity=0.173  Sum_probs=78.0

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      +.+.+|+.+++|++|++++|.+.      ...+..+.. ++|++|++++|.++.+++.       ++..+++|++|++++
T Consensus        43 ~~~~~~~~l~~L~~L~Ls~n~i~------~i~~~~~~~l~~L~~L~L~~n~l~~~~~~-------~~~~l~~L~~L~L~~  109 (570)
T 2z63_A           43 LGSYSFFSFPELQVLDLSRCEIQ------TIEDGAYQSLSHLSTLILTGNPIQSLALG-------AFSGLSSLQKLVAVE  109 (570)
T ss_dssp             ECTTTTTTCSSCCEEECTTCCCC------EECTTTTTTCTTCCEEECTTCCCCEECTT-------TTTTCTTCCEEECTT
T ss_pred             cChhHhhCCCCceEEECCCCcCC------ccCcccccCchhCCEEeCcCCcCCccCHh-------hhcCccccccccccc
Confidence            33446666777777777776651      112233444 6677777777666555432       255666677776665


Q ss_pred             cCCceeecCCCCccCCcccccEEeccCCcCCC-ccCCCCCCCCcccEEeccCCCCCccccccc--cCCc----CeEeccc
Q 042890           88 CHKLIAKIPNPTLMPRMKKLVILNLRGSKSLK-SLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNI----SWLFLRG  160 (254)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L----~~L~l~~  160 (254)
                      +.  ...++. ..++.+++|++|++++|.+.. .+|..+.++++|+.|++++|.+....+...  ..++    ..+++++
T Consensus       110 n~--l~~l~~-~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~~~~~L~l~~  186 (570)
T 2z63_A          110 TN--LASLEN-FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSL  186 (570)
T ss_dssp             SC--CCCSTT-CSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTTCCCEEECTT
T ss_pred             cc--cccCCC-ccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchhccchhhhhcccCC
Confidence            54  333331 145666677777777666543 346666666677777776665443322211  1233    4455555


Q ss_pred             cccccc
Q 042890          161 IAIEEL  166 (254)
Q Consensus       161 ~~~~~l  166 (254)
                      |.++.+
T Consensus       187 n~l~~~  192 (570)
T 2z63_A          187 NPMNFI  192 (570)
T ss_dssp             CCCCEE
T ss_pred             CCceec
Confidence            555433

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

Probab=99.85  E-value=2.8e-21  Score=166.59  Aligned_cols=210  Identities=10%  Similarity=-0.039  Sum_probs=167.1

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      .+++|++|++++|.+.+      ..+..+.. ++|++|++++|.++..++         +..+++|++|+++++.  ...
T Consensus        32 ~~~~L~~L~Ls~n~l~~------~~~~~~~~l~~L~~L~Ls~N~l~~~~~---------l~~l~~L~~L~Ls~N~--l~~   94 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQ------ISAADLAPFTKLELLNLSSNVLYETLD---------LESLSTLRTLDLNNNY--VQE   94 (487)
T ss_dssp             TGGGCCEEECCSSCCCC------CCGGGGTTCTTCCEEECTTSCCEEEEE---------CTTCTTCCEEECCSSE--EEE
T ss_pred             cCCCccEEEeeCCcCCC------CCHHHHhCCCCCCEEEeeCCCCCCCcc---------cccCCCCCEEEecCCc--CCC
Confidence            34589999999999832      22345666 999999999998765433         5678999999999775  455


Q ss_pred             cCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccc-cchhhh
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEE-LPSSIE  171 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~-l~~~~~  171 (254)
                      ++.      .+.|++|++++|.+.+..+.   .+++|+.|++++|.+.+..|...  .++|+.|++++|.++. .|..+.
T Consensus        95 l~~------~~~L~~L~L~~N~l~~~~~~---~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~  165 (487)
T 3oja_A           95 LLV------GPSIETLHAANNNISRVSCS---RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELA  165 (487)
T ss_dssp             EEE------CTTCCEEECCSSCCCCEEEC---CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGG
T ss_pred             CCC------CCCcCEEECcCCcCCCCCcc---ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHh
Confidence            542      38999999999987654443   46889999999988777655433  4889999999999996 455554


Q ss_pred             -hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcc
Q 042890          172 -RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYL  250 (254)
Q Consensus       172 -~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L  250 (254)
                       .+++|+.|++++|.+.+..  ....+++|+.|++++|.+.+. |..+..+++|+.|++++|.+..+|..+..+++|+.|
T Consensus       166 ~~l~~L~~L~Ls~N~l~~~~--~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L  242 (487)
T 3oja_A          166 ASSDTLEHLNLQYNFIYDVK--GQVVFAKLKTLDLSSNKLAFM-GPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHF  242 (487)
T ss_dssp             GGTTTCCEEECTTSCCCEEE--CCCCCTTCCEEECCSSCCCEE-CGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEE
T ss_pred             hhCCcccEEecCCCcccccc--ccccCCCCCEEECCCCCCCCC-CHhHcCCCCccEEEecCCcCcccchhhccCCCCCEE
Confidence             6899999999999977653  244689999999999887664 445888999999999999999999988899999999


Q ss_pred             cccC
Q 042890          251 LLSY  254 (254)
Q Consensus       251 ~ls~  254 (254)
                      ++++
T Consensus       243 ~l~~  246 (487)
T 3oja_A          243 DLRG  246 (487)
T ss_dssp             ECTT
T ss_pred             EcCC
Confidence            8874

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

Probab=99.85  E-value=5e-21  Score=158.64  Aligned_cols=212  Identities=15%  Similarity=0.137  Sum_probs=166.7

Q ss_pred             eeCCcccCCCCcceEEEeeccccCCCccCcccccCC-CCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehh
Q 042890            8 RLNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQD-PGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIH   85 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l   85 (254)
                      .+.+.+|+.+++|++|++++|.+.       .++.. +.. ++|++|++++|.++.++..      ..+..+++|++|++
T Consensus        90 ~~~~~~~~~l~~L~~L~Ls~n~l~-------~~~~~~~~~l~~L~~L~L~~n~l~~l~~~------~~~~~l~~L~~L~l  156 (353)
T 2z80_A           90 TIEEDSFSSLGSLEHLDLSYNYLS-------NLSSSWFKPLSSLTFLNLLGNPYKTLGET------SLFSHLTKLQILRV  156 (353)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCS-------SCCHHHHTTCTTCSEEECTTCCCSSSCSS------CSCTTCTTCCEEEE
T ss_pred             ccCHhhcCCCCCCCEEECCCCcCC-------cCCHhHhCCCccCCEEECCCCCCcccCch------hhhccCCCCcEEEC
Confidence            345667999999999999999983       23333 455 8999999999999888761      12678999999999


Q ss_pred             hccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEeccccc
Q 042890           86 AACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIA  162 (254)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~  162 (254)
                      +++.......+.  .+..+++|++|++++|.+.+..|..+..+++|+.|++++|.. ...|...   .++|+.|++++|.
T Consensus       157 ~~n~~~~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l-~~~~~~~~~~~~~L~~L~L~~n~  233 (353)
T 2z80_A          157 GNMDTFTKIQRK--DFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQH-ILLLEIFVDVTSSVECLELRDTD  233 (353)
T ss_dssp             EESSSCCEECTT--TTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCS-TTHHHHHHHHTTTEEEEEEESCB
T ss_pred             CCCccccccCHH--HccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCcc-ccchhhhhhhcccccEEECCCCc
Confidence            987543333344  788999999999999998777788899999999999999875 4444322   4789999999999


Q ss_pred             ccccchh----hhhccccCEEeccCCcCcc----cCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCC
Q 042890          163 IEELPSS----IERQLRLSWLDLSDCKRLK----SLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       163 ~~~l~~~----~~~~~~L~~L~l~~n~~~~----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      ++.++..    ......++.+++.++.+.+    .+|..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|++
T Consensus       234 l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~~  313 (353)
T 2z80_A          234 LDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNPW  313 (353)
T ss_dssp             CTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             cccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCCCCCccCHHHHhcCCCCCEEEeeCCCc
Confidence            9865421    2345678889999888766    4667788999999999999888743334468899999999999998


Q ss_pred             C
Q 042890          235 E  235 (254)
Q Consensus       235 ~  235 (254)
                      .
T Consensus       314 ~  314 (353)
T 2z80_A          314 D  314 (353)
T ss_dssp             C
T ss_pred             c
Confidence            6

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

Probab=99.85  E-value=2.7e-20  Score=148.81  Aligned_cols=204  Identities=17%  Similarity=0.129  Sum_probs=126.6

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      +..+++|+.|++.++.+.        ....+.. ++|++|++++|.++.++         .+..+++|++|+++++.  .
T Consensus        37 ~~~l~~L~~L~l~~~~i~--------~~~~l~~l~~L~~L~l~~n~l~~~~---------~l~~l~~L~~L~L~~n~--l   97 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIK--------SVQGIQYLPNVRYLALGGNKLHDIS---------ALKELTNLTYLILTGNQ--L   97 (272)
T ss_dssp             HHHHTTCCEEECTTSCCC--------CCTTGGGCTTCCEEECTTSCCCCCG---------GGTTCTTCCEEECTTSC--C
T ss_pred             cccccceeeeeeCCCCcc--------cccccccCCCCcEEECCCCCCCCch---------hhcCCCCCCEEECCCCc--c
Confidence            345667777777777651        1223444 77777777777666543         15567777777777654  3


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-  169 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-  169 (254)
                      ..++. ..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+....+..  ..++|+.|++++|.++.++.. 
T Consensus        98 ~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  176 (272)
T 3rfs_A           98 QSLPN-GVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGV  176 (272)
T ss_dssp             CCCCT-TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT
T ss_pred             CccCh-hHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHH
Confidence            33332 14667777777777777755544455666777777777776554333322  136677777777777766554 


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhh
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQL  244 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~  244 (254)
                      +..+++|+.|++++|.+.+..+..+..+++|+.+++++|.+.       +.++.|+.++++.|.+. .+|.+++.+
T Consensus       177 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~-------~~~~~l~~l~~~~n~~~g~ip~~~~~~  245 (272)
T 3rfs_A          177 FDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD-------CTCPGIRYLSEWINKHSGVVRNSAGSV  245 (272)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBC-------CCTTTTHHHHHHHHHTGGGBBCTTSCB
T ss_pred             hcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEccCCCcc-------ccCcHHHHHHHHHHhCCCcccCccccc
Confidence            456677777777777766655555666777777777776442       33556667776666665 555555443

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.85  E-value=2.1e-23  Score=175.01  Aligned_cols=240  Identities=13%  Similarity=0.065  Sum_probs=165.8

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc---chhhcchhhhcccccceehhh
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN---DIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~---~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      ..++..+++|++|++++|.+++..+  ..++..+.. ++|++|++++|.+..++..   .+..+..++..+++|++|+++
T Consensus        25 ~~~l~~~~~L~~L~L~~n~i~~~~~--~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls  102 (386)
T 2ca6_A           25 FAVLLEDDSVKEIVLSGNTIGTEAA--RWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLS  102 (386)
T ss_dssp             SHHHHHCSCCCEEECTTSEECHHHH--HHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECC
T ss_pred             HHHHhcCCCccEEECCCCCCCHHHH--HHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECC
Confidence            3456678889999999988744322  223444666 8899999998876665432   455555566788889999988


Q ss_pred             ccCCcee---ecCCCCccCCcccccEEeccCCcCCCc----cCCCCCCC---------CcccEEeccCCCCC-ccccc--
Q 042890           87 ACHKLIA---KIPNPTLMPRMKKLVILNLRGSKSLKS----LPSGIFNL---------EFLTKLDLSGCSKL-KRLPE--  147 (254)
Q Consensus        87 ~~~~~~~---~~~~~~~~~~~~~L~~L~l~~~~~~~~----~~~~~~~l---------~~L~~L~l~~~~~~-~~~p~--  147 (254)
                      ++.....   .++.  .+..+++|++|++++|.+...    ++..+..+         ++|+.|++++|.+. ...+.  
T Consensus       103 ~n~l~~~~~~~l~~--~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~  180 (386)
T 2ca6_A          103 DNAFGPTAQEPLID--FLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWA  180 (386)
T ss_dssp             SCCCCTTTHHHHHH--HHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHH
T ss_pred             CCcCCHHHHHHHHH--HHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHH
Confidence            7653211   2444  667788899999998876422    22223233         78888999888765 23331  


Q ss_pred             -c--ccCCcCeEeccccccc--c---c-chhhhhccccCEEeccCCcCc----ccCCccccCCCccCEEEecCCCCCcc-
Q 042890          148 -I--SSGNISWLFLRGIAIE--E---L-PSSIERQLRLSWLDLSDCKRL----KSLPSSLYRLKSLGILDLHGCSNLQR-  213 (254)
Q Consensus       148 -~--~~~~L~~L~l~~~~~~--~---l-~~~~~~~~~L~~L~l~~n~~~----~~~~~~l~~l~~L~~L~l~~~~~~~~-  213 (254)
                       .  ..++|+.|++++|.++  .   + +..+..+++|+.|++++|.+.    ..++..+..+++|+.|++++|.+.+. 
T Consensus       181 ~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~  260 (386)
T 2ca6_A          181 KTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARG  260 (386)
T ss_dssp             HHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHH
T ss_pred             HHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhh
Confidence             1  1368888888888877  2   2 336677888899999888875    45666777888888999988877654 


Q ss_pred             ---cCccc--cCCCCCcEEeccCCCCCC-----CChhh-hhhcccCcccccC
Q 042890          214 ---LPECL--GQLSSPITCNLAKTNIER-----IPESI-IQLFVSGYLLLSY  254 (254)
Q Consensus       214 ---~~~~~--~~l~~L~~L~l~~n~l~~-----l~~~~-~~~~~L~~L~ls~  254 (254)
                         ++..+  +.+++|+.|++++|.+..     +|..+ .++++|++|++++
T Consensus       261 ~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~  312 (386)
T 2ca6_A          261 AAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNG  312 (386)
T ss_dssp             HHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTT
T ss_pred             HHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccC
Confidence               45555  337888899998888875     77766 5578888888764

>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=99.85  E-value=5.7e-21  Score=155.42  Aligned_cols=197  Identities=15%  Similarity=0.191  Sum_probs=155.7

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      +..+++|++|+++++.+       ..++ .+.. ++|++|++++|.++.++.         +..+++|++|+++++.  .
T Consensus        37 ~~~l~~L~~L~l~~~~i-------~~l~-~~~~l~~L~~L~L~~n~i~~~~~---------~~~l~~L~~L~L~~n~--l   97 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGV-------TTIE-GVQYLNNLIGLELKDNQITDLAP---------LKNLTKITELELSGNP--L   97 (308)
T ss_dssp             HHHHHTCCEEECTTSCC-------CCCT-TGGGCTTCCEEECCSSCCCCCGG---------GTTCCSCCEEECCSCC--C
T ss_pred             HHHcCCcCEEEeeCCCc-------cCch-hhhccCCCCEEEccCCcCCCChh---------HccCCCCCEEEccCCc--C
Confidence            44578999999999887       2233 4555 899999999998877653         5678999999999776  3


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhh
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIER  172 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~  172 (254)
                      ..++   .+..+++|++|++++|.+.. ++. +..+++|+.|++++|.+....+-...++|+.|++++|.++.++. +..
T Consensus        98 ~~~~---~~~~l~~L~~L~l~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~  171 (308)
T 1h6u_A           98 KNVS---AIAGLQSIKTLDLTSTQITD-VTP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LAN  171 (308)
T ss_dssp             SCCG---GGTTCTTCCEEECTTSCCCC-CGG-GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTT
T ss_pred             CCch---hhcCCCCCCEEECCCCCCCC-chh-hcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCcCCCChh-hcC
Confidence            4444   68889999999999998544 444 78899999999999876554332235889999999999998877 788


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE  239 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~  239 (254)
                      +++|+.|++++|.+.+..+  +..+++|+.|++++|.+.+..+  +..+++|+.|++++|.+...|.
T Consensus       172 l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~l~~N~i~~~~~  234 (308)
T 1h6u_A          172 LSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQISDVSP--LANTSNLFIVTLTNQTITNQPV  234 (308)
T ss_dssp             CTTCCEEECCSSCCCCCGG--GGGCTTCCEEECTTSCCCBCGG--GTTCTTCCEEEEEEEEEECCCE
T ss_pred             CCCCCEEECCCCccCcChh--hcCCCCCCEEEccCCccCcccc--ccCCCCCCEEEccCCeeecCCe
Confidence            8999999999998765432  7889999999999988765543  7789999999999999866544

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

Probab=99.85  E-value=7e-21  Score=152.21  Aligned_cols=175  Identities=16%  Similarity=0.124  Sum_probs=146.2

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|+.|++.+|.++.++.         +..+++|++|+++++.  ...++   .+..+++|++|++++|.+.+..+..+.
T Consensus        41 ~~L~~L~l~~~~i~~~~~---------l~~l~~L~~L~l~~n~--l~~~~---~l~~l~~L~~L~L~~n~l~~~~~~~~~  106 (272)
T 3rfs_A           41 NSIDQIIANNSDIKSVQG---------IQYLPNVRYLALGGNK--LHDIS---ALKELTNLTYLILTGNQLQSLPNGVFD  106 (272)
T ss_dssp             TTCCEEECTTSCCCCCTT---------GGGCTTCCEEECTTSC--CCCCG---GGTTCTTCCEEECTTSCCCCCCTTTTT
T ss_pred             cceeeeeeCCCCcccccc---------cccCCCCcEEECCCCC--CCCch---hhcCCCCCCEEECCCCccCccChhHhc
Confidence            889999999998877653         6789999999999776  33443   788899999999999987666566678


Q ss_pred             CCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      .+++|+.|++++|.+....+..  ..++|++|++++|.++.++.. +..+++|+.|++++|.+.+..+..++.+++|+.|
T Consensus       107 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  186 (272)
T 3rfs_A          107 KLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDL  186 (272)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEE
Confidence            8999999999998866544432  247899999999999988765 5788999999999999887666667889999999


Q ss_pred             EecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      ++++|.+.+..+..+..+++|+.|++++|.+.
T Consensus       187 ~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          187 RLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             ECCSSCCSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             ECCCCcCCccCHHHHhCCcCCCEEEccCCCcc
Confidence            99999888877777888999999999999875

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

Probab=99.85  E-value=3.8e-21  Score=156.73  Aligned_cols=198  Identities=16%  Similarity=0.133  Sum_probs=156.5

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCC--CC-CceeeeeeCCCCCCCCCCcchhhcchhhhcc-----cccceehhhc
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDP--GF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRY-----SKLNQIIHAA   87 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l--~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~-----~~L~~l~l~~   87 (254)
                      .+++|++|++++|.+.+      ..+..+  .. ++|++|++++|.++.+|..        +..+     ++|++|++++
T Consensus        93 ~l~~L~~L~L~~n~l~~------~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~--------~~~l~~~~~~~L~~L~L~~  158 (312)
T 1wwl_A           93 GISGLQELTLENLEVTG------TAPPPLLEATGPDLNILNLRNVSWATRDAW--------LAELQQWLKPGLKVLSIAQ  158 (312)
T ss_dssp             TTSCCCEEEEEEEBCBS------CCCCCSSSCCSCCCSEEEEESCBCSSSSSH--------HHHHHTTCCTTCCEEEEES
T ss_pred             CcCCccEEEccCCcccc------hhHHHHHHhcCCCccEEEccCCCCcchhHH--------HHHHHHhhcCCCcEEEeeC
Confidence            68999999999999843      344444  55 9999999999998877543        4444     8999999997


Q ss_pred             cCCceeecC-CCCccCCcccccEEeccCCcCCCc--cCCCC--CCCCcccEEeccCCCCCc--ccccc---ccCCcCeEe
Q 042890           88 CHKLIAKIP-NPTLMPRMKKLVILNLRGSKSLKS--LPSGI--FNLEFLTKLDLSGCSKLK--RLPEI---SSGNISWLF  157 (254)
Q Consensus        88 ~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~~~~--~~~~~--~~l~~L~~L~l~~~~~~~--~~p~~---~~~~L~~L~  157 (254)
                      +.  ...++ .  .++.+++|++|++++|.+.+.  .+..+  ..+++|+.|++++|.+..  ..+..   ..++|+.|+
T Consensus       159 N~--l~~~~~~--~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~  234 (312)
T 1wwl_A          159 AH--SLNFSCE--QVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLD  234 (312)
T ss_dssp             CS--CCCCCTT--TCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEE
T ss_pred             CC--CccchHH--HhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEE
Confidence            76  34444 4  888999999999999987654  23334  789999999999988663  22222   137999999


Q ss_pred             cccccccccc--hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          158 LRGIAIEELP--SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       158 l~~~~~~~l~--~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++|.++..+  ..+..+++|+.|++++|.+. .+|..+.  ++|+.|++++|.+.+. |. +..+++|+.|++++|.++
T Consensus       235 Ls~N~l~~~~~~~~~~~l~~L~~L~Ls~N~l~-~ip~~~~--~~L~~L~Ls~N~l~~~-p~-~~~l~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          235 LSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLK-QVPKGLP--AKLSVLDLSYNRLDRN-PS-PDELPQVGNLSLKGNPFL  309 (312)
T ss_dssp             CTTSCCCSSCCCSCCCCCTTCCEEECTTSCCS-SCCSSCC--SEEEEEECCSSCCCSC-CC-TTTSCEEEEEECTTCTTT
T ss_pred             CCCCcCCcccchhhhhhcCCCCEEECCCCccC-hhhhhcc--CCceEEECCCCCCCCC-hh-HhhCCCCCEEeccCCCCC
Confidence            9999999754  34556789999999999977 6776665  8999999999888665 66 888999999999999986


Q ss_pred             C
Q 042890          236 R  236 (254)
Q Consensus       236 ~  236 (254)
                      .
T Consensus       310 ~  310 (312)
T 1wwl_A          310 D  310 (312)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.85  E-value=6.7e-20  Score=146.72  Aligned_cols=197  Identities=19%  Similarity=0.128  Sum_probs=158.5

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|++|++++|.++.++..       .+..+++|++|+++++.  ...++. ..+..+++|++|++++|.+....+..+.
T Consensus        28 ~~l~~L~ls~n~l~~~~~~-------~~~~l~~L~~L~l~~n~--l~~~~~-~~~~~l~~L~~L~L~~n~l~~~~~~~~~   97 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSY-------SFFSFPELQVLDLSRCE--IQTIED-GAYQSLSHLSTLILTGNPIQSLALGAFS   97 (276)
T ss_dssp             TTCCEEECTTCCCCEECTT-------TTTTCTTCSEEECTTCC--CCEECT-TTTTTCTTCCEEECTTCCCCEECTTTTT
T ss_pred             CCccEEECCCCcccccCHh-------HhccccCCcEEECCCCc--CCccCH-HHccCCcCCCEEECCCCccCccChhhhc
Confidence            6799999999998877653       36788999999999875  344432 2788899999999999997666667788


Q ss_pred             CCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccc--cchhhhhccccCEEeccCCcCcccCCccccCCCccC-
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEE--LPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLG-  201 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~--l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~-  201 (254)
                      ++++|+.|++++|.+....+..  ..++|+.|++++|.++.  +|..+..+++|+.|++++|.+.+..+..+..+++|+ 
T Consensus        98 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~  177 (276)
T 2z62_A           98 GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL  177 (276)
T ss_dssp             TCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTT
T ss_pred             CCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccc
Confidence            9999999999998766544322  24789999999999986  688899999999999999998776666677666666 


Q ss_pred             ---EEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChh-hhhhcccCcccccC
Q 042890          202 ---ILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPES-IIQLFVSGYLLLSY  254 (254)
Q Consensus       202 ---~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~-~~~~~~L~~L~ls~  254 (254)
                         .+++++|.+.+..+..+. ..+|+.|++++|.++.+|.. +..+++|++|++++
T Consensus       178 l~l~L~ls~n~l~~~~~~~~~-~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~  233 (276)
T 2z62_A          178 LNLSLDLSLNPMNFIQPGAFK-EIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT  233 (276)
T ss_dssp             CCEEEECCSSCCCEECTTSSC-SCCEEEEECCSSCCSCCCTTTTTTCCSCCEEECCS
T ss_pred             cceeeecCCCcccccCccccC-CCcccEEECCCCceeecCHhHhcccccccEEEccC
Confidence               899999888765555554 45899999999999987765 57899999998874

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

Probab=99.85  E-value=2.6e-20  Score=159.34  Aligned_cols=206  Identities=17%  Similarity=0.092  Sum_probs=168.8

Q ss_pred             CcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           11 PNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        11 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      +..++++++|++|++++|.+.+       .+ .+.. ++|++|++++|.++.++          +..+++|++|+++++.
T Consensus        35 ~~~~~~l~~L~~L~Ls~n~l~~-------~~-~l~~l~~L~~L~Ls~n~l~~~~----------~~~l~~L~~L~Ls~N~   96 (457)
T 3bz5_A           35 TISEEQLATLTSLDCHNSSITD-------MT-GIEKLTGLTKLICTSNNITTLD----------LSQNTNLTYLACDSNK   96 (457)
T ss_dssp             EEEHHHHTTCCEEECCSSCCCC-------CT-TGGGCTTCSEEECCSSCCSCCC----------CTTCTTCSEEECCSSC
T ss_pred             ccChhHcCCCCEEEccCCCccc-------Ch-hhcccCCCCEEEccCCcCCeEc----------cccCCCCCEEECcCCC
Confidence            3467789999999999999832       23 4555 99999999999988764          4678999999999776


Q ss_pred             CceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccc-cccccch
Q 042890           90 KLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGI-AIEELPS  168 (254)
Q Consensus        90 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~-~~~~l~~  168 (254)
                      -  ..+    .++.+++|++|++++|.+.+ ++  +..+++|+.|++++|.+.+ ++-...++|++|++++| .++.++ 
T Consensus        97 l--~~~----~~~~l~~L~~L~L~~N~l~~-l~--~~~l~~L~~L~l~~N~l~~-l~l~~l~~L~~L~l~~n~~~~~~~-  165 (457)
T 3bz5_A           97 L--TNL----DVTPLTKLTYLNCDTNKLTK-LD--VSQNPLLTYLNCARNTLTE-IDVSHNTQLTELDCHLNKKITKLD-  165 (457)
T ss_dssp             C--SCC----CCTTCTTCCEEECCSSCCSC-CC--CTTCTTCCEEECTTSCCSC-CCCTTCTTCCEEECTTCSCCCCCC-
T ss_pred             C--cee----ecCCCCcCCEEECCCCcCCe-ec--CCCCCcCCEEECCCCccce-eccccCCcCCEEECCCCCcccccc-
Confidence            3  333    36789999999999998655 44  7889999999999988665 44444589999999999 455663 


Q ss_pred             hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccC
Q 042890          169 SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSG  248 (254)
Q Consensus       169 ~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~  248 (254)
                       +..+++|+.|++++|.+.+ ++  +..+++|+.+++++|.+.+.   .+..+++|+.|++++|.+..+|  +..+++|+
T Consensus       166 -~~~l~~L~~L~ls~n~l~~-l~--l~~l~~L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~  236 (457)
T 3bz5_A          166 -VTPQTQLTTLDCSFNKITE-LD--VSQNKLLNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKLTEID--VTPLTQLT  236 (457)
T ss_dssp             -CTTCTTCCEEECCSSCCCC-CC--CTTCTTCCEEECCSSCCSCC---CCTTCTTCSEEECCSSCCSCCC--CTTCTTCS
T ss_pred             -cccCCcCCEEECCCCccce-ec--cccCCCCCEEECcCCcCCee---ccccCCCCCEEECcCCcccccC--ccccCCCC
Confidence             6778999999999998766 44  78899999999999887664   3778999999999999999887  78889999


Q ss_pred             cccccC
Q 042890          249 YLLLSY  254 (254)
Q Consensus       249 ~L~ls~  254 (254)
                      +|++++
T Consensus       237 ~L~l~~  242 (457)
T 3bz5_A          237 YFDCSV  242 (457)
T ss_dssp             EEECCS
T ss_pred             EEEeeC
Confidence            998874

>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=99.85  E-value=4.1e-20  Score=150.36  Aligned_cols=186  Identities=17%  Similarity=0.217  Sum_probs=154.9

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|++|++.+|.++.++.         +..+++|++|+++++.  ...++   .+..+++|++|++++|.+. .++ .+.
T Consensus        41 ~~L~~L~l~~~~i~~l~~---------~~~l~~L~~L~L~~n~--i~~~~---~~~~l~~L~~L~L~~n~l~-~~~-~~~  104 (308)
T 1h6u_A           41 DGITTLSAFGTGVTTIEG---------VQYLNNLIGLELKDNQ--ITDLA---PLKNLTKITELELSGNPLK-NVS-AIA  104 (308)
T ss_dssp             HTCCEEECTTSCCCCCTT---------GGGCTTCCEEECCSSC--CCCCG---GGTTCCSCCEEECCSCCCS-CCG-GGT
T ss_pred             CCcCEEEeeCCCccCchh---------hhccCCCCEEEccCCc--CCCCh---hHccCCCCCEEEccCCcCC-Cch-hhc
Confidence            889999999999888763         6789999999999776  44555   4788999999999999854 444 488


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      .+++|+.|++++|.+....+-...++|+.|++++|.++.++. +..+++|+.|++++|.+.+. +. +..+++|+.|+++
T Consensus       105 ~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~l~  181 (308)
T 1h6u_A          105 GLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDL-TP-LANLSKLTTLKAD  181 (308)
T ss_dssp             TCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCC-GG-GTTCTTCCEEECC
T ss_pred             CCCCCCEEECCCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCC-hh-hcCCCCCCEEECC
Confidence            999999999999886553332235899999999999998876 78899999999999987653 33 8899999999999


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      +|.+.+..+  +..+++|+.|++++|.+..++. +..+++|+.|++++
T Consensus       182 ~n~l~~~~~--l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~l~~  226 (308)
T 1h6u_A          182 DNKISDISP--LASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLTN  226 (308)
T ss_dssp             SSCCCCCGG--GGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEEE
T ss_pred             CCccCcChh--hcCCCCCCEEEccCCccCcccc-ccCCCCCCEEEccC
Confidence            988765443  7789999999999999998874 88899999998863

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.84  E-value=1.9e-20  Score=146.79  Aligned_cols=194  Identities=13%  Similarity=0.167  Sum_probs=127.1

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccC-CcCCCccCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRG-SKSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~~~~~  125 (254)
                      .+|++|++++|.++.++..       .+..+++|++|+++++.. ...++. ..|.++++|++|++++ |.+....+..+
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 PSTQTLKLIETHLRTIPSH-------AFSNLPNISRIYVSIDVT-LQQLES-HSFYNLSKVTHIEIRNTRNLTYIDPDAL  101 (239)
T ss_dssp             TTCCEEEEESCCCSEECTT-------TTTTCTTCCEEEEECCSS-CCEECT-TTEESCTTCCEEEEEEETTCCEECTTSE
T ss_pred             CcccEEEEeCCcceEECHH-------HccCCCCCcEEeCCCCCC-cceeCH-hHcCCCcCCcEEECCCCCCeeEcCHHHh
Confidence            4677777777776666542       255667777777775542 223321 1566777777777776 65443334456


Q ss_pred             CCCCcccEEeccCCCCCccccccc-cCCcC---eEecccc-cccccchh-hhhccccC-EEeccCCcCcccCCccccCCC
Q 042890          126 FNLEFLTKLDLSGCSKLKRLPEIS-SGNIS---WLFLRGI-AIEELPSS-IERQLRLS-WLDLSDCKRLKSLPSSLYRLK  198 (254)
Q Consensus       126 ~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~---~L~l~~~-~~~~l~~~-~~~~~~L~-~L~l~~n~~~~~~~~~l~~l~  198 (254)
                      ..+++|+.|++++|.+.. +|... ..+++   .|++++| .++.+|.. +..+++|+ .|++++|.+. .+|......+
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 KELPLLKFLGIFNTGLKM-FPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFT-SVQGYAFNGT  179 (239)
T ss_dssp             ECCTTCCEEEEEEECCCS-CCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCC-EECTTTTTTC
T ss_pred             CCCCCCCEEeCCCCCCcc-ccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCc-ccCHhhcCCC
Confidence            667777777777765443 44422 35555   7777777 77777654 67778888 8888888766 4443332337


Q ss_pred             ccCEEEecCCC-CCcccCccccCC-CCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          199 SLGILDLHGCS-NLQRLPECLGQL-SSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       199 ~L~~L~l~~~~-~~~~~~~~~~~l-~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      +|+.+++++|. +.+..+..+..+ ++|+.|++++|.++.+|..  .+++|+.|+++
T Consensus       180 ~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~~--~~~~L~~L~l~  234 (239)
T 2xwt_C          180 KLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSK--GLEHLKELIAR  234 (239)
T ss_dssp             EEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCCCCCT--TCTTCSEEECT
T ss_pred             CCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCccccCChh--HhccCceeecc
Confidence            78888888874 655556667777 8888888888888877764  56777777765

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.84  E-value=3e-19  Score=152.64  Aligned_cols=129  Identities=22%  Similarity=0.282  Sum_probs=63.5

Q ss_pred             cceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc------------chhhcchhhhcccccceehh
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN------------DIEQLWDRVKRYSKLNQIIH   85 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~------------~l~~l~~~~~~~~~L~~l~l   85 (254)
                      +|++|++++|.+.       .++ .+.. ++|++|++++|.++.+|+.            .+..++ ++..+++|++|++
T Consensus       132 ~L~~L~L~~n~l~-------~lp-~~~~l~~L~~L~l~~N~l~~lp~~~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l  202 (454)
T 1jl5_A          132 LLEYLGVSNNQLE-------KLP-ELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELP-ELQNLPFLTAIYA  202 (454)
T ss_dssp             TCCEEECCSSCCS-------SCC-CCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEEC
T ss_pred             CCCEEECcCCCCC-------CCc-ccCCCCCCCEEECCCCcCcccCCCcccccEEECcCCcCCcCc-cccCCCCCCEEEC
Confidence            4555555555541       123 2444 6666666666666555432            112222 2455566666666


Q ss_pred             hccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccc
Q 042890           86 AACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEE  165 (254)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~  165 (254)
                      +++.  ...+|.  .   .++|++|++++|.+. .+|. +..+++|+.|++++|.+.+ +|... .+++.|++++|.++.
T Consensus       203 ~~N~--l~~l~~--~---~~~L~~L~l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~~-l~~~~-~~L~~L~l~~N~l~~  271 (454)
T 1jl5_A          203 DNNS--LKKLPD--L---PLSLESIVAGNNILE-ELPE-LQNLPFLTTIYADNNLLKT-LPDLP-PSLEALNVRDNYLTD  271 (454)
T ss_dssp             CSSC--CSSCCC--C---CTTCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCSS-CCSCC-TTCCEEECCSSCCSC
T ss_pred             CCCc--CCcCCC--C---cCcccEEECcCCcCC-cccc-cCCCCCCCEEECCCCcCCc-ccccc-cccCEEECCCCcccc
Confidence            6544  222332  1   135566666665533 4443 5566666666666655432 33222 445555555554444


Q ss_pred             cc
Q 042890          166 LP  167 (254)
Q Consensus       166 l~  167 (254)
                      +|
T Consensus       272 l~  273 (454)
T 1jl5_A          272 LP  273 (454)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.83  E-value=5e-19  Score=156.18  Aligned_cols=113  Identities=23%  Similarity=0.240  Sum_probs=82.4

Q ss_pred             CcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCC
Q 042890          129 EFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       129 ~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~  208 (254)
                      ++|+.|++++|.+. .+|... .+|+.|++.+|.++.+|..   .++|+.|++++|.+.+ +|   ..+++|+.|++++|
T Consensus       181 ~~L~~L~Ls~N~l~-~l~~~~-~~L~~L~L~~N~l~~l~~~---~~~L~~L~Ls~N~L~~-lp---~~l~~L~~L~Ls~N  251 (622)
T 3g06_A          181 SGLQELSVSDNQLA-SLPTLP-SELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRLTS-LP---VLPSELKELMVSGN  251 (622)
T ss_dssp             TTCCEEECCSSCCS-CCCCCC-TTCCEEECCSSCCSSCCCC---CTTCCEEECCSSCCSC-CC---CCCTTCCEEECCSS
T ss_pred             CCCcEEECCCCCCC-CCCCcc-chhhEEECcCCcccccCCC---CCCCCEEEccCCccCc-CC---CCCCcCcEEECCCC
Confidence            56677777776543 344333 6677777777777766642   3678888888887654 44   35678899999888


Q ss_pred             CCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          209 SNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       209 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+. .+|.   .+++|+.|++++|.++.+|..+..+++|+.|++++
T Consensus       252 ~L~-~lp~---~~~~L~~L~Ls~N~L~~lp~~l~~l~~L~~L~L~~  293 (622)
T 3g06_A          252 RLT-SLPM---LPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEG  293 (622)
T ss_dssp             CCS-CCCC---CCTTCCEEECCSSCCCSCCGGGGGSCTTCEEECCS
T ss_pred             CCC-cCCc---ccccCcEEeCCCCCCCcCCHHHhhccccCEEEecC
Confidence            665 4554   46889999999999998888889999999998864

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

Probab=99.83  E-value=4.3e-20  Score=150.33  Aligned_cols=222  Identities=18%  Similarity=0.078  Sum_probs=162.6

Q ss_pred             cceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhh--hcccccceehhhccCCceeecC
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRV--KRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~--~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      .++.+.+.++.++....  ......+..++|++|++++|.+....+.       .+  ..+++|++|+++++... ...+
T Consensus        65 ~l~~l~l~~~~~~~~~~--~~~~~~~~~~~L~~L~l~~n~l~~~~~~-------~~~~~~~~~L~~L~Ls~n~i~-~~~~  134 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLL--VGALRVLAYSRLKELTLEDLKITGTMPP-------LPLEATGLALSSLRLRNVSWA-TGRS  134 (310)
T ss_dssp             CCCEEEECSCCCBHHHH--HHHHHHHHHSCCCEEEEESCCCBSCCCC-------CSSSCCCBCCSSCEEESCCCS-STTS
T ss_pred             ceeEEEEeCCcCCHHHH--HHHHHhcccCceeEEEeeCCEeccchhh-------hhhhccCCCCCEEEeeccccc-chhh
Confidence            46677777666522110  0111111126699999999987644332       13  67889999999977632 1111


Q ss_pred             C--CCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcc--cc--c--cccCCcCeEecccccccccch
Q 042890           97 N--PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKR--LP--E--ISSGNISWLFLRGIAIEELPS  168 (254)
Q Consensus        97 ~--~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~--~p--~--~~~~~L~~L~l~~~~~~~l~~  168 (254)
                      .  ...+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.+.  .+  .  ..+++|++|++++|.++.++.
T Consensus       135 ~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~  214 (310)
T 4glp_A          135 WLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTG  214 (310)
T ss_dssp             SHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHH
T ss_pred             hhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHH
Confidence            0  01344689999999999998777777888999999999999886542  21  1  224789999999999987665


Q ss_pred             h----hhhccccCEEeccCCcCcccCCccccCC---CccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhh
Q 042890          169 S----IERQLRLSWLDLSDCKRLKSLPSSLYRL---KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESI  241 (254)
Q Consensus       169 ~----~~~~~~L~~L~l~~n~~~~~~~~~l~~l---~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~  241 (254)
                      .    +..+++|++|++++|.+.+..|..+..+   ++|+.|++++|.+. .+|..+.  ++|+.|++++|.++.+|. +
T Consensus       215 ~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~~~-~  290 (310)
T 4glp_A          215 VCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDLSSNRLNRAPQ-P  290 (310)
T ss_dssp             HHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEECCSCCCCSCCC-T
T ss_pred             HHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc--CCCCEEECCCCcCCCCch-h
Confidence            3    4677999999999999888777777666   69999999998877 5676553  799999999999998765 6


Q ss_pred             hhhcccCcccccC
Q 042890          242 IQLFVSGYLLLSY  254 (254)
Q Consensus       242 ~~~~~L~~L~ls~  254 (254)
                      ..+++|++|++++
T Consensus       291 ~~l~~L~~L~L~~  303 (310)
T 4glp_A          291 DELPEVDNLTLDG  303 (310)
T ss_dssp             TSCCCCSCEECSS
T ss_pred             hhCCCccEEECcC
Confidence            7889999999874

>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=99.82  E-value=1.5e-19  Score=145.69  Aligned_cols=192  Identities=19%  Similarity=0.101  Sum_probs=161.1

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++++.+++.++.++.+|..        +  .++++.|+++++... ...+.  .+..+++|+.|++++|.+.. ++. ..
T Consensus        10 ~~l~~l~~~~~~l~~ip~~--------~--~~~l~~L~L~~N~l~-~~~~~--~~~~l~~L~~L~L~~n~l~~-~~~-~~   74 (290)
T 1p9a_G           10 ASHLEVNCDKRNLTALPPD--------L--PKDTTILHLSENLLY-TFSLA--TLMPYTRLTQLNLDRAELTK-LQV-DG   74 (290)
T ss_dssp             TTCCEEECTTSCCSSCCSC--------C--CTTCCEEECTTSCCS-EEEGG--GGTTCTTCCEEECTTSCCCE-EEC-CS
T ss_pred             CCccEEECCCCCCCcCCCC--------C--CCCCCEEEcCCCcCC-ccCHH--HhhcCCCCCEEECCCCccCc-ccC-CC
Confidence            7899999999999998864        3  368999999977632 22233  78899999999999998643 444 36


Q ss_pred             CCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      .+++|+.|++++|.+. .+|...  .++|++|++++|.++.+|. .+..+++|+.|++++|.+.+..+..+..+++|+.|
T Consensus        75 ~l~~L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L  153 (290)
T 1p9a_G           75 TLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKL  153 (290)
T ss_dssp             CCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCcCCEEECCCCcCC-cCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEE
Confidence            8999999999998755 555433  4789999999999998875 58899999999999999887766678899999999


Q ss_pred             EecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          204 DLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      ++++|.+.+..+..+..+++|+.|++++|.++.+|..+...++|+.+++++
T Consensus       154 ~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~  204 (290)
T 1p9a_G          154 SLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG  204 (290)
T ss_dssp             ECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCS
T ss_pred             ECCCCcCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCC
Confidence            999998876666677889999999999999999999999999999998864

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

Probab=99.81  E-value=1.3e-18  Score=137.44  Aligned_cols=136  Identities=19%  Similarity=0.163  Sum_probs=72.8

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhcccc
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLRL  176 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~L  176 (254)
                      .+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+....+..  ..++|++|++++|.++.+|.. +..+++|
T Consensus        54 ~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  133 (251)
T 3m19_A           54 TFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKL  133 (251)
T ss_dssp             TTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             HhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcc
Confidence            3445555555555555544433444445555555555554433222221  124555555555555555443 3555666


Q ss_pred             CEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          177 SWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       177 ~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +.|++++|.+.+..+..++.+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.
T Consensus       134 ~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  192 (251)
T 3m19_A          134 KELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFD  192 (251)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC
T ss_pred             cEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCcee
Confidence            66666666655444445556666666666666555555555556666666666666654

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.81  E-value=4.8e-19  Score=138.81  Aligned_cols=195  Identities=14%  Similarity=0.077  Sum_probs=151.7

Q ss_pred             CcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCC-CCCCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYP-LKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~-~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      +++++|++++|.+       ..++. .+.. ++|++|++++|. ++.+++.       ++..+++|++|++++|.. ...
T Consensus        31 ~~l~~L~l~~n~l-------~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~-------~f~~l~~L~~L~l~~~n~-l~~   95 (239)
T 2xwt_C           31 PSTQTLKLIETHL-------RTIPSHAFSNLPNISRIYVSIDVTLQQLESH-------SFYNLSKVTHIEIRNTRN-LTY   95 (239)
T ss_dssp             TTCCEEEEESCCC-------SEECTTTTTTCTTCCEEEEECCSSCCEECTT-------TEESCTTCCEEEEEEETT-CCE
T ss_pred             CcccEEEEeCCcc-------eEECHHHccCCCCCcEEeCCCCCCcceeCHh-------HcCCCcCCcEEECCCCCC-eeE
Confidence            3899999999998       33333 4556 999999999997 8877753       367889999999997333 344


Q ss_pred             cCCCCccCCcccccEEeccCCcCCCccCCCCCCCCccc---EEeccCCCCCccccccc---cCCcC-eEecccccccccc
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLT---KLDLSGCSKLKRLPEIS---SGNIS-WLFLRGIAIEELP  167 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~---~L~l~~~~~~~~~p~~~---~~~L~-~L~l~~~~~~~l~  167 (254)
                      ++. ..|..+++|++|++++|.+.+ +|. +..+++|+   .|++++|.....++...   .++|+ .+++++|.++.+|
T Consensus        96 i~~-~~f~~l~~L~~L~l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~  172 (239)
T 2xwt_C           96 IDP-DALKELPLLKFLGIFNTGLKM-FPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQ  172 (239)
T ss_dssp             ECT-TSEECCTTCCEEEEEEECCCS-CCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEEC
T ss_pred             cCH-HHhCCCCCCCEEeCCCCCCcc-ccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccC
Confidence            442 278899999999999998654 676 77888888   99999983344555432   47888 9999999999988


Q ss_pred             hhhhhccccCEEeccCCc-CcccCCccccCC-CccCEEEecCCCCCcccCccccCCCCCcEEeccCCC
Q 042890          168 SSIERQLRLSWLDLSDCK-RLKSLPSSLYRL-KSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTN  233 (254)
Q Consensus       168 ~~~~~~~~L~~L~l~~n~-~~~~~~~~l~~l-~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~  233 (254)
                      ......++|+.|++++|. +....+..+.++ ++|+.+++++|.+.+ +|..  .+++|+.|++.++.
T Consensus       173 ~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l~~-l~~~--~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          173 GYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTA-LPSK--GLEHLKELIARNTW  237 (239)
T ss_dssp             TTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCCCC-CCCT--TCTTCSEEECTTC-
T ss_pred             HhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCcccc-CChh--HhccCceeeccCcc
Confidence            875555899999999995 666556678888 999999999987764 4443  57899999988763

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

Probab=99.81  E-value=9.4e-19  Score=138.18  Aligned_cols=171  Identities=16%  Similarity=0.097  Sum_probs=140.8

Q ss_pred             cccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCe
Q 042890           78 SKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISW  155 (254)
Q Consensus        78 ~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~  155 (254)
                      ...+++++++..  ...+|.  .+.  +.++.|++++|.+.+..+..+.++++|+.|++++|.+....+...  .++|++
T Consensus        14 ~~~~~l~~~~~~--l~~~p~--~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~   87 (251)
T 3m19_A           14 EGKKEVDCQGKS--LDSVPS--GIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGT   87 (251)
T ss_dssp             GGGTEEECTTCC--CSSCCS--CCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCeEEecCCCC--ccccCC--CCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCE
Confidence            456677776544  455654  443  689999999999877767778899999999999988766555432  489999


Q ss_pred             Eecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCC
Q 042890          156 LFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       156 L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      |++++|.++.++.. +..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+
T Consensus        88 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l  167 (251)
T 3m19_A           88 LGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQL  167 (251)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EECCCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcC
Confidence            99999999988754 68899999999999998876666678999999999999988777777889999999999999999


Q ss_pred             CCCCh-hhhhhcccCcccccC
Q 042890          235 ERIPE-SIIQLFVSGYLLLSY  254 (254)
Q Consensus       235 ~~l~~-~~~~~~~L~~L~ls~  254 (254)
                      ..++. .+..+++|++|++++
T Consensus       168 ~~~~~~~~~~l~~L~~L~l~~  188 (251)
T 3m19_A          168 QSVPHGAFDRLGKLQTITLFG  188 (251)
T ss_dssp             SCCCTTTTTTCTTCCEEECCS
T ss_pred             CccCHHHHhCCCCCCEEEeeC
Confidence            97765 678899999999874

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.81  E-value=1.5e-18  Score=148.29  Aligned_cols=143  Identities=22%  Similarity=0.281  Sum_probs=76.6

Q ss_pred             cccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEe
Q 042890           78 SKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLF  157 (254)
Q Consensus        78 ~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~  157 (254)
                      ++|++|+++++.  ...++.  .   .++|++|++++|.+.+ +| .+..+++|++|++++|.+.+ +|... .+|++|+
T Consensus       111 ~~L~~L~l~~n~--l~~l~~--~---~~~L~~L~L~~n~l~~-lp-~~~~l~~L~~L~l~~N~l~~-lp~~~-~~L~~L~  179 (454)
T 1jl5_A          111 QSLKSLLVDNNN--LKALSD--L---PPLLEYLGVSNNQLEK-LP-ELQNSSFLKIIDVDNNSLKK-LPDLP-PSLEFIA  179 (454)
T ss_dssp             TTCCEEECCSSC--CSCCCS--C---CTTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCSSCCSC-CCCCC-TTCCEEE
T ss_pred             CCCcEEECCCCc--cCcccC--C---CCCCCEEECcCCCCCC-Cc-ccCCCCCCCEEECCCCcCcc-cCCCc-ccccEEE
Confidence            456666665443  222321  1   1467777777776443 55 36667777777777765443 44433 5666777


Q ss_pred             cccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCC
Q 042890          158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI  237 (254)
Q Consensus       158 l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l  237 (254)
                      +++|.++.+| .+..+++|+.|++++|.+.+ +|..   .++|+.|++++|.+. .+|. +..+++|+.|++++|.+..+
T Consensus       180 L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~-l~~~---~~~L~~L~l~~n~l~-~lp~-~~~l~~L~~L~l~~N~l~~l  252 (454)
T 1jl5_A          180 AGNNQLEELP-ELQNLPFLTAIYADNNSLKK-LPDL---PLSLESIVAGNNILE-ELPE-LQNLPFLTTIYADNNLLKTL  252 (454)
T ss_dssp             CCSSCCSSCC-CCTTCTTCCEEECCSSCCSS-CCCC---CTTCCEEECCSSCCS-SCCC-CTTCTTCCEEECCSSCCSSC
T ss_pred             CcCCcCCcCc-cccCCCCCCEEECCCCcCCc-CCCC---cCcccEEECcCCcCC-cccc-cCCCCCCCEEECCCCcCCcc
Confidence            7777666665 35566666666666665443 2221   134555555554433 3332 44455555555555554444


Q ss_pred             C
Q 042890          238 P  238 (254)
Q Consensus       238 ~  238 (254)
                      |
T Consensus       253 ~  253 (454)
T 1jl5_A          253 P  253 (454)
T ss_dssp             C
T ss_pred             c
Confidence            3

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.79  E-value=7.2e-19  Score=145.52  Aligned_cols=216  Identities=16%  Similarity=0.136  Sum_probs=158.3

Q ss_pred             CcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCC-CCCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPL-KSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~-~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      +++++|++++|.|       ..++. .+.. ++|++|+|++|.+ +.++..       ++..+++++++....+.. ...
T Consensus        30 ~~l~~L~Ls~N~i-------~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~-------~f~~L~~l~~~l~~~~N~-l~~   94 (350)
T 4ay9_X           30 RNAIELRFVLTKL-------RVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN-LLY   94 (350)
T ss_dssp             TTCSEEEEESCCC-------SEECTTSSTTCTTCCEEEEECCTTCCEECTT-------SBCSCTTCCEEEEEEETT-CCE
T ss_pred             CCCCEEEccCCcC-------CCcCHHHHcCCCCCCEEECcCCCCCCccChh-------HhhcchhhhhhhcccCCc-ccc
Confidence            5799999999998       44554 4566 9999999999985 445543       356777777655554444 344


Q ss_pred             c-CCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccccc----CCcCeEecccccccccchh
Q 042890           95 I-PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS----GNISWLFLRGIAIEELPSS  169 (254)
Q Consensus        95 ~-~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~----~~L~~L~l~~~~~~~l~~~  169 (254)
                      + +.  .|..+++|++|++++|.+....+..+....++..+++.++.....++...+    ..++.|++++|.++.++..
T Consensus        95 l~~~--~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~  172 (350)
T 4ay9_X           95 INPE--AFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNS  172 (350)
T ss_dssp             ECTT--SBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTT
T ss_pred             cCch--hhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChh
Confidence            4 44  788999999999999986554444455666788899877666666665432    4577899999999999988


Q ss_pred             hhhccccCEEeccCCcCcccCCc-cccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC-CCCCCChhhhhhccc
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPS-SLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT-NIERIPESIIQLFVS  247 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L  247 (254)
                      +...++++.+++.++...+.+|. .|.++++|+.|++++|++....+..   +.+|+.|.+.++ .++.+|. +..+++|
T Consensus       173 ~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~---~~~L~~L~~l~~~~l~~lP~-l~~l~~L  248 (350)
T 4ay9_X          173 AFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYG---LENLKKLRARSTYNLKKLPT-LEKLVAL  248 (350)
T ss_dssp             SSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSS---CTTCCEEECTTCTTCCCCCC-TTTCCSC
T ss_pred             hccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhh---hccchHhhhccCCCcCcCCC-chhCcCh
Confidence            77778999999987666666664 5789999999999998775543333   456666665554 4677874 7788999


Q ss_pred             CcccccC
Q 042890          248 GYLLLSY  254 (254)
Q Consensus       248 ~~L~ls~  254 (254)
                      +.+++++
T Consensus       249 ~~l~l~~  255 (350)
T 4ay9_X          249 MEASLTY  255 (350)
T ss_dssp             CEEECSC
T ss_pred             hhCcCCC
Confidence            9888764

>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=99.79  E-value=2.3e-20  Score=153.37  Aligned_cols=199  Identities=21%  Similarity=0.224  Sum_probs=144.9

Q ss_pred             CcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecC
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIP   96 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~   96 (254)
                      ++++.|+++++.+.+.       +..+.. ++|++|++++|.+..      ..++..+..+++|++|+++++.. ....+
T Consensus        70 ~~l~~L~l~~n~l~~~-------~~~~~~~~~L~~L~L~~~~l~~------~~~~~~~~~~~~L~~L~L~~~~l-~~~~~  135 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQP-------LAEHFSPFRVQHMDLSNSVIEV------STLHGILSQCSKLQNLSLEGLRL-SDPIV  135 (336)
T ss_dssp             TTCSEEECTTCEECSC-------CCSCCCCBCCCEEECTTCEECH------HHHHHHHTTBCCCSEEECTTCBC-CHHHH
T ss_pred             ccceEEEcCCcccccc-------chhhccCCCCCEEEccCCCcCH------HHHHHHHhhCCCCCEEeCcCccc-CHHHH
Confidence            7888899988887332       222334 889999999986432      11233477889999999998753 33445


Q ss_pred             CCCccCCcccccEEeccCC-cCCC-ccCCCCCCCCcccEEeccCC-CCCcc-ccccc--cC-CcCeEeccccc--cc--c
Q 042890           97 NPTLMPRMKKLVILNLRGS-KSLK-SLPSGIFNLEFLTKLDLSGC-SKLKR-LPEIS--SG-NISWLFLRGIA--IE--E  165 (254)
Q Consensus        97 ~~~~~~~~~~L~~L~l~~~-~~~~-~~~~~~~~l~~L~~L~l~~~-~~~~~-~p~~~--~~-~L~~L~l~~~~--~~--~  165 (254)
                      .  .++.+++|++|++++| .+.. .++..+..+++|+.|++++| .+... ++...  .+ +|+.|++++|.  ++  .
T Consensus       136 ~--~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~  213 (336)
T 2ast_B          136 N--TLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSD  213 (336)
T ss_dssp             H--HHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHH
T ss_pred             H--HHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHH
Confidence            4  6778999999999998 4433 25555677899999999998 55432 33322  36 89999999994  43  5


Q ss_pred             cchhhhhccccCEEeccCCc-CcccCCccccCCCccCEEEecCCC-CCcccCccccCCCCCcEEeccCC
Q 042890          166 LPSSIERQLRLSWLDLSDCK-RLKSLPSSLYRLKSLGILDLHGCS-NLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       166 l~~~~~~~~~L~~L~l~~n~-~~~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      ++..+..+++|+.|++++|. +.+..+..+..+++|+.|++++|. ........+..+++|+.|++++|
T Consensus       214 l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          214 LSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             HHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             HHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEeccCc
Confidence            77778888999999999998 556666678889999999999985 22222235677899999999998

>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=99.78  E-value=2.3e-20  Score=153.42  Aligned_cols=219  Identities=15%  Similarity=0.076  Sum_probs=133.7

Q ss_pred             ceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCC
Q 042890           20 LRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPT   99 (254)
Q Consensus        20 L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~   99 (254)
                      ++.++++++.+...      ....+..+.++.+++.+|.+...+..        ...+++|++|+++++......++.  
T Consensus        49 ~~~l~l~~~~~~~~------~~~~~~~~~l~~L~l~~n~l~~~~~~--------~~~~~~L~~L~L~~~~l~~~~~~~--  112 (336)
T 2ast_B           49 WQTLDLTGKNLHPD------VTGRLLSQGVIAFRCPRSFMDQPLAE--------HFSPFRVQHMDLSNSVIEVSTLHG--  112 (336)
T ss_dssp             SSEEECTTCBCCHH------HHHHHHHTTCSEEECTTCEECSCCCS--------CCCCBCCCEEECTTCEECHHHHHH--
T ss_pred             heeeccccccCCHH------HHHhhhhccceEEEcCCccccccchh--------hccCCCCCEEEccCCCcCHHHHHH--
Confidence            66777777665210      00000115677777777765554433        345677777777766521122444  


Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCC-CCc-cccccc--cCCcCeEecccc-cccc--cchhhhh
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCS-KLK-RLPEIS--SGNISWLFLRGI-AIEE--LPSSIER  172 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~-~~p~~~--~~~L~~L~l~~~-~~~~--l~~~~~~  172 (254)
                      .+..+++|++|++++|.+....+..+..+++|+.|++++|. +.. .++...  .++|+.|++++| .++.  ++..+..
T Consensus       113 ~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  192 (336)
T 2ast_B          113 ILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAH  192 (336)
T ss_dssp             HHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHH
T ss_pred             HHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHh
Confidence            56677777777777777555555556677777777777773 332 133321  367777777777 6663  5666677


Q ss_pred             cc-ccCEEeccCC--cCc-ccCCccccCCCccCEEEecCCC-CCcccCccccCCCCCcEEeccCCC-CC-CCChhhhhhc
Q 042890          173 QL-RLSWLDLSDC--KRL-KSLPSSLYRLKSLGILDLHGCS-NLQRLPECLGQLSSPITCNLAKTN-IE-RIPESIIQLF  245 (254)
Q Consensus       173 ~~-~L~~L~l~~n--~~~-~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~l~~n~-l~-~l~~~~~~~~  245 (254)
                      ++ +|++|++++|  .+. ..++..+..+++|+.|++++|. +.+..+..+..+++|+.|++++|. +. .....+..++
T Consensus       193 l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~  272 (336)
T 2ast_B          193 VSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIP  272 (336)
T ss_dssp             SCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCT
T ss_pred             cccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCC
Confidence            77 7777777777  333 3444555667777777777776 444555566677777777777774 22 1122456677


Q ss_pred             ccCcccccC
Q 042890          246 VSGYLLLSY  254 (254)
Q Consensus       246 ~L~~L~ls~  254 (254)
                      +|++|++++
T Consensus       273 ~L~~L~l~~  281 (336)
T 2ast_B          273 TLKTLQVFG  281 (336)
T ss_dssp             TCCEEECTT
T ss_pred             CCCEEeccC
Confidence            777777653

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

Probab=99.78  E-value=1.8e-18  Score=140.77  Aligned_cols=202  Identities=17%  Similarity=0.088  Sum_probs=151.0

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCC--CC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCcee
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDP--GF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l--~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      +++|++|++++|.+.+.      .+..+  .. ++|++|++++|.++..... +..  ..+..+++|++|+++++.. ..
T Consensus        90 ~~~L~~L~l~~n~l~~~------~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~-~~~--~~~~~~~~L~~L~Ls~n~l-~~  159 (310)
T 4glp_A           90 YSRLKELTLEDLKITGT------MPPLPLEATGLALSSLRLRNVSWATGRSW-LAE--LQQWLKPGLKVLSIAQAHS-PA  159 (310)
T ss_dssp             HSCCCEEEEESCCCBSC------CCCCSSSCCCBCCSSCEEESCCCSSTTSS-HHH--HHTTBCSCCCEEEEECCSS-CC
T ss_pred             cCceeEEEeeCCEeccc------hhhhhhhccCCCCCEEEeecccccchhhh-hHH--HHhhhccCCCEEEeeCCCc-ch
Confidence            45699999999998433      33444  55 9999999999987643221 111  1234789999999998763 22


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCc--c--CCCCCCCCcccEEeccCCCCCcccccc------ccCCcCeEecccccc
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKS--L--PSGIFNLEFLTKLDLSGCSKLKRLPEI------SSGNISWLFLRGIAI  163 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~--~--~~~~~~l~~L~~L~l~~~~~~~~~p~~------~~~~L~~L~l~~~~~  163 (254)
                      ..+.  .+..+++|++|++++|.+.+.  +  +..+..+++|+.|++++|.+.. ++..      ..++|++|++++|.+
T Consensus       160 ~~~~--~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~~l~~L~~L~Ls~N~l  236 (310)
T 4glp_A          160 FSCE--QVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMET-PTGVCAALAAAGVQPHSLDLSHNSL  236 (310)
T ss_dssp             CCTT--SCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCC-HHHHHHHHHHHTCCCSSEECTTSCC
T ss_pred             hhHH--HhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCc-hHHHHHHHHhcCCCCCEEECCCCCC
Confidence            3334  788999999999999986542  2  2223678999999999987642 2321      238999999999999


Q ss_pred             ccc-chhhhhc---cccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCC
Q 042890          164 EEL-PSSIERQ---LRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER  236 (254)
Q Consensus       164 ~~l-~~~~~~~---~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  236 (254)
                      +.. |..+..+   ++|++|++++|.+. .+|..+.  ++|+.|++++|.+.+. |. +..+++|+.|++++|.++.
T Consensus       237 ~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~-~~-~~~l~~L~~L~L~~N~l~~  308 (310)
T 4glp_A          237 RATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDLSSNRLNRA-PQ-PDELPEVDNLTLDGNPFLV  308 (310)
T ss_dssp             CCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEECCSCCCCSC-CC-TTSCCCCSCEECSSTTTSC
T ss_pred             CccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc--CCCCEEECCCCcCCCC-ch-hhhCCCccEEECcCCCCCC
Confidence            976 7666555   69999999999977 6676553  7999999999888653 33 5678999999999999863

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

Probab=99.78  E-value=2.2e-18  Score=139.04  Aligned_cols=170  Identities=19%  Similarity=0.207  Sum_probs=134.6

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|+.|++.+|.++.++.         +..+++|++|+++++.  ...++   .+..+++|+.|++++|.+. .++. +.
T Consensus        46 ~~L~~L~l~~~~i~~~~~---------~~~l~~L~~L~L~~n~--l~~~~---~l~~l~~L~~L~l~~n~l~-~~~~-l~  109 (291)
T 1h6t_A           46 NSIDQIIANNSDIKSVQG---------IQYLPNVTKLFLNGNK--LTDIK---PLANLKNLGWLFLDENKVK-DLSS-LK  109 (291)
T ss_dssp             HTCCEEECTTSCCCCCTT---------GGGCTTCCEEECCSSC--CCCCG---GGTTCTTCCEEECCSSCCC-CGGG-GT
T ss_pred             CcccEEEccCCCcccChh---------HhcCCCCCEEEccCCc--cCCCc---ccccCCCCCEEECCCCcCC-CChh-hc
Confidence            789999999998877753         5678999999999776  34444   4778899999999999854 3444 78


Q ss_pred             CCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEe
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL  205 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l  205 (254)
                      .+++|+.|++++|.+... +... .++|+.|++++|.++.+ ..+..+++|+.|++++|.+.+..+  +..+++|+.|++
T Consensus       110 ~l~~L~~L~L~~n~i~~~-~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~L  185 (291)
T 1h6t_A          110 DLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYL  185 (291)
T ss_dssp             TCTTCCEEECTTSCCCCC-GGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCCEEEC
T ss_pred             cCCCCCEEECCCCcCCCC-hhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCccccchh--hcCCCccCEEEC
Confidence            899999999999876553 3332 47899999999999887 567888999999999998766543  888999999999


Q ss_pred             cCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          206 HGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      ++|.+.+ ++ .+..+++|+.|++++|.+...|
T Consensus       186 ~~N~i~~-l~-~l~~l~~L~~L~l~~n~i~~~~  216 (291)
T 1h6t_A          186 SKNHISD-LR-ALAGLKNLDVLELFSQECLNKP  216 (291)
T ss_dssp             CSSCCCB-CG-GGTTCTTCSEEEEEEEEEECCC
T ss_pred             CCCcCCC-Ch-hhccCCCCCEEECcCCcccCCc
Confidence            9987755 33 3778999999999999876543

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.77  E-value=4.2e-17  Score=143.93  Aligned_cols=215  Identities=24%  Similarity=0.230  Sum_probs=141.5

Q ss_pred             cceeeeCCcccC----CCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCc------------ch
Q 042890            4 VKELRLNPNTFT----KMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSN------------DI   67 (254)
Q Consensus         4 ~~~~~~~~~~~~----~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~------------~l   67 (254)
                      ++.+++....+.    .+++|++|++++|.+.       .++.  ..++|++|++++|.++.+|..            .+
T Consensus        63 L~~L~L~~N~l~~lp~~l~~L~~L~Ls~N~l~-------~lp~--~l~~L~~L~Ls~N~l~~l~~~l~~L~~L~L~~N~l  133 (622)
T 3g06_A           63 ITTLVIPDNNLTSLPALPPELRTLEVSGNQLT-------SLPV--LPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQL  133 (622)
T ss_dssp             CSEEEECSCCCSCCCCCCTTCCEEEECSCCCS-------CCCC--CCTTCCEEEECSCCCCCCCCCCTTCCEEECCSSCC
T ss_pred             CcEEEecCCCCCCCCCcCCCCCEEEcCCCcCC-------cCCC--CCCCCCEEECcCCcCCCCCCCCCCcCEEECCCCCC
Confidence            444444443333    2456777777777662       2222  115666666666665555432            11


Q ss_pred             hhcchhhhcccccceehhhccCCceeecCC-CCccCC--------------cccccEEeccCCcCCCccCCCCCCCCccc
Q 042890           68 EQLWDRVKRYSKLNQIIHAACHKLIAKIPN-PTLMPR--------------MKKLVILNLRGSKSLKSLPSGIFNLEFLT  132 (254)
Q Consensus        68 ~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~-~~~~~~--------------~~~L~~L~l~~~~~~~~~~~~~~~l~~L~  132 (254)
                      ..++.   .+++|++|++++|..  ..++. ...+..              +++|+.|++++|.+. .+|.   .+++|+
T Consensus       134 ~~lp~---~l~~L~~L~Ls~N~l--~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~-~l~~---~~~~L~  204 (622)
T 3g06_A          134 TSLPV---LPPGLQELSVSDNQL--ASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLA-SLPT---LPSELY  204 (622)
T ss_dssp             SCCCC---CCTTCCEEECCSSCC--SCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCS-CCCC---CCTTCC
T ss_pred             CcCCC---CCCCCCEEECcCCcC--CCcCCccCCCCEEECCCCCCCCCcccCCCCcEEECCCCCCC-CCCC---ccchhh
Confidence            11111   136777777776542  22222 002222              277888888888754 3554   247899


Q ss_pred             EEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCc
Q 042890          133 KLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ  212 (254)
Q Consensus       133 ~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~  212 (254)
                      .|++++|.+. .+|... ++|+.|++++|.++.+|   ..+++|+.|++++|.+. .+|.   .+++|+.|++++|.+. 
T Consensus       205 ~L~L~~N~l~-~l~~~~-~~L~~L~Ls~N~L~~lp---~~l~~L~~L~Ls~N~L~-~lp~---~~~~L~~L~Ls~N~L~-  274 (622)
T 3g06_A          205 KLWAYNNRLT-SLPALP-SGLKELIVSGNRLTSLP---VLPSELKELMVSGNRLT-SLPM---LPSGLLSLSVYRNQLT-  274 (622)
T ss_dssp             EEECCSSCCS-SCCCCC-TTCCEEECCSSCCSCCC---CCCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCC-
T ss_pred             EEECcCCccc-ccCCCC-CCCCEEEccCCccCcCC---CCCCcCcEEECCCCCCC-cCCc---ccccCcEEeCCCCCCC-
Confidence            9999997754 555544 89999999999999988   45689999999999866 4554   5788999999998776 


Q ss_pred             ccCccccCCCCCcEEeccCCCCC-CCChhhhhhcc
Q 042890          213 RLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFV  246 (254)
Q Consensus       213 ~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~  246 (254)
                      .+|..+..+++|+.|++++|.+. ..|..+..+++
T Consensus       275 ~lp~~l~~l~~L~~L~L~~N~l~~~~~~~l~~L~~  309 (622)
T 3g06_A          275 RLPESLIHLSSETTVNLEGNPLSERTLQALREITS  309 (622)
T ss_dssp             SCCGGGGGSCTTCEEECCSCCCCHHHHHHHHHHHH
T ss_pred             cCCHHHhhccccCEEEecCCCCCCcCHHHHHhccc
Confidence            67888999999999999999987 44555554443

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.76  E-value=1.4e-20  Score=161.01  Aligned_cols=235  Identities=15%  Similarity=0.043  Sum_probs=123.7

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCC-C-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPG-F-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~-~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      .+|..+++|++|++++|.+++..+  ..+...+. . ++|++|++.+|.++.   ...+.++..+..+++|++|+++++.
T Consensus       107 ~~l~~~~~L~~L~Ls~n~i~~~~~--~~l~~~l~~~~~~L~~L~L~~n~l~~---~~~~~l~~~l~~~~~L~~L~L~~n~  181 (461)
T 1z7x_W          107 STLRTLPTLQELHLSDNLLGDAGL--QLLCEGLLDPQCRLEKLQLEYCSLSA---ASCEPLASVLRAKPDFKELTVSNND  181 (461)
T ss_dssp             HHTTSCTTCCEEECCSSBCHHHHH--HHHHHHHTSTTCCCCEEECTTSCCBG---GGHHHHHHHHHHCTTCCEEECCSSB
T ss_pred             HHHccCCceeEEECCCCcCchHHH--HHHHHHHhcCCCcceEEECCCCCCCH---HHHHHHHHHHhhCCCCCEEECcCCC
Confidence            345677778888887777633221  11111111 1 567778887775432   2333444556666777777777654


Q ss_pred             CceeecCCCCccC-----CcccccEEeccCCcCCCc----cCCCCCCCCcccEEeccCCCCCccc----ccc---ccCCc
Q 042890           90 KLIAKIPNPTLMP-----RMKKLVILNLRGSKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRL----PEI---SSGNI  153 (254)
Q Consensus        90 ~~~~~~~~~~~~~-----~~~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~----p~~---~~~~L  153 (254)
                      .. ...+.  .+.     ..++|++|++++|.+...    ++..+..+++|+.|++++|.+....    ++.   ..++|
T Consensus       182 i~-~~~~~--~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L  258 (461)
T 1z7x_W          182 IN-EAGVR--VLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRL  258 (461)
T ss_dssp             CH-HHHHH--HHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCC
T ss_pred             cc-hHHHH--HHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCc
Confidence            21 11010  111     134666666666654332    3333445566666666665433211    010   12455


Q ss_pred             CeEecccccccc-----cchhhhhccccCEEeccCCcCc-----------------------------cc----CCcccc
Q 042890          154 SWLFLRGIAIEE-----LPSSIERQLRLSWLDLSDCKRL-----------------------------KS----LPSSLY  195 (254)
Q Consensus       154 ~~L~l~~~~~~~-----l~~~~~~~~~L~~L~l~~n~~~-----------------------------~~----~~~~l~  195 (254)
                      +.|++++|.++.     ++..+..+++|++|++++|.+.                             +.    ++..+.
T Consensus       259 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~  338 (461)
T 1z7x_W          259 RTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLA  338 (461)
T ss_dssp             CEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHH
T ss_pred             eEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHh
Confidence            566666555553     4444444555555555555443                             21    223344


Q ss_pred             CCCccCEEEecCCCCCcccCcccc----C-CCCCcEEeccCCCCC-----CCChhhhhhcccCcccccC
Q 042890          196 RLKSLGILDLHGCSNLQRLPECLG----Q-LSSPITCNLAKTNIE-----RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       196 ~l~~L~~L~l~~~~~~~~~~~~~~----~-l~~L~~L~l~~n~l~-----~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+++|+.|++++|.+.+..+..+.    . .+.|+.|++++|.++     .++..+..+++|++|++++
T Consensus       339 ~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~  407 (461)
T 1z7x_W          339 QNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSN  407 (461)
T ss_dssp             HCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCS
T ss_pred             hCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCC
Confidence            456666777766655443222221    1 567777777777776     4566677777777777763

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

Probab=99.76  E-value=1.5e-17  Score=145.13  Aligned_cols=188  Identities=21%  Similarity=0.214  Sum_probs=145.5

Q ss_pred             cceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCC
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNP   98 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~   98 (254)
                      ++++|++++|.++       .+|..+ .++|++|++++|.++.+| .          .+++|++|+++++.  +..+|  
T Consensus        60 ~L~~L~Ls~n~L~-------~lp~~l-~~~L~~L~Ls~N~l~~ip-~----------~l~~L~~L~Ls~N~--l~~ip--  116 (571)
T 3cvr_A           60 QFSELQLNRLNLS-------SLPDNL-PPQITVLEITQNALISLP-E----------LPASLEYLDACDNR--LSTLP--  116 (571)
T ss_dssp             TCSEEECCSSCCS-------CCCSCC-CTTCSEEECCSSCCSCCC-C----------CCTTCCEEECCSSC--CSCCC--
T ss_pred             CccEEEeCCCCCC-------ccCHhH-cCCCCEEECcCCCCcccc-c----------ccCCCCEEEccCCC--CCCcc--
Confidence            8999999999883       244433 278999999999988777 3          36899999999775  34465  


Q ss_pred             CccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCE
Q 042890           99 TLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSW  178 (254)
Q Consensus        99 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~  178 (254)
                       .+..  +|++|++++|.+.+ +|.   .+++|+.|++++|.+.. +|. ..++|+.|++++|.++.+|. +.  ++|+.
T Consensus       117 -~l~~--~L~~L~Ls~N~l~~-lp~---~l~~L~~L~Ls~N~l~~-lp~-~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~  184 (571)
T 3cvr_A          117 -ELPA--SLKHLDVDNNQLTM-LPE---LPALLEYINADNNQLTM-LPE-LPTSLEVLSVRNNQLTFLPE-LP--ESLEA  184 (571)
T ss_dssp             -CCCT--TCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCSC-CCC-CCTTCCEEECCSSCCSCCCC-CC--TTCCE
T ss_pred             -hhhc--CCCEEECCCCcCCC-CCC---cCccccEEeCCCCccCc-CCC-cCCCcCEEECCCCCCCCcch-hh--CCCCE
Confidence             2333  99999999998655 666   67899999999987654 666 44899999999999999888 54  89999


Q ss_pred             EeccCCcCcccCCccccCCCcc-------CEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcc
Q 042890          179 LDLSDCKRLKSLPSSLYRLKSL-------GILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFV  246 (254)
Q Consensus       179 L~l~~n~~~~~~~~~l~~l~~L-------~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~  246 (254)
                      |++++|.+. .+|. +..  +|       +.|++++|.+. .+|..+..+++|+.|++++|.+. .+|..+..++.
T Consensus       185 L~Ls~N~L~-~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~-~lp~~l~~l~~L~~L~L~~N~l~~~~p~~l~~l~~  255 (571)
T 3cvr_A          185 LDVSTNLLE-SLPA-VPV--RNHHSEETEIFFRCRENRIT-HIPENILSLDPTCTIILEDNPLSSRIRESLSQQTA  255 (571)
T ss_dssp             EECCSSCCS-SCCC-CC----------CCEEEECCSSCCC-CCCGGGGGSCTTEEEECCSSSCCHHHHHHHHHHHH
T ss_pred             EECcCCCCC-chhh-HHH--hhhcccccceEEecCCCcce-ecCHHHhcCCCCCEEEeeCCcCCCcCHHHHHHhhc
Confidence            999999876 5665 544  67       99999998775 57777777999999999999997 56776666544

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

Probab=99.76  E-value=2.4e-17  Score=143.96  Aligned_cols=174  Identities=22%  Similarity=0.259  Sum_probs=143.8

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+++.|++++|.++.+|..        +  +++|++|+++++.  +..+|     ..+++|++|++++|.+.+ +|. +.
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~--------l--~~~L~~L~Ls~N~--l~~ip-----~~l~~L~~L~Ls~N~l~~-ip~-l~  119 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDN--------L--PPQITVLEITQNA--LISLP-----ELPASLEYLDACDNRLST-LPE-LP  119 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSC--------C--CTTCSEEECCSSC--CSCCC-----CCCTTCCEEECCSSCCSC-CCC-CC
T ss_pred             CCccEEEeCCCCCCccCHh--------H--cCCCCEEECcCCC--Ccccc-----cccCCCCEEEccCCCCCC-cch-hh
Confidence            4899999999999888864        3  4789999999776  34554     347899999999998665 777 65


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      .  +|+.|++++|.+.+ +|. ..++|+.|++++|.++.+|.   .+++|+.|++++|.+.+ +|. +.  ++|+.|+++
T Consensus       120 ~--~L~~L~Ls~N~l~~-lp~-~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~L~~-lp~-l~--~~L~~L~Ls  188 (571)
T 3cvr_A          120 A--SLKHLDVDNNQLTM-LPE-LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNNQLTF-LPE-LP--ESLEALDVS  188 (571)
T ss_dssp             T--TCCEEECCSSCCSC-CCC-CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSCCSC-CCC-CC--TTCCEEECC
T ss_pred             c--CCCEEECCCCcCCC-CCC-cCccccEEeCCCCccCcCCC---cCCCcCEEECCCCCCCC-cch-hh--CCCCEEECc
Confidence            4  89999999988665 666 55899999999999999887   56899999999999776 666 55  899999999


Q ss_pred             CCCCCcccCccccCCCCC-------cEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          207 GCSNLQRLPECLGQLSSP-------ITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L-------~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      +|.+. .+|. +..  +|       +.|++++|.++.+|..+..+++|+.|++++
T Consensus       189 ~N~L~-~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~  239 (571)
T 3cvr_A          189 TNLLE-SLPA-VPV--RNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILED  239 (571)
T ss_dssp             SSCCS-SCCC-CC----------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCS
T ss_pred             CCCCC-chhh-HHH--hhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeC
Confidence            98776 5666 543  67       999999999999999999999999999874

>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=99.75  E-value=2.6e-17  Score=132.67  Aligned_cols=171  Identities=20%  Similarity=0.218  Sum_probs=136.2

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      +..+++|++|++++|.+       ... +.+.. ++|++|++++|.++.+++         +..+++|++|+++++.  .
T Consensus        42 ~~~l~~L~~L~l~~~~i-------~~~-~~~~~l~~L~~L~L~~n~l~~~~~---------l~~l~~L~~L~l~~n~--l  102 (291)
T 1h6t_A           42 QNELNSIDQIIANNSDI-------KSV-QGIQYLPNVTKLFLNGNKLTDIKP---------LANLKNLGWLFLDENK--V  102 (291)
T ss_dssp             HHHHHTCCEEECTTSCC-------CCC-TTGGGCTTCCEEECCSSCCCCCGG---------GTTCTTCCEEECCSSC--C
T ss_pred             hhhcCcccEEEccCCCc-------ccC-hhHhcCCCCCEEEccCCccCCCcc---------cccCCCCCEEECCCCc--C
Confidence            45678899999999987       222 23555 899999999998877653         5678999999999776  4


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhh
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIE  171 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~  171 (254)
                      ..++   .+..+++|++|++++|.+.. ++ .+..+++|+.|++++|.+... +... .++|+.|++++|.++.++. +.
T Consensus       103 ~~~~---~l~~l~~L~~L~L~~n~i~~-~~-~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~-l~  175 (291)
T 1h6t_A          103 KDLS---SLKDLKKLKSLSLEHNGISD-IN-GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LA  175 (291)
T ss_dssp             CCGG---GGTTCTTCCEEECTTSCCCC-CG-GGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG-GT
T ss_pred             CCCh---hhccCCCCCEEECCCCcCCC-Ch-hhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCccccchh-hc
Confidence            4454   68889999999999998644 43 477899999999999876654 3332 5899999999999998876 88


Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCc
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQ  212 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~  212 (254)
                      .+++|+.|++++|.+.+ ++ .+..+++|+.|++++|.+..
T Consensus       176 ~l~~L~~L~L~~N~i~~-l~-~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          176 GLTKLQNLYLSKNHISD-LR-ALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             TCTTCCEEECCSSCCCB-CG-GGTTCTTCSEEEEEEEEEEC
T ss_pred             CCCccCEEECCCCcCCC-Ch-hhccCCCCCEEECcCCcccC
Confidence            88999999999998765 33 48889999999999987654

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.75  E-value=3.1e-19  Score=149.54  Aligned_cols=218  Identities=12%  Similarity=0.072  Sum_probs=161.4

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCC-------CCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceeh
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQD-------PGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQII   84 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~-------l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~   84 (254)
                      .|..+++|++|++++|.+...   ....|..       +.. ++|++|++++|.++.   .+...++..+..+++|++|+
T Consensus        55 ~l~~~~~L~~L~Ls~~~~~~l---~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~---~~~~~l~~~l~~~~~L~~L~  128 (386)
T 2ca6_A           55 NIASKKDLEIAEFSDIFTGRV---KDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP---TAQEPLIDFLSKHTPLEHLY  128 (386)
T ss_dssp             TTTTCTTCCEEECCSCCTTSC---GGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT---TTHHHHHHHHHHCTTCCEEE
T ss_pred             HHHhCCCccEEeCcccccCcc---ccchhHHHHHHHHHHhhCCcccEEECCCCcCCH---HHHHHHHHHHHhCCCCCEEE
Confidence            366899999999999765211   0112222       245 999999999997653   34455666788999999999


Q ss_pred             hhccCCce---eecCCCCccCCc---------ccccEEeccCCcCC-CccC---CCCCCCCcccEEeccCCCCCcc----
Q 042890           85 HAACHKLI---AKIPNPTLMPRM---------KKLVILNLRGSKSL-KSLP---SGIFNLEFLTKLDLSGCSKLKR----  144 (254)
Q Consensus        85 l~~~~~~~---~~~~~~~~~~~~---------~~L~~L~l~~~~~~-~~~~---~~~~~l~~L~~L~l~~~~~~~~----  144 (254)
                      +++|....   ..++.  .+..+         ++|++|++++|.+. ..++   ..+..+++|+.|++++|.+...    
T Consensus       129 L~~n~l~~~~~~~l~~--~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~  206 (386)
T 2ca6_A          129 LHNNGLGPQAGAKIAR--ALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEH  206 (386)
T ss_dssp             CCSSCCHHHHHHHHHH--HHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHH
T ss_pred             CcCCCCCHHHHHHHHH--HHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHH
Confidence            99876421   11222  23333         89999999999865 3334   3466788999999999876632    


Q ss_pred             -cc-cc-ccCCcCeEecccccc-----cccchhhhhccccCEEeccCCcCccc----CCcccc--CCCccCEEEecCCCC
Q 042890          145 -LP-EI-SSGNISWLFLRGIAI-----EELPSSIERQLRLSWLDLSDCKRLKS----LPSSLY--RLKSLGILDLHGCSN  210 (254)
Q Consensus       145 -~p-~~-~~~~L~~L~l~~~~~-----~~l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~--~l~~L~~L~l~~~~~  210 (254)
                       .+ .. ..++|+.|++++|.+     ..+|..+..+++|+.|++++|.+.+.    ++..+.  .+++|+.|++++|.+
T Consensus       207 l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i  286 (386)
T 2ca6_A          207 LLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEI  286 (386)
T ss_dssp             HHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCC
T ss_pred             HHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcC
Confidence             22 12 247899999999998     45788888999999999999998764    455563  489999999999988


Q ss_pred             Cc----ccCccc-cCCCCCcEEeccCCCCCCCC
Q 042890          211 LQ----RLPECL-GQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       211 ~~----~~~~~~-~~l~~L~~L~l~~n~l~~l~  238 (254)
                      ..    .++..+ .++++|+.|++++|.+....
T Consensus       287 ~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~~  319 (386)
T 2ca6_A          287 ELDAVRTLKTVIDEKMPDLLFLELNGNRFSEED  319 (386)
T ss_dssp             BHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTS
T ss_pred             CHHHHHHHHHHHHhcCCCceEEEccCCcCCcch
Confidence            77    477766 56899999999999998544

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.75  E-value=4.1e-17  Score=144.52  Aligned_cols=198  Identities=17%  Similarity=0.145  Sum_probs=91.2

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccC-CCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLP-SGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~  125 (254)
                      ++|+++++++|.+.....     .+.....+.+|+.+++..+.  ....+.  .+..+++|+.+++.++......+ ..+
T Consensus       371 ~~L~~L~ls~n~l~~~~~-----~~~~~~~~~~L~~L~~~~~~--~~~~~~--~~~~l~~L~~l~l~~~~~~~~~~~~~~  441 (635)
T 4g8a_A          371 PSLEFLDLSRNGLSFKGC-----CSQSDFGTISLKYLDLSFNG--VITMSS--NFLGLEQLEHLDFQHSNLKQMSEFSVF  441 (635)
T ss_dssp             TTCCEEECCSSCCBEEEE-----CCHHHHSCSCCCEEECCSCS--EEEECS--CCTTCTTCCEEECTTSEEESTTSSCTT
T ss_pred             cccccchhhccccccccc-----cccchhhhhhhhhhhccccc--cccccc--cccccccccchhhhhcccccccccccc
Confidence            667777777665432111     11123344455555554333  222332  44455555555555544322221 223


Q ss_pred             CCCCcccEEeccCCCCCccccccc--cCCcCeEeccccccc--ccchhhhhccccCEEeccCCcCcccCCccccCCCccC
Q 042890          126 FNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIE--ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLG  201 (254)
Q Consensus       126 ~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~--~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~  201 (254)
                      ..+++++.++++.|......+...  ...++.+++++|.+.  ..|..+..+++|+.|++++|.+.+..|..++++++|+
T Consensus       442 ~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~  521 (635)
T 4g8a_A          442 LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ  521 (635)
T ss_dssp             TTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCC
T ss_pred             ccccccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCC
Confidence            344555555555544333322221  244555555555422  1333444455555555555555444444455555555


Q ss_pred             EEEecCCCCCcccCccccCCCCCcEEeccCCCCCCC-Chhhhhh-cccCccccc
Q 042890          202 ILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERI-PESIIQL-FVSGYLLLS  253 (254)
Q Consensus       202 ~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l-~~~~~~~-~~L~~L~ls  253 (254)
                      .|++++|++.+..+..+..+++|+.|++++|.+..+ |..+..+ ++|++|+++
T Consensus       522 ~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~  575 (635)
T 4g8a_A          522 VLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT  575 (635)
T ss_dssp             EEECTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECT
T ss_pred             EEECCCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEee
Confidence            555555554444444455555555555555555433 3334443 345555544

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

Probab=99.75  E-value=1.3e-17  Score=146.81  Aligned_cols=170  Identities=18%  Similarity=0.202  Sum_probs=140.4

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|+.|++.+|.+..++.         +..+++|+.|+++++.  ...++   .+..+++|+.|++++|.+. .++ .+.
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~  106 (605)
T 1m9s_A           43 NSIDQIIANNSDIKSVQG---------IQYLPNVTKLFLNGNK--LTDIK---PLTNLKNLGWLFLDENKIK-DLS-SLK  106 (605)
T ss_dssp             TTCCCCBCTTCCCCCCTT---------GGGCTTCCEEECTTSC--CCCCG---GGGGCTTCCEEECCSSCCC-CCT-TST
T ss_pred             CCCCEEECcCCCCCCChH---------HccCCCCCEEEeeCCC--CCCCh---hhccCCCCCEEECcCCCCC-CCh-hhc
Confidence            889999999999887763         6789999999999776  44554   4788999999999999854 344 588


Q ss_pred             CCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEe
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL  205 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l  205 (254)
                      .+++|+.|++++|.+.. ++... +++|+.|++++|.++.+ ..+..+++|+.|++++|.+.+..+  +..+++|+.|++
T Consensus       107 ~l~~L~~L~Ls~N~l~~-l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~L  182 (605)
T 1m9s_A          107 DLKKLKSLSLEHNGISD-INGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYL  182 (605)
T ss_dssp             TCTTCCEEECTTSCCCC-CGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCCEEEC
T ss_pred             cCCCCCEEEecCCCCCC-CccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCcCCCchh--hccCCCCCEEEC
Confidence            99999999999988665 34332 58999999999999988 567889999999999999777655  889999999999


Q ss_pred             cCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          206 HGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      ++|.+.+.  ..+..+++|+.|++++|.+...|
T Consensus       183 s~N~i~~l--~~l~~l~~L~~L~L~~N~l~~~p  213 (605)
T 1m9s_A          183 SKNHISDL--RALAGLKNLDVLELFSQECLNKP  213 (605)
T ss_dssp             CSSCCCBC--GGGTTCTTCSEEECCSEEEECCC
T ss_pred             cCCCCCCC--hHHccCCCCCEEEccCCcCcCCc
Confidence            99877653  35788999999999999986543

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.74  E-value=1.2e-17  Score=147.93  Aligned_cols=207  Identities=19%  Similarity=0.220  Sum_probs=159.9

Q ss_pred             CCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCcee
Q 042890           15 TKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        15 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      ..+++|++|++++|.+....    ..+..... .+|+++++..+....++..        +..+++|+.+++..+...  
T Consensus       368 ~~l~~L~~L~ls~n~l~~~~----~~~~~~~~~~~L~~L~~~~~~~~~~~~~--------~~~l~~L~~l~l~~~~~~--  433 (635)
T 4g8a_A          368 VDLPSLEFLDLSRNGLSFKG----CCSQSDFGTISLKYLDLSFNGVITMSSN--------FLGLEQLEHLDFQHSNLK--  433 (635)
T ss_dssp             CBCTTCCEEECCSSCCBEEE----ECCHHHHSCSCCCEEECCSCSEEEECSC--------CTTCTTCCEEECTTSEEE--
T ss_pred             ccccccccchhhcccccccc----ccccchhhhhhhhhhhcccccccccccc--------ccccccccchhhhhcccc--
Confidence            35677888888877762221    11111223 7899999998875555443        667889999998865532  


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccc-cccc--cCCcCeEeccccccccc-chh
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL-PEIS--SGNISWLFLRGIAIEEL-PSS  169 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~-p~~~--~~~L~~L~l~~~~~~~l-~~~  169 (254)
                      .......+..++.++.+++++|.+....+..+..+++++.|++++|...... |...  .++|+.|++++|.++.+ |..
T Consensus       434 ~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~  513 (635)
T 4g8a_A          434 QMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTA  513 (635)
T ss_dssp             STTSSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTT
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHH
Confidence            2221226788999999999999877777777888999999999998755543 3322  47899999999999976 456


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCC-CCCcEEeccCCCCC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQL-SSPITCNLAKTNIE  235 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l-~~L~~L~l~~n~l~  235 (254)
                      +.++++|+.|++++|++.+..+..+.++++|+.|++++|++.+..|..+..+ ++|+.|++++|++.
T Consensus       514 f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~~L~~L~L~~Np~~  580 (635)
T 4g8a_A          514 FNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA  580 (635)
T ss_dssp             TTTCTTCCEEECTTSCCCBCCCGGGTTCTTCCEEECTTSCCCBCCSSCTTCCCTTCCEEECTTCCBC
T ss_pred             HcCCCCCCEEECCCCcCCCCChhHHhCCCCCCEEECCCCcCCCCCHHHHHhhhCcCCEEEeeCCCCc
Confidence            8899999999999999888778889999999999999999998889988887 68999999999863

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.73  E-value=6.2e-20  Score=157.05  Aligned_cols=168  Identities=15%  Similarity=0.055  Sum_probs=82.8

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC--CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF--AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~--~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      |..+++|++|++++|.+++..+  ..+...+..  .+|++|++++|.++   +.+.+.++..+..+++|++|+++++.-.
T Consensus        52 l~~~~~L~~L~Ls~n~l~~~~~--~~l~~~l~~~~~~L~~L~L~~n~i~---~~~~~~l~~~l~~~~~L~~L~Ls~n~i~  126 (461)
T 1z7x_W           52 LRVNPALAELNLRSNELGDVGV--HCVLQGLQTPSCKIQKLSLQNCCLT---GAGCGVLSSTLRTLPTLQELHLSDNLLG  126 (461)
T ss_dssp             HHTCTTCCEEECTTCCCHHHHH--HHHHHTTCSTTCCCCEEECTTSCCB---GGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             HHhCCCcCEEeCCCCcCChHHH--HHHHHHHhhCCCceeEEEccCCCCC---HHHHHHHHHHHccCCceeEEECCCCcCc
Confidence            4445666666666666532211  112222332  25777777777543   2233344455666777777777755421


Q ss_pred             ee---ecCCCCccCCcccccEEeccCCcCCCc----cCCCCCCCCcccEEeccCCCCCccccccc-------cCCcCeEe
Q 042890           92 IA---KIPNPTLMPRMKKLVILNLRGSKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRLPEIS-------SGNISWLF  157 (254)
Q Consensus        92 ~~---~~~~~~~~~~~~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-------~~~L~~L~  157 (254)
                      ..   .+.. ......++|++|++++|.+...    ++..+..+++|+.|++++|.+....+...       .++|+.|+
T Consensus       127 ~~~~~~l~~-~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~  205 (461)
T 1z7x_W          127 DAGLQLLCE-GLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALK  205 (461)
T ss_dssp             HHHHHHHHH-HHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEE
T ss_pred             hHHHHHHHH-HHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEE
Confidence            00   0110 0011234566666666654432    23334445666666666665433211110       13566666


Q ss_pred             cccccccc-----cchhhhhccccCEEeccCCcCc
Q 042890          158 LRGIAIEE-----LPSSIERQLRLSWLDLSDCKRL  187 (254)
Q Consensus       158 l~~~~~~~-----l~~~~~~~~~L~~L~l~~n~~~  187 (254)
                      +++|.++.     ++..+..+++|++|++++|.+.
T Consensus       206 L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~  240 (461)
T 1z7x_W          206 LESCGVTSDNCRDLCGIVASKASLRELALGSNKLG  240 (461)
T ss_dssp             CTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCH
T ss_pred             ccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCC
Confidence            66665553     3444555556666666665543

>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=99.73  E-value=5.5e-17  Score=142.93  Aligned_cols=172  Identities=19%  Similarity=0.201  Sum_probs=139.3

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCce
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLI   92 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~   92 (254)
                      +..+++|+.|++++|.+       ..++ .+.. ++|+.|+|++|.+..+++         +..+++|+.|+++++.  +
T Consensus        39 ~~~L~~L~~L~l~~n~i-------~~l~-~l~~l~~L~~L~Ls~N~l~~~~~---------l~~l~~L~~L~Ls~N~--l   99 (605)
T 1m9s_A           39 QNELNSIDQIIANNSDI-------KSVQ-GIQYLPNVTKLFLNGNKLTDIKP---------LTNLKNLGWLFLDENK--I   99 (605)
T ss_dssp             HHHHTTCCCCBCTTCCC-------CCCT-TGGGCTTCCEEECTTSCCCCCGG---------GGGCTTCCEEECCSSC--C
T ss_pred             hhcCCCCCEEECcCCCC-------CCCh-HHccCCCCCEEEeeCCCCCCChh---------hccCCCCCEEECcCCC--C
Confidence            45688999999999987       2222 4556 999999999998887764         5789999999999776  4


Q ss_pred             eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc-ccCCcCeEecccccccccchhhh
Q 042890           93 AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI-SSGNISWLFLRGIAIEELPSSIE  171 (254)
Q Consensus        93 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~-~~~~L~~L~l~~~~~~~l~~~~~  171 (254)
                      ..++   .+..+++|+.|++++|.+.. ++ .+..+++|+.|++++|.+... +.. .+++|+.|++++|.++.+++ +.
T Consensus       100 ~~l~---~l~~l~~L~~L~Ls~N~l~~-l~-~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~-l~  172 (605)
T 1m9s_A          100 KDLS---SLKDLKKLKSLSLEHNGISD-IN-GLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-LA  172 (605)
T ss_dssp             CCCT---TSTTCTTCCEEECTTSCCCC-CG-GGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCCGG-GT
T ss_pred             CCCh---hhccCCCCCEEEecCCCCCC-Cc-cccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCcCCCchh-hc
Confidence            4444   78889999999999998654 44 488899999999999876654 333 25899999999999998776 88


Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcc
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQR  213 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  213 (254)
                      .+++|+.|++++|.+.+.  +.+..+++|+.|++++|.+...
T Consensus       173 ~l~~L~~L~Ls~N~i~~l--~~l~~l~~L~~L~L~~N~l~~~  212 (605)
T 1m9s_A          173 GLTKLQNLYLSKNHISDL--RALAGLKNLDVLELFSQECLNK  212 (605)
T ss_dssp             TCTTCCEEECCSSCCCBC--GGGTTCTTCSEEECCSEEEECC
T ss_pred             cCCCCCEEECcCCCCCCC--hHHccCCCCCEEEccCCcCcCC
Confidence            899999999999987663  3588999999999999876543

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.73  E-value=1.5e-17  Score=126.57  Aligned_cols=146  Identities=17%  Similarity=0.179  Sum_probs=68.3

Q ss_pred             CcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccccc-cchhhhhccccCEEe
Q 042890          103 RMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEE-LPSSIERQLRLSWLD  180 (254)
Q Consensus       103 ~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~-l~~~~~~~~~L~~L~  180 (254)
                      .+++|+.|++++|.+. .++ .+..+++|+.|++++|.. ...+... .++|++|++++|.++. .+..+..+++|+.|+
T Consensus        42 ~l~~L~~L~l~~n~i~-~l~-~l~~l~~L~~L~l~~n~~-~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           42 QMNSLTYITLANINVT-DLT-GIEYAHNIKDLTINNIHA-TNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHHTCCEEEEESSCCS-CCT-TGGGCTTCSEEEEESCCC-SCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEE
T ss_pred             hcCCccEEeccCCCcc-ChH-HHhcCCCCCEEEccCCCC-CcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEE
Confidence            3444555555554422 333 244444555555554422 1111111 2445555555555442 333444555555555


Q ss_pred             ccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCccccc
Q 042890          181 LSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       181 l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls  253 (254)
                      +++|.+.+..+..+..+++|+.|++++|...+.++ .+..+++|+.|++++|.+..++ .+..+++|++|+++
T Consensus       119 Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~  189 (197)
T 4ezg_A          119 ISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAF  189 (197)
T ss_dssp             CCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEEC
T ss_pred             ecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEee
Confidence            55555544444445555555555555554223233 3444555555555555555444 34555555555544

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.72  E-value=1.3e-19  Score=150.58  Aligned_cols=235  Identities=14%  Similarity=0.021  Sum_probs=129.6

Q ss_pred             cCCCCcceEEEeeccccCCCccCcccccCCCCC-C-ceeeeeeCCCCCCCCCCcchhhcchhhhcc-cccceehhhccCC
Q 042890           14 FTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-A-EVKYLHWHGYPLKSLPSNDIEQLWDRVKRY-SKLNQIIHAACHK   90 (254)
Q Consensus        14 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~-~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~-~~L~~l~l~~~~~   90 (254)
                      +...++|++|++++|.+++...  ..+...+.. + +|++|++++|.++....   ..+...+... ++|++|+++++.-
T Consensus        18 ~~~~~~L~~L~Ls~n~l~~~~~--~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~---~~l~~~l~~~~~~L~~L~Ls~n~l   92 (362)
T 3goz_A           18 TSIPHGVTSLDLSLNNLYSIST--VELIQAFANTPASVTSLNLSGNSLGFKNS---DELVQILAAIPANVTSLNLSGNFL   92 (362)
T ss_dssp             HTSCTTCCEEECTTSCGGGSCH--HHHHHHHHTCCTTCCEEECCSSCGGGSCH---HHHHHHHHTSCTTCCEEECCSSCG
T ss_pred             HhCCCCceEEEccCCCCChHHH--HHHHHHHHhCCCceeEEECcCCCCCHHHH---HHHHHHHhccCCCccEEECcCCcC
Confidence            3444558888888888743321  111133333 4 78888888886654432   2222223333 7788888876652


Q ss_pred             ceeecCC--CCccCCc-ccccEEeccCCcCCCccCCC----CCC-CCcccEEeccCCCCCcccc----ccc--c-CCcCe
Q 042890           91 LIAKIPN--PTLMPRM-KKLVILNLRGSKSLKSLPSG----IFN-LEFLTKLDLSGCSKLKRLP----EIS--S-GNISW  155 (254)
Q Consensus        91 ~~~~~~~--~~~~~~~-~~L~~L~l~~~~~~~~~~~~----~~~-l~~L~~L~l~~~~~~~~~p----~~~--~-~~L~~  155 (254)
                      . ...+.  ...+..+ ++|++|++++|.+....+..    +.. .++|+.|++++|.+....+    ...  . .+|+.
T Consensus        93 ~-~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~  171 (362)
T 3goz_A           93 S-YKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNS  171 (362)
T ss_dssp             G-GSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCE
T ss_pred             C-hHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccE
Confidence            1 11111  0013333 67888888887754332222    223 2477788888776553221    111  1 37777


Q ss_pred             Eecccccccccch-----hhhhc-cccCEEeccCCcCccc----CCccccC-CCccCEEEecCCCCCcccC----ccccC
Q 042890          156 LFLRGIAIEELPS-----SIERQ-LRLSWLDLSDCKRLKS----LPSSLYR-LKSLGILDLHGCSNLQRLP----ECLGQ  220 (254)
Q Consensus       156 L~l~~~~~~~l~~-----~~~~~-~~L~~L~l~~n~~~~~----~~~~l~~-l~~L~~L~l~~~~~~~~~~----~~~~~  220 (254)
                      |++++|.++....     .+... ++|+.|++++|.+.+.    ++..+.. .++|+.|++++|.+.+..+    ..+..
T Consensus       172 L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~  251 (362)
T 3goz_A          172 LNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDS  251 (362)
T ss_dssp             EECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTT
T ss_pred             eeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhc
Confidence            7887777764332     23334 4777888877776552    3334444 3477777877776654322    23455


Q ss_pred             CCCCcEEeccCCCCCCC--------ChhhhhhcccCcccccC
Q 042890          221 LSSPITCNLAKTNIERI--------PESIIQLFVSGYLLLSY  254 (254)
Q Consensus       221 l~~L~~L~l~~n~l~~l--------~~~~~~~~~L~~L~ls~  254 (254)
                      +++|+.|++++|.+..+        +..+..+++|++|++++
T Consensus       252 l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~  293 (362)
T 3goz_A          252 LKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNG  293 (362)
T ss_dssp             TTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTS
T ss_pred             CCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCC
Confidence            67777777777774322        22344566666666653

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

Probab=99.72  E-value=3.5e-17  Score=130.07  Aligned_cols=147  Identities=22%  Similarity=0.207  Sum_probs=65.3

Q ss_pred             hcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcC
Q 042890           75 KRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNIS  154 (254)
Q Consensus        75 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~  154 (254)
                      ..+++|+.|+++++.  ...++   .+..+++|+.|++++|.+. .++. +..+++|+.|++++|.+.. +|.....+|+
T Consensus        38 ~~l~~L~~L~l~~n~--i~~l~---~l~~l~~L~~L~L~~N~i~-~~~~-l~~l~~L~~L~L~~N~l~~-l~~~~~~~L~  109 (263)
T 1xeu_A           38 KELSGVQNFNGDNSN--IQSLA---GMQFFTNLKELHLSHNQIS-DLSP-LKDLTKLEELSVNRNRLKN-LNGIPSACLS  109 (263)
T ss_dssp             HHHTTCSEEECTTSC--CCCCT---TGGGCTTCCEEECCSSCCC-CCGG-GTTCSSCCEEECCSSCCSC-CTTCCCSSCC
T ss_pred             hhcCcCcEEECcCCC--cccch---HHhhCCCCCEEECCCCccC-CChh-hccCCCCCEEECCCCccCC-cCccccCccc
Confidence            344444444444432  22222   3444445555555554432 2222 4444555555555544322 2222124455


Q ss_pred             eEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCC
Q 042890          155 WLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       155 ~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      .|++++|.++.++ .+..+++|+.|++++|.+.+. + .+..+++|+.|++++|.+.+.  ..+..+++|+.|++++|.+
T Consensus       110 ~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~i~~~-~-~l~~l~~L~~L~L~~N~i~~~--~~l~~l~~L~~L~l~~N~~  184 (263)
T 1xeu_A          110 RLFLDNNELRDTD-SLIHLKNLEILSIRNNKLKSI-V-MLGFLSKLEVLDLHGNEITNT--GGLTRLKKVNWIDLTGQKC  184 (263)
T ss_dssp             EEECCSSCCSBSG-GGTTCTTCCEEECTTSCCCBC-G-GGGGCTTCCEEECTTSCCCBC--TTSTTCCCCCEEEEEEEEE
T ss_pred             EEEccCCccCCCh-hhcCcccccEEECCCCcCCCC-h-HHccCCCCCEEECCCCcCcch--HHhccCCCCCEEeCCCCcc
Confidence            5555555554443 244445555555555544332 1 344455555555555444333  3344455555555555544

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

Probab=99.71  E-value=7.3e-17  Score=123.68  Aligned_cols=158  Identities=18%  Similarity=0.203  Sum_probs=87.9

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|++|++++|.++.++..       .+..+++|++|+++++.  ...++. ..|..+++|++|++++|.+....+..+.
T Consensus        28 ~~l~~L~l~~n~l~~~~~~-------~~~~l~~L~~L~l~~n~--l~~~~~-~~~~~l~~L~~L~Ls~n~l~~~~~~~~~   97 (208)
T 2o6s_A           28 AQTTYLDLETNSLKSLPNG-------VFDELTSLTQLYLGGNK--LQSLPN-GVFNKLTSLTYLNLSTNQLQSLPNGVFD   97 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTT-------TTTTCTTCSEEECCSSC--CCCCCT-TTTTTCTTCCEEECCSSCCCCCCTTTTT
T ss_pred             CCCcEEEcCCCccCcCChh-------hhcccccCcEEECCCCc--cCccCh-hhcCCCCCcCEEECCCCcCCccCHhHhc
Confidence            5677777777776666543       24556677777777554  334332 1456667777777777765443344455


Q ss_pred             CCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGIL  203 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L  203 (254)
                      .+++|+.|++++|.+....+..  ..++|+.|++++|.++.++.. +..+++|+.|++++|.+.       +.++.|+.+
T Consensus        98 ~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~-------~~~~~l~~L  170 (208)
T 2o6s_A           98 KLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD-------CTCPGIRYL  170 (208)
T ss_dssp             TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC-------CCTTTTHHH
T ss_pred             CccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCee-------cCCCCHHHH
Confidence            6667777777666544332221  124556666666665555443 445556666666655432       223445555


Q ss_pred             EecCCCCCcccCccccCC
Q 042890          204 DLHGCSNLQRLPECLGQL  221 (254)
Q Consensus       204 ~l~~~~~~~~~~~~~~~l  221 (254)
                      +++.|.+.+.+|..++.+
T Consensus       171 ~~~~n~~~g~ip~~~~~l  188 (208)
T 2o6s_A          171 SEWINKHSGVVRNSAGSV  188 (208)
T ss_dssp             HHHHHHCTTTBBCTTSSB
T ss_pred             HHHHHhCCceeeccCccc
Confidence            555555555555554433

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.70  E-value=1.4e-16  Score=121.18  Aligned_cols=150  Identities=14%  Similarity=0.161  Sum_probs=83.4

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ++|++|++++|.++.++.         +..+++|++|+++++.  ...++   .+..+++|++|++++|.+....+..+.
T Consensus        44 ~~L~~L~l~~n~i~~l~~---------l~~l~~L~~L~l~~n~--~~~~~---~l~~l~~L~~L~l~~n~l~~~~~~~l~  109 (197)
T 4ezg_A           44 NSLTYITLANINVTDLTG---------IEYAHNIKDLTINNIH--ATNYN---PISGLSNLERLRIMGKDVTSDKIPNLS  109 (197)
T ss_dssp             HTCCEEEEESSCCSCCTT---------GGGCTTCSEEEEESCC--CSCCG---GGTTCTTCCEEEEECTTCBGGGSCCCT
T ss_pred             CCccEEeccCCCccChHH---------HhcCCCCCEEEccCCC--CCcch---hhhcCCCCCEEEeECCccCcccChhhc
Confidence            445555555555444431         3444555555555442  12221   344455555555555544333344444


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccc-cchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEe
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEE-LPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL  205 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~-l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l  205 (254)
                      .+++|+.|+                      +++|.++. .|..+..+++|+.|++++|.....++ .+..+++|+.|++
T Consensus       110 ~l~~L~~L~----------------------Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l  166 (197)
T 4ezg_A          110 GLTSLTLLD----------------------ISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNI  166 (197)
T ss_dssp             TCTTCCEEE----------------------CCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEEC
T ss_pred             CCCCCCEEE----------------------ecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEEC
Confidence            444444444                      44454442 45556677788888888877444454 4777788888888


Q ss_pred             cCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          206 HGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      ++|.+.+ ++ .+..+++|+.|++++|.+.
T Consensus       167 ~~n~i~~-~~-~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          167 QFDGVHD-YR-GIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             TTBCCCC-CT-TGGGCSSCCEEEECBC---
T ss_pred             CCCCCcC-hH-HhccCCCCCEEEeeCcccC
Confidence            8876654 33 4667788888888887764

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.70  E-value=3.9e-16  Score=120.72  Aligned_cols=147  Identities=21%  Similarity=0.243  Sum_probs=83.8

Q ss_pred             eeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCC
Q 042890           50 KYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLE  129 (254)
Q Consensus        50 ~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~  129 (254)
                      +.+++.++.++.+|..        +  .++++.|+++++.  +..++. ..|..+++|+.|++++|.+....|..+.+++
T Consensus        14 ~~v~c~~~~l~~iP~~--------l--~~~l~~L~l~~n~--i~~i~~-~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~   80 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTN--------L--PETITEIRLEQNT--IKVIPP-GAFSPYKKLRRIDLSNNQISELAPDAFQGLR   80 (220)
T ss_dssp             TEEECTTSCCSSCCSS--------C--CTTCCEEECCSSC--CCEECT-TSSTTCTTCCEEECCSSCCCEECTTTTTTCS
T ss_pred             CEEEcCCCCcCcCCCc--------c--CcCCCEEECCCCc--CCCcCH-hHhhCCCCCCEEECCCCcCCCcCHHHhhCCc
Confidence            5677777777777653        2  2567777777654  334431 2566777777777777776555566677777


Q ss_pred             cccEEeccCCCCCccccccc---cCCcCeEecccccccccc-hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEe
Q 042890          130 FLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELP-SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDL  205 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~-~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l  205 (254)
                      +|+.|++++|.+. .+|...   ..+|+.|++++|.++.++ ..+..+++|+.|++++|.+.+..+..+..+++|+.+++
T Consensus        81 ~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B           81 SLNSLVLYGNKIT-ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             SCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCC-ccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEe
Confidence            7777777776544 233221   245555555555555442 23444555555555555544444444445555555555


Q ss_pred             cCCCC
Q 042890          206 HGCSN  210 (254)
Q Consensus       206 ~~~~~  210 (254)
                      ++|.+
T Consensus       160 ~~N~~  164 (220)
T 2v9t_B          160 AQNPF  164 (220)
T ss_dssp             CSSCE
T ss_pred             CCCCc
Confidence            55443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.69  E-value=1.8e-18  Score=143.77  Aligned_cols=220  Identities=15%  Similarity=0.033  Sum_probs=154.9

Q ss_pred             EEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhccc-ccceehhhccCCceeecCCCC
Q 042890           22 FLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYS-KLNQIIHAACHKLIAKIPNPT   99 (254)
Q Consensus        22 ~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~-~L~~l~l~~~~~~~~~~~~~~   99 (254)
                      +++++.+.+.+      ..+..+.. ++|++|++++|.++..+.   +.+..++..++ +|++|+++++.-. ...+.  
T Consensus         2 ~~~ls~n~~~~------~~~~~~~~~~~L~~L~Ls~n~l~~~~~---~~l~~~l~~~~~~L~~L~Ls~N~l~-~~~~~--   69 (362)
T 3goz_A            2 NYKLTLHPGSN------PVEEFTSIPHGVTSLDLSLNNLYSIST---VELIQAFANTPASVTSLNLSGNSLG-FKNSD--   69 (362)
T ss_dssp             EEECCCCTTCC------HHHHHHTSCTTCCEEECTTSCGGGSCH---HHHHHHHHTCCTTCCEEECCSSCGG-GSCHH--
T ss_pred             ccccccccchH------HHHHHHhCCCCceEEEccCCCCChHHH---HHHHHHHHhCCCceeEEECcCCCCC-HHHHH--
Confidence            45677777632      23333445 669999999998766553   33445577888 8999999987532 22122  


Q ss_pred             ccCCc-----ccccEEeccCCcCCCccCCC----CCCC-CcccEEeccCCCCCccccccc-------cCCcCeEeccccc
Q 042890          100 LMPRM-----KKLVILNLRGSKSLKSLPSG----IFNL-EFLTKLDLSGCSKLKRLPEIS-------SGNISWLFLRGIA  162 (254)
Q Consensus       100 ~~~~~-----~~L~~L~l~~~~~~~~~~~~----~~~l-~~L~~L~l~~~~~~~~~p~~~-------~~~L~~L~l~~~~  162 (254)
                      .+..+     ++|++|++++|.+....+..    +..+ ++|+.|++++|.+....+...       ..+|++|++++|.
T Consensus        70 ~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~  149 (362)
T 3goz_A           70 ELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGND  149 (362)
T ss_dssp             HHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSC
T ss_pred             HHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCc
Confidence            34443     89999999999865444432    3344 799999999988655433211       1589999999999


Q ss_pred             cc-----ccchhhhhcc-ccCEEeccCCcCcccCCc----cccCC-CccCEEEecCCCCCcc----cCccccC-CCCCcE
Q 042890          163 IE-----ELPSSIERQL-RLSWLDLSDCKRLKSLPS----SLYRL-KSLGILDLHGCSNLQR----LPECLGQ-LSSPIT  226 (254)
Q Consensus       163 ~~-----~l~~~~~~~~-~L~~L~l~~n~~~~~~~~----~l~~l-~~L~~L~l~~~~~~~~----~~~~~~~-l~~L~~  226 (254)
                      ++     .++..+...+ +|++|++++|.+.+..+.    .+..+ ++|+.|++++|.+.+.    ++..+.. .++|+.
T Consensus       150 l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~  229 (362)
T 3goz_A          150 LGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVS  229 (362)
T ss_dssp             GGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCE
T ss_pred             CCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceE
Confidence            88     4455556665 999999999998765543    34455 5999999999987653    4445554 469999


Q ss_pred             EeccCCCCCCCCh-----hhhhhcccCccccc
Q 042890          227 CNLAKTNIERIPE-----SIIQLFVSGYLLLS  253 (254)
Q Consensus       227 L~l~~n~l~~l~~-----~~~~~~~L~~L~ls  253 (254)
                      |++++|.+...+.     .+..+++|++|+++
T Consensus       230 L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~  261 (362)
T 3goz_A          230 LNLCLNCLHGPSLENLKLLKDSLKHLQTVYLD  261 (362)
T ss_dssp             EECCSSCCCCCCHHHHHHTTTTTTTCSEEEEE
T ss_pred             EECcCCCCCcHHHHHHHHHHhcCCCccEEEec
Confidence            9999999975532     34567889999876

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.69  E-value=2e-16  Score=130.87  Aligned_cols=213  Identities=18%  Similarity=0.139  Sum_probs=152.0

Q ss_pred             eEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCc
Q 042890           21 RFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTL  100 (254)
Q Consensus        21 ~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~  100 (254)
                      ++++.+++.+       ..+|..+ .+++++|+|++|.++.+|..       ++..+++|++|+++++... ..++. ..
T Consensus        12 ~~v~C~~~~L-------t~iP~~l-~~~l~~L~Ls~N~i~~i~~~-------~f~~l~~L~~L~Ls~N~i~-~~i~~-~~   74 (350)
T 4ay9_X           12 RVFLCQESKV-------TEIPSDL-PRNAIELRFVLTKLRVIQKG-------AFSGFGDLEKIEISQNDVL-EVIEA-DV   74 (350)
T ss_dssp             TEEEEESTTC-------CSCCTTC-CTTCSEEEEESCCCSEECTT-------SSTTCTTCCEEEEECCTTC-CEECT-TS
T ss_pred             CEEEecCCCC-------CccCcCc-CCCCCEEEccCCcCCCcCHH-------HHcCCCCCCEEECcCCCCC-CccCh-hH
Confidence            4556666655       4455544 26899999999999888764       3788999999999987642 34442 36


Q ss_pred             cCCcccccE-EeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEeccc-ccccccchh-hhhc-c
Q 042890          101 MPRMKKLVI-LNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRG-IAIEELPSS-IERQ-L  174 (254)
Q Consensus       101 ~~~~~~L~~-L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~-~~~~~l~~~-~~~~-~  174 (254)
                      |.+++++++ +.+.+|.+....+..+..+++|+.|++++|.+....+...  ...+..+++.+ +.++.++.. +... .
T Consensus        75 f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~  154 (350)
T 4ay9_X           75 FSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSF  154 (350)
T ss_dssp             BCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBS
T ss_pred             hhcchhhhhhhcccCCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcch
Confidence            788888776 5555676555556778899999999999987554333222  24556777755 567777654 4444 4


Q ss_pred             ccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccC-ccccCCCCCcEEeccCCCCCCCChh-hhhhcccCccc
Q 042890          175 RLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLP-ECLGQLSSPITCNLAKTNIERIPES-IIQLFVSGYLL  251 (254)
Q Consensus       175 ~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~n~l~~l~~~-~~~~~~L~~L~  251 (254)
                      .++.|++++|.+.. ++.......+|+.+++.+++..+.+| .+|..+++|+.|++++|.++.+|.. +..+++|+.++
T Consensus       155 ~l~~L~L~~N~i~~-i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~~~~~~L~~L~~l~  232 (350)
T 4ay9_X          155 ESVILWLNKNGIQE-IHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARS  232 (350)
T ss_dssp             SCEEEECCSSCCCE-ECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSCCCCCCSSSCTTCCEEECTT
T ss_pred             hhhhhccccccccC-CChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCCcCccChhhhccchHhhhcc
Confidence            68899999998765 44444566789999998766666665 5678999999999999999988764 55555555444

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.69  E-value=6.6e-16  Score=119.42  Aligned_cols=149  Identities=13%  Similarity=0.116  Sum_probs=77.3

Q ss_pred             eeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCC
Q 042890           50 KYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLE  129 (254)
Q Consensus        50 ~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~  129 (254)
                      +.++++++.++.+|..        +  .+.+++|+++++.  ...++....|..+++|++|++++|.+.+..+..+..++
T Consensus        14 ~~l~~s~n~l~~iP~~--------~--~~~~~~L~L~~N~--l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~   81 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEH--------I--PQYTAELRLNNNE--FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGAS   81 (220)
T ss_dssp             TEEECCSSCCSSCCSC--------C--CTTCSEEECCSSC--CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCT
T ss_pred             CEeEeCCCCcccCccC--------C--CCCCCEEEcCCCc--CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCC
Confidence            4677777776666643        1  2345666666554  33332111466777777777777775544444566677


Q ss_pred             cccEEeccCCCCCccccccc--cCCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          130 FLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      +|+.|++++|.+....+...  .++|++|++++|.++.+ |..+..+++|+.|++++|.+.+..|..+..+++|+.++++
T Consensus        82 ~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  161 (220)
T 2v70_A           82 GVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLL  161 (220)
T ss_dssp             TCCEEECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEec
Confidence            77777777655433222111  23444444444444433 2234444445555555554444444444444455555554


Q ss_pred             CCCC
Q 042890          207 GCSN  210 (254)
Q Consensus       207 ~~~~  210 (254)
                      +|.+
T Consensus       162 ~N~l  165 (220)
T 2v70_A          162 ANPF  165 (220)
T ss_dssp             SCCE
T ss_pred             CcCC
Confidence            4443

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.68  E-value=7.8e-16  Score=119.02  Aligned_cols=150  Identities=17%  Similarity=0.091  Sum_probs=121.1

Q ss_pred             cceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccC-CCCCCCCcccEEeccCCCCCccccccc--cCCcCeE
Q 042890           80 LNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWL  156 (254)
Q Consensus        80 L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L  156 (254)
                      -+.++++++.  ...+|.  .+  ...+++|++++|.+....+ ..+..+++|+.|++++|.+....+...  ..+|++|
T Consensus        13 ~~~l~~s~n~--l~~iP~--~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L   86 (220)
T 2v70_A           13 GTTVDCSNQK--LNKIPE--HI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEI   86 (220)
T ss_dssp             TTEEECCSSC--CSSCCS--CC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CCEeEeCCCC--cccCcc--CC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEE
Confidence            3567777544  455664  44  3467899999998665534 347789999999999988665444222  4789999


Q ss_pred             ecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          157 FLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       157 ~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      ++++|.++.++.. +..+++|++|++++|.+.+..+..+.++++|+.|++++|.+.+..|..+..+++|+.|++++|.+.
T Consensus        87 ~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           87 LLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             ECCSSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             ECCCCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCc
Confidence            9999999988765 788999999999999988887888999999999999999888888888999999999999999975

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

Probab=99.67  E-value=1.8e-16  Score=125.93  Aligned_cols=165  Identities=19%  Similarity=0.113  Sum_probs=131.5

Q ss_pred             cccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCe
Q 042890           76 RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISW  155 (254)
Q Consensus        76 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~  155 (254)
                      .+.++..++++++.  ...++   .+..+++|+.|++++|.+ ..++ .+..+++|+.|++++|.+....+-..+++|+.
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~~   89 (263)
T 1xeu_A           17 GLANAVKQNLGKQS--VTDLV---SQKELSGVQNFNGDNSNI-QSLA-GMQFFTNLKELHLSHNQISDLSPLKDLTKLEE   89 (263)
T ss_dssp             HHHHHHHHHHTCSC--TTSEE---CHHHHTTCSEEECTTSCC-CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCSSCCE
T ss_pred             HHHHHHHHHhcCCC--ccccc---chhhcCcCcEEECcCCCc-ccch-HHhhCCCCCEEECCCCccCCChhhccCCCCCE
Confidence            45566667777544  33333   466789999999999985 4556 58889999999999987665444223589999


Q ss_pred             EecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          156 LFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       156 L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      |++++|.++.+|....  ++|+.|++++|.+.+ + +.+..+++|+.|++++|.+.+. + .+..+++|+.|++++|.+.
T Consensus        90 L~L~~N~l~~l~~~~~--~~L~~L~L~~N~l~~-~-~~l~~l~~L~~L~Ls~N~i~~~-~-~l~~l~~L~~L~L~~N~i~  163 (263)
T 1xeu_A           90 LSVNRNRLKNLNGIPS--ACLSRLFLDNNELRD-T-DSLIHLKNLEILSIRNNKLKSI-V-MLGFLSKLEVLDLHGNEIT  163 (263)
T ss_dssp             EECCSSCCSCCTTCCC--SSCCEEECCSSCCSB-S-GGGTTCTTCCEEECTTSCCCBC-G-GGGGCTTCCEEECTTSCCC
T ss_pred             EECCCCccCCcCcccc--CcccEEEccCCccCC-C-hhhcCcccccEEECCCCcCCCC-h-HHccCCCCCEEECCCCcCc
Confidence            9999999998876443  899999999998766 3 3588999999999999887654 3 5788999999999999999


Q ss_pred             CCChhhhhhcccCcccccC
Q 042890          236 RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       236 ~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+ ..+..+++|+.|++++
T Consensus       164 ~~-~~l~~l~~L~~L~l~~  181 (263)
T 1xeu_A          164 NT-GGLTRLKKVNWIDLTG  181 (263)
T ss_dssp             BC-TTSTTCCCCCEEEEEE
T ss_pred             ch-HHhccCCCCCEEeCCC
Confidence            77 5688899999998863

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.67  E-value=2e-15  Score=117.43  Aligned_cols=150  Identities=21%  Similarity=0.154  Sum_probs=89.6

Q ss_pred             ceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec-CCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           48 EVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI-PNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        48 ~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~-~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .-+.++.+++.++.+|..        +  .++|++|+++++.  +..+ +.  .|..+++|++|++++|.+....+..+.
T Consensus        20 s~~~v~c~~~~l~~ip~~--------~--~~~L~~L~Ls~n~--i~~~~~~--~~~~l~~L~~L~L~~N~l~~i~~~~~~   85 (229)
T 3e6j_A           20 SGTTVDCRSKRHASVPAG--------I--PTNAQILYLHDNQ--ITKLEPG--VFDSLINLKELYLGSNQLGALPVGVFD   85 (229)
T ss_dssp             ETTEEECTTSCCSSCCSC--------C--CTTCSEEECCSSC--CCCCCTT--TTTTCTTCCEEECCSSCCCCCCTTTTT
T ss_pred             eCCEeEccCCCcCccCCC--------C--CCCCCEEEcCCCc--cCccCHH--HhhCccCCcEEECCCCCCCCcChhhcc
Confidence            345677777777777653        2  3667777777654  2333 33  566777777777777775333334456


Q ss_pred             CCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEE
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILD  204 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~  204 (254)
                      .+++|+.|++++|.+....+..  .+++|+.|++++|.++.+|..+..+++|+.|++++|.+....+..+..+++|+.++
T Consensus        86 ~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~  165 (229)
T 3e6j_A           86 SLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAY  165 (229)
T ss_dssp             TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             cCCCcCEEECCCCcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEE
Confidence            6777777777776544332221  13566666666666666666666666666666666665544444455666666666


Q ss_pred             ecCCCCC
Q 042890          205 LHGCSNL  211 (254)
Q Consensus       205 l~~~~~~  211 (254)
                      +.+|.+.
T Consensus       166 l~~N~~~  172 (229)
T 3e6j_A          166 LFGNPWD  172 (229)
T ss_dssp             CTTSCBC
T ss_pred             eeCCCcc
Confidence            6665543

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.66  E-value=1.9e-15  Score=116.87  Aligned_cols=149  Identities=21%  Similarity=0.204  Sum_probs=123.4

Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEec
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFL  158 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l  158 (254)
                      +.++.++..  ...+|.  .+.  +.++.|++++|.+....+..+..+++|+.|++++|.+....|...  ..+|++|++
T Consensus        14 ~~v~c~~~~--l~~iP~--~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~L   87 (220)
T 2v9t_B           14 NIVDCRGKG--LTEIPT--NLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVL   87 (220)
T ss_dssp             TEEECTTSC--CSSCCS--SCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEEC
T ss_pred             CEEEcCCCC--cCcCCC--ccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEEC
Confidence            455655443  455664  443  689999999999765555678899999999999988776555443  488999999


Q ss_pred             ccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          159 RGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       159 ~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      ++|.++.+|.. +..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+.
T Consensus        88 s~N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B           88 YGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCcCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            99999998876 678999999999999988887888999999999999999888877778889999999999999974

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.65  E-value=7.3e-19  Score=153.90  Aligned_cols=192  Identities=14%  Similarity=0.046  Sum_probs=137.6

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC------------CceeecCCCCccCCcccccEEe-cc
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH------------KLIAKIPNPTLMPRMKKLVILN-LR  113 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~------------~~~~~~~~~~~~~~~~~L~~L~-l~  113 (254)
                      +.|+.|++++|.++.+|        ..+..+++|++|+++++.            +..+..|.  .++.+++|+.|+ ++
T Consensus       349 ~~L~~L~Ls~n~L~~Lp--------~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~--~l~~l~~L~~L~~l~  418 (567)
T 1dce_A          349 EQLFRCELSVEKSTVLQ--------SELESCKELQELEPENKWCLLTIILLMRALDPLLYEKE--TLQYFSTLKAVDPMR  418 (567)
T ss_dssp             TTSSSCCCCHHHHHHHH--------HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHH--HHHHHHHHHHHCGGG
T ss_pred             ccceeccCChhhHHhhH--------HHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHH--HHHHHHhcccCcchh
Confidence            77777777777554443        347777777777765432            01223333  556677777777 44


Q ss_pred             CCcCCCccCC------CCCC--CCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchhhhhccccCEEeccCC
Q 042890          114 GSKSLKSLPS------GIFN--LEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDC  184 (254)
Q Consensus       114 ~~~~~~~~~~------~~~~--l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n  184 (254)
                      .|.+ ..++.      .+..  ...|+.|++++|.+.+ +|... +++|+.|++++|.++.+|..+..+++|+.|++++|
T Consensus       419 ~n~~-~~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~-lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N  496 (567)
T 1dce_A          419 AAYL-DDLRSKFLLENSVLKMEYADVRVLHLAHKDLTV-LCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN  496 (567)
T ss_dssp             HHHH-HHHHHHHHHHHHHHHHHHTTCSEEECTTSCCSS-CCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             hccc-chhhhhhhhcccccccCccCceEEEecCCCCCC-CcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCC
Confidence            4321 11110      0111  1258889999876554 56533 47899999999999999999999999999999999


Q ss_pred             cCcccCCccccCCCccCEEEecCCCCCccc-CccccCCCCCcEEeccCCCCCCCChh----hhhhcccCcccc
Q 042890          185 KRLKSLPSSLYRLKSLGILDLHGCSNLQRL-PECLGQLSSPITCNLAKTNIERIPES----IIQLFVSGYLLL  252 (254)
Q Consensus       185 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~n~l~~l~~~----~~~~~~L~~L~l  252 (254)
                      .+.+ +| .++++++|+.|++++|.+.+.. |..+..+++|+.|++++|.+..+|..    ...+++|+.|++
T Consensus       497 ~l~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          497 ALEN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             CCCC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             CCCC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccCC
Confidence            9776 66 7999999999999999887776 88999999999999999999866543    345788988864

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

Probab=99.65  E-value=2.2e-15  Score=125.02  Aligned_cols=174  Identities=18%  Similarity=0.097  Sum_probs=121.4

Q ss_pred             eeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccC-CcccccEEeccCCcCCCccCCCCCC
Q 042890           49 VKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMP-RMKKLVILNLRGSKSLKSLPSGIFN  127 (254)
Q Consensus        49 L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~  127 (254)
                      -+.++++++.++.+|..        +  ...++.|+++++.  +..++. ..+. .+++|+.|++++|.+....+..+..
T Consensus        20 ~~~l~c~~~~l~~iP~~--------~--~~~l~~L~Ls~N~--l~~l~~-~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~   86 (361)
T 2xot_A           20 SNILSCSKQQLPNVPQS--------L--PSYTALLDLSHNN--LSRLRA-EWTPTRLTNLHSLLLSHNHLNFISSEAFVP   86 (361)
T ss_dssp             TTEEECCSSCCSSCCSS--------C--CTTCSEEECCSSC--CCEECT-TSSSSCCTTCCEEECCSSCCCEECTTTTTT
T ss_pred             CCEEEeCCCCcCccCcc--------C--CCCCCEEECCCCC--CCccCh-hhhhhcccccCEEECCCCcCCccChhhccC
Confidence            36888999888888864        2  3468889999765  445543 2565 8899999999999876555667888


Q ss_pred             CCcccEEeccCCCCCccccccc--cCCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccc---cCCCccC
Q 042890          128 LEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSL---YRLKSLG  201 (254)
Q Consensus       128 l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l---~~l~~L~  201 (254)
                      +++|++|++++|.+....+...  +.+|+.|++++|.++.+ |..+..+++|+.|++++|.+....+..+   ..+++|+
T Consensus        87 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~  166 (361)
T 2xot_A           87 VPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLM  166 (361)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCC
T ss_pred             CCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCC
Confidence            8999999999977554333222  36788888888888866 4457777888888888887655333333   4577888


Q ss_pred             EEEecCCCCCcccCccccCCCC--CcEEeccCCCCC
Q 042890          202 ILDLHGCSNLQRLPECLGQLSS--PITCNLAKTNIE  235 (254)
Q Consensus       202 ~L~l~~~~~~~~~~~~~~~l~~--L~~L~l~~n~l~  235 (254)
                      .|++++|.+....+..+..++.  ++.|++.+|++.
T Consensus       167 ~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          167 LLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             EEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             EEECCCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence            8888887766544455555655  367888887764

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

Probab=99.65  E-value=2.6e-15  Score=114.92  Aligned_cols=176  Identities=16%  Similarity=0.074  Sum_probs=133.6

Q ss_pred             eeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCC
Q 042890           50 KYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLE  129 (254)
Q Consensus        50 ~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~  129 (254)
                      +.++..++.++.+|..          ..++|++|+++++.  ...++. ..+..+++|++|++++|.+....+..+..++
T Consensus        10 ~~v~c~~~~l~~~p~~----------~~~~l~~L~l~~n~--l~~~~~-~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~   76 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTG----------IPAQTTYLDLETNS--LKSLPN-GVFDELTSLTQLYLGGNKLQSLPNGVFNKLT   76 (208)
T ss_dssp             TEEECCSSCCSSCCSC----------CCTTCSEEECCSSC--CCCCCT-TTTTTCTTCSEEECCSSCCCCCCTTTTTTCT
T ss_pred             CEEEecCCCccCCCCC----------CCCCCcEEEcCCCc--cCcCCh-hhhcccccCcEEECCCCccCccChhhcCCCC
Confidence            4667777777777754          24689999999775  344442 2578899999999999986654455567899


Q ss_pred             cccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          130 FLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      +|++|++++|.+....+..  ..++|++|++++|.++.++.. +..+++|+.|++++|.+.+..+..+..+++|+.++++
T Consensus        77 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~  156 (208)
T 2o6s_A           77 SLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH  156 (208)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEec
Confidence            9999999998766443322  247899999999999987765 6788999999999998776655567889999999999


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhc
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLF  245 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~  245 (254)
                      +|.+.       +.++.|+.|+++.|.+. .+|.+++.++
T Consensus       157 ~N~~~-------~~~~~l~~L~~~~n~~~g~ip~~~~~l~  189 (208)
T 2o6s_A          157 DNPWD-------CTCPGIRYLSEWINKHSGVVRNSAGSVA  189 (208)
T ss_dssp             SCCBC-------CCTTTTHHHHHHHHHCTTTBBCTTSSBC
T ss_pred             CCCee-------cCCCCHHHHHHHHHhCCceeeccCcccc
Confidence            87443       45678899999888886 6777666554

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

Probab=99.65  E-value=1.7e-15  Score=112.10  Aligned_cols=136  Identities=20%  Similarity=0.112  Sum_probs=101.1

Q ss_pred             cccccEEeccCCcCC-CccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccccc-cchhhhhccccCEEe
Q 042890          104 MKKLVILNLRGSKSL-KSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEE-LPSSIERQLRLSWLD  180 (254)
Q Consensus       104 ~~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~-l~~~~~~~~~L~~L~  180 (254)
                      .++|++|++++|.+. +.+|..+..+++|+.|++++|.+... +... .++|++|++++|.++. +|..+..+++|+.|+
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            356777777777754 46666666777777777777765444 2222 4677788888888776 677777789999999


Q ss_pred             ccCCcCccc-CCccccCCCccCEEEecCCCCCcccC---ccccCCCCCcEEeccCCCCCCCChh
Q 042890          181 LSDCKRLKS-LPSSLYRLKSLGILDLHGCSNLQRLP---ECLGQLSSPITCNLAKTNIERIPES  240 (254)
Q Consensus       181 l~~n~~~~~-~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~~~l~~L~~L~l~~n~l~~l~~~  240 (254)
                      +++|.+.+. .+..+..+++|+.|++++|.+.+..+   ..+..+++|+.|++.+|.+..+|.+
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhhcccc
Confidence            999987663 22568889999999999987765544   4678899999999999998877754

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.64  E-value=5.1e-15  Score=115.13  Aligned_cols=129  Identities=24%  Similarity=0.153  Sum_probs=71.5

Q ss_pred             ccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccchh-hhhccccCEEe
Q 042890          105 KKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPSS-IERQLRLSWLD  180 (254)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~  180 (254)
                      ++|++|++++|.+.+..+..+..+++|+.|++++|.+. .+|...   .++|+.|++++|.++.++.. +..+++|+.|+
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~-~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~  118 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLG-ALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELF  118 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCC-CcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEe
Confidence            55666666666554444555555666666666665542 222211   25566666666666655443 45556666666


Q ss_pred             ccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          181 LSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       181 l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++|.+. .+|..+..+++|+.|++++|.+.+..+..+..+++|+.|++.+|.+.
T Consensus       119 Ls~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          119 MCCNKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCSSCCC-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             ccCCccc-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            6666544 44555555666666666665554444444555666666666666553

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

Probab=99.64  E-value=9.7e-16  Score=127.20  Aligned_cols=173  Identities=18%  Similarity=0.127  Sum_probs=128.7

Q ss_pred             eEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhh-cccccceehhhccCCceeecCCCC
Q 042890           21 RFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVK-RYSKLNQIIHAACHKLIAKIPNPT   99 (254)
Q Consensus        21 ~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~-~~~~L~~l~l~~~~~~~~~~~~~~   99 (254)
                      ++++++++.+       ..+|..+. ..++.|+|++|.++.++..       .+. .+++|++|+++++.  +..++. .
T Consensus        21 ~~l~c~~~~l-------~~iP~~~~-~~l~~L~Ls~N~l~~l~~~-------~~~~~l~~L~~L~L~~N~--i~~i~~-~   82 (361)
T 2xot_A           21 NILSCSKQQL-------PNVPQSLP-SYTALLDLSHNNLSRLRAE-------WTPTRLTNLHSLLLSHNH--LNFISS-E   82 (361)
T ss_dssp             TEEECCSSCC-------SSCCSSCC-TTCSEEECCSSCCCEECTT-------SSSSCCTTCCEEECCSSC--CCEECT-T
T ss_pred             CEEEeCCCCc-------CccCccCC-CCCCEEECCCCCCCccChh-------hhhhcccccCEEECCCCc--CCccCh-h
Confidence            5677777766       34454322 5688999999988877653       244 78899999999765  445542 2


Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchhh----hhc
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSSI----ERQ  173 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~~----~~~  173 (254)
                      .|..+++|++|++++|.+....+..+..+++|+.|++++|.+....+...  +.+|+.|++++|.++.+|..+    ..+
T Consensus        83 ~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l  162 (361)
T 2xot_A           83 AFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKL  162 (361)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----C
T ss_pred             hccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccC
Confidence            68889999999999998665555668889999999999988665544333  478999999999999888764    568


Q ss_pred             cccCEEeccCCcCcccCCccccCCCc--cCEEEecCCCCC
Q 042890          174 LRLSWLDLSDCKRLKSLPSSLYRLKS--LGILDLHGCSNL  211 (254)
Q Consensus       174 ~~L~~L~l~~n~~~~~~~~~l~~l~~--L~~L~l~~~~~~  211 (254)
                      ++|+.|++++|.+....+..+..++.  ++.+++.+|.+.
T Consensus       163 ~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          163 PKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             TTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             CcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCCcc
Confidence            89999999999877654455667776  488999988764

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

Probab=99.59  E-value=6.3e-15  Score=106.79  Aligned_cols=127  Identities=20%  Similarity=0.090  Sum_probs=74.4

Q ss_pred             cccccEEeccCCcCC-CccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEecc
Q 042890          104 MKKLVILNLRGSKSL-KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLS  182 (254)
Q Consensus       104 ~~~L~~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~  182 (254)
                      .++++.|++++|.+. +.+|..+..+++|+.|++++|.+...                       ..+..+++|+.|+++
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-----------------------~~~~~l~~L~~L~Ls   72 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI-----------------------ANLPKLNKLKKLELS   72 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC-----------------------TTCCCCTTCCEEECC
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc-----------------------hhhhcCCCCCEEECC
Confidence            467788888888765 46666667777777777777654332                       112334455555555


Q ss_pred             CCcCcccCCccccCCCccCEEEecCCCCCcc-cCccccCCCCCcEEeccCCCCCCCCh----hhhhhcccCccccc
Q 042890          183 DCKRLKSLPSSLYRLKSLGILDLHGCSNLQR-LPECLGQLSSPITCNLAKTNIERIPE----SIIQLFVSGYLLLS  253 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~n~l~~l~~----~~~~~~~L~~L~ls  253 (254)
                      +|.+.+.+|..+..+++|+.|++++|.+.+. .+..+..+++|+.|++++|.+..++.    .+..+++|+.|+++
T Consensus        73 ~n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           73 DNRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             SSCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            5554444444444455555555555554432 22445556666666666666665543    45666667666665

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

Probab=99.58  E-value=2.3e-14  Score=108.44  Aligned_cols=125  Identities=24%  Similarity=0.211  Sum_probs=97.5

Q ss_pred             ccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-hhhhccccCEEeccC
Q 042890          107 LVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIERQLRLSWLDLSD  183 (254)
Q Consensus       107 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~  183 (254)
                      -++++.+++. ...+|..+  .++++.|++++|.+. .+|...  +.+|+.|++++|.++.++. .+..+++|+.|++++
T Consensus        12 ~~~l~~~~~~-l~~ip~~~--~~~l~~L~L~~n~i~-~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           12 DTVVRCSNKG-LKVLPKGI--PRDVTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TTEEECTTSC-CSSCCSCC--CTTCCEEECCSSCCC-SCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEcCCCC-CCcCCCCC--CCCCCEEECCCCcCc-hhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            3678888887 45666644  357899999997754 455332  3788899999999887765 478888999999999


Q ss_pred             CcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          184 CKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       184 n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      |.+....+..+.++++|+.|++++|.+....+..+..+++|+.|++++|.+.
T Consensus        88 N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           88 NRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             SCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            9887777777888899999999988877666667888889999999998874

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

Probab=99.58  E-value=4.3e-15  Score=107.68  Aligned_cols=102  Identities=18%  Similarity=0.121  Sum_probs=86.8

Q ss_pred             CCcCeEeccccccc--ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEe
Q 042890          151 GNISWLFLRGIAIE--ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCN  228 (254)
Q Consensus       151 ~~L~~L~l~~~~~~--~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~  228 (254)
                      .+++.|++++|.++  .+|..+..+++|+.|++++|.+.+.  ..++.+++|+.|++++|.+.+.+|..+..+++|+.|+
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEE
Confidence            56677777777776  6777778889999999999987665  5688999999999999988877888777899999999


Q ss_pred             ccCCCCCCCC--hhhhhhcccCcccccC
Q 042890          229 LAKTNIERIP--ESIIQLFVSGYLLLSY  254 (254)
Q Consensus       229 l~~n~l~~l~--~~~~~~~~L~~L~ls~  254 (254)
                      +++|.++.++  ..+..+++|++|++++
T Consensus        95 ls~N~i~~~~~~~~~~~l~~L~~L~l~~  122 (149)
T 2je0_A           95 LSGNKIKDLSTIEPLKKLENLKSLDLFN  122 (149)
T ss_dssp             CTTSCCCSHHHHGGGGGCTTCCEEECTT
T ss_pred             CCCCcCCChHHHHHHhhCCCCCEEeCcC
Confidence            9999999765  7789999999999874

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.57  E-value=3e-17  Score=143.67  Aligned_cols=171  Identities=16%  Similarity=0.142  Sum_probs=136.0

Q ss_pred             hcccccceehhhccCCceeecCCCCccCCcccccEEeccCCc-------------CCCccCCCCCCCCcccEEe-ccCCC
Q 042890           75 KRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSK-------------SLKSLPSGIFNLEFLTKLD-LSGCS  140 (254)
Q Consensus        75 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-------------~~~~~~~~~~~l~~L~~L~-l~~~~  140 (254)
                      ..++.|+.|+++++.  ...+|.  .++.+++|+.|++.+|.             ..+..|..+..+++|+.|+ ++.+.
T Consensus       346 ~~~~~L~~L~Ls~n~--L~~Lp~--~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~  421 (567)
T 1dce_A          346 ATDEQLFRCELSVEK--STVLQS--ELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY  421 (567)
T ss_dssp             STTTTSSSCCCCHHH--HHHHHH--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHH
T ss_pred             ccCccceeccCChhh--HHhhHH--HHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcc
Confidence            456788888888665  567776  88888899999886653             3344555666777888877 44321


Q ss_pred             CCcccc----------ccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          141 KLKRLP----------EISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       141 ~~~~~p----------~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                       ...++          ......++.|++++|.++.+|. +..+++|+.|++++|.+. .+|..++.+++|+.|++++|.+
T Consensus       422 -~~~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l  498 (567)
T 1dce_A          422 -LDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNAL  498 (567)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHTTCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCC
T ss_pred             -cchhhhhhhhcccccccCccCceEEEecCCCCCCCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCCCCC
Confidence             11111          1112468999999999999997 899999999999999977 7888999999999999999888


Q ss_pred             CcccCccccCCCCCcEEeccCCCCCCC--ChhhhhhcccCcccccC
Q 042890          211 LQRLPECLGQLSSPITCNLAKTNIERI--PESIIQLFVSGYLLLSY  254 (254)
Q Consensus       211 ~~~~~~~~~~l~~L~~L~l~~n~l~~l--~~~~~~~~~L~~L~ls~  254 (254)
                      .+ +| .++.+++|+.|++++|.++.+  |..+..+++|+.|++++
T Consensus       499 ~~-lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~  542 (567)
T 1dce_A          499 EN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQG  542 (567)
T ss_dssp             CC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTT
T ss_pred             CC-Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecC
Confidence            76 66 788999999999999999977  88999999999999874

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

Probab=99.57  E-value=2.3e-14  Score=108.39  Aligned_cols=126  Identities=19%  Similarity=0.171  Sum_probs=107.8

Q ss_pred             ccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccc--c-ccCCcCeEeccccccccc-chhhhhccccCEEecc
Q 042890          107 LVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE--I-SSGNISWLFLRGIAIEEL-PSSIERQLRLSWLDLS  182 (254)
Q Consensus       107 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~--~-~~~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~  182 (254)
                      -+.++++++.+ +.+|..+.  .+++.|++++|.+....+.  + .+++|++|++++|.++.+ |..+..+++|+.|+++
T Consensus        10 ~~~l~~s~~~l-~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           10 GTTVDCTGRGL-KEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TTEEECTTSCC-SSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCEEEcCCCCc-CcCccCCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            37899999884 66777554  3899999999876655443  2 258999999999999977 5678899999999999


Q ss_pred             CCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          183 DCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +|.+.+..+..+.++++|+.|++++|.+.+..|..+..+++|+.|++++|.+.
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           87 ENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             SCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            99998888777999999999999999998888999999999999999999986

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

Probab=99.55  E-value=2.3e-14  Score=105.97  Aligned_cols=130  Identities=22%  Similarity=0.262  Sum_probs=79.5

Q ss_pred             cccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCe
Q 042890           78 SKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISW  155 (254)
Q Consensus        78 ~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~  155 (254)
                      ++|++|+++++....+.+|.  .+..+++|++|++++|.+...  ..+..+++|+.|++++|.+....|...  .++|++
T Consensus        24 ~~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           24 AAVRELVLDNCKSNDGKIEG--LTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSS--CCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             ccCCEEECCCCCCChhhHHH--HHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            44555555544421124443  455566666666666654332  445566666666666665554444332  356667


Q ss_pred             Eecccccccccc--hhhhhccccCEEeccCCcCcccCC---ccccCCCccCEEEecCCCCC
Q 042890          156 LFLRGIAIEELP--SSIERQLRLSWLDLSDCKRLKSLP---SSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       156 L~l~~~~~~~l~--~~~~~~~~L~~L~l~~n~~~~~~~---~~l~~l~~L~~L~l~~~~~~  211 (254)
                      |++++|.++.+|  ..+..+++|+.|++++|.+.+..+   ..+..+++|+.|++++|...
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~  160 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQ  160 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSC
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChh
Confidence            777777777655  456777888888888887665443   36777888888888887553

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.55  E-value=5.7e-14  Score=115.07  Aligned_cols=170  Identities=14%  Similarity=0.072  Sum_probs=123.3

Q ss_pred             ccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCC---------------
Q 042890           77 YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSK---------------  141 (254)
Q Consensus        77 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~---------------  141 (254)
                      +++|+.+++.. .  ...++. .+|.+|++|+.+++.+|.+...-+..|..+.++..+.......               
T Consensus       100 ~~~L~~l~L~~-~--i~~I~~-~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~  175 (329)
T 3sb4_A          100 KQTLEKVILSE-K--IKNIED-AAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEG  175 (329)
T ss_dssp             CTTCCC-CBCT-T--CCEECT-TTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEES
T ss_pred             cCCCcEEECCc-c--ccchhH-HHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccc
Confidence            88888888875 2  344542 3788888999999888875443345555665565555433100               


Q ss_pred             --Cc---------cccc------------------------------cccCCcCeEecccccccccchh-hhhccccCEE
Q 042890          142 --LK---------RLPE------------------------------ISSGNISWLFLRGIAIEELPSS-IERQLRLSWL  179 (254)
Q Consensus       142 --~~---------~~p~------------------------------~~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L  179 (254)
                        ..         .++.                              ....+|+.+++.+|.++.+|.. |.++++|+.+
T Consensus       176 ~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l  255 (329)
T 3sb4_A          176 EPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKI  255 (329)
T ss_dssp             CCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEE
T ss_pred             cccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEE
Confidence              00         0000                              0026899999999999998875 8888999999


Q ss_pred             eccCCcCcccCCccccCCCccC-EEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCcccc
Q 042890          180 DLSDCKRLKSLPSSLYRLKSLG-ILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLL  252 (254)
Q Consensus       180 ~l~~n~~~~~~~~~l~~l~~L~-~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~l  252 (254)
                      ++.+| +...-..+|.++++|+ .+++.. ++...-+.+|.+|++|+.+++..|.++.++. .+..+++|+.++.
T Consensus       256 ~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          256 KLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             ECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             ECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCccchhhhcCCcchhhhcc
Confidence            99987 4554456789999999 999987 6666667899999999999999999987765 6778999998864

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

Probab=99.54  E-value=1.1e-13  Score=104.70  Aligned_cols=128  Identities=21%  Similarity=0.144  Sum_probs=103.8

Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCC-CCCCCCcccEEeccCCCCCccccccc--cCCcCeEe
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLF  157 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~  157 (254)
                      +.++++++.  ...+|.  .+.  ..+++|++++|.+....+. .+..+++|+.|++++|.+.+..|...  ..+|++|+
T Consensus        11 ~~l~~s~~~--l~~ip~--~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~   84 (192)
T 1w8a_A           11 TTVDCTGRG--LKEIPR--DIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQ   84 (192)
T ss_dssp             TEEECTTSC--CSSCCS--CCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CEEEcCCCC--cCcCcc--CCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEE
Confidence            677777654  466665  443  3899999999986554443 37889999999999988776655443  47899999


Q ss_pred             cccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCccc
Q 042890          158 LRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL  214 (254)
Q Consensus       158 l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  214 (254)
                      +++|.++.++.. +..+++|++|++++|.+.+..|..+..+++|+.+++++|.+....
T Consensus        85 Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c  142 (192)
T 1w8a_A           85 LGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNC  142 (192)
T ss_dssp             CCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSG
T ss_pred             CCCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCccCcC
Confidence            999999977654 788999999999999999888888999999999999998876543

>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=99.54  E-value=1.4e-15  Score=133.94  Aligned_cols=104  Identities=13%  Similarity=-0.022  Sum_probs=65.7

Q ss_pred             CCcCeEecc----cccccc------cchhhhhccccCEEeccCCc--CcccCCccc-cCCCccCEEEecCCCCCc-ccCc
Q 042890          151 GNISWLFLR----GIAIEE------LPSSIERQLRLSWLDLSDCK--RLKSLPSSL-YRLKSLGILDLHGCSNLQ-RLPE  216 (254)
Q Consensus       151 ~~L~~L~l~----~~~~~~------l~~~~~~~~~L~~L~l~~n~--~~~~~~~~l-~~l~~L~~L~l~~~~~~~-~~~~  216 (254)
                      ++|+.|++.    .+.++.      ++..+..+++|+.|++++|.  +.+.....+ ..+++|+.|++++|.+.+ .++.
T Consensus       403 ~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~  482 (592)
T 3ogk_B          403 KNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLME  482 (592)
T ss_dssp             CSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCCSSHHHHHH
T ss_pred             CCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCCCCHHHHHH
Confidence            456666664    334443      22334556677777776543  333222223 247788888888877654 2444


Q ss_pred             cccCCCCCcEEeccCCCCC--CCChhhhhhcccCcccccC
Q 042890          217 CLGQLSSPITCNLAKTNIE--RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       217 ~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~~L~~L~ls~  254 (254)
                      .+..+++|+.|++++|.++  .++.....+++|++|++++
T Consensus       483 ~~~~~~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~ls~  522 (592)
T 3ogk_B          483 FSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQG  522 (592)
T ss_dssp             HHTCCTTCCEEEEESCCCBHHHHHHHHHHCSSCCEEEEES
T ss_pred             HHhcCcccCeeeccCCCCcHHHHHHHHHhcCccCeeECcC
Confidence            5567889999999999876  2455566789999988864

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.52  E-value=1.7e-15  Score=136.41  Aligned_cols=132  Identities=17%  Similarity=0.191  Sum_probs=72.3

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      ..|+.|+|++|.+..+|..        +..+++|++|+++++.  +..+|.  .+..+++|++|++++|.+. .+|..+.
T Consensus       224 ~~L~~L~Ls~n~l~~l~~~--------~~~l~~L~~L~Ls~N~--l~~lp~--~~~~l~~L~~L~Ls~N~l~-~lp~~~~  290 (727)
T 4b8c_D          224 QLWHALDLSNLQIFNISAN--------IFKYDFLTRLYLNGNS--LTELPA--EIKNLSNLRVLDLSHNRLT-SLPAELG  290 (727)
T ss_dssp             CCCCEEECTTSCCSCCCGG--------GGGCCSCSCCBCTTSC--CSCCCG--GGGGGTTCCEEECTTSCCS-SCCSSGG
T ss_pred             CCCcEEECCCCCCCCCChh--------hcCCCCCCEEEeeCCc--CcccCh--hhhCCCCCCEEeCcCCcCC-ccChhhc
Confidence            5666666666666555543        4456666666666554  235554  5666666666666666644 5566566


Q ss_pred             CCCcccEEeccCCCCCccccccc--cCCcCeEecccccccc-cchhhhhcc-ccCEEeccCCcCcccCCc
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEE-LPSSIERQL-RLSWLDLSDCKRLKSLPS  192 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~-l~~~~~~~~-~L~~L~l~~n~~~~~~~~  192 (254)
                      .+++|++|++++|.+. .+|...  +.+|+.|++++|.++. +|..+.... ....+++.+|.+.+.+|.
T Consensus       291 ~l~~L~~L~L~~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~  359 (727)
T 4b8c_D          291 SCFQLKYFYFFDNMVT-TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPH  359 (727)
T ss_dssp             GGTTCSEEECCSSCCC-CCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_pred             CCCCCCEEECCCCCCC-ccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCcc
Confidence            6666666666665433 444432  3556666666666663 333332221 112345555555554443

>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=99.52  E-value=3.6e-15  Score=131.36  Aligned_cols=158  Identities=15%  Similarity=0.041  Sum_probs=74.6

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      .+++|++|++++|.+.+.+.  ..++..... ++|++|++.+|.++.+...   .++..+..+++|++|+++++..  ..
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~--~~l~~~~~~~~~L~~L~L~~n~~~~~~~~---~l~~~~~~~~~L~~L~L~~~~~--~~  234 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDG--KWLHELAQHNTSLEVLNFYMTEFAKISPK---DLETIARNCRSLVSVKVGDFEI--LE  234 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCS--HHHHHHHHHCCCCCEEECTTCCCSSCCHH---HHHHHHHHCTTCCEEECSSCBG--GG
T ss_pred             hCCCCCEEECccccccCcch--hHHHHHHhcCCCccEEEeeccCCCccCHH---HHHHHHhhCCCCcEEeccCccH--HH
Confidence            56677777777766532211  001111122 6677777777665433322   2222245566666666665431  11


Q ss_pred             cCC-------------------------CCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccc-c-
Q 042890           95 IPN-------------------------PTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-E-  147 (254)
Q Consensus        95 ~~~-------------------------~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p-~-  147 (254)
                      ++.                         ...+..+++|+.|++.++. ...+|..+..+++|+.|++++|.+..... . 
T Consensus       235 l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~-~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~  313 (592)
T 3ogk_B          235 LVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG-PNEMPILFPFAAQIRKLDLLYALLETEDHCTL  313 (592)
T ss_dssp             GHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCC-TTTGGGGGGGGGGCCEEEETTCCCCHHHHHHH
T ss_pred             HHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccc-hhHHHHHHhhcCCCcEEecCCCcCCHHHHHHH
Confidence            111                         0133344445555544432 23344445556677777777766332211 1 


Q ss_pred             -cccCCcCeEeccccccc--ccchhhhhccccCEEecc
Q 042890          148 -ISSGNISWLFLRGIAIE--ELPSSIERQLRLSWLDLS  182 (254)
Q Consensus       148 -~~~~~L~~L~l~~~~~~--~l~~~~~~~~~L~~L~l~  182 (254)
                       ...++|+.|++. +.+.  .++.....+++|++|+++
T Consensus       314 ~~~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~L~L~  350 (592)
T 3ogk_B          314 IQKCPNLEVLETR-NVIGDRGLEVLAQYCKQLKRLRIE  350 (592)
T ss_dssp             HTTCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCEEEEE
T ss_pred             HHhCcCCCEEecc-CccCHHHHHHHHHhCCCCCEEEee
Confidence             112556666655 2222  233334455566666666

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

Probab=99.51  E-value=4e-14  Score=105.52  Aligned_cols=132  Identities=16%  Similarity=0.092  Sum_probs=101.9

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCC-cccEEeccCCCCCccccccc-cCCcCeEecccccccccchh-hhhcccc
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLE-FLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSS-IERQLRL  176 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~-~~~~~~L  176 (254)
                      .+..+++|+.|++++|.+. .++. +..+. +|+.|++++|.+.+. +... .++|++|++++|.++.+|.. +..+++|
T Consensus        14 ~~~~~~~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           14 QYTNAVRDRELDLRGYKIP-VIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   90 (176)
T ss_dssp             EEECTTSCEEEECTTSCCC-SCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             hcCCcCCceEEEeeCCCCc-hhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCC
Confidence            5667889999999999865 4554 55554 999999999876654 3332 47899999999999988765 4888999


Q ss_pred             CEEeccCCcCcccCCc--cccCCCccCEEEecCCCCCcccCc----cccCCCCCcEEeccCCCCCC
Q 042890          177 SWLDLSDCKRLKSLPS--SLYRLKSLGILDLHGCSNLQRLPE----CLGQLSSPITCNLAKTNIER  236 (254)
Q Consensus       177 ~~L~l~~n~~~~~~~~--~l~~l~~L~~L~l~~~~~~~~~~~----~~~~l~~L~~L~l~~n~l~~  236 (254)
                      +.|++++|.+. .++.  .+..+++|+.+++++|.+.. .|.    .+..+++|+.|++.+|...+
T Consensus        91 ~~L~L~~N~i~-~~~~~~~l~~l~~L~~L~l~~N~i~~-~~~~~~~~~~~l~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A           91 TELILTNNSLV-ELGDLDPLASLKSLTYLCILRNPVTN-KKHYRLYVIYKVPQVRVLDFQKVKLKE  154 (176)
T ss_dssp             CEEECCSCCCC-CGGGGGGGGGCTTCCEEECCSSGGGG-STTHHHHHHHHCTTCSEETTEECCHHH
T ss_pred             CEEECCCCcCC-cchhhHhhhcCCCCCEEEecCCCCCC-cHhHHHHHHHHCCccceeCCCcCCHHH
Confidence            99999999874 3444  67888999999999987753 454    37788999999999888643

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

Probab=99.47  E-value=8.2e-14  Score=103.79  Aligned_cols=129  Identities=14%  Similarity=0.139  Sum_probs=96.1

Q ss_pred             hhcccccceehhhccCCceeecCCCCccCCcc-cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc---c
Q 042890           74 VKRYSKLNQIIHAACHKLIAKIPNPTLMPRMK-KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---S  149 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~-~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~---~  149 (254)
                      +..+++|++|+++++.  ...++   .+..+. +|+.|++++|.+.+ + ..+..+++|+.|++++|.+.. +|+.   .
T Consensus        15 ~~~~~~L~~L~l~~n~--l~~i~---~~~~~~~~L~~L~Ls~N~l~~-~-~~l~~l~~L~~L~Ls~N~l~~-~~~~~~~~   86 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYK--IPVIE---NLGATLDQFDAIDFSDNEIRK-L-DGFPLLRRLKTLLVNNNRICR-IGEGLDQA   86 (176)
T ss_dssp             EECTTSCEEEECTTSC--CCSCC---CGGGGTTCCSEEECCSSCCCE-E-CCCCCCSSCCEEECCSSCCCE-ECSCHHHH
T ss_pred             cCCcCCceEEEeeCCC--CchhH---HhhhcCCCCCEEECCCCCCCc-c-cccccCCCCCEEECCCCcccc-cCcchhhc
Confidence            4567788899988775  34554   344444 89999999988654 3 457888899999999977654 3432   2


Q ss_pred             cCCcCeEecccccccccch--hhhhccccCEEeccCCcCcccCCcc----ccCCCccCEEEecCCCCC
Q 042890          150 SGNISWLFLRGIAIEELPS--SIERQLRLSWLDLSDCKRLKSLPSS----LYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       150 ~~~L~~L~l~~~~~~~l~~--~~~~~~~L~~L~l~~n~~~~~~~~~----l~~l~~L~~L~l~~~~~~  211 (254)
                      .++|++|++++|.++.+|.  .+..+++|+.|++++|.+.. ++..    +..+++|+.+++++|...
T Consensus        87 l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~-~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           87 LPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTN-KKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             CTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGG-STTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             CCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCC-cHhHHHHHHHHCCccceeCCCcCCHH
Confidence            4788899999998888876  67788889999999988654 4443    778888999998887654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.47  E-value=2.6e-14  Score=128.71  Aligned_cols=150  Identities=17%  Similarity=0.154  Sum_probs=107.4

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      +.+..|..++.|++|++++|.+       ..++..+.. ++|++|+|++|.++.+|..        +..+++|++|++++
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l-------~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~--------~~~l~~L~~L~Ls~  279 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQI-------FNISANIFKYDFLTRLYLNGNSLTELPAE--------IKNLSNLRVLDLSH  279 (727)
T ss_dssp             -------CCCCCCEEECTTSCC-------SCCCGGGGGCCSCSCCBCTTSCCSCCCGG--------GGGGTTCCEEECTT
T ss_pred             cChhhhccCCCCcEEECCCCCC-------CCCChhhcCCCCCCEEEeeCCcCcccChh--------hhCCCCCCEEeCcC
Confidence            4466789999999999999998       345555555 9999999999998888765        88999999999998


Q ss_pred             cCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccccc---CCcCeEeccccccc
Q 042890           88 CHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---GNISWLFLRGIAIE  164 (254)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~---~~L~~L~l~~~~~~  164 (254)
                      +.  +..+|.  .+..+++|++|++++|.+ +.+|..+..+++|+.|++++|.+.+..|....   .....+++.+|.++
T Consensus       280 N~--l~~lp~--~~~~l~~L~~L~L~~N~l-~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~  354 (727)
T 4b8c_D          280 NR--LTSLPA--ELGSCFQLKYFYFFDNMV-TTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPE  354 (727)
T ss_dssp             SC--CSSCCS--SGGGGTTCSEEECCSSCC-CCCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             Cc--CCccCh--hhcCCCCCCEEECCCCCC-CccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCccc
Confidence            77  447887  899999999999999985 57888899999999999999988776665431   11224567777766


Q ss_pred             -ccchhhhhccccCEEeccCC
Q 042890          165 -ELPSSIERQLRLSWLDLSDC  184 (254)
Q Consensus       165 -~l~~~~~~~~~L~~L~l~~n  184 (254)
                       .+|.      .+..|+++.|
T Consensus       355 ~~~p~------~l~~l~l~~n  369 (727)
T 4b8c_D          355 IPLPH------ERRFIEINTD  369 (727)
T ss_dssp             CCCCC------C---------
T ss_pred             CcCcc------ccceeEeecc
Confidence             3442      4555666655

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

Probab=99.46  E-value=7.3e-13  Score=98.66  Aligned_cols=128  Identities=18%  Similarity=0.130  Sum_probs=103.2

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEecccccccccchh-hhhccccCEEecc
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLS  182 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~  182 (254)
                      ..+.++++++.+ ..+|..+  .++|+.|++++|.+....+..  ..++|++|++++|.++.++.. +..+++|+.|+++
T Consensus         8 ~~~~l~~~~~~l-~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~   84 (177)
T 2o6r_A            8 SGTEIRCNSKGL-TSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLH   84 (177)
T ss_dssp             ETTEEECCSSCC-SSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEecCCCC-ccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECC
Confidence            467888888874 4556543  468999999998765433322  247899999999999988765 6789999999999


Q ss_pred             CCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCC
Q 042890          183 DCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER  236 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  236 (254)
                      +|.+.+..+..+..+++|+.|++++|.+.+..+..+..+++|+.|++++|.+..
T Consensus        85 ~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           85 ENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             CCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeec
Confidence            999887666667899999999999998876666667889999999999999863

>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=99.44  E-value=3.4e-14  Score=125.12  Aligned_cols=67  Identities=15%  Similarity=0.130  Sum_probs=30.9

Q ss_pred             CCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhcc
Q 042890           16 KMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAAC   88 (254)
Q Consensus        16 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~   88 (254)
                      .+++|++|++++|.+++...  ..+...... ++|++|++.+|. ..++...++.+   ...+++|++|++++|
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~--~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l---~~~~~~L~~L~L~~~  221 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSG--HWLSHFPDTYTSLVSLNISCLA-SEVSFSALERL---VTRCPNLKSLKLNRA  221 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCG--GGGGGSCTTCCCCCEEECTTCC-SCCCHHHHHHH---HHHCTTCCEEECCTT
T ss_pred             hCCCCCEEeCcCCccCCcch--HHHHHHhhcCCcCcEEEecccC-CcCCHHHHHHH---HHhCCCCcEEecCCC
Confidence            45555555555555433221  112222223 566666666664 22322222222   334566666666655

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

Probab=99.44  E-value=1.9e-12  Score=97.80  Aligned_cols=124  Identities=16%  Similarity=0.142  Sum_probs=97.1

Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEec
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFL  158 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l  158 (254)
                      +.++++++.  ...+|.  .+  .+.+++|++++|.+ ..+|..+..+++|+.|++++|.+....+...  +.+|+.|++
T Consensus        13 ~~l~~~~~~--l~~ip~--~~--~~~l~~L~L~~n~i-~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~L   85 (193)
T 2wfh_A           13 TVVRCSNKG--LKVLPK--GI--PRDVTELYLDGNQF-TLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLIL   85 (193)
T ss_dssp             TEEECTTSC--CSSCCS--CC--CTTCCEEECCSSCC-CSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCC--CCcCCC--CC--CCCCCEEECCCCcC-chhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEEC
Confidence            456666544  456664  43  36899999999985 4677778899999999999987665444322  478999999


Q ss_pred             ccccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCC
Q 042890          159 RGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       159 ~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                      ++|.++.++. .+..+++|+.|++++|.+....+..+..+++|+.+++++|.+.
T Consensus        86 s~N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           86 SYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             CSSCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            9999998776 4888899999999999987666566888999999999988764

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

Probab=99.43  E-value=4.6e-15  Score=130.66  Aligned_cols=197  Identities=13%  Similarity=-0.009  Sum_probs=86.8

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCC---------cC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGS---------KS  117 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~---------~~  117 (254)
                      ++|++|++++|.++   +..+.   ..+..+++|++|+++++. ....++.  ....+++|++|++.++         .+
T Consensus       289 ~~L~~L~L~~~~l~---~~~l~---~~~~~~~~L~~L~l~~~~-~~~~l~~--l~~~~~~L~~L~L~~~~~~g~~~~~~l  359 (594)
T 2p1m_B          289 SRLTTLNLSYATVQ---SYDLV---KLLCQCPKLQRLWVLDYI-EDAGLEV--LASTCKDLRELRVFPSEPFVMEPNVAL  359 (594)
T ss_dssp             TTCCEEECTTCCCC---HHHHH---HHHTTCTTCCEEEEEGGG-HHHHHHH--HHHHCTTCCEEEEECSCTTCSSCSSCC
T ss_pred             CCCCEEEccCCCCC---HHHHH---HHHhcCCCcCEEeCcCcc-CHHHHHH--HHHhCCCCCEEEEecCcccccccCCCC
Confidence            78888888888632   22111   124466777777777551 1111221  2223566666666331         11


Q ss_pred             CCccCCCC-CCCCcccEEeccCCCCCcccccc---ccCCcCeEecc--c----cccccc------chhhhhccccCEEec
Q 042890          118 LKSLPSGI-FNLEFLTKLDLSGCSKLKRLPEI---SSGNISWLFLR--G----IAIEEL------PSSIERQLRLSWLDL  181 (254)
Q Consensus       118 ~~~~~~~~-~~l~~L~~L~l~~~~~~~~~p~~---~~~~L~~L~l~--~----~~~~~l------~~~~~~~~~L~~L~l  181 (254)
                      .......+ ..+++|+.|+++++.+.......   ..++|+.|++.  +    +.++..      +..+..+++|+.|++
T Consensus       360 ~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L  439 (594)
T 2p1m_B          360 TEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSL  439 (594)
T ss_dssp             CHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEEC
T ss_pred             CHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEee
Confidence            11000011 12455555555444333221111   12455555555  2    233322      122344455555655


Q ss_pred             cCCcCcccCCccccC-CCccCEEEecCCCCCcccCccc-cCCCCCcEEeccCCCCCC--CChhhhhhcccCccccc
Q 042890          182 SDCKRLKSLPSSLYR-LKSLGILDLHGCSNLQRLPECL-GQLSSPITCNLAKTNIER--IPESIIQLFVSGYLLLS  253 (254)
Q Consensus       182 ~~n~~~~~~~~~l~~-l~~L~~L~l~~~~~~~~~~~~~-~~l~~L~~L~l~~n~l~~--l~~~~~~~~~L~~L~ls  253 (254)
                      ++ .+.+.....+.. +++|+.|++++|.+.+..+..+ ..+++|+.|++++|.+..  +...+..+++|++|+++
T Consensus       440 ~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~l~  514 (594)
T 2p1m_B          440 SG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMS  514 (594)
T ss_dssp             CS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGGGSSEEEEE
T ss_pred             cC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCCCCCEEeee
Confidence            44 333322222322 4555555555555433222222 335555555555555531  11223345555555554

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

Probab=99.43  E-value=3.6e-12  Score=94.86  Aligned_cols=129  Identities=19%  Similarity=0.127  Sum_probs=99.0

Q ss_pred             cceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc--ccCCcCeEe
Q 042890           80 LNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNISWLF  157 (254)
Q Consensus        80 L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~--~~~~L~~L~  157 (254)
                      .+.++++++.  ...+|.  .+  .+.|++|++++|.+.+..+..+..+++|+.|++++|.+....+..  ...+|+.|+
T Consensus         9 ~~~l~~~~~~--l~~~p~--~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~   82 (177)
T 2o6r_A            9 GTEIRCNSKG--LTSVPT--GI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILY   82 (177)
T ss_dssp             TTEEECCSSC--CSSCCT--TC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCEEEecCCC--CccCCC--CC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEE
Confidence            4566666443  445553  33  479999999999976555556788999999999998765443332  247999999


Q ss_pred             cccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCccc
Q 042890          158 LRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL  214 (254)
Q Consensus       158 l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  214 (254)
                      +++|.++.+|.. +..+++|+.|++++|.+.+..+..+..+++|+.+++++|.+....
T Consensus        83 l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A           83 LHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             CCCCCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccC
Confidence            999999988775 678899999999999987655555788999999999998876543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.41  E-value=1.4e-15  Score=115.58  Aligned_cols=154  Identities=18%  Similarity=0.156  Sum_probs=101.4

Q ss_pred             hhcccccceehhhccCC-----ceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc
Q 042890           74 VKRYSKLNQIIHAACHK-----LIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI  148 (254)
Q Consensus        74 ~~~~~~L~~l~l~~~~~-----~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~  148 (254)
                      +.....++.++++.+.-     ....++.  .+..+++|++|++++|.+.. +| .+..+++|+.|++++|.+. .+|..
T Consensus        14 ~~~~~~l~~l~l~~~~l~~~~~~l~~l~~--~~~~l~~L~~L~ls~n~l~~-l~-~~~~l~~L~~L~l~~n~l~-~l~~~   88 (198)
T 1ds9_A           14 FEERKSVVATEAEKVELHGMIPPIEKMDA--TLSTLKACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIK-KIENL   88 (198)
T ss_dssp             HHHTTCCCCTTCSEEECCBCCTTCCCCHH--HHHHTTTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEEC-SCSSH
T ss_pred             HHhcccccCcchheeEeccccCcHhhhhH--HHhcCCCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcc-cccch
Confidence            44455666666553332     1233333  56678888888888887544 56 5777888888888887654 45543


Q ss_pred             c--cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCC-ccccCCCccCEEEecCCCCCcccCc---------
Q 042890          149 S--SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLP-SSLYRLKSLGILDLHGCSNLQRLPE---------  216 (254)
Q Consensus       149 ~--~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~---------  216 (254)
                      .  .++|++|++++|.++.+| .+..+++|+.|++++|.+.+..+ ..+..+++|+.+++++|.+.+..|.         
T Consensus        89 ~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~  167 (198)
T 1ds9_A           89 DAVADTLEELWISYNQIASLS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRI  167 (198)
T ss_dssp             HHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHH
T ss_pred             hhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHH
Confidence            3  267888888888888776 56777888888888887654221 3567788888888888766554433         


Q ss_pred             -cccCCCCCcEEeccCCCCC
Q 042890          217 -CLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       217 -~~~~l~~L~~L~l~~n~l~  235 (254)
                       .+..+++|+.|+  ++.+.
T Consensus       168 ~~~~~l~~L~~Ld--~~~i~  185 (198)
T 1ds9_A          168 EVVKRLPNLKKLD--GMPVD  185 (198)
T ss_dssp             HHHHHCSSCSEEC--CGGGT
T ss_pred             HHHHhCCCcEEEC--CcccC
Confidence             256677788776  44443

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.34  E-value=3.2e-12  Score=94.58  Aligned_cols=105  Identities=22%  Similarity=0.174  Sum_probs=89.9

Q ss_pred             cccEEeccCCCCCccccccccCCcCeEecccccccccc-hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCC
Q 042890          130 FLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELP-SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~-~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~  208 (254)
                      ..+.++++++. ...+|......++.|++++|.++.++ ..+..+++|++|++++|.+.+..+..+.++++|+.|++++|
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~~N   88 (170)
T 3g39_A           10 SGTTVDCSGKS-LASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             ETTEEECTTSC-CSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCEEEeCCCC-cCccCccCCCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            35789999966 44567666689999999999999884 55889999999999999988766666789999999999999


Q ss_pred             CCCcccCccccCCCCCcEEeccCCCCC
Q 042890          209 SNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       209 ~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      .+.+..+..+..+++|+.|++++|.+.
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           89 QLKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             ccCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            888777777899999999999999986

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.34  E-value=1.2e-11  Score=91.56  Aligned_cols=105  Identities=21%  Similarity=0.154  Sum_probs=86.6

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hhhccccCEEecc
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IERQLRLSWLDLS  182 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~  182 (254)
                      ..+++++++|.+ ..+|..+  .++++.|++++|.+.+..|...  +.+|++|++++|.++.+|.. +..+++|+.|+++
T Consensus        10 ~~~~l~~s~n~l-~~ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           10 SGTTVDCSGKSL-ASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             ETTEEECTTSCC-SSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEeCCCCc-CccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            568899999984 5577655  3789999999988776655433  48999999999999998876 5789999999999


Q ss_pred             CCcCcccCCccccCCCccCEEEecCCCCCcc
Q 042890          183 DCKRLKSLPSSLYRLKSLGILDLHGCSNLQR  213 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  213 (254)
                      +|.+.+..+..+..+++|+.|++++|.+...
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           87 DNQLKSIPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             CCccCEeCHHHhcCCCCCCEEEeCCCCCCCC
Confidence            9998876666789999999999999876543

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

Probab=99.33  E-value=1.4e-11  Score=91.49  Aligned_cols=85  Identities=19%  Similarity=0.166  Sum_probs=44.0

Q ss_pred             CCcCeEeccccccccc-chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEec
Q 042890          151 GNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNL  229 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l  229 (254)
                      ..++.|++++|.++.+ |..+..+++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..+..+++|+.|++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            3444444444444444 223455555666666665544433333455566666666655554443444555666666666


Q ss_pred             cCCCCC
Q 042890          230 AKTNIE  235 (254)
Q Consensus       230 ~~n~l~  235 (254)
                      ++|.+.
T Consensus       113 ~~N~~~  118 (174)
T 2r9u_A          113 YNNPWD  118 (174)
T ss_dssp             CSSCBC
T ss_pred             CCCCcc
Confidence            666554

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

Probab=99.33  E-value=4.4e-12  Score=94.23  Aligned_cols=100  Identities=16%  Similarity=0.146  Sum_probs=87.0

Q ss_pred             cCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC
Q 042890          153 ISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       153 L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      -+.++++++.++.+|..+.  ++|+.|++++|.+.+..+..+.++++|+.|++++|.+.+..+..|..+++|+.|++++|
T Consensus        14 ~~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SSEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CcEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            3577888888888887654  78999999999988887888999999999999999887766667789999999999999


Q ss_pred             CCCCCChh-hhhhcccCcccccC
Q 042890          233 NIERIPES-IIQLFVSGYLLLSY  254 (254)
Q Consensus       233 ~l~~l~~~-~~~~~~L~~L~ls~  254 (254)
                      .++.+|.. +..+++|+.|++++
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~  114 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYN  114 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCS
T ss_pred             ccceeCHHHhccccCCCEEEeCC
Confidence            99988765 88899999999874

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.33  E-value=1.5e-14  Score=109.84  Aligned_cols=125  Identities=19%  Similarity=0.145  Sum_probs=66.3

Q ss_pred             hhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cC
Q 042890           73 RVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SG  151 (254)
Q Consensus        73 ~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~  151 (254)
                      .+..+++|++|+++++.  ...++   .+..+++|+.|++++|.+. .+|..+..+++|+.|++++|.+.+ +|... .+
T Consensus        43 ~~~~l~~L~~L~ls~n~--l~~l~---~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~~L~L~~N~l~~-l~~~~~l~  115 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNN--IEKIS---SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIAS-LSGIEKLV  115 (198)
T ss_dssp             HHHHTTTCSEEECSEEE--ESCCC---CHHHHTTCCEEEEEEEEEC-SCSSHHHHHHHCSEEEEEEEECCC-HHHHHHHH
T ss_pred             HHhcCCCCCEEECCCCC--Ccccc---ccccCCCCCEEECCCCCcc-cccchhhcCCcCCEEECcCCcCCc-CCccccCC
Confidence            35556666666666543  23333   4555666666666666533 444444445566666666654433 23211 25


Q ss_pred             CcCeEecccccccccch--hhhhccccCEEeccCCcCcccCCc----------cccCCCccCEEE
Q 042890          152 NISWLFLRGIAIEELPS--SIERQLRLSWLDLSDCKRLKSLPS----------SLYRLKSLGILD  204 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~--~~~~~~~L~~L~l~~n~~~~~~~~----------~l~~l~~L~~L~  204 (254)
                      +|+.|++++|.++.++.  .+..+++|+.|++++|.+.+.+|.          .+..+++|+.+|
T Consensus       116 ~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          116 NLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             CCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            56666666666665443  355556666666666655443322          144556666655

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.27  E-value=2e-10  Score=96.42  Aligned_cols=145  Identities=8%  Similarity=0.045  Sum_probs=77.9

Q ss_pred             ccCCcccccEEeccCCcCCCccC-CCCCCCCcccEEeccCCCCCccccccc---cCCcCeEeccccccc-----ccch-h
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIE-----ELPS-S  169 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~-----~l~~-~  169 (254)
                      .|.++++|+.+++..+  ...++ ..|.+ .+|+.+.+.+ . ...++...   ..+|+.+.+.++.+.     .++. .
T Consensus       221 aF~~~~~L~~l~l~~~--l~~I~~~aF~~-~~L~~i~lp~-~-i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~a  295 (401)
T 4fdw_A          221 AFLKTSQLKTIEIPEN--VSTIGQEAFRE-SGITTVKLPN-G-VTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYC  295 (401)
T ss_dssp             TTTTCTTCCCEECCTT--CCEECTTTTTT-CCCSEEEEET-T-CCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTT
T ss_pred             HhhCCCCCCEEecCCC--ccCcccccccc-CCccEEEeCC-C-ccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHH
Confidence            4555555555555543  12222 22333 4555555533 2 12222222   256667766665543     3433 3


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhc-cc
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLF-VS  247 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~-~L  247 (254)
                      |.++++|+.+++.. .+...-..+|.++++|+.+.+.. ++...-..+|.++ +|+.+.+.+|.+..++. .+..++ ++
T Consensus       296 F~~c~~L~~l~l~~-~i~~I~~~aF~~c~~L~~l~lp~-~l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l  372 (401)
T 4fdw_A          296 LEGCPKLARFEIPE-SIRILGQGLLGGNRKVTQLTIPA-NVTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDI  372 (401)
T ss_dssp             TTTCTTCCEECCCT-TCCEECTTTTTTCCSCCEEEECT-TCCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTC
T ss_pred             hhCCccCCeEEeCC-ceEEEhhhhhcCCCCccEEEECc-cccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCc
Confidence            66667777777763 33333344577777777777754 3545555677777 78888888777665433 233443 45


Q ss_pred             Ccccc
Q 042890          248 GYLLL  252 (254)
Q Consensus       248 ~~L~l  252 (254)
                      ..+++
T Consensus       373 ~~l~v  377 (401)
T 4fdw_A          373 TVIRV  377 (401)
T ss_dssp             CEEEE
T ss_pred             cEEEe
Confidence            55443

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.17  E-value=3.9e-10  Score=92.18  Aligned_cols=99  Identities=14%  Similarity=0.061  Sum_probs=77.6

Q ss_pred             CCcccEEeccCCCCCcccccccc---CCcCeEecccccccccchh-hhhccccC-EEeccCCcCcccCCccccCCCccCE
Q 042890          128 LEFLTKLDLSGCSKLKRLPEISS---GNISWLFLRGIAIEELPSS-IERQLRLS-WLDLSDCKRLKSLPSSLYRLKSLGI  202 (254)
Q Consensus       128 l~~L~~L~l~~~~~~~~~p~~~~---~~L~~L~l~~~~~~~l~~~-~~~~~~L~-~L~l~~n~~~~~~~~~l~~l~~L~~  202 (254)
                      +++|+.+++.+|. ...+|...+   .+|+.+.+.+| ++.++.. |.++++|+ .+++.+ .+...-+.+|.++++|+.
T Consensus       225 ~~~L~~l~L~~n~-i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~  301 (329)
T 3sb4_A          225 MPNLVSLDISKTN-ATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRY  301 (329)
T ss_dssp             CTTCCEEECTTBC-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEE
T ss_pred             cCCCeEEECCCCC-cceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCE
Confidence            6788888888865 344554432   57888888887 7777654 78889999 999988 555555578999999999


Q ss_pred             EEecCCCCCcccCccccCCCCCcEEec
Q 042890          203 LDLHGCSNLQRLPECLGQLSSPITCNL  229 (254)
Q Consensus       203 L~l~~~~~~~~~~~~~~~l~~L~~L~l  229 (254)
                      +++.++++...-+.+|.++++|+.+..
T Consensus       302 l~l~~n~i~~I~~~aF~~~~~L~~ly~  328 (329)
T 3sb4_A          302 VLATGDKITTLGDELFGNGVPSKLIYK  328 (329)
T ss_dssp             EEECSSCCCEECTTTTCTTCCCCEEEC
T ss_pred             EEeCCCccCccchhhhcCCcchhhhcc
Confidence            999888887777889999999998864

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.13  E-value=2.7e-09  Score=89.55  Aligned_cols=202  Identities=10%  Similarity=0.083  Sum_probs=134.4

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccCCCC-CCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPG-FAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~-~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      +...+|..|++|+.+++..+.+       ..++...- ..+|+.+.+.++ ++.++..       ++..+++|+.+.+..
T Consensus       171 I~~~aF~~c~~L~~l~l~~n~l-------~~I~~~aF~~~~L~~l~lp~~-l~~I~~~-------aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          171 LKEDIFYYCYNLKKADLSKTKI-------TKLPASTFVYAGIEEVLLPVT-LKEIGSQ-------AFLKTSQLKTIEIPE  235 (401)
T ss_dssp             ECSSTTTTCTTCCEEECTTSCC-------SEECTTTTTTCCCSEEECCTT-CCEECTT-------TTTTCTTCCCEECCT
T ss_pred             ehHHHhhCcccCCeeecCCCcc-------eEechhhEeecccCEEEeCCc-hheehhh-------HhhCCCCCCEEecCC
Confidence            3445666666666666666554       22222222 256666666543 4444433       477888999998874


Q ss_pred             cCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCC----ccccccc---cCCcCeEeccc
Q 042890           88 CHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKL----KRLPEIS---SGNISWLFLRG  160 (254)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~----~~~p~~~---~~~L~~L~l~~  160 (254)
                      .   ...+.. .+|.+ ..|+.+.+..+ +...-...|.++++|+.+++.++...    ..++...   ..+|+.+.+. 
T Consensus       236 ~---l~~I~~-~aF~~-~~L~~i~lp~~-i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-  308 (401)
T 4fdw_A          236 N---VSTIGQ-EAFRE-SGITTVKLPNG-VTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-  308 (401)
T ss_dssp             T---CCEECT-TTTTT-CCCSEEEEETT-CCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-
T ss_pred             C---ccCccc-ccccc-CCccEEEeCCC-ccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-
Confidence            3   344442 26666 78999999654 23333566888999999999886543    1233333   2688999988 


Q ss_pred             ccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCC-CCcEEeccCCCC
Q 042890          161 IAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLS-SPITCNLAKTNI  234 (254)
Q Consensus       161 ~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~n~l  234 (254)
                      +.++.++.. |.++++|+.+.+..+ +...-..+|.++ +|+.+++.+|.........|..++ .++.+.+..+.+
T Consensus       309 ~~i~~I~~~aF~~c~~L~~l~lp~~-l~~I~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~vp~~~~  382 (401)
T 4fdw_A          309 ESIRILGQGLLGGNRKVTQLTIPAN-VTQINFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRVPAESV  382 (401)
T ss_dssp             TTCCEECTTTTTTCCSCCEEEECTT-CCEECTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEECGGGH
T ss_pred             CceEEEhhhhhcCCCCccEEEECcc-ccEEcHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEeCHHHH
Confidence            457777654 778899999999654 444445678889 999999999877666667777774 788888877664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.12  E-value=5.1e-12  Score=105.05  Aligned_cols=160  Identities=17%  Similarity=0.139  Sum_probs=73.0

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhc-ccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKR-YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~-~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~  125 (254)
                      +.|+.|++++|.++.   .....+...+.. .++|++|++++|.-.......  ....+++|+.|++++|.+...-...+
T Consensus        72 ~~L~~L~Ls~n~l~~---~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~--l~~~L~~L~~L~Ls~n~l~~~~~~~L  146 (372)
T 3un9_A           72 SSLRQLNLAGVRMTP---VKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRT--LLPVFLRARKLGLQLNSLGPEACKDL  146 (372)
T ss_dssp             TTCCEEECTTSCCCH---HHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHH--THHHHHTEEEEECCSSCCCHHHHHHH
T ss_pred             hhCCEEEecCCCCCH---HHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHH--HHHHHHhccHhhcCCCCCCHHHHHHH
Confidence            556677777765432   122222222322 246666666655421111111  22234566666666665432111111


Q ss_pred             -----CCCCcccEEeccCCCCCcc----cccc--ccCCcCeEecccccccc-----cchhhhhccccCEEeccCCcCccc
Q 042890          126 -----FNLEFLTKLDLSGCSKLKR----LPEI--SSGNISWLFLRGIAIEE-----LPSSIERQLRLSWLDLSDCKRLKS  189 (254)
Q Consensus       126 -----~~l~~L~~L~l~~~~~~~~----~p~~--~~~~L~~L~l~~~~~~~-----l~~~~~~~~~L~~L~l~~n~~~~~  189 (254)
                           ...++|+.|++++|.+...    ++..  ..++|++|++++|.++.     ++..+...++|+.|++++|.+.+.
T Consensus       147 ~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~  226 (372)
T 3un9_A          147 RDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDT  226 (372)
T ss_dssp             HHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHH
T ss_pred             HHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHH
Confidence                 1234566666666553321    1110  12455556666555541     233344455566666666655431


Q ss_pred             ----CCccccCCCccCEEEecCCCCC
Q 042890          190 ----LPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       190 ----~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                          +...+...++|+.|++++|.+.
T Consensus       227 g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          227 AALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHHHHHhCCCCCEEeccCCCCC
Confidence                2223334455666666665544

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=99.10  E-value=2e-10  Score=94.50  Aligned_cols=102  Identities=15%  Similarity=0.076  Sum_probs=82.8

Q ss_pred             EEeccCCCCCccccccc-cCCcCeEeccc-ccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCC
Q 042890          133 KLDLSGCSKLKRLPEIS-SGNISWLFLRG-IAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCS  209 (254)
Q Consensus       133 ~L~l~~~~~~~~~p~~~-~~~L~~L~l~~-~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~  209 (254)
                      .++.++++....+|... ..+|+.|++++ |.++.++. .+..+++|+.|++++|.+.+..+..|.++++|+.|++++|.
T Consensus        12 ~v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~   91 (347)
T 2ifg_A           12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc
Confidence            45777753455677622 36799999996 99998875 58889999999999999888888889999999999999988


Q ss_pred             CCcccCccccCCCCCcEEeccCCCCC
Q 042890          210 NLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       210 ~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +.+..+..+..++ |+.|++.+|.+.
T Consensus        92 l~~~~~~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           92 LESLSWKTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             CSCCCSTTTCSCC-CCEEECCSSCCC
T ss_pred             cceeCHHHcccCC-ceEEEeeCCCcc
Confidence            8766666666555 999999999986

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.09  E-value=7.9e-12  Score=103.92  Aligned_cols=157  Identities=16%  Similarity=0.027  Sum_probs=107.4

Q ss_pred             ccccceehhhccCCcee---ecCCCCccC-CcccccEEeccCCcCCCccCCCC-CCCCcccEEeccCCCCCcccccc---
Q 042890           77 YSKLNQIIHAACHKLIA---KIPNPTLMP-RMKKLVILNLRGSKSLKSLPSGI-FNLEFLTKLDLSGCSKLKRLPEI---  148 (254)
Q Consensus        77 ~~~L~~l~l~~~~~~~~---~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~-~~l~~L~~L~l~~~~~~~~~p~~---  148 (254)
                      .+.|+.+++++|.....   .+..  .+. ..+.|++|++++|.+...-...+ ..+++|+.|++++|.+.......   
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~--~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~  148 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAA--VLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRD  148 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHH--HHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHH--HHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHH
Confidence            46788999987763211   1111  222 23689999999998643222222 24568999999998765432111   


Q ss_pred             ----ccCCcCeEecccccccc-----cchhhhhccccCEEeccCCcCccc----CCccccCCCccCEEEecCCCCCcc--
Q 042890          149 ----SSGNISWLFLRGIAIEE-----LPSSIERQLRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSNLQR--  213 (254)
Q Consensus       149 ----~~~~L~~L~l~~~~~~~-----l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~--  213 (254)
                          ..+.|+.|++++|.++.     ++..+...++|++|++++|.+.+.    +...+...++|+.|++++|.+.+.  
T Consensus       149 ~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~  228 (372)
T 3un9_A          149 LLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAA  228 (372)
T ss_dssp             HHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHH
T ss_pred             HHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHH
Confidence                12679999999998873     455567788899999999987652    344566778899999999887643  


Q ss_pred             --cCccccCCCCCcEEeccCCCCC
Q 042890          214 --LPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       214 --~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                        +...+...+.|+.|++++|.+.
T Consensus       229 ~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          229 LALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             HHHHHHHHhCCCCCEEeccCCCCC
Confidence              3444556788999999999986

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.91  E-value=6.4e-09  Score=85.46  Aligned_cols=102  Identities=21%  Similarity=0.036  Sum_probs=79.2

Q ss_pred             cEEeccCC-cCCCccCCCCCCCCcccEEeccC-CCCCccccccc--cCCcCeEecccccccccch-hhhhccccCEEecc
Q 042890          108 VILNLRGS-KSLKSLPSGIFNLEFLTKLDLSG-CSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIERQLRLSWLDLS  182 (254)
Q Consensus       108 ~~L~l~~~-~~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~  182 (254)
                      ..++.+++ . ...+|. +..+++|+.|++++ |.+....+...  +.+|+.|++++|.++.+++ .+..+++|+.|+++
T Consensus        11 ~~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           11 SGLRCTRDGA-LDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             SCEECCSSCC-CTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CEEEcCCCCC-CCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            34577776 5 456888 98999999999996 66544433322  4899999999999998765 57899999999999


Q ss_pred             CCcCcccCCccccCCCccCEEEecCCCCCc
Q 042890          183 DCKRLKSLPSSLYRLKSLGILDLHGCSNLQ  212 (254)
Q Consensus       183 ~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~  212 (254)
                      +|.+.+..+..+..++ |+.|++.+|.+..
T Consensus        89 ~N~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           89 FNALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             SSCCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CCccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            9998765555555555 9999999987753

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.80  E-value=1.5e-07  Score=78.74  Aligned_cols=219  Identities=11%  Similarity=0.049  Sum_probs=113.4

Q ss_pred             eCCcccCCCCcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhh
Q 042890            9 LNPNTFTKMPKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHA   86 (254)
Q Consensus         9 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~   86 (254)
                      +...+|..+++|+.+.+..+..        .+.. .+.. .+|+.+.+..+ ++.+++.       ++..+..|+.+.+.
T Consensus       153 i~~~aF~~c~~L~~i~l~~~~~--------~I~~~~F~~c~~L~~i~l~~~-~~~I~~~-------~F~~~~~L~~i~~~  216 (394)
T 4fs7_A          153 IGDEAFATCESLEYVSLPDSME--------TLHNGLFSGCGKLKSIKLPRN-LKIIRDY-------CFAECILLENMEFP  216 (394)
T ss_dssp             ECTTTTTTCTTCCEEECCTTCC--------EECTTTTTTCTTCCBCCCCTT-CCEECTT-------TTTTCTTCCBCCCC
T ss_pred             cchhhhcccCCCcEEecCCccc--------eeccccccCCCCceEEEcCCC-ceEeCch-------hhccccccceeecC
Confidence            4456788888888888765431        1222 2333 66777777654 3333332       23444555554443


Q ss_pred             ccCCce-------------------eecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccc
Q 042890           87 ACHKLI-------------------AKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE  147 (254)
Q Consensus        87 ~~~~~~-------------------~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~  147 (254)
                      ......                   ..+.. ..+..+..++.+.+..+. ...-...+..+..++.+....... ....-
T Consensus       217 ~~~~~i~~~~~~~~~l~~i~ip~~~~~i~~-~~f~~~~~l~~~~~~~~~-~~i~~~~F~~~~~l~~~~~~~~~i-~~~~F  293 (394)
T 4fs7_A          217 NSLYYLGDFALSKTGVKNIIIPDSFTELGK-SVFYGCTDLESISIQNNK-LRIGGSLFYNCSGLKKVIYGSVIV-PEKTF  293 (394)
T ss_dssp             TTCCEECTTTTTTCCCCEEEECTTCCEECS-STTTTCSSCCEEEECCTT-CEECSCTTTTCTTCCEEEECSSEE-CTTTT
T ss_pred             CCceEeehhhcccCCCceEEECCCceeccc-ccccccccceeEEcCCCc-ceeeccccccccccceeccCceee-ccccc
Confidence            211111                   11110 133444555555554432 111122344444555544433211 11111


Q ss_pred             cccCCcCeEecccccccccch-hhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcE
Q 042890          148 ISSGNISWLFLRGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPIT  226 (254)
Q Consensus       148 ~~~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~  226 (254)
                      ....+|+.+.+..+ ++.+.. .+.++++|+.+++..+ +...-..+|.++.+|+.+.+..+ +...-..+|.+|.+|+.
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~~  370 (394)
T 4fs7_A          294 YGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPYL-VEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKK  370 (394)
T ss_dssp             TTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCE
T ss_pred             cccccccccccccc-cceechhhhcCCCCCCEEEeCCc-ccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCE
Confidence            11256666666543 455543 3667778888887643 33333456778888888888653 54445567888888888


Q ss_pred             EeccCCCCCCCChhhhhhcccCcc
Q 042890          227 CNLAKTNIERIPESIIQLFVSGYL  250 (254)
Q Consensus       227 L~l~~n~l~~l~~~~~~~~~L~~L  250 (254)
                      +.+..+ ++.+...+..+++|+.+
T Consensus       371 i~lp~~-~~~~~~~F~~c~~L~~I  393 (394)
T 4fs7_A          371 VELPKR-LEQYRYDFEDTTKFKWI  393 (394)
T ss_dssp             EEEEGG-GGGGGGGBCTTCEEEEE
T ss_pred             EEECCC-CEEhhheecCCCCCcEE
Confidence            887643 34444456677777654

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.69  E-value=1.3e-08  Score=84.06  Aligned_cols=184  Identities=13%  Similarity=0.170  Sum_probs=108.5

Q ss_pred             CceeeeeeCCCCCCC-CCCcchhhcchhhhcccccceehhhccCCc---e-----eecCCCCccCCcccccEEeccCCcC
Q 042890           47 AEVKYLHWHGYPLKS-LPSNDIEQLWDRVKRYSKLNQIIHAACHKL---I-----AKIPNPTLMPRMKKLVILNLRGSKS  117 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~-l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~---~-----~~~~~~~~~~~~~~L~~L~l~~~~~  117 (254)
                      ..++.|.+..+.+.. -....++.+..+...+++|+.|.+.+....   .     ..+..  .+..+++|+.|++++|..
T Consensus       107 ~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~--ll~~~P~L~~L~L~g~~~  184 (362)
T 2ra8_A          107 PSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSP--VLDAMPLLNNLKIKGTNN  184 (362)
T ss_dssp             GGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHH--HHHTCTTCCEEEEECCBT
T ss_pred             hhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHH--HHhcCCCCcEEEEeCCCC
Confidence            456677777553220 000123444455667889999877643110   0     11222  445678999999988742


Q ss_pred             CCccCCCCCCCCcccEEeccCCCCCccc----cccccCCcCeEeccc--cc------ccccchhh--hhccccCEEeccC
Q 042890          118 LKSLPSGIFNLEFLTKLDLSGCSKLKRL----PEISSGNISWLFLRG--IA------IEELPSSI--ERQLRLSWLDLSD  183 (254)
Q Consensus       118 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~----p~~~~~~L~~L~l~~--~~------~~~l~~~~--~~~~~L~~L~l~~  183 (254)
                      . .++. + .+++|+.|++..|.+....    ....+++|+.|++..  +.      +..+...+  ..+++|++|++.+
T Consensus       185 l-~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~  261 (362)
T 2ra8_A          185 L-SIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVD  261 (362)
T ss_dssp             C-BCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEES
T ss_pred             c-eecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCC
Confidence            2 2333 3 3788999999877644321    111236888887742  11      22222222  2467899999988


Q ss_pred             CcCcccCCccc---cCCCccCEEEecCCCCCcc----cCccccCCCCCcEEeccCCCCC
Q 042890          184 CKRLKSLPSSL---YRLKSLGILDLHGCSNLQR----LPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       184 n~~~~~~~~~l---~~l~~L~~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      |.+.+.....+   ..+++|+.|+++.|.+.+.    ++..+.++++|+.|+++.|.+.
T Consensus       262 ~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          262 AEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             CTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             CCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCC
Confidence            88765332222   2467899999988776543    3333345788999999888875

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.62  E-value=2.8e-08  Score=82.09  Aligned_cols=207  Identities=15%  Similarity=0.136  Sum_probs=121.0

Q ss_pred             cceEEEeeccccCCCcc--CcccccCCCCC-CceeeeeeCCCCCCCCCCc--chhhcchhhhcccccceehhhccCCcee
Q 042890           19 KLRFLKFYSSLFNGENK--CKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN--DIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~--~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~--~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      .++.|.+..+...+...  ....+.+.+.. ++|+.|.+.+...+.....  +...+...+..+|+|+.|.++++..  .
T Consensus       108 ~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~--l  185 (362)
T 2ra8_A          108 SLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNN--L  185 (362)
T ss_dssp             GCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBT--C
T ss_pred             hcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCC--c
Confidence            46677776554321100  00112222334 7899998876533211100  0012223467889999999987642  2


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCccCCCC--CCCCcccEEeccCC--CCCc-----c----ccccccCCcCeEeccc
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKSLPSGI--FNLEFLTKLDLSGC--SKLK-----R----LPEISSGNISWLFLRG  160 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~--~~l~~L~~L~l~~~--~~~~-----~----~p~~~~~~L~~L~l~~  160 (254)
                      .++   .+ .+++|++|++..|.+.......+  ..+++|+.|+++.+  ...+     .    +....+++|+.|.+.+
T Consensus       186 ~l~---~~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~  261 (362)
T 2ra8_A          186 SIG---KK-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVD  261 (362)
T ss_dssp             BCC---SC-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEES
T ss_pred             eec---cc-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCC
Confidence            333   33 37899999999887543222223  26889999988531  1111     1    1112247999999999


Q ss_pred             ccccc-cchhh---hhccccCEEeccCCcCccc----CCccccCCCccCEEEecCCCCCcccCccccC-CCCCcEEeccC
Q 042890          161 IAIEE-LPSSI---ERQLRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSNLQRLPECLGQ-LSSPITCNLAK  231 (254)
Q Consensus       161 ~~~~~-l~~~~---~~~~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~-l~~L~~L~l~~  231 (254)
                      |.++. .+..+   ..+++|++|+++.|.+.+.    ++..+..+++|+.|++++|.+.+.....+.. +  ...++++.
T Consensus       262 ~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al--g~~~~~~~  339 (362)
T 2ra8_A          262 AEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSL--PMKIDVSD  339 (362)
T ss_dssp             CTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHHHC--CSEEECCS
T ss_pred             CCCchHHHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHHHc--CCEEEecC
Confidence            88772 22222   2478999999999987663    3333456789999999998776543333332 2  34577776


Q ss_pred             CC
Q 042890          232 TN  233 (254)
Q Consensus       232 n~  233 (254)
                      +.
T Consensus       340 ~~  341 (362)
T 2ra8_A          340 SQ  341 (362)
T ss_dssp             BC
T ss_pred             Cc
Confidence            65

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.50  E-value=6.5e-06  Score=68.72  Aligned_cols=80  Identities=14%  Similarity=-0.044  Sum_probs=50.4

Q ss_pred             hhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC-hhhhhhcccCc
Q 042890          171 ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP-ESIIQLFVSGY  249 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~-~~~~~~~~L~~  249 (254)
                      ..+.+|+.+.+..+ +...-..+|.++.+|+.+++.. .+...-..+|.+|.+|+.+.+..+ ++.+. .++..|++|++
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~~  370 (394)
T 4fs7_A          294 YGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKK  370 (394)
T ss_dssp             TTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCE
T ss_pred             cccccccccccccc-cceechhhhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCE
Confidence            34455555555432 2222234567778888888864 344444567888888888888765 66553 45777888888


Q ss_pred             cccc
Q 042890          250 LLLS  253 (254)
Q Consensus       250 L~ls  253 (254)
                      +++.
T Consensus       371 i~lp  374 (394)
T 4fs7_A          371 VELP  374 (394)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            7663

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.45  E-value=8.3e-08  Score=71.69  Aligned_cols=112  Identities=14%  Similarity=0.025  Sum_probs=81.1

Q ss_pred             CCCCCCcccEEeccCC-CCCcc----cccc--ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc--
Q 042890          124 GIFNLEFLTKLDLSGC-SKLKR----LPEI--SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS--  189 (254)
Q Consensus       124 ~~~~l~~L~~L~l~~~-~~~~~----~p~~--~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~--  189 (254)
                      .+...+.|+.|++++| .+...    +...  ..+.|++|++++|.++     .+...+...++|++|++++|.+.+.  
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~  110 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI  110 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHH
Confidence            3556788999999998 54432    1111  1267899999999887     2455566778899999999987763  


Q ss_pred             --CCccccCCCccCEEEe--cCCCCCcc----cCccccCCCCCcEEeccCCCCC
Q 042890          190 --LPSSLYRLKSLGILDL--HGCSNLQR----LPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       190 --~~~~l~~l~~L~~L~l--~~~~~~~~----~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                        +...+...++|+.|++  ++|.+...    +...+...+.|+.|++++|.+.
T Consensus       111 ~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          111 LALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence              4456677788999999  77777543    3444556688999999999875

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.44  E-value=2.2e-05  Score=65.50  Aligned_cols=81  Identities=14%  Similarity=0.094  Sum_probs=46.6

Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC-hhhhhhcccC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP-ESIIQLFVSG  248 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~-~~~~~~~~L~  248 (254)
                      +.++++|+.+.+.. .+...-..+|.++.+|+.+.+.. .+...-..+|.+|.+|+.+.+..+ ++.+. .++..|++|+
T Consensus       284 F~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L~  360 (394)
T 4gt6_A          284 FMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPE-GITQILDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTALN  360 (394)
T ss_dssp             TTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCC
T ss_pred             cccccccccccCCC-cccccCceeecCCCCcCEEEeCC-cccEehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCC
Confidence            34445555555542 22222223566777777777764 344444556777777777777543 55553 3466677777


Q ss_pred             ccccc
Q 042890          249 YLLLS  253 (254)
Q Consensus       249 ~L~ls  253 (254)
                      .+++.
T Consensus       361 ~i~~~  365 (394)
T 4gt6_A          361 NIEYS  365 (394)
T ss_dssp             EEEES
T ss_pred             EEEEC
Confidence            77654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.41  E-value=6.2e-08  Score=72.36  Aligned_cols=111  Identities=13%  Similarity=0.092  Sum_probs=68.6

Q ss_pred             cCCcccccEEeccCC-cCCC----ccCCCCCCCCcccEEeccCCCCCccc----ccc--ccCCcCeEeccccccc-----
Q 042890          101 MPRMKKLVILNLRGS-KSLK----SLPSGIFNLEFLTKLDLSGCSKLKRL----PEI--SSGNISWLFLRGIAIE-----  164 (254)
Q Consensus       101 ~~~~~~L~~L~l~~~-~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~~----p~~--~~~~L~~L~l~~~~~~-----  164 (254)
                      +...+.|++|++++| .+..    .+...+...++|++|++++|.+...-    ...  ..+.|++|++++|.++     
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~  111 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            334556666666665 4321    12233344556666666666543321    111  0156777777777776     


Q ss_pred             ccchhhhhccccCEEec--cCCcCccc----CCccccCCCccCEEEecCCCCC
Q 042890          165 ELPSSIERQLRLSWLDL--SDCKRLKS----LPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       165 ~l~~~~~~~~~L~~L~l--~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                      .+...+...++|++|++  ++|.+.+.    +...+...++|+.|++++|.+.
T Consensus       112 ~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          112 ALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            25556777789999999  88887663    3345666789999999998653

>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=98.24  E-value=4.6e-07  Score=66.55  Aligned_cols=89  Identities=11%  Similarity=0.135  Sum_probs=55.1

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCC----cccccEEeccCCcCCCc-c
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPR----MKKLVILNLRGSKSLKS-L  121 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~----~~~L~~L~l~~~~~~~~-~  121 (254)
                      ..|+.|++++|.   +.+.+++.    +..+++|++|++++|....+.--.  .++.    +++|++|++++|.-+.. -
T Consensus        61 ~~L~~LDLs~~~---Itd~GL~~----L~~~~~L~~L~L~~C~~ItD~gL~--~L~~~~~~~~~L~~L~Ls~C~~ITD~G  131 (176)
T 3e4g_A           61 YKIQAIDATDSC---IMSIGFDH----MEGLQYVEKIRLCKCHYIEDGCLE--RLSQLENLQKSMLEMEIISCGNVTDKG  131 (176)
T ss_dssp             CCEEEEEEESCC---CCGGGGGG----GTTCSCCCEEEEESCTTCCHHHHH--HHHTCHHHHHHCCEEEEESCTTCCHHH
T ss_pred             ceEeEEeCcCCC---ccHHHHHH----hcCCCCCCEEEeCCCCccCHHHHH--HHHhcccccCCCCEEEcCCCCcCCHHH
Confidence            678888888875   33433333    356778888888887755443222  3433    24688888888763322 1


Q ss_pred             CCCCCCCCcccEEeccCCCCCcc
Q 042890          122 PSGIFNLEFLTKLDLSGCSKLKR  144 (254)
Q Consensus       122 ~~~~~~l~~L~~L~l~~~~~~~~  144 (254)
                      -..+..+++|+.|++++|...+.
T Consensus       132 l~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          132 IIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHHGGGCTTCCEEEEESCTTCCC
T ss_pred             HHHHhcCCCCCEEECCCCCCCCc
Confidence            12355678888888888765543

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.19  E-value=2.2e-06  Score=67.51  Aligned_cols=80  Identities=18%  Similarity=0.072  Sum_probs=58.9

Q ss_pred             hhccccCEEeccCCcCcc--cCCccccCCCccCEEEecCCCCCcc-cCccccCCCCCcEEeccCCCCC-CCCh-------
Q 042890          171 ERQLRLSWLDLSDCKRLK--SLPSSLYRLKSLGILDLHGCSNLQR-LPECLGQLSSPITCNLAKTNIE-RIPE-------  239 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~n~l~-~l~~-------  239 (254)
                      ..+++|+.|++++|.+.+  .++..+..+++|+.|++++|.+.+. ....+..+ .|++|++.+|++. .+|.       
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l-~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGL-KLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTS-CCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccC-CcceEEccCCcCccccCcchhHHHH
Confidence            567889999999998877  5556667889999999998877654 11223334 8999999999986 4542       


Q ss_pred             hhhhhcccCccc
Q 042890          240 SIIQLFVSGYLL  251 (254)
Q Consensus       240 ~~~~~~~L~~L~  251 (254)
                      .+..+|+|+.||
T Consensus       246 il~~~P~L~~LD  257 (267)
T 3rw6_A          246 IRERFPKLLRLD  257 (267)
T ss_dssp             HHHHCTTCCEES
T ss_pred             HHHHCcccCeEC
Confidence            356788888776

>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=98.12  E-value=5.7e-07  Score=66.07  Aligned_cols=85  Identities=14%  Similarity=0.103  Sum_probs=62.8

Q ss_pred             CCcCeEeccccccccc-chhhhhccccCEEeccCCc-CcccCCccccCC----CccCEEEecCCC-CCcccCccccCCCC
Q 042890          151 GNISWLFLRGIAIEEL-PSSIERQLRLSWLDLSDCK-RLKSLPSSLYRL----KSLGILDLHGCS-NLQRLPECLGQLSS  223 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l-~~~~~~~~~L~~L~l~~n~-~~~~~~~~l~~l----~~L~~L~l~~~~-~~~~~~~~~~~l~~  223 (254)
                      ..|+.|++++|.++.. -..+.++++|++|++++|. +++.-...+..+    ++|+.|++++|. +.+.-...+.++++
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            5799999999988721 2335788999999999997 444333345553    479999999996 44443345667999


Q ss_pred             CcEEeccCCC-CC
Q 042890          224 PITCNLAKTN-IE  235 (254)
Q Consensus       224 L~~L~l~~n~-l~  235 (254)
                      |+.|++++|. ++
T Consensus       141 L~~L~L~~c~~It  153 (176)
T 3e4g_A          141 LKYLFLSDLPGVK  153 (176)
T ss_dssp             CCEEEEESCTTCC
T ss_pred             CCEEECCCCCCCC
Confidence            9999999986 44

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.11  E-value=0.00042  Score=57.70  Aligned_cols=81  Identities=7%  Similarity=0.050  Sum_probs=54.8

Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC-hhhhhhcccC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP-ESIIQLFVSG  248 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~-~~~~~~~~L~  248 (254)
                      |..+.+|+.+.+..+- ...-..++.+++.|+.+.+.. .+...-..+|..|.+|+.+.+..+ ++.+. .++..|.+|+
T Consensus       261 F~~c~~L~~i~lp~~~-~~I~~~aF~~c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L~  337 (394)
T 4gt6_A          261 FDSCAYLASVKMPDSV-VSIGTGAFMNCPALQDIEFSS-RITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQLE  337 (394)
T ss_dssp             TTTCSSCCEEECCTTC-CEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCC
T ss_pred             eeecccccEEeccccc-ceecCcccccccccccccCCC-cccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCCCC
Confidence            4556677777775432 222234577788888888864 454555567888999999999754 55553 4577889998


Q ss_pred             ccccc
Q 042890          249 YLLLS  253 (254)
Q Consensus       249 ~L~ls  253 (254)
                      .+.+.
T Consensus       338 ~i~ip  342 (394)
T 4gt6_A          338 RIAIP  342 (394)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            88763

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=98.03  E-value=0.00094  Score=55.14  Aligned_cols=21  Identities=10%  Similarity=0.159  Sum_probs=16.3

Q ss_pred             eeCCcccCCCCcceEEEeecc
Q 042890            8 RLNPNTFTKMPKLRFLKFYSS   28 (254)
Q Consensus         8 ~~~~~~~~~~~~L~~L~l~~~   28 (254)
                      .+...+|..+.+|+.+.+..+
T Consensus        59 ~Ig~~aF~~C~~L~~I~lp~~   79 (379)
T 4h09_A           59 SIGEANFNSCYNMTKVTVAST   79 (379)
T ss_dssp             EECTTTTTTCTTCCEEEECTT
T ss_pred             ChHHHHhhCCCCCCEEEeCCc
Confidence            345678999999999998654

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.90  E-value=1.7e-05  Score=62.40  Aligned_cols=77  Identities=19%  Similarity=0.160  Sum_probs=55.9

Q ss_pred             CCcCeEeccccccccc---chhhhhccccCEEeccCCcCcccCCccccCCC--ccCEEEecCCCCCcccCc-------cc
Q 042890          151 GNISWLFLRGIAIEEL---PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLK--SLGILDLHGCSNLQRLPE-------CL  218 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l---~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~--~L~~L~l~~~~~~~~~~~-------~~  218 (254)
                      +.|+.|++++|.++.+   |..+..+++|+.|++++|.+.+.  ..+..+.  +|+.|++.+|.+.+.+|.       .+
T Consensus       170 ~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~il  247 (267)
T 3rw6_A          170 PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAIR  247 (267)
T ss_dssp             TTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHHH
T ss_pred             CCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCccccCcchhHHHHHH
Confidence            5777777887877754   35567889999999999987764  2233333  899999999888765542       35


Q ss_pred             cCCCCCcEEec
Q 042890          219 GQLSSPITCNL  229 (254)
Q Consensus       219 ~~l~~L~~L~l  229 (254)
                      ..+++|+.||-
T Consensus       248 ~~~P~L~~LDg  258 (267)
T 3rw6_A          248 ERFPKLLRLDG  258 (267)
T ss_dssp             HHCTTCCEESS
T ss_pred             HHCcccCeECC
Confidence            56888888873

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=97.45  E-value=0.0084  Score=49.35  Aligned_cols=127  Identities=9%  Similarity=0.032  Sum_probs=61.7

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccch-hhhhccc
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPS-SIERQLR  175 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~-~~~~~~~  175 (254)
                      .+..+..++.+.+..+. ...-...+..+..|+.+.+..+  ...+....   ...++.+.+..+ ++.++. .+.++++
T Consensus       212 ~f~~~~~l~~i~~~~~~-~~i~~~~f~~~~~L~~i~lp~~--v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~  287 (379)
T 4h09_A          212 GFSYGKNLKKITITSGV-TTLGDGAFYGMKALDEIAIPKN--VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSN  287 (379)
T ss_dssp             TTTTCSSCSEEECCTTC-CEECTTTTTTCSSCCEEEECTT--CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTT
T ss_pred             ccccccccceeeeccce-eEEccccccCCccceEEEcCCC--ccEeCccccceeehhcccccccc-ceeccccccccccc
Confidence            33444555555554431 1111223445555666655442  11111111   134555555432 333433 2555666


Q ss_pred             cCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccC
Q 042890          176 LSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       176 L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      |+.+.+.++.+...-..+|.++.+|+.+.+.. ++...-..+|.+|.+|+.+.+..
T Consensus       288 L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~-~l~~I~~~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          288 LTKVVMDNSAIETLEPRVFMDCVKLSSVTLPT-ALKTIQVYAFKNCKALSTISYPK  342 (379)
T ss_dssp             CCEEEECCTTCCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCCCCCCT
T ss_pred             cccccccccccceehhhhhcCCCCCCEEEcCc-cccEEHHHHhhCCCCCCEEEECC
Confidence            77776665544333334566667777776654 23333445666666666666643

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=97.36  E-value=0.00012  Score=54.62  Aligned_cols=109  Identities=17%  Similarity=0.104  Sum_probs=69.9

Q ss_pred             CCCCcccEEeccCC-CCCcc----cccc--ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc----
Q 042890          126 FNLEFLTKLDLSGC-SKLKR----LPEI--SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS----  189 (254)
Q Consensus       126 ~~l~~L~~L~l~~~-~~~~~----~p~~--~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~----  189 (254)
                      ..-+.|+.|+++++ .+...    +...  .-+.|+.|++++|.++     .+...+...+.|++|+++.|.+.+.    
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~a  117 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLAR  117 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHH
Confidence            34567889999875 33221    1110  1267888888888877     3555666777888999988887652    


Q ss_pred             CCccccCCCccCEEEecCCCC--Cc-----ccCccccCCCCCcEEeccCCCC
Q 042890          190 LPSSLYRLKSLGILDLHGCSN--LQ-----RLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       190 ~~~~l~~l~~L~~L~l~~~~~--~~-----~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      +...+..-..|+.|++++|..  .+     .+.+.+..-+.|+.|++..+.+
T Consensus       118 la~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          118 LLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence            334455666788888875422  22     2334455567888888877664

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=96.84  E-value=0.00083  Score=50.13  Aligned_cols=106  Identities=13%  Similarity=0.030  Sum_probs=59.3

Q ss_pred             CcccccEEeccCC-cCCC----ccCCCCCCCCcccEEeccCCCCCccccccc------cCCcCeEeccccccc-----cc
Q 042890          103 RMKKLVILNLRGS-KSLK----SLPSGIFNLEFLTKLDLSGCSKLKRLPEIS------SGNISWLFLRGIAIE-----EL  166 (254)
Q Consensus       103 ~~~~L~~L~l~~~-~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~------~~~L~~L~l~~~~~~-----~l  166 (254)
                      .-+.|+.|+++++ .+..    .+.+.+..-..|+.|++++|.+...-....      -+.|+.|++..|.|+     .+
T Consensus        39 ~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~al  118 (197)
T 1pgv_A           39 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL  118 (197)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             cCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHH
Confidence            3456777777764 4321    123334444567777777776543322111      156777777777776     24


Q ss_pred             chhhhhccccCEEeccCCc---Ccc----cCCccccCCCccCEEEecCC
Q 042890          167 PSSIERQLRLSWLDLSDCK---RLK----SLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       167 ~~~~~~~~~L~~L~l~~n~---~~~----~~~~~l~~l~~L~~L~l~~~  208 (254)
                      ...+...+.|+.|++++|.   +..    .+...+..-+.|+.++++.+
T Consensus       119 a~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          119 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence            4445555667777776542   222    23334455567777777654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.42  E-value=0.0041  Score=43.12  Aligned_cols=54  Identities=19%  Similarity=0.168  Sum_probs=33.3

Q ss_pred             EEeccCCCCC-ccccccccCCcCeEecccccccccchh-hhhccccCEEeccCCcC
Q 042890          133 KLDLSGCSKL-KRLPEISSGNISWLFLRGIAIEELPSS-IERQLRLSWLDLSDCKR  186 (254)
Q Consensus       133 ~L~l~~~~~~-~~~p~~~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~  186 (254)
                      .++.+++... ..+|.....+++.|++++|.++.+|.. +..+++|+.|++++|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCCCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            4555553332 155654446677777777777777654 55666777777777653

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.22  E-value=0.01  Score=41.03  Aligned_cols=54  Identities=17%  Similarity=0.091  Sum_probs=25.3

Q ss_pred             eEeccccccc--ccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCC
Q 042890          155 WLFLRGIAIE--ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSN  210 (254)
Q Consensus       155 ~L~l~~~~~~--~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~  210 (254)
                      .++.++++++  .+|..+.  ++++.|++++|.+...-+..|..+++|+.|++.+|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            3444444444  4443221  2455555555554443333444555555555555443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	254
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	8e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.003
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.001

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 37.9 bits (86), Expect = 8e-04
 Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 7/91 (7%)

Query: 159 RGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECL 218
           R +A+  L   ++RQ     L+L++   L SLP     L+SL       C++L  LPE  
Sbjct: 25  REMAVSRLRDCLDRQAHE--LELNNLG-LSSLPELPPHLESLVA----SCNSLTELPELP 77

Query: 219 GQLSSPITCNLAKTNIERIPESIIQLFVSGY 249
             L S +  N     +  +P  +  L VS  
Sbjct: 78  QSLKSLLVDNNNLKALSDLPPLLEYLGVSNN 108

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 36.0 bits (81), Expect = 0.003
 Identities = 28/157 (17%), Positives = 44/157 (28%), Gaps = 10/157 (6%)

Query: 25  FYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQII 84
               L        +          ++ L+     L  LP       +  V          
Sbjct: 202 NLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSE 261

Query: 85  HAACHKLIAKIPNPTLM--PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKL 142
                  +    N           L  LN+  +K L  LP+    LE   +L  S    L
Sbjct: 262 LPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK-LIELPALPPRLE---RLIASFN-HL 316

Query: 143 KRLPEISSGNISWLFLRGIAIEELPSSIE--RQLRLS 177
             +PE    N+  L +    + E P   E    LR++
Sbjct: 317 AEVPE-LPQNLKQLHVEYNPLREFPDIPESVEDLRMN 352

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 37.3 bits (85), Expect = 0.001
 Identities = 23/137 (16%), Positives = 51/137 (37%), Gaps = 2/137 (1%)

Query: 107 LVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NISWLFLRGIAIE 164
             +L+L+ +K  +       NL+ L  L L      K  P   +    +  L+L    ++
Sbjct: 33  TALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK 92

Query: 165 ELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSP 224
           ELP  + + L+   +  ++  +++    +      +  L  +   +          +   
Sbjct: 93  ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL 152

Query: 225 ITCNLAKTNIERIPESI 241
               +A TNI  IP+ +
Sbjct: 153 SYIRIADTNITTIPQGL 169

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	254
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.88
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.86
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.85
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.84
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.83
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.83
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.82
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.82
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.79
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.76
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.74
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.73
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.71
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.7
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.7
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.69
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.68
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.6
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.53
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.53
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.51
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.51
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.51
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.47
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.46
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.46
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.44
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.39
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.34
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.26
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.21
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.21
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.17
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.16
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.07
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.01
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.42
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.95
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.84
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.71
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.46
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.13

>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=99.88  E-value=6.5e-23  Score=165.30  Aligned_cols=225  Identities=16%  Similarity=0.154  Sum_probs=133.3

Q ss_pred             cccCCCCcceEEEeec-cccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccC
Q 042890           12 NTFTKMPKLRFLKFYS-SLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACH   89 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~-~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~   89 (254)
                      ++|+++++|++|++++ |.+.|      .+|..+.. ++|++|++++|.+..++..       .+..+..|+.++++.+.
T Consensus        70 ~~l~~L~~L~~L~Ls~~N~l~g------~iP~~i~~L~~L~~L~Ls~N~l~~~~~~-------~~~~~~~L~~l~l~~N~  136 (313)
T d1ogqa_          70 SSLANLPYLNFLYIGGINNLVG------PIPPAIAKLTQLHYLYITHTNVSGAIPD-------FLSQIKTLVTLDFSYNA  136 (313)
T ss_dssp             GGGGGCTTCSEEEEEEETTEES------CCCGGGGGCTTCSEEEEEEECCEEECCG-------GGGGCTTCCEEECCSSE
T ss_pred             hHHhcCcccccccccccccccc------ccccccccccccchhhhccccccccccc-------cccchhhhccccccccc
Confidence            3445555555555543 33311      23334444 5555555555544333221       13344455555554332


Q ss_pred             CceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcc-cEEeccCCCCCccccccc-cCCcCeEeccccccc-cc
Q 042890           90 KLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFL-TKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIE-EL  166 (254)
Q Consensus        90 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L-~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~-~l  166 (254)
                      . ...+|.  .+..++.++.+++++|.+.+.+|..+..+.++ +.+++++|++.+..|... ......+++..+... .+
T Consensus       137 ~-~~~~p~--~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~  213 (313)
T d1ogqa_         137 L-SGTLPP--SISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDA  213 (313)
T ss_dssp             E-ESCCCG--GGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECC
T ss_pred             c-cccCch--hhccCcccceeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            1 223333  45555555555555555444455444444443 445555544443333322 123334555555444 34


Q ss_pred             chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhc
Q 042890          167 PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLF  245 (254)
Q Consensus       167 ~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~  245 (254)
                      |..+...++++.+++++|.+.+.++ .++.+++|+.|++++|++.+.+|..++++++|+.|++++|.+. .+|. +.+++
T Consensus       214 ~~~~~~~~~l~~l~~~~~~l~~~~~-~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~  291 (313)
T d1ogqa_         214 SVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQ  291 (313)
T ss_dssp             GGGCCTTSCCSEEECCSSEECCBGG-GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGG
T ss_pred             ccccccccccccccccccccccccc-ccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCC-cccCC
Confidence            5556677888999999888766654 5788899999999999888889999999999999999999998 7775 57788


Q ss_pred             ccCcccccC
Q 042890          246 VSGYLLLSY  254 (254)
Q Consensus       246 ~L~~L~ls~  254 (254)
                      +|+.+++++
T Consensus       292 ~L~~l~l~~  300 (313)
T d1ogqa_         292 RFDVSAYAN  300 (313)
T ss_dssp             GSCGGGTCS
T ss_pred             CCCHHHhCC
Confidence            888888764

>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=99.86  E-value=2.1e-21  Score=156.31  Aligned_cols=221  Identities=16%  Similarity=0.191  Sum_probs=177.9

Q ss_pred             CCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCC-CCCC-CCCCcchhhcchhhhcccccceehhhccCCcee
Q 042890           17 MPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHG-YPLK-SLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIA   93 (254)
Q Consensus        17 ~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~-~~~~-~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~   93 (254)
                      ..+++.|+++++.+.+.    ..+|..+.. ++|++|+|.+ |.+. .+|+.        +..+++|++|+++++.. .+
T Consensus        49 ~~~v~~L~L~~~~l~g~----~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~--------i~~L~~L~~L~Ls~N~l-~~  115 (313)
T d1ogqa_          49 TYRVNNLDLSGLNLPKP----YPIPSSLANLPYLNFLYIGGINNLVGPIPPA--------IAKLTQLHYLYITHTNV-SG  115 (313)
T ss_dssp             CCCEEEEEEECCCCSSC----EECCGGGGGCTTCSEEEEEEETTEESCCCGG--------GGGCTTCSEEEEEEECC-EE
T ss_pred             cEEEEEEECCCCCCCCC----CCCChHHhcCccccccccccccccccccccc--------cccccccchhhhccccc-cc
Confidence            34789999999987544    346677777 9999999986 5543 67765        88999999999998763 23


Q ss_pred             ecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCC-cCeEecccccccc-cchh
Q 042890           94 KIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGN-ISWLFLRGIAIEE-LPSS  169 (254)
Q Consensus        94 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~-L~~L~l~~~~~~~-l~~~  169 (254)
                      ..+.  .+..+..|+.+++++|.+...+|..+..+++++.+++++|...+..|...  ... ++.+.+.+|.++. .|..
T Consensus       116 ~~~~--~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~  193 (313)
T d1ogqa_         116 AIPD--FLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT  193 (313)
T ss_dssp             ECCG--GGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG
T ss_pred             cccc--cccchhhhcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccc
Confidence            3343  67788999999999998888888889999999999999988877777654  233 4788889998884 4545


Q ss_pred             hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC-CCChhhhhhcccC
Q 042890          170 IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE-RIPESIIQLFVSG  248 (254)
Q Consensus       170 ~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~-~l~~~~~~~~~L~  248 (254)
                      +..+ ....++++.+...+.++..+..++.++.+++.+|.+...++ .+..+++|+.|++++|.+. .+|.+++++++|+
T Consensus       194 ~~~l-~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~-~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~  271 (313)
T d1ogqa_         194 FANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLH  271 (313)
T ss_dssp             GGGC-CCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG-GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCC
T ss_pred             cccc-ccccccccccccccccccccccccccccccccccccccccc-ccccccccccccCccCeecccCChHHhCCCCCC
Confidence            5544 45579999988888888888899999999999987766554 5778899999999999998 8999999999999


Q ss_pred             cccccC
Q 042890          249 YLLLSY  254 (254)
Q Consensus       249 ~L~ls~  254 (254)
                      +|++++
T Consensus       272 ~L~Ls~  277 (313)
T d1ogqa_         272 SLNVSF  277 (313)
T ss_dssp             EEECCS
T ss_pred             EEECcC
Confidence            999975

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3e-20  Score=146.20  Aligned_cols=199  Identities=19%  Similarity=0.138  Sum_probs=157.8

Q ss_pred             CCCCcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           15 TKMPKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        15 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      .+...+.+.+.+++.+       ..+|..+. +++++|+|++|.++.++..       ++..+++|++|+++++.  +..
T Consensus         7 ~~~~~~~~v~C~~~~L-------~~iP~~lp-~~l~~L~Ls~N~i~~l~~~-------~f~~l~~L~~L~L~~N~--l~~   69 (266)
T d1p9ag_           7 SKVASHLEVNCDKRNL-------TALPPDLP-KDTTILHLSENLLYTFSLA-------TLMPYTRLTQLNLDRAE--LTK   69 (266)
T ss_dssp             ECSTTCCEEECTTSCC-------SSCCSCCC-TTCCEEECTTSCCSEEEGG-------GGTTCTTCCEEECTTSC--CCE
T ss_pred             cccCCCeEEEccCCCC-------CeeCcCcC-cCCCEEECcCCcCCCcCHH-------Hhhcccccccccccccc--ccc
Confidence            3455566667666666       34565443 6799999999998877643       37789999999999775  456


Q ss_pred             cCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hh
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IE  171 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~  171 (254)
                      ++   .++.+++|++|++++|.+. ..+..+..+++|+.|++++|......+...  ..+++.+++.+|.++.+|.. +.
T Consensus        70 l~---~~~~l~~L~~L~Ls~N~l~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~  145 (266)
T d1p9ag_          70 LQ---VDGTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLT  145 (266)
T ss_dssp             EE---CCSCCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTT
T ss_pred             cc---ccccccccccccccccccc-ccccccccccccccccccccccceeeccccccccccccccccccccceecccccc
Confidence            65   5678999999999999854 456668889999999999987655433322  37888999999999988765 56


Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      .+++++.+++++|.+.+..+..+..+++|+.|++++|.+. .+|..+..+++|+.|++++|+..
T Consensus       146 ~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         146 PTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             TCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             ccccchhcccccccccccCccccccccccceeecccCCCc-ccChhHCCCCCCCEEEecCCCCC
Confidence            7889999999999988877777889999999999998875 67777778999999999999864

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1.5e-19  Score=143.47  Aligned_cols=200  Identities=17%  Similarity=0.121  Sum_probs=109.2

Q ss_pred             cceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec-
Q 042890           19 KLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI-   95 (254)
Q Consensus        19 ~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~-   95 (254)
                      .+++|++++|.|       ..++. .+.. +.|++|++++|.+..++..       .+..++.++.+....... ...+ 
T Consensus        33 ~~~~L~Ls~N~i-------~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~-------~~~~~~~~~~l~~~~~~~-~~~l~   97 (284)
T d1ozna_          33 ASQRIFLHGNRI-------SHVPAASFRACRNLTILWLHSNVLARIDAA-------AFTGLALLEQLDLSDNAQ-LRSVD   97 (284)
T ss_dssp             TCSEEECTTSCC-------CEECTTTTTTCTTCCEEECCSSCCCEECTT-------TTTTCTTCCEEECCSCTT-CCCCC
T ss_pred             CCCEEECcCCcC-------CCCCHHHhhccccccccccccccccccccc-------cccccccccccccccccc-ccccc
Confidence            456666666665       22222 3444 6666666666665554432       133444555554443222 2222 


Q ss_pred             CCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-hhhh
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIER  172 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~  172 (254)
                      +.  .|.++++|++|++.+|.+....+..+....+|+.+++++|.+....+...  ..+++.|++.+|.++.++. .+..
T Consensus        98 ~~--~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~  175 (284)
T d1ozna_          98 PA--TFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRG  175 (284)
T ss_dssp             TT--TTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTT
T ss_pred             ch--hhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhcc
Confidence            22  55666666666666665433333444455666666666655433222111  2456666666666665543 3455


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++|+.+++++|.+.+..|..|+++++|+.+++++|.+.+..+..+..+++|+.+++++|++.
T Consensus       176 l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         176 LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (284)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             ccccchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEecCCCCC
Confidence            666666666666666555566666666666666666665555555666666666666666653

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.83  E-value=3.3e-19  Score=142.77  Aligned_cols=132  Identities=21%  Similarity=0.183  Sum_probs=59.4

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-hhhhcccc
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIERQLRL  176 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~~~~L  176 (254)
                      .+..++.|+.+++.+|.+. .++..  .+++|+.|++++|......+...  .+.++.|.+++|.++.++. .+.++++|
T Consensus       145 ~~~~l~~L~~l~l~~n~l~-~l~~~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L  221 (305)
T d1xkua_         145 AFQGMKKLSYIRIADTNIT-TIPQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHL  221 (305)
T ss_dssp             GGGGCTTCCEEECCSSCCC-SCCSS--CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTC
T ss_pred             ccccccccCccccccCCcc-ccCcc--cCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccc
Confidence            3444455555555555422 22221  23455555555544333322211  1344555555555554422 34445555


Q ss_pred             CEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCc------cccCCCCCcEEeccCCCCC
Q 042890          177 SWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE------CLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       177 ~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~------~~~~l~~L~~L~l~~n~l~  235 (254)
                      ++|++++|++. .+|..+..+++|+.|++++|++...-..      .....++|+.+++.+|+++
T Consensus       222 ~~L~L~~N~L~-~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         222 RELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQ  285 (305)
T ss_dssp             CEEECCSSCCS-SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSC
T ss_pred             eeeeccccccc-ccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCcCc
Confidence            55555555433 3344455555555555555544322111      1223445555555555543

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.83  E-value=1.9e-19  Score=148.33  Aligned_cols=145  Identities=19%  Similarity=0.136  Sum_probs=95.6

Q ss_pred             CCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEeccc---------------------
Q 042890          102 PRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRG---------------------  160 (254)
Q Consensus       102 ~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~---------------------  160 (254)
                      ..+++|+.|++++|.+. .++ .+..+++|+.+++++|.+.+..+....++|+.+++++                     
T Consensus       216 ~~~~~L~~L~l~~n~l~-~~~-~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~  293 (384)
T d2omza2         216 GILTNLDELSLNGNQLK-DIG-TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELN  293 (384)
T ss_dssp             GGCTTCCEEECCSSCCC-CCG-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECC
T ss_pred             cccCCCCEEECCCCCCC-Ccc-hhhcccccchhccccCccCCCCcccccccCCEeeccCcccCCCCcccccccccccccc
Confidence            34455666666665532 222 2445555555555555433322222234444554444                     


Q ss_pred             -ccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCCh
Q 042890          161 -IAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE  239 (254)
Q Consensus       161 -~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~  239 (254)
                       |.++.++ .+..+++++.|++++|++.+..  .+..+++|+.|++++|.+.+ ++ .+..+++|+.|++++|.++.++.
T Consensus       294 ~n~l~~~~-~~~~~~~l~~L~ls~n~l~~l~--~l~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~  368 (384)
T d2omza2         294 ENQLEDIS-PISNLKNLTYLTLYFNNISDIS--PVSSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTP  368 (384)
T ss_dssp             SSCCSCCG-GGGGCTTCSEEECCSSCCSCCG--GGGGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGG
T ss_pred             cccccccc-ccchhcccCeEECCCCCCCCCc--ccccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChh
Confidence             4444332 3566778899999998876542  37889999999999987654 33 57889999999999999998865


Q ss_pred             hhhhhcccCcccccC
Q 042890          240 SIIQLFVSGYLLLSY  254 (254)
Q Consensus       240 ~~~~~~~L~~L~ls~  254 (254)
                       +.++++|++|++++
T Consensus       369 -l~~l~~L~~L~L~~  382 (384)
T d2omza2         369 -LANLTRITQLGLND  382 (384)
T ss_dssp             -GTTCTTCSEEECCC
T ss_pred             -hccCCCCCEeeCCC
Confidence             88899999999874

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.9e-19  Score=142.79  Aligned_cols=205  Identities=21%  Similarity=0.284  Sum_probs=163.5

Q ss_pred             cccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCC
Q 042890           39 SYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSL  118 (254)
Q Consensus        39 ~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~  118 (254)
                      .+|..+. +.+++|+|++|.++.+|+.       ++..+++|++++++++.  ...++. ..+..+..++.+....+...
T Consensus        25 ~iP~~ip-~~~~~L~Ls~N~i~~i~~~-------~f~~l~~L~~L~ls~n~--l~~i~~-~~~~~~~~~~~l~~~~~~~~   93 (284)
T d1ozna_          25 AVPVGIP-AASQRIFLHGNRISHVPAA-------SFRACRNLTILWLHSNV--LARIDA-AAFTGLALLEQLDLSDNAQL   93 (284)
T ss_dssp             SCCTTCC-TTCSEEECTTSCCCEECTT-------TTTTCTTCCEEECCSSC--CCEECT-TTTTTCTTCCEEECCSCTTC
T ss_pred             ccCCCCC-CCCCEEECcCCcCCCCCHH-------Hhhcccccccccccccc--cccccc-cccccccccccccccccccc
Confidence            3444332 6789999999999888764       37788999999999765  333332 26777889999887655444


Q ss_pred             Ccc-CCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccch-hhhhccccCEEeccCCcCcccCCccc
Q 042890          119 KSL-PSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPS-SIERQLRLSWLDLSDCKRLKSLPSSL  194 (254)
Q Consensus       119 ~~~-~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l~~n~~~~~~~~~l  194 (254)
                      ..+ +..+.++++|+.|++++|......+...  ..+|+.+++.+|.++.+|. .+..+++|+.|++++|.+....+..+
T Consensus        94 ~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f  173 (284)
T d1ozna_          94 RSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAF  173 (284)
T ss_dssp             CCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTT
T ss_pred             ccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhh
Confidence            444 6678889999999999987654333222  3788999999999998865 47788899999999999877777788


Q ss_pred             cCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC-hhhhhhcccCcccccC
Q 042890          195 YRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP-ESIIQLFVSGYLLLSY  254 (254)
Q Consensus       195 ~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~-~~~~~~~~L~~L~ls~  254 (254)
                      .++++|+.+++.+|.+....|..|..+++|+.|++++|.+..++ ..+..+++|++|++++
T Consensus       174 ~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~  234 (284)
T d1ozna_         174 RGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLND  234 (284)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCS
T ss_pred             ccccccchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEecC
Confidence            89999999999999998888999999999999999999999765 4678899999999874

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.82  E-value=2.8e-19  Score=143.22  Aligned_cols=219  Identities=14%  Similarity=0.130  Sum_probs=144.9

Q ss_pred             CcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      +++++|++++|.|       ..+++ .+.. ++|++|++.+|.+..+++.       .+..+++|++++++++.  ...+
T Consensus        31 ~~l~~L~Ls~N~i-------~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~-------~f~~l~~L~~L~l~~n~--l~~l   94 (305)
T d1xkua_          31 PDTALLDLQNNKI-------TEIKDGDFKNLKNLHTLILINNKISKISPG-------AFAPLVKLERLYLSKNQ--LKEL   94 (305)
T ss_dssp             TTCCEEECCSSCC-------CCBCTTTTTTCTTCCEEECCSSCCCCBCTT-------TTTTCTTCCEEECCSSC--CSBC
T ss_pred             CCCCEEECcCCcC-------CCcChhHhhccccccccccccccccccchh-------hhhCCCccCEecccCCc--cCcC
Confidence            4577777777766       33333 3455 6777777777766665432       25556666666666543  2333


Q ss_pred             CC--------------------CCccCCcccccEEeccCCcCC--CccCCCCCCCCcccEEeccCCCCCccccccccCCc
Q 042890           96 PN--------------------PTLMPRMKKLVILNLRGSKSL--KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNI  153 (254)
Q Consensus        96 ~~--------------------~~~~~~~~~L~~L~l~~~~~~--~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L  153 (254)
                      +.                    ...+.....++.++...+...  ...+..+..+++|+.+++++|... .+|....+++
T Consensus        95 ~~~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~-~l~~~~~~~L  173 (305)
T d1xkua_          95 PEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQGLPPSL  173 (305)
T ss_dssp             CSSCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCC-SCCSSCCTTC
T ss_pred             ccchhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCcc-ccCcccCCcc
Confidence            32                    001222333333444333211  112334556778888999887644 4555556889


Q ss_pred             CeEecccccccc-cchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC
Q 042890          154 SWLFLRGIAIEE-LPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       154 ~~L~l~~~~~~~-l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      +.|++.+|.... .+..+..++.++.|++++|.+.+..+..+.++++|+.|++++|.+. .+|.++..+++|+.|++++|
T Consensus       174 ~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~-~lp~~l~~l~~L~~L~Ls~N  252 (305)
T d1xkua_         174 TELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNN  252 (305)
T ss_dssp             SEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCS-SCCTTTTTCSSCCEEECCSS
T ss_pred             CEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeeeccccccc-ccccccccccCCCEEECCCC
Confidence            999999988774 4556788889999999999888777777888999999999998765 45778888999999999999


Q ss_pred             CCCCCChh-------hhhhcccCcccccC
Q 042890          233 NIERIPES-------IIQLFVSGYLLLSY  254 (254)
Q Consensus       233 ~l~~l~~~-------~~~~~~L~~L~ls~  254 (254)
                      .|+.++..       ....++|+.+++++
T Consensus       253 ~i~~i~~~~f~~~~~~~~~~~L~~L~L~~  281 (305)
T d1xkua_         253 NISAIGSNDFCPPGYNTKKASYSGVSLFS  281 (305)
T ss_dssp             CCCCCCTTSSSCSSCCTTSCCCSEEECCS
T ss_pred             ccCccChhhccCcchhcccCCCCEEECCC
Confidence            98876542       23457777777763

>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=99.79  E-value=2.7e-18  Score=131.66  Aligned_cols=186  Identities=17%  Similarity=0.219  Sum_probs=142.1

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|+.|++.+|.++.++.         +..+++|++|+++++.  ...+.   .+..++.++.+++++|.+ ..++ .+.
T Consensus        41 ~~L~~L~l~~~~i~~l~~---------l~~l~~L~~L~ls~n~--i~~~~---~l~~l~~l~~l~~~~n~~-~~i~-~l~  104 (227)
T d1h6ua2          41 DGITTLSAFGTGVTTIEG---------VQYLNNLIGLELKDNQ--ITDLA---PLKNLTKITELELSGNPL-KNVS-AIA  104 (227)
T ss_dssp             HTCCEEECTTSCCCCCTT---------GGGCTTCCEEECCSSC--CCCCG---GGTTCCSCCEEECCSCCC-SCCG-GGT
T ss_pred             CCcCEEECCCCCCCcchh---------HhcCCCCcEeecCCce--eeccc---cccccccccccccccccc-cccc-ccc
Confidence            778888888888777642         6778889999888765  33433   577888999999998874 3444 377


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      ++++|+.++++++......+-.....+..+.+.++.+...+. +..+++|+.|++++|.+.+..  .++++++|+.|+++
T Consensus       105 ~l~~L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~--~l~~l~~L~~L~Ls  181 (227)
T d1h6ua2         105 GLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLT--PLANLSKLTTLKAD  181 (227)
T ss_dssp             TCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCG--GGTTCTTCCEEECC
T ss_pred             ccccccccccccccccccchhccccchhhhhchhhhhchhhh-hccccccccccccccccccch--hhcccccceecccC
Confidence            888899999988765544333334677888888887765433 567789999999998865533  37889999999999


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcccccC
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~ls~  254 (254)
                      +|.+.+ ++ .+.++++|+.|++++|+++.++. +..+++|++|++++
T Consensus       182 ~n~l~~-l~-~l~~l~~L~~L~Ls~N~lt~i~~-l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         182 DNKISD-IS-PLASLPNLIEVHLKNNQISDVSP-LANTSNLFIVTLTN  226 (227)
T ss_dssp             SSCCCC-CG-GGGGCTTCCEEECTTSCCCBCGG-GTTCTTCCEEEEEE
T ss_pred             CCccCC-Ch-hhcCCCCCCEEECcCCcCCCCcc-cccCCCCCEEEeeC
Confidence            987654 33 36789999999999999998874 88999999999864

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.5e-17  Score=130.56  Aligned_cols=173  Identities=17%  Similarity=0.181  Sum_probs=140.4

Q ss_pred             CcceEEEeeccccCCCccCccccc-CCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeec
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYL-QDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKI   95 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~-~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~   95 (254)
                      +++++|++++|.|       ..++ ..+.. ++|++|++++|.++.++.         ...+++|++|+++++.  ....
T Consensus        31 ~~l~~L~Ls~N~i-------~~l~~~~f~~l~~L~~L~L~~N~l~~l~~---------~~~l~~L~~L~Ls~N~--l~~~   92 (266)
T d1p9ag_          31 KDTTILHLSENLL-------YTFSLATLMPYTRLTQLNLDRAELTKLQV---------DGTLPVLGTLDLSHNQ--LQSL   92 (266)
T ss_dssp             TTCCEEECTTSCC-------SEEEGGGGTTCTTCCEEECTTSCCCEEEC---------CSCCTTCCEEECCSSC--CSSC
T ss_pred             cCCCEEECcCCcC-------CCcCHHHhhcccccccccccccccccccc---------cccccccccccccccc--cccc
Confidence            4799999999998       2333 34666 999999999999887764         3568899999999775  4555


Q ss_pred             CCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchh-hhh
Q 042890           96 PNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSS-IER  172 (254)
Q Consensus        96 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~-~~~  172 (254)
                      +.  .+..+++|+.|++++|.+....+..+..+.+++.|++++|.+....+...  ...++.+++++|+++.++.. +..
T Consensus        93 ~~--~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~  170 (266)
T d1p9ag_          93 PL--LGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG  170 (266)
T ss_dssp             CC--CTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTT
T ss_pred             cc--ccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCcccccc
Confidence            65  78889999999999998766556667788999999999987554333322  37899999999999988765 788


Q ss_pred             ccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCC
Q 042890          173 QLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       173 ~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                      +++|++|++++|.+. .+|..+..+++|+.+++++|.+.
T Consensus       171 l~~L~~L~Ls~N~L~-~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         171 LENLDTLLLQENSLY-TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             CTTCCEEECCSSCCC-CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             ccccceeecccCCCc-ccChhHCCCCCCCEEEecCCCCC
Confidence            999999999999966 78888889999999999998754

>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=99.74  E-value=1.2e-17  Score=127.99  Aligned_cols=190  Identities=14%  Similarity=0.183  Sum_probs=148.8

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKL   91 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~   91 (254)
                      .++.+++|+.|++.+|.+       ..+ +++.. ++|++|++++|.+..+++         +..+++++.++++++.  
T Consensus        36 ~~~~l~~L~~L~l~~~~i-------~~l-~~l~~l~~L~~L~ls~n~i~~~~~---------l~~l~~l~~l~~~~n~--   96 (227)
T d1h6ua2          36 TQADLDGITTLSAFGTGV-------TTI-EGVQYLNNLIGLELKDNQITDLAP---------LKNLTKITELELSGNP--   96 (227)
T ss_dssp             CHHHHHTCCEEECTTSCC-------CCC-TTGGGCTTCCEEECCSSCCCCCGG---------GTTCCSCCEEECCSCC--
T ss_pred             CHHHcCCcCEEECCCCCC-------Ccc-hhHhcCCCCcEeecCCceeecccc---------cccccccccccccccc--
Confidence            345678999999999987       333 45666 999999999998876643         5788999999998765  


Q ss_pred             eeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhh
Q 042890           92 IAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIE  171 (254)
Q Consensus        92 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~  171 (254)
                      ...++   .+.+++.|+.++++++.... .+ .+...+.++.+.++++......+....++++.+.+.+|.++..+. ++
T Consensus        97 ~~~i~---~l~~l~~L~~l~l~~~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~-l~  170 (227)
T d1h6ua2          97 LKNVS---AIAGLQSIKTLDLTSTQITD-VT-PLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LA  170 (227)
T ss_dssp             CSCCG---GGTTCTTCCEEECTTSCCCC-CG-GGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GT
T ss_pred             ccccc---cccccccccccccccccccc-cc-hhccccchhhhhchhhhhchhhhhccccccccccccccccccchh-hc
Confidence            34444   67889999999999987533 22 256778899999988776554444445789999999998886654 77


Q ss_pred             hccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccC
Q 042890          172 RQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       172 ~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      ++++|+.|++++|++.+ ++ .++++++|+.|++++|++.+ ++ .+.++++|+.|++++
T Consensus       171 ~l~~L~~L~Ls~n~l~~-l~-~l~~l~~L~~L~Ls~N~lt~-i~-~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         171 NLSKLTTLKADDNKISD-IS-PLASLPNLIEVHLKNNQISD-VS-PLANTSNLFIVTLTN  226 (227)
T ss_dssp             TCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECTTSCCCB-CG-GGTTCTTCCEEEEEE
T ss_pred             ccccceecccCCCccCC-Ch-hhcCCCCCCEEECcCCcCCC-Cc-ccccCCCCCEEEeeC
Confidence            88999999999998654 44 38899999999999997655 33 378899999999863

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.73  E-value=6.8e-17  Score=132.76  Aligned_cols=192  Identities=19%  Similarity=0.225  Sum_probs=151.7

Q ss_pred             cccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCC
Q 042890           12 NTFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHK   90 (254)
Q Consensus        12 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~   90 (254)
                      ..+..+++++.+.++++.+.+.       .. ... ++|+.|++++|.++.++.         +..+++|+.++++++. 
T Consensus       191 ~~~~~l~~~~~l~l~~n~i~~~-------~~-~~~~~~L~~L~l~~n~l~~~~~---------l~~l~~L~~L~l~~n~-  252 (384)
T d2omza2         191 SVLAKLTNLESLIATNNQISDI-------TP-LGILTNLDELSLNGNQLKDIGT---------LASLTNLTDLDLANNQ-  252 (384)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCC-------GG-GGGCTTCCEEECCSSCCCCCGG---------GGGCTTCSEEECCSSC-
T ss_pred             cccccccccceeeccCCccCCC-------Cc-ccccCCCCEEECCCCCCCCcch---------hhcccccchhccccCc-
Confidence            4567788999999999887322       21 233 889999999998877653         6788999999999775 


Q ss_pred             ceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhh
Q 042890           91 LIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSI  170 (254)
Q Consensus        91 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~  170 (254)
                       ...++   .+..+++|++|+++++.+.+ +++ +..++.++.+++..|.+...........++.+++++|.++.+++ +
T Consensus       253 -l~~~~---~~~~~~~L~~L~l~~~~l~~-~~~-~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l~~-l  325 (384)
T d2omza2         253 -ISNLA---PLSGLTKLTELKLGANQISN-ISP-LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP-V  325 (384)
T ss_dssp             -CCCCG---GGTTCTTCSEEECCSSCCCC-CGG-GTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGG-G
T ss_pred             -cCCCC---cccccccCCEeeccCcccCC-CCc-cccccccccccccccccccccccchhcccCeEECCCCCCCCCcc-c
Confidence             34444   57789999999999988543 343 67888999999999876543323335899999999999998864 7


Q ss_pred             hhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCC
Q 042890          171 ERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKT  232 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n  232 (254)
                      ..+++|++|++++|++.+ ++ .++++++|+.|++++|++.+..|  +.++++|+.|++++|
T Consensus       326 ~~l~~L~~L~L~~n~l~~-l~-~l~~l~~L~~L~l~~N~l~~l~~--l~~l~~L~~L~L~~N  383 (384)
T d2omza2         326 SSLTKLQRLFFANNKVSD-VS-SLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGCTTCCEEECCSSCCCC-CG-GGGGCTTCCEEECCSSCCCBCGG--GTTCTTCSEEECCCE
T ss_pred             ccCCCCCEEECCCCCCCC-Ch-hHcCCCCCCEEECCCCcCCCChh--hccCCCCCEeeCCCC
Confidence            889999999999998654 43 58899999999999988776544  788999999999887

>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=99.71  E-value=7.8e-17  Score=121.94  Aligned_cols=163  Identities=21%  Similarity=0.186  Sum_probs=104.4

Q ss_pred             ccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCe
Q 042890           77 YSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISW  155 (254)
Q Consensus        77 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~  155 (254)
                      +.+|++++++++.  ...++   .+..+++|++|++++|.+.. ++. +..+++|+.|++++|.+.. ++... .++|+.
T Consensus        45 L~~L~~L~l~~~~--i~~l~---~l~~l~~L~~L~L~~n~i~~-l~~-~~~l~~L~~L~l~~n~i~~-l~~l~~l~~L~~  116 (210)
T d1h6ta2          45 LNSIDQIIANNSD--IKSVQ---GIQYLPNVTKLFLNGNKLTD-IKP-LANLKNLGWLFLDENKVKD-LSSLKDLKKLKS  116 (210)
T ss_dssp             HHTCCEEECTTSC--CCCCT---TGGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCC-GGGGTTCTTCCE
T ss_pred             hcCccEEECcCCC--CCCch---hHhhCCCCCEEeCCCccccC-ccc-cccCccccccccccccccc-cccccccccccc
Confidence            4455566655443  22332   44556666666666665432 332 4556666666666655332 33222 356666


Q ss_pred             EecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          156 LFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       156 L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +++.+|.+..++ .+..+++++.+++++|.+.+.  ..+..+++|+.+++++|.+.+. + .+..+++|+.|++++|.++
T Consensus       117 L~l~~~~~~~~~-~l~~l~~l~~l~~~~n~l~~~--~~~~~l~~L~~l~l~~n~l~~i-~-~l~~l~~L~~L~Ls~N~i~  191 (210)
T d1h6ta2         117 LSLEHNGISDIN-GLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQISDI-V-PLAGLTKLQNLYLSKNHIS  191 (210)
T ss_dssp             EECTTSCCCCCG-GGGGCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCCC-G-GGTTCTTCCEEECCSSCCC
T ss_pred             cccccccccccc-ccccccccccccccccccccc--cccccccccccccccccccccc-c-cccCCCCCCEEECCCCCCC
Confidence            666666665554 356677888888888776542  2366778888888888776543 2 2677888888888888888


Q ss_pred             CCChhhhhhcccCccccc
Q 042890          236 RIPESIIQLFVSGYLLLS  253 (254)
Q Consensus       236 ~l~~~~~~~~~L~~L~ls  253 (254)
                      .++ .+..+++|++|+++
T Consensus       192 ~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         192 DLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             BCG-GGTTCTTCSEEEEE
T ss_pred             CCh-hhcCCCCCCEEEcc
Confidence            776 47888888888876

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.70  E-value=2.9e-16  Score=117.71  Aligned_cols=142  Identities=18%  Similarity=0.196  Sum_probs=83.4

Q ss_pred             cCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEe
Q 042890          101 MPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLD  180 (254)
Q Consensus       101 ~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~  180 (254)
                      +..+++|++|++++|.+.. +++ +.++++|+.|++++|......+-...+.|+.++++++....++ .+..+++|+.|+
T Consensus        58 l~~l~nL~~L~Ls~N~l~~-~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~  134 (199)
T d2omxa2          58 VEYLNNLTQINFSNNQLTD-ITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLE  134 (199)
T ss_dssp             GGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEE
T ss_pred             cccCCCcCcCccccccccC-ccc-ccCCccccccccccccccccccccccccccccccccccccccc-ccchhhhhHHhh
Confidence            4444555555555554322 222 4455555555555544322211111245555555555544433 245667788888


Q ss_pred             ccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhcccCcc
Q 042890          181 LSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLFVSGYL  250 (254)
Q Consensus       181 l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L  250 (254)
                      +++|.+.. + +.+..+++++.+++.+|.+.+. + .+.++++|+.|++++|.++.++ .+..+++|++|
T Consensus       135 l~~n~l~~-~-~~l~~~~~L~~L~l~~n~l~~l-~-~l~~l~~L~~L~ls~N~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         135 LSSNTISD-I-SALSGLTSLQQLNFSSNQVTDL-K-PLANLTTLERLDISSNKVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             CCSSCCCC-C-GGGTTCTTCSEEECCSSCCCCC-G-GGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEE
T ss_pred             hhhhhhcc-c-ccccccccccccccccccccCC-c-cccCCCCCCEEECCCCCCCCCc-cccCCCCCCcC
Confidence            88877543 3 2467788888888888766543 2 3677888888888888888775 46777777764

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.70  E-value=3.4e-16  Score=118.36  Aligned_cols=164  Identities=20%  Similarity=0.195  Sum_probs=121.5

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .+|+.|++.+|.++.++.         +..+++|++|+++++.  ...++   .++.+++|+.|++++|.+ ..++. +.
T Consensus        46 ~~L~~L~l~~~~i~~l~~---------l~~l~~L~~L~L~~n~--i~~l~---~~~~l~~L~~L~l~~n~i-~~l~~-l~  109 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSVQG---------IQYLPNVTKLFLNGNK--LTDIK---PLANLKNLGWLFLDENKV-KDLSS-LK  109 (210)
T ss_dssp             HTCCEEECTTSCCCCCTT---------GGGCTTCCEEECCSSC--CCCCG---GGTTCTTCCEEECCSSCC-CCGGG-GT
T ss_pred             cCccEEECcCCCCCCchh---------HhhCCCCCEEeCCCcc--ccCcc---ccccCccccccccccccc-ccccc-cc
Confidence            568888888888776653         5678888888888765  34444   567788899999988875 34553 77


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      .+++|+.+++++|.....-+-...+.++.+++.+|.++..+ .+..+++|+.+++++|.+.+ ++ .+.++++|+.|+++
T Consensus       110 ~l~~L~~L~l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~l~~-i~-~l~~l~~L~~L~Ls  186 (210)
T d1h6ta2         110 DLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQISD-IV-PLAGLTKLQNLYLS  186 (210)
T ss_dssp             TCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCC-CG-GGTTCTTCCEEECC
T ss_pred             ccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccc-cc-cccCCCCCCEEECC
Confidence            88889999998876543222222467888888888887654 45677899999999998765 33 37889999999999


Q ss_pred             CCCCCcccCccccCCCCCcEEeccC
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAK  231 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~  231 (254)
                      +|.+.+ ++ .+.++++|+.|++++
T Consensus       187 ~N~i~~-l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         187 KNHISD-LR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             SSCCCB-CG-GGTTCTTCSEEEEEE
T ss_pred             CCCCCC-Ch-hhcCCCCCCEEEccC
Confidence            987654 44 478899999999864

>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=99.69  E-value=4e-16  Score=116.97  Aligned_cols=160  Identities=21%  Similarity=0.226  Sum_probs=111.8

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIF  126 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  126 (254)
                      .++++|++.+|.++.++.         +..+++|++|+++++.  ...++   .++++++|++|++++|.+ ..++. +.
T Consensus        40 ~~l~~L~l~~~~i~~l~~---------l~~l~nL~~L~Ls~N~--l~~~~---~l~~l~~L~~L~l~~n~~-~~~~~-l~  103 (199)
T d2omxa2          40 DQVTTLQADRLGIKSIDG---------VEYLNNLTQINFSNNQ--LTDIT---PLKNLTKLVDILMNNNQI-ADITP-LA  103 (199)
T ss_dssp             TTCCEEECTTSCCCCCTT---------GGGCTTCCEEECCSSC--CCCCG---GGTTCTTCCEEECCSSCC-CCCGG-GT
T ss_pred             cCCCEEECCCCCCCCccc---------cccCCCcCcCcccccc--ccCcc---cccCCccccccccccccc-ccccc-cc
Confidence            677778888777766542         5667788888887664  33333   466778888888888764 33333 66


Q ss_pred             CCCcccEEeccCCCCCccccccccCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          127 NLEFLTKLDLSGCSKLKRLPEISSGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~~~p~~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      .+++|+.+++++|......+...+++++.+++++|.+..++ .+..+++++.|++.+|++.+. + .++++++|+.|+++
T Consensus       104 ~l~~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         104 NLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQVTDL-K-PLANLTTLERLDIS  180 (199)
T ss_dssp             TCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCCCC-G-GGTTCTTCCEEECC
T ss_pred             cccccccccccccccccccccchhhhhHHhhhhhhhhcccc-cccccccccccccccccccCC-c-cccCCCCCCEEECC
Confidence            77888888887766554333333577888888888877665 467788899999998886553 2 37888999999999


Q ss_pred             CCCCCcccCccccCCCCCcEE
Q 042890          207 GCSNLQRLPECLGQLSSPITC  227 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L  227 (254)
                      +|++.+ ++ .+.++++|+.|
T Consensus       181 ~N~i~~-i~-~l~~L~~L~~L  199 (199)
T d2omxa2         181 SNKVSD-IS-VLAKLTNLESL  199 (199)
T ss_dssp             SSCCCC-CG-GGGGCTTCSEE
T ss_pred             CCCCCC-Cc-cccCCCCCCcC
Confidence            887644 33 46678888765

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=3e-16  Score=121.11  Aligned_cols=196  Identities=14%  Similarity=0.105  Sum_probs=87.3

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCC-cCCCccCCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGS-KSLKSLPSGI  125 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~~~~~~~  125 (254)
                      +++++|++.+|.++.++..       ++..+++|++|+++++... ..++ ...|.+++.++++.+..+ .+....+..+
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~-------~f~~l~~L~~L~ls~n~~~-~~i~-~~~f~~l~~l~~l~~~~~n~l~~~~~~~~   99 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKG-------AFSGFGDLEKIEISQNDVL-EVIE-ADVFSNLPKLHEIRIEKANNLLYINPEAF   99 (242)
T ss_dssp             SCCSEEEEESCCCCEECTT-------TTTTCTTCCEEEEESCTTC-CEEC-SSSEESCTTCCEEEEECCTTCCEECTTSE
T ss_pred             CCCCEEECcCCcCCccChh-------Hhhccchhhhhhhcccccc-ceee-ccccccccccccccccccccccccccccc
Confidence            3455566665555555432       2445555666665544321 1121 114455555555555432 2223333444


Q ss_pred             CCCCcccEEeccCCCCCccccccccCCcC---eEecccccccccchh-hhhc-cccCEEeccCCcCcccCCccccCCCcc
Q 042890          126 FNLEFLTKLDLSGCSKLKRLPEISSGNIS---WLFLRGIAIEELPSS-IERQ-LRLSWLDLSDCKRLKSLPSSLYRLKSL  200 (254)
Q Consensus       126 ~~l~~L~~L~l~~~~~~~~~p~~~~~~L~---~L~l~~~~~~~l~~~-~~~~-~~L~~L~l~~n~~~~~~~~~l~~l~~L  200 (254)
                      .++++|+.+++++|.+....+......++   .+...++.+..++.. +..+ ..++.+++.+|.+.... .......++
T Consensus       100 ~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~-~~~~~~~~l  178 (242)
T d1xwdc1         100 QNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIH-NCAFNGTQL  178 (242)
T ss_dssp             ECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEEC-TTTTTTCCE
T ss_pred             cccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccccc-cccccchhh
Confidence            55556666666555433221111112222   223333344444322 2222 24555666655544322 222233344


Q ss_pred             CEEEe-cCCCCCcccCccccCCCCCcEEeccCCCCCCCCh-hhhhhcccCcccc
Q 042890          201 GILDL-HGCSNLQRLPECLGQLSSPITCNLAKTNIERIPE-SIIQLFVSGYLLL  252 (254)
Q Consensus       201 ~~L~l-~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~-~~~~~~~L~~L~l  252 (254)
                      ..+.. .+|++.+..+..|.++++|+.|++++|.++.+|. .+..+++|+.+++
T Consensus       179 ~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~  232 (242)
T d1xwdc1         179 DELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST  232 (242)
T ss_dssp             EEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSE
T ss_pred             hccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcC
Confidence            33433 3333333223345566666666666666665543 2445555555543

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.1e-14  Score=112.18  Aligned_cols=201  Identities=14%  Similarity=0.087  Sum_probs=137.9

Q ss_pred             CcceEEEeeccccCCCccCcccccC-CCCC-CceeeeeeCCCCCCC-CCCcchhhcchhhhcccccceehhhccCCceee
Q 042890           18 PKLRFLKFYSSLFNGENKCKMSYLQ-DPGF-AEVKYLHWHGYPLKS-LPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAK   94 (254)
Q Consensus        18 ~~L~~L~l~~~~~~~~~~~~~~~~~-~l~~-~~L~~L~l~~~~~~~-l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~   94 (254)
                      +++++|++++|.+       ..++. .+.. ++|++|++.+|.+.. ++..       ++..+++++++.+..+......
T Consensus        29 ~~l~~L~Ls~n~i-------~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~-------~f~~l~~l~~l~~~~~n~l~~~   94 (242)
T d1xwdc1          29 RNAIELRFVLTKL-------RVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANNLLYI   94 (242)
T ss_dssp             SCCSEEEEESCCC-------CEECTTTTTTCTTCCEEEEESCTTCCEECSS-------SEESCTTCCEEEEECCTTCCEE
T ss_pred             CCCCEEECcCCcC-------CccChhHhhccchhhhhhhccccccceeecc-------cccccccccccccccccccccc
Confidence            4799999999998       34444 3566 999999999998654 3332       3667888999988766655455


Q ss_pred             cCCCCccCCcccccEEeccCCcCCCccCC--CCCCCCcccEEeccCCCCCccccccc----cCCcCeEecccccccccch
Q 042890           95 IPNPTLMPRMKKLVILNLRGSKSLKSLPS--GIFNLEFLTKLDLSGCSKLKRLPEIS----SGNISWLFLRGIAIEELPS  168 (254)
Q Consensus        95 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~p~~~----~~~L~~L~l~~~~~~~l~~  168 (254)
                      .+.  .|.+++.|+++++.+|.+.. .+.  .+..+..++.+...++.. ..++...    ...++.+++.+|.++.++.
T Consensus        95 ~~~--~~~~l~~L~~l~l~~~~l~~-~~~~~~~~~l~~l~~~~~~n~~l-~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~  170 (242)
T d1xwdc1          95 NPE--AFQNLPNLQYLLISNTGIKH-LPDVHKIHSLQKVLLDIQDNINI-HTIERNSFVGLSFESVILWLNKNGIQEIHN  170 (242)
T ss_dssp             CTT--SEECCTTCCEEEEESCCCCS-CCCCTTTCBSSCEEEEEESCTTC-CEECTTSSTTSBSSCEEEECCSSCCCEECT
T ss_pred             ccc--cccccccccccccchhhhcc-ccccccccccccccccccccccc-ccccccccccccccceeeeccccccccccc
Confidence            454  78899999999999998543 322  122345555555555443 3333222    2467789999999998888


Q ss_pred             hhhhccccCEEe-ccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCC
Q 042890          169 SIERQLRLSWLD-LSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIP  238 (254)
Q Consensus       169 ~~~~~~~L~~L~-l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~  238 (254)
                      .....++++.+. +.+|.+....+..|.++++|+.|++++|++.+..+..+.+++.|+.+++.  .++.+|
T Consensus       171 ~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~--~l~~lp  239 (242)
T d1xwdc1         171 CAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTY--NLKKLP  239 (242)
T ss_dssp             TTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEE--SSSCSC
T ss_pred             ccccchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCC--CCCcCC
Confidence            766777776665 45555544334468899999999999988765545567777777766653  244444

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.53  E-value=6.5e-14  Score=104.05  Aligned_cols=125  Identities=22%  Similarity=0.154  Sum_probs=72.2

Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCcc-CCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEe
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSL-PSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLF  157 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~  157 (254)
                      +.++.++..  ...+|.  .+.  +.+++|++++|.+...+ +..|.++++|+.|++++|.+....+...  .++|++|+
T Consensus        11 ~~v~Cs~~~--L~~iP~--~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~   84 (192)
T d1w8aa_          11 TTVDCTGRG--LKEIPR--DIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQ   84 (192)
T ss_dssp             TEEECTTSC--CSSCCS--CCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CEEEEeCCC--cCccCC--CCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceee
Confidence            445544333  345554  332  56777777777765433 3445667777777777766544333222  25666666


Q ss_pred             cccccccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCC
Q 042890          158 LRGIAIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       158 l~~~~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                      +++|.++.+|+. |.++++|++|++++|.+....+..|..+++|+++++++|.+.
T Consensus        85 Ls~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          85 LGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             eccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccc
Confidence            666666655443 555666666666666655555555666666666666665543

>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=99.53  E-value=5.1e-15  Score=116.93  Aligned_cols=192  Identities=21%  Similarity=0.227  Sum_probs=125.1

Q ss_pred             CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCc--cCCC
Q 042890           47 AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKS--LPSG  124 (254)
Q Consensus        47 ~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~--~~~~  124 (254)
                      .+|++|++++|.+.   +..+..   .+..+++|++|++++|.. ......  .++.+++|++|++++|.....  +...
T Consensus        46 ~~L~~LdLs~~~i~---~~~l~~---l~~~c~~L~~L~L~~~~l-~~~~~~--~l~~~~~L~~L~Ls~c~~itd~~l~~l  116 (284)
T d2astb2          46 FRVQHMDLSNSVIE---VSTLHG---ILSQCSKLQNLSLEGLRL-SDPIVN--TLAKNSNLVRLNLSGCSGFSEFALQTL  116 (284)
T ss_dssp             BCCCEEECTTCEEC---HHHHHH---HHTTBCCCSEEECTTCBC-CHHHHH--HHTTCTTCSEEECTTCBSCCHHHHHHH
T ss_pred             CCCCEEECCCCccC---HHHHHH---HHHhCCCcccccccccCC-CcHHHH--HHhcCCCCcCccccccccccccccchh
Confidence            77888998887532   222222   367788999999888753 233333  667788899999988753322  1222


Q ss_pred             CCCCCcccEEeccCCCCCcc--ccc---cccCCcCeEeccccc--cc--ccchhhhhccccCEEeccCCc-CcccCCccc
Q 042890          125 IFNLEFLTKLDLSGCSKLKR--LPE---ISSGNISWLFLRGIA--IE--ELPSSIERQLRLSWLDLSDCK-RLKSLPSSL  194 (254)
Q Consensus       125 ~~~l~~L~~L~l~~~~~~~~--~p~---~~~~~L~~L~l~~~~--~~--~l~~~~~~~~~L~~L~l~~n~-~~~~~~~~l  194 (254)
                      +..+++|++|++++|.....  ...   ...+.++.|++.++.  ++  .+...+.++++|++|++++|. +.+.....+
T Consensus       117 ~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l  196 (284)
T d2astb2         117 LSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF  196 (284)
T ss_dssp             HHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGG
T ss_pred             hHHHHhccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhh
Confidence            34578899999988754432  111   112678888888753  33  344455678899999998875 444555667


Q ss_pred             cCCCccCEEEecCCC-CCcccCccccCCCCCcEEeccCCCCC--CCChhhhhhcccC
Q 042890          195 YRLKSLGILDLHGCS-NLQRLPECLGQLSSPITCNLAKTNIE--RIPESIIQLFVSG  248 (254)
Q Consensus       195 ~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~L~~L~l~~n~l~--~l~~~~~~~~~L~  248 (254)
                      .++++|++|++++|. +.+.....+.++++|+.|++.++ +.  .++.....+|+|+
T Consensus       197 ~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~-~~d~~l~~l~~~lp~L~  252 (284)
T d2astb2         197 FQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI-VPDGTLQLLKEALPHLQ  252 (284)
T ss_dssp             GGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHHHHHSTTSE
T ss_pred             cccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC-CCHHHHHHHHHhCcccc
Confidence            888999999999875 44444455777899999999887 32  2332233455554

>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=99.51  E-value=1.3e-15  Score=120.45  Aligned_cols=177  Identities=17%  Similarity=0.149  Sum_probs=128.5

Q ss_pred             cccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccc--ccc--ccC
Q 042890           76 RYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL--PEI--SSG  151 (254)
Q Consensus        76 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~--p~~--~~~  151 (254)
                      ...+|++++++++......+..  .+..+++|++|++++|.+....+..+..+++|+.|++++|...+..  ...  ..+
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~--l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~  121 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHG--ILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  121 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHH--HHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             cCCCCCEEECCCCccCHHHHHH--HHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHH
Confidence            4568999999977543333443  5778999999999999866555666778999999999998655431  111  137


Q ss_pred             CcCeEeccccc-cc--ccchhhhh-ccccCEEeccCCc--Ccc-cCCccccCCCccCEEEecCCC-CCcccCccccCCCC
Q 042890          152 NISWLFLRGIA-IE--ELPSSIER-QLRLSWLDLSDCK--RLK-SLPSSLYRLKSLGILDLHGCS-NLQRLPECLGQLSS  223 (254)
Q Consensus       152 ~L~~L~l~~~~-~~--~l~~~~~~-~~~L~~L~l~~n~--~~~-~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~l~~  223 (254)
                      +|+.|++++|. ++  .+...+.. .++|+.|+++++.  +.+ .+.....++++|+.|++++|. +.+.....+.++++
T Consensus       122 ~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~  201 (284)
T d2astb2         122 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNY  201 (284)
T ss_dssp             TCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             hccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCc
Confidence            89999999873 44  33333444 4689999999863  222 232334578999999999986 44456677788999


Q ss_pred             CcEEeccCCC-CC-CCChhhhhhcccCcccccC
Q 042890          224 PITCNLAKTN-IE-RIPESIIQLFVSGYLLLSY  254 (254)
Q Consensus       224 L~~L~l~~n~-l~-~l~~~~~~~~~L~~L~ls~  254 (254)
                      |+.|++++|. ++ .....+.++++|+.|++++
T Consensus       202 L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~  234 (284)
T d2astb2         202 LQHLSLSRCYDIIPETLLELGEIPTLKTLQVFG  234 (284)
T ss_dssp             CCEEECTTCTTCCGGGGGGGGGCTTCCEEECTT
T ss_pred             CCEEECCCCCCCChHHHHHHhcCCCCCEEeeeC
Confidence            9999999974 65 4445678899999998864

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.51  E-value=2.1e-12  Score=104.02  Aligned_cols=88  Identities=20%  Similarity=0.227  Sum_probs=51.5

Q ss_pred             ceeeeCCcccCCC----CcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhccccc
Q 042890            5 KELRLNPNTFTKM----PKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKL   80 (254)
Q Consensus         5 ~~~~~~~~~~~~~----~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L   80 (254)
                      +.+++....+..+    ++|++|++++|.+       ..+|+.+  .+|+.|++.+|.++.+++.           .+.|
T Consensus        41 ~~LdLs~~~L~~lp~~~~~L~~L~Ls~N~l-------~~lp~~~--~~L~~L~l~~n~l~~l~~l-----------p~~L  100 (353)
T d1jl5a_          41 HELELNNLGLSSLPELPPHLESLVASCNSL-------TELPELP--QSLKSLLVDNNNLKALSDL-----------PPLL  100 (353)
T ss_dssp             SEEECTTSCCSCCCSCCTTCSEEECCSSCC-------SSCCCCC--TTCCEEECCSSCCSCCCSC-----------CTTC
T ss_pred             CEEEeCCCCCCCCCCCCCCCCEEECCCCCC-------cccccch--hhhhhhhhhhcccchhhhh-----------cccc
Confidence            3444444434333    5677777777776       2333221  4677777777766655432           2357


Q ss_pred             ceehhhccCCceeecCCCCccCCcccccEEeccCCcC
Q 042890           81 NQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKS  117 (254)
Q Consensus        81 ~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  117 (254)
                      ++|+++++.  ...+|   .++.++.|++|++.++.+
T Consensus       101 ~~L~L~~n~--l~~lp---~~~~l~~L~~L~l~~~~~  132 (353)
T d1jl5a_         101 EYLGVSNNQ--LEKLP---ELQNSSFLKIIDVDNNSL  132 (353)
T ss_dssp             CEEECCSSC--CSSCC---CCTTCTTCCEEECCSSCC
T ss_pred             ccccccccc--ccccc---chhhhccceeeccccccc
Confidence            777777554  44555   345677778887777653

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=2.5e-14  Score=103.31  Aligned_cols=127  Identities=17%  Similarity=0.064  Sum_probs=76.2

Q ss_pred             ccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc-cCCcCeEecccccccccchh-hhhccccC
Q 042890          100 LMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGIAIEELPSS-IERQLRLS  177 (254)
Q Consensus       100 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~~~~~l~~~-~~~~~~L~  177 (254)
                      .+.+...+++|++++|++ ..++..+..+++|+.|++++|.+.. ++... +++|+.|++++|.++.++.. +..+++|+
T Consensus        13 ~~~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_          13 QYTNAVRDRELDLRGYKI-PVIENLGATLDQFDAIDFSDNEIRK-LDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   90 (162)
T ss_dssp             EEECTTSCEEEECTTSCC-CSCCCGGGGTTCCSEEECCSSCCCE-ECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             hccCcCcCcEEECCCCCC-CccCccccccccCCEEECCCCCCCc-cCCcccCcchhhhhcccccccCCCccccccccccc
Confidence            455667788888888874 4455545567788888888876543 33222 35666666666666666544 34566777


Q ss_pred             EEeccCCcCcccC-CccccCCCccCEEEecCCCCCccc---CccccCCCCCcEEe
Q 042890          178 WLDLSDCKRLKSL-PSSLYRLKSLGILDLHGCSNLQRL---PECLGQLSSPITCN  228 (254)
Q Consensus       178 ~L~l~~n~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~---~~~~~~l~~L~~L~  228 (254)
                      .|++++|.+.+.. ...+..+++|+.+++++|.+....   +..+..+++|+.||
T Consensus        91 ~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          91 ELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             EEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEET
T ss_pred             cceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeC
Confidence            7777777654321 123556666666666666543221   11344556666655

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.47  E-value=2.2e-13  Score=101.18  Aligned_cols=128  Identities=18%  Similarity=0.124  Sum_probs=107.0

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccch-hhhhccccCEEec
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPS-SIERQLRLSWLDL  181 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l  181 (254)
                      ..++++.+++++ ..+|..+.  +++++|++++|.+....+...   .++|+.|++++|.+..++. .+..+++|+.|++
T Consensus         9 ~~~~v~Cs~~~L-~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_           9 EGTTVDCTGRGL-KEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             ETTEEECTTSCC-SSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             cCCEEEEeCCCc-CccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeee
Confidence            356788888774 46776553  689999999998866554433   4799999999999997655 5778899999999


Q ss_pred             cCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCC
Q 042890          182 SDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIER  236 (254)
Q Consensus       182 ~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~  236 (254)
                      ++|++....+..|.++++|+.|++++|.+....+++|..+++|+++++++|.+..
T Consensus        86 s~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_          86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             ccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccccccccc
Confidence            9999888777789999999999999999988888889999999999999999863

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.46  E-value=3.8e-13  Score=92.50  Aligned_cols=97  Identities=19%  Similarity=0.066  Sum_probs=64.9

Q ss_pred             CcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCccc-CccccCCCCCcEEecc
Q 042890          152 NISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRL-PECLGQLSSPITCNLA  230 (254)
Q Consensus       152 ~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~l~  230 (254)
                      .+++|++++|.++.+|..+..+++|+.|++++|.+.+ ++ .+..+++|+.+++++|.+.+.. ...+..+++|+.++++
T Consensus        21 ~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~-l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~   98 (124)
T d1dcea3          21 LVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQ   98 (124)
T ss_dssp             TCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECT
T ss_pred             CCCEEECCCCccCcchhhhhhhhcccccccccccccc-cC-ccccccccCeEECCCCccCCCCCchhhcCCCCCCEEECC
Confidence            3444444445555666667777888888888887654 33 4778888888888887765432 2456778888888888


Q ss_pred             CCCCCCC---Chh-hhhhcccCcc
Q 042890          231 KTNIERI---PES-IIQLFVSGYL  250 (254)
Q Consensus       231 ~n~l~~l---~~~-~~~~~~L~~L  250 (254)
                      +|++...   +.. ...+|+|+.+
T Consensus        99 ~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          99 GNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             TSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             CCcCCcCccHHHHHHHHCcCcceE
Confidence            8887533   222 3446777654

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.46  E-value=6.4e-12  Score=101.16  Aligned_cols=219  Identities=19%  Similarity=0.163  Sum_probs=122.9

Q ss_pred             CCcceeeeCCcccCCC----CcceEEEeeccccCCCccCcccccCCCCCCceeeeeeCCCCCCCCCCcchhhcchhhhcc
Q 042890            2 SKVKELRLNPNTFTKM----PKLRFLKFYSSLFNGENKCKMSYLQDPGFAEVKYLHWHGYPLKSLPSNDIEQLWDRVKRY   77 (254)
Q Consensus         2 ~~~~~~~~~~~~~~~~----~~L~~L~l~~~~~~~~~~~~~~~~~~l~~~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~   77 (254)
                      ++++.+++....+..+    .+|+.|++.++.+.       .++. + .+.|++|++++|.++.+|..         ..+
T Consensus        58 ~~L~~L~Ls~N~l~~lp~~~~~L~~L~l~~n~l~-------~l~~-l-p~~L~~L~L~~n~l~~lp~~---------~~l  119 (353)
T d1jl5a_          58 PHLESLVASCNSLTELPELPQSLKSLLVDNNNLK-------ALSD-L-PPLLEYLGVSNNQLEKLPEL---------QNS  119 (353)
T ss_dssp             TTCSEEECCSSCCSSCCCCCTTCCEEECCSSCCS-------CCCS-C-CTTCCEEECCSSCCSSCCCC---------TTC
T ss_pred             CCCCEEECCCCCCcccccchhhhhhhhhhhcccc-------hhhh-h-ccccccccccccccccccch---------hhh
Confidence            4566666666555544    57888888888762       1111 1 15688888888887777642         345


Q ss_pred             cccceehhhccCCc-----------------eeecCCCCccCCcccccEEeccCCcCCC-------------------cc
Q 042890           78 SKLNQIIHAACHKL-----------------IAKIPNPTLMPRMKKLVILNLRGSKSLK-------------------SL  121 (254)
Q Consensus        78 ~~L~~l~l~~~~~~-----------------~~~~~~~~~~~~~~~L~~L~l~~~~~~~-------------------~~  121 (254)
                      ++|+.++++++...                 .....  ..+..++.++.+++.+|....                   .+
T Consensus       120 ~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~--~~l~~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~~  197 (353)
T d1jl5a_         120 SFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEEL--PELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEEL  197 (353)
T ss_dssp             TTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSC--CCCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSC
T ss_pred             ccceeeccccccccccccccccccchhhcccccccc--ccccccccceeccccccccccccccccccccccccccccccc
Confidence            66666666543211                 00001  134455666667666654321                   11


Q ss_pred             CCCCCCCCcccEEeccCCCCCccccccc-------------------cCCcCeEeccccccc---ccc------------
Q 042890          122 PSGIFNLEFLTKLDLSGCSKLKRLPEIS-------------------SGNISWLFLRGIAIE---ELP------------  167 (254)
Q Consensus       122 ~~~~~~l~~L~~L~l~~~~~~~~~p~~~-------------------~~~L~~L~l~~~~~~---~l~------------  167 (254)
                      + .+..++.++.+++++|.... .+...                   ...+....+..+.+.   .++            
T Consensus       198 ~-~~~~l~~L~~l~l~~n~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~  275 (353)
T d1jl5a_         198 P-ELQNLPFLTTIYADNNLLKT-LPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNE  275 (353)
T ss_dssp             C-CCTTCTTCCEEECCSSCCSS-CCSCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSC
T ss_pred             c-cccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccchhcccccccCc
Confidence            1 23455677777777654222 11111                   012222222222111   111            


Q ss_pred             --hhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCCCCChhhhhhc
Q 042890          168 --SSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIERIPESIIQLF  245 (254)
Q Consensus       168 --~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~  245 (254)
                        .....+++|++|++++|++. .+|.   .+++|+.|++++|++. .+|..   +++|+.|++++|+++.+|...   .
T Consensus       276 ~~~~~~~~~~L~~L~Ls~N~l~-~lp~---~~~~L~~L~L~~N~L~-~l~~~---~~~L~~L~L~~N~L~~lp~~~---~  344 (353)
T d1jl5a_         276 IRSLCDLPPSLEELNVSNNKLI-ELPA---LPPRLERLIASFNHLA-EVPEL---PQNLKQLHVEYNPLREFPDIP---E  344 (353)
T ss_dssp             CSEECCCCTTCCEEECCSSCCS-CCCC---CCTTCCEEECCSSCCS-CCCCC---CTTCCEEECCSSCCSSCCCCC---T
T ss_pred             cccccccCCCCCEEECCCCccC-cccc---ccCCCCEEECCCCcCC-ccccc---cCCCCEEECcCCcCCCCCccc---c
Confidence              11123468999999998865 4553   3678899999988765 45542   568999999999998887633   3


Q ss_pred             ccCccccc
Q 042890          246 VSGYLLLS  253 (254)
Q Consensus       246 ~L~~L~ls  253 (254)
                      +|+.|.++
T Consensus       345 ~L~~L~~~  352 (353)
T d1jl5a_         345 SVEDLRMN  352 (353)
T ss_dssp             TCCEEECC
T ss_pred             ccCeeECc
Confidence            56666554

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.44  E-value=2.9e-15  Score=121.48  Aligned_cols=237  Identities=13%  Similarity=0.057  Sum_probs=129.4

Q ss_pred             ccCCCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCc---chhhcchhhhcccccceehhhcc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSN---DIEQLWDRVKRYSKLNQIIHAAC   88 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~---~l~~l~~~~~~~~~L~~l~l~~~   88 (254)
                      ++.+...|+.|++++|.++.+..  ..+...+.. ++|+.+++.++........   .+..+..++..+++|++|+++++
T Consensus        26 ~L~~~~~l~~L~Ls~n~i~~~~~--~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n  103 (344)
T d2ca6a1          26 VLLEDDSVKEIVLSGNTIGTEAA--RWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDN  103 (344)
T ss_dssp             HHHHCSCCCEEECTTSEECHHHH--HHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSC
T ss_pred             HHhhCCCCCEEECcCCcCCHHHH--HHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccc
Confidence            34456778888888877644432  233444555 7788888877765444322   23344455666777888887765


Q ss_pred             CCc---eeecCCCCccCCcccccEEeccCCcCCCc----cCC---------CCCCCCcccEEeccCCCCCcccc----cc
Q 042890           89 HKL---IAKIPNPTLMPRMKKLVILNLRGSKSLKS----LPS---------GIFNLEFLTKLDLSGCSKLKRLP----EI  148 (254)
Q Consensus        89 ~~~---~~~~~~~~~~~~~~~L~~L~l~~~~~~~~----~~~---------~~~~l~~L~~L~l~~~~~~~~~p----~~  148 (254)
                      ...   ...+..  .+...+.|++|++++|.+...    +..         .....+.|+.+++++|.+.....    ..
T Consensus       104 ~i~~~~~~~l~~--~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~  181 (344)
T d2ca6a1         104 AFGPTAQEPLID--FLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKT  181 (344)
T ss_dssp             CCCTTTHHHHHH--HHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHH
T ss_pred             ccccccccchhh--hhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccch
Confidence            421   111222  334567788888877764211    000         01234566777777655432211    10


Q ss_pred             --ccCCcCeEecccccccc------cchhhhhccccCEEeccCCcCccc----CCccccCCCccCEEEecCCCCCcc---
Q 042890          149 --SSGNISWLFLRGIAIEE------LPSSIERQLRLSWLDLSDCKRLKS----LPSSLYRLKSLGILDLHGCSNLQR---  213 (254)
Q Consensus       149 --~~~~L~~L~l~~~~~~~------l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~---  213 (254)
                        ....++.+++++|.++.      +...+...++|+.|++++|.+...    +...+..+++|+.|++++|.+.+.   
T Consensus       182 l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~  261 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAA  261 (344)
T ss_dssp             HHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHH
T ss_pred             hhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhH
Confidence              12567777777776652      122344556677777777765432    233455667777777777765432   


Q ss_pred             -cCcccc--CCCCCcEEeccCCCCCC-----CChhhh-hhcccCccccc
Q 042890          214 -LPECLG--QLSSPITCNLAKTNIER-----IPESII-QLFVSGYLLLS  253 (254)
Q Consensus       214 -~~~~~~--~l~~L~~L~l~~n~l~~-----l~~~~~-~~~~L~~L~ls  253 (254)
                       +...+.  ..+.|++|++++|.+..     +...+. ++++|++|+++
T Consensus       262 ~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~  310 (344)
T d2ca6a1         262 AVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELN  310 (344)
T ss_dssp             HHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECT
T ss_pred             HHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECC
Confidence             212222  23567777777777641     233332 45667777665

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.39  E-value=1.3e-12  Score=89.78  Aligned_cols=97  Identities=20%  Similarity=0.193  Sum_probs=82.6

Q ss_pred             CeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCC
Q 042890          154 SWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTN  233 (254)
Q Consensus       154 ~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~  233 (254)
                      +.|++++|.++.++. +..+++|++|++++|.+. .+|+.++.+++|+.+++++|.+.+ ++ .+..+++|+.+++++|.
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~-~lp~~~~~l~~L~~L~l~~N~i~~-l~-~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCccC-cchhhhhhhhcccccccccccccc-cC-ccccccccCeEECCCCc
Confidence            467888888888874 788999999999999865 577789999999999999987764 44 47889999999999999


Q ss_pred             CCCCC--hhhhhhcccCcccccC
Q 042890          234 IERIP--ESIIQLFVSGYLLLSY  254 (254)
Q Consensus       234 l~~l~--~~~~~~~~L~~L~ls~  254 (254)
                      +..++  ..+..+++|+.+++++
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~   99 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQG   99 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTT
T ss_pred             cCCCCCchhhcCCCCCCEEECCC
Confidence            98775  4678899999999874

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.2e-12  Score=94.19  Aligned_cols=126  Identities=16%  Similarity=0.030  Sum_probs=102.3

Q ss_pred             CCCCCcccEEeccCCCCCccccccc--cCCcCeEecccccccccchhhhhccccCEEeccCCcCcccCCccccCCCccCE
Q 042890          125 IFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLFLRGIAIEELPSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGI  202 (254)
Q Consensus       125 ~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~  202 (254)
                      +.+..++++|++++|.+.. ++...  +..|+.|++++|.++.++ .+..+++|++|++++|.+....+..+..+++|+.
T Consensus        14 ~~n~~~lr~L~L~~n~I~~-i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPV-IENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             EECTTSCEEEECTTSCCCS-CCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             ccCcCcCcEEECCCCCCCc-cCccccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCcccccccccccc
Confidence            5677789999999987554 34432  478999999999999885 4778899999999999977655555678999999


Q ss_pred             EEecCCCCCccc-CccccCCCCCcEEeccCCCCCCCCh----hhhhhcccCcccc
Q 042890          203 LDLHGCSNLQRL-PECLGQLSSPITCNLAKTNIERIPE----SIIQLFVSGYLLL  252 (254)
Q Consensus       203 L~l~~~~~~~~~-~~~~~~l~~L~~L~l~~n~l~~l~~----~~~~~~~L~~L~l  252 (254)
                      |++++|.+.+.. ...+..+++|+.+++.+|++...|.    .+..+|+|+.||-
T Consensus        92 L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          92 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             ceeccccccccccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            999998876532 2457789999999999999987764    4778999998874

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.26  E-value=6.4e-14  Score=104.51  Aligned_cols=143  Identities=18%  Similarity=0.159  Sum_probs=84.1

Q ss_pred             cceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc--cCCcCeEe
Q 042890           80 LNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNISWLF  157 (254)
Q Consensus        80 L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~--~~~L~~L~  157 (254)
                      ++.+++.+.......++.  .++.+++|++|++++|.+ ..++ .+..+++|+.|++++|.+. .+|...  ...|+.|+
T Consensus        25 ~~~~~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_          25 AEKVELHGMIPPIEKMDA--TLSTLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELW   99 (198)
T ss_dssp             CSCEECCBCCTTCCCCHH--HHHHTTTCCEEECSEEEE-SCCC-CHHHHTTCCEEECCEEEEC-SCSSHHHHHHHCCEEE
T ss_pred             cceeeeecccCchhhhhh--HHhcccccceeECcccCC-CCcc-cccCCccccChhhcccccc-cccccccccccccccc
Confidence            444444432222333433  566777888888888774 3444 3667777888888776543 333322  24677777


Q ss_pred             cccccccccchhhhhccccCEEeccCCcCcccC-CccccCCCccCEEEecCCCCCcccCcc----------ccCCCCCcE
Q 042890          158 LRGIAIEELPSSIERQLRLSWLDLSDCKRLKSL-PSSLYRLKSLGILDLHGCSNLQRLPEC----------LGQLSSPIT  226 (254)
Q Consensus       158 l~~~~~~~l~~~~~~~~~L~~L~l~~n~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~----------~~~l~~L~~  226 (254)
                      +.+|.++.++ .+..+++|+.|++++|.+.+.. ...+..+++|+.|++++|++....+..          +..+|+|+.
T Consensus       100 l~~N~i~~l~-~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~  178 (198)
T d1m9la_         100 ISYNQIASLS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKK  178 (198)
T ss_dssp             CSEEECCCHH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCE
T ss_pred             cccccccccc-cccccccccccccccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCcCE
Confidence            7777777664 3566677777777777654421 134666777777777776554332211          344666666


Q ss_pred             Ee
Q 042890          227 CN  228 (254)
Q Consensus       227 L~  228 (254)
                      ||
T Consensus       179 LD  180 (198)
T d1m9la_         179 LD  180 (198)
T ss_dssp             ES
T ss_pred             eC
Confidence            65

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.21  E-value=1.2e-13  Score=103.11  Aligned_cols=131  Identities=19%  Similarity=0.134  Sum_probs=96.9

Q ss_pred             hcchhhhcccccceehhhccCCceeecCCCCccCCcccccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCcccccc
Q 042890           69 QLWDRVKRYSKLNQIIHAACHKLIAKIPNPTLMPRMKKLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI  148 (254)
Q Consensus        69 ~l~~~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~  148 (254)
                      .++..+..+++|++|+++++.  +..++   .+..+++|++|++++|.+ ..++.....+++|+.|++++|.+.. ++..
T Consensus        39 ~l~~sl~~L~~L~~L~Ls~n~--I~~i~---~l~~l~~L~~L~Ls~N~i-~~i~~~~~~~~~L~~L~l~~N~i~~-l~~~  111 (198)
T d1m9la_          39 KMDATLSTLKACKHLALSTNN--IEKIS---SLSGMENLRILSLGRNLI-KKIENLDAVADTLEELWISYNQIAS-LSGI  111 (198)
T ss_dssp             CCHHHHHHTTTCCEEECSEEE--ESCCC---CHHHHTTCCEEECCEEEE-CSCSSHHHHHHHCCEEECSEEECCC-HHHH
T ss_pred             hhhhHHhcccccceeECcccC--CCCcc---cccCCccccChhhccccc-ccccccccccccccccccccccccc-cccc
Confidence            344458888999999999765  45554   677889999999999974 4555534445689999999986554 3332


Q ss_pred             -ccCCcCeEecccccccccch--hhhhccccCEEeccCCcCcccCCc----------cccCCCccCEEEec
Q 042890          149 -SSGNISWLFLRGIAIEELPS--SIERQLRLSWLDLSDCKRLKSLPS----------SLYRLKSLGILDLH  206 (254)
Q Consensus       149 -~~~~L~~L~l~~~~~~~l~~--~~~~~~~L~~L~l~~n~~~~~~~~----------~l~~l~~L~~L~l~  206 (254)
                       .+++|+.|++++|.++.++.  .+..+++|+.|++++|.+....+.          .+..+++|+.||-.
T Consensus       112 ~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD~~  182 (198)
T d1m9la_         112 EKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLDGM  182 (198)
T ss_dssp             HHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEESSG
T ss_pred             cccccccccccccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCcCEeCCc
Confidence             24789999999999987764  578899999999999987553322          15578899998753

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.21  E-value=3.6e-12  Score=102.95  Aligned_cols=226  Identities=12%  Similarity=0.050  Sum_probs=149.1

Q ss_pred             ccCCCCcceEEEeeccccCCCccC----cccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchhhhcccccceehhhc
Q 042890           13 TFTKMPKLRFLKFYSSLFNGENKC----KMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDRVKRYSKLNQIIHAA   87 (254)
Q Consensus        13 ~~~~~~~L~~L~l~~~~~~~~~~~----~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~~~~~~~L~~l~l~~   87 (254)
                      .+...++|+.|+++++........    ...+...+.. ++|+.|++++|.++   +..++.+...+..+++|++|++++
T Consensus        54 ~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~---~~~~~~l~~~l~~~~~L~~L~l~~  130 (344)
T d2ca6a1          54 NIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG---PTAQEPLIDFLSKHTPLEHLYLHN  130 (344)
T ss_dssp             TTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC---TTTHHHHHHHHHHCTTCCEEECCS
T ss_pred             HHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccc---cccccchhhhhcccccchheeccc
Confidence            466789999999998764221100    0112233444 88999999999654   345566666788899999999987


Q ss_pred             cCCceee---cCC-------CCccCCcccccEEeccCCcCCC----ccCCCCCCCCcccEEeccCCCCCcc-----cccc
Q 042890           88 CHKLIAK---IPN-------PTLMPRMKKLVILNLRGSKSLK----SLPSGIFNLEFLTKLDLSGCSKLKR-----LPEI  148 (254)
Q Consensus        88 ~~~~~~~---~~~-------~~~~~~~~~L~~L~l~~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~-----~p~~  148 (254)
                      +......   +..       .......+.|+.+.+++|.+..    .+...+...+.++.|++++|.+...     +...
T Consensus       131 n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~  210 (344)
T d2ca6a1         131 NGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEG  210 (344)
T ss_dssp             SCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTT
T ss_pred             ccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhh
Confidence            6521100   000       0011245789999999987532    1233345577899999999876532     1111


Q ss_pred             --ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc----CCccccC--CCccCEEEecCCCCCcc--
Q 042890          149 --SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS----LPSSLYR--LKSLGILDLHGCSNLQR--  213 (254)
Q Consensus       149 --~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~~--l~~L~~L~l~~~~~~~~--  213 (254)
                        ..+.|+.|++++|.++     .+...+...++|+.|++++|.+.+.    +...+..  ...|+.|++++|.+...  
T Consensus       211 l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~  290 (344)
T d2ca6a1         211 LAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAV  290 (344)
T ss_dssp             GGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHH
T ss_pred             hcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHH
Confidence              1378999999999876     2455677889999999999997663    2223333  46799999999887542  


Q ss_pred             --cCcccc-CCCCCcEEeccCCCCCCCChhh
Q 042890          214 --LPECLG-QLSSPITCNLAKTNIERIPESI  241 (254)
Q Consensus       214 --~~~~~~-~l~~L~~L~l~~n~l~~l~~~~  241 (254)
                        +...+. +++.|+.|++++|.+..-...+
T Consensus       291 ~~l~~~l~~~~~~L~~L~l~~N~~~~~~~~~  321 (344)
T d2ca6a1         291 RTLKTVIDEKMPDLLFLELNGNRFSEEDDVV  321 (344)
T ss_dssp             HHHHHHHHHHCTTCCEEECTTSBSCTTSHHH
T ss_pred             HHHHHHHHccCCCCCEEECCCCcCCCcchHH
Confidence              333332 5789999999999986544333

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.17  E-value=1.9e-12  Score=107.76  Aligned_cols=107  Identities=7%  Similarity=0.111  Sum_probs=67.4

Q ss_pred             cceeeeCCcccC---------CCCcceEEEeeccccCCCccCcccccCCCCC-CceeeeeeCCCCCCCCCCcchhhcchh
Q 042890            4 VKELRLNPNTFT---------KMPKLRFLKFYSSLFNGENKCKMSYLQDPGF-AEVKYLHWHGYPLKSLPSNDIEQLWDR   73 (254)
Q Consensus         4 ~~~~~~~~~~~~---------~~~~L~~L~l~~~~~~~~~~~~~~~~~~l~~-~~L~~L~l~~~~~~~l~~~~l~~l~~~   73 (254)
                      ++.+++.+..++         .++++++|++++|.++..+.  ..+...+.. ++|++|+|++|.++   +.+++.+.++
T Consensus         4 l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~--~~l~~~L~~~~~L~~LdLs~N~i~---~~~~~~l~~~   78 (460)
T d1z7xw1           4 IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARC--KDISSALRVNPALAELNLRSNELG---DVGVHCVLQG   78 (460)
T ss_dssp             EEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHH--HHHHHHHHTCTTCCEEECTTCCCH---HHHHHHHHHT
T ss_pred             CCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHH--HHHHHHHhcCCCCCEEECcCCcCC---hHHHHHHHHH
Confidence            455555555443         47889999999998733211  123333445 88999999988653   3334444444


Q ss_pred             hhc-ccccceehhhccCCce---eecCCCCccCCcccccEEeccCCcC
Q 042890           74 VKR-YSKLNQIIHAACHKLI---AKIPNPTLMPRMKKLVILNLRGSKS  117 (254)
Q Consensus        74 ~~~-~~~L~~l~l~~~~~~~---~~~~~~~~~~~~~~L~~L~l~~~~~  117 (254)
                      +.. ..+|++|++++|.-..   ..++.  .+..++.|++|++++|.+
T Consensus        79 l~~~~~~L~~L~L~~n~it~~~~~~l~~--~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1          79 LQTPSCKIQKLSLQNCCLTGAGCGVLSS--TLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             TCSTTCCCCEEECTTSCCBGGGHHHHHH--HTTSCTTCCEEECCSSBC
T ss_pred             HhcCCCCCCEEECCCCCccccccccccc--hhhccccccccccccccc
Confidence            433 3479999999776321   12333  566788999999998853

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=7e-11  Score=84.26  Aligned_cols=105  Identities=13%  Similarity=0.034  Sum_probs=78.9

Q ss_pred             cccEEeccCCCCCccccccc-cCCcCeEecccc-cccccchh-hhhccccCEEeccCCcCcccCCccccCCCccCEEEec
Q 042890          130 FLTKLDLSGCSKLKRLPEIS-SGNISWLFLRGI-AIEELPSS-IERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLH  206 (254)
Q Consensus       130 ~L~~L~l~~~~~~~~~p~~~-~~~L~~L~l~~~-~~~~l~~~-~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~  206 (254)
                      ..+.++.+++.......... .++++.|++.++ .++.++.. |.++++|+.|++++|++....+..|.++++|+.|+++
T Consensus         9 ~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3           9 GSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            34557777655443322222 378899999766 58888764 7889999999999999877777789999999999999


Q ss_pred             CCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          207 GCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       207 ~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      +|.+....+..+.. ..|+.|++++|++.
T Consensus        89 ~N~l~~l~~~~~~~-~~l~~L~L~~Np~~  116 (156)
T d2ifga3          89 FNALESLSWKTVQG-LSLQELVLSGNPLH  116 (156)
T ss_dssp             SSCCSCCCSTTTCS-CCCCEEECCSSCCC
T ss_pred             CCCCcccChhhhcc-ccccccccCCCccc
Confidence            98887555555554 47999999999874

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=6.1e-12  Score=104.70  Aligned_cols=85  Identities=18%  Similarity=0.154  Sum_probs=51.1

Q ss_pred             CCcCeEecccccccc-----cchhhhhccccCEEeccCCcCccc----CCcccc-CCCccCEEEecCCCCCcc----cCc
Q 042890          151 GNISWLFLRGIAIEE-----LPSSIERQLRLSWLDLSDCKRLKS----LPSSLY-RLKSLGILDLHGCSNLQR----LPE  216 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~-----l~~~~~~~~~L~~L~l~~n~~~~~----~~~~l~-~l~~L~~L~l~~~~~~~~----~~~  216 (254)
                      ..++.+++.++.++.     +...+...++|+.|++++|.+.+.    +...+. ..+.|+.|++++|.+.+.    +.+
T Consensus       312 ~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~  391 (460)
T d1z7xw1         312 CQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAA  391 (460)
T ss_dssp             CCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH
T ss_pred             cccccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHH
Confidence            456677777666552     222334455778888877776442    222232 345677888877766532    334


Q ss_pred             cccCCCCCcEEeccCCCCC
Q 042890          217 CLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       217 ~~~~l~~L~~L~l~~n~l~  235 (254)
                      .+..+++|++|++++|.++
T Consensus       392 ~l~~~~~L~~L~Ls~N~i~  410 (460)
T d1z7xw1         392 TLLANHSLRELDLSNNCLG  410 (460)
T ss_dssp             HHHHCCCCCEEECCSSSCC
T ss_pred             HHhcCCCCCEEECCCCcCC
Confidence            4555677888888887775

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.01  E-value=2.4e-09  Score=76.10  Aligned_cols=104  Identities=19%  Similarity=0.036  Sum_probs=71.3

Q ss_pred             cccEEeccCCcCCCccCCCCCCCCcccEEeccCCCCCccccccc---cCCcCeEecccccccccch-hhhhccccCEEec
Q 042890          106 KLVILNLRGSKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNISWLFLRGIAIEELPS-SIERQLRLSWLDL  181 (254)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~p~~~---~~~L~~L~l~~~~~~~l~~-~~~~~~~L~~L~l  181 (254)
                      ..+.++..++.. ...|..+..+++|+.|++.+++....++...   +++|+.|++++|+++.+++ .+..+++|++|++
T Consensus         9 ~~~~l~c~~~~~-~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L   87 (156)
T d2ifga3           9 GSSGLRCTRDGA-LDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             SSSCEECCSSCC-CTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             CCCeEEecCCCC-ccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            344455555553 3445556667777777777655455444332   3677788888888887754 4888999999999


Q ss_pred             cCCcCcccCCccccCCCccCEEEecCCCCC
Q 042890          182 SDCKRLKSLPSSLYRLKSLGILDLHGCSNL  211 (254)
Q Consensus       182 ~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~  211 (254)
                      ++|++....+..+ ....|+.|++++|.+.
T Consensus        88 s~N~l~~l~~~~~-~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          88 SFNALESLSWKTV-QGLSLQELVLSGNPLH  116 (156)
T ss_dssp             CSSCCSCCCSTTT-CSCCCCEEECCSSCCC
T ss_pred             cCCCCcccChhhh-ccccccccccCCCccc
Confidence            9999775444344 4447999999998764

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=1.9e-08  Score=71.74  Aligned_cols=65  Identities=18%  Similarity=0.064  Sum_probs=31.3

Q ss_pred             hhccccCEEeccCCcCccc--CCccccCCCccCEEEecCCCCCcccCccccCCCCCcEEeccCCCCC
Q 042890          171 ERQLRLSWLDLSDCKRLKS--LPSSLYRLKSLGILDLHGCSNLQRLPECLGQLSSPITCNLAKTNIE  235 (254)
Q Consensus       171 ~~~~~L~~L~l~~n~~~~~--~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~n~l~  235 (254)
                      ..+++|++|++++|++...  ++..+..+++|+.|++++|.+.+..+-.+.....|+.+++.+|++.
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            3455555555555554431  2233444555666666555544322212222334556666666554

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.95  E-value=2.9e-06  Score=60.32  Aligned_cols=107  Identities=14%  Similarity=0.109  Sum_probs=63.6

Q ss_pred             CCCcccEEeccCCCCCc-c-cccc-----ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc----C
Q 042890          127 NLEFLTKLDLSGCSKLK-R-LPEI-----SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS----L  190 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~-~-~p~~-----~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~----~  190 (254)
                      +.++|++|++++++..+ . ....     ....++.|++++|.++     .+...+...+.|+.|++++|.+.+.    +
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            45778899998754222 1 1100     1156778888887766     2334455667788888888776542    2


Q ss_pred             CccccCCCccCEEEecCCCCCc-------ccCccccCCCCCcEEeccCCC
Q 042890          191 PSSLYRLKSLGILDLHGCSNLQ-------RLPECLGQLSSPITCNLAKTN  233 (254)
Q Consensus       191 ~~~l~~l~~L~~L~l~~~~~~~-------~~~~~~~~l~~L~~L~l~~n~  233 (254)
                      ...+...++|+.|++++|....       .+...+...++|+.++++.+.
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFAS  142 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             HHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCCC
Confidence            2345566778888887654321       133344456777777776554

>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=97.84  E-value=4.5e-06  Score=59.02  Aligned_cols=78  Identities=17%  Similarity=0.085  Sum_probs=43.2

Q ss_pred             CCcCeEeccccccccc---chhhhhccccCEEeccCCcCcccCCccccCCCccCEEEecCCCCCcccCc-------cccC
Q 042890          151 GNISWLFLRGIAIEEL---PSSIERQLRLSWLDLSDCKRLKSLPSSLYRLKSLGILDLHGCSNLQRLPE-------CLGQ  220 (254)
Q Consensus       151 ~~L~~L~l~~~~~~~l---~~~~~~~~~L~~L~l~~n~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-------~~~~  220 (254)
                      +.|++|++++|+++.+   +..+..+++|+.|++++|.+.+.-.-...+...|+.+++.+|++......       .+..
T Consensus        65 ~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~  144 (162)
T d1koha1          65 PELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRER  144 (162)
T ss_dssp             TTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTT
T ss_pred             CCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHHHHH
Confidence            4455555555555543   23355667777777777775542221222334577777777766543321       2345


Q ss_pred             CCCCcEEe
Q 042890          221 LSSPITCN  228 (254)
Q Consensus       221 l~~L~~L~  228 (254)
                      +|+|+.||
T Consensus       145 ~P~L~~LD  152 (162)
T d1koha1         145 FPKLLRLD  152 (162)
T ss_dssp             STTCCEET
T ss_pred             CCCCCEEC
Confidence            67777665

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.71  E-value=1.6e-05  Score=56.38  Aligned_cols=106  Identities=14%  Similarity=0.054  Sum_probs=59.2

Q ss_pred             CcccccEEeccCCc-CCC----ccCCCCCCCCcccEEeccCCCCCcccccc------ccCCcCeEeccccccc-----cc
Q 042890          103 RMKKLVILNLRGSK-SLK----SLPSGIFNLEFLTKLDLSGCSKLKRLPEI------SSGNISWLFLRGIAIE-----EL  166 (254)
Q Consensus       103 ~~~~L~~L~l~~~~-~~~----~~~~~~~~l~~L~~L~l~~~~~~~~~p~~------~~~~L~~L~l~~~~~~-----~l  166 (254)
                      +.+.|++|+++++. +..    .+...+...++|+.|++++|.+.......      ..+.|+.|++++|.++     .+
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            34677777777643 221    12223445567777777776544321111      0256777777777766     23


Q ss_pred             chhhhhccccCEEeccCCcCcc-------cCCccccCCCccCEEEecCC
Q 042890          167 PSSIERQLRLSWLDLSDCKRLK-------SLPSSLYRLKSLGILDLHGC  208 (254)
Q Consensus       167 ~~~~~~~~~L~~L~l~~n~~~~-------~~~~~l~~l~~L~~L~l~~~  208 (254)
                      ...+...+.|++|++++|....       .+...+...+.|+.++++.+
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            3345555677777777665332       12334445567777777553

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.46  E-value=2.5e-05  Score=55.19  Aligned_cols=108  Identities=15%  Similarity=0.077  Sum_probs=63.2

Q ss_pred             CCCcccEEeccCCCCCc-cc----ccc--ccCCcCeEeccccccc-----ccchhhhhccccCEEeccCCcCccc----C
Q 042890          127 NLEFLTKLDLSGCSKLK-RL----PEI--SSGNISWLFLRGIAIE-----ELPSSIERQLRLSWLDLSDCKRLKS----L  190 (254)
Q Consensus       127 ~l~~L~~L~l~~~~~~~-~~----p~~--~~~~L~~L~l~~~~~~-----~l~~~~~~~~~L~~L~l~~n~~~~~----~  190 (254)
                      +.++|++|+++++...+ ..    ...  ..+.|+.|++++|.++     .+...+...+.++.+++++|.+.+.    +
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l   94 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL   94 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHH
Confidence            45788888888743222 11    110  1256778888888766     2334455667788888887776542    2


Q ss_pred             CccccCCCccCEEEec--CCCCCc----ccCccccCCCCCcEEeccCCCC
Q 042890          191 PSSLYRLKSLGILDLH--GCSNLQ----RLPECLGQLSSPITCNLAKTNI  234 (254)
Q Consensus       191 ~~~l~~l~~L~~L~l~--~~~~~~----~~~~~~~~l~~L~~L~l~~n~l  234 (254)
                      ...+...++|+.+++.  +|.+..    .+...+...+.|+.|++..+..
T Consensus        95 ~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~~  144 (166)
T d1io0a_          95 VEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  144 (166)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCCC
Confidence            3445566777766664  333332    2333445567778887766543

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.13  E-value=5.3e-05  Score=53.44  Aligned_cols=15  Identities=13%  Similarity=0.062  Sum_probs=7.3

Q ss_pred             hhhhccccCEEeccC
Q 042890          169 SIERQLRLSWLDLSD  183 (254)
Q Consensus       169 ~~~~~~~L~~L~l~~  183 (254)
                      .+...++|+.|++..
T Consensus       127 ~L~~n~~L~~L~l~~  141 (166)
T d1io0a_         127 MLEKNTTLLKFGYHF  141 (166)
T ss_dssp             HHHHCSSCCEEECCC
T ss_pred             HHHhCCCcCEEeCcC
Confidence            344445555555544