Citrus Sinensis ID: 012249

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------
Protein Sequence
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEcccccccccccHHHHHccccccEEEccccccccccccccccccccEEEccccccccccccccccccccEEEccccccccccccccccccccEEEcccccccccccccccccccccEEEccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHccccccccccHHccccccccccccccccccccEEEccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEcccccccccccccccccHHHHHcccccccccccccccEEccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccEEEEccHHcccccccccccccccccccEEc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHccccEEEEccccccccccHHHHHHHHHEEEHHccccccccccccccccccEEEEEccccccccccHHHHHHccccEEEEccccccHHccccHHHHHHHHEEEccccccccccHHHHHHHHHcEEEcccccHHHccHHHHHHHHcEEEEccccccccccccHHHHHHHHcEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccEccccccHHHHHHHHHccHHHHHHHHHHHccccccEEEEcccccHHHHHHHHcccccHccccccccccccccccccccccccccccccccEEEEEEccccHccccHHHHccccccccEEEEcccHHHHHEEcccccccccccccccccccccccHHEEEEEcccccHHHHccccccccccccEEEEEEccHHHcccccccHHHHccccccccccEEEEccHHHHHHcccccHHHHHHccccccc
Coil and Loop (DISEMBL)
MHDLIRDMALRITSKSPLFMVKAGLrllefpgeqeWEENLERVSLMRNNieeipsnmsphCEILSTLLLQRNENLQRIPECFFVHMHGlkvvnlsstdievlpssvsdltnlrslslgwcrrlkrvPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSlqlkkfpagilprLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIyvkstdgrgsknYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVdevtslndvlprelglvnigkfshdlkvlrfdscknlknlfslrllpalqnLKVLAVISCNSIEEivavededtekelatntiintvtlprlkklrfydlpefksfcsyngvlvcnslqeievrrcpklkrlslslplldhgqpsppaALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Flexible Loop (DISEMBL)
MHDLIRDMAlritsksplfMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVlpssvsdltnlrslslgwcrrlkrvPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIvavededtekelatntiintvtlprlkkLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSlplldhgqpspPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Low Complexity Region (SEG)
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSlarllalqyldlydTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRrcpklkrlslslpllDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Disordered region (IsUnstruct)
*******MALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEI***MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDH******AALKVIKIEKELWESLDWDQANAKEVLN*****
Disordered Region (DISOPRED)
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDE**************VTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Disordered Region (DISEMBL)
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Disordered Region (DISPRO)
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVE*************INTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSYCKF
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	467	2.2.26 [Sep-21-2011]
O81825	919	Probable disease resistan	yes	no	0.867	0.440	0.302	2e-37
Q9T048	985	Disease resistance protei	no	no	0.905	0.429	0.283	3e-28
Q9C8T9	898	Putative disease resistan	no	no	0.845	0.439	0.282	3e-20
Q42484	909	Disease resistance protei	no	no	0.850	0.436	0.259	5e-20
Q9LVT3	948	Probable disease resistan	no	no	0.832	0.410	0.268	5e-16
Q9C8K0	854	Probable disease resistan	no	no	0.766	0.419	0.285	9e-16
Q8RXS5	888	Probable disease resistan	no	no	0.822	0.432	0.268	3e-15
O82484	892	Putative disease resistan	no	no	0.351	0.183	0.357	3e-15
Q9FLB4	874	Putative disease resistan	no	no	0.841	0.449	0.270	4e-14
Q940K0	889	Probable disease resistan	no	no	0.293	0.154	0.349	1e-13

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

 Score =  156 bits (395), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 145/479 (30%), Positives = 241/479 (50%), Gaps = 74/479 (15%)

Query: 1   MHDLIRDMALR-ITSKSPLF--MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNM 57
           MHD++RD A+  ++S+   F  +V AG  L+EFP + ++  +++RVSLM N +E +P+N+
Sbjct: 431 MHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFP-QDKFVSSVQRVSLMANKLERLPNNV 489

Query: 58  SPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSL 117
               E L  LLLQ N +++ +P  F      L++++LS   I  LP S S+L +LRSL L
Sbjct: 490 IEGVETL-VLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVL 548

Query: 118 GWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS-SLQLKKFPAGIL 176
             C++L+ +PSL  L+ LQ+LDL+++ I E+P G+E L +L ++ +S + QL+  PAG +
Sbjct: 549 RNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTI 608

Query: 177 PRLRSLYKLKL-----SFGNEA----LRETVEE----------AARLSDRLDY---FEGY 214
            +L SL  L +     S+G +      + T++E          A +L D L +   F+  
Sbjct: 609 LQLSSLEVLDMAGSAYSWGIKGEEREGQATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSL 668

Query: 215 FSTLKDFNIY---VKSTDGRGSKNYCLALS----AHGMGGCLVTHLEVDKSVFLYGCK-- 265
              L  F      ++S    G+   CLA+S    ++   G L+ H+    S+ L  C+  
Sbjct: 669 TKRLTKFQFLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWLLQHV---TSLDLNYCEGL 725

Query: 266 -------ICEIKETIVLLKDVQC---------------LQMFEVDEVTSLNDVLPRELGL 303
                  + + K + V +K +                 L +F   E  SL++V    +G 
Sbjct: 726 NGMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQLDLFPNLEELSLDNVNLESIGE 785

Query: 304 VN--IGKFSHDLKVLRFDSCKNLKNLFSLRLLPA-LQNLKVLAVISCNSIEEIVAVEDED 360
           +N  +G     LK+L+   C+ LK LFS ++L   L NL+ + V+SC  +EE+       
Sbjct: 786 LNGFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVP 845

Query: 361 TEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRL 419
            +             LP+L  ++   LP+ +S C  N  +V  SL+ +EV  C  LK L
Sbjct: 846 VD-------FCAESLLPKLTVIKLKYLPQLRSLC--NDRVVLESLEHLEVESCESLKNL 895

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

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  126 bits (317), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 151/532 (28%), Positives = 232/532 (43%), Gaps = 109/532 (20%)

Query: 1   MHDLIRDMALRITSKS-----PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPS 55
           MHD++RD A+ I S S      L M   GL+ +    + +   +L RVSLM N +E +P 
Sbjct: 462 MHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIR---QDKLAPSLRRVSLMNNKLESLPD 518

Query: 56  NMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRS 114
            +   C   S LLLQ N  L+ +P  F      L+++NLS T I+  PS S+  L +L S
Sbjct: 519 LVEEFCVKTSVLLLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHS 578

Query: 115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS-SLQLKKFPA 173
           L L  C +L ++PSL  L  L+ LDL  T I E P G+E L+   HL LS +L L+  PA
Sbjct: 579 LFLRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPA 638

Query: 174 GILPRLRSL---------YKLKLSFGNEALRETVEE----------AARLSDR---LDYF 211
            ++ RL SL         Y+  +    +  + TVEE          + RL      L+  
Sbjct: 639 RVVSRLSSLETLDMTSSHYRWSVQGETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKR 698

Query: 212 EGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDK-----------SVF 260
             +   LK F + V S        Y L  + H      ++HL V +           S+ 
Sbjct: 699 NTWIKRLKKFQLVVGS-------RYILR-TRHDKRRLTISHLNVSQVSIGWLLAYTTSLA 750

Query: 261 LYGCKICE--IKETIVLLKDVQCLQMFEVD----------EVTSLN---------DVLP- 298
           L  C+  E  +K+ +   K  + L+   ++          E+ S N         D+LP 
Sbjct: 751 LNHCQGIEAMMKKLVSDNKGFKNLKSLTIENVIINTNSWVEMVSTNTSKQSSDILDLLPN 810

Query: 299 -RELGL--VNIGKFS----------HDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVI 345
             EL L  V++  FS            LK++    C+ L+ L   R    + NL+ + + 
Sbjct: 811 LEELHLRRVDLETFSELQTHLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEIS 870

Query: 346 SCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSL 405
            C+S++             L    + +   +P L+ L+  +LP   S C++  V  C  L
Sbjct: 871 YCDSLQ------------NLHEALLYHQPFVPNLRVLKLRNLPNLVSICNWGEVWEC--L 916

Query: 406 QEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANA 457
           +++EV  C +L  L +S         S    +K IK E   WE L+WD  +A
Sbjct: 917 EQVEVIHCNQLNCLPIS---------STCGRIKKIKGELSWWERLEWDDPSA 959

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  100 bits (248), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 134/475 (28%), Positives = 213/475 (44%), Gaps = 80/475 (16%)

Query: 1   MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           +HD++R+MAL I S    ++  F+V+A + L E    + W   + R+SLM+NNI  +   
Sbjct: 475 LHDVVREMALWIASDLGKQNEAFIVRASVGLREILKVENWNV-VRRMSLMKNNIAHLDGR 533

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD-IEVLPSSVSDLTNLRSL 115
           +   C  L+TLLLQ + +L++I   FF  M  L V++LS    +  LP+ +S+L      
Sbjct: 534 LD--CMELTTLLLQ-STHLEKISSEFFNSMPKLAVLDLSGNYYLSELPNGISEL------ 584

Query: 116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGI 175
                            ++LQYL+L  T I  +P+G++ L+ L HLYL          GI
Sbjct: 585 -----------------VSLQYLNLSSTGIRHLPKGLQELKKLIHLYLERTSQLGSMVGI 627

Query: 176 LPRLRSLYKLKLSFGNEALR-ETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSK 234
              L +L  LKLS  + A   +TV+E     + L++ E   +T+ D  +        G+ 
Sbjct: 628 -SCLHNLKVLKLSGSSYAWDLDTVKEL----EALEHLEVLTTTIDDCTL--------GTD 674

Query: 235 NYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLN 294
            +   LS+H +  C    +   K            + ++ +  D   LQ F ++   +  
Sbjct: 675 QF---LSSHRLMSC----IRFLKISNNSNRNRNSSRISLPVTMDR--LQEFTIEHCHT-- 723

Query: 295 DVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIV 354
                E+ +  I  FS  ++V    +C+ L+ L  L   P   NLK L V+S N +E+I+
Sbjct: 724 ----SEIKMGRICSFSSLIEV-NLSNCRRLRELTFLMFAP---NLKRLHVVSSNQLEDII 775

Query: 355 AVED-EDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRC 413
             E   D EK          V  P+L +L  Y+L E K+   Y   L    L++I V  C
Sbjct: 776 NKEKAHDGEKS-------GIVPFPKLNELHLYNLRELKNI--YWSPLPFPCLEKINVMGC 826

Query: 414 PKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDW-DQANAKEVLNSYCKF 467
           P LK+L L      HG       L +   E E    ++W D+A     L +   F
Sbjct: 827 PNLKKLPLDSKSGKHG----GNGLIITHREMEWITRVEWEDEATKTRFLANRSSF 877

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q42484|RPS2_ARATH Disease resistance protein RPS2 OS=Arabidopsis thaliana GN=RPS2 PE=1 SV=1

 Score = 99.4 bits (246), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 126/486 (25%), Positives = 207/486 (42%), Gaps = 89/486 (18%)

Query: 1   MHDLIRDMALRITSKS----PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           MH+++R  AL + S+      L +V+  +   E P  + W + L  +SL+ N I+ +P  
Sbjct: 471 MHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQAL-VISLLDNRIQTLPEK 529

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS 116
           +   C  L+TL+LQ+N +L++IP  FF+HM  L+V++LS T I  +P S+  L  L  LS
Sbjct: 530 LI--CPKLTTLMLQQNSSLKKIPTGFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHLS 587

Query: 117 LGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQ-LKKFPAGI 175
           +                         T+I  +P+ +  L  L HL L   Q L+  P   
Sbjct: 588 MS-----------------------GTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDA 624

Query: 176 LPRLRSLYKLKL--SFGNEALRETVEEAARLSDRLDYFE-GYFSTLKDFNIYVKSTDGRG 232
           +  L  L  L L  S+    L+   E+ A   + L + +  Y   L    I V S +   
Sbjct: 625 ICWLSKLEVLNLYYSYAGWELQSFGEDEA---EELGFADLEYLENLTTLGITVLSLETLK 681

Query: 233 SKNYCLALSAHGMGGCLVTHLEVDK-SVFLY----------------GCKICEIKETIVL 275
           +     AL  H      + HL V++ +  LY                  K C   E +V 
Sbjct: 682 TLFEFGALHKH------IQHLHVEECNELLYFNLPSLTNHGRNLRRLSIKSCHDLEYLVT 735

Query: 276 LKDVQ--CLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLL 333
             D +   L   EV  + SL++ L R  G         +++ +    C  LKN+  ++ L
Sbjct: 736 PADFENDWLPSLEVLTLHSLHN-LTRVWGNSVSQDCLRNIRCINISHCNKLKNVSWVQKL 794

Query: 334 PALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSF 393
           P L+   V+ +  C  IEE+++        E  + ++ +    P LK LR  DLPE  S 
Sbjct: 795 PKLE---VIELFDCREIEELIS--------EHESPSVEDPTLFPSLKTLRTRDLPELNSI 843

Query: 394 CSYNGVLVCNSLQEIE---VRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESL 450
                     S Q++E   +  CP++K+L          +      L  +  E++ W++L
Sbjct: 844 LPSR-----FSFQKVETLVITNCPRVKKLPFQ-------ERRTQMNLPTVYCEEKWWKAL 891

Query: 451 DWDQAN 456
           + DQ N
Sbjct: 892 EKDQPN 897

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. 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. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT3|DRL38_ARATH Probable disease resistance protein At5g47260 OS=Arabidopsis thaliana GN=At5g47260 PE=3 SV=2

 Score = 86.3 bits (212), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 126/470 (26%), Positives = 215/470 (45%), Gaps = 81/470 (17%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MH ++R+MAL I S+   F+V  G R+ +     +W   + R+S+    I+ I    SP 
Sbjct: 463 MHGMVREMALWIASEH--FVVVGGERIHQMLNVNDWR-MIRRMSVTSTQIQNISD--SPQ 517

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSLSLGW 119
           C  L+TL+ +RN +L+ I   FF  M GL V++LS + ++  LP  VS L  LR L+L W
Sbjct: 518 CSELTTLVFRRNRHLKWISGAFFQWMTGLVVLDLSFNRELAELPEEVSSLVLLRFLNLSW 577

Query: 120 -CRRLKRVP-SLARLLALQYLDL-YDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGIL 176
            C  +K +P  L  L +L +LDL Y + ++EV     +L         +LQ+ +    + 
Sbjct: 578 TC--IKGLPLGLKELKSLIHLDLDYTSNLQEVDVIASLL---------NLQVLRLFHSVS 626

Query: 177 PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNY 236
             L+ +  ++L    + L  TV  ++ L  RL   +   S+++  ++   +    G    
Sbjct: 627 MDLKLMEDIQLLKSLKELSLTVRGSSVLQ-RLLSIQRLASSIRRLHLTETTIVDGG---- 681

Query: 237 CLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDV 296
            L+L+A      + +  E+D    + GC I EI  TI    D +C         T   ++
Sbjct: 682 ILSLNA------IFSLCELD----ILGCNILEI--TI----DWRC---------TIQREI 716

Query: 297 LPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAV 356
           +P+            +++ +    C+ L++L  L L P L  L   +V  C  +EE+++ 
Sbjct: 717 IPQ----------FQNIRTMTIHRCEYLRDLTWLLLAPCLGEL---SVSECPQMEEVIS- 762

Query: 357 EDEDTEKELATNTIINTVTLP--RLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCP 414
                 K+ A   + NT   P   L KL    LP+ +S   Y   L    L+ + +RRCP
Sbjct: 763 ------KDKAMAKLGNTSEQPFQNLTKLVLDGLPKLESI--YWTPLPFPVLEYLVIRRCP 814

Query: 415 KLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVLNSY 464
           +L+RL  +       Q       +VIKI       ++W+    K+  + +
Sbjct: 815 ELRRLPFNSESTIGNQVETIIEEQVIKI-------VEWEDEATKQRFSHF 857

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score = 85.5 bits (210), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 127/445 (28%), Positives = 191/445 (42%), Gaps = 87/445 (19%)

Query: 1   MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           MH +IR+MAL I S    +     VK+G  +   P +  WE  + +VSL+   IE+I  +
Sbjct: 473 MHYVIREMALWINSDFGKQQETICVKSGAHVRMIPNDINWE-IVRQVSLISTQIEKI--S 529

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSL 115
            S  C  LSTLLL  N+ L  I   FF+ M  L V++LS+   +  LP  +S+L      
Sbjct: 530 CSSKCSNLSTLLLPYNK-LVNISVGFFLFMPKLVVLDLSTNMSLIELPEEISNLC----- 583

Query: 116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS-SLQLKKFPAG 174
                             +LQYL+L  T I+ +P GM+ L  L +L L  S +L+    G
Sbjct: 584 ------------------SLQYLNLSSTGIKSLPGGMKKLRKLIYLNLEFSYKLESL-VG 624

Query: 175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIY--VKSTDGRG 232
           I   L +L  LKL + N  + + + E  +    +D+ +    T+ D  I   ++  D   
Sbjct: 625 ISATLPNLQVLKLFYSNVCVDDILMEELQ---HMDHLKILTVTIDDAMILERIQGIDRLA 681

Query: 233 S--KNYCLA--------LSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCL 282
           S  +  CL         LS   +GG         + + +  C I EIK      K+ + +
Sbjct: 682 SSIRGLCLTNMSAPRVVLSTTALGGL--------QQLAILSCNISEIKMDWK-SKERREV 732

Query: 283 QMFEVDEVTSLNDVLPRELGLVNIGKF--SHDLKVLRFDSCKNLKNLFSLRLLPALQNLK 340
              E+   TS +    ++L  VNI K     DL  L F                  QNLK
Sbjct: 733 SPMEIHPSTSTSSPGFKQLSSVNIMKLVGPRDLSWLLF-----------------AQNLK 775

Query: 341 VLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVL 400
            L V     IEEI+  E          ++I   +   +L+ L  Y LPE K  C +N   
Sbjct: 776 SLHVGFSPEIEEIINKE--------KGSSITKEIAFGKLESLVIYKLPELKEIC-WNYRT 826

Query: 401 VCNSLQEIEVRRCPKLKRLSLSLPL 425
           + NS +  +V+ CPKL     + P+
Sbjct: 827 LPNS-RYFDVKDCPKLPEDIANFPM 850

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score = 83.6 bits (205), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 126/469 (26%), Positives = 195/469 (41%), Gaps = 85/469 (18%)

Query: 1   MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           MHD++R+MAL I S    +   F+V+AGL+    P  ++W+    RVSLM NNIE I   
Sbjct: 471 MHDVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVA-RRVSLMFNNIESIRD- 528

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
            +P    L TLLL++N  L  I   FF  M  L V++LS + D+  LP+ +S+       
Sbjct: 529 -APESPQLITLLLRKN-FLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISE------- 579

Query: 116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGI 175
                            ++LQYL L  TRI   P G+  L  L +L L   ++ +   GI
Sbjct: 580 ----------------CVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMVESICGI 623

Query: 176 --LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS 233
             L  L+ L      F  +       +       L    G  S L+ F            
Sbjct: 624 SGLTSLKVLRLFVSGFPEDPCVLNELQLLENLQTLTITLGLASILEQF------------ 671

Query: 234 KNYCLALSAHGMGGCL----VTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDE 289
                 LS   +  C     + +L    SV  +   +  ++E      D+     +E+ +
Sbjct: 672 ------LSNQRLASCTRALRIENLNPQSSVISFVATMDSLQELHFADSDI-----WEI-K 719

Query: 290 VTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNS 349
           V     VLP  L +     F  +L  +  + C  L++L  L   P   NL VL VIS + 
Sbjct: 720 VKRNETVLP--LHIPTTTTFFPNLSQVSLEFCTRLRDLTWLIFAP---NLTVLRVISASD 774

Query: 350 IEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIE 409
           ++E++  E  + +         N +    LK+LR  ++   K    + G L    LQ+I 
Sbjct: 775 LKEVINKEKAEQQ---------NLIPFQELKELRLENVQMLKHI--HRGPLPFPCLQKIL 823

Query: 410 VRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAK 458
           V  C +L++L L+         S P    VI+  K+  E L+W+    K
Sbjct: 824 VNGCSELRKLPLNF-------TSVPRGDLVIEAHKKWIEILEWEDEATK 865

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 70/196 (35%), Positives = 98/196 (50%), Gaps = 32/196 (16%)

Query: 1   MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           MHD++R+MAL   S         +V+AG  L + P  ++W   + R+SLM N IEEI   
Sbjct: 474 MHDVVREMALWTLSDLGKNKERCIVQAGSGLRKVPKVEDWGA-VRRLSLMNNGIEEISG- 531

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSL 115
            SP C  L+TL LQ N++L  I   FF HM  L V++LS    ++ LP  +S+L      
Sbjct: 532 -SPECPELTTLFLQENKSLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQISEL------ 584

Query: 116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGI 175
                            +AL+YLDL  T IE +P  ++ L+ L HL L  ++     AGI
Sbjct: 585 -----------------VALRYLDLSHTNIEGLPACLQDLKTLIHLNLECMRRLGSIAGI 627

Query: 176 LPRLRSLYKLKLSFGN 191
             +L SL  L L   N
Sbjct: 628 -SKLSSLRTLGLRNSN 642

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 79.7 bits (195), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 128/473 (27%), Positives = 214/473 (45%), Gaps = 80/473 (16%)

Query: 1   MHDLIRDMALRITS------KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIP 54
           MHD++R+MAL I+S      +  + +V+A  +L + P  ++ ++ + R+SL+ N IEE  
Sbjct: 463 MHDVVREMALWISSGCGDQKQKNVLVVEANAQLRDIPKIED-QKAVRRMSLIYNQIEEAC 521

Query: 55  SNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLR 113
            ++  HC  L TLLL R+  L++I   F  H+  L V++LS + ++  LPS  S L +LR
Sbjct: 522 ESL--HCPKLETLLL-RDNRLRKISREFLSHVPILMVLDLSLNPNLIELPS-FSPLYSLR 577

Query: 114 SLSLGWCRRLKRVP-SLARLLALQYLDLYDT----RIEEVPE--GMEMLENLSHLYLSSL 166
            L+L  C  +  +P  L  L  L YL+L  T    RI E+ +   +E+L+    LY S +
Sbjct: 578 FLNLS-CTGITSLPDGLYALRNLLYLNLEHTYMLKRIYEIHDLPNLEVLK----LYASGI 632

Query: 167 QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVK 226
            +       +  ++ LY L ++  N +  E      R S    Y EG   TL + + Y  
Sbjct: 633 DITDKLVRQIQAMKHLYLLTITLRNSSGLEIFLGDTRFSS---YTEGL--TLDEQSYY-- 685

Query: 227 STDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFE 286
                             +   L T   +  S FL      EI+++ +   +++     E
Sbjct: 686 ----------------QSLKVPLAT---ISSSRFL------EIQDSHIPKIEIEGSSSNE 720

Query: 287 VDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVIS 346
            + V      + R++  +N+ K       +R D+C  LK+L  L   P   +L  L V+ 
Sbjct: 721 SEIVGPR---VRRDISFINLRK-------VRLDNCTGLKDLTWLVFAP---HLATLYVVC 767

Query: 347 CNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQ 406
              IE I++  +E   ++  T  +   +    L+ L   +L + KS   Y   L+   L+
Sbjct: 768 LPDIEHIISRSEESRLQK--TCELAGVIPFRELEFLTLRNLGQLKSI--YRDPLLFGKLK 823

Query: 407 EIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKE 459
           EI ++ CPKL +L L          S      VI  E+E  + L W+    KE
Sbjct: 824 EINIKSCPKLTKLPLD-------SRSAWKQNVVINAEEEWLQGLQWEDVATKE 869

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score = 78.6 bits (192), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 59/169 (34%), Positives = 91/169 (53%), Gaps = 32/169 (18%)

Query: 1   MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
           MHD++R+MAL I S    +   F+V+AG+ L E P  ++W   + ++SLM N+IEEI   
Sbjct: 471 MHDVVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGA-VRKMSLMDNDIEEI--T 527

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
               C  L+TL LQ N+ L+ +P  F  +M  L V++LS + D   LP  +S L      
Sbjct: 528 CESKCSELTTLFLQSNK-LKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGL------ 580

Query: 116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS 164
                            ++LQ+LDL +T IE +P G++ L+ L+ L L+
Sbjct: 581 -----------------VSLQFLDLSNTSIEHMPIGLKELKKLTFLDLT 612

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	467
224112395	1062	nbs-lrr resistance protein [Populus tric	0.982	0.432	0.406	1e-81
224108229	900	BED finger-nbs-lrr resistance protein [P	0.980	0.508	0.390	4e-77
224115986	1093	BED finger-nbs-lrr resistance protein [P	0.976	0.417	0.399	2e-71
224110812	681	predicted protein [Populus trichocarpa]	0.978	0.671	0.385	2e-71
224102275	938	nbs-lrr resistance protein [Populus tric	0.961	0.478	0.385	5e-71
224096143	596	predicted protein [Populus trichocarpa]	0.976	0.765	0.389	2e-70
224145639	1010	BED finger-nbs-lrr resistance protein [P	0.963	0.445	0.369	3e-70
224113569	1139	BED finger-nbs-lrr resistance protein [P	0.980	0.402	0.388	4e-70
224107841	503	predicted protein [Populus trichocarpa]	0.957	0.888	0.371	1e-69
224109372	1077	BED finger-nbs-lrr resistance protein [P	0.993	0.430	0.376	4e-69

>gi|224112395|ref|XP_002332783.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222833192|gb|EEE71669.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  310 bits (794), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 206/507 (40%), Positives = 284/507 (56%), Gaps = 48/507 (9%)

Query: 1    MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
            MHDLIRDMA+ I   +   MVKAG +L E P  +EW ENL RVSL+RN I+EIPS+ SP 
Sbjct: 561  MHDLIRDMAIHILQDNSQVMVKAGAQLKELPDAEEWTENLTRVSLIRNKIKEIPSSYSPR 620

Query: 61   CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
            C  LSTL L  N  L+ I + FF  +HGLKV+NLS T IE LP SVSDL +L +L L +C
Sbjct: 621  CPYLSTLFLCANGGLRFIGDSFFKQLHGLKVLNLSGTGIENLPDSVSDLVSLTALLLSYC 680

Query: 121  RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
              L+ VPSL +L AL+ LDL+DT +E++P+GME L NL HL ++    K+FP+GILP L 
Sbjct: 681  YNLRHVPSLKKLRALKRLDLFDTTLEKMPQGMECLTNLRHLRMNGCGEKEFPSGILPNLS 740

Query: 181  SL--YKLKLSFGNEALRETVEEAARLSDR-LDYFEGYFSTLKDFNIYVKSTDGRGSKN-- 235
             L  + L+   GN     TV+     S R L+  E +F    DF  Y++S DG  S +  
Sbjct: 741  HLQVFVLEEFMGNCYAPITVKGKEVGSLRNLETLECHFEGFSDFVEYLRSRDGIQSLSTY 800

Query: 236  ----------YCLALSAH--------GMGGCLVTHLEVDKSVFLYGCK--ICEIKET--- 272
                      Y   + A+        G+G   +      K  F  G +  +CE  +    
Sbjct: 801  KILVGMVDDFYWANMDANIDDITKTVGLGNLSINGDGDFKVKFFNGIQRLVCERIDARSL 860

Query: 273  --IVLLKDVQCLQMFEVDEVTSLNDVL--------PRELGLVNIGKFSHDLKVLRFDSCK 322
              ++ L++   L+ F + +  ++  ++        P  L   N G FS  LK      C 
Sbjct: 861  YDVLSLENATELEAFMIRDCNNMESLVSSSWFCYTPPRLPSYN-GTFS-GLKEFYCGGCN 918

Query: 323  NLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKL 382
            N+K LF L LLP   NL+ + V  C  +EEIV   DE++    +T+  I    LP+L+ L
Sbjct: 919  NMKKLFPLVLLPNFVNLEDIYVRDCEKMEEIVGTTDEES----STSNSITGFILPKLRSL 974

Query: 383  RFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAAL-KVIK 441
              + LPE KS CS    L CNSL+ I V  C KLKR+++ LPLL++GQPSPP +L ++I 
Sbjct: 975  ELFGLPELKSICS--AKLTCNSLETISVMHCEKLKRMAICLPLLENGQPSPPPSLEEIIV 1032

Query: 442  IEKELWES-LDWDQANAKEVLNSYCKF 467
              KE WES ++W+  NAK+VL  + +F
Sbjct: 1033 YPKEWWESVVEWEHPNAKDVLRPFVEF 1059

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108229|ref|XP_002333416.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222836514|gb|EEE74921.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  295 bits (754), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 198/507 (39%), Positives = 294/507 (57%), Gaps = 49/507 (9%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MHDLIRDMA++I  ++   MVKAG +L E P  +EW ENL RVSLM+N IEEIPS+ SP 
Sbjct: 402 MHDLIRDMAIQILLENSQGMVKAGAQLKELPDAEEWMENLTRVSLMQNEIEEIPSSYSPR 461

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
           C  LSTL L+ N+ L+ + + FF  +HGLKV++LS   IE LP SVSDL +L +L L  C
Sbjct: 462 CPYLSTLFLRDNDRLRFVADSFFKQLHGLKVLDLSYKGIENLPDSVSDLVSLTALLLKEC 521

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
             L+ VPSL +L AL+ LDLY T ++++P+GME L NL +L ++    K+FP+GILP+L 
Sbjct: 522 ENLRHVPSLEKLRALKRLDLYWTPLKKMPQGMECLTNLRYLRMNGCGEKEFPSGILPKLS 581

Query: 181 SL--YKLKLSFGNEALRETV----EEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS- 233
            L  + L+   G       +    +E   L + L+  E +F    DF  Y++S DG  S 
Sbjct: 582 HLQVFVLEELMGECCAYAPITVKGKEVGSLRN-LESLECHFEGFSDFVEYLRSRDGIQSL 640

Query: 234 KNYCL--------------ALSAHGMG-GCLVTHLEVDKSV-FLYGCK--ICEIKET--- 272
             Y +              A  +  +G G L  + + D  V +L G +  +CE  +    
Sbjct: 641 STYTIIVGMVDTDKWIGTCAFPSKTVGLGNLSINGDGDFQVKYLNGIQGLVCECIDARSL 700

Query: 273 --IVLLKDVQCLQMFEVDEVTSLNDVL--------PRELGLVNIGKFSHDLKVLRFDSCK 322
             ++ L++   L++  +++  ++  ++        P  L   N G FS  LK+     C+
Sbjct: 701 CDVLSLENATELELIRIEDCNNMESLVSSSWFCSAPPPLPSYN-GMFS-SLKMFYCYGCE 758

Query: 323 NLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKL 382
           ++K LF L LLP   NL+ + V  C  +EEI+   DE++    +T+  I  V LP+L+ L
Sbjct: 759 SMKKLFPLVLLPNFVNLERIVVEDCKKMEEIIGTTDEES----STSNSITEVILPKLRTL 814

Query: 383 RFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKI 442
           R ++LPE KS CS    L+CNSL++I+V  C KLKR+ + LPLL++ QPSPP +LK I +
Sbjct: 815 RLFELPELKSICSAK--LICNSLEDIDVEDCQKLKRMPICLPLLENDQPSPPPSLKEITV 872

Query: 443 -EKELWES-LDWDQANAKEVLNSYCKF 467
             +E WE+ ++W+  NAK+VL    +F
Sbjct: 873 YPEEWWETVVEWEHPNAKDVLRRCVRF 899

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115986|ref|XP_002332020.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222875245|gb|EEF12376.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  276 bits (706), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 202/506 (39%), Positives = 285/506 (56%), Gaps = 50/506 (9%)

Query: 1    MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
            MHDLIRDMA++I  ++   MVKAG +L E P  +EW +NL RVSLM+N IEEIPS+ SP 
Sbjct: 596  MHDLIRDMAIQILLENSQGMVKAGAQLKELPDAEEWMKNLTRVSLMQNKIEEIPSSHSPM 655

Query: 61   CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
            C  LSTL L  N  L+ + + FF  +HGLKV++LS T IE LP SVSDL +L +L L  C
Sbjct: 656  CPNLSTLFLCDNRGLRFVADSFFKQLHGLKVLDLSCTGIENLPDSVSDLVSLTALLLKKC 715

Query: 121  RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
              L+ VPSL +L+AL+ LDL  T ++++P+GME L NL +L ++    K+FP+GIL +L 
Sbjct: 716  ENLRHVPSLKKLMALKRLDLSRTALKKMPQGMECLNNLRYLRMNGCGEKEFPSGILSKLS 775

Query: 181  SL--YKLKLSFGNEALRETVEEAARLSD--RLDYFEGYFSTLKDFNIYVKSTDGRGS-KN 235
             L  + L+ +  +        +   +     LD  E +F    DF  Y++S DG  S   
Sbjct: 776  HLQVFVLEETLIDRRYAPITVKGKEVGSLRNLDTLECHFKGFSDFVEYLRSQDGIQSLSG 835

Query: 236  YCLALSAHGMGGCLVTHLEVD---KSVFLYGCKICEIKETIVL-LKDVQCLQMFEVDEVT 291
            Y +++   GM G        +   K V L    I   ++  V+ L D+Q L + E  +  
Sbjct: 836  YRISV---GMVGTYFWKYMDNLPCKRVRLCNLSINRDRDFQVMSLNDIQGL-VCECIDAR 891

Query: 292  SLNDVL----PRELGLVNIGK------------------------FSHDLKVLRFDSCKN 323
            SL DVL      EL  ++I                          FS  LK      CK+
Sbjct: 892  SLCDVLSLENATELKHISIWDCNSMESSVSSSWFCCAPPPLPSCMFS-GLKEFYCVRCKS 950

Query: 324  LKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLR 383
            +K LF L LL  L NL+V+ V  C  +EEI+   DE++    +T+  I  + LP+L+ LR
Sbjct: 951  MKKLFPLVLLSNLVNLEVIDVRDCEKMEEIIGTTDEES----STSISITKLILPKLRTLR 1006

Query: 384  FYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIE 443
               LPE KS CS    L+CNSL++I V  C KLKR+ + LPLL++GQPSPP +L+ + I+
Sbjct: 1007 LRYLPELKSICSAK--LICNSLEDITVEDCDKLKRMPICLPLLENGQPSPPPSLRRMNIK 1064

Query: 444  -KELWES-LDWDQANAKEVLNSYCKF 467
             KE WE+ ++W+  NAK+VL  + KF
Sbjct: 1065 SKEWWETVVEWEHPNAKDVLRPFVKF 1090

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110812|ref|XP_002333023.1| predicted protein [Populus trichocarpa] gi|222834655|gb|EEE73118.1| predicted protein [Populus trichocarpa]

 Score =  276 bits (705), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 197/511 (38%), Positives = 279/511 (54%), Gaps = 54/511 (10%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MHDLIRDMA++I  ++   MVKAG +L E P   EW EN  RVSLM N+I++IPS+ SP 
Sbjct: 178 MHDLIRDMAIQILQENSQGMVKAGAQLRELPDADEWTENFTRVSLMHNHIQDIPSSHSPR 237

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
           C  LSTLLL  N  L+ I + FF  + GLKV++LS T+I  LP SVS+L NL +L L  C
Sbjct: 238 CPSLSTLLLCENSELKFIADSFFEQLRGLKVLDLSYTNITKLPDSVSELVNLTALLLIGC 297

Query: 121 RRLKRVPSLARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL 179
             L+ VPSL +L AL+ LDL  T  +E++P+GME L NL +L ++    K+FP+G+LP+L
Sbjct: 298 HMLRHVPSLEKLRALRRLDLSGTWALEKMPQGMECLCNLRYLRMNGCGEKEFPSGLLPKL 357

Query: 180 RSLYKLKLSF----GNEALRETV--EEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS 233
             L   +L      G +    TV  +E A L  +L+    +F    DF  Y+KS D   S
Sbjct: 358 SHLQVFELKSAKDRGGQYAPITVKGKEVACLR-KLESLGCHFEGYSDFVEYLKSQDETQS 416

Query: 234 KNYCLALSAHGMGGCLVT---HLEVDKSVFLYGCKICEIKE-TIVLLKDVQCLQMFEVDE 289
                 LS + +   L+      +  K+VFL    +    +   +  KD+Q L + + ++
Sbjct: 417 ------LSKYQIVVGLLDINFSFQRSKAVFLDNLSVNRDGDFQDMFPKDIQQLIIDKCED 470

Query: 290 VTSLNDVLP-----RELGLVNI--------------------------GKFSHDLKVLRF 318
            TSL D+        +L ++ I                          G FS  L V   
Sbjct: 471 ATSLCDIFSLIKYTTQLEIIWIRDCNSMESLVSSSWLCSAPLSLPSYNGIFS-SLGVFYC 529

Query: 319 DSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPR 378
             C+++K LF L LLP L NL+V+ VI C  IEEI+     D E  +      +   LP+
Sbjct: 530 YGCRSMKKLFPLVLLPHLVNLEVIQVIHCEKIEEIIGGTRSDEEGVMDEENSSSEFKLPK 589

Query: 379 LKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAAL- 437
           L+ L  Y LPE KS CS    L+C+SLQ I V  C KLK + + LPLL++GQPSPP +L 
Sbjct: 590 LRCLVLYGLPELKSICSAK--LICDSLQVITVMNCEKLKGMGICLPLLENGQPSPPPSLE 647

Query: 438 KVIKIEKELWES-LDWDQANAKEVLNSYCKF 467
           +++ + +E WES ++W+    K+VL  + KF
Sbjct: 648 RIVAMPEEWWESVVEWEHPKTKDVLRPFVKF 678

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102275|ref|XP_002334197.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222870013|gb|EEF07144.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  275 bits (702), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 201/521 (38%), Positives = 285/521 (54%), Gaps = 72/521 (13%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MHDLIRDMA+ +  ++   MVKAG +L E P  +EW ENL  VSLM+N IEEIPS+ SP 
Sbjct: 435 MHDLIRDMAIHVLLENSQVMVKAGAQLKELPDTEEWTENLTIVSLMKNEIEEIPSSHSPM 494

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
           C  LS+L L  N+ L+ I + FF  +HGLKV++LS T IE LP SVSDL +L +L L  C
Sbjct: 495 CPNLSSLFLCENKELRLIADSFFKQLHGLKVLDLSRTGIENLPDSVSDLVSLTALLLNDC 554

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
            RL+ VPSL +L  L+ LDL  T +E++P+GME L NL++L ++    K+FP+GILP+L 
Sbjct: 555 TRLRHVPSLKKLTELKRLDLCGTALEKMPQGMECLTNLTYLRMNGCGEKEFPSGILPKLS 614

Query: 181 SLYKLKL----SFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNY 236
            L    L    + G+  +    +E   L + L+  E +F    DF  Y++S DG      
Sbjct: 615 HLQVFVLEQFTARGDGPITVKGKEVGSLRN-LESLECHFKGFSDFVEYLRSWDG------ 667

Query: 237 CLALSAHGMGGCLVTHLEVDKSVFL---------YGCKICEIKE---------TIVLLKD 278
            L+LS + +   LV  ++ D S ++         Y  K   +            +  LK 
Sbjct: 668 ILSLSTYRI---LVGMVDEDYSAYIEGYPAYIEDYPSKTVALGNLSFNGDRDFQVKFLKG 724

Query: 279 VQCLQMFEVDEVTSLNDVL----PRELGLVNI--------------------------GK 308
           +Q L + +  +  SL DVL      EL  + I                          G 
Sbjct: 725 IQGL-ICQCFDARSLCDVLSLENATELERIRIEDCNNMESLVSSSWFCYAPPPLPSYNGT 783

Query: 309 FSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATN 368
           FS  LK      C N+K LF L LLP L NL  + V  C  +EEI+   DE++    +T+
Sbjct: 784 FS-GLKEFNCCGCNNMKKLFPLVLLPNLVNLARIDVSYCEKMEEIIGTTDEES----STS 838

Query: 369 TIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDH 428
             I  + LP+L+ L    LPE KS   Y+  L+CNSL++I V RC KLKR+ + LPLL++
Sbjct: 839 NPITELILPKLRTLNLCHLPELKSI--YSAKLICNSLKDIRVLRCEKLKRMPICLPLLEN 896

Query: 429 GQPSPPAAL-KVIKIEKELWES-LDWDQANAKEVLNSYCKF 467
           GQPSPP +L +++   +E WE+ ++W+  NAK+VL  + KF
Sbjct: 897 GQPSPPLSLGEIVVYPEEWWETVVEWEHPNAKDVLRPFVKF 937

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224096143|ref|XP_002334714.1| predicted protein [Populus trichocarpa] gi|222874252|gb|EEF11383.1| predicted protein [Populus trichocarpa]

 Score =  273 bits (697), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 196/503 (38%), Positives = 282/503 (56%), Gaps = 47/503 (9%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MHDLIRDMA++I   +   MVKAG +L E P  +EW ENL RVSL+RN I+EIPS+ SP 
Sbjct: 93  MHDLIRDMAIQILLDNSQGMVKAGAQLKELPDAEEWTENLTRVSLIRNKIKEIPSSHSPM 152

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
           C  LSTLLL +N  L+ I + FF  +HGLKV++LS T IE LP SVSDL +L +L L  C
Sbjct: 153 CPYLSTLLLCQNHCLRFIADSFFKQLHGLKVLDLSGTSIENLPDSVSDLVSLTALLLNEC 212

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
             L+ VPSL +L AL+ LDLY T ++++P+GME L NL +L ++    K+FP+GILP+L 
Sbjct: 213 ENLRHVPSLEKLRALKRLDLYWTPLKKMPQGMECLTNLRYLRMNGCGEKEFPSGILPKLS 272

Query: 181 SLY-----KLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS-K 234
            L      +L   F + A      +  R    L+  E +F    DF  Y++S DG  S  
Sbjct: 273 HLQVFVLEELMGQFSDYAPITVKGKEVRSLRNLESLECHFEGFSDFVEYLRSRDGIQSLS 332

Query: 235 NYCLALSAHGMGGCLVTHLEVDKSV----------------FLYGCK--ICEIKET---- 272
            Y + +     G    T+    K+V                FL G +  +C+  +     
Sbjct: 333 KYTILVGMMDEGYWFGTYDFPSKTVGVGNLSINGDGDFQVKFLNGIQGLVCQCIDARSLC 392

Query: 273 -IVLLKDVQCLQMFEVDEVTSLNDVL--------PRELGLVNIGKFSHDLKVLRFDSCKN 323
            ++ L++   L+   + E  ++  ++        P  L   N G FS  LKV     C++
Sbjct: 393 DVLSLENATELKRISIWECHNMESLVSSSWFCSAPPPLPSCN-GTFS-GLKVFSCYRCES 450

Query: 324 LKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLR 383
           +K LF L LLP L NL+ + V  C  +EEI+   DE++    +++  I  V LP+L+ L+
Sbjct: 451 MKKLFPLVLLPNLVNLERIEVCECKKMEEIIGTTDEES----SSSNSITEVILPKLRILK 506

Query: 384 FYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALK-VIKI 442
              LPE KS  S    L+CNSL++I V  C KLKR+ + LPLL++GQPSPP +LK +   
Sbjct: 507 LCWLPELKSIRS--AKLICNSLEDITVDYCQKLKRMPICLPLLENGQPSPPPSLKNIYSS 564

Query: 443 EKELWES-LDWDQANAKEVLNSY 464
            +E WE+ ++W+  N K+VL  +
Sbjct: 565 PEEWWETVVEWEHPNVKDVLRPF 587

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145639|ref|XP_002325714.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222862589|gb|EEF00096.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  272 bits (695), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 197/533 (36%), Positives = 278/533 (52%), Gaps = 83/533 (15%)

Query: 1    MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
            MHDLIRDMA++   ++   MVKAG RL E P  +EW ENL RVSLM+N IEEIPS  SP 
Sbjct: 492  MHDLIRDMAIQTLQENSQCMVKAGARLSELPDAEEWTENLTRVSLMQNQIEEIPSTHSPR 551

Query: 61   CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
            C  LSTLLL+ N  LQ I + FF  +HGLKV++LS T I  LP SVS+L +L +L L  C
Sbjct: 552  CPSLSTLLLRYNSELQFIADSFFEQLHGLKVLDLSYTGITKLPDSVSELVSLTALLLIGC 611

Query: 121  RRLKRVPSLARLLALQYLDLYDTR-IEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL 179
            + L+ VPSL +L  L+ LDL  TR +E++P+GME L NL HL ++    K+FP+G+LP+L
Sbjct: 612  KMLRHVPSLEKLRVLKRLDLSGTRALEKIPQGMECLCNLRHLRMNGCGEKEFPSGLLPKL 671

Query: 180  RSLYKLKLSF----GNEALRE------TVEEAA-----RLSDRLDYFEGYFSTLKDFNIY 224
              L    L      G +  R       TV+        +L   + +FEGY     D+  +
Sbjct: 672  SHLQVFVLEEWIPPGTKDNRRGQPAPLTVKGKEVGCLRKLESLVCHFEGY----SDYVEF 727

Query: 225  VKSTDGR----------GSKNYCLALSAHGMGGC-----LVTHLEVDKSVFLYGCKICEI 269
            +KS D            G  +           GC     +   L +D+            
Sbjct: 728  IKSRDETKSLTTYQTLVGPLDKYDYDYDDYDYGCRRKTIVWGSLSIDRDGGF-------- 779

Query: 270  KETIVLLKDVQCLQMFEVDEVTSLNDVLPR-----ELGLVNI------------------ 306
               ++  KD+Q L +   D+ TSL DV  +     +L ++ I                  
Sbjct: 780  --QVMFPKDIQQLTIDNNDDATSLCDVSSQIKYATDLEVIKIFSCNSMESLVSSSWFRST 837

Query: 307  --------GKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVED 358
                    G FS  LK      C ++K LF L LLP L  L+ + V  C  ++EI+    
Sbjct: 838  PPPSPSYNGIFS-GLKKFFCSGCSSMKKLFPLVLLPNLVKLEEIIVEDCEKMKEIIGGTR 896

Query: 359  EDTEKELATNTIINTV--TLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKL 416
             D E  +   T  + +   LP+L+ +    LPE KS CS    L+C+S++ IEVR C KL
Sbjct: 897  PDEEGVMGEETSSSNIEFKLPKLRNMELRGLPELKSICSAK--LICDSIEGIEVRNCEKL 954

Query: 417  KRLSLSLPLLDHGQPSPPAALKVIKIE-KELWES-LDWDQANAKEVLNSYCKF 467
            KR+ + LPLL++G+PSPP +L+ + IE +E WES ++W+  NAK+VL  + +F
Sbjct: 955  KRMPICLPLLENGEPSPPPSLRRMYIEPEEWWESVVEWEHPNAKDVLRPFVEF 1007

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224113569|ref|XP_002332538.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222832682|gb|EEE71159.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  271 bits (694), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 196/505 (38%), Positives = 285/505 (56%), Gaps = 47/505 (9%)

Query: 1    MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
            MHDLIRDMA++I  ++   MVKAG +L E P  +EW ENL  VSLM+N  EEIP+  SP 
Sbjct: 643  MHDLIRDMAIQILLENSRGMVKAGAQLKELPDAEEWTENLTIVSLMQNEYEEIPTGHSPR 702

Query: 61   CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
            C  LSTLLL +N  L  I + FF  +HGLKV++LS T IE LP SVSDL +L +L L  C
Sbjct: 703  CPYLSTLLLCQNRWLGFIADSFFKQLHGLKVLDLSCTGIENLPDSVSDLVSLTALLLSHC 762

Query: 121  RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
             +LK VPSL +L AL+ L+L  T +E++P+GME L NL +L ++    K+FP+GILP+L 
Sbjct: 763  DKLKHVPSLKKLTALKRLNLSWTTLEKMPQGMECLTNLRYLRMTGCGEKEFPSGILPKLS 822

Query: 181  SLYKLKLS----FGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS--- 233
             L    L      G+  +    +E   L + L+  E +F    DF  Y++S  G  S   
Sbjct: 823  HLQDFVLEEFMVRGDPPITVKGKEVGSLRN-LESLECHFEGFSDFMEYLRSRYGIQSLST 881

Query: 234  -KNYCLALSAH-------------GMGGCLVTHLEVDKSVFLYGCK--ICEIKET----- 272
             K     ++AH             G+G   +      +  FL G +  +CE  +      
Sbjct: 882  YKILVGMVNAHYWAQINNFPSKTVGLGNLSINGDGDFQVKFLNGIQGLVCECIDARSLCD 941

Query: 273  IVLLKDVQCLQMFEVDEVTSLNDVL--------PRELGLVNIGKFSHDLKVLRFDSCKNL 324
            ++ L++   L++  +    S+  ++        P  L   N G FS  LK      CK++
Sbjct: 942  VLSLENATELEVITIYGCGSMESLVSSSWFCYAPPRLPSCN-GTFS-GLKEFSCRRCKSM 999

Query: 325  KNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRF 384
            K LF L LLP L NL+V++V  C  +EEI+   DE++   + +N+I   + LP+L+ L  
Sbjct: 1000 KKLFPLVLLPNLVNLEVISVCFCEKMEEIIGTTDEES---ITSNSITEFI-LPKLRTLEL 1055

Query: 385  YDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALK-VIKIE 443
              LPE KS CS    L+CN+L++I V  C +LKR+ + LPLL++GQPSPP +LK ++   
Sbjct: 1056 LGLPELKSICSAK--LICNALEDICVIDCKELKRMPICLPLLENGQPSPPPSLKNILASP 1113

Query: 444  KELWES-LDWDQANAKEVLNSYCKF 467
            ++ WES ++W+  NAK+VL  +  F
Sbjct: 1114 RQWWESVVEWEHPNAKDVLRPFIPF 1138

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107841|ref|XP_002333460.1| predicted protein [Populus trichocarpa] gi|222836928|gb|EEE75321.1| predicted protein [Populus trichocarpa]

 Score =  270 bits (690), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 192/517 (37%), Positives = 279/517 (53%), Gaps = 70/517 (13%)

Query: 1   MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
           MHDL+RDMA++I   +   MVKAG +L+E  G +EW ENL RVSLM N IEEIPS  SP 
Sbjct: 1   MHDLVRDMAIQILEDNSQGMVKAGAQLIELSGAEEWTENLTRVSLMNNQIEEIPSRHSPK 60

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
           C  LSTLLL  N  L  I + FF  +HGLKV++LSST I  L  SVS+L NL +L +  C
Sbjct: 61  CPNLSTLLLCGNP-LVLIADSFFEQLHGLKVLDLSSTGITKLSDSVSELVNLTALLINKC 119

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR 180
            +L+ VPSL +L AL+ L+L+ T +E++P+GME L NL +L ++    K+FP+G+LP+L 
Sbjct: 120 MKLRHVPSLEKLRALKRLELHYTTLEKIPQGMECLCNLRYLRMNGCGEKEFPSGLLPKLS 179

Query: 181 SLYKLKLSFGNEALRETVEEAARLSDR---------LDYFEGYFSTLKDFNIYVKSTDGR 231
            L+   L       + T+ + A ++ +         L+  E +F    D+  Y+KS   R
Sbjct: 180 HLHVFVLEEWIPPTKGTLRQYAPVTVKGKEVGCLRNLESLECHFEGYSDYVEYLKSRKSR 239

Query: 232 GSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKE--------------TIVLLK 277
                  +LS + +   L     +DK  + Y    C  K                ++  K
Sbjct: 240 ADTK---SLSTYKICVGL-----LDK-YYYYAVDDCRRKTIVWGSLSIDRDGDFQVMFSK 290

Query: 278 DVQCLQMFEVDEVTSLNDVL-----PRELGLVNIGKFSHDLKVLRFDS------------ 320
           D+Q L ++  D  TSL D         EL ++NI K+ + ++ L   S            
Sbjct: 291 DIQQLDIYNYD-ATSLCDFWSLIKNATELEVINI-KYCNSMESLVSSSWFRSAPLPSPSY 348

Query: 321 --------------CKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELA 366
                         CK++K LF L LLP+L NL+ + V  C  +EEI++    D E  + 
Sbjct: 349 KDIFSGLKEFHCCGCKSMKKLFPLVLLPSLVNLEAIRVTDCVKMEEIISGTRSDEEGVMD 408

Query: 367 TNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLL 426
             +  + + LP+L++L  + L E KS CS    L+C+SL+ IEV  C KLKR+ +  PLL
Sbjct: 409 EESSNSELKLPKLRELVVFGLLELKSICSEK--LICDSLEVIEVYDCQKLKRMGICTPLL 466

Query: 427 DHGQPSPPAALKVIKIEK-ELWES-LDWDQANAKEVL 461
           ++GQPSPP +LK I +   E WES ++W+  N K+VL
Sbjct: 467 ENGQPSPPPSLKNIYVYPVEWWESVVEWEHPNTKDVL 503

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109372|ref|XP_002333267.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222835868|gb|EEE74289.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  268 bits (685), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 196/520 (37%), Positives = 276/520 (53%), Gaps = 56/520 (10%)

Query: 1    MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
            MHDLIRDMA++I  ++   MVKAG +L E PG +EW ENL RVSLM+N I+EIP + SP 
Sbjct: 561  MHDLIRDMAIQILQENSQGMVKAGAQLRELPGAEEWTENLTRVSLMQNQIKEIPFSHSPR 620

Query: 61   CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC 120
            C  LSTLLL RN  LQ I + FF  +HGLKV++LS T I  LP SVS+L +L +L L  C
Sbjct: 621  CPSLSTLLLCRNPKLQFIADSFFEQLHGLKVLDLSYTGITKLPDSVSELVSLTALLLIDC 680

Query: 121  RRLKRVPSLARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL 179
            + L+ VPSL +L AL+ LDL  T  +E++P+GME L NL +L ++    K+FP+G+LP+L
Sbjct: 681  KMLRHVPSLEKLRALKRLDLSGTWALEKIPQGMECLCNLRYLIMNGCGEKEFPSGLLPKL 740

Query: 180  RSLYKLKLS------FGNEALRETVEEAARLSD-----RLDYFEGYFSTLKDFNIYVKST 228
              L    L        G+   R+      +  +     +L+    +F    D+  Y+KS 
Sbjct: 741  SHLQVFVLEEWIPRPTGDYRERQDAPITVKGKEVGCLRKLESLACHFEGCSDYMEYLKSQ 800

Query: 229  DGRGS-KNYCL---ALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLL-KDVQCLQ 283
            D   S   Y +    L  +    C        K++      I       V+  KD+Q L 
Sbjct: 801  DETKSLTTYQILVGPLDKYDYCYCYGYDGCRRKAIVRGNLSIDRDGGFQVMFPKDIQQLS 860

Query: 284  MFEVDEVTSLNDVLP-----RELGLVNI--------------------------GKFSHD 312
            +   D+ TSL D L       EL  + I                          G FS  
Sbjct: 861  IHNNDDATSLCDFLSLIKSVTELEAITIFSCNSMESLVSSSWFRSAPLPSPSYNGIFS-S 919

Query: 313  LKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTE---KELATNT 369
            LK      C ++K LF L LLP L  L+ + V  C  +EEI+     D E    E ++++
Sbjct: 920  LKKFFCSGCSSMKKLFPLVLLPNLVKLEEITVTKCEKMEEIIGGTRSDEEGVMGEESSSS 979

Query: 370  IINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHG 429
             I  + L +L  L   +LPE +S CS    L+C+SL+EI V  C KLKR+ + LPLL++G
Sbjct: 980  SITDLKLTKLSSLTLIELPELESICSAK--LICDSLKEIAVYNCKKLKRMPICLPLLENG 1037

Query: 430  QPSPPAALKVIKI-EKELWES-LDWDQANAKEVLNSYCKF 467
            QPSPP +L+ I++  +E WES ++W+  NAK+VL    +F
Sbjct: 1038 QPSPPPSLRKIEVYPEEWWESVVEWEHPNAKDVLRPIVQF 1077

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	467
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.398	0.202	0.354	3e-31
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.400	0.189	0.357	6e-17
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.244	0.125	0.355	3e-16
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.432	0.228	0.317	1.3e-14
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.426	0.222	0.314	1.3e-14
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.389	0.205	0.331	8.7e-14
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.244	0.127	0.409	8.2e-13
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.691	0.340	0.251	7.3e-12
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.261	0.126	0.371	8.6e-12
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.428	0.225	0.323	1.2e-11

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 280 (103.6 bits), Expect = 3.0e-31, Sum P(2) = 3.0e-31
 Identities = 68/192 (35%), Positives = 113/192 (58%)

Query:     1 MHDLIRDMALR-ITSKSPLF--MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNM 57
             MHD++RD A+  ++S+   F  +V AG  L+EFP + ++  +++RVSLM N +E +P+N+
Sbjct:   431 MHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFP-QDKFVSSVQRVSLMANKLERLPNNV 489

Query:    58 SPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSL 117
                 E L  LLLQ N +++ +P  F      L++++LS   I  LP S S+L +LRSL L
Sbjct:   490 IEGVETL-VLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVL 548

Query:   118 GWCRRLKRVPSXXXXXXXXXXXXXXTRIEEVPEGMEMLENLSHLYLSSL-QLKKFPAGIL 176
               C++L+ +PS              + I E+P G+E L +L ++ +S+  QL+  PAG +
Sbjct:   549 RNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTI 608

Query:   177 PRLRSLYKLKLS 188
              +L SL  L ++
Sbjct:   609 LQLSSLEVLDMA 620

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 240 (89.5 bits), Expect = 6.0e-17, P = 6.0e-17
 Identities = 69/193 (35%), Positives = 100/193 (51%)

Query:     1 MHDLIRDMALRITSKSP---LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNM 57
             MHD++RD A+ I S S      +V +G  L +   + +   +L RVSLM N +E +P  +
Sbjct:   462 MHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIR-QDKLAPSLRRVSLMNNKLESLPDLV 520

Query:    58 SPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRSLS 116
                C   S LLLQ N  L+ +P  F      L+++NLS T I+  PS S+  L +L SL 
Sbjct:   521 EEFCVKTSVLLLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLF 580

Query:   117 LGWCRRLKRVPSXXXXXXXXXXXXXXTRIEEVPEGMEMLENLSHLYLS-SLQLKKFPAGI 175
             L  C +L ++PS              T I E P G+E L+   HL LS +L L+  PA +
Sbjct:   581 LRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARV 640

Query:   176 LPRLRSLYKLKLS 188
             + RL SL  L ++
Sbjct:   641 VSRLSSLETLDMT 653

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 3.0e-16, Sum P(2) = 3.0e-16
 Identities = 43/121 (35%), Positives = 71/121 (58%)

Query:     1 MHDLIRDMALRITSKS----PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MH+++R  AL + S+      L +V+  +   E P  + W + L  +SL+ N I+ +P  
Sbjct:   471 MHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQALV-ISLLDNRIQTLPEK 529

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS 116
             +   C  L+TL+LQ+N +L++IP  FF+HM  L+V++LS T I  +P S+  L  L  LS
Sbjct:   530 LI--CPKLTTLMLQQNSSLKKIPTGFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHLS 587

Query:   117 L 117
             +
Sbjct:   588 M 588

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

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

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

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

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

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

GO:0031347 "regulation of defense response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

GO:0051707 "response to other organism" evidence=RCA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 1.3e-14, Sum P(2) = 1.3e-14
 Identities = 68/214 (31%), Positives = 106/214 (49%)

Query:     1 MHDLIRDMALRITSK----SPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL I S         +V+AG RL E P  ++W+  + R+SL+ N I+EI   
Sbjct:   478 MHDVVREMALWIASDLRKHKDNCIVRAGFRLNEIPKVKDWKV-VSRMSLVNNRIKEIHG- 535

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
              SP C  L+TL LQ N +L  I   FF  M  L V++LS + ++  LP  +S+L +LR L
Sbjct:   536 -SPECPKLTTLFLQDNRHLVNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYL 594

Query:   116 SLGWCRRLKRVPSXXXXXXXXXXXXXXTRI-EEVPEGMEMLENLSHLYLSSLQLKKFPAG 174
              L +   + R+P               + +  E   G++ L NL  + L +L++      
Sbjct:   595 DLSYSS-IGRLPVGLLKLKKLMHLNLESMLCLESVSGIDHLSNLKTVRLLNLRMW-LTIS 652

Query:   175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRL 208
             +L  L  L  L++    E +  +  E    S RL
Sbjct:   653 LLEELERLENLEV-LTIEIISSSALEQLLCSHRL 685

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 1.3e-14, Sum P(2) = 1.3e-14
 Identities = 67/213 (31%), Positives = 105/213 (49%)

Query:     1 MHDLIRDMALRITSK----SPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL I S         +V+ G+ L E P  + W  ++ R+SLM N IE +   
Sbjct:   476 MHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWS-SVRRMSLMENEIEILSG- 533

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
              SP C  L+TL LQ+N++L  I + FF  +  L V++LS ++ +  LP+ +S L +LR L
Sbjct:   534 -SPECLELTTLFLQKNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYL 592

Query:   116 SLGWCRRLKRVPSXXXXXXXXXXXXXX--TRIEEVPEGMEMLENLSHLYL--SSLQLKKF 171
              L W   +KR+P                  R++ +  G+  + +L  L L  S + L   
Sbjct:   593 DLSWTY-IKRLPVGLQELKKLRYLRLDYMKRLKSI-SGISNISSLRKLQLLQSKMSLDMS 650

Query:   172 PAGILPRLRSLYKLKLSFGNEALRETVEEAARL 204
                 L  L  L  L +S  +  + E +  A RL
Sbjct:   651 LVEELQLLEHLEVLNISIKSSLVVEKLLNAPRL 683

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 8.7e-14, Sum P(2) = 8.7e-14
 Identities = 64/193 (33%), Positives = 92/193 (47%)

Query:     1 MHDLIRDMALRITSK----SPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL I S         +V+AG+ L E P  + W   ++R+SLM NN E+I   
Sbjct:   476 MHDMVREMALWIFSDLGKHKERCIVQAGIGLDELPEVENWRA-VKRMSLMNNNFEKILG- 533

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSL 115
              SP C  L TL LQ N  L  I   FF  M  L V++LS    +  LP  +S+L +L+ L
Sbjct:   534 -SPECVELITLFLQNNYKLVDISMEFFRCMPSLAVLDLSENHSLSELPEEISELVSLQYL 592

Query:   116 SLGWCRRLKRVP-SXXXXXXXXXXXXXXTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAG 174
              L     ++R+P                TR  E   G+  L +L  L L   +      G
Sbjct:   593 DLSGTY-IERLPHGLHELRKLVHLKLERTRRLESISGISYLSSLRTLRLRDSKTT-LDTG 650

Query:   175 ILPRLRSLYKLKL 187
             ++  L+ L  L+L
Sbjct:   651 LMKELQLLEHLEL 663

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 8.2e-13, Sum P(3) = 8.2e-13
 Identities = 50/122 (40%), Positives = 69/122 (56%)

Query:     1 MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL   S         +V+AG  L + P  ++W   + R+SLM N IEEI   
Sbjct:   474 MHDVVREMALWTLSDLGKNKERCIVQAGSGLRKVPKVEDWGA-VRRLSLMNNGIEEISG- 531

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSL 115
              SP C  L+TL LQ N++L  I   FF HM  L V++LS    ++ LP  +S+L  LR L
Sbjct:   532 -SPECPELTTLFLQENKSLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQISELVALRYL 590

Query:   116 SL 117
              L
Sbjct:   591 DL 592

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 7.3e-12, P = 7.3e-12
 Identities = 92/366 (25%), Positives = 158/366 (43%)

Query:     1 MHDLIRDMALRITSKSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH 60
             MH ++R+MAL I S+   F+V  G R+ +     +W   + R+S+    I+ I    SP 
Sbjct:   463 MHGMVREMALWIASEH--FVVVGGERIHQMLNVNDWRM-IRRMSVTSTQIQNISD--SPQ 517

Query:    61 CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSLSLGW 119
             C  L+TL+ +RN +L+ I   FF  M GL V++LS + ++  LP  VS L  LR L+L W
Sbjct:   518 CSELTTLVFRRNRHLKWISGAFFQWMTGLVVLDLSFNRELAELPEEVSSLVLLRFLNLSW 577

Query:   120 -CRRLKRVPSXXXXXXXXXXXXX--XTRIEEVPEGMEMLENLSHLYLS---SLQLKKFPA 173
              C  +K +P                 + ++EV + +  L NL  L L    S+ LK    
Sbjct:   578 TC--IKGLPLGLKELKSLIHLDLDYTSNLQEV-DVIASLLNLQVLRLFHSVSMDLKLMED 634

Query:   174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS 233
               +  L+SL +L L+    ++ + +    RL+  +       +T+ D  I         S
Sbjct:   635 --IQLLKSLKELSLTVRGSSVLQRLLSIQRLASSIRRLHLTETTIVDGGIL--------S 684

Query:   234 KNYCLALSAHGMGGCLVTHLEVD-------------KSVFLYGCKICEIKETIVLLKDVQ 280
              N   +L    + GC +  + +D             +++       CE    +  L    
Sbjct:   685 LNAIFSLCELDILGCNILEITIDWRCTIQREIIPQFQNIRTMTIHRCEYLRDLTWLLLAP 744

Query:   281 CLQMFEVDEVTSLNDVLPRELGLVNIGKFSH----DLKVLRFDSCKNLKNLFSLRL-LPA 335
             CL    V E   + +V+ ++  +  +G  S     +L  L  D    L++++   L  P 
Sbjct:   745 CLGELSVSECPQMEEVISKDKAMAKLGNTSEQPFQNLTKLVLDGLPKLESIYWTPLPFPV 804

Query:   336 LQNLKV 341
             L+ L +
Sbjct:   805 LEYLVI 810

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 8.6e-12, Sum P(3) = 8.6e-12
 Identities = 49/132 (37%), Positives = 76/132 (57%)

Query:     1 MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL I S    +   ++V+A + L E P  ++W   + R+SLM N IEEI   
Sbjct:   475 MHDVVREMALWIASDFGKQKENYVVRARVGLHEIPKVKDWGA-VRRMSLMMNEIEEITCE 533

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
                 C  L+TL LQ N+ L+ +   F  +M  L V++LS + D   LP  +S L +L+ L
Sbjct:   534 SK--CSELTTLFLQSNQ-LKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYL 590

Query:   116 SLGWCRRLKRVP 127
              L W R ++++P
Sbjct:   591 DLSWTR-IEQLP 601

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 169 (64.5 bits), Expect = 1.2e-11, Sum P(2) = 1.2e-11
 Identities = 69/213 (32%), Positives = 105/213 (49%)

Query:     1 MHDLIRDMALRITS----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSN 56
             MHD++R+MAL I S    +   F+V+AGL+    P  ++W+    RVSLM NNIE I   
Sbjct:   471 MHDVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKV-ARRVSLMFNNIESIRD- 528

Query:    57 MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-STDIEVLPSSVSDLTNLRSL 115
              +P    L TLLL++N  L  I   FF  M  L V++LS + D+  LP+ +S+  +L+ L
Sbjct:   529 -APESPQLITLLLRKNF-LGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYL 586

Query:   116 SLGWCRRLKRVPSXXXXXXXXXXXXXX-TRIEEVPEGMEMLENLSHLYLSSLQLKKFPAG 174
             SL   R ++  P+               TR+ E   G+  L +L  L L      + P  
Sbjct:   587 SLSRTR-IRIWPAGLVELRKLLYLNLEYTRMVESICGISGLTSLKVLRLFVSGFPEDPCV 645

Query:   175 I--LPRLRSLYKLKLSFGNEALRETVEEAARLS 205
             +  L  L +L  L ++ G  ++ E      RL+
Sbjct:   646 LNELQLLENLQTLTITLGLASILEQFLSNQRLA 678

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

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	467
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	5e-10
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	5e-07
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	4e-06
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	2e-05
PLN03210	1153	PLN03210, PLN03210, Resistant to P	6e-05
PLN03210	1153	PLN03210, PLN03210, Resistant to P	8e-05
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	9e-05
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-04
PRK15370	754	PRK15370, PRK15370, E3 ubiquitin-protein ligase Sl	8e-04

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

 Score = 60.8 bits (147), Expect = 5e-10
 Identities = 48/150 (32%), Positives = 74/150 (49%), Gaps = 4/150 (2%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + L  NNI +IP  +      L  L L  N  ++ +P     ++  LK ++LS  D
Sbjct: 117 NLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDN-KIESLPSPLR-NLPNLKNLDLSFND 174

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +  LP  +S+L+NL +L L   +     P +  L AL+ LDL +  I E+   +  L+NL
Sbjct: 175 LSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNL 234

Query: 159 SHLYLSSLQLKKFPAGI--LPRLRSLYKLK 186
           S L LS+ +L+  P  I  L  L +L    
Sbjct: 235 SGLELSNNKLEDLPESIGNLSNLETLDLSN 264

Length = 394

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

 Score = 51.1 bits (122), Expect = 5e-07
 Identities = 39/146 (26%), Positives = 64/146 (43%), Gaps = 4/146 (2%)

Query: 27  LLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHM 86
           +   P       NL+ + L  N++ ++P  +S +   L+ L L  N  +  +P      +
Sbjct: 152 IESLPSPLRNLPNLKNLDLSFNDLSDLPKLLS-NLSNLNNLDLSGN-KISDLP-PEIELL 208

Query: 87  HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIE 146
             L+ ++LS+  I  L SS+S+L NL  L L   +      S+  L  L+ LDL + +I 
Sbjct: 209 SALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQIS 268

Query: 147 EVPEGMEMLENLSHLYLSSLQLKKFP 172
            +      L NL  L LS   L    
Sbjct: 269 SISSLGS-LTNLRELDLSGNSLSNAL 293

Length = 394

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

 Score = 48.4 bits (115), Expect = 4e-06
 Identities = 38/136 (27%), Positives = 59/136 (43%), Gaps = 2/136 (1%)

Query: 37  EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
              L  + L  N +    S +        T L   N N+  IP    +    LK ++LS 
Sbjct: 92  LLPLPSLDLNLNRLRSNISELLEL--TNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSD 149

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
             IE LPS + +L NL++L L +         L+ L  L  LDL   +I ++P  +E+L 
Sbjct: 150 NKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLS 209

Query: 157 NLSHLYLSSLQLKKFP 172
            L  L LS+  + +  
Sbjct: 210 ALEELDLSNNSIIELL 225

Length = 394

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 64  LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRSLSLGWCR 121
           L +L L  N  L  IP+  F  +  LKV++LS  ++  +   + S L +LRSL L    
Sbjct: 2   LKSLDLSNN-RLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNN 59

Length = 60

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

 Score = 45.3 bits (107), Expect = 6e-05
 Identities = 40/139 (28%), Positives = 59/139 (42%), Gaps = 18/139 (12%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECF-- 82
           L L E   E+ WE       LM          M      L+ L L    +L  +P     
Sbjct: 752 LILCEMKSEKLWERVQPLTPLMT---------MLSPS--LTRLFLSDIPSLVELPSSIQN 800

Query: 83  FVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYD 142
              +  L++ N    ++E LP+ + +L +L SL L  C RL+  P ++  ++   L    
Sbjct: 801 LHKLEHLEIEN--CINLETLPTGI-NLESLESLDLSGCSRLRTFPDISTNISDLNLS--R 855

Query: 143 TRIEEVPEGMEMLENLSHL 161
           T IEEVP  +E   NLS L
Sbjct: 856 TGIEEVPWWIEKFSNLSFL 874

syringae 6; Provisional. Length = 1153

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

 Score = 44.9 bits (106), Expect = 8e-05
 Identities = 41/132 (31%), Positives = 73/132 (55%), Gaps = 10/132 (7%)

Query: 49  NIEEIPS-NMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD-IEVLPSSV 106
           N++EIP  +M+ +   L TL L    +L  +P     +++ L+ +++S  + +E+LP+ +
Sbjct: 646 NLKEIPDLSMATN---LETLKLSDCSSLVELPSSI-QYLNKLEDLDMSRCENLEILPTGI 701

Query: 107 SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSL 166
            +L +L  L+L  C RLK  P ++    + +LDL +T IEE P  +  LENL  L L  +
Sbjct: 702 -NLKSLYRLNLSGCSRLKSFPDIST--NISWLDLDETAIEEFPSNLR-LENLDELILCEM 757

Query: 167 QLKKFPAGILPR 178
           + +K    + P 
Sbjct: 758 KSEKLWERVQPL 769

syringae 6; Provisional. Length = 1153

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 39.8 bits (94), Expect = 9e-05
 Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
          NL+ + L  N +  IP         L  L L  N NL  I    F  +  L+ ++LS  +
Sbjct: 1  NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLSGNN 59

Query: 99 I 99
          +
Sbjct: 60 L 60

Length = 60

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

 Score = 42.9 bits (101), Expect = 4e-04
 Identities = 37/116 (31%), Positives = 58/116 (50%), Gaps = 6/116 (5%)

Query: 75  LQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLA 134
           L+ +P  F      L  + +  + +E L   V  LT LR++ L   + LK +P L+    
Sbjct: 601 LRCMPSNF--RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATN 658

Query: 135 LQYLDLYD-TRIEEVPEGMEMLENLSHLYLSS-LQLKKFPAGILPRLRSLYKLKLS 188
           L+ L L D + + E+P  ++ L  L  L +S    L+  P GI   L+SLY+L LS
Sbjct: 659 LETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI--NLKSLYRLNLS 712

syringae 6; Provisional. Length = 1153

>gnl|CDD|185268 PRK15370, PRK15370, E3 ubiquitin-protein ligase SlrP; Provisional

 Score = 41.6 bits (97), Expect = 8e-04
 Identities = 35/146 (23%), Positives = 65/146 (44%), Gaps = 15/146 (10%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           E +  + L  N ++ +P N+  + + L       +  L  IP         ++ + LS  
Sbjct: 199 EQITTLILDNNELKSLPENLQGNIKTLYA----NSNQLTSIPATL---PDTIQEMELSIN 251

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLE 156
            I  LP  +   + L+SL L +  ++  +P +L     L+YL +YD  I  +P    +  
Sbjct: 252 RITELPERLP--SALQSLDL-FHNKISCLPENLPE--ELRYLSVYDNSIRTLPA--HLPS 304

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSL 182
            ++HL + S  L   P  + P L++L
Sbjct: 305 GITHLNVQSNSLTALPETLPPGLKTL 330

Length = 754

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	467
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.93
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.91
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.91
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.89
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.85
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.83
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.8
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.78
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.77
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.72
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.57
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.55
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.55
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.5
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.46
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.44
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.42
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.4
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.37
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.36
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.28
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.25
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.14
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.12
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.03
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.95
KOG4341	483	consensus F-box protein containing LRR [General fu	98.92
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.9
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.89
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.88
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.8
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.79
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.76
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.76
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.72
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.71
KOG4341	483	consensus F-box protein containing LRR [General fu	98.62
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.48
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.35
PLN03150	623	hypothetical protein; Provisional	98.31
PLN03150	623	hypothetical protein; Provisional	98.29
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.19
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.15
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.15
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.06
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.02
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.01
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.86
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.76
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.7
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.68
PRK15386	426	type III secretion protein GogB; Provisional	97.65
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.6
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.43
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.43
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.42
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.35
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.29
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.25
PRK15386	426	type III secretion protein GogB; Provisional	97.21
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.19
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.06
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.86
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.83
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.76
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.67
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.29
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.27
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.89
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.13
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.11
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.85
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.84
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.6
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.29
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	88.78
smart00370	26	LRR Leucine-rich repeats, outliers.	87.34
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	87.34
smart00370	26	LRR Leucine-rich repeats, outliers.	86.59
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	86.59
KOG0473	326	consensus Leucine-rich repeat protein [Function un	81.94
KOG0473	326	consensus Leucine-rich repeat protein [Function un	80.13

>PLN03210 Resistant to P

Probab=99.93  E-value=8.3e-25  Score=240.22  Aligned_cols=377  Identities=19%  Similarity=0.273  Sum_probs=231.6

Q ss_pred             ChhhHHHHHHHhhhcCC-------ceEEEc--------CC---C----------cc---cCCcCccCCCCccEEEeecCC
Q 012249            1 MHDLIRDMALRITSKSP-------LFMVKA--------GL---R----------LL---EFPGEQEWEENLERVSLMRNN   49 (467)
Q Consensus         1 mhdl~~dl~~~~~~~~~-------~~~~~~--------~~---~----------l~---~~~~~~~~l~~l~~L~l~~~~   49 (467)
                      |||++||||+++++++.       +.+...        +.   .          ..   --+.+|..+++|+.|.+..+.
T Consensus       490 MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~  569 (1153)
T PLN03210        490 MHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKK  569 (1153)
T ss_pred             hhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEeccc
Confidence            99999999999987652       111100        00   0          00   012246678899999887553


Q ss_pred             Cc-------ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCC
Q 012249           50 IE-------EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRR  122 (467)
Q Consensus        50 ~~-------~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~  122 (467)
                      ..       .+|..+..-.++||.|++.++. ...+|..+  ...+|+.|++.++.+..++..+..+++|++|++++|..
T Consensus       570 ~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~-l~~lP~~f--~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~  646 (1153)
T PLN03210        570 WDQKKEVRWHLPEGFDYLPPKLRLLRWDKYP-LRCMPSNF--RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKN  646 (1153)
T ss_pred             ccccccceeecCcchhhcCcccEEEEecCCC-CCCCCCcC--CccCCcEEECcCccccccccccccCCCCCEEECCCCCC
Confidence            21       3455443223569999999987 77788765  67899999999999999998899999999999999888


Q ss_pred             CCcCCCccccCCccEEEccCC-cCccccccccCCCCCcEEeccCCC-CCCcCCccccCCCCCcEEEcccCCCcccccHHH
Q 012249          123 LKRVPSLARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLSSLQ-LKKFPAGILPRLRSLYKLKLSFGNEALRETVEE  200 (467)
Q Consensus       123 ~~~~p~l~~l~~L~~L~l~~~-~~~~lp~~~~~l~~L~~L~l~~~~-~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  200 (467)
                      ++.+|.+..+++|++|++++| .+..+|..++++++|+.|++++|. +..+|..+  ++++|+.|++++|......+  .
T Consensus       647 l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i--~l~sL~~L~Lsgc~~L~~~p--~  722 (1153)
T PLN03210        647 LKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI--NLKSLYRLNLSGCSRLKSFP--D  722 (1153)
T ss_pred             cCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC--CCCCCCEEeCCCCCCccccc--c
Confidence            999999999999999999999 788999999999999999999985 68888764  79999999999885443322  1


Q ss_pred             HHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcccc
Q 012249          201 AARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQ  280 (467)
Q Consensus       201 l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~  280 (467)
                        .. .+|+.|++..+.+..++...       .+..+..|....... ...+..+...          .......++.|+
T Consensus       723 --~~-~nL~~L~L~~n~i~~lP~~~-------~l~~L~~L~l~~~~~-~~l~~~~~~l----------~~~~~~~~~sL~  781 (1153)
T PLN03210        723 --IS-TNISWLDLDETAIEEFPSNL-------RLENLDELILCEMKS-EKLWERVQPL----------TPLMTMLSPSLT  781 (1153)
T ss_pred             --cc-CCcCeeecCCCccccccccc-------cccccccccccccch-hhcccccccc----------chhhhhccccch
Confidence              23 78899999887764433211       112222111100000 0000000000          000011233455


Q ss_pred             eeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCch
Q 012249          281 CLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDED  360 (467)
Q Consensus       281 ~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~  360 (467)
                      .|.+.++..+..++.         ....+++ |+.|+|++|..++.++...   .+++|+.|++++|..+..++.....-
T Consensus       782 ~L~Ls~n~~l~~lP~---------si~~L~~-L~~L~Ls~C~~L~~LP~~~---~L~sL~~L~Ls~c~~L~~~p~~~~nL  848 (1153)
T PLN03210        782 RLFLSDIPSLVELPS---------SIQNLHK-LEHLEIENCINLETLPTGI---NLESLESLDLSGCSRLRTFPDISTNI  848 (1153)
T ss_pred             heeCCCCCCccccCh---------hhhCCCC-CCEEECCCCCCcCeeCCCC---CccccCEEECCCCCcccccccccccc
Confidence            555544433322110         1223445 6666666666555543221   45566666666665554432211000


Q ss_pred             hhhhhccccc---c-ccccccccccccccccccccccccCCCccccCCcceEEEeCCCCccccC
Q 012249          361 TEKELATNTI---I-NTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLS  420 (467)
Q Consensus       361 ~~~~~~~~~~---~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp  420 (467)
                      ..-.++...+   + +...+++|+.|++.+|.+++.++...  ..+++|+.+.+.+|++|+.++
T Consensus       849 ~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~--~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        849 SDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNI--SKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCccc--ccccCCCeeecCCCccccccc
Confidence            0000000000   0 12267778888888888887776655  457778888888888777654

syringae 6; Provisional

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

Probab=99.91  E-value=7.3e-24  Score=232.11  Aligned_cols=193  Identities=26%  Similarity=0.330  Sum_probs=134.4

Q ss_pred             EEcCCCcc-cCCcCccCCCCccEEEeecCCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           21 VKAGLRLL-EFPGEQEWEENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        21 ~~~~~~l~-~~~~~~~~l~~l~~L~l~~~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      ..+++.+. .+|..++.+++|++|++++|.+. .+|..+ .++++|++|++++|.+...+|..+ +++++|++|++++|.
T Consensus       146 ~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~-~~l~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~L~~n~  223 (968)
T PLN00113        146 DLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSL-TNLTSLEFLTLASNQLVGQIPREL-GQMKSLKWIYLGYNN  223 (968)
T ss_pred             ECcCCcccccCChHHhcCCCCCEEECccCcccccCChhh-hhCcCCCeeeccCCCCcCcCChHH-cCcCCccEEECcCCc
Confidence            34444443 56777788888888888888776 455443 478888888888887665666654 778888888888887


Q ss_pred             CC-CchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCCCCcEEeccCCCCC-CcCCc
Q 012249           99 IE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPAG  174 (467)
Q Consensus        99 ~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~~~~~~-~~~~~  174 (467)
                      +. .+|..++++++|++|++++|...+..| .++++++|++|++++|.+. .+|..+.++++|++|++++|.+. .+|..
T Consensus       224 l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~  303 (968)
T PLN00113        224 LSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPEL  303 (968)
T ss_pred             cCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChh
Confidence            76 677778888888888888876555666 6777788888888777665 46666777777777777777764 34433


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                       +.++++|+.|++++|......+ ..+..+ ++|+.|+++.+..
T Consensus       304 -~~~l~~L~~L~l~~n~~~~~~~-~~~~~l-~~L~~L~L~~n~l  344 (968)
T PLN00113        304 -VIQLQNLEILHLFSNNFTGKIP-VALTSL-PRLQVLQLWSNKF  344 (968)
T ss_pred             -HcCCCCCcEEECCCCccCCcCC-hhHhcC-CCCCEEECcCCCC
Confidence             3677777777777665543332 455666 6666666666554

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

Probab=99.91  E-value=7.9e-24  Score=231.83  Aligned_cols=193  Identities=23%  Similarity=0.363  Sum_probs=159.3

Q ss_pred             EEEcCCCcc-cCCcCccCCCCccEEEeecCCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           20 MVKAGLRLL-EFPGEQEWEENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        20 ~~~~~~~l~-~~~~~~~~l~~l~~L~l~~~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      +..+++++. .+|.  ..+++|++|++++|.+. .+|..+ .++++|+.|++++|.+...+|..+ .++++|++|++++|
T Consensus       123 L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~-~~l~~L~~L~L~~n~l~~~~p~~~-~~l~~L~~L~L~~n  198 (968)
T PLN00113        123 LNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDI-GSFSSLKVLDLGGNVLVGKIPNSL-TNLTSLEFLTLASN  198 (968)
T ss_pred             EECcCCccccccCc--cccCCCCEEECcCCcccccCChHH-hcCCCCCEEECccCcccccCChhh-hhCcCCCeeeccCC
Confidence            344444443 3343  45789999999999987 555554 589999999999998666777765 89999999999999


Q ss_pred             CCC-CchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCCCCcEEeccCCCCC-CcCC
Q 012249           98 DIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPA  173 (467)
Q Consensus        98 ~~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~~~~~~-~~~~  173 (467)
                      .+. .+|..++++++|++|++++|.....+| .++++++|++|++++|.+. .+|..++++++|+.|++++|.+. .+|.
T Consensus       199 ~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~  278 (968)
T PLN00113        199 QLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPP  278 (968)
T ss_pred             CCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCch
Confidence            887 678999999999999999987777788 7999999999999999776 67888999999999999999884 5666


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .+ .++++|+.|++++|......+ ..+..+ ++|+.|+++.+...
T Consensus       279 ~l-~~l~~L~~L~Ls~n~l~~~~p-~~~~~l-~~L~~L~l~~n~~~  321 (968)
T PLN00113        279 SI-FSLQKLISLDLSDNSLSGEIP-ELVIQL-QNLEILHLFSNNFT  321 (968)
T ss_pred             hH-hhccCcCEEECcCCeeccCCC-hhHcCC-CCCcEEECCCCccC
Confidence            54 899999999999987655443 567889 99999999888764

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.89  E-value=8.4e-23  Score=213.82  Aligned_cols=387  Identities=27%  Similarity=0.350  Sum_probs=232.5

Q ss_pred             ChhhHHHHHHHhhh-----cCCceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCC-
Q 012249            1 MHDLIRDMALRITS-----KSPLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNEN-   74 (467)
Q Consensus         1 mhdl~~dl~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~-   74 (467)
                      |||+|||+|.|+|+     ++. .++..+.++..+|....+ ..+|++++.++.+..++...  .+++|++|-+.++.. 
T Consensus       483 mHDvvRe~al~ias~~~~~~e~-~iv~~~~~~~~~~~~~~~-~~~rr~s~~~~~~~~~~~~~--~~~~L~tLll~~n~~~  558 (889)
T KOG4658|consen  483 MHDVVREMALWIASDFGKQEEN-QIVSDGVGLSEIPQVKSW-NSVRRMSLMNNKIEHIAGSS--ENPKLRTLLLQRNSDW  558 (889)
T ss_pred             eeHHHHHHHHHHhccccccccc-eEEECCcCccccccccch-hheeEEEEeccchhhccCCC--CCCccceEEEeecchh
Confidence            89999999999999     565 444444556666664444 58899999999988776654  678999999999963 


Q ss_pred             CCCCchhHhhcCCCCcEEEccCC-CCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCC-cCcccccc
Q 012249           75 LQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDT-RIEEVPEG  151 (467)
Q Consensus        75 ~~~~~~~~~~~l~~L~~L~l~~~-~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~-~~~~lp~~  151 (467)
                      ...++..+|..++.|++||+++| ....+|..++.+.+||||++++ +.+..+| ++++++.|.+|++..+ .+..+|..
T Consensus       559 l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~-t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i  637 (889)
T KOG4658|consen  559 LLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSD-TGISHLPSGLGNLKKLIYLNLEVTGRLESIPGI  637 (889)
T ss_pred             hhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccC-CCccccchHHHHHHhhheeccccccccccccch
Confidence            56677777899999999999987 5568999999999999999998 5777888 7888888888888877 44455555


Q ss_pred             ccCCCCCcEEeccCCCCCCcCCcc--ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccC
Q 012249          152 MEMLENLSHLYLSSLQLKKFPAGI--LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTD  229 (467)
Q Consensus       152 ~~~l~~L~~L~l~~~~~~~~~~~~--l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~  229 (467)
                      ...|.+|++|.+.......-...+  +.++++|+.+.......   .....+..+ .+|..+..                
T Consensus       638 ~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~---~~~e~l~~~-~~L~~~~~----------------  697 (889)
T KOG4658|consen  638 LLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV---LLLEDLLGM-TRLRSLLQ----------------  697 (889)
T ss_pred             hhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh---HhHhhhhhh-HHHHHHhH----------------
Confidence            666778887777654411111100  12333333333322111   000111111 11111100                


Q ss_pred             CCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcccceeeeeeccccccccccccccccccccc-C
Q 012249          230 GRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIG-K  308 (467)
Q Consensus       230 ~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~-~  308 (467)
                               .+. +..........++..+.+|+.|.+..+........+.+..                      ... .
T Consensus       698 ---------~l~-~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~----------------------~~~~~  745 (889)
T KOG4658|consen  698 ---------SLS-IEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESL----------------------IVLLC  745 (889)
T ss_pred             ---------hhh-hcccccceeecccccccCcceEEEEcCCCchhhccccccc----------------------chhhh
Confidence                     000 0000000111123333444444444443221111111111                      011 2


Q ss_pred             ccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhcccccc-ccccccccccc-cccc
Q 012249          309 FSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTII-NTVTLPRLKKL-RFYD  386 (467)
Q Consensus       309 ~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~-~~~~~~~L~~L-~l~~  386 (467)
                      |+. +.++.+.+|...+.+.+.   .-.|+|+.|.+..|..+++++......       ..+. ....|.++..+ .+.+
T Consensus       746 f~~-l~~~~~~~~~~~r~l~~~---~f~~~L~~l~l~~~~~~e~~i~~~k~~-------~~l~~~i~~f~~~~~l~~~~~  814 (889)
T KOG4658|consen  746 FPN-LSKVSILNCHMLRDLTWL---LFAPHLTSLSLVSCRLLEDIIPKLKAL-------LELKELILPFNKLEGLRMLCS  814 (889)
T ss_pred             HHH-HHHHHhhccccccccchh---hccCcccEEEEecccccccCCCHHHHh-------hhcccEEecccccccceeeec
Confidence            555 777777777776664332   234567777777777777776554311       1111 12367777777 5777


Q ss_pred             cccccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCCCCCcceeeeehHHHhhhcccCchhhhhhh
Q 012249          387 LPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLDWDQANAKEVL  461 (467)
Q Consensus       387 ~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~~~L~~l~i~~~~~~~l~~~~~~~~~~~  461 (467)
                      .+.+..+....  ..++.|+++.|..||+++.+|.....-.    ..+.......-+.+|.+.++|++.+++..+
T Consensus       815 l~~l~~i~~~~--l~~~~l~~~~ve~~p~l~~~P~~~~~~i----~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  883 (889)
T KOG4658|consen  815 LGGLPQLYWLP--LSFLKLEELIVEECPKLGKLPLLSTLTI----VGCEEKLKEYPDGEWLEGVYWEDELTKLRF  883 (889)
T ss_pred             CCCCceeEecc--cCccchhheehhcCcccccCccccccce----eccccceeecCCccceeeEEehhhhhhhhc
Confidence            77777776666  5677799999999999999986432221    111111222222667788999998887766

>PLN03210 Resistant to P

Probab=99.85  E-value=3.2e-20  Score=204.24  Aligned_cols=345  Identities=20%  Similarity=0.241  Sum_probs=211.0

Q ss_pred             CCcCccCC-CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC-CCCchhhhh
Q 012249           30 FPGEQEWE-ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD-IEVLPSSVS  107 (467)
Q Consensus        30 ~~~~~~~l-~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~~l~~~~~  107 (467)
                      +|..+..+ ++||.|.+.++.+..+|..+  .+.+|+.|++.++. +..++..+ ..+++|++|+++++. +..+|. +.
T Consensus       580 lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f--~~~~L~~L~L~~s~-l~~L~~~~-~~l~~Lk~L~Ls~~~~l~~ip~-ls  654 (1153)
T PLN03210        580 LPEGFDYLPPKLRLLRWDKYPLRCMPSNF--RPENLVKLQMQGSK-LEKLWDGV-HSLTGLRNIDLRGSKNLKEIPD-LS  654 (1153)
T ss_pred             cCcchhhcCcccEEEEecCCCCCCCCCcC--CccCCcEEECcCcc-cccccccc-ccCCCCCEEECCCCCCcCcCCc-cc
Confidence            45555444 35788888777777777654  56778888888776 55566554 677888888887764 445653 67


Q ss_pred             cCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCC-cCccccccccCCCCCcEEeccCCC-CCCcCCccccCCCCCcE
Q 012249          108 DLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLSSLQ-LKKFPAGILPRLRSLYK  184 (467)
Q Consensus       108 ~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~-~~~~lp~~~~~l~~L~~L~l~~~~-~~~~~~~~l~~l~~L~~  184 (467)
                      .+++|++|++++|..+..+| .++++++|+.|++++| .++.+|..+ ++++|+.|++++|. +..+|.    ..++|+.
T Consensus       655 ~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~----~~~nL~~  729 (1153)
T PLN03210        655 MATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD----ISTNISW  729 (1153)
T ss_pred             cCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCcccccc----ccCCcCe
Confidence            77888888888877777777 6778888888888877 677777655 67788888888775 344443    2356777


Q ss_pred             EEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCC--CCChhhhhhhhhcCCCccccccccccceeeee
Q 012249          185 LKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDG--RGSKNYCLALSAHGMGGCLVTHLEVDKSVFLY  262 (467)
Q Consensus       185 L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~--~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~  262 (467)
                      |+++++.....   +....+ ++|+.|.+..+..............  ......++.|...+......++.++..+.+|+
T Consensus       730 L~L~~n~i~~l---P~~~~l-~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~  805 (1153)
T PLN03210        730 LDLDETAIEEF---PSNLRL-ENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLE  805 (1153)
T ss_pred             eecCCCccccc---cccccc-cccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCC
Confidence            77777643221   111245 6666666654322111100000000  00011222222222212223445566666777


Q ss_pred             cCccccchhhhhh-----hcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhh
Q 012249          263 GCKICEIKETIVL-----LKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQ  337 (467)
Q Consensus       263 ~l~l~~~~~~~~~-----~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~  337 (467)
                      .|.+.++.....+     +..|+.|.+.+|..+..+..             .+.+|+.|++.+ +.++.++.  .+..++
T Consensus       806 ~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~-------------~~~nL~~L~Ls~-n~i~~iP~--si~~l~  869 (1153)
T PLN03210        806 HLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD-------------ISTNISDLNLSR-TGIEEVPW--WIEKFS  869 (1153)
T ss_pred             EEECCCCCCcCeeCCCCCccccCEEECCCCCccccccc-------------cccccCEeECCC-CCCccChH--HHhcCC
Confidence            7777665421111     34567777777766554221             123488888877 45555432  357789


Q ss_pred             ccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCC-----------ccccCCcc
Q 012249          338 NLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNG-----------VLVCNSLQ  406 (467)
Q Consensus       338 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-----------~~~~~~L~  406 (467)
                      +|+.|++.+|++++.++....                .+++|+.|.+.+|..+..+.....           ...+|+..
T Consensus       870 ~L~~L~L~~C~~L~~l~~~~~----------------~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~  933 (1153)
T PLN03210        870 NLSFLDMNGCNNLQRVSLNIS----------------KLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLPSTV  933 (1153)
T ss_pred             CCCEEECCCCCCcCccCcccc----------------cccCCCeeecCCCcccccccCCCCchhhhhhcccccccCCchh
Confidence            999999999999998754332                789999999999999986643220           02355567


Q ss_pred             eEEEeCCCCccccC
Q 012249          407 EIEVRRCPKLKRLS  420 (467)
Q Consensus       407 ~L~i~~C~~L~~lp  420 (467)
                      .+.+.+|.+|..-+
T Consensus       934 ~l~f~nC~~L~~~a  947 (1153)
T PLN03210        934 CINFINCFNLDQEA  947 (1153)
T ss_pred             ccccccccCCCchh
Confidence            77888998876543

syringae 6; Provisional

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

Probab=99.83  E-value=1.2e-21  Score=186.58  Aligned_cols=339  Identities=20%  Similarity=0.192  Sum_probs=197.6

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEc
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSL  117 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l  117 (467)
                      ..+.|++++|.+..+....|.++++|+.+++..|. ...+|... ....+|+.|+|.+|.|..+. +.+..++.||.||+
T Consensus        79 ~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~-Lt~IP~f~-~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDL  156 (873)
T KOG4194|consen   79 QTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNE-LTRIPRFG-HESGHLEKLDLRHNLISSVTSEELSALPALRSLDL  156 (873)
T ss_pred             ceeeeeccccccccCcHHHHhcCCcceeeeeccch-hhhccccc-ccccceeEEeeeccccccccHHHHHhHhhhhhhhh
Confidence            56788999888887666666688999999988886 77777643 45566888888888888663 56777888888888


Q ss_pred             CCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          118 GWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       118 ~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      +.| .+..+|  ++..-.++++|++++|.|+.+-.+ +.++.+|..|.++.|+++.+|..+|.++++|+.|++..|...-
T Consensus       157 SrN-~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~iri  235 (873)
T KOG4194|consen  157 SRN-LISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRI  235 (873)
T ss_pred             hhc-hhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceee
Confidence            885 566666  566667788888888888877543 7778888888888888888888887788888888888874432


Q ss_pred             cccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhh--
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKET--  272 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~--  272 (467)
                      . ....|.++ ..|+.|.+..|+.....+     ..+-.+.+.+++.....--....-+|+.++..|+.|+++.+...  
T Consensus       236 v-e~ltFqgL-~Sl~nlklqrN~I~kL~D-----G~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~ri  308 (873)
T KOG4194|consen  236 V-EGLTFQGL-PSLQNLKLQRNDISKLDD-----GAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRI  308 (873)
T ss_pred             e-hhhhhcCc-hhhhhhhhhhcCcccccC-----cceeeecccceeecccchhhhhhcccccccchhhhhccchhhhhee
Confidence            2 22456677 777777776666543321     11112222222111000001112334667777888888776522  


Q ss_pred             ----hhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCcc
Q 012249          273 ----IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCN  348 (467)
Q Consensus       273 ----~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~  348 (467)
                          .++...++.|.++.. .++.+.        --....+.. |+.|.+++ +.++++ ..+.+..+++|+.|++++. 
T Consensus       309 h~d~WsftqkL~~LdLs~N-~i~~l~--------~~sf~~L~~-Le~LnLs~-Nsi~~l-~e~af~~lssL~~LdLr~N-  375 (873)
T KOG4194|consen  309 HIDSWSFTQKLKELDLSSN-RITRLD--------EGSFRVLSQ-LEELNLSH-NSIDHL-AEGAFVGLSSLHKLDLRSN-  375 (873)
T ss_pred             ecchhhhcccceeEecccc-ccccCC--------hhHHHHHHH-hhhhcccc-cchHHH-HhhHHHHhhhhhhhcCcCC-
Confidence                122223333322211 111111        001112333 55555554 344443 3334455555555555541 


Q ss_pred             chhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCC
Q 012249          349 SIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCP  414 (467)
Q Consensus       349 ~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~  414 (467)
                      .+.-.+  ++       +.....   ++|+|++|.+.+ .+++.++..+. ..++.||+|++.+.+
T Consensus       376 ~ls~~I--ED-------aa~~f~---gl~~LrkL~l~g-Nqlk~I~krAf-sgl~~LE~LdL~~Na  427 (873)
T KOG4194|consen  376 ELSWCI--ED-------AAVAFN---GLPSLRKLRLTG-NQLKSIPKRAF-SGLEALEHLDLGDNA  427 (873)
T ss_pred             eEEEEE--ec-------chhhhc---cchhhhheeecC-ceeeecchhhh-ccCcccceecCCCCc
Confidence            221111  10       011122   566666666666 44665555442 235666666666553

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

Probab=99.80  E-value=2.7e-19  Score=170.61  Aligned_cols=362  Identities=20%  Similarity=0.179  Sum_probs=248.4

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCC--CCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPH--CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~--l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ....+.+....|.....  ..+.++.+...++.+.......  .+..++|++++|. +..+....|.++++|+.+++.+|
T Consensus        36 vd~ga~~~~~cpa~c~c--~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNk-l~~id~~~f~nl~nLq~v~l~~N  112 (873)
T KOG4194|consen   36 VDAGAGDLSECPATCPC--NTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNK-LSHIDFEFFYNLPNLQEVNLNKN  112 (873)
T ss_pred             cccCCCccccCCCcCCC--CceeeecCccccccccccccCCcCccceeeeeccccc-cccCcHHHHhcCCcceeeeeccc
Confidence            34444445566665443  4577888888777543322222  3456789999998 66666666799999999999999


Q ss_pred             CCCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCc
Q 012249           98 DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        98 ~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      .+..+|.......||+.|++..| .+..+.  .+..+..|+.||++.|.++.+|.. +..-.++++|++++|+++.+..+
T Consensus       113 ~Lt~IP~f~~~sghl~~L~L~~N-~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~  191 (873)
T KOG4194|consen  113 ELTRIPRFGHESGHLEKLDLRHN-LISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETG  191 (873)
T ss_pred             hhhhcccccccccceeEEeeecc-ccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccc
Confidence            99999987777889999999996 455544  688999999999999999988754 66668999999999999998888


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCcccccccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLE  254 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~  254 (467)
                      .|.++.+|.+|.++.|.+... +...|.++ ++|+.|++..|.+.-.     +...+.++..++.++.-......--.+.
T Consensus       192 ~F~~lnsL~tlkLsrNrittL-p~r~Fk~L-~~L~~LdLnrN~iriv-----e~ltFqgL~Sl~nlklqrN~I~kL~DG~  264 (873)
T KOG4194|consen  192 HFDSLNSLLTLKLSRNRITTL-PQRSFKRL-PKLESLDLNRNRIRIV-----EGLTFQGLPSLQNLKLQRNDISKLDDGA  264 (873)
T ss_pred             cccccchheeeecccCccccc-CHHHhhhc-chhhhhhccccceeee-----hhhhhcCchhhhhhhhhhcCcccccCcc
Confidence            888999999999999977554 45899999 9999999988876432     1222334444444322222222222344


Q ss_pred             ccceeeeecCccccchhhhhh------hcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCcccc
Q 012249          255 VDKSVFLYGCKICEIKETIVL------LKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLF  328 (467)
Q Consensus       255 ~~~~~~L~~l~l~~~~~~~~~------~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  328 (467)
                      +..+..++.+++..+......      ...++.|.++.. .+..+.        .-.. .|+++|+.|+++. +.++.+ 
T Consensus       265 Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~N-aI~rih--------~d~W-sftqkL~~LdLs~-N~i~~l-  332 (873)
T KOG4194|consen  265 FYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYN-AIQRIH--------IDSW-SFTQKLKELDLSS-NRITRL-  332 (873)
T ss_pred             eeeecccceeecccchhhhhhcccccccchhhhhccchh-hhheee--------cchh-hhcccceeEeccc-cccccC-
Confidence            667777788887776533221      123333333211 111110        1111 2455599999998 777776 


Q ss_pred             ccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCC-ccccCCcce
Q 012249          329 SLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNG-VLVCNSLQE  407 (467)
Q Consensus       329 ~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~~~~L~~  407 (467)
                      +.+.+..|..|++|+++. +.+..+-...            +   .++.+|++|+++...---.+...+. ...+++|++
T Consensus       333 ~~~sf~~L~~Le~LnLs~-Nsi~~l~e~a------------f---~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~Lrk  396 (873)
T KOG4194|consen  333 DEGSFRVLSQLEELNLSH-NSIDHLAEGA------------F---VGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRK  396 (873)
T ss_pred             ChhHHHHHHHhhhhcccc-cchHHHHhhH------------H---HHhhhhhhhcCcCCeEEEEEecchhhhccchhhhh
Confidence            556678899999999998 6777773222            2   2889999999987542222222221 134899999


Q ss_pred             EEEeCCCCccccCC
Q 012249          408 IEVRRCPKLKRLSL  421 (467)
Q Consensus       408 L~i~~C~~L~~lp~  421 (467)
                      |.+.+. ++|++|.
T Consensus       397 L~l~gN-qlk~I~k  409 (873)
T KOG4194|consen  397 LRLTGN-QLKSIPK  409 (873)
T ss_pred             eeecCc-eeeecch
Confidence            999986 7898874

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

Probab=99.78  E-value=2.6e-21  Score=185.57  Aligned_cols=334  Identities=21%  Similarity=0.246  Sum_probs=205.1

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCC-CCCCchhHhhcCCCCcEEEccCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNEN-LQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~-~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      +......+..+|...+.+++|++|++.+|++..+..... .++.||.+.+..|.. ...+|.++| +++.|.+||+++|+
T Consensus        37 LkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs-~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShNq  114 (1255)
T KOG0444|consen   37 LKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELS-DLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHNQ  114 (1255)
T ss_pred             EEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhc-cchhhHHHhhhccccccCCCCchhc-ccccceeeecchhh
Confidence            344456667778777888888888888888776665544 788888888887764 234777775 77888888888888


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGIL  176 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l  176 (467)
                      +.+.|..+-.-+++-.|++++| .+..+|  -+.++.-|-+||+++|.+..+|..+..+.+|+.|.+++|.+..+--..+
T Consensus       115 L~EvP~~LE~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQL  193 (1255)
T KOG0444|consen  115 LREVPTNLEYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQL  193 (1255)
T ss_pred             hhhcchhhhhhcCcEEEEcccC-ccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcC
Confidence            8888887777888888888874 677777  3667788888888888888888888888888888888887644333224


Q ss_pred             cCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCcccccccccc
Q 012249          177 PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVD  256 (467)
Q Consensus       177 ~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~  256 (467)
                      ..+++|++|++++..-....-...+..+ .+|..++++.|++...++.                              +.
T Consensus       194 PsmtsL~vLhms~TqRTl~N~Ptsld~l-~NL~dvDlS~N~Lp~vPec------------------------------ly  242 (1255)
T KOG0444|consen  194 PSMTSLSVLHMSNTQRTLDNIPTSLDDL-HNLRDVDLSENNLPIVPEC------------------------------LY  242 (1255)
T ss_pred             ccchhhhhhhcccccchhhcCCCchhhh-hhhhhccccccCCCcchHH------------------------------Hh
Confidence            5677777787777643333323456667 7777777777766443321                              22


Q ss_pred             ceeeeecCccccchh-----hhhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccc
Q 012249          257 KSVFLYGCKICEIKE-----TIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLR  331 (467)
Q Consensus       257 ~~~~L~~l~l~~~~~-----~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~  331 (467)
                      ++.+|+.|+++++..     .......+++|.++... ++.++         .....++. |++|.+.+ ++++.-...+
T Consensus       243 ~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQ-Lt~LP---------~avcKL~k-L~kLy~n~-NkL~FeGiPS  310 (1255)
T KOG0444|consen  243 KLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQ-LTVLP---------DAVCKLTK-LTKLYANN-NKLTFEGIPS  310 (1255)
T ss_pred             hhhhhheeccCcCceeeeeccHHHHhhhhhhccccch-hccch---------HHHhhhHH-HHHHHhcc-CcccccCCcc
Confidence            333455555555431     11222344444443221 11110         01223445 66665554 3333211112


Q ss_pred             hHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEe
Q 012249          332 LLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVR  411 (467)
Q Consensus       332 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~  411 (467)
                      ..+.|.+|+.+...+ +.++-++...                ..+++|+.|.+.. ..+..++...  +-++.|+.|++.
T Consensus       311 GIGKL~~Levf~aan-N~LElVPEgl----------------cRC~kL~kL~L~~-NrLiTLPeaI--HlL~~l~vLDlr  370 (1255)
T KOG0444|consen  311 GIGKLIQLEVFHAAN-NKLELVPEGL----------------CRCVKLQKLKLDH-NRLITLPEAI--HLLPDLKVLDLR  370 (1255)
T ss_pred             chhhhhhhHHHHhhc-cccccCchhh----------------hhhHHHHHhcccc-cceeechhhh--hhcCCcceeecc
Confidence            335566666665554 3333332221                2677777777765 4455566655  557777778877


Q ss_pred             CCCCcccc
Q 012249          412 RCPKLKRL  419 (467)
Q Consensus       412 ~C~~L~~l  419 (467)
                      ..|+|.--
T Consensus       371 eNpnLVMP  378 (1255)
T KOG0444|consen  371 ENPNLVMP  378 (1255)
T ss_pred             CCcCccCC
Confidence            77777543

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

Probab=99.77  E-value=4.5e-21  Score=183.98  Aligned_cols=337  Identities=21%  Similarity=0.274  Sum_probs=172.3

Q ss_pred             cCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC--Cchhhh
Q 012249           29 EFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE--VLPSSV  106 (467)
Q Consensus        29 ~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~--~l~~~~  106 (467)
                      .+|.....+++++.|.+....+..+|.... .|.+|..|++..|.. ..+...+ ..++.||.+.+..|++.  .+|..+
T Consensus        23 ~FP~~v~qMt~~~WLkLnrt~L~~vPeEL~-~lqkLEHLs~~HN~L-~~vhGEL-s~Lp~LRsv~~R~N~LKnsGiP~di   99 (1255)
T KOG0444|consen   23 RFPHDVEQMTQMTWLKLNRTKLEQVPEELS-RLQKLEHLSMAHNQL-ISVHGEL-SDLPRLRSVIVRDNNLKNSGIPTDI   99 (1255)
T ss_pred             cCchhHHHhhheeEEEechhhhhhChHHHH-HHhhhhhhhhhhhhh-Hhhhhhh-ccchhhHHHhhhccccccCCCCchh
Confidence            445555555666666666666666655543 566666666666652 2222222 45566666666666555  556666


Q ss_pred             hcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcE
Q 012249          107 SDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYK  184 (467)
Q Consensus       107 ~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~  184 (467)
                      .++..|..|+++.| .++..| .+..-+++..|++++|+|.++|.. +-+++-|-.|+++.|++..+|+.+ +++.+|++
T Consensus       100 F~l~dLt~lDLShN-qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~-RRL~~Lqt  177 (1255)
T KOG0444|consen  100 FRLKDLTILDLSHN-QLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQI-RRLSMLQT  177 (1255)
T ss_pred             cccccceeeecchh-hhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHH-HHHhhhhh
Confidence            66666666666663 455555 555666666666666666666654 345666666666666666666665 66666666


Q ss_pred             EEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecC
Q 012249          185 LKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGC  264 (467)
Q Consensus       185 L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l  264 (467)
                      |.+++|.. .......+..+ +.|++|.+++..-.                            ...++.++..+.+|.++
T Consensus       178 L~Ls~NPL-~hfQLrQLPsm-tsL~vLhms~TqRT----------------------------l~N~Ptsld~l~NL~dv  227 (1255)
T KOG0444|consen  178 LKLSNNPL-NHFQLRQLPSM-TSLSVLHMSNTQRT----------------------------LDNIPTSLDDLHNLRDV  227 (1255)
T ss_pred             hhcCCChh-hHHHHhcCccc-hhhhhhhcccccch----------------------------hhcCCCchhhhhhhhhc
Confidence            66665522 22233444444 55555555443211                            01233345555566777


Q ss_pred             ccccchhhhhhhc------ccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhc
Q 012249          265 KICEIKETIVLLK------DVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQN  338 (467)
Q Consensus       265 ~l~~~~~~~~~~~------~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~  338 (467)
                      +++.+... ..|.      .+.+|.+++.. ++.+.         ...+..- +|+.|.++. +.++.+|.  .+..|++
T Consensus       228 DlS~N~Lp-~vPecly~l~~LrrLNLS~N~-iteL~---------~~~~~W~-~lEtLNlSr-NQLt~LP~--avcKL~k  292 (1255)
T KOG0444|consen  228 DLSENNLP-IVPECLYKLRNLRRLNLSGNK-ITELN---------MTEGEWE-NLETLNLSR-NQLTVLPD--AVCKLTK  292 (1255)
T ss_pred             cccccCCC-cchHHHhhhhhhheeccCcCc-eeeee---------ccHHHHh-hhhhhcccc-chhccchH--HHhhhHH
Confidence            77665532 1222      22333222211 01000         0011111 255555554 33333321  2234444


Q ss_pred             cceeeeCCcc-chhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCcc
Q 012249          339 LKVLAVISCN-SIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLK  417 (467)
Q Consensus       339 L~~L~l~~c~-~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~  417 (467)
                      |+.|.+.+.. ..+.++..                .+.+.+|+.+...+ ..++-++.+.  ..|+.|++|.+. |.+|.
T Consensus       293 L~kLy~n~NkL~FeGiPSG----------------IGKL~~Levf~aan-N~LElVPEgl--cRC~kL~kL~L~-~NrLi  352 (1255)
T KOG0444|consen  293 LTKLYANNNKLTFEGIPSG----------------IGKLIQLEVFHAAN-NKLELVPEGL--CRCVKLQKLKLD-HNRLI  352 (1255)
T ss_pred             HHHHHhccCcccccCCccc----------------hhhhhhhHHHHhhc-cccccCchhh--hhhHHHHHhccc-cccee
Confidence            4444443311 01111110                11334444444333 3455555554  568889999886 77899


Q ss_pred             ccCCccCcccCCCCCCCCcceeeeeh
Q 012249          418 RLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       418 ~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      .+|+++-.+.        .|+++++.
T Consensus       353 TLPeaIHlL~--------~l~vLDlr  370 (1255)
T KOG0444|consen  353 TLPEAIHLLP--------DLKVLDLR  370 (1255)
T ss_pred             echhhhhhcC--------Ccceeecc
Confidence            9999875554        67777665

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

Probab=99.72  E-value=5e-20  Score=168.24  Aligned_cols=194  Identities=23%  Similarity=0.338  Sum_probs=136.3

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +..+++.+.+.|++++.+..+..++.+.|.+.++|..+. ...+++.++++.|. ...+++++ +++..|..++..+|++
T Consensus        73 l~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~-s~~~l~~l~~s~n~-~~el~~~i-~~~~~l~dl~~~~N~i  149 (565)
T KOG0472|consen   73 LNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQIG-SLISLVKLDCSSNE-LKELPDSI-GRLLDLEDLDATNNQI  149 (565)
T ss_pred             EEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHHh-hhhhhhhhhccccc-eeecCchH-HHHhhhhhhhcccccc
Confidence            455567777778777777777778888887777777765 67778888888886 56666665 6777788888888888


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      ..+|.+++.+..|..+++.+| .++..| ...+++.|++||...|-++.+|..++.|.+|..|++..|++..+|.  |++
T Consensus       150 ~slp~~~~~~~~l~~l~~~~n-~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPe--f~g  226 (565)
T KOG0472|consen  150 SSLPEDMVNLSKLSKLDLEGN-KLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLPE--FPG  226 (565)
T ss_pred             ccCchHHHHHHHHHHhhcccc-chhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCCC--CCc
Confidence            888888888888888888875 444444 5555777777877777777777777777777777777777777774  467


Q ss_pred             CCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccch
Q 012249          179 LRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       179 l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                      |..|.+|++..|.... .+.+...++ .++.+|++..+.+..+
T Consensus       227 cs~L~Elh~g~N~i~~-lpae~~~~L-~~l~vLDLRdNklke~  267 (565)
T KOG0472|consen  227 CSLLKELHVGENQIEM-LPAEHLKHL-NSLLVLDLRDNKLKEV  267 (565)
T ss_pred             cHHHHHHHhcccHHHh-hHHHHhccc-ccceeeeccccccccC
Confidence            7777777666653322 222334455 6666666666655443

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

Probab=99.57  E-value=3.6e-17  Score=132.91  Aligned_cols=165  Identities=24%  Similarity=0.361  Sum_probs=138.7

Q ss_pred             ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCC
Q 012249           34 QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLR  113 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~  113 (467)
                      ...+.++++|.+++|.++.+|+.+. .+.+|+.|++.+|+ +..+|.++ +.+++||.|++.-|.+..+|.+++.++.|+
T Consensus        29 Lf~~s~ITrLtLSHNKl~~vppnia-~l~nlevln~~nnq-ie~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~le  105 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNKLTVVPPNIA-ELKNLEVLNLSNNQ-IEELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPALE  105 (264)
T ss_pred             ccchhhhhhhhcccCceeecCCcHH-Hhhhhhhhhcccch-hhhcChhh-hhchhhhheecchhhhhcCccccCCCchhh
Confidence            3345688899999999998888876 89999999999997 88888887 889999999999999989999999999999


Q ss_pred             EEEcCCCCCCC-cCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          114 SLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       114 ~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      .|++.+|..-+ .+| .+..+..|+.|.++++.+..+|..++++++|+.|.++.|.+-++|+++ +.++.|++|++.+|.
T Consensus       106 vldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkei-g~lt~lrelhiqgnr  184 (264)
T KOG0617|consen  106 VLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEI-GDLTRLRELHIQGNR  184 (264)
T ss_pred             hhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHH-HHHHHHHHHhcccce
Confidence            99999864333 466 577888899999999999999999999999999999999999999997 999999999999886


Q ss_pred             CcccccHHHHHhh
Q 012249          192 EALRETVEEAARL  204 (467)
Q Consensus       192 ~~~~~~~~~l~~l  204 (467)
                      .....  .+++.+
T Consensus       185 l~vlp--pel~~l  195 (264)
T KOG0617|consen  185 LTVLP--PELANL  195 (264)
T ss_pred             eeecC--hhhhhh
Confidence            54332  344444

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

Probab=99.55  E-value=4.2e-16  Score=156.58  Aligned_cols=358  Identities=19%  Similarity=0.218  Sum_probs=182.7

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..+++.+..+|..+..+.+|+.+.++.|.+..+|.... ++.+|+.+++.+|. ...+|.++ ..+++|++|++++|+
T Consensus        49 ~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~-~~~~l~~lnL~~n~-l~~lP~~~-~~lknl~~LdlS~N~  125 (1081)
T KOG0618|consen   49 SLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSSCS-NMRNLQYLNLKNNR-LQSLPASI-SELKNLQYLDLSFNH  125 (1081)
T ss_pred             EeeccccccccCCchhhhHHHHhhcccchhhHhhCchhhh-hhhcchhheeccch-hhcCchhH-Hhhhcccccccchhc
Confidence            3556667777777777777778888887777777776554 67778888887776 66777765 677788888888887


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC--------------------CccccCCccEEEccCCcCccccccccCCCCC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--------------------SLARLLALQYLDLYDTRIEEVPEGMEMLENL  158 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--------------------~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L  158 (467)
                      +..+|..+..+..+..+..++|..+..++                    ++..+.+  .|++.+|.+..  ..+.++.+|
T Consensus       126 f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~~--~dls~~~~l  201 (1081)
T KOG0618|consen  126 FGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEMEV--LDLSNLANL  201 (1081)
T ss_pred             cCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcchhhhhe--eeecccchhhh--hhhhhccch
Confidence            77777666666666666666552222222                    1222222  35555443331  123333333


Q ss_pred             cEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCC------
Q 012249          159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRG------  232 (467)
Q Consensus       159 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~------  232 (467)
                      +.+....|.+..+.    -.-++++.|+.+.|......   .-. ..++|+.++++.+.+...++|+.....+.      
T Consensus       202 ~~l~c~rn~ls~l~----~~g~~l~~L~a~~n~l~~~~---~~p-~p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~  273 (1081)
T KOG0618|consen  202 EVLHCERNQLSELE----ISGPSLTALYADHNPLTTLD---VHP-VPLNLQYLDISHNNLSNLPEWIGACANLEALNANH  273 (1081)
T ss_pred             hhhhhhhcccceEE----ecCcchheeeeccCcceeec---ccc-ccccceeeecchhhhhcchHHHHhcccceEecccc
Confidence            33333333322111    11222333333333221100   000 11344444554444444444443322221      


Q ss_pred             -----------ChhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcc-------cceeeeeecccccccc
Q 012249          233 -----------SKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKD-------VQCLQMFEVDEVTSLN  294 (467)
Q Consensus       233 -----------~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~-------l~~L~~~~~~~l~~l~  294 (467)
                                 ....+..+. ...-....++....+..+|+.|++..+....-+...       +..|.... ..+..+.
T Consensus       274 N~l~~lp~ri~~~~~L~~l~-~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~-n~l~~lp  351 (1081)
T KOG0618|consen  274 NRLVALPLRISRITSLVSLS-AAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSS-NKLSTLP  351 (1081)
T ss_pred             hhHHhhHHHHhhhhhHHHHH-hhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhh-ccccccc
Confidence                       122222221 111122234555566778888888776532111111       11111110 0111111


Q ss_pred             cccc----------------cccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccC
Q 012249          295 DVLP----------------RELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVED  358 (467)
Q Consensus       295 ~~~~----------------~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~  358 (467)
                      ....                .+..|+....+++ |+.|.+++ +.++.+ |-..+.+++.|+.|.+++ +.++.++... 
T Consensus       352 ~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~h-LKVLhLsy-NrL~~f-pas~~~kle~LeeL~LSG-NkL~~Lp~tv-  426 (1081)
T KOG0618|consen  352 SYEENNHAALQELYLANNHLTDSCFPVLVNFKH-LKVLHLSY-NRLNSF-PASKLRKLEELEELNLSG-NKLTTLPDTV-  426 (1081)
T ss_pred             cccchhhHHHHHHHHhcCcccccchhhhccccc-eeeeeecc-cccccC-CHHHHhchHHhHHHhccc-chhhhhhHHH-
Confidence            0000                0013555667777 99999888 666654 555668888889999988 5777664211 


Q ss_pred             chhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCccc
Q 012249          359 EDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKR  418 (467)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~  418 (467)
                                  .   .+++|++|..++ ..+..++..   ..++.|+.++|+ |.+|+.
T Consensus       427 ------------a---~~~~L~tL~ahs-N~l~~fPe~---~~l~qL~~lDlS-~N~L~~  466 (1081)
T KOG0618|consen  427 ------------A---NLGRLHTLRAHS-NQLLSFPEL---AQLPQLKVLDLS-CNNLSE  466 (1081)
T ss_pred             ------------H---hhhhhHHHhhcC-Cceeechhh---hhcCcceEEecc-cchhhh
Confidence                        1   456666665555 334444422   345666666665 555555

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

Probab=99.55  E-value=1.1e-16  Score=130.14  Aligned_cols=153  Identities=29%  Similarity=0.423  Sum_probs=96.6

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYL  138 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L  138 (467)
                      ++.+...|.++.|. +..+|+.+ ..+++|++|++.+|+++.+|.+++.++.|+.|+++-| .+..+| ++|.++.|+.|
T Consensus        31 ~~s~ITrLtLSHNK-l~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmn-rl~~lprgfgs~p~levl  107 (264)
T KOG0617|consen   31 NMSNITRLTLSHNK-LTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMN-RLNILPRGFGSFPALEVL  107 (264)
T ss_pred             chhhhhhhhcccCc-eeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchh-hhhcCccccCCCchhhhh
Confidence            45556666666665 55555555 5666666666666666666666666666666666653 455556 66666666666


Q ss_pred             EccCCcCc--cccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          139 DLYDTRIE--EVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       139 ~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      |++.+++.  .+|..+..|+.|+.|+++.|.+.-+|..+ +++++||.|.+..|....-  .++++.+ .+|++|.|.++
T Consensus       108 dltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dv-g~lt~lqil~lrdndll~l--pkeig~l-t~lrelhiqgn  183 (264)
T KOG0617|consen  108 DLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDV-GKLTNLQILSLRDNDLLSL--PKEIGDL-TRLRELHIQGN  183 (264)
T ss_pred             hccccccccccCCcchhHHHHHHHHHhcCCCcccCChhh-hhhcceeEEeeccCchhhC--cHHHHHH-HHHHHHhcccc
Confidence            66666555  46666666666666666666666666665 6666666666666644332  2466666 66666666666


Q ss_pred             Ccc
Q 012249          217 TLK  219 (467)
Q Consensus       217 ~~~  219 (467)
                      .+.
T Consensus       184 rl~  186 (264)
T KOG0617|consen  184 RLT  186 (264)
T ss_pred             eee
Confidence            553

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

Probab=99.50  E-value=1.7e-16  Score=145.33  Aligned_cols=176  Identities=24%  Similarity=0.327  Sum_probs=146.2

Q ss_pred             CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEc
Q 012249           38 ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSL  117 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l  117 (467)
                      ..+..+.++.|.++.+...+. ++..+.+++++.|. ...+|+.+ +.+..++.++.++|++..+|..++...+|+.+++
T Consensus        45 v~l~~lils~N~l~~l~~dl~-nL~~l~vl~~~~n~-l~~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~  121 (565)
T KOG0472|consen   45 VDLQKLILSHNDLEVLREDLK-NLACLTVLNVHDNK-LSQLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLDC  121 (565)
T ss_pred             cchhhhhhccCchhhccHhhh-cccceeEEEeccch-hhhCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhc
Confidence            456778888888887766655 88999999999998 66778776 7889999999999999999999999999999999


Q ss_pred             CCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccccc
Q 012249          118 GWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRET  197 (467)
Q Consensus       118 ~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  197 (467)
                      +.|....-.++++.+..|+.++..+|++.++|.+++++.++..+++.+|.++.+|+.. -+++.|++|+.-.|.. +..+
T Consensus       122 s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~-i~m~~L~~ld~~~N~L-~tlP  199 (565)
T KOG0472|consen  122 SSNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNKLKALPENH-IAMKRLKHLDCNSNLL-ETLP  199 (565)
T ss_pred             cccceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccchhhCCHHH-HHHHHHHhcccchhhh-hcCC
Confidence            9965444444899999999999999999999999999999999999999999988876 4599999998877643 3333


Q ss_pred             HHHHHhhhccCcEEEcccCCccc
Q 012249          198 VEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       198 ~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                       ..++.+ ..|+.|++..+.+..
T Consensus       200 -~~lg~l-~~L~~LyL~~Nki~~  220 (565)
T KOG0472|consen  200 -PELGGL-ESLELLYLRRNKIRF  220 (565)
T ss_pred             -hhhcch-hhhHHHHhhhccccc
Confidence             588888 888888887776543

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.46  E-value=2.1e-12  Score=133.44  Aligned_cols=170  Identities=23%  Similarity=0.244  Sum_probs=112.2

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..++..+..+|..+.  ++++.|++..|.++.+|.    .+++|+.|++++|. +..+|.    ..++|+.|++++|.
T Consensus       205 ~LdLs~~~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~----lp~~Lk~LdLs~N~-LtsLP~----lp~sL~~L~Ls~N~  273 (788)
T PRK15387        205 VLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLPA----LPPELRTLEVSGNQ-LTSLPV----LPPGLLELSIFSNP  273 (788)
T ss_pred             EEEcCCCCCCcCCcchh--cCCCEEEccCCcCCCCCC----CCCCCcEEEecCCc-cCcccC----cccccceeeccCCc
Confidence            55667777788887654  378888888888887764    35778888888886 556663    24678888888888


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      +..+|..   ...|+.|++++| .+..+|.  .+++|+.|++++|.++.+|...   .+|+.|++++|.+..+|..    
T Consensus       274 L~~Lp~l---p~~L~~L~Ls~N-~Lt~LP~--~p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~L~~LP~l----  340 (788)
T PRK15387        274 LTHLPAL---PSGLCKLWIFGN-QLTSLPV--LPPGLQELSVSDNQLASLPALP---SELCKLWAYNNQLTSLPTL----  340 (788)
T ss_pred             hhhhhhc---hhhcCEEECcCC-ccccccc--cccccceeECCCCccccCCCCc---ccccccccccCcccccccc----
Confidence            7776643   255777888876 4566663  2356888888888777776533   3466677777777776642    


Q ss_pred             CCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          179 LRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       179 l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ..+|+.|++++|.+.....      +..+|+.|.+++|.+
T Consensus       341 p~~Lq~LdLS~N~Ls~LP~------lp~~L~~L~Ls~N~L  374 (788)
T PRK15387        341 PSGLQELSVSDNQLASLPT------LPSELYKLWAYNNRL  374 (788)
T ss_pred             ccccceEecCCCccCCCCC------CCcccceehhhcccc
Confidence            2467777877775543211      114555566655543

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

Probab=99.44  E-value=2.1e-15  Score=151.63  Aligned_cols=390  Identities=22%  Similarity=0.229  Sum_probs=181.3

Q ss_pred             CCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchh
Q 012249           25 LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS  104 (467)
Q Consensus        25 ~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~  104 (467)
                      ..+.-||..+-.-..+..+++..|.+-..|-.....+-+|+.|++++|. ....|..+ ..+.+|+.|.++.|.+.++|.
T Consensus         8 ~~l~~ip~~i~~~~~~~~ln~~~N~~l~~pl~~~~~~v~L~~l~lsnn~-~~~fp~~i-t~l~~L~~ln~s~n~i~~vp~   85 (1081)
T KOG0618|consen    8 EQLELIPEQILNNEALQILNLRRNSLLSRPLEFVEKRVKLKSLDLSNNQ-ISSFPIQI-TLLSHLRQLNLSRNYIRSVPS   85 (1081)
T ss_pred             ccCcccchhhccHHHHHhhhccccccccCchHHhhheeeeEEeeccccc-cccCCchh-hhHHHHhhcccchhhHhhCch
Confidence            3344444433332234445554444333221111123336666666665 44444433 455566666666666666665


Q ss_pred             hhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEecc-------------------
Q 012249          105 SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS-------------------  164 (467)
Q Consensus       105 ~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~-------------------  164 (467)
                      ...++.+|+++++.+ +.+...| ++..+++|++|+++.|.+..+|..+..+..+..+..+                   
T Consensus        86 s~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~  164 (1081)
T KOG0618|consen   86 SCSNMRNLQYLNLKN-NRLQSLPASISELKNLQYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLR  164 (1081)
T ss_pred             hhhhhhcchhheecc-chhhcCchhHHhhhcccccccchhccCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhh
Confidence            556666666666655 3455555 5566666666666666555555544444444333333                   


Q ss_pred             CCCC-CCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhh-------hhhccCCCCC---
Q 012249          165 SLQL-KKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNI-------YVKSTDGRGS---  233 (467)
Q Consensus       165 ~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~-------~~~~~~~~~~---  233 (467)
                      .+.+ ..++.++ ..+++  .|++..|.+. .   ..+..+ .+|+.+....+....+..       ...+...+..   
T Consensus       165 ~n~l~~~~~~~i-~~l~~--~ldLr~N~~~-~---~dls~~-~~l~~l~c~rn~ls~l~~~g~~l~~L~a~~n~l~~~~~  236 (1081)
T KOG0618|consen  165 LNVLGGSFLIDI-YNLTH--QLDLRYNEME-V---LDLSNL-ANLEVLHCERNQLSELEISGPSLTALYADHNPLTTLDV  236 (1081)
T ss_pred             hhhcccchhcch-hhhhe--eeecccchhh-h---hhhhhc-cchhhhhhhhcccceEEecCcchheeeeccCcceeecc
Confidence            3332 2233222 33333  3555555443 1   122222 333333222222111000       0000000000   


Q ss_pred             ---hhhhhhhhhcCCCccccccccccceeeeecCccccchhhhh-----hhcccceeeeeeccccccccccccccccccc
Q 012249          234 ---KNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIV-----LLKDVQCLQMFEVDEVTSLNDVLPRELGLVN  305 (467)
Q Consensus       234 ---l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~-----~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~  305 (467)
                         -..+..+ .++-......++|+..+.+|+.+.+..+....-     ....++.|.+..+.- +.+         -+.
T Consensus       237 ~p~p~nl~~~-dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel-~yi---------p~~  305 (1081)
T KOG0618|consen  237 HPVPLNLQYL-DISHNNLSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNEL-EYI---------PPF  305 (1081)
T ss_pred             ccccccceee-ecchhhhhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhhh-hhC---------CCc
Confidence               0000000 011111123355667777777777666553211     112333333322211 110         111


Q ss_pred             ccCccccccEEEEecCCCCccccccchHHhhh-ccceeeeCCccchhhhhcccCchh---------hhhhcccccccccc
Q 012249          306 IGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQ-NLKVLAVISCNSIEEIVAVEDEDT---------EKELATNTIINTVT  375 (467)
Q Consensus       306 ~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~-~L~~L~l~~c~~l~~l~~~~~~~~---------~~~~~~~~~~~~~~  375 (467)
                      ...+.. |++|++.. +++..++... +..+. .|..++.+. ..+...+..++...         -..++++.++.+..
T Consensus       306 le~~~s-L~tLdL~~-N~L~~lp~~~-l~v~~~~l~~ln~s~-n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~  381 (1081)
T KOG0618|consen  306 LEGLKS-LRTLDLQS-NNLPSLPDNF-LAVLNASLNTLNVSS-NKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVN  381 (1081)
T ss_pred             ccccce-eeeeeehh-ccccccchHH-HhhhhHHHHHHhhhh-ccccccccccchhhHHHHHHHHhcCcccccchhhhcc
Confidence            233566 88999987 5666654432 22222 244444443 34444433332211         22334455666678


Q ss_pred             ccccccccccccccccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCC--------------CCCCCcceeee
Q 012249          376 LPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQ--------------PSPPAALKVIK  441 (467)
Q Consensus       376 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~--------------~~~~~~L~~l~  441 (467)
                      +++||.|.+.. ..+..++...- ..++.||+|.++|. +|+.||..+......+              ....|.|+.++
T Consensus       382 ~~hLKVLhLsy-NrL~~fpas~~-~kle~LeeL~LSGN-kL~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lD  458 (1081)
T KOG0618|consen  382 FKHLKVLHLSY-NRLNSFPASKL-RKLEELEELNLSGN-KLTTLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLD  458 (1081)
T ss_pred             ccceeeeeecc-cccccCCHHHH-hchHHhHHHhcccc-hhhhhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEe
Confidence            99999999987 44666666542 45888888888886 6777776544433221              11445677777


Q ss_pred             eh
Q 012249          442 IE  443 (467)
Q Consensus       442 i~  443 (467)
                      +.
T Consensus       459 lS  460 (1081)
T KOG0618|consen  459 LS  460 (1081)
T ss_pred             cc
Confidence            76

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.42  E-value=1.6e-13  Score=144.48  Aligned_cols=328  Identities=21%  Similarity=0.281  Sum_probs=197.4

Q ss_pred             EEcCCCcccCCcCccCCCCccEEEeecCC--CcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           21 VKAGLRLLEFPGEQEWEENLERVSLMRNN--IEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        21 ~~~~~~l~~~~~~~~~l~~l~~L~l~~~~--~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      ...++....++..... ++++.|-+..|.  +..++...|..++.|++||+++|.-...+|.++ +++-+||+|+++++.
T Consensus       529 s~~~~~~~~~~~~~~~-~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I-~~Li~LryL~L~~t~  606 (889)
T KOG4658|consen  529 SLMNNKIEHIAGSSEN-PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSI-GELVHLRYLDLSDTG  606 (889)
T ss_pred             EEeccchhhccCCCCC-CccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHH-hhhhhhhcccccCCC
Confidence            3334444555544333 479999999886  667777777789999999999998788899987 899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc---cccccccCCCCCcEEeccCCCCCCcCCc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE---EVPEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~---~lp~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      +..+|.+++++..|.+|++..+.....+| ....+++|++|.+......   ..-..+.++.+|+.+....... .+...
T Consensus       607 I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~-~~~e~  685 (889)
T KOG4658|consen  607 ISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSITISSV-LLLED  685 (889)
T ss_pred             ccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheeecchh-HhHhh
Confidence            99999999999999999999987777777 4566999999999876422   1223455666666666544333 11111


Q ss_pred             cccCCCCCcE----EEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCcccc
Q 012249          175 ILPRLRSLYK----LKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLV  250 (467)
Q Consensus       175 ~l~~l~~L~~----L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~  250 (467)
                      + ..++.|..    +.+..+  ........+..+ .+|+.|.+..+.......        ...+               
T Consensus       686 l-~~~~~L~~~~~~l~~~~~--~~~~~~~~~~~l-~~L~~L~i~~~~~~e~~~--------~~~~---------------  738 (889)
T KOG4658|consen  686 L-LGMTRLRSLLQSLSIEGC--SKRTLISSLGSL-GNLEELSILDCGISEIVI--------EWEE---------------  738 (889)
T ss_pred             h-hhhHHHHHHhHhhhhccc--ccceeecccccc-cCcceEEEEcCCCchhhc--------cccc---------------
Confidence            1 23333332    222221  112223467778 888998887776532210        0000               


Q ss_pred             ccccccceeeeecCccccchhhhhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCcccccc
Q 012249          251 THLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSL  330 (467)
Q Consensus       251 ~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~  330 (467)
                               ....+.         ....+.++.+.+|..+..+.           ...|+++|+.|.+..|+.+++.  .
T Consensus       739 ---------~~~~~~---------~f~~l~~~~~~~~~~~r~l~-----------~~~f~~~L~~l~l~~~~~~e~~--i  787 (889)
T KOG4658|consen  739 ---------SLIVLL---------CFPNLSKVSILNCHMLRDLT-----------WLLFAPHLTSLSLVSCRLLEDI--I  787 (889)
T ss_pred             ---------ccchhh---------hHHHHHHHHhhccccccccc-----------hhhccCcccEEEEecccccccC--C
Confidence                     000000         01122333333443333221           1234555999999999988874  3


Q ss_pred             chHHhhhccceeeeCCccchhhh---hcccCchhhhhhccccccc-cccccccccccccccccccccccCCCccccCCcc
Q 012249          331 RLLPALQNLKVLAVISCNSIEEI---VAVEDEDTEKELATNTIIN-TVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQ  406 (467)
Q Consensus       331 ~~~~~l~~L~~L~l~~c~~l~~l---~~~~~~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~  406 (467)
                      +....+..++.+.+.. ......   ...++   .     .++-+ -..++.|+.+.+..||++.         .+|.+.
T Consensus       788 ~~~k~~~~l~~~i~~f-~~~~~l~~~~~l~~---l-----~~i~~~~l~~~~l~~~~ve~~p~l~---------~~P~~~  849 (889)
T KOG4658|consen  788 PKLKALLELKELILPF-NKLEGLRMLCSLGG---L-----PQLYWLPLSFLKLEELIVEECPKLG---------KLPLLS  849 (889)
T ss_pred             CHHHHhhhcccEEecc-cccccceeeecCCC---C-----ceeEecccCccchhheehhcCcccc---------cCcccc
Confidence            3334554555433322 122222   11110   0     00000 0134445555555555543         478889


Q ss_pred             eEEEeCC-CCccccCCc--cCccc
Q 012249          407 EIEVRRC-PKLKRLSLS--LPLLD  427 (467)
Q Consensus       407 ~L~i~~C-~~L~~lp~~--~~~l~  427 (467)
                      ++.+.+| ++++.+|.+  +...+
T Consensus       850 ~~~i~~~~~~~~~~~~~~~~~~v~  873 (889)
T KOG4658|consen  850 TLTIVGCEEKLKEYPDGEWLEGVY  873 (889)
T ss_pred             ccceeccccceeecCCccceeeEE
Confidence            9999997 889999987  44444

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.40  E-value=4.5e-12  Score=131.00  Aligned_cols=155  Identities=20%  Similarity=0.223  Sum_probs=113.8

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLG  118 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~  118 (467)
                      +-..|+++.+.++.+|..+.   ++|+.|++..|. +..+|.    ..++|++|++++|.+..+|..   .++|+.|+++
T Consensus       202 ~~~~LdLs~~~LtsLP~~l~---~~L~~L~L~~N~-Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls  270 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCLP---AHITTLVIPDNN-LTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIF  270 (788)
T ss_pred             CCcEEEcCCCCCCcCCcchh---cCCCEEEccCCc-CCCCCC----CCCCCcEEEecCCccCcccCc---ccccceeecc
Confidence            45678888888888887653   478999999987 666774    357899999999998888743   4688899998


Q ss_pred             CCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccH
Q 012249          119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETV  198 (467)
Q Consensus       119 ~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  198 (467)
                      +| .+..+|.  ...+|+.|++++|.++.+|..   +++|+.|++++|.+..+|...    .+|+.|++++|....    
T Consensus       271 ~N-~L~~Lp~--lp~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp----~~L~~L~Ls~N~L~~----  336 (788)
T PRK15387        271 SN-PLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQLASLPALP----SELCKLWAYNNQLTS----  336 (788)
T ss_pred             CC-chhhhhh--chhhcCEEECcCCcccccccc---ccccceeECCCCccccCCCCc----ccccccccccCcccc----
Confidence            86 4566663  225688899999988888753   467999999999888877532    356777788775532    


Q ss_pred             HHHHhhhccCcEEEcccCCccc
Q 012249          199 EEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       199 ~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                        +..+..+|+.|++++|.+..
T Consensus       337 --LP~lp~~Lq~LdLS~N~Ls~  356 (788)
T PRK15387        337 --LPTLPSGLQELSVSDNQLAS  356 (788)
T ss_pred             --ccccccccceEecCCCccCC
Confidence              11232578888988877643

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.37  E-value=3.8e-12  Score=132.24  Aligned_cols=153  Identities=25%  Similarity=0.409  Sum_probs=77.9

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.++..+|..+.  ++++.|++++|.++.+|..++   ++|+.|++++|. +..+|..+.   ..|+.|++++|.+
T Consensus       183 L~L~~~~LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N~-LtsLP~~l~---~~L~~L~Ls~N~L  253 (754)
T PRK15370        183 LRLKILGLTTIPACIP--EQITTLILDNNELKSLPENLQ---GNIKTLYANSNQ-LTSIPATLP---DTIQEMELSINRI  253 (754)
T ss_pred             EEeCCCCcCcCCcccc--cCCcEEEecCCCCCcCChhhc---cCCCEEECCCCc-cccCChhhh---ccccEEECcCCcc
Confidence            4444445555554332  355666666666665554432   356666666655 444554321   2456666666665


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      ..+|..+.  .+|++|++++| .+..+| .+.  .+|++|++++|.++.+|..+.  ++|+.|++++|.+..+|..+   
T Consensus       254 ~~LP~~l~--s~L~~L~Ls~N-~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~N~Lt~LP~~l---  323 (754)
T PRK15370        254 TELPERLP--SALQSLDLFHN-KISCLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQSNSLTALPETL---  323 (754)
T ss_pred             CcCChhHh--CCCCEEECcCC-ccCccccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcCCccccCCccc---
Confidence            55554443  35566666553 344444 222  355666666665555554332  34555555555555554432   


Q ss_pred             CCCCcEEEcccCC
Q 012249          179 LRSLYKLKLSFGN  191 (467)
Q Consensus       179 l~~L~~L~l~~~~  191 (467)
                      .++|+.|++++|.
T Consensus       324 ~~sL~~L~Ls~N~  336 (754)
T PRK15370        324 PPGLKTLEAGENA  336 (754)
T ss_pred             cccceeccccCCc
Confidence            1345555555553

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

Probab=99.36  E-value=7.1e-14  Score=128.17  Aligned_cols=125  Identities=26%  Similarity=0.384  Sum_probs=74.1

Q ss_pred             EEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccC
Q 012249           66 TLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYD  142 (467)
Q Consensus        66 ~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~  142 (467)
                      .+.+..|. +..+|+..|+.+++||.|||++|.|+.+ |+.|..+..|..|-+-+++.++.+|  .++.+..|+.|.+.-
T Consensus        71 eirLdqN~-I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNa  149 (498)
T KOG4237|consen   71 EIRLDQNQ-ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNA  149 (498)
T ss_pred             EEEeccCC-cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcCh
Confidence            34444444 4555555555555555555555555544 4455555555555555544555555  366666666666666


Q ss_pred             CcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          143 TRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       143 ~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      |++.-++. .+..++++..|.+..|.+..++...+..+..++++++..|.
T Consensus       150 n~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  150 NHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             hhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCc
Confidence            66664443 36677777777777777777776556777777777776664

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

Probab=99.28  E-value=3.1e-13  Score=124.02  Aligned_cols=242  Identities=21%  Similarity=0.150  Sum_probs=142.4

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC-
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-   96 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~-   96 (467)
                      -++...+.++.++|..+-.  ....+.+..|.|+.+|+..|+.+++||.|+++.|. +..+.+..|.+++.|-.|.+.+ 
T Consensus        49 ~~VdCr~~GL~eVP~~LP~--~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~-Is~I~p~AF~GL~~l~~Lvlyg~  125 (498)
T KOG4237|consen   49 GIVDCRGKGLTEVPANLPP--ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN-ISFIAPDAFKGLASLLSLVLYGN  125 (498)
T ss_pred             ceEEccCCCcccCcccCCC--cceEEEeccCCcccCChhhccchhhhceecccccc-hhhcChHhhhhhHhhhHHHhhcC
Confidence            4567777788888875533  56777888888888888888888888888888886 6666666677777766666655 


Q ss_pred             CCCCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEecc--------
Q 012249           97 TDIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLS--------  164 (467)
Q Consensus        97 ~~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~--------  164 (467)
                      |+|..+|. .++.+..|+.|.+..| .+.-++  .+..+++|..|.+.++.+..++. .+..+..++.+++.        
T Consensus       126 NkI~~l~k~~F~gL~slqrLllNan-~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdC  204 (498)
T KOG4237|consen  126 NKITDLPKGAFGGLSSLQRLLLNAN-HINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDC  204 (498)
T ss_pred             CchhhhhhhHhhhHHHHHHHhcChh-hhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCcccccc
Confidence            67776663 3455666666655553 222222  34445555555554444443333 12222222222211        


Q ss_pred             -----------------------------------------------------CCCC-CCcCCccccCCCCCcEEEcccC
Q 012249          165 -----------------------------------------------------SLQL-KKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       165 -----------------------------------------------------~~~~-~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                                                                           .+.. ...|..-|+.+++|++|++++|
T Consensus       205 nL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN  284 (498)
T KOG4237|consen  205 NLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNN  284 (498)
T ss_pred             ccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCC
Confidence                                                                 1111 1222223577788888888887


Q ss_pred             CCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccch
Q 012249          191 NEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIK  270 (467)
Q Consensus       191 ~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~  270 (467)
                      ....... ..|+++ ..+++|.+..|.+..+.     ...+.++.+++.|...+.-.....++.+.....|..+.+-.++
T Consensus       285 ~i~~i~~-~aFe~~-a~l~eL~L~~N~l~~v~-----~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np  357 (498)
T KOG4237|consen  285 KITRIED-GAFEGA-AELQELYLTRNKLEFVS-----SGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNP  357 (498)
T ss_pred             ccchhhh-hhhcch-hhhhhhhcCcchHHHHH-----HHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCc
Confidence            6655554 577777 77777777777664442     2233444444444333333333446667777778888777665

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.25  E-value=3.8e-11  Score=124.88  Aligned_cols=179  Identities=19%  Similarity=0.311  Sum_probs=141.2

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...++++..+|..+.  ++|+.|++++|.++.+|..+.   ++|+.|++++|. +..+|..+.   ..|++|++++|.
T Consensus       203 ~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l~---~~L~~L~Ls~N~-L~~LP~~l~---s~L~~L~Ls~N~  273 (754)
T PRK15370        203 TLILDNNELKSLPENLQ--GNIKTLYANSNQLTSIPATLP---DTIQEMELSINR-ITELPERLP---SALQSLDLFHNK  273 (754)
T ss_pred             EEEecCCCCCcCChhhc--cCCCEEECCCCccccCChhhh---ccccEEECcCCc-cCcCChhHh---CCCCEEECcCCc
Confidence            45667888899988654  589999999999998887543   579999999998 668887653   579999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcccc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILP  177 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~  177 (467)
                      +..+|..+.  .+|++|++++| .+..+| .+.  .+|+.|++++|.++.+|..+.  ++|+.|++++|.+..+|..+  
T Consensus       274 L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~lp--~sL~~L~Ls~N~Lt~LP~~l~--~sL~~L~Ls~N~Lt~LP~~l--  344 (754)
T PRK15370        274 ISCLPENLP--EELRYLSVYDN-SIRTLPAHLP--SGITHLNVQSNSLTALPETLP--PGLKTLEAGENALTSLPASL--  344 (754)
T ss_pred             cCccccccC--CCCcEEECCCC-ccccCcccch--hhHHHHHhcCCccccCCcccc--ccceeccccCCccccCChhh--
Confidence            998887554  58999999997 566677 333  478999999999998886553  68999999999998888754  


Q ss_pred             CCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccch
Q 012249          178 RLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                       .++|+.|++++|.+... + ..+  . +.|+.|++++|.+...
T Consensus       345 -~~sL~~L~Ls~N~L~~L-P-~~l--p-~~L~~LdLs~N~Lt~L  382 (754)
T PRK15370        345 -PPELQVLDVSKNQITVL-P-ETL--P-PTITTLDVSRNALTNL  382 (754)
T ss_pred             -cCcccEEECCCCCCCcC-C-hhh--c-CCcCEEECCCCcCCCC
Confidence             36899999999866432 2 122  3 7899999998876544

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

Probab=99.14  E-value=3.2e-11  Score=115.41  Aligned_cols=37  Identities=14%  Similarity=0.050  Sum_probs=20.4

Q ss_pred             cccccEEEEecCCCCc-cccc-cchHHhhhccceeeeCCc
Q 012249          310 SHDLKVLRFDSCKNLK-NLFS-LRLLPALQNLKVLAVISC  347 (467)
Q Consensus       310 ~~~L~~L~l~~c~~l~-~l~~-~~~~~~l~~L~~L~l~~c  347 (467)
                      +. |++|++.+|.... .... ...++.+++|+.++++++
T Consensus       250 ~~-L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N  288 (319)
T cd00116         250 IS-LLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGN  288 (319)
T ss_pred             CC-ceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCC
Confidence            44 8888888764321 1001 123345567788888774

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

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

Probab=99.12  E-value=2.6e-11  Score=116.04  Aligned_cols=37  Identities=24%  Similarity=0.267  Sum_probs=21.9

Q ss_pred             ccccccEEEEecCCCCccccccchHHhh----hccceeeeCCc
Q 012249          309 FSHDLKVLRFDSCKNLKNLFSLRLLPAL----QNLKVLAVISC  347 (467)
Q Consensus       309 ~~~~L~~L~l~~c~~l~~l~~~~~~~~l----~~L~~L~l~~c  347 (467)
                      ++. |++|++++|+ +++.........+    +.|+.|++.+|
T Consensus       220 ~~~-L~~L~ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~l~~n  260 (319)
T cd00116         220 LKS-LEVLNLGDNN-LTDAGAAALASALLSPNISLLTLSLSCN  260 (319)
T ss_pred             cCC-CCEEecCCCc-CchHHHHHHHHHHhccCCCceEEEccCC
Confidence            456 8888888864 3432222222333    67888888876

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

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

Probab=99.03  E-value=1.6e-11  Score=117.89  Aligned_cols=192  Identities=24%  Similarity=0.387  Sum_probs=140.7

Q ss_pred             eEEEcCCCcccCCcCcc--CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           19 FMVKAGLRLLEFPGEQE--WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~--~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      ....++.+++++|....  .+......+++.|++.++|..+. .|..|..+.+..|. +..+|..+ ..+..|.+|+++.
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrNR~~elp~~~~-~f~~Le~liLy~n~-~r~ip~~i-~~L~~lt~l~ls~  130 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADLSRNRFSELPEEAC-AFVSLESLILYHNC-IRTIPEAI-CNLEALTFLDLSS  130 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhccccccccCchHHH-HHHHHHHHHHHhcc-ceecchhh-hhhhHHHHhhhcc
Confidence            35666777888876443  34445677888888888877655 67777777777776 66777665 6788888888888


Q ss_pred             CCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcc
Q 012249           97 TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus        97 ~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      |+++.+|..+..++ |+.|.+++| +++.+| .++.+..|..||.+.|.+..+|..++++.+|+.|.++.|++..+|.+.
T Consensus       131 NqlS~lp~~lC~lp-Lkvli~sNN-kl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~lp~El  208 (722)
T KOG0532|consen  131 NQLSHLPDGLCDLP-LKVLIVSNN-KLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEEL  208 (722)
T ss_pred             chhhcCChhhhcCc-ceeEEEecC-ccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHHH
Confidence            88888887777776 778877774 667777 677777788888888888888888888888888888888877777776


Q ss_pred             ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          176 LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                       ..+ .|..|++++|+.....  -.|.+| ++|++|-+++|.+..
T Consensus       209 -~~L-pLi~lDfScNkis~iP--v~fr~m-~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  209 -CSL-PLIRLDFSCNKISYLP--VDFRKM-RHLQVLQLENNPLQS  248 (722)
T ss_pred             -hCC-ceeeeecccCceeecc--hhhhhh-hhheeeeeccCCCCC
Confidence             433 4777888877554332  367777 888888887776644

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

Probab=98.95  E-value=1.1e-09  Score=93.11  Aligned_cols=121  Identities=23%  Similarity=0.308  Sum_probs=44.3

Q ss_pred             CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhh-hcCcCCCEEE
Q 012249           38 ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLS  116 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~-~~l~~L~~L~  116 (467)
                      .++++|++.++.++.+.. +...+.+|+.|++++|. +..+..  +..++.|++|++++|.+..+...+ ..+++|+.|+
T Consensus        19 ~~~~~L~L~~n~I~~Ie~-L~~~l~~L~~L~Ls~N~-I~~l~~--l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~   94 (175)
T PF14580_consen   19 VKLRELNLRGNQISTIEN-LGATLDKLEVLDLSNNQ-ITKLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             -----------------S---TT-TT--EEE-TTS---S--TT------TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             cccccccccccccccccc-hhhhhcCCCEEECCCCC-CccccC--ccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            367888888888886643 22256788888888887 555553  467888888888888888776555 3588888888


Q ss_pred             cCCCCCCCcCC---CccccCCccEEEccCCcCccccc----cccCCCCCcEEec
Q 012249          117 LGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVPE----GMEMLENLSHLYL  163 (467)
Q Consensus       117 l~~~~~~~~~p---~l~~l~~L~~L~l~~~~~~~lp~----~~~~l~~L~~L~l  163 (467)
                      +++| .+..+.   .+..+++|+.|++.+|.+..-+.    .+..+|+|+.||-
T Consensus        95 L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   95 LSNN-KISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -TTS----SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             CcCC-cCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            8875 444443   46667777777777776664432    2455666666654

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

Probab=98.92  E-value=3.1e-11  Score=111.96  Aligned_cols=122  Identities=18%  Similarity=0.346  Sum_probs=75.2

Q ss_pred             cccceeeeeeccccccccccccccccccccc-CccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhc
Q 012249          277 KDVQCLQMFEVDEVTSLNDVLPRELGLVNIG-KFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVA  355 (467)
Q Consensus       277 ~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~-~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~  355 (467)
                      ..++.|.+.+|...++.+        +...+ ..+. |+.+++..|...++-.-.....+++.|+.+.++.|+.+++. .
T Consensus       320 ~~L~~l~l~~c~~fsd~~--------ft~l~rn~~~-Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~-g  389 (483)
T KOG4341|consen  320 HNLQVLELSGCQQFSDRG--------FTMLGRNCPH-LERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDE-G  389 (483)
T ss_pred             CceEEEeccccchhhhhh--------hhhhhcCChh-hhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhh-h
Confidence            356666666666555443        11112 2345 88888888876665322223367888888888888887766 1


Q ss_pred             ccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCcccc
Q 012249          356 VEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRL  419 (467)
Q Consensus       356 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~l  419 (467)
                      +.-.++.          ......|+.+++.+||.+.+-..+.. ..++.||.+++.+|.....-
T Consensus       390 i~~l~~~----------~c~~~~l~~lEL~n~p~i~d~~Le~l-~~c~~Leri~l~~~q~vtk~  442 (483)
T KOG4341|consen  390 IRHLSSS----------SCSLEGLEVLELDNCPLITDATLEHL-SICRNLERIELIDCQDVTKE  442 (483)
T ss_pred             hhhhhhc----------cccccccceeeecCCCCchHHHHHHH-hhCcccceeeeechhhhhhh
Confidence            1100000          11677788888888888776544432 45778888888888777653

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

Probab=98.90  E-value=2.5e-09  Score=91.02  Aligned_cols=127  Identities=26%  Similarity=0.363  Sum_probs=42.3

Q ss_pred             cCCCCcEEEccCCCCCCchhhhh-cCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccc-cCCCCCcEEe
Q 012249           85 HMHGLKVVNLSSTDIEVLPSSVS-DLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLY  162 (467)
Q Consensus        85 ~l~~L~~L~l~~~~~~~l~~~~~-~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~-~~l~~L~~L~  162 (467)
                      +...++.|++.++.+..+. .++ .+.+|+.|++++| .+..++++..+++|++|++++|.++.+...+ ..+++|++|+
T Consensus        17 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~~L~   94 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNN-QITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS---S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             ccccccccccccccccccc-chhhhhcCCCEEECCCC-CCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            4445566666666666553 233 3566666666664 4555556666677777777777777665444 3567777777


Q ss_pred             ccCCCCCCcCC-ccccCCCCCcEEEcccCCCcccccH--HHHHhhhccCcEEEcc
Q 012249          163 LSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALRETV--EEAARLSDRLDYFEGY  214 (467)
Q Consensus       163 l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~--~~l~~l~~~L~~L~l~  214 (467)
                      +++|++.++.. ..+..+++|+.|++.+|........  ..+..+ ++|+.|+-.
T Consensus        95 L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~l-P~Lk~LD~~  148 (175)
T PF14580_consen   95 LSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKL-PSLKVLDGQ  148 (175)
T ss_dssp             -TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH--TT-SEETTE
T ss_pred             CcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHc-ChhheeCCE
Confidence            77777644433 1246677777777777755433322  246666 778877653

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

Probab=98.89  E-value=5.4e-10  Score=104.39  Aligned_cols=86  Identities=26%  Similarity=0.235  Sum_probs=37.5

Q ss_pred             cCCCCccEEEeecCCCcccCC-CccCCCCCCCEEEccCCCCCCCCc-hhHhhcCCCCcEEEccCCCCCCchhh--hhcCc
Q 012249           35 EWEENLERVSLMRNNIEEIPS-NMSPHCEILSTLLLQRNENLQRIP-ECFFVHMHGLKVVNLSSTDIEVLPSS--VSDLT  110 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~-~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~l~~~--~~~l~  110 (467)
                      +.+++|+.+.+.+..+...+. .....|++++.|+++.|-+....+ ..+.+.+++|+.|+++.|.+....++  -..+.
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            344555555555555443221 222345555555555553222111 22334555555555555544421111  12344


Q ss_pred             CCCEEEcCCC
Q 012249          111 NLRSLSLGWC  120 (467)
Q Consensus       111 ~L~~L~l~~~  120 (467)
                      +|+.|.++.|
T Consensus       198 ~lK~L~l~~C  207 (505)
T KOG3207|consen  198 HLKQLVLNSC  207 (505)
T ss_pred             hhheEEeccC
Confidence            5555555554

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

Probab=98.88  E-value=4.3e-10  Score=105.00  Aligned_cols=154  Identities=18%  Similarity=0.139  Sum_probs=109.5

Q ss_pred             CCCCCCEEEccCCCCCCCCch-hHhhcCCCCcEEEccCCCCC---CchhhhhcCcCCCEEEcCCCCCCCcCC--CccccC
Q 012249           60 HCEILSTLLLQRNENLQRIPE-CFFVHMHGLKVVNLSSTDIE---VLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLL  133 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~---~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~  133 (467)
                      ++++|+.+.+..+. +...+. +....|++++.||+++|=+.   .+.+....+++|+.|+++.|.......  .-..+.
T Consensus       119 n~kkL~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  119 NLKKLREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hHHhhhheeecCcc-ccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            68888989888887 555442 45578999999999998555   444556788999999999875443333  244678


Q ss_pred             CccEEEccCCcCc--cccccccCCCCCcEEeccCCC-C--CCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccC
Q 012249          134 ALQYLDLYDTRIE--EVPEGMEMLENLSHLYLSSLQ-L--KKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRL  208 (467)
Q Consensus       134 ~L~~L~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~-~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L  208 (467)
                      +|+.|.+++|+++  .+......+++|+.|++.+|. +  ...+   ..-++.|++|++++|.+.........+.+ +.|
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~---~~i~~~L~~LdLs~N~li~~~~~~~~~~l-~~L  273 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS---TKILQTLQELDLSNNNLIDFDQGYKVGTL-PGL  273 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch---hhhhhHHhhccccCCcccccccccccccc-cch
Confidence            8888999998887  344445677888888888884 2  2222   24466788888888877666666677777 777


Q ss_pred             cEEEcccCCc
Q 012249          209 DYFEGYFSTL  218 (467)
Q Consensus       209 ~~L~l~~~~~  218 (467)
                      +.|.++.+..
T Consensus       274 ~~Lnls~tgi  283 (505)
T KOG3207|consen  274 NQLNLSSTGI  283 (505)
T ss_pred             hhhhccccCc
Confidence            7777766654

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

Probab=98.80  E-value=6.5e-10  Score=98.96  Aligned_cols=127  Identities=24%  Similarity=0.346  Sum_probs=57.5

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLG  118 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~  118 (467)
                      .|+.+++++|.|.++..++. -.|.+|.|+++.|. +..+..  ...+++|..||+++|.+..+..+=.++-+.+.|+++
T Consensus       285 ~LtelDLS~N~I~~iDESvK-L~Pkir~L~lS~N~-i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La  360 (490)
T KOG1259|consen  285 ELTELDLSGNLITQIDESVK-LAPKLRRLILSQNR-IRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLA  360 (490)
T ss_pred             hhhhccccccchhhhhhhhh-hccceeEEeccccc-eeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEeeeehh
Confidence            34444555555444444332 34455555555544 222222  234445555555555444443333344444555555


Q ss_pred             CCCCCCcCCCccccCCccEEEccCCcCcccc--ccccCCCCCcEEeccCCCCCC
Q 012249          119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKK  170 (467)
Q Consensus       119 ~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp--~~~~~l~~L~~L~l~~~~~~~  170 (467)
                      +| .+..+.+++++.+|..||+++|+|..+.  ..|++++.|+++.+.+|.+..
T Consensus       361 ~N-~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~  413 (490)
T KOG1259|consen  361 QN-KIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLAG  413 (490)
T ss_pred             hh-hHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCccc
Confidence            42 3444444455555555555555444332  234445555544444444433

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

Probab=98.79  E-value=1.5e-10  Score=111.33  Aligned_cols=190  Identities=24%  Similarity=0.353  Sum_probs=144.9

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      +...+.+++.++|..+..+..|..+.++.|.+..+|..+. ++..|..++++.|+ +..+|..+ ..+ -|++|-+++|+
T Consensus        79 ~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~-~L~~lt~l~ls~Nq-lS~lp~~l-C~l-pLkvli~sNNk  154 (722)
T KOG0532|consen   79 FADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEAIC-NLEALTFLDLSSNQ-LSHLPDGL-CDL-PLKVLIVSNNK  154 (722)
T ss_pred             hhhccccccccCchHHHHHHHHHHHHHHhccceecchhhh-hhhHHHHhhhccch-hhcCChhh-hcC-cceeEEEecCc
Confidence            3455667788888887777788888888888888887766 78888888998887 77778766 344 48889999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcccc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILP  177 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~  177 (467)
                      +..+|..++....|..|+.+.| .+..+| .++.+.+|+.|++..|++..+|..++. =.|..||++.|++..+|..+ .
T Consensus       155 l~~lp~~ig~~~tl~~ld~s~n-ei~slpsql~~l~slr~l~vrRn~l~~lp~El~~-LpLi~lDfScNkis~iPv~f-r  231 (722)
T KOG0532|consen  155 LTSLPEEIGLLPTLAHLDVSKN-EIQSLPSQLGYLTSLRDLNVRRNHLEDLPEELCS-LPLIRLDFSCNKISYLPVDF-R  231 (722)
T ss_pred             cccCCcccccchhHHHhhhhhh-hhhhchHHhhhHHHHHHHHHhhhhhhhCCHHHhC-CceeeeecccCceeecchhh-h
Confidence            8888888888888888988886 456666 688888899999888888888888874 46778898888888888886 8


Q ss_pred             CCCCCcEEEcccCCCccc-ccHHHHHhhhccCcEEEcccC
Q 012249          178 RLRSLYKLKLSFGNEALR-ETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~-~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      +|+.|++|-+.+|..... ..+..-+.. .-.+.|++.-+
T Consensus       232 ~m~~Lq~l~LenNPLqSPPAqIC~kGkV-HIFKyL~~qA~  270 (722)
T KOG0532|consen  232 KMRHLQVLQLENNPLQSPPAQICEKGKV-HIFKYLSTQAC  270 (722)
T ss_pred             hhhhheeeeeccCCCCCChHHHHhccce-eeeeeecchhc
Confidence            899999999988855433 222233333 44455565544

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

Probab=98.76  E-value=4.8e-10  Score=99.71  Aligned_cols=188  Identities=20%  Similarity=0.204  Sum_probs=120.0

Q ss_pred             CCccEEEccCCcCc--cccccccCCCCCcEEeccCCCCCC-cCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCc
Q 012249          133 LALQYLDLYDTRIE--EVPEGMEMLENLSHLYLSSLQLKK-FPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLD  209 (467)
Q Consensus       133 ~~L~~L~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~-~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~  209 (467)
                      ..|+++|++...++  .+...+..|.+|+.|.+.++++++ +...+ ..-.+|+.|+++.+...+......+-.-|+.|.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~i-AkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~  263 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTI-AKNSNLVRLNLSMCSGFTENALQLLLSSCSRLD  263 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHH-hccccceeeccccccccchhHHHHHHHhhhhHh
Confidence            34888999888776  455567888889999998888743 44444 777889999998887766665554444448888


Q ss_pred             EEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcccceeeeeeccc
Q 012249          210 YFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDE  289 (467)
Q Consensus       210 ~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~  289 (467)
                      .|+++++........+...                           .-...|..|+++++.-... .+.+.+|       
T Consensus       264 ~LNlsWc~l~~~~Vtv~V~---------------------------hise~l~~LNlsG~rrnl~-~sh~~tL-------  308 (419)
T KOG2120|consen  264 ELNLSWCFLFTEKVTVAVA---------------------------HISETLTQLNLSGYRRNLQ-KSHLSTL-------  308 (419)
T ss_pred             hcCchHhhccchhhhHHHh---------------------------hhchhhhhhhhhhhHhhhh-hhHHHHH-------
Confidence            8888888653321110000                           0001344455554431100 0122222       


Q ss_pred             ccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhcccc
Q 012249          290 VTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNT  369 (467)
Q Consensus       290 l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~  369 (467)
                                      ....|+ |.+||+++|..+++ .....+-.++.|+.|.++.|+.+.--....            
T Consensus       309 ----------------~~rcp~-l~~LDLSD~v~l~~-~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~------------  358 (419)
T KOG2120|consen  309 ----------------VRRCPN-LVHLDLSDSVMLKN-DCFQEFFKFNYLQHLSLSRCYDIIPETLLE------------  358 (419)
T ss_pred             ----------------HHhCCc-eeeeccccccccCc-hHHHHHHhcchheeeehhhhcCCChHHeee------------
Confidence                            123466 99999999998887 344566788999999999998775432222            


Q ss_pred             cccccccccccccccccccc
Q 012249          370 IINTVTLPRLKKLRFYDLPE  389 (467)
Q Consensus       370 ~~~~~~~~~L~~L~l~~~~~  389 (467)
                         ....|+|.+|++.+|-.
T Consensus       359 ---l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  359 ---LNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             ---eccCcceEEEEeccccC
Confidence               22678888888888754

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

Probab=98.76  E-value=9.9e-09  Score=101.26  Aligned_cols=177  Identities=31%  Similarity=0.373  Sum_probs=125.7

Q ss_pred             CccCCCCccEEEeecCCCcccCCCccCCCC-CCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcC
Q 012249           33 EQEWEENLERVSLMRNNIEEIPSNMSPHCE-ILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTN  111 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~  111 (467)
                      .+...+.++.+.+.++.+.+++.... ..+ +|+.|++..|. +..+|..+ +.++.|+.|++++|++..+|...+..+.
T Consensus       111 ~~~~~~~l~~L~l~~n~i~~i~~~~~-~~~~nL~~L~l~~N~-i~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~  187 (394)
T COG4886         111 ELLELTNLTSLDLDNNNITDIPPLIG-LLKSNLKELDLSDNK-IESLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSN  187 (394)
T ss_pred             hhhcccceeEEecCCcccccCccccc-cchhhcccccccccc-hhhhhhhh-hccccccccccCCchhhhhhhhhhhhhh
Confidence            33444667888888888887776543 443 78888888887 56664333 6788888888888888888776668888


Q ss_pred             CCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccC
Q 012249          112 LRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       112 L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      |+.|++++| .+..+| .+.....|+++.++++.....+..+.++.++..+.+..+++..++..+ +.+.+++.|+++.|
T Consensus       188 L~~L~ls~N-~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~-~~l~~l~~L~~s~n  265 (394)
T COG4886         188 LNNLDLSGN-KISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESI-GNLSNLETLDLSNN  265 (394)
T ss_pred             hhheeccCC-ccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccchh-ccccccceeccccc
Confidence            888888885 567777 345666688888888766666667777777777777777776655554 77777888888877


Q ss_pred             CCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          191 NEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       191 ~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ......   .++.+ .+++.|+++.+..
T Consensus       266 ~i~~i~---~~~~~-~~l~~L~~s~n~~  289 (394)
T COG4886         266 QISSIS---SLGSL-TNLRELDLSGNSL  289 (394)
T ss_pred             cccccc---ccccc-CccCEEeccCccc
Confidence            544332   26777 7788888776654

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

Probab=98.72  E-value=1.6e-08  Score=99.83  Aligned_cols=172  Identities=27%  Similarity=0.391  Sum_probs=108.2

Q ss_pred             EEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCC-CCcEEEccCCCCCCchhhhhcCcCCCEEEcCCC
Q 012249           42 RVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMH-GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC  120 (467)
Q Consensus        42 ~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~  120 (467)
                      .+....+.+......+. ..+.+..+++.++. +..++... ...+ +|+.|++++|.+..+|..+..+++|+.|+++.|
T Consensus        97 ~l~~~~~~~~~~~~~~~-~~~~l~~L~l~~n~-i~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N  173 (394)
T COG4886          97 SLDLNLNRLRSNISELL-ELTNLTSLDLDNNN-ITDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFN  173 (394)
T ss_pred             eeeccccccccCchhhh-cccceeEEecCCcc-cccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCc
Confidence            35555555422222222 45667777777776 56666543 3443 777777777777777666777777777777775


Q ss_pred             CCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHH
Q 012249          121 RRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVE  199 (467)
Q Consensus       121 ~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  199 (467)
                       .+..+| ..+....|+.|+++++.+..+|..+..+..|+.+.+++|.+...+..+ +++.++..+.+..+.....  ..
T Consensus       174 -~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~-~~~~~l~~l~l~~n~~~~~--~~  249 (394)
T COG4886         174 -DLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSL-SNLKNLSGLELSNNKLEDL--PE  249 (394)
T ss_pred             -hhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCcceecchhh-hhcccccccccCCceeeec--cc
Confidence             466666 344777777777777777777766666666777777777544444443 6666677766665533221  24


Q ss_pred             HHHhhhccCcEEEcccCCccch
Q 012249          200 EAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       200 ~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                      .++.+ ..++.|+++.+.....
T Consensus       250 ~~~~l-~~l~~L~~s~n~i~~i  270 (394)
T COG4886         250 SIGNL-SNLETLDLSNNQISSI  270 (394)
T ss_pred             hhccc-cccceecccccccccc
Confidence            56666 6677777777665443

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

Probab=98.71  E-value=1.7e-09  Score=96.30  Aligned_cols=129  Identities=28%  Similarity=0.273  Sum_probs=81.4

Q ss_pred             CCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCC
Q 012249           87 HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSL  166 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~  166 (467)
                      +.|..+|+++|.++.+..++.-.+.+|.|+++.| .+..+.++..+++|..||+++|.++.+-..-.++-+++.|.+.+|
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N-~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N  362 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQN-RIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQN  362 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEecccc-ceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhh
Confidence            3566677777777766666666777777777764 444444566666777777777666655444445566666666666


Q ss_pred             CCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          167 QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       167 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .+.++..  ++++=+|..|++.+|....-..+..++++ +.|+.+.+.+|.+.
T Consensus       363 ~iE~LSG--L~KLYSLvnLDl~~N~Ie~ldeV~~IG~L-PCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  363 KIETLSG--LRKLYSLVNLDLSSNQIEELDEVNHIGNL-PCLETLRLTGNPLA  412 (490)
T ss_pred             hHhhhhh--hHhhhhheeccccccchhhHHHhcccccc-cHHHHHhhcCCCcc
Confidence            6655443  35666666667766655555555566666 66777666666553

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

Probab=98.62  E-value=1.9e-09  Score=100.21  Aligned_cols=137  Identities=19%  Similarity=0.200  Sum_probs=87.5

Q ss_pred             ccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhccc
Q 012249          278 DVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVE  357 (467)
Q Consensus       278 ~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~  357 (467)
                      .++.|...+|..+++...       |.-...-++ |+.|.+..|...++...-....+.+.|+.+.+..|..+.+..-..
T Consensus       295 ~lq~l~~s~~t~~~d~~l-------~aLg~~~~~-L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~s  366 (483)
T KOG4341|consen  295 ALQVLCYSSCTDITDEVL-------WALGQHCHN-LQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLAS  366 (483)
T ss_pred             HhhhhcccCCCCCchHHH-------HHHhcCCCc-eEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhh
Confidence            455666666655443220       111122344 999999999887776433344677888888888887666541111


Q ss_pred             CchhhhhhccccccccccccccccccccccccccccccCC---CccccCCcceEEEeCCCCccccCCccCcccCCCCCCC
Q 012249          358 DEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYN---GVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPP  434 (467)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~---~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~  434 (467)
                             +       ....|.|+.|.++.|..+++-....   +......|+.+++++||.+++--  +.++     ..+
T Consensus       367 -------l-------s~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~--Le~l-----~~c  425 (483)
T KOG4341|consen  367 -------L-------SRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDAT--LEHL-----SIC  425 (483)
T ss_pred             -------h-------ccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHH--HHHH-----hhC
Confidence                   1       2279999999999999888762211   22457789999999999887631  2222     346


Q ss_pred             Ccceeeeeh
Q 012249          435 AALKVIKIE  443 (467)
Q Consensus       435 ~~L~~l~i~  443 (467)
                      ++|+.|++.
T Consensus       426 ~~Leri~l~  434 (483)
T KOG4341|consen  426 RNLERIELI  434 (483)
T ss_pred             cccceeeee
Confidence            688887655

>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=98.48  E-value=1.1e-07  Score=66.37  Aligned_cols=59  Identities=34%  Similarity=0.499  Sum_probs=39.3

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      +|++|++++|.++.++...+.++++|+.|++++|. +..+++..|.++++|++|++++|.
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 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSS-ESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCc-cCccCHHHHcCCCCCCEEeCcCCc
Confidence            56667777776666666666666777777777665 555665566666667766666664

...

>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=98.35  E-value=4.2e-07  Score=63.36  Aligned_cols=58  Identities=34%  Similarity=0.486  Sum_probs=39.7

Q ss_pred             CccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          134 ALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       134 ~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      +|++|++++|+++.+|. .+.++++|++|++++|.+..++...|.++++|+.|++++|.
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            56667777776666664 35667777777777777777766666777777777777663

...

>PLN03150 hypothetical protein; Provisional

Probab=98.31  E-value=1.9e-06  Score=89.48  Aligned_cols=103  Identities=20%  Similarity=0.191  Sum_probs=51.2

Q ss_pred             CCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCCCCcEEeccCCCCC-CcCCccccCCCCCcEEEcc
Q 012249          112 LRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLS  188 (467)
Q Consensus       112 L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~  188 (467)
                      ++.|++++|...+.+| .++.+++|+.|++++|.+. .+|..++.+++|+.|++++|.+. .+|..+ +++++|+.|+++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l-~~L~~L~~L~Ls  498 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESL-GQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHH-hcCCCCCEEECc
Confidence            4455555544444444 4555555555555555554 45555555555555555555553 333333 555555555555


Q ss_pred             cCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          189 FGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       189 ~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      +|.+.+..+ ..+.....++..+++.+|
T Consensus       499 ~N~l~g~iP-~~l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        499 GNSLSGRVP-AALGGRLLHRASFNFTDN  525 (623)
T ss_pred             CCcccccCC-hHHhhccccCceEEecCC
Confidence            554443333 223322133444454444

>PLN03150 hypothetical protein; Provisional

Probab=98.29  E-value=2.4e-06  Score=88.77  Aligned_cols=104  Identities=24%  Similarity=0.363  Sum_probs=84.4

Q ss_pred             CCcEEEccCCCCC-CchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCCCCcEEecc
Q 012249           88 GLKVVNLSSTDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLS  164 (467)
Q Consensus        88 ~L~~L~l~~~~~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~  164 (467)
                      .++.|+|+++.+. .+|..+..+++|+.|++++|...+.+| .++.+++|+.|++++|.++ .+|..++++++|++|+++
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            3778899999887 778888999999999999987666788 6889999999999999887 678889999999999999


Q ss_pred             CCCCC-CcCCccccCCCCCcEEEcccCC
Q 012249          165 SLQLK-KFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       165 ~~~~~-~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      +|.+. .+|..+.....++..+++.+|.
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCc
Confidence            99874 6776652223566778887774

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

Probab=98.19  E-value=6.9e-08  Score=86.23  Aligned_cols=154  Identities=19%  Similarity=0.171  Sum_probs=103.7

Q ss_pred             CCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-CchhhhhcCcCCCEEEcCCCCCCCcCC---CccccCCccE
Q 012249           62 EILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP---SLARLLALQY  137 (467)
Q Consensus        62 ~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~  137 (467)
                      ..|+.++++...+....-..+.+.|.+|+.|.+.++.+. .+...+.+-.+|+.|+++.|..++...   -+.+++.|..
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            357777777765322222345677888888888888776 555667777888888888887777665   3778888888


Q ss_pred             EEccCCcCc-c-ccccccC-CCCCcEEeccCCC--C--CCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcE
Q 012249          138 LDLYDTRIE-E-VPEGMEM-LENLSHLYLSSLQ--L--KKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDY  210 (467)
Q Consensus       138 L~l~~~~~~-~-lp~~~~~-l~~L~~L~l~~~~--~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~  210 (467)
                      |++++|.+. . +...+.. -++|..|+++|+.  +  ..+..- -.++++|.+|+++.+-.....-+..+-++ +.|++
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL-~~rcp~l~~LDLSD~v~l~~~~~~~~~kf-~~L~~  342 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTL-VRRCPNLVHLDLSDSVMLKNDCFQEFFKF-NYLQH  342 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHH-HHhCCceeeeccccccccCchHHHHHHhc-chhee
Confidence            888888444 1 1111222 2577778888774  2  223222 26788888888888766666556677788 88888


Q ss_pred             EEcccCC
Q 012249          211 FEGYFST  217 (467)
Q Consensus       211 L~l~~~~  217 (467)
                      |+++.|.
T Consensus       343 lSlsRCY  349 (419)
T KOG2120|consen  343 LSLSRCY  349 (419)
T ss_pred             eehhhhc
Confidence            8887664

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

Probab=98.15  E-value=1.8e-07  Score=85.39  Aligned_cols=181  Identities=17%  Similarity=0.118  Sum_probs=98.2

Q ss_pred             CCCCccEEEeecCCCcc--cC--CCccCCCCCCCEEEccCCCCCCCCchhH-------------hhcCCCCcEEEccCCC
Q 012249           36 WEENLERVSLMRNNIEE--IP--SNMSPHCEILSTLLLQRNENLQRIPECF-------------FVHMHGLKVVNLSSTD   98 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~--l~--~~~~~~l~~L~~L~l~~~~~~~~~~~~~-------------~~~l~~L~~L~l~~~~   98 (467)
                      .+++|+.++++.|-+..  ++  ....+.+..|+.|.+.+|.+ +......             ...-+.||++...+|.
T Consensus        90 ~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Gl-g~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr  168 (382)
T KOG1909|consen   90 GCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGL-GPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR  168 (382)
T ss_pred             cCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCC-ChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc
Confidence            44567777777665541  00  11223466666666766653 2211111             1234567777777765


Q ss_pred             CC-----CchhhhhcCcCCCEEEcCCCCCCCcCC-----CccccCCccEEEccCCcCc-----cccccccCCCCCcEEec
Q 012249           99 IE-----VLPSSVSDLTNLRSLSLGWCRRLKRVP-----SLARLLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYL  163 (467)
Q Consensus        99 ~~-----~l~~~~~~l~~L~~L~l~~~~~~~~~p-----~l~~l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l  163 (467)
                      +.     .+...+..++.|+.+.+..|..-..-.     ++..+++|+.||+.+|.++     .+...+..+++|+.+++
T Consensus       169 len~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l  248 (382)
T KOG1909|consen  169 LENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNL  248 (382)
T ss_pred             cccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecc
Confidence            55     233445556677777776653222111     3566777777777777655     22334566677777777


Q ss_pred             cCCCCCCc-----CCccccCCCCCcEEEcccCCCccccc---HHHHHhhhccCcEEEcccCCc
Q 012249          164 SSLQLKKF-----PAGILPRLRSLYKLKLSFGNEALRET---VEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       164 ~~~~~~~~-----~~~~l~~l~~L~~L~l~~~~~~~~~~---~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ++|.++.-     ...+-...++|++|.+.+|.......   ...++.. +.|+.|.++.|.+
T Consensus       249 ~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek-~dL~kLnLngN~l  310 (382)
T KOG1909|consen  249 GDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEK-PDLEKLNLNGNRL  310 (382)
T ss_pred             cccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcc-hhhHHhcCCcccc
Confidence            77765321     11222345677777777775433221   1133444 6777777777765

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

Probab=98.15  E-value=1.1e-06  Score=91.02  Aligned_cols=103  Identities=21%  Similarity=0.281  Sum_probs=50.3

Q ss_pred             CccEEEeecCCCc--ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEE
Q 012249           39 NLERVSLMRNNIE--EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS  116 (467)
Q Consensus        39 ~l~~L~l~~~~~~--~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~  116 (467)
                      +|++|++++...-  ..+..+...+|+|+.|.+.+-.+...--..+..++++|+.||+++++++.+ .+++++++|+.|.
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~  201 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLS  201 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHh
Confidence            4555555553221  222233334566666666554432222222344556666666666665555 4555666666665


Q ss_pred             cCCCCCCCcCC---CccccCCccEEEccCC
Q 012249          117 LGWCRRLKRVP---SLARLLALQYLDLYDT  143 (467)
Q Consensus       117 l~~~~~~~~~p---~l~~l~~L~~L~l~~~  143 (467)
                      +.+- ......   .+.++++|+.||++..
T Consensus       202 mrnL-e~e~~~~l~~LF~L~~L~vLDIS~~  230 (699)
T KOG3665|consen  202 MRNL-EFESYQDLIDLFNLKKLRVLDISRD  230 (699)
T ss_pred             ccCC-CCCchhhHHHHhcccCCCeeecccc
Confidence            5542 222222   3555556666666554

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

Probab=98.06  E-value=7.8e-08  Score=95.58  Aligned_cols=126  Identities=27%  Similarity=0.283  Sum_probs=77.6

Q ss_pred             CCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCC
Q 012249           88 GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSL  166 (467)
Q Consensus        88 ~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~  166 (467)
                      .|.+.+.++|.+..+..++.-+++|+.|+++.|. +.....+..+++|++||++.|.++.+|.- ...+. |+.|.+++|
T Consensus       165 ~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk-~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN  242 (1096)
T KOG1859|consen  165 KLATASFSYNRLVLMDESLQLLPALESLNLSHNK-FTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNN  242 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhh-hhhhHHHHhcccccccccccchhccccccchhhhh-heeeeeccc
Confidence            3555555555555556666667777777777753 33333666677777777777777666643 23333 777777777


Q ss_pred             CCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          167 QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       167 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .++.+-.  +.++++|+.|+++.|-.........+..+ ..|+.|.+.+|.+
T Consensus       243 ~l~tL~g--ie~LksL~~LDlsyNll~~hseL~pLwsL-s~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  243 ALTTLRG--IENLKSLYGLDLSYNLLSEHSELEPLWSL-SSLIVLWLEGNPL  291 (1096)
T ss_pred             HHHhhhh--HHhhhhhhccchhHhhhhcchhhhHHHHH-HHHHHHhhcCCcc
Confidence            6655443  25677777777777655555555556666 6666666666654

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

Probab=98.02  E-value=4.1e-06  Score=86.89  Aligned_cols=104  Identities=20%  Similarity=0.243  Sum_probs=47.6

Q ss_pred             CCCEEEccCCCC-CCCCchhHhhcCCCCcEEEccCCCCC--CchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEE
Q 012249           63 ILSTLLLQRNEN-LQRIPECFFVHMHGLKVVNLSSTDIE--VLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLD  139 (467)
Q Consensus        63 ~L~~L~l~~~~~-~~~~~~~~~~~l~~L~~L~l~~~~~~--~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~  139 (467)
                      +|+.|+++|... ....|..+..-+|.|+.|.+.+-.+.  .+..-..++++|+.||+++ ++++.+.++.++++|+.|.
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~-TnI~nl~GIS~LknLq~L~  201 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISG-TNISNLSGISRLKNLQVLS  201 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCC-CCccCcHHHhccccHHHHh
Confidence            455555555432 22233333334555555555554332  2222234455555555555 3444444555555555555


Q ss_pred             ccCCcCcccc--ccccCCCCCcEEeccCCC
Q 012249          140 LYDTRIEEVP--EGMEMLENLSHLYLSSLQ  167 (467)
Q Consensus       140 l~~~~~~~lp--~~~~~l~~L~~L~l~~~~  167 (467)
                      +.+-.+..-.  ..+.+|++|++||++...
T Consensus       202 mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~  231 (699)
T KOG3665|consen  202 MRNLEFESYQDLIDLFNLKKLRVLDISRDK  231 (699)
T ss_pred             ccCCCCCchhhHHHHhcccCCCeeeccccc
Confidence            5443333211  234455555555555443

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

Probab=98.01  E-value=2.8e-06  Score=77.80  Aligned_cols=87  Identities=20%  Similarity=0.105  Sum_probs=50.5

Q ss_pred             CCCCCCEEEccCCCCCCC---CchhHhhcCCCCcEEEccCCCCC----Cchhh-------hhcCcCCCEEEcCCCCCCCc
Q 012249           60 HCEILSTLLLQRNENLQR---IPECFFVHMHGLKVVNLSSTDIE----VLPSS-------VSDLTNLRSLSLGWCRRLKR  125 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~---~~~~~~~~l~~L~~L~l~~~~~~----~l~~~-------~~~l~~L~~L~l~~~~~~~~  125 (467)
                      .+..+..+++++|.+...   .-...+.+.+.|+..++++--..    .+|..       +..+++|++++++.|-.-..
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~  107 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPK  107 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCcc
Confidence            456777888888864221   11223456677887777764211    34433       33466788888877643333


Q ss_pred             CC-C----ccccCCccEEEccCCcCc
Q 012249          126 VP-S----LARLLALQYLDLYDTRIE  146 (467)
Q Consensus       126 ~p-~----l~~l~~L~~L~l~~~~~~  146 (467)
                      .+ .    +.++..|++|.+.+|++.
T Consensus       108 g~~~l~~ll~s~~~L~eL~L~N~Glg  133 (382)
T KOG1909|consen  108 GIRGLEELLSSCTDLEELYLNNCGLG  133 (382)
T ss_pred             chHHHHHHHHhccCHHHHhhhcCCCC
Confidence            22 1    555666777777777655

>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=97.86  E-value=1.9e-05  Score=50.50  Aligned_cols=41  Identities=29%  Similarity=0.439  Sum_probs=29.0

Q ss_pred             CCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCC
Q 012249          133 LALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus       133 ~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      ++|++|++++|.++.+|..+++|++|+.|++++|++++++.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            35777777777777777667888888888888887766543

...

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

Probab=97.76  E-value=4.5e-06  Score=82.69  Aligned_cols=175  Identities=26%  Similarity=0.329  Sum_probs=116.7

Q ss_pred             cCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcC
Q 012249           32 GEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTN  111 (467)
Q Consensus        32 ~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~  111 (467)
                      .....+++++.+++..|.+..+...+ ..+++|+.|++++|. +..+..  +..++.|+.|++.+|.+..+.. +..++.
T Consensus        89 ~~l~~~~~l~~l~l~~n~i~~i~~~l-~~~~~L~~L~ls~N~-I~~i~~--l~~l~~L~~L~l~~N~i~~~~~-~~~l~~  163 (414)
T KOG0531|consen   89 NHLSKLKSLEALDLYDNKIEKIENLL-SSLVNLQVLDLSFNK-ITKLEG--LSTLTLLKELNLSGNLISDISG-LESLKS  163 (414)
T ss_pred             cccccccceeeeeccccchhhcccch-hhhhcchheeccccc-cccccc--hhhccchhhheeccCcchhccC-Cccchh
Confidence            34566789999999999998776532 368999999999998 555543  3677889999999999887753 556899


Q ss_pred             CCEEEcCCCCCCCcCCC--ccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCC--CCcEEEc
Q 012249          112 LRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLR--SLYKLKL  187 (467)
Q Consensus       112 L~~L~l~~~~~~~~~p~--l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~--~L~~L~l  187 (467)
                      |+.+++++| .+..+..  +..+.+++.+.+.++.+..+. .+..+..+..+++..+.+..+..  +..+.  +|+.+++
T Consensus       164 L~~l~l~~n-~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~-~~~~~~~l~~~~l~~n~i~~~~~--l~~~~~~~L~~l~l  239 (414)
T KOG0531|consen  164 LKLLDLSYN-RIVDIENDELSELISLEELDLGGNSIREIE-GLDLLKKLVLLSLLDNKISKLEG--LNELVMLHLRELYL  239 (414)
T ss_pred             hhcccCCcc-hhhhhhhhhhhhccchHHHhccCCchhccc-chHHHHHHHHhhcccccceeccC--cccchhHHHHHHhc
Confidence            999999996 4555554  588888999999888776542 33344444444666665543332  12222  2677777


Q ss_pred             ccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          188 SFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       188 ~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ..+......  ..+..+ .++..+++..+..
T Consensus       240 ~~n~i~~~~--~~~~~~-~~l~~l~~~~n~~  267 (414)
T KOG0531|consen  240 SGNRISRSP--EGLENL-KNLPVLDLSSNRI  267 (414)
T ss_pred             ccCcccccc--cccccc-ccccccchhhccc
Confidence            766443321  234445 5566666655443

>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=97.70  E-value=5.6e-05  Score=48.32  Aligned_cols=33  Identities=36%  Similarity=0.539  Sum_probs=18.7

Q ss_pred             CCcEEEccCCCCCCchhhhhcCcCCCEEEcCCC
Q 012249           88 GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWC  120 (467)
Q Consensus        88 ~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~  120 (467)
                      +|++|++++|++..+|..++++++|++|++++|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N   34 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNN   34 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCC
Confidence            456666666666666555566666666666654

...

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

Probab=97.68  E-value=9.1e-07  Score=88.22  Aligned_cols=156  Identities=24%  Similarity=0.239  Sum_probs=110.4

Q ss_pred             CcCccCCCCccEEEeecCCCcccCCC----------ccC---------------------CCCCCCEEEccCCCCCCCCc
Q 012249           31 PGEQEWEENLERVSLMRNNIEEIPSN----------MSP---------------------HCEILSTLLLQRNENLQRIP   79 (467)
Q Consensus        31 ~~~~~~l~~l~~L~l~~~~~~~l~~~----------~~~---------------------~l~~L~~L~l~~~~~~~~~~   79 (467)
                      |-.+..++.||+|.+.++++.....-          |..                     .--.|.+.+++.|. ...+.
T Consensus       102 pi~ifpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~-L~~mD  180 (1096)
T KOG1859|consen  102 PISIFPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNR-LVLMD  180 (1096)
T ss_pred             CceeccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhh-HHhHH
Confidence            44566778999999998876531110          000                     01123334444443 22222


Q ss_pred             hhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCC
Q 012249           80 ECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLEN  157 (467)
Q Consensus        80 ~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~  157 (467)
                      .+ ..-++.|+.|+|++|++.... .+..+++|++||+++| .+..+|  +...+. |..|++++|-++++ .++.++.+
T Consensus       181 ~S-Lqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc~-L~~L~lrnN~l~tL-~gie~Lks  255 (1096)
T KOG1859|consen  181 ES-LQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYN-CLRHVPQLSMVGCK-LQLLNLRNNALTTL-RGIENLKS  255 (1096)
T ss_pred             HH-HHHHHHhhhhccchhhhhhhH-HHHhcccccccccccc-hhccccccchhhhh-heeeeecccHHHhh-hhHHhhhh
Confidence            23 356789999999999998776 6889999999999995 688888  455555 99999999988887 47899999


Q ss_pred             CcEEeccCCCCCCcCC-ccccCCCCCcEEEcccCCC
Q 012249          158 LSHLYLSSLQLKKFPA-GILPRLRSLYKLKLSFGNE  192 (467)
Q Consensus       158 L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~  192 (467)
                      |+.||+++|-+.+... ..++.+..|.+|.+.+|..
T Consensus       256 L~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  256 LYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             hhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            9999999998744333 2257788999999999854

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.65  E-value=0.0002  Score=68.92  Aligned_cols=71  Identities=24%  Similarity=0.369  Sum_probs=49.2

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC-CCCCchhhhhcCcCCCE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~-~~~~l~~~~~~l~~L~~  114 (467)
                      .++++++|+++++.+..+|.    -.++|+.|.+.+|.....+|..+   .++|++|++++| .+..+|..      |+.
T Consensus        50 ~~~~l~~L~Is~c~L~sLP~----LP~sLtsL~Lsnc~nLtsLP~~L---P~nLe~L~Ls~Cs~L~sLP~s------Le~  116 (426)
T PRK15386         50 EARASGRLYIKDCDIESLPV----LPNELTEITIENCNNLTTLPGSI---PEGLEKLTVCHCPEISGLPES------VRS  116 (426)
T ss_pred             HhcCCCEEEeCCCCCcccCC----CCCCCcEEEccCCCCcccCCchh---hhhhhheEccCcccccccccc------cce
Confidence            35688888888888887772    23468888888876666666533   257888888887 66666643      555


Q ss_pred             EEcCC
Q 012249          115 LSLGW  119 (467)
Q Consensus       115 L~l~~  119 (467)
                      |++..
T Consensus       117 L~L~~  121 (426)
T PRK15386        117 LEIKG  121 (426)
T ss_pred             EEeCC
Confidence            65554

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

Probab=97.60  E-value=1.4e-05  Score=79.18  Aligned_cols=134  Identities=26%  Similarity=0.345  Sum_probs=92.0

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLD  139 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~  139 (467)
                      .+..++.+.+..+. +...-.. +..+++|..|++.+|.+..+...+..+++|++|++++| .++.+.++..+..|+.|+
T Consensus        70 ~l~~l~~l~l~~n~-i~~~~~~-l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N-~I~~i~~l~~l~~L~~L~  146 (414)
T KOG0531|consen   70 SLTSLKELNLRQNL-IAKILNH-LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFN-KITKLEGLSTLTLLKELN  146 (414)
T ss_pred             HhHhHHhhccchhh-hhhhhcc-cccccceeeeeccccchhhcccchhhhhcchheecccc-ccccccchhhccchhhhe
Confidence            34556666666665 3332222 36778888888888888877655677888888888885 677777777777788888


Q ss_pred             ccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccccc
Q 012249          140 LYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRET  197 (467)
Q Consensus       140 l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  197 (467)
                      +.+|.+..+. .+..+..|+.+++++|.+..+.......+.+++.+.+.+|.......
T Consensus       147 l~~N~i~~~~-~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~~  203 (414)
T KOG0531|consen  147 LSGNLISDIS-GLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREIEG  203 (414)
T ss_pred             eccCcchhcc-CCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhcccc
Confidence            8888777663 55567888888888888766665102567777777777775544433

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.43  E-value=4.2e-05  Score=68.81  Aligned_cols=62  Identities=18%  Similarity=0.098  Sum_probs=41.4

Q ss_pred             CCCcEEeccCCCCCCcCCc-cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          156 ENLSHLYLSSLQLKKFPAG-ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +++..+.+..|.+++...+ -+...+.+..|+++.+....-..+.++.++ +.|..|++..+.+
T Consensus       199 pnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f-~~l~dlRv~~~Pl  261 (418)
T KOG2982|consen  199 PNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGF-PQLVDLRVSENPL  261 (418)
T ss_pred             ccchheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCC-chhheeeccCCcc
Confidence            4555555666665433221 124566677788887777677777888888 9999888877665

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

Probab=97.43  E-value=0.0005  Score=58.64  Aligned_cols=100  Identities=22%  Similarity=0.349  Sum_probs=53.4

Q ss_pred             CCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhc-CcCCCEEEcCCCCCCCcCC---CccccCCccE
Q 012249           62 EILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRRLKRVP---SLARLLALQY  137 (467)
Q Consensus        62 ~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~-l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~  137 (467)
                      ...-.++++.|. +..++.  |..++.|.+|.+.+|.+..+...+.. +++|..|.+.+| .+..+.   .+..++.|++
T Consensus        42 d~~d~iDLtdNd-l~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   42 DQFDAIDLTDND-LRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNN-SIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             cccceecccccc-hhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCc-chhhhhhcchhccCCccce
Confidence            344455666655 333332  34556666666666666655444433 455666666664 233332   4555666666


Q ss_pred             EEccCCcCccccc----cccCCCCCcEEeccC
Q 012249          138 LDLYDTRIEEVPE----GMEMLENLSHLYLSS  165 (467)
Q Consensus       138 L~l~~~~~~~lp~----~~~~l~~L~~L~l~~  165 (467)
                      |.+-+|.++.-..    .+..+++|+.||+..
T Consensus       118 Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  118 LTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eeecCCchhcccCceeEEEEecCcceEeehhh
Confidence            6666665554332    255666666666554

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.42  E-value=6.5e-05  Score=67.64  Aligned_cols=66  Identities=20%  Similarity=0.138  Sum_probs=30.0

Q ss_pred             ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          152 MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       152 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +.+|+.|+.|+++.|.+.......-....+|++|-+.+........-..+..+ +.++.|.++.|++
T Consensus        93 le~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~l-P~vtelHmS~N~~  158 (418)
T KOG2982|consen   93 LEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDL-PKVTELHMSDNSL  158 (418)
T ss_pred             HhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcc-hhhhhhhhccchh
Confidence            34455555555554443211110001334555555555544433333345555 5566666665544

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

Probab=97.35  E-value=2.6e-05  Score=62.03  Aligned_cols=88  Identities=20%  Similarity=0.245  Sum_probs=41.9

Q ss_pred             cCCCCcEEEccCCCCCCchhhhh-cCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEe
Q 012249           85 HMHGLKVVNLSSTDIEVLPSSVS-DLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLY  162 (467)
Q Consensus        85 ~l~~L~~L~l~~~~~~~l~~~~~-~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~  162 (467)
                      ...+|...++++|.+..+|..+. .++.+..++++.| .+.++| .+..++.|+.|+++.|.+...|+.+..+.++..|+
T Consensus        51 ~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   51 KGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             CCceEEEEecccchhhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            33344444555555554444432 2334444444442 344444 34444444444444455555555555555555555


Q ss_pred             ccCCCCCCcCC
Q 012249          163 LSSLQLKKFPA  173 (467)
Q Consensus       163 l~~~~~~~~~~  173 (467)
                      ..++....+|.
T Consensus       130 s~~na~~eid~  140 (177)
T KOG4579|consen  130 SPENARAEIDV  140 (177)
T ss_pred             CCCCccccCcH
Confidence            55555444443

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

Probab=97.29  E-value=0.00047  Score=58.77  Aligned_cols=103  Identities=23%  Similarity=0.254  Sum_probs=57.6

Q ss_pred             CCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCcc-ccCCccEEEccCCcCccccc--cccCCCCCcEEec
Q 012249           87 HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA-RLLALQYLDLYDTRIEEVPE--GMEMLENLSHLYL  163 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~-~l~~L~~L~l~~~~~~~lp~--~~~~l~~L~~L~l  163 (467)
                      .....+|+++|.+..++ .+..+++|.+|.+.+|......|.+. .+++|..|.+.+|++..+-+  .+..+++|++|.+
T Consensus        42 d~~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   42 DQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             cccceecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            34556666666665543 24556666666666654333334444 33456666666666664432  3556666666666


Q ss_pred             cCCCCCCcC---CccccCCCCCcEEEcccC
Q 012249          164 SSLQLKKFP---AGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       164 ~~~~~~~~~---~~~l~~l~~L~~L~l~~~  190 (467)
                      -+|.+..-.   ..++..+++|++|++...
T Consensus       121 l~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  121 LGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             cCCchhcccCceeEEEEecCcceEeehhhh
Confidence            666553322   233456666666666643

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

Probab=97.25  E-value=9.3e-05  Score=75.02  Aligned_cols=111  Identities=21%  Similarity=0.142  Sum_probs=66.7

Q ss_pred             cCcCCCEEEcCCCCCCCcCC---CccccCCccEEEccCC--cCcccc----ccccCCCCCcEEeccCCC-CCCcCC-ccc
Q 012249          108 DLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLYDT--RIEEVP----EGMEMLENLSHLYLSSLQ-LKKFPA-GIL  176 (467)
Q Consensus       108 ~l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~L~l~~~--~~~~lp----~~~~~l~~L~~L~l~~~~-~~~~~~-~~l  176 (467)
                      .+++|+.+.+.+|..+....   ....+++|+.|+++++  .....+    .....+++|+.++++++. +++..- .+.
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            36777777777776666532   4566777777777763  222111    123455777777777776 433322 222


Q ss_pred             cCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          177 PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       177 ~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ..+++|+.|.+..+...+...+..++.-|+.|+.|+++.+..
T Consensus       266 ~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~  307 (482)
T KOG1947|consen  266 SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHG  307 (482)
T ss_pred             hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCcc
Confidence            347778888766665445555556666557788888876654

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.21  E-value=0.0012  Score=63.70  Aligned_cols=73  Identities=15%  Similarity=0.390  Sum_probs=48.3

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC-CCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYL  138 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~-~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L  138 (467)
                      .+.+++.|++++|. +..+|.    -..+|+.|.+++| .+..+|..+  ..+|++|++++|..+..+|     ..|+.|
T Consensus        50 ~~~~l~~L~Is~c~-L~sLP~----LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP-----~sLe~L  117 (426)
T PRK15386         50 EARASGRLYIKDCD-IESLPV----LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP-----ESVRSL  117 (426)
T ss_pred             HhcCCCEEEeCCCC-CcccCC----CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc-----cccceE
Confidence            46788888888885 666662    2235888888875 445666544  3578888888886666666     235666


Q ss_pred             EccCCc
Q 012249          139 DLYDTR  144 (467)
Q Consensus       139 ~l~~~~  144 (467)
                      ++.++.
T Consensus       118 ~L~~n~  123 (426)
T PRK15386        118 EIKGSA  123 (426)
T ss_pred             EeCCCC
Confidence            665543

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

Probab=97.19  E-value=0.0013  Score=53.48  Aligned_cols=58  Identities=22%  Similarity=0.353  Sum_probs=20.1

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEcc
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS   95 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~   95 (467)
                      ..+++++.+.+.. .+..++...|.++.+++.+.+..+  +..++...|..++.++.+.+.
T Consensus         9 ~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~   66 (129)
T PF13306_consen    9 YNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFP   66 (129)
T ss_dssp             TT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEET
T ss_pred             hCCCCCCEEEECC-CeeEeChhhccccccccccccccc--ccccceeeeeccccccccccc
Confidence            3344444444432 334444444444444444444432  333344344444444444443

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

Probab=97.06  E-value=0.00035  Score=70.83  Aligned_cols=134  Identities=24%  Similarity=0.201  Sum_probs=86.8

Q ss_pred             hHhhcCCCCcEEEccCC-CCCC--chhhhhcCcCCCEEEcCCC-CCCCcCC-----CccccCCccEEEccCCc-Ccccc-
Q 012249           81 CFFVHMHGLKVVNLSST-DIEV--LPSSVSDLTNLRSLSLGWC-RRLKRVP-----SLARLLALQYLDLYDTR-IEEVP-  149 (467)
Q Consensus        81 ~~~~~l~~L~~L~l~~~-~~~~--l~~~~~~l~~L~~L~l~~~-~~~~~~p-----~l~~l~~L~~L~l~~~~-~~~lp-  149 (467)
                      .+...++.|+.|.+.++ .+..  +-.....+++|+.|++++| ......+     ....+++|+.|+++++. ++..- 
T Consensus       182 ~l~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l  261 (482)
T KOG1947|consen  182 RLLSSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGL  261 (482)
T ss_pred             HHHhhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhH
Confidence            33455788888888887 3443  4455678899999999873 3333322     24456888999999885 65321 


Q ss_pred             ccc-cCCCCCcEEeccCCC-CCCcCC-ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcc
Q 012249          150 EGM-EMLENLSHLYLSSLQ-LKKFPA-GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGY  214 (467)
Q Consensus       150 ~~~-~~l~~L~~L~l~~~~-~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~  214 (467)
                      ..+ ..+++|++|.+..|. +++..- .+..++++|++|+++++.......+..+...|++++.+.+.
T Consensus       262 ~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~  329 (482)
T KOG1947|consen  262 SALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLL  329 (482)
T ss_pred             HHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhh
Confidence            222 348899999977776 432221 22467888999999988776555445555446777776553

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

Probab=96.86  E-value=0.00027  Score=56.39  Aligned_cols=88  Identities=25%  Similarity=0.413  Sum_probs=53.7

Q ss_pred             CCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEE
Q 012249           61 CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLD  139 (467)
Q Consensus        61 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~  139 (467)
                      -..|...++++|. .+.+|..+...++.+..|++.+|.+..+|..+..++.|+.|+++.| .+...| .+..+.+|-.|+
T Consensus        52 ~~el~~i~ls~N~-fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N-~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   52 GYELTKISLSDNG-FKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFN-PLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             CceEEEEecccch-hhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccC-ccccchHHHHHHHhHHHhc
Confidence            3445556666665 5556655545566666677777776666666666777777777664 344444 455566666666


Q ss_pred             ccCCcCccccc
Q 012249          140 LYDTRIEEVPE  150 (467)
Q Consensus       140 l~~~~~~~lp~  150 (467)
                      ..++....+|-
T Consensus       130 s~~na~~eid~  140 (177)
T KOG4579|consen  130 SPENARAEIDV  140 (177)
T ss_pred             CCCCccccCcH
Confidence            66665444443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.83  E-value=6.1e-05  Score=67.15  Aligned_cols=79  Identities=18%  Similarity=0.127  Sum_probs=41.1

Q ss_pred             CccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEc
Q 012249          134 ALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEG  213 (467)
Q Consensus       134 ~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l  213 (467)
                      +.+.|+++||+++.+ ..+.+|+.|++|.++.|.++.+..  +.+|++|++|++..|.+.....+.-+.++ ++|+.|-+
T Consensus        20 ~vkKLNcwg~~L~DI-sic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknl-psLr~LWL   95 (388)
T KOG2123|consen   20 NVKKLNCWGCGLDDI-SICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNL-PSLRTLWL   95 (388)
T ss_pred             HhhhhcccCCCccHH-HHHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcC-chhhhHhh
Confidence            334455555555544 234455666666666666555554  34566666666665544444334444445 55555544


Q ss_pred             ccC
Q 012249          214 YFS  216 (467)
Q Consensus       214 ~~~  216 (467)
                      ..|
T Consensus        96 ~EN   98 (388)
T KOG2123|consen   96 DEN   98 (388)
T ss_pred             ccC
Confidence            433

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

Probab=96.76  E-value=0.0038  Score=50.65  Aligned_cols=123  Identities=20%  Similarity=0.336  Sum_probs=69.6

Q ss_pred             cCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEcCCCCCCCcCC--Cc
Q 012249           53 IPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP--SL  129 (467)
Q Consensus        53 l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p--~l  129 (467)
                      ++...|.++.+|+.+.+...  +..++...|..+..|+.+.+..+ +..++ ..+..+..++.+.+..  .+..++  .+
T Consensus         3 i~~~~F~~~~~l~~i~~~~~--~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~--~~~~i~~~~F   77 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPNT--IKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN--NLKSIGDNAF   77 (129)
T ss_dssp             E-TTTTTT-TT--EEEETST----EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS--TT-EE-TTTT
T ss_pred             ECHHHHhCCCCCCEEEECCC--eeEeChhhccccccccccccccc-ccccceeeeecccccccccccc--cccccccccc
Confidence            45667778899999998753  66788888899999999999885 66665 4556777899999975  445455  57


Q ss_pred             cccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCc
Q 012249          130 ARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLY  183 (467)
Q Consensus       130 ~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~  183 (467)
                      ..+.+|+.+++..+ +..++.. +.++ +|+.+.+.. .+..++...|.++++|+
T Consensus        78 ~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~-~~~~i~~~~F~~~~~l~  129 (129)
T PF13306_consen   78 SNCTNLKNIDIPSN-ITEIGSSSFSNC-NLKEINIPS-NITKIEENAFKNCTKLK  129 (129)
T ss_dssp             TT-TTECEEEETTT--BEEHTTTTTT--T--EEE-TT-B-SS----GGG------
T ss_pred             cccccccccccCcc-ccEEchhhhcCC-CceEEEECC-CccEECCccccccccCC
Confidence            77999999999764 6666554 6676 899888775 56677777777777663

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.67  E-value=0.00011  Score=65.59  Aligned_cols=98  Identities=23%  Similarity=0.282  Sum_probs=70.4

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch--hhhhcCcCCCE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP--SSVSDLTNLRS  114 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~--~~~~~l~~L~~  114 (467)
                      +.+++.|+..++.++++.  +...++.|++|.++-|. +..+.+  +.+|+.|+.|+|..|.|..+.  ..+.++++||.
T Consensus        18 l~~vkKLNcwg~~L~DIs--ic~kMp~lEVLsLSvNk-IssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~   92 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDIS--ICEKMPLLEVLSLSVNK-ISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRT   92 (388)
T ss_pred             HHHhhhhcccCCCccHHH--HHHhcccceeEEeeccc-cccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhh
Confidence            346777888888887653  34478888888888887 555544  578888888888888888663  45678888888


Q ss_pred             EEcCCCCCCCcCC------CccccCCccEEE
Q 012249          115 LSLGWCRRLKRVP------SLARLLALQYLD  139 (467)
Q Consensus       115 L~l~~~~~~~~~p------~l~~l~~L~~L~  139 (467)
                      |.+..|+..+..+      .+.-+++|+.||
T Consensus        93 LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   93 LWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            8888877666655      145556666554

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

Probab=96.29  E-value=0.0059  Score=54.68  Aligned_cols=87  Identities=18%  Similarity=0.138  Sum_probs=52.6

Q ss_pred             CCCCCCEEEccCCCCCCCCch---hHhhcCCCCcEEEccCCCCC----Cc-------hhhhhcCcCCCEEEcCCCCCCCc
Q 012249           60 HCEILSTLLLQRNENLQRIPE---CFFVHMHGLKVVNLSSTDIE----VL-------PSSVSDLTNLRSLSLGWCRRLKR  125 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~---~~~~~l~~L~~L~l~~~~~~----~l-------~~~~~~l~~L~~L~l~~~~~~~~  125 (467)
                      .+..+..+++++|.+...-..   ..+.+-.+|++.+++.-...    .+       .+.+-+|++|+..+++.|..-..
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            356777888888874332221   12245567777777764221    22       33445678888888888765555


Q ss_pred             CC-C----ccccCCccEEEccCCcCc
Q 012249          126 VP-S----LARLLALQYLDLYDTRIE  146 (467)
Q Consensus       126 ~p-~----l~~l~~L~~L~l~~~~~~  146 (467)
                      .| .    +.+-..|.+|.+.+|++.
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnGlG  133 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNGLG  133 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCCCC
Confidence            44 1    555666777777777655

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

Probab=96.27  E-value=0.0015  Score=58.06  Aligned_cols=12  Identities=33%  Similarity=0.371  Sum_probs=5.4

Q ss_pred             CcCCCEEEcCCC
Q 012249          109 LTNLRSLSLGWC  120 (467)
Q Consensus       109 l~~L~~L~l~~~  120 (467)
                      +++|++|.++.|
T Consensus        64 Lp~LkkL~lsdn   75 (260)
T KOG2739|consen   64 LPKLKKLELSDN   75 (260)
T ss_pred             cchhhhhcccCC
Confidence            344444444443

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

Probab=95.89  E-value=0.023  Score=51.06  Aligned_cols=170  Identities=16%  Similarity=0.127  Sum_probs=104.0

Q ss_pred             cCCCCccEEEeecCCCcc-----cCCCccCCCCCCCEEEccCCCCCC----CCchh------HhhcCCCCcEEEccCCCC
Q 012249           35 EWEENLERVSLMRNNIEE-----IPSNMSPHCEILSTLLLQRNENLQ----RIPEC------FFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~-----l~~~~~~~l~~L~~L~l~~~~~~~----~~~~~------~~~~l~~L~~L~l~~~~~   99 (467)
                      .-+..+..+++++|.+.+     +...+ .+-.+|+..+++..- .+    .++..      ..-+|++|+..+++.|.+
T Consensus        27 ~~~d~~~evdLSGNtigtEA~e~l~~~i-a~~~~L~vvnfsd~f-tgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAf  104 (388)
T COG5238          27 EMMDELVEVDLSGNTIGTEAMEELCNVI-ANVRNLRVVNFSDAF-TGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAF  104 (388)
T ss_pred             HhhcceeEEeccCCcccHHHHHHHHHHH-hhhcceeEeehhhhh-hcccHHHHHHHHHHHHHHHhcCCcceeeecccccc
Confidence            346788999999998862     22222 255778888877652 22    23322      235899999999999977


Q ss_pred             C-C----chhhhhcCcCCCEEEcCCCCCCCcCC--Ccc-ccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCc
Q 012249          100 E-V----LPSSVSDLTNLRSLSLGWCRRLKRVP--SLA-RLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKF  171 (467)
Q Consensus       100 ~-~----l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~-~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~  171 (467)
                      . .    +-+.+++-+.|.+|.+.+| .++.+.  .++ .+.+|-+.           ....+-+.|+...+..|++...
T Consensus       105 g~~~~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~n-----------KKaa~kp~Le~vicgrNRleng  172 (388)
T COG5238         105 GSEFPEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYN-----------KKAADKPKLEVVICGRNRLENG  172 (388)
T ss_pred             CcccchHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHH-----------hhhccCCCceEEEeccchhccC
Confidence            6 2    3345678899999999986 455554  233 12222111           1233445677777777776555


Q ss_pred             CCcc----ccCCCCCcEEEcccCCCcccc----cHHHHHhhhccCcEEEcccCCcc
Q 012249          172 PAGI----LPRLRSLYKLKLSFGNEALRE----TVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       172 ~~~~----l~~l~~L~~L~l~~~~~~~~~----~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      +...    +..-.+|+++.+..|.....-    ....+... ++|++|++..|.+.
T Consensus       173 s~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~-~~LevLDlqDNtft  227 (388)
T COG5238         173 SKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYS-HSLEVLDLQDNTFT  227 (388)
T ss_pred             cHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHh-Ccceeeeccccchh
Confidence            4432    233367888888877543221    11133344 88899998877653

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

Probab=95.13  E-value=0.014  Score=52.09  Aligned_cols=79  Identities=28%  Similarity=0.296  Sum_probs=38.2

Q ss_pred             CcCCCEEEcCCCCCCCcCCCccccCCccEEEccCC--cCc-cccccccCCCCCcEEeccCCCCCC---cCCccccCCCCC
Q 012249          109 LTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDT--RIE-EVPEGMEMLENLSHLYLSSLQLKK---FPAGILPRLRSL  182 (467)
Q Consensus       109 l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~--~~~-~lp~~~~~l~~L~~L~l~~~~~~~---~~~~~l~~l~~L  182 (467)
                      +..|+.+++.++ .++.+..+-.+++|+.|.++.|  ++. .++--..++++|+++++++|+++.   +..  +..+.+|
T Consensus        42 ~~~le~ls~~n~-gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~p--l~~l~nL  118 (260)
T KOG2739|consen   42 FVELELLSVINV-GLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRP--LKELENL  118 (260)
T ss_pred             ccchhhhhhhcc-ceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccch--hhhhcch
Confidence            444555554442 3333334445556666666666  333 222223344666666666665532   221  2445555


Q ss_pred             cEEEcccC
Q 012249          183 YKLKLSFG  190 (467)
Q Consensus       183 ~~L~l~~~  190 (467)
                      ..|++.+|
T Consensus       119 ~~Ldl~n~  126 (260)
T KOG2739|consen  119 KSLDLFNC  126 (260)
T ss_pred             hhhhcccC
Confidence            55555555

>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=95.11  E-value=0.012  Score=31.19  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=12.5

Q ss_pred             CccEEEccCCcCccccccccC
Q 012249          134 ALQYLDLYDTRIEEVPEGMEM  154 (467)
Q Consensus       134 ~L~~L~l~~~~~~~lp~~~~~  154 (467)
                      +|++|++++|.++.+|..+++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666655443

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

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.85  E-value=0.0032  Score=53.84  Aligned_cols=75  Identities=17%  Similarity=0.282  Sum_probs=39.4

Q ss_pred             ccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceE
Q 012249          329 SLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEI  408 (467)
Q Consensus       329 ~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L  408 (467)
                      .+..+..++.++.|.+.+|..+.+.--..            +  ....|+|+.|+|++|+.+++-.... ...+++|+.|
T Consensus       117 Gle~L~~l~~i~~l~l~~ck~~dD~~L~~------------l--~~~~~~L~~L~lsgC~rIT~~GL~~-L~~lknLr~L  181 (221)
T KOG3864|consen  117 GLEHLRDLRSIKSLSLANCKYFDDWCLER------------L--GGLAPSLQDLDLSGCPRITDGGLAC-LLKLKNLRRL  181 (221)
T ss_pred             HHHHHhccchhhhheeccccchhhHHHHH------------h--cccccchheeeccCCCeechhHHHH-HHHhhhhHHH
Confidence            34445555666666666666666551111            0  1145666666666666666543321 1346666666


Q ss_pred             EEeCCCCccc
Q 012249          409 EVRRCPKLKR  418 (467)
Q Consensus       409 ~i~~C~~L~~  418 (467)
                      .+.+.|....
T Consensus       182 ~l~~l~~v~~  191 (221)
T KOG3864|consen  182 HLYDLPYVAN  191 (221)
T ss_pred             HhcCchhhhc
Confidence            6665554443

>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=93.84  E-value=0.02  Score=30.33  Aligned_cols=18  Identities=33%  Similarity=0.630  Sum_probs=9.5

Q ss_pred             CcEEEccCCCCCCchhhh
Q 012249           89 LKVVNLSSTDIEVLPSSV  106 (467)
Q Consensus        89 L~~L~l~~~~~~~l~~~~  106 (467)
                      |++|++++|.+..+|..+
T Consensus         2 L~~Ldls~n~l~~ip~~~   19 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSF   19 (22)
T ss_dssp             ESEEEETSSEESEEGTTT
T ss_pred             ccEEECCCCcCEeCChhh
Confidence            455555555555555443

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=93.60  E-value=0.049  Score=26.70  Aligned_cols=17  Identities=18%  Similarity=0.362  Sum_probs=10.1

Q ss_pred             CCcceEEEeCCCCccccC
Q 012249          403 NSLQEIEVRRCPKLKRLS  420 (467)
Q Consensus       403 ~~L~~L~i~~C~~L~~lp  420 (467)
                      ++|++|++++|. ++++|
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            468888888886 77765

...

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.29  E-value=0.024  Score=48.63  Aligned_cols=39  Identities=26%  Similarity=0.474  Sum_probs=16.6

Q ss_pred             ccEEEEecCCCCccccccchH-HhhhccceeeeCCccchhh
Q 012249          313 LKVLRFDSCKNLKNLFSLRLL-PALQNLKVLAVISCNSIEE  352 (467)
Q Consensus       313 L~~L~l~~c~~l~~l~~~~~~-~~l~~L~~L~l~~c~~l~~  352 (467)
                      ++.|.+.+|..+.++ .++-+ +-.++|+.|+|++|+.|++
T Consensus       127 i~~l~l~~ck~~dD~-~L~~l~~~~~~L~~L~lsgC~rIT~  166 (221)
T KOG3864|consen  127 IKSLSLANCKYFDDW-CLERLGGLAPSLQDLDLSGCPRITD  166 (221)
T ss_pred             hhhheeccccchhhH-HHHHhcccccchheeeccCCCeech
Confidence            444444555444443 11111 2234455555555554444

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

Probab=88.78  E-value=0.21  Score=27.54  Aligned_cols=18  Identities=22%  Similarity=0.720  Sum_probs=14.7

Q ss_pred             cCCcceEEEeCCCCcccc
Q 012249          402 CNSLQEIEVRRCPKLKRL  419 (467)
Q Consensus       402 ~~~L~~L~i~~C~~L~~l  419 (467)
                      +++|++|.|++|+++++-
T Consensus         1 c~~L~~L~l~~C~~itD~   18 (26)
T smart00367        1 CPNLRELDLSGCTNITDE   18 (26)
T ss_pred             CCCCCEeCCCCCCCcCHH
Confidence            578899999999888764

>smart00370 LRR Leucine-rich repeats, outliers

Probab=87.34  E-value=0.5  Score=25.90  Aligned_cols=20  Identities=45%  Similarity=0.590  Sum_probs=11.7

Q ss_pred             CCCcEEeccCCCCCCcCCcc
Q 012249          156 ENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~  175 (467)
                      ++|+.|++++|.+..+|..+
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45566666666666665544

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

Probab=87.34  E-value=0.5  Score=25.90  Aligned_cols=20  Identities=45%  Similarity=0.590  Sum_probs=11.7

Q ss_pred             CCCcEEeccCCCCCCcCCcc
Q 012249          156 ENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~~~  175 (467)
                      ++|+.|++++|.+..+|..+
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45566666666666665544

>smart00370 LRR Leucine-rich repeats, outliers

Probab=86.59  E-value=0.73  Score=25.24  Aligned_cols=20  Identities=25%  Similarity=0.519  Sum_probs=12.3

Q ss_pred             CCCcEEEccCCCCCCchhhh
Q 012249           87 HGLKVVNLSSTDIEVLPSSV  106 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~~~  106 (467)
                      ++|++|++.+|++..+|...
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45666666666666665443

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

Probab=86.59  E-value=0.73  Score=25.24  Aligned_cols=20  Identities=25%  Similarity=0.519  Sum_probs=12.3

Q ss_pred             CCCcEEEccCCCCCCchhhh
Q 012249           87 HGLKVVNLSSTDIEVLPSSV  106 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~~~  106 (467)
                      ++|++|++.+|++..+|...
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHH
Confidence            45666666666666665443

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

Probab=81.94  E-value=0.035  Score=48.75  Aligned_cols=82  Identities=16%  Similarity=0.133  Sum_probs=42.1

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYL  138 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L  138 (467)
                      .+...+.|++++|+.. .+... |+-+..|..|+++.+.+..+|..+++...++.+++..| ..+..| +.++.++++++
T Consensus        40 ~~kr~tvld~~s~r~v-n~~~n-~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n-~~~~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNRLV-NLGKN-FSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKN-NHSQQPKSQKKEPHPKKN  116 (326)
T ss_pred             ccceeeeehhhhhHHH-hhccc-hHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhcc-chhhCCccccccCCcchh
Confidence            3445555555555422 12211 23444455555555555555555555555555555542 455555 55566666666


Q ss_pred             EccCCc
Q 012249          139 DLYDTR  144 (467)
Q Consensus       139 ~l~~~~  144 (467)
                      +..++.
T Consensus       117 e~k~~~  122 (326)
T KOG0473|consen  117 EQKKTE  122 (326)
T ss_pred             hhccCc
Confidence            555553

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

Probab=80.13  E-value=0.04  Score=48.41  Aligned_cols=86  Identities=13%  Similarity=0.067  Sum_probs=57.0

Q ss_pred             CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCC
Q 012249           33 EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNL  112 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L  112 (467)
                      .+...+..+.|+++.|++-.+.... +-+..+..|+++.+. +..+|.++ +....++.+++..|..+..|.+.++.+++
T Consensus        37 ei~~~kr~tvld~~s~r~vn~~~n~-s~~t~~~rl~~sknq-~~~~~~d~-~q~~e~~~~~~~~n~~~~~p~s~~k~~~~  113 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNRLVNLGKNF-SILTRLVRLDLSKNQ-IKFLPKDA-KQQRETVNAASHKNNHSQQPKSQKKEPHP  113 (326)
T ss_pred             hhhccceeeeehhhhhHHHhhccch-HHHHHHHHHhccHhh-HhhChhhH-HHHHHHHHHHhhccchhhCCccccccCCc
Confidence            3445566777777776655443332 235556667777776 66677664 66777777777777777777777777777


Q ss_pred             CEEEcCCCC
Q 012249          113 RSLSLGWCR  121 (467)
Q Consensus       113 ~~L~l~~~~  121 (467)
                      ++++..++.
T Consensus       114 k~~e~k~~~  122 (326)
T KOG0473|consen  114 KKNEQKKTE  122 (326)
T ss_pred             chhhhccCc
Confidence            777777754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	467
3rfs_A	272	Design Of A Binding Scaffold Based On Variable Lymp		9e-06
3e6j_A	229	Crystal Structure Of Variable Lymphocyte Receptor (		4e-05
3rfj_A	279	Design Of A Binding Scaffold Based On Variable Lymp		2e-04
2o6s_A	208	Structural Diversity Of The Hagfish Variable Lympho		3e-04
2o6q_A	270	Structural Diversity Of The Hagfish Variable Lympho		5e-04

>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte Receptors Of Jawless Vertebrates By Module Engineering Length = 272

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 42/146 (28%), Positives = 65/146 (44%), Gaps = 26/146 (17%)
Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + L  N ++ +P+ +      L  L+L  N+ LQ +P+  F  +  L  +NL+   
Sbjct: 86  NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLNLAHNQ 144
Query: 99  IEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSXXXXXXXXXXXXXXTRIEEVPEGM-EMLE 156
           ++ LP  V D LTNL  L L +                        +++ +PEG+ + L 
Sbjct: 145 LQSLPKGVFDKLTNLTELDLSY-----------------------NQLQSLPEGVFDKLT 181
Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSL 182
            L  L L   QLK  P G+  RL SL
Sbjct: 182 QLKDLRLYQNQLKSVPDGVFDRLTSL 207

>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr) Rbc36 In Complex With H-Trisaccharide Length = 229

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 59/129 (45%), Gaps = 26/129 (20%)
Query: 64  LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRR 122
           L  L L  N+ L  +P   F  +  L V++L +  + VLPS+V D L +L+ L +  C +
Sbjct: 66  LKELYLGSNQ-LGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM-CCNK 123
Query: 123 LKRVPSXXXXXXXXXXXXXXTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSL 182
           L                       E+P G+E L +L+HL L   QLK  P G   RL SL
Sbjct: 124 LT----------------------ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSL 161
Query: 183 YKLKLSFGN 191
               L FGN
Sbjct: 162 THAYL-FGN 169

>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte Receptors Of Jawless Vertebrates By Module Engineering Length = 279

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 45/171 (26%), Positives = 73/171 (42%), Gaps = 27/171 (15%)
Query: 19  FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRI 78
           ++   G +L +    +E   NL  + L  N ++ +P+ +      L  L+L  N+ LQ +
Sbjct: 67  YLALGGNKLHDISALKELT-NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSL 124
Query: 79  PECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSXXXXXXXXX 137
           P+  F  +  L  + L    ++ LP  V D LTNL  L L                    
Sbjct: 125 PDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLD------------------- 165
Query: 138 XXXXXTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKL 187
                 +++ +PEG+ + L  L  L L+  QLK  P G+  RL SL  + L
Sbjct: 166 ----NNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGVFDRLTSLTHIWL 212

>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte Receptors B59 Length = 208

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 39/140 (27%), Positives = 64/140 (45%), Gaps = 26/140 (18%)
Query: 45  LMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS 104
           L  N+++ +P+ +      L+ L L  N+ LQ +P   F  +  L  +NLS+  ++ LP+
Sbjct: 35  LETNSLKSLPNGVFDELTSLTQLYLGGNK-LQSLPNGVFNKLTSLTYLNLSTNQLQSLPN 93
Query: 105 SVSD-LTNLRSLSLGWCRRLKRVPSXXXXXXXXXXXXXXTRIEEVPEGM-EMLENLSHLY 162
            V D LT L+ L+L                          +++ +P+G+ + L  L  L 
Sbjct: 94  GVFDKLTQLKELALN-----------------------TNQLQSLPDGVFDKLTQLKDLR 130
Query: 163 LSSLQLKKFPAGILPRLRSL 182
           L   QLK  P G+  RL SL
Sbjct: 131 LYQNQLKSVPDGVFDRLTSL 150

>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte Receptors A29 Length = 270

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 45/165 (27%), Positives = 72/165 (43%), Gaps = 8/165 (4%)
Query: 41  ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE 100
           +++ L  N +  +PS        L  L L  N+ LQ +P   F  +  L+ + ++   ++
Sbjct: 40  KKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLETLWVTDNKLQ 98
Query: 101 VLPSSVSD-LTNLRSLSLGWCRRLKRVPSXX--XXXXXXXXXXXXTRIEEVPEGM-EMLE 156
            LP  V D L NL  L L    +LK +P                   ++ +P+G+ + L 
Sbjct: 99  ALPIGVFDQLVNLAELRLDR-NQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLT 157
Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEA 201
           +L  L L + QLK+ P G   +L  L  LKL   N  L+   E A
Sbjct: 158 SLKELRLYNNQLKRVPEGAFDKLTELKTLKLD--NNQLKRVPEGA 200

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	467
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-20
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	7e-19
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	6e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-20
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-19
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-14
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-20
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-18
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-18
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-17
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-13
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	6e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-19
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-18
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-19
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-17
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-16
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-15
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-19
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-15
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-13
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	6e-19
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	9e-18
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-18
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-16
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-14
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	8e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	3e-18
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-18
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-15
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-18
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-16
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-15
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	8e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-17
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-16
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	7e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-17
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-17
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-17
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-17
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-15
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-15
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-17
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-15
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-16
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-16
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-15
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-16
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-16
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-14
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-12
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-16
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-16
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-12
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-16
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-16
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-07
3m19_A	251	Variable lymphocyte receptor A diversity region; a	4e-16
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-10
3m19_A	251	Variable lymphocyte receptor A diversity region; a	5e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-16
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-14
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-13
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-12
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-15
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-15
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-14
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-13
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-14
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-14
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	8e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-14
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-14
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-13
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	8e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	6e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	6e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-10
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-08
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	2e-13
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	3e-10
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-13
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-09
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	1e-08
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	4e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	6e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-07
3e6j_A	229	Variable lymphocyte receptor diversity region; var	8e-13
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-12
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-10
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-12
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	6e-10
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	4e-12
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	1e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	8e-12
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-11
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-11
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-10
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-09
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	7e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-05
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	1e-08
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	4e-08
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	4e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	2e-07
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	5e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	8e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	5e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	1e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	3e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-05
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	6e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	1e-05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	2e-05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	3e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-04

>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 = 90.8 bits (226), Expect = 1e-20
 Identities = 44/155 (28%), Positives = 68/155 (43%), Gaps = 7/155 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-T 97
             +R+ L  N I  +P+     C  L+ L L  N  L RI    F  +  L+ ++LS   
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNA 91

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-E 153
            +  +  +    L  L +L L  C  L+ +       L ALQYL L D  ++ +P+    
Sbjct: 92  QLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQALPDDTFR 150

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L NL+HL+L   ++   P      L SL +L L 
Sbjct: 151 DLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLH 185

>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 = 85.4 bits (212), Expect = 7e-19
 Identities = 44/155 (28%), Positives = 63/155 (40%), Gaps = 7/155 (4%)

Query: 39  NLERVSLMRNN-IEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            LE++ L  N  +  +          L TL L R   LQ +    F  +  L+ + L   
Sbjct: 81  LLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYLYLQDN 139

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-E 153
            ++ LP     DL NL  L L    R+  VP  +   L +L  L L+  R+  V      
Sbjct: 140 ALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR 198

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L  L  LYL +  L   P   L  LR+L  L+L+
Sbjct: 199 DLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 233

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

 Score = 40.4 bits (95), Expect = 6e-04
 Identities = 25/78 (32%), Positives = 34/78 (43%), Gaps = 5/78 (6%)

Query: 121 RRLKRVPSLARLLA-LQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPR 178
           + L+ VP    + A  Q + L+  RI  VP        NL+ L+L S  L +  A     
Sbjct: 21  QGLQAVPV--GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTG 78

Query: 179 LRSLYKLKLSFGNEALRE 196
           L  L +L LS  N  LR 
Sbjct: 79  LALLEQLDLS-DNAQLRS 95

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

 Score = 91.0 bits (226), Expect = 6e-20
 Identities = 49/178 (27%), Positives = 69/178 (38%), Gaps = 27/178 (15%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNE-----------------------N 74
            N   ++L  N I+ I  N   H   L  L L RN                         
Sbjct: 64  TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR 123

Query: 75  LQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLAR 131
           L  IP   FV++  LK + L +  IE +PS   + + +LR L LG  +RL  +   +   
Sbjct: 124 LTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEG 183

Query: 132 LLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           L  L+YL+L    + E+P  +  L  L  L LS   L     G    L  L KL +  
Sbjct: 184 LSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQ 240

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

 Score = 89.0 bits (221), Expect = 2e-19
 Identities = 39/156 (25%), Positives = 67/156 (42%), Gaps = 6/156 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ + L  N IE IPS        L  L L   + L  I E  F  +  L+ +NL+  +
Sbjct: 137 KLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN 196

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EML 155
           +  +P +++ L  L  L L     L  +   S   L+ LQ L +  ++I+ +     + L
Sbjct: 197 LREIP-NLTPLIKLDELDLSGN-HLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNL 254

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           ++L  + L+   L   P  +   L  L ++ L   N
Sbjct: 255 QSLVEINLAHNNLTLLPHDLFTPLHHLERIHLH-HN 289

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

 Score = 73.2 bits (180), Expect = 3e-14
 Identities = 35/154 (22%), Positives = 59/154 (38%), Gaps = 27/154 (17%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
              +V  +R N+ E+P  +S +      L L  N  +Q I    F H+  L+++ LS   
Sbjct: 44  QFSKVICVRKNLREVPDGISTN---TRLLNLHEN-QIQIIKVNSFKHLRHLEILQLSRNH 99

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLEN 157
           I  +                         +   L  L  L+L+D R+  +P G    L  
Sbjct: 100 IRTIEIG----------------------AFNGLANLNTLELFDNRLTTIPNGAFVYLSK 137

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           L  L+L +  ++  P+    R+ SL +L L    
Sbjct: 138 LKELWLRNNPIESIPSYAFNRIPSLRRLDLGELK 171

>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 = 90.5 bits (225), Expect = 9e-20
 Identities = 40/157 (25%), Positives = 64/157 (40%), Gaps = 6/157 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +LE + L  N +  +      +   L TL L+ N  L+ IP   F  +  L  +++S   
Sbjct: 57  HLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENK 115

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EM 154
           I +L   +  DL NL+SL +G    L  +     + L +L+ L L    +  +P      
Sbjct: 116 IVILLDYMFQDLYNLKSLEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSH 174

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           L  L  L L  L +         RL  L  L++S   
Sbjct: 175 LHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWP 211

>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 = 87.1 bits (216), Expect = 1e-18
 Identities = 32/154 (20%), Positives = 60/154 (38%), Gaps = 6/154 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
               + L +N I+ +  +       L  L L  N  +  +    F ++  L+ + L S  
Sbjct: 33  ETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSNR 91

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EM 154
           ++++P  V + L+NL  L +    ++  +       L  L+ L++ D  +  +       
Sbjct: 92  LKLIPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSG 150

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L +L  L L    L   P   L  L  L  L+L 
Sbjct: 151 LNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLR 184

>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 = 85.9 bits (213), Expect = 3e-18
 Identities = 31/154 (20%), Positives = 54/154 (35%), Gaps = 6/154 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L   NI  I          L  L +     L  +       ++ L  ++++  +
Sbjct: 177 GLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLN-LTSLSITHCN 235

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EM 154
           +  +P      L  LR L+L +   +  +    L  LL LQ + L   ++  V       
Sbjct: 236 LTAVPYLAVRHLVYLRFLNLSYN-PISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRG 294

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  L  L +S  QL      +   + +L  L L 
Sbjct: 295 LNYLRVLNVSGNQLTTLEESVFHSVGNLETLILD 328

>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 = 83.2 bits (206), Expect = 2e-17
 Identities = 33/155 (21%), Positives = 60/155 (38%), Gaps = 6/155 (3%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            NL  + L  N ++ IP  +      L+ L +  N  +  + +  F  ++ LK + +   
Sbjct: 80  FNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKSLEVGDN 138

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-E 153
           D+  +     S L +L  L+L  C  L  +P  +L+ L  L  L L    I  + +   +
Sbjct: 139 DLVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFK 197

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L  L  L +S                +L  L ++
Sbjct: 198 RLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSIT 232

>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 = 71.7 bits (176), Expect = 1e-13
 Identities = 27/132 (20%), Positives = 54/132 (40%), Gaps = 6/132 (4%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
             L+ + +      +  +    +   L++L +    NL  +P     H+  L+ +NLS  
Sbjct: 200 YRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYN 258

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-E 153
            I  +  S+  +L  L+ + L    +L  V       L  L+ L++   ++  + E +  
Sbjct: 259 PISTIEGSMLHELLRLQEIQLVGG-QLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFH 317

Query: 154 MLENLSHLYLSS 165
            + NL  L L S
Sbjct: 318 SVGNLETLILDS 329

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

 Score = 41.2 bits (97), Expect = 6e-04
 Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 4/70 (5%)

Query: 121 RRLKRVPSLARLLA-LQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPR 178
           +R   VP    +    + LDL   RI+ + +       +L  L L+   +     G    
Sbjct: 21  KRFVAVPE--GIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNN 78

Query: 179 LRSLYKLKLS 188
           L +L  L L 
Sbjct: 79  LFNLRTLGLR 88

>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 = 90.2 bits (224), Expect = 1e-19
 Identities = 40/156 (25%), Positives = 66/156 (42%), Gaps = 6/156 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N IE IPS        L  L L   + L+ I E  F  +  LK +NL   +
Sbjct: 148 KLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN 207

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EML 155
           I+ +P +++ L  L  L +        +   S   L +L+ L + ++++  +     + L
Sbjct: 208 IKDMP-NLTPLVGLEELEMSGN-HFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGL 265

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
            +L  L L+   L   P  +   LR L +L L   N
Sbjct: 266 ASLVELNLAHNNLSSLPHDLFTPLRYLVELHLH-HN 300

>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 = 86.0 bits (213), Expect = 3e-18
 Identities = 48/156 (30%), Positives = 76/156 (48%), Gaps = 9/156 (5%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            N   ++LM NNI+ I ++   H   L  L L RN ++++I    F  +  L  + L   
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDN 133

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDT-RIEEVPEGM- 152
            + V+PS     L+ LR L L     ++ +PS    R+ +L  LDL +  ++E + EG  
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAF 192

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           E L NL +L L    +K  P   L  L  L +L++S
Sbjct: 193 EGLFNLKYLNLGMCNIKDMPN--LTPLVGLEELEMS 226

>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 = 72.9 bits (179), Expect = 5e-14
 Identities = 35/154 (22%), Positives = 59/154 (38%), Gaps = 27/154 (17%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
              +V   R  + E+P  +  +   L+   L  N N+Q I    F H+H L+V+ L    
Sbjct: 55  QFSKVVCTRRGLSEVPQGIPSNTRYLN---LMEN-NIQMIQADTFRHLHHLEVLQLGRNS 110

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLEN 157
           I  +                         +   L +L  L+L+D  +  +P G  E L  
Sbjct: 111 IRQIEVG----------------------AFNGLASLNTLELFDNWLTVIPSGAFEYLSK 148

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           L  L+L +  ++  P+    R+ SL +L L    
Sbjct: 149 LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK 182

>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 = 88.5 bits (220), Expect = 1e-19
 Identities = 35/156 (22%), Positives = 63/156 (40%), Gaps = 7/156 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPEC-FFVHMHGLKVVNLSST 97
           +L+ + L  N +  + SN     E L  L  Q + NL+++ E   F+ +  L  +++S T
Sbjct: 79  SLKYLDLSFNGVITMSSNFL-GLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT 136

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-E 153
              V  + + + L++L  L +      +         L  L +LDL   ++E++      
Sbjct: 137 HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFN 196

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            L +L  L +S              L SL  L  S 
Sbjct: 197 SLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL 232

>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 = 80.8 bits (200), Expect = 4e-17
 Identities = 37/163 (22%), Positives = 66/163 (40%), Gaps = 12/163 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-- 96
           +   +      +  +P+ +      L    L+ N  LQ +P   F  +  L  ++LSS  
Sbjct: 8   SGTEIRCNSKGLTSVPTGIPSSATRLE---LESN-KLQSLPHGVFDKLTQLTKLSLSSNG 63

Query: 97  -TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS-LARLLALQYLDLYDTRIEEVPEGM-- 152
            +       S    T+L+ L L +   +  + S    L  L++LD   + ++++ E    
Sbjct: 64  LSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVF 122

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR 195
             L NL +L +S    +    GI   L SL  LK++ GN    
Sbjct: 123 LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA-GNSFQE 164

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

 Score = 78.5 bits (194), Expect = 2e-16
 Identities = 38/180 (21%), Positives = 60/180 (33%), Gaps = 31/180 (17%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNE-NLQRIPECFFVHMHGLKVVNLSST 97
           +  R+ L  N ++ +P  +      L+ L L  N  + +            LK ++LS  
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN 88

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYDTRIEEVPEGM-- 152
            +  + S+   L  L  L       LK++        L  L YLD+  T       G+  
Sbjct: 89  GVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 147

Query: 153 ------------------------EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
                                     L NL+ L LS  QL++        L SL  L +S
Sbjct: 148 GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMS 207

>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 = 75.8 bits (187), Expect = 2e-15
 Identities = 29/157 (18%), Positives = 62/157 (39%), Gaps = 9/157 (5%)

Query: 39  NLERVSLMRNNIEEIPS-NMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS- 96
            LE +    +N++++   ++      L  L +    + +      F  +  L+V+ ++  
Sbjct: 102 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAGN 160

Query: 97  TDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM- 152
           +  E     + ++L NL  L L  C+ L+++   +   L +LQ L++       +     
Sbjct: 161 SFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPY 219

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRL-RSLYKLKLS 188
           + L +L  L  S   +       L     SL  L L+
Sbjct: 220 KCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT 256

>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 = 73.1 bits (180), Expect = 1e-14
 Identities = 23/132 (17%), Positives = 48/132 (36%), Gaps = 6/132 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + +   +     + +      L  L +  N   +      F  +  L  ++LS   
Sbjct: 127 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 186

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM--E 153
           +E L  +  + L++L+ L++        + +     L +LQ LD     I    +     
Sbjct: 187 LEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQH 245

Query: 154 MLENLSHLYLSS 165
              +L+ L L+ 
Sbjct: 246 FPSSLAFLNLTQ 257

>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 = 87.7 bits (218), Expect = 2e-19
 Identities = 37/166 (22%), Positives = 61/166 (36%), Gaps = 14/166 (8%)

Query: 37  EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           +     + L    + + P         L  + +     L  +P+       GL+ + L+ 
Sbjct: 80  QPGRVALELRSVPLPQFPDQAF-RLSHLQHMTIDAA-GLMELPDTMQ-QFAGLETLTLAR 136

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP----------SLARLLALQYLDLYDTRIE 146
             +  LP+S++ L  LR LS+  C  L  +P              L+ LQ L L  T I 
Sbjct: 137 NPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR 196

Query: 147 EVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNE 192
            +P  +  L+NL  L + +  L      I   L  L +L L     
Sbjct: 197 SLPASIANLQNLKSLKIRNSPLSALGPAIH-HLPKLEELDLRGCTA 241

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

 Score = 78.8 bits (195), Expect = 2e-16
 Identities = 35/176 (19%), Positives = 68/176 (38%), Gaps = 16/176 (9%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEI-LSTLLLQRNENLQRIPECFF 83
                    Q    N +  +     ++     +    +     L L+    L + P+  F
Sbjct: 43  RNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSV-PLPQFPDQAF 101

Query: 84  VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYD 142
             +  L+ + + +  +  LP ++     L +L+L     L+ +P S+A L  L+ L +  
Sbjct: 102 -RLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRA 159

Query: 143 T-RIEEVPEGM---------EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              + E+PE +         + L NL  L L    ++  PA I   L++L  LK+ 
Sbjct: 160 CPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIA-NLQNLKSLKIR 214

>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 = 75.4 bits (186), Expect = 3e-15
 Identities = 31/163 (19%), Positives = 64/163 (39%), Gaps = 15/163 (9%)

Query: 39  NLERVSLMRNN-IEEIPSNMS--------PHCEILSTLLLQRNENLQRIPECFFVHMHGL 89
            L  +S+     + E+P  ++             L +L L+    ++ +P     ++  L
Sbjct: 151 RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIA-NLQNL 208

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYD-TRIEE 147
           K + + ++ +  L  ++  L  L  L L  C  L+  P        L+ L L D + +  
Sbjct: 209 KSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLT 268

Query: 148 VPEGMEMLENLSHLYLSS-LQLKKFPAGILPRLRSLYKLKLSF 189
           +P  +  L  L  L L   + L + P+ I  +L +   + +  
Sbjct: 269 LPLDIHRLTQLEKLDLRGCVNLSRLPSLI-AQLPANCIILVPP 310

>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 = 74.2 bits (183), Expect = 1e-14
 Identities = 28/158 (17%), Positives = 53/158 (33%), Gaps = 12/158 (7%)

Query: 39  NLERVSLMR-NNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
             E +       +      +S   +        R  +  R         +  ++   +  
Sbjct: 13  GRENLYFQGSTALRPYHDVLS-QWQRHYNADRNRWHSAWRQAN-----SNNPQIETRTGR 66

Query: 98  DIEVLPSSVSDLT--NLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEM 154
            ++     + D T     +L L     L + P    RL  LQ++ +    + E+P+ M+ 
Sbjct: 67  ALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQ 125

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNE 192
              L  L L+   L+  PA I   L  L +L +    E
Sbjct: 126 FAGLETLTLARNPLRALPASI-ASLNRLRELSIRACPE 162

>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 = 68.8 bits (169), Expect = 5e-13
 Identities = 29/148 (19%), Positives = 60/148 (40%), Gaps = 6/148 (4%)

Query: 28  LEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMH 87
            +  GE +   NL+ + L    I  +P++++ + + L +L ++ +  L  +      H+ 
Sbjct: 173 TDASGEHQGLVNLQSLRLEWTGIRSLPASIA-NLQNLKSLKIRNS-PLSALGPAIH-HLP 229

Query: 88  GLKVVNLSS-TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYD-TR 144
            L+ ++L   T +   P        L+ L L  C  L  +P  + RL  L+ LDL     
Sbjct: 230 KLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVN 289

Query: 145 IEEVPEGMEMLENLSHLYLSSLQLKKFP 172
           +  +P  +  L     + +      +  
Sbjct: 290 LSRLPSLIAQLPANCIILVPPHLQAQLD 317

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

 Score = 85.4 bits (212), Expect = 6e-19
 Identities = 48/154 (31%), Positives = 76/154 (49%), Gaps = 6/154 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N ++ +P+ +    + L TL +  N+ LQ +P   F  +  L  + L    
Sbjct: 62  KLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVFDQLVNLAELRLDRNQ 120

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EM 154
           ++ LP  V   LT L  LSLG+   L+ +P     +L +L+ L LY+ +++ VPEG  + 
Sbjct: 121 LKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDK 179

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  L  L L + QLK+ P G    L  L  L+L 
Sbjct: 180 LTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQ 213

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

 Score = 81.9 bits (203), Expect = 9e-18
 Identities = 46/154 (29%), Positives = 73/154 (47%), Gaps = 6/154 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           + +++ L  N +  +PS        L  L L  N+ LQ +P   F  +  L+ + ++   
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLETLWVTDNK 96

Query: 99  IEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EM 154
           ++ LP  V D L NL  L L    +LK +P      L  L YL L    ++ +P+G+ + 
Sbjct: 97  LQALPIGVFDQLVNLAELRLD-RNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDK 155

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L +L  L L + QLK+ P G   +L  L  LKL 
Sbjct: 156 LTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLD 189

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

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 30/104 (28%), Positives = 57/104 (54%), Gaps = 6/104 (5%)

Query: 88  GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRI 145
               V+ SS  +  +PS++    + + L L    +L  +PS A  RL  L+ L L D ++
Sbjct: 17  NKNSVDCSSKKLTAIPSNIP--ADTKKLDLQS-NKLSSLPSKAFHRLTKLRLLYLNDNKL 73

Query: 146 EEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           + +P G+ + L+NL  L+++  +L+  P G+  +L +L +L+L 
Sbjct: 74  QTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLD 117

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

 Score = 84.7 bits (210), Expect = 2e-18
 Identities = 19/149 (12%), Positives = 50/149 (33%), Gaps = 9/149 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           ++E +    NNI  +  +          + L  N  +  + +        ++ ++L   +
Sbjct: 100 SIETLHAANNNISRVSCSRGQG---KKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNE 155

Query: 99  IEVLP--SSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
           I+ +      +    L  L+L +   +  V        L+ LDL   ++  +    +   
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNF-IYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 157 NLSHLYLSSLQLKKFPAGI--LPRLRSLY 183
            ++ + L + +L      +     L    
Sbjct: 215 GVTWISLRNNKLVLIEKALRFSQNLEHFD 243

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

 Score = 78.5 bits (194), Expect = 3e-16
 Identities = 24/151 (15%), Positives = 55/151 (36%), Gaps = 8/151 (5%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
              +   +  +++++  +++      +  L L  N  L +I          L+++NLSS 
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSN 68

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +      +  L+ LR+L L        V  L    +++ L   +  I  V       + 
Sbjct: 69  VLYETLD-LESLSTLRTLDLNNNY----VQELLVGPSIETLHAANNNISRVSC--SRGQG 121

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             ++YL++ ++             +  L L 
Sbjct: 122 KKNIYLANNKITMLRDLDEGCRSRVQYLDLK 152

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

 Score = 72.3 bits (178), Expect = 3e-14
 Identities = 22/135 (16%), Positives = 52/135 (38%), Gaps = 11/135 (8%)

Query: 50  IEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SD 108
           I EI  N +          +  + +L++           +K ++LS   +  + ++  + 
Sbjct: 2   IHEIKQNGN----RYKIEKVTDS-SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAP 56

Query: 109 LTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQL 168
            T L  L+L     L     L  L  L+ LDL +  ++E+        ++  L+ ++  +
Sbjct: 57  FTKLELLNLSSNV-LYETLDLESLSTLRTLDLNNNYVQELLV----GPSIETLHAANNNI 111

Query: 169 KKFPAGILPRLRSLY 183
            +         +++Y
Sbjct: 112 SRVSCSRGQGKKNIY 126

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

 Score = 68.1 bits (167), Expect = 8e-13
 Identities = 20/130 (15%), Positives = 45/130 (34%), Gaps = 5/130 (3%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIP-ECFFVHMHGLKVVNLSS 96
           +  + + L  N I  +          +  L L+ N  +  +           L+ +NL  
Sbjct: 120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDTLEHLNLQY 178

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEML 155
             I  +   V     L++L L   + L  +         + ++ L + ++  + + +   
Sbjct: 179 NFIYDVKGQVV-FAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS 236

Query: 156 ENLSHLYLSS 165
           +NL H  L  
Sbjct: 237 QNLEHFDLRG 246

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

 Score = 58.8 bits (143), Expect = 9e-10
 Identities = 23/153 (15%), Positives = 48/153 (31%), Gaps = 6/153 (3%)

Query: 39  NLERVSLMRNNIEEIPSN-MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            ++ + L  N I+ +    ++   + L  L LQ N  +  +          LK ++LSS 
Sbjct: 145 RVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVV--FAKLKTLDLSSN 201

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLE 156
            +  +         +  +SL   + L  +  +L     L++ DL               +
Sbjct: 202 KLAFMGPEFQSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSK 260

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           N     ++   +KK                   
Sbjct: 261 NQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGA 293

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

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 25/165 (15%), Positives = 53/165 (32%), Gaps = 5/165 (3%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFV 84
           +  + F       + LE ++L  N I ++   +      L TL L  N  L  +   F  
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTLDLSSN-KLAFMGPEFQ- 211

Query: 85  HMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTR 144
              G+  ++L +  + ++  ++    NL    L                  +   +    
Sbjct: 212 SAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQT 271

Query: 145 IEEVPEGMEMLENLSHLY-LSSLQLKKFPAGILPRLRSLYKLKLS 188
           ++++    E    +  L    +   +  PA    RL +L      
Sbjct: 272 VKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALGHHHHH 316

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

 Score = 84.9 bits (210), Expect = 3e-18
 Identities = 41/158 (25%), Positives = 64/158 (40%), Gaps = 13/158 (8%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRI-PECFFVHMHGLKVVNLSST 97
               +S  +  +  +P ++  +  +L    L  N NL R+  E     +  L  + LS  
Sbjct: 19  ASNILSCSKQQLPNVPQSLPSYTALLD---LSHN-NLSRLRAEWTPTRLTNLHSLLLSHN 74

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-E 153
            +  + S     + NLR L L     L  +     + L AL+ L LY+  I  V     E
Sbjct: 75  HLNFISSEAFVPVPNLRYLDLSSNH-LHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFE 133

Query: 154 MLENLSHLYLSSLQLKKFPAGI---LPRLRSLYKLKLS 188
            +  L  LYLS  Q+ +FP  +     +L  L  L LS
Sbjct: 134 DMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS 171

>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 = 83.6 bits (207), Expect = 4e-18
 Identities = 39/153 (25%), Positives = 62/153 (40%), Gaps = 7/153 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +   + L  N +             L+ L L R E L ++       +  L  ++LS   
Sbjct: 32  DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQV--DGTLPVLGTLDLSHNQ 88

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EML 155
           ++ LP     L  L  L + + R L  +P   L  L  LQ L L    ++ +P G+    
Sbjct: 89  LQSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPT 147

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L  L L++  L + PAG+L  L +L  L L 
Sbjct: 148 PKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ 180

>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 = 76.3 bits (188), Expect = 1e-15
 Identities = 40/152 (26%), Positives = 62/152 (40%), Gaps = 8/152 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +   V+  + N+  +P ++       + L L  N  L        +    L  +NL   +
Sbjct: 11  SHLEVNCDKRNLTALPPDLPKD---TTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRAE 66

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSL-ARLLALQYLDLYDTRIEEVPEGM-EMLE 156
           +  L      L  L +L L   + L+ +P L   L AL  LD+   R+  +P G    L 
Sbjct: 67  LTKLQVD-GTLPVLGTLDLSHNQ-LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLG 124

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L  LYL   +LK  P G+L     L KL L+
Sbjct: 125 ELQELYLKGNELKTLPPGLLTPTPKLEKLSLA 156

>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 = 61.7 bits (150), Expect = 9e-11
 Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 6/130 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N ++ +P  +      L+ L +  N  L  +P      +  L+ + L   +
Sbjct: 78  VLGTLDLSHNQLQSLPL-LGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKGNE 135

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGMEML 155
           ++ LP  + +    L  LSL     L  +P+  L  L  L  L L +  +  +P+G    
Sbjct: 136 LKTLPPGLLTPTPKLEKLSLA-NNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGS 194

Query: 156 ENLSHLYLSS 165
             L   +L  
Sbjct: 195 HLLPFAFLHG 204

>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 = 85.8 bits (213), Expect = 5e-18
 Identities = 31/157 (19%), Positives = 62/157 (39%), Gaps = 8/157 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-- 96
            L+++ L  N  E +    + +   L+ L ++ N     +      ++  L+ ++LS   
Sbjct: 302 TLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDD 361

Query: 97  -TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM- 152
               +     + +L++L+SL+L +      + +        L+ LDL  TR++       
Sbjct: 362 IETSDCCNLQLRNLSHLQSLNLSYN-EPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSP 420

Query: 153 -EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            + L  L  L LS   L      +   L +L  L L 
Sbjct: 421 FQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQ 457

>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 = 80.1 bits (198), Expect = 3e-16
 Identities = 28/151 (18%), Positives = 45/151 (29%), Gaps = 9/151 (5%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
            +     + EIP  +         L    N  L  I    F  +  L  ++L+   I  +
Sbjct: 17  YNCENLGLNEIPGTLPNS---TECLEFSFN-VLPTIQNTTFSRLINLTFLDLTRCQIYWI 72

Query: 103 PSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENL 158
                     L +L L     L  +   +L+   AL++L    T I  +        + L
Sbjct: 73  HEDTFQSQHRLDTLVLTANP-LIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTL 131

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
             LYL S  +             L  L    
Sbjct: 132 ESLYLGSNHISSIKLPKGFPTEKLKVLDFQN 162

>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 = 79.7 bits (197), Expect = 4e-16
 Identities = 36/158 (22%), Positives = 69/158 (43%), Gaps = 9/158 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRI-PECFFVHMHGLKVVNLSST 97
           +L+ ++L  N    + +     C  L  L L     L+    +  F ++H LKV+NLS +
Sbjct: 377 HLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVLNLSHS 435

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCR----RLKRVPSLARLLALQYLDLYDTRIEEVPEGM 152
            +++    +   L  L+ L+L         +++  SL  L  L+ L L    +  + +  
Sbjct: 436 LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHA 495

Query: 153 -EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
              L+ ++H+ LS  +L       L  L+ +Y L L+ 
Sbjct: 496 FTSLKMMNHVDLSHNRLTSSSIEALSHLKGIY-LNLAS 532

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

 Score = 78.1 bits (193), Expect = 1e-15
 Identities = 32/172 (18%), Positives = 54/172 (31%), Gaps = 8/172 (4%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
            L L E PG      + E +    N +  I +        L+ L L R   +  I E  F
Sbjct: 21  NLGLNEIPGTLP--NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTF 77

Query: 84  VHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDL 140
              H L  + L++  +  +  +  S    L+ L       +  +    L     L+ L L
Sbjct: 78  QSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYL 136

Query: 141 YDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
               I  +        E L  L   +  +       +  L+    L L+   
Sbjct: 137 GSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNG 188

>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 = 70.8 bits (174), Expect = 3e-13
 Identities = 27/161 (16%), Positives = 53/161 (32%), Gaps = 9/161 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVV--NLSS 96
            LE + L  N+I  I        E L  L  Q N  +  + +     +     +  NL+ 
Sbjct: 130 TLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLSLNLNG 188

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVPEGME 153
            DI  +     D    +SL+ G  + L  +      + + +L      D   E++   + 
Sbjct: 189 NDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVF 248

Query: 154 M---LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
                 ++  + L         +        L +L L+  +
Sbjct: 249 EGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATH 289

>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 = 68.9 bits (169), Expect = 1e-12
 Identities = 35/160 (21%), Positives = 59/160 (36%), Gaps = 12/160 (7%)

Query: 39  NLERVSLMRNNIEEIP--SNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           NL  + L  ++IE     +    +   L +L L  N     +    F     L++++L+ 
Sbjct: 351 NLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYN-EPLSLKTEAFKECPQLELLDLAF 409

Query: 97  TDIEVL--PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM 152
           T ++V    S   +L  L+ L+L     L          L ALQ+L+L      +     
Sbjct: 410 TRLKVKDAQSPFQNLHLLKVLNLSHSL-LDISSEQLFDGLPALQHLNLQGNHFPKGNIQK 468

Query: 153 ----EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
               + L  L  L LS   L          L+ +  + LS
Sbjct: 469 TNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLS 508

>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 = 66.2 bits (162), Expect = 8e-12
 Identities = 21/158 (13%), Positives = 41/158 (25%), Gaps = 9/158 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ + L  N +  +        + L  L   +   +  I      +   L+ + L S  
Sbjct: 82  RLDTLVLTANPLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSNH 140

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLA----RLLALQYLDLYDTRIEEVPEGME 153
           I  +          L+ L       +  +        +      L+L    I  +  G  
Sbjct: 141 ISSIKLPKGFPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAF 199

Query: 154 MLENLSHLYLSSLQLKK--FPAGILPRLRSLYKLKLSF 189
                  L     Q     F       ++SL+      
Sbjct: 200 DSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFED 237

>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 = 65.8 bits (161), Expect = 1e-11
 Identities = 24/140 (17%), Positives = 44/140 (31%), Gaps = 8/140 (5%)

Query: 54  PSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNL 112
            S+     + ++      N  L  IP          + +  S   +  + ++  S L NL
Sbjct: 3   SSDQKCIEKEVNKTYNCENLGLNEIPGTLPNS---TECLEFSFNVLPTIQNTTFSRLINL 59

Query: 113 RSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLK 169
             L L  C+ +  +          L  L L    +  + E      + L HL+     + 
Sbjct: 60  TFLDLTRCQ-IYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGIS 118

Query: 170 KFPAGILPRLRSLYKLKLSF 189
                 L   ++L  L L  
Sbjct: 119 SIDFIPLHNQKTLESLYLGS 138

>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 = 64.3 bits (157), Expect = 4e-11
 Identities = 29/150 (19%), Positives = 49/150 (32%), Gaps = 6/150 (4%)

Query: 44  SLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP 103
           +L  N+I  I           S         L          +  L +      D E + 
Sbjct: 185 NLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDIS 244

Query: 104 SSVSD---LTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
            +V +     ++ S++L        +   +      LQ LDL  T + E+P G+  L  L
Sbjct: 245 PAVFEGLCEMSVESINLQKHY-FFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTL 303

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L LS+ + +           SL  L + 
Sbjct: 304 KKLVLSANKFENLCQISASNFPSLTHLSIK 333

>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 = 58.1 bits (141), Expect = 3e-09
 Identities = 27/161 (16%), Positives = 56/161 (34%), Gaps = 12/161 (7%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNEN-LQRIPECFFVHMHGLKVVNLSS 96
           E L+ +    N I  +        +  + L L  N N +  I    F      + +N   
Sbjct: 153 EKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAV-FQSLNFGG 211

Query: 97  TDIEVLP---SSVSDLTNLRSLSLGWCRRLKRVPSLA----RLLALQYLDLYDTRIEEVP 149
           T   ++       S + +L   +       + +          ++++ ++L       + 
Sbjct: 212 TQNLLVIFKGLKNSTIQSLWLGTFEDM-DDEDISPAVFEGLCEMSVESINLQKHYFFNIS 270

Query: 150 EGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
                    L  L L++  L + P+G++  L +L KL LS 
Sbjct: 271 SNTFHCFSGLQELDLTATHLSELPSGLVG-LSTLKKLVLSA 310

>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 = 81.9 bits (203), Expect = 1e-17
 Identities = 41/158 (25%), Positives = 62/158 (39%), Gaps = 10/158 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L  + L  N I+ +          L  L+     NL  +      H+  LK +N++   
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNL 135

Query: 99  IEVLPSSV--SDLTNLRSLSLGWCRRLKRVPS--LARLLALQY----LDLYDTRIEEVPE 150
           I+        S+LTNL  L L   + ++ +    L  L  +      LDL    +  +  
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP 194

Query: 151 GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           G      L  L L + QLK  P GI  RL SL K+ L 
Sbjct: 195 GAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLH 232

>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 = 78.9 bits (195), Expect = 1e-16
 Identities = 35/155 (22%), Positives = 60/155 (38%), Gaps = 7/155 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           + + + L  N +  + S        L  L L R   +Q I +  +  +  L  + L+   
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGNP 87

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPE-GM-E 153
           I+ L     S L++L+ L       L  + +     L  L+ L++    I+         
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFS 146

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L NL HL LSS +++      L  L  +  L LS
Sbjct: 147 NLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS 181

>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 = 73.9 bits (182), Expect = 7e-15
 Identities = 34/159 (21%), Positives = 62/159 (38%), Gaps = 12/159 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ + L R  I+ I          LSTL+L  N  +Q +    F  +  L+ +    T+
Sbjct: 53  ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETN 111

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYDTRIEEVPEGM-E 153
           +  L +     L  L+ L++     ++        + L  L++LDL   +I+ +      
Sbjct: 112 LASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLR 170

Query: 154 MLENL----SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           +L  +      L LS   +     G    +R L +L L 
Sbjct: 171 VLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR-LKELALD 208

>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 = 84.3 bits (209), Expect = 2e-17
 Identities = 35/155 (22%), Positives = 61/155 (39%), Gaps = 9/155 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           + E        + ++P ++  +   ++ L L  N  L+R+P   F     L  +++    
Sbjct: 5   SHEVADCSHLKLTQVPDDLPTN---ITVLNLTHN-QLRRLPAANFTRYSQLTSLDVGFNT 60

Query: 99  IEVL-PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EM 154
           I  L P     L  L+ L+L     L ++   + A    L  L L    I+++       
Sbjct: 61  ISKLEPELCQKLPMLKVLNLQHNE-LSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVK 119

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            +NL  L LS   L     G   +L +L +L LS 
Sbjct: 120 QKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSN 154

>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 = 80.0 bits (198), Expect = 3e-16
 Identities = 37/157 (23%), Positives = 65/157 (41%), Gaps = 8/157 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + +  N I ++   +     +L  L LQ N  L ++ +  F     L  ++L S  
Sbjct: 50  QLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHLMSNS 108

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEML 155
           I+ + ++      NL +L L     L      +  +L  LQ L L + +I+ +      +
Sbjct: 109 IQKIKNNPFVKQKNLITLDLSHNG-LSSTKLGTQVQLENLQELLLSNNKIQALKSEELDI 167

Query: 156 ENLS---HLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
              S    L LSS Q+K+F  G    +  L+ L L+ 
Sbjct: 168 FANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNN 204

>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 = 73.5 bits (181), Expect = 4e-14
 Identities = 34/167 (20%), Positives = 58/167 (34%), Gaps = 17/167 (10%)

Query: 38  ENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
            +LE + L  N I  E+        E +  + L  N    ++    F  +  L+ + L  
Sbjct: 405 GHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-KYLQLTRNSFALVPSLQRLMLRR 463

Query: 97  ---TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEG 151
               +++  PS    L NL  L L     +  +    L  L  L+ LDL    +  + + 
Sbjct: 464 VALKNVDSSPSPFQPLRNLTILDLSNNN-IANINDDMLEGLEKLEILDLQHNNLARLWKH 522

Query: 152 M---------EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
                     + L +L  L L S    + P  +   L  L  + L  
Sbjct: 523 ANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGL 569

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

 Score = 72.3 bits (178), Expect = 1e-13
 Identities = 40/165 (24%), Positives = 61/165 (36%), Gaps = 15/165 (9%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  ++L +N I +I S+       L  L L  NE  Q +    +  +  +  + LS   
Sbjct: 382 PLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNK 441

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS----LARLLALQYLDLYDTRIEEVPEG-M 152
              L  +  + + +L+ L L     LK V S       L  L  LDL +  I  + +  +
Sbjct: 442 YLQLTRNSFALVPSLQRLMLRRV-ALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDML 500

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPR--------LRSLYKLKLSF 189
           E LE L  L L    L +      P         L  L+ L L  
Sbjct: 501 EGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLES 545

>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 = 70.4 bits (173), Expect = 4e-13
 Identities = 34/166 (20%), Positives = 67/166 (40%), Gaps = 17/166 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSP--HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           +L+R+ L R  ++ + S+ SP      L+ L L  N N+  I +     +  L++++L  
Sbjct: 455 SLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLEKLEILDLQH 513

Query: 97  TDIEVL---------PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRI 145
            ++  L            +  L++L  L+L        +P      L  L+ +DL    +
Sbjct: 514 NNLARLWKHANPGGPIYFLKGLSHLHILNLESNG-FDEIPVEVFKDLFELKIIDLGLNNL 572

Query: 146 EEVPEGM-EMLENLSHLYLSSLQLKKFPAGIL-PRLRSLYKLKLSF 189
             +P  +     +L  L L    +      +  P  R+L +L + F
Sbjct: 573 NTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRF 618

>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 = 69.3 bits (170), Expect = 9e-13
 Identities = 37/164 (22%), Positives = 60/164 (36%), Gaps = 14/164 (8%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPEC--FFVHMHGLKVVNLSS 96
           N+  + L  N   ++  N       L  L+L+R   L+ +      F  +  L +++LS+
Sbjct: 431 NIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRV-ALKNVDSSPSPFQPLRNLTILDLSN 489

Query: 97  TDIEVLPSSV-SDLTNLRSLSLG-------WCRRLKRVP--SLARLLALQYLDLYDTRIE 146
            +I  +   +   L  L  L L        W       P   L  L  L  L+L     +
Sbjct: 490 NNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFD 549

Query: 147 EVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           E+P  + + L  L  + L    L   PA +     SL  L L  
Sbjct: 550 EIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQK 593

>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 = 65.4 bits (160), Expect = 1e-11
 Identities = 32/167 (19%), Positives = 59/167 (35%), Gaps = 18/167 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE--CFFVHMHGLKVVNLSS 96
           +L+++ L  N I+E           L  L L   +    + E  C  +    ++ ++LS+
Sbjct: 172 SLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSN 231

Query: 97  TDIEVLPSSV---SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG 151
           + +    ++       TNL  L L +   L  V   S A L  L+Y  L    I+ +   
Sbjct: 232 SQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSH 290

Query: 152 M----------EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
                       +  + +   +S   L K        L+ L  L + 
Sbjct: 291 SLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNME 337

>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 = 84.0 bits (208), Expect = 2e-17
 Identities = 74/404 (18%), Positives = 131/404 (32%), Gaps = 53/404 (13%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
             ++ + L  N I  I       C  L  L+L+ +  +  I    F  +  L+ ++LS  
Sbjct: 26  AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDN 84

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCR--RLKRVPSLARLLALQYLDLYDT-RIEEVPEGM- 152
            +  L SS    L++L+ L+L       L        L  LQ L + +     E+     
Sbjct: 85  HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF 144

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFE 212
             L +L+ L + +L L+ + +  L  +R ++ L L          +E  A +   + Y E
Sbjct: 145 AGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE--SAFLLEIFADILSSVRYLE 202

Query: 213 GYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKET 272
              + L  F       D   S    LA     +       L       L   ++     T
Sbjct: 203 LRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCT 262

Query: 273 IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLF---- 328
           +  L D    +   V E+  +  V  R L +     F     V  +   + +K +     
Sbjct: 263 LNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTV--YSLLEKVKRITVENS 320

Query: 329 SLRLLPA-----LQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLR 383
            + L+P      L++L+ L  +S N + E                        P L+ L 
Sbjct: 321 KVFLVPCSFSQHLKSLEFL-DLSENLMVEEYLKNSACKG------------AWPSLQTLV 367

Query: 384 FYDLPEFKSFCSYNGVLVCNSLQEIEV-----RRCPKLKRLSLS 422
                              N L+ ++           L  L +S
Sbjct: 368 LSQ----------------NHLRSMQKTGEILLTLKNLTSLDIS 395

>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 = 82.1 bits (203), Expect = 6e-17
 Identities = 26/153 (16%), Positives = 58/153 (37%), Gaps = 10/153 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            + R+ + +  +    S +    E +  + ++ +  +  +P  F  H+  L+ ++LS   
Sbjct: 287 TIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLVPCSFSQHLKSLEFLDLSENL 345

Query: 99  IEVL----PSSVSDLTNLRSLSLGWCRRLKRVPSLARLLA----LQYLDLYDTRIEEVPE 150
           +        +      +L++L L     L+ +     +L     L  LD+       +P+
Sbjct: 346 MVEEYLKNSACKGAWPSLQTLVLSQNH-LRSMQKTGEILLTLKNLTSLDISRNTFHPMPD 404

Query: 151 GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
             +  E +  L LSS  ++     I   L  L 
Sbjct: 405 SCQWPEKMRFLNLSSTGIRVVKTCIPQTLEVLD 437

>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 = 71.7 bits (176), Expect = 2e-13
 Identities = 37/152 (24%), Positives = 67/152 (44%), Gaps = 10/152 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEI--LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           +L+ + L +N++  +         +  L++L + RN     +P+        ++ +NLSS
Sbjct: 362 SLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRN-TFHPMPDSCQ-WPEKMRFLNLSS 419

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
           T I V+ + +     L  L +     L        L  LQ L +   +++ +P+   +  
Sbjct: 420 TGIRVVKTCI--PQTLEVLDVSNNN-LDSFSL--FLPRLQELYISRNKLKTLPDAS-LFP 473

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L  + +S  QLK  P GI  RL SL K+ L 
Sbjct: 474 VLLVMKISRNQLKSVPDGIFDRLTSLQKIWLH 505

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

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 21/141 (14%), Positives = 52/141 (36%), Gaps = 33/141 (23%)

Query: 26  RLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVH 85
                P   +W E +  ++L    I  + + +                            
Sbjct: 398 TFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIPQT------------------------- 432

Query: 86  MHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRI 145
              L+V+++S+ +++        L  L+ L +    +LK +P  +    L  + +   ++
Sbjct: 433 ---LEVLDVSNNNLDSFS---LFLPRLQELYISRN-KLKTLPDASLFPVLLVMKISRNQL 485

Query: 146 EEVPEG-MEMLENLSHLYLSS 165
           + VP+G  + L +L  ++L +
Sbjct: 486 KSVPDGIFDRLTSLQKIWLHT 506

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

 Score = 83.8 bits (207), Expect = 3e-17
 Identities = 30/173 (17%), Positives = 61/173 (35%), Gaps = 15/173 (8%)

Query: 27  LLEFPGEQEWEENLERVSLMRNNIEEIPSNMS-PHCEILSTLLLQRNENLQRIPECFFVH 85
                 +++    ++   +  NN+EE P++ S      L  L    N  ++ +    F  
Sbjct: 537 WTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN-KVRHLEA--FGT 593

Query: 86  MHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLY 141
              L  + L    IE +P    +    +  L     + LK +P   +   +  +  +D  
Sbjct: 594 NVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFS 652

Query: 142 DTRIEEVPEGMEM------LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             +I      +          N S + LS  +++KFP  +      +  + LS
Sbjct: 653 YNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILS 705

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

 Score = 76.8 bits (189), Expect = 5e-15
 Identities = 25/166 (15%), Positives = 57/166 (34%), Gaps = 18/166 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSP-------HCEILSTLLLQRNENLQRIP-ECFFVHMHGLK 90
            +  + L  N +  IP N          +  +L+T+ L+ N  L  +  +     +  L 
Sbjct: 698 PISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFN-KLTSLSDDFRATTLPYLS 756

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSL------GWCRRLKRVP-SLARLLALQYLDLYDT 143
            +++S       P+   + + L++  +         R L++ P  +    +L  L +   
Sbjct: 757 NMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN 816

Query: 144 RIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            I +V E  ++   L  L ++           +          L +
Sbjct: 817 DIRKVDE--KLTPQLYILDIADNPNISIDVTSVCPYIEAGMYVLLY 860

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

 Score = 76.8 bits (189), Expect = 5e-15
 Identities = 30/162 (18%), Positives = 60/162 (37%), Gaps = 19/162 (11%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECF-------FVHMHGLKV 91
           N   V+L  N I++ P+ +      +ST++L  N  +  IPE         + + + L  
Sbjct: 674 NASTVTLSYNEIQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTT 732

Query: 92  VNLSSTDIEVLPSS--VSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRI--- 145
           ++L    +  L      + L  L ++ + +       P        L+   +   R    
Sbjct: 733 IDLRFNKLTSLSDDFRATTLPYLSNMDVSYNC-FSSFPTQPLNSSQLKAFGIRHQRDAEG 791

Query: 146 ----EEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
                + P G+    +L  L + S  ++K    + P+L  L 
Sbjct: 792 NRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKLTPQLYILD 833

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

 Score = 69.9 bits (171), Expect = 7e-13
 Identities = 19/165 (11%), Positives = 51/165 (30%), Gaps = 17/165 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEI---------LSTLLLQRNENLQRIP-ECFFVHMHG 88
            L+ +++  N         +    +         +    +  N NL+  P       M  
Sbjct: 516 ELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVK 574

Query: 89  LKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIE 146
           L +++     +  L +       L  L L + + ++ +P    A    ++ L     +++
Sbjct: 575 LGLLDCVHNKVRHLEA-FGTNVKLTDLKLDYNQ-IEEIPEDFCAFTDQVEGLGFSHNKLK 632

Query: 147 EVPEGMEM--LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            +P       +  +  +  S  ++      I   +     +  S 
Sbjct: 633 YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAST 677

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

 Score = 65.7 bits (160), Expect = 1e-11
 Identities = 25/162 (15%), Positives = 46/162 (28%), Gaps = 18/162 (11%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
              ++  + N I  I   +      L  +    +                          
Sbjct: 426 KDTQIGNLTNRITFISKAIQ-RLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQYEN- 482

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEM--- 154
                 S S+L +L  + L  C  + ++P  L  L  LQ L++   R     +       
Sbjct: 483 ---EELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTR 539

Query: 155 -------LENLSHLYLSSLQLKKFPAGI-LPRLRSLYKLKLS 188
                     +   Y+    L++FPA   L ++  L  L   
Sbjct: 540 LADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCV 581

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

 Score = 56.0 bits (135), Expect = 2e-08
 Identities = 24/174 (13%), Positives = 57/174 (32%), Gaps = 29/174 (16%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ +S   ++                    +++       + F  +   L + +L    
Sbjct: 348 ELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDA 407

Query: 99  I----EVLPSSVSDLTNLRSLSLGWCR-RLKRVP-SLARLLALQYLDLYDTRIEEVPEGM 152
           I    E+ P       +L+   +G    R+  +  ++ RL  LQ +   ++        +
Sbjct: 408 INRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAV 467

Query: 153 EM--------------------LENLSHLYLSSL-QLKKFPAGI--LPRLRSLY 183
           +                     L++L+ + L +   + + P  +  LP L+SL 
Sbjct: 468 DWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLN 521

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

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 61/420 (14%), Positives = 110/420 (26%), Gaps = 92/420 (21%)

Query: 48  NNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVS 107
           +   + P     +   ++ L L       R+P+     +  LKV++  +    V      
Sbjct: 309 DMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIG-QLTELKVLSFGTHSETVSGRLFG 367

Query: 108 DLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLS 164
           D      +S     R++       L     L   DL    I   PE M+ ++  S + L 
Sbjct: 368 DEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPE-MKPIKKDSRISLK 426

Query: 165 SL-------QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFST 217
                    ++      I  RL  L  +  +                             
Sbjct: 427 DTQIGNLTNRITFISKAI-QRLTKLQIIYFANSP-------------------------- 459

Query: 218 LKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGC-KICEIKETIVLL 276
               NI V   D                       L     V LY C  + ++ + +  L
Sbjct: 460 FTYDNIAVDWEDANSDYAKQYENEELSWSNL--KDLTD---VELYNCPNMTQLPDFLYDL 514

Query: 277 KDVQCL-----QMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCK--------- 322
            ++Q L     +     ++ +    L  +            +++                
Sbjct: 515 PELQSLNIACNRGISAAQLKADWTRLADDED------TGPKIQIFYMGYNNLEEFPASAS 568

Query: 323 --NLKNLFSLRL-------LPALQNLKVLAV--ISCNSIEEIVAVEDEDTEK----ELAT 367
              +  L  L         L A      L    +  N IEEI       T++      + 
Sbjct: 569 LQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSH 628

Query: 368 N---TIINTVTLPRLKKLRFYDLPEFKSFCSYN--GVLVCNSLQEIEVRRCPKLKRLSLS 422
           N    I N      +  +   D        SYN  G    N    ++  +      ++LS
Sbjct: 629 NKLKYIPNIFNAKSVYVMGSVDF-------SYNKIGSEGRNISCSMDDYKGINASTVTLS 681

>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 = 81.8 bits (202), Expect = 3e-17
 Identities = 41/154 (26%), Positives = 66/154 (42%), Gaps = 8/154 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHG-LKVVNLSST 97
           NL+ + +    I+ +P     H      L +Q N N+  I    FV +     ++ L+  
Sbjct: 105 NLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKN 164

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEML 155
            I+ + +S  + T L  L+L     L+ +P            LD+  TRI  +P     L
Sbjct: 165 GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY--GL 222

Query: 156 ENLSHL-YLSSLQLKKFPAGILPRLRSLYKLKLS 188
           ENL  L   S+  LKK P   L +L +L +  L+
Sbjct: 223 ENLKKLRARSTYNLKKLPT--LEKLVALMEASLT 254

>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 = 74.9 bits (184), Expect = 6e-15
 Identities = 27/156 (17%), Positives = 60/156 (38%), Gaps = 6/156 (3%)

Query: 39  NLERVSLMRNNI-EEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           +LE++ + +N++ E I +++  +   L  + +++  NL  I    F ++  L+ + +S+T
Sbjct: 55  DLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT 114

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLA-LQYLDLYDTRIEEVPEGM- 152
            I+ LP            L +     +  +   S   L      L L    I+E+     
Sbjct: 115 GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAF 174

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              +        +  L++ P  +         L +S
Sbjct: 175 NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS 210

>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 = 72.6 bits (178), Expect = 4e-14
 Identities = 25/160 (15%), Positives = 57/160 (35%), Gaps = 9/160 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS-ST 97
           N   +  +   +  I          L  + + +N+ L+ I    F ++  L  + +  + 
Sbjct: 31  NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN 90

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYD-TRIEEVPEGM- 152
           ++  +      +L NL+ L +     +K +P +     L    LD+ D   I  +     
Sbjct: 91  NLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSF 149

Query: 153 -EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
             +      L+L+   +++         +   +L LS  N
Sbjct: 150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLD-ELNLSDNN 188

>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 = 79.7 bits (197), Expect = 1e-16
 Identities = 33/154 (21%), Positives = 62/154 (40%), Gaps = 10/154 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-- 96
            LER+ L +N ++E+P  M      L  L +  N  + ++ +  F  ++ + VV L +  
Sbjct: 101 KLERLYLSKNQLKELPEKMPKT---LQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNP 156

Query: 97  -TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EM 154
                +   +   +  L  + +     +  +P      +L  L L   +I +V     + 
Sbjct: 157 LKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGL-PPSLTELHLDGNKITKVDAASLKG 214

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L NL+ L LS   +     G L     L +L L+
Sbjct: 215 LNNLAKLGLSFNSISAVDNGSLANTPHLRELHLN 248

>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 = 79.3 bits (196), Expect = 2e-16
 Identities = 41/177 (23%), Positives = 72/177 (40%), Gaps = 28/177 (15%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            +   + L  N I EI      + + L TL+L  N  + +I    F  +  L+ + LS  
Sbjct: 52  PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKN 110

Query: 98  DIEVLPSSV----------------------SDLTNLRSLSLGWCR-RLKRVPSLA--RL 132
            ++ LP  +                      + L  +  + LG    +   + + A   +
Sbjct: 111 QLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM 170

Query: 133 LALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
             L Y+ + DT I  +P+G  +  +L+ L+L   ++ K  A  L  L +L KL LSF
Sbjct: 171 KKLSYIRIADTNITTIPQG--LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF 225

>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 = 74.3 bits (183), Expect = 7e-15
 Identities = 33/195 (16%), Positives = 67/195 (34%), Gaps = 33/195 (16%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNE-NLQRIPECFFVHMHGLKVVNLSST 97
            L+ + +  N I ++  ++      +  + L  N      I    F  M  L  + ++ T
Sbjct: 122 TLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT 181

Query: 98  DIEVLPSSV----------------------SDLTNLRSLSLGWCRRLKRVP--SLARLL 133
           +I  +P  +                        L NL  L L +   +  V   SLA   
Sbjct: 182 NITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGSLANTP 240

Query: 134 ALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA------GILPRLRSLYKLKL 187
            L+ L L + ++ +VP G+   + +  +YL +  +    +      G   +  S   + L
Sbjct: 241 HLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSL 300

Query: 188 SFGNEALRETVEEAA 202
              N      ++ + 
Sbjct: 301 F-SNPVQYWEIQPST 314

>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 = 66.9 bits (164), Expect = 2e-12
 Identities = 28/150 (18%), Positives = 56/150 (37%), Gaps = 28/150 (18%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L  V      +E++P ++ P   +L    LQ N  +  I +  F ++  L  + L +  
Sbjct: 32  HLRVVQCSDLGLEKVPKDLPPDTALLD---LQNN-KITEIKDGDFKNLKNLHTLILINNK 87

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  +                           A L+ L+ L L   +++E+PE M   + L
Sbjct: 88  ISKISPGA----------------------FAPLVKLERLYLSKNQLKELPEKM--PKTL 123

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L +   ++ K    +   L  +  ++L 
Sbjct: 124 QELRVHENEITKVRKSVFNGLNQMIVVELG 153

>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 = 42.3 bits (100), Expect = 2e-04
 Identities = 18/113 (15%), Positives = 35/113 (30%), Gaps = 35/113 (30%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL ++ L  N+I  + +    +   L  L L  N  L ++P         ++VV L + +
Sbjct: 217 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLA-DHKYIQVVYLHNNN 274

Query: 99  IEVLPSSV---------------------------------SDLTNLRSLSLG 118
           I  + S+                                    +    ++ LG
Sbjct: 275 ISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLG 327

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

 Score = 80.1 bits (198), Expect = 1e-16
 Identities = 31/147 (21%), Positives = 56/147 (38%), Gaps = 9/147 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            +E +    N+I  +   ++     L+ L LQ N NL        ++  GL  V+LS  +
Sbjct: 206 AVEELDASHNSINVVRGPVNVE---LTILKLQHN-NLTDTAW--LLNYPGLVEVDLSYNE 259

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLAR-LLALQYLDLYDTRIEEVPEGMEMLE 156
           +E +       +  L  L +   R L  +    + +  L+ LDL    +  V       +
Sbjct: 260 LEKIMYHPFVKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFD 318

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLY 183
            L +LYL    +          L++L 
Sbjct: 319 RLENLYLDHNSIVTLKLSTHHTLKNLT 345

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

 Score = 78.9 bits (195), Expect = 4e-16
 Identities = 32/167 (19%), Positives = 63/167 (37%), Gaps = 21/167 (12%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L RN++  +P  +  +   L+TL +  N NL+RI +  F     L+ + LSS  
Sbjct: 118 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNR 176

Query: 99  IEVLP-----------------SSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLY 141
           +  +                  S+++    +  L       +  V      + L  L L 
Sbjct: 177 LTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNS-INVVRGPV-NVELTILKLQ 234

Query: 142 DTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              + +    +     L  + LS  +L+K       +++ L +L +S
Sbjct: 235 HNNLTDTA-WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYIS 280

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

 Score = 74.7 bits (184), Expect = 1e-14
 Identities = 31/141 (21%), Positives = 51/141 (36%), Gaps = 7/141 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  NN+ +    +  +   L  + L  NE L++I    FV M  L+ + +S+  
Sbjct: 227 ELTILKLQHNNLTDTAWLL--NYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISNNR 283

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
           +  L      +  L+ L L     L  V  +  +   L+ L L    I  +         
Sbjct: 284 LVALNLYGQPIPTLKVLDLSHNH-LLHVERNQPQFDRLENLYLDHNSIVTLKLST--HHT 340

Query: 158 LSHLYLSSLQLKKFPAGILPR 178
           L +L LS           L R
Sbjct: 341 LKNLTLSHNDWDCNSLRALFR 361

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

 Score = 71.2 bits (175), Expect = 1e-13
 Identities = 24/154 (15%), Positives = 62/154 (40%), Gaps = 11/154 (7%)

Query: 44  SLMRNNIEEIPSNMSPHCEILS-----TLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
                +I+    ++    E ++      +  + +  ++++P         ++++NL+   
Sbjct: 22  VFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQ 80

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EM 154
           IE + +   +    ++ L +G+   ++ +P      +  L  L L    +  +P G+   
Sbjct: 81  IEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHN 139

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              L+ L +S+  L++          SL  L+LS
Sbjct: 140 TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS 173

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

 Score = 66.2 bits (162), Expect = 5e-12
 Identities = 26/140 (18%), Positives = 57/140 (40%), Gaps = 7/140 (5%)

Query: 53  IPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTN 111
           I SN+   C      +  + +++    E   + ++  K+V   ++ +  LP+++      
Sbjct: 13  IDSNLQYDCVFYDVHIDMQTQDVYFGFE--DITLNNQKIVTFKNSTMRKLPAALLDSFRQ 70

Query: 112 LRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQL 168
           +  L+L   + ++ +   + A    +Q L +    I  +P  + + +  L+ L L    L
Sbjct: 71  VELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL 129

Query: 169 KKFPAGILPRLRSLYKLKLS 188
              P GI      L  L +S
Sbjct: 130 SSLPRGIFHNTPKLTTLSMS 149

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

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 10/90 (11%), Positives = 34/90 (37%), Gaps = 2/90 (2%)

Query: 102 LPSSVSDLTNLRSLSLGW-CRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLENLS 159
           + S++        + +    + +        L   + +   ++ + ++P  + +    + 
Sbjct: 13  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVE 72

Query: 160 HLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            L L+ LQ+++          ++ KL + F
Sbjct: 73  LLNLNDLQIEEIDTYAFAYAHTIQKLYMGF 102

>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 = 80.3 bits (198), Expect = 2e-16
 Identities = 19/149 (12%), Positives = 51/149 (34%), Gaps = 9/149 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           ++E +    NNI  +  +          + L  N  +  + +        ++ ++L   +
Sbjct: 100 SIETLHAANNNISRVSCSRGQG---KKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNE 155

Query: 99  IEVLPSS--VSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
           I+ +  +   +    L  L+L +   +  V        L+ LDL   ++  +    +   
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNF-IYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAA 214

Query: 157 NLSHLYLSSLQLKKFPAGI--LPRLRSLY 183
            ++ + L + +L      +     L    
Sbjct: 215 GVTWISLRNNKLVLIEKALRFSQNLEHFD 243

>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 = 78.4 bits (193), Expect = 9e-16
 Identities = 24/150 (16%), Positives = 55/150 (36%), Gaps = 8/150 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
             +   +  +++++  +++      +  L L  N  L +I          L+++NLSS  
Sbjct: 11  RYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLSSNV 69

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +      +  L+ LR+L L        V  L    +++ L   +  I  V       +  
Sbjct: 70  LYETLD-LESLSTLRTLDLNNNY----VQELLVGPSIETLHAANNNISRVSC--SRGQGK 122

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            ++YL++ ++             +  L L 
Sbjct: 123 KNIYLANNKITMLRDLDEGCRSRVQYLDLK 152

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 67.2 bits (164), Expect = 4e-12
 Identities = 20/130 (15%), Positives = 45/130 (34%), Gaps = 5/130 (3%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIP-ECFFVHMHGLKVVNLSS 96
           +  + + L  N I  +          +  L L+ N  +  +           L+ +NL  
Sbjct: 120 QGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDTLEHLNLQY 178

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEML 155
             I  +   V     L++L L   + L  +         + ++ L + ++  + + +   
Sbjct: 179 NFIYDVKGQVV-FAKLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS 236

Query: 156 ENLSHLYLSS 165
           +NL H  L  
Sbjct: 237 QNLEHFDLRG 246

>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 = 62.9 bits (153), Expect = 8e-11
 Identities = 24/166 (14%), Positives = 57/166 (34%), Gaps = 5/166 (3%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFV 84
           +  + F       + LE ++L  N I ++   +      L TL L  N  L  +   F  
Sbjct: 156 IDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV--FAKLKTLDLSSN-KLAFMGPEFQ- 211

Query: 85  HMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTR 144
              G+  ++L +  + ++  ++    NL    L                  +   +    
Sbjct: 212 SAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQT 271

Query: 145 IEEVP-EGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           ++++  +  E     +  +  +   +  PA    RL +L + + + 
Sbjct: 272 VKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHAL 317

>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 = 51.8 bits (124), Expect = 2e-07
 Identities = 19/104 (18%), Positives = 46/104 (44%), Gaps = 7/104 (6%)

Query: 83  FVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLD 139
             + +  K+  ++ + ++   +S+     N++ L L     L ++    LA    L+ L+
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLN 64

Query: 140 LYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
           L    + E  + +E L  L  L L++  +++      P + +L+
Sbjct: 65  LSSNVLYETLD-LESLSTLRTLDLNNNYVQELLV--GPSIETLH 105

>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 = 51.8 bits (124), Expect = 3e-07
 Identities = 23/180 (12%), Positives = 49/180 (27%), Gaps = 33/180 (18%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ + L  N +  +          ++ + L+ N  L  I +        L+  +L    
Sbjct: 192 KLKTLDLSSNKLAFMGPEFQ-SAAGVTWISLRNN-KLVLIEKALR-FSQNLEHFDLRGNG 248

Query: 99  IE--VLPSSVSDLTNLRSLSL-----------------------GWCRRLKRVPSLARLL 133
                L    S    +++++                         +C      P   RL+
Sbjct: 249 FHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLI 308

Query: 134 AL-----QYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           AL       L    +  E +    E       +     Q +     +  R ++   L+  
Sbjct: 309 ALKRKEHALLSGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQK 368

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.0 bits (96), Expect = 7e-04
 Identities = 18/145 (12%), Positives = 45/145 (31%), Gaps = 3/145 (2%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
           G        E+E +     +  ++     +   ++   +   TL  ++   L        
Sbjct: 322 GSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQKKKA-LDEQVSNGR 380

Query: 84  VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRV--PSLARLLALQYLDLY 141
                L      +     L  +  + + L+ L     R  +        +  A++  D+Y
Sbjct: 381 RAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVEQQSVQNNAIRDWDMY 440

Query: 142 DTRIEEVPEGMEMLENLSHLYLSSL 166
             +  ++ E    L+ L+     +L
Sbjct: 441 QHKETQLAEENARLKKLNGEADLAL 465

>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 = 80.5 bits (199), Expect = 2e-16
 Identities = 42/156 (26%), Positives = 72/156 (46%), Gaps = 9/156 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE-CFFVHMHGLKVVNLSST 97
           +L+ + L  N +  + SN     E L  L  Q + NL+++ E   F+ +  L  +++S T
Sbjct: 374 SLKYLDLSFNGVITMSSN-FLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT 431

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYDTRIEEVPEGM- 152
              V  + + + L++L  L +      +          L  L +LDL   ++E++     
Sbjct: 432 HTRVAFNGIFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAF 490

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L +L  L ++S QLK  P GI  RL SL K+ L 
Sbjct: 491 NSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH 526

>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 = 79.4 bits (196), Expect = 6e-16
 Identities = 35/156 (22%), Positives = 61/156 (39%), Gaps = 7/156 (4%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            + + + L  N +  + S        L  L L R   +Q I +  +  +  L  + L+  
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGN 86

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGMEM 154
            I+ L     S L++L+ L       L  + +  +  L  L+ L++    I+        
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 155 --LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L NL HL LSS +++      L  L  +  L LS
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS 181

>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 = 72.8 bits (179), Expect = 6e-14
 Identities = 33/152 (21%), Positives = 60/152 (39%), Gaps = 10/152 (6%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
              M  N  +IP N+         L L  N  L+ +    F     L+V++LS  +I+ +
Sbjct: 12  YQCMELNFYKIPDNLPFS---TKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTI 67

Query: 103 PSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EMLENL 158
                  L++L +L L     ++ +     + L +LQ L   +T +  +       L+ L
Sbjct: 68  EDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL 126

Query: 159 SHLYLSSLQLKKFPAG-ILPRLRSLYKLKLSF 189
             L ++   ++ F        L +L  L LS 
Sbjct: 127 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

>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 = 72.4 bits (178), Expect = 9e-14
 Identities = 31/155 (20%), Positives = 58/155 (37%), Gaps = 11/155 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-- 96
             + + L+     + P+        L  L    N           V +  L+ ++LS   
Sbjct: 305 GWQHLELVNCKFGQFPTLKLKS---LKRLTFTSN-KGGNAFS--EVDLPSLEFLDLSRNG 358

Query: 97  -TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEG--ME 153
            +       S    T+L+ L L +   +    +   L  L++LD   + ++++ E     
Sbjct: 359 LSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFL 418

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L NL +L +S    +    GI   L SL  LK++
Sbjct: 419 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA 453

>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 = 65.1 bits (159), Expect = 2e-11
 Identities = 34/162 (20%), Positives = 56/162 (34%), Gaps = 11/162 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L  + L  N I+ +          L  L+     NL  +      H+  LK +N++   
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNL 135

Query: 99  IEVL--PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQY----LDLYDTRIEEVPE 150
           I+    P   S+LTNL  L L   + ++ +    L  L  +      LDL    +  +  
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP 194

Query: 151 GMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSFGN 191
           G      L  L L +           +  L  L   +L  G 
Sbjct: 195 GAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGE 236

>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 = 64.4 bits (157), Expect = 3e-11
 Identities = 25/134 (18%), Positives = 46/134 (34%), Gaps = 8/134 (5%)

Query: 60  HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLG 118
              + +        N  +IP+         K ++LS   +  L S        L+ L L 
Sbjct: 4   VEVVPNITYQCMELNFYKIPDNLPFS---TKNLDLSFNPLRHLGSYSFFSFPELQVLDLS 60

Query: 119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGI 175
            C  ++ +   +   L  L  L L    I+ +  G    L +L  L      L       
Sbjct: 61  RCE-IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP 119

Query: 176 LPRLRSLYKLKLSF 189
           +  L++L +L ++ 
Sbjct: 120 IGHLKTLKELNVAH 133

>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 = 61.7 bits (150), Expect = 2e-10
 Identities = 38/168 (22%), Positives = 58/168 (34%), Gaps = 11/168 (6%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFV 84
             L +         N+   SL+   IE +      +      L L       + P    +
Sbjct: 269 YYLDDIIDLFNCLTNVSSFSLVSVTIERVKDF--SYNFGWQHLELVNC-KFGQFP---TL 322

Query: 85  HMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCR-RLKRVPSLA--RLLALQYLDLY 141
            +  LK +  +S       S V DL +L  L L       K   S +     +L+YLDL 
Sbjct: 323 KLKSLKRLTFTSNKGGNAFSEV-DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381

Query: 142 DTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA-GILPRLRSLYKLKLS 188
              +  +      LE L HL      LK+     +   LR+L  L +S
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429

>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 = 51.6 bits (124), Expect = 3e-07
 Identities = 24/108 (22%), Positives = 46/108 (42%), Gaps = 6/108 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQR-IPECFFVHMHGLKVVNLSST 97
           NL  + +   +     + +      L  L +  N + Q       F  +  L  ++LS  
Sbjct: 422 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELRNLTFLDLSQC 480

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYD 142
            +E L  +  + L++L+ L++    +LK VP     RL +LQ + L+ 
Sbjct: 481 QLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHT 527

>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 = 77.0 bits (190), Expect = 4e-16
 Identities = 49/155 (31%), Positives = 72/155 (46%), Gaps = 7/155 (4%)

Query: 41  ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE 100
           E++ L    +  +          L+ L L  N+ LQ +    F  +  L  + L++  + 
Sbjct: 38  EKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ-LQTLSAGVFDDLTELGTLGLANNQLA 96

Query: 101 VLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EMLE 156
            LP  V D LT L  L LG   +LK +PS    RL  L+ L L   +++ +P G  + L 
Sbjct: 97  SLPLGVFDHLTQLDKLYLG-GNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLT 155

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           NL  L LS+ QL+  P G   RL  L  + L FGN
Sbjct: 156 NLQTLSLSTNQLQSVPHGAFDRLGKLQTITL-FGN 189

>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 = 60.1 bits (146), Expect = 2e-10
 Identities = 38/131 (29%), Positives = 62/131 (47%), Gaps = 6/131 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  ++L  N ++ + + +      L TL L  N+ L  +P   F H+  L  + L    
Sbjct: 60  KLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ-LASLPLGVFDHLTQLDKLYLGGNQ 118

Query: 99  IEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EM 154
           ++ LPS V D LT L+ L L    +L+ +P+ A  +L  LQ L L   +++ VP G  + 
Sbjct: 119 LKSLPSGVFDRLTKLKELRLN-TNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDR 177

Query: 155 LENLSHLYLSS 165
           L  L  + L  
Sbjct: 178 LGKLQTITLFG 188

>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 = 5e-05
 Identities = 26/104 (25%), Positives = 44/104 (42%), Gaps = 6/104 (5%)

Query: 88  GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRI 145
           G K V+     ++ +PS +    +   L L     L  +       L  L +L+L   ++
Sbjct: 15  GKKEVDCQGKSLDSVPSGIP--ADTEKLDLQS-TGLATLSDATFRGLTKLTWLNLDYNQL 71

Query: 146 EEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           + +  G+ + L  L  L L++ QL   P G+   L  L KL L 
Sbjct: 72  QTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLG 115

>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 = 79.0 bits (195), Expect = 5e-16
 Identities = 40/171 (23%), Positives = 65/171 (38%), Gaps = 8/171 (4%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEI--LSTLLLQRNENLQRIPEC 81
            +   +              S    N ++  +      E   + T  L ++  +  + + 
Sbjct: 235 AIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKS-KIFALLKS 293

Query: 82  FFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYL 138
            F H   L+ + L+  +I  +  +    LT+L  L+L     L  + S     L  L+ L
Sbjct: 294 VFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLS-QNFLGSIDSRMFENLDKLEVL 352

Query: 139 DLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           DL    I  + +     L NL  L L + QLK  P GI  RL SL K+ L 
Sbjct: 353 DLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLH 403

>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 = 74.4 bits (183), Expect = 2e-14
 Identities = 31/162 (19%), Positives = 58/162 (35%), Gaps = 6/162 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           ++  V L  N+I E+        + L  L +++      I    F  +  L ++ L    
Sbjct: 31  HVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ 90

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCR-RLKRVP--SLARLLALQYLDLYDTRIEEV-PEGM- 152
              L +   + L NL  L+L  C      +       L +L+ L L D  I+++ P    
Sbjct: 91  FLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFF 150

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL 194
             +     L L+  ++K      L   +  +   L   +  L
Sbjct: 151 LNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITL 192

>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 = 77.7 bits (191), Expect = 2e-15
 Identities = 31/147 (21%), Positives = 56/147 (38%), Gaps = 9/147 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            +E +    N+I  +   ++     L+ L LQ N NL        ++  GL  V+LS  +
Sbjct: 212 AVEELDASHNSINVVRGPVNVE---LTILKLQHN-NLTDTAW--LLNYPGLVEVDLSYNE 265

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLAR-LLALQYLDLYDTRIEEVPEGMEMLE 156
           +E +       +  L  L +   R L  +    + +  L+ LDL    +  V       +
Sbjct: 266 LEKIMYHPFVKMQRLERLYISNNR-LVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFD 324

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLY 183
            L +LYL    +          L++L 
Sbjct: 325 RLENLYLDHNSIVTLKLSTHHTLKNLT 351

>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 = 77.7 bits (191), Expect = 2e-15
 Identities = 32/167 (19%), Positives = 63/167 (37%), Gaps = 21/167 (12%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L RN++  +P  +  +   L+TL +  N NL+RI +  F     L+ + LSS  
Sbjct: 124 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNR 182

Query: 99  IEVLP-----------------SSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLY 141
           +  +                  S+++    +  L       +  V      + L  L L 
Sbjct: 183 LTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNS-INVVRGPV-NVELTILKLQ 240

Query: 142 DTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              + +    +     L  + LS  +L+K       +++ L +L +S
Sbjct: 241 HNNLTDTA-WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYIS 286

>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 = 72.3 bits (177), Expect = 1e-13
 Identities = 22/153 (14%), Positives = 54/153 (35%), Gaps = 14/153 (9%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            +L   ++  N +  +   ++     +  L    N ++  +     V    L ++ L   
Sbjct: 192 PSLFHANVSYNLLSTLAIPIA-----VEELDASHN-SINVVRGPVNVE---LTILKLQHN 242

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEML 155
           ++      + +   L  + L +   L+++      ++  L+ L + + R+  +    + +
Sbjct: 243 NLTDTA-WLLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPI 300

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L  L LS   L        P+   L  L L 
Sbjct: 301 PTLKVLDLSHNHLLHVERN-QPQFDRLENLYLD 332

>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 = 71.5 bits (175), Expect = 2e-13
 Identities = 27/168 (16%), Positives = 69/168 (41%), Gaps = 12/168 (7%)

Query: 31  PGEQEWEENLERVSLMRNN-IEEIPSNMSPHCEILS-----TLLLQRNENLQRIPECFFV 84
           P  +  + NL+   +  +  I+    ++    E ++      +  + +  ++++P     
Sbjct: 14  PEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLD 72

Query: 85  HMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLY 141
               ++++NL+   IE + +   +    ++ L +G+   ++ +P      +  L  L L 
Sbjct: 73  SFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLE 131

Query: 142 DTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              +  +P G+      L+ L +S+  L++          SL  L+LS
Sbjct: 132 RNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS 179

>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 = 68.8 bits (168), Expect = 1e-12
 Identities = 24/152 (15%), Positives = 57/152 (37%), Gaps = 10/152 (6%)

Query: 46  MRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF-----VHMHGLKVVNLSSTDIE 100
            R N++            L    +  + ++    +  +     + ++  K+V   ++ + 
Sbjct: 5   QRYNVKPRQPEYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMR 64

Query: 101 VLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLE 156
            LP+++      +  L+L   + ++ +   + A    +Q L +    I  +P  + + + 
Sbjct: 65  KLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVP 123

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L+ L L    L   P GI      L  L +S
Sbjct: 124 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMS 155

>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 = 7e-05
 Identities = 10/90 (11%), Positives = 34/90 (37%), Gaps = 2/90 (2%)

Query: 102 LPSSVSDLTNLRSLSLGW-CRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLENLS 159
           + S++        + +    + +        L   + +   ++ + ++P  + +    + 
Sbjct: 19  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVE 78

Query: 160 HLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            L L+ LQ+++          ++ KL + F
Sbjct: 79  LLNLNDLQIEEIDTYAFAYAHTIQKLYMGF 108

>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 = 77.8 bits (192), Expect = 2e-15
 Identities = 29/168 (17%), Positives = 60/168 (35%), Gaps = 18/168 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSP-------HCEILSTLLLQRNENLQRIPECFFV-HMHGLK 90
            L  ++LM N + EIP N          +  +L+++ L+ N  L ++ + F    +  L 
Sbjct: 458 PLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSDDFRATTLPYLV 516

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKR------VP-SLARLLALQYLDLYDT 143
            ++LS       P+   + + L+   +   R  +        P  +    +L  L +   
Sbjct: 517 GIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN 576

Query: 144 RIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
            I +V E  ++  N+S L +            +          L +  
Sbjct: 577 DIRKVNE--KITPNISVLDIKDNPNISIDLSYVCPYIEAGMYMLFYDK 622

>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 = 74.3 bits (183), Expect = 2e-14
 Identities = 33/170 (19%), Positives = 62/170 (36%), Gaps = 22/170 (12%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVH-MHGLKVVNLSS- 96
            L  ++L  N I EIP+N     E +  L    N  L+ IP  F    +  +  ++ S  
Sbjct: 354 KLASLNLAYNQITEIPANFCGFTEQVENLSFAHN-KLKYIPNIFDAKSVSVMSAIDFSYN 412

Query: 97  -------TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE 147
                   + + L  +     N+ S++L   + + + P    +    L  ++L    + E
Sbjct: 413 EIGSVDGKNFDPLDPTPFKGINVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGNMLTE 471

Query: 148 VPEG--------MEMLENLSHLYLSSLQLKKFPAGI-LPRLRSLYKLKLS 188
           +P+          +    L+ + L   +L K         L  L  + LS
Sbjct: 472 IPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLS 521

>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 = 70.5 bits (173), Expect = 4e-13
 Identities = 33/174 (18%), Positives = 61/174 (35%), Gaps = 19/174 (10%)

Query: 27  LLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECF---- 82
                       N+  ++L  N I + P  +      LS++ L  N  L  IP+      
Sbjct: 422 FDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGN-MLTEIPKNSLKDE 480

Query: 83  ---FVHMHGLKVVNLSSTDIEVLPSS--VSDLTNLRSLSLGWCRRLKRVP-SLARLLALQ 136
              F + + L  ++L    +  L      + L  L  + L +     + P        L+
Sbjct: 481 NENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYN-SFSKFPTQPLNSSTLK 539

Query: 137 YLDLYDTRI-------EEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
              + + R         E PEG+ +  +L+ L + S  ++K    I P +  L 
Sbjct: 540 GFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKITPNISVLD 593

>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 = 69.3 bits (170), Expect = 9e-13
 Identities = 33/175 (18%), Positives = 61/175 (34%), Gaps = 16/175 (9%)

Query: 27  LLEFPGEQEWEENLERVSLMRNNIEEIPSNMS-PHCEILSTLLLQRNENLQRIPECFFVH 85
             +   +    E ++ + +  NN++  P   S    + L  L    N  L+     F   
Sbjct: 294 DWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYN-QLEGKLPAFG-S 351

Query: 86  MHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLY 141
              L  +NL+   I  +P++       + +LS    + LK +P       +  +  +D  
Sbjct: 352 EIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK-LKYIPNIFDAKSVSVMSAIDFS 410

Query: 142 DTRIEEV--------PEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
              I  V                N+S + LS+ Q+ KFP  +      L  + L 
Sbjct: 411 YNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLM 465

>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 = 67.0 bits (164), Expect = 5e-12
 Identities = 21/137 (15%), Positives = 50/137 (36%), Gaps = 14/137 (10%)

Query: 64  LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP---------SSVSDLTNLRS 114
           L+ + +    NL ++P      +  ++++N++                 +       ++ 
Sbjct: 251 LTDVEVYNCPNLTKLPTFLK-ALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQI 309

Query: 115 LSLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKF 171
           + +G+   LK  P   SL ++  L  L+    ++E           L+ L L+  Q+ + 
Sbjct: 310 IYIGYNN-LKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEI 368

Query: 172 PAGILPRLRSLYKLKLS 188
           PA        +  L  +
Sbjct: 369 PANFCGFTEQVENLSFA 385

>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 = 62.8 bits (153), Expect = 1e-10
 Identities = 24/174 (13%), Positives = 52/174 (29%), Gaps = 17/174 (9%)

Query: 27  LLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHM 86
                          ++  + NNI  +   +      L    +  +        C     
Sbjct: 172 QKSIKKSSRITLKDTQIGQLSNNITFVSKAVM-RLTKLRQFYMGNS-PFVAENICEAWEN 229

Query: 87  HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRI 145
              +      T          +L +L  + +  C  L ++P  L  L  +Q +++   R 
Sbjct: 230 ENSEYAQQYKT----EDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRG 285

Query: 146 EEVPE---------GMEMLENLSHLYLSSLQLKKFPA-GILPRLRSLYKLKLSF 189
               +            + E +  +Y+    LK FP    L +++ L  L+  +
Sbjct: 286 ISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLY 339

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

 Score = 47.7 bits (114), Expect = 6e-06
 Identities = 19/160 (11%), Positives = 43/160 (26%), Gaps = 13/160 (8%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRN--------ENLQRIPECFFVHMHGL 89
            +  +SL        +P  +      L  L L  +           + I           
Sbjct: 82  RVTGLSLEGFGASGRVPDAIG-QLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQK 140

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARL-LALQYLDLYDTRIEEV 148
             ++   T ++  P    D ++L    +    + K +   +R+ L    +      I  V
Sbjct: 141 MRMHYQKTFVDYDPRE--DFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFV 198

Query: 149 PEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            + +  L  L   Y+ +               +    +  
Sbjct: 199 SKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQY 238

>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 = 76.3 bits (188), Expect = 2e-15
 Identities = 30/150 (20%), Positives = 57/150 (38%), Gaps = 15/150 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            LE + +  ++++          + +S L+L        + E F      ++ + L  TD
Sbjct: 175 FLEELEIDASDLQSYEPKSLKSIQNVSHLILHMK-QHILLLEIFVDVTSSVECLELRDTD 233

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           ++         + L +             SL +    + + + D  + +V + +  +  L
Sbjct: 234 LDTFH-----FSELSTGETN---------SLIKKFTFRNVKITDESLFQVMKLLNQISGL 279

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L  S  QLK  P GI  RL SL K+ L 
Sbjct: 280 LELEFSRNQLKSVPDGIFDRLTSLQKIWLH 309

>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 = 73.6 bits (181), Expect = 2e-14
 Identities = 34/156 (21%), Positives = 63/156 (40%), Gaps = 8/156 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            ++ + L  N I  I ++    C  L  L+L  N  +  I E  F  +  L+ ++LS   
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYNY 111

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYD-TRIEEVPEGM- 152
           +  L SS    L++L  L+L      K +      + L  LQ L + +     ++     
Sbjct: 112 LSNLSSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDF 170

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L  L  L + +  L+ +    L  ++++  L L 
Sbjct: 171 AGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILH 206

>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 = 51.3 bits (123), Expect = 3e-07
 Identities = 28/101 (27%), Positives = 42/101 (41%), Gaps = 6/101 (5%)

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEV 148
           +   SS  +  +PS ++    ++SL L   R +  + +  L R + LQ L L    I  +
Sbjct: 35  ICKGSSGSLNSIPSGLT--EAVKSLDLSNNR-ITYISNSDLQRCVNLQALVLTSNGINTI 91

Query: 149 PEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            E     L +L HL LS   L    +     L SL  L L 
Sbjct: 92  EEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL 132

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

 Score = 73.9 bits (182), Expect = 1e-14
 Identities = 31/153 (20%), Positives = 60/153 (39%), Gaps = 9/153 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+++ + +N++ EIP N+      L  L +  N  ++++P+  F  +  +  + +    
Sbjct: 103 KLQKLYISKNHLVEIPPNLPSS---LVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGNP 158

Query: 99  IE--VLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EML 155
           +E         D   L  L +    +L  +P       L  L L   +I+ +        
Sbjct: 159 LENSGFEPGAFDGLKLNYLRISEA-KLTGIPKDL-PETLNELHLDHNKIQAIELEDLLRY 216

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L  L L   Q++    G L  L +L +L L 
Sbjct: 217 SKLYRLGLGHNQIRMIENGSLSFLPTLRELHLD 249

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

 Score = 70.4 bits (173), Expect = 1e-13
 Identities = 21/140 (15%), Positives = 48/140 (34%), Gaps = 13/140 (9%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N I+ I          L  L L  N  ++ I       +  L+ ++L +  
Sbjct: 194 TLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN-QIRMIENGSLSFLPTLRELHLDNNK 252

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA--------RLLALQYLDLYDTRIE--EV 148
           +  +P+ + DL  L+ + L     + +V            +      + L++  +   EV
Sbjct: 253 LSRVPAGLPDLKLLQVVYLHTNN-ITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEV 311

Query: 149 PEGM-EMLENLSHLYLSSLQ 167
                  + +   +   + +
Sbjct: 312 QPATFRCVTDRLAIQFGNYK 331

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

 Score = 70.0 bits (172), Expect = 2e-13
 Identities = 33/176 (18%), Positives = 64/176 (36%), Gaps = 18/176 (10%)

Query: 38  ENLERVSLMRNNIEE--IPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS 95
            N+  + +  N +E            + L+ L +     L  IP+     ++ L   +L 
Sbjct: 147 RNMNCIEMGGNPLENSGFEPGAFDGLK-LNYLRISEA-KLTGIPKDLPETLNEL---HLD 201

Query: 96  STDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM 152
              I+ +        + L  L LG  + ++ +   SL+ L  L+ L L + ++  VP G+
Sbjct: 202 HNKIQAIELEDLLRYSKLYRLGLGHNQ-IRMIENGSLSFLPTLRELHLDNNKLSRVPAGL 260

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLR------SLYKLKLSFGNEALRETVEEAA 202
             L+ L  +YL +  + K        +           + L   N      V+ A 
Sbjct: 261 PDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLF-NNPVPYWEVQPAT 315

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

 Score = 63.5 bits (155), Expect = 3e-11
 Identities = 26/150 (17%), Positives = 56/150 (37%), Gaps = 28/150 (18%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L  V      ++ +P  +SP   +L    LQ N ++  + +  F  +  L  + L +  
Sbjct: 34  HLRVVQCSDLGLKAVPKEISPDTTLLD---LQNN-DISELRKDDFKGLQHLYALVLVNNK 89

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  +                           + L  LQ L +    + E+P  +    +L
Sbjct: 90  ISKIHEKA----------------------FSPLRKLQKLYISKNHLVEIPPNL--PSSL 125

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L +   +++K P G+   LR++  +++ 
Sbjct: 126 VELRIHDNRIRKVPKGVFSGLRNMNCIEMG 155

>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 = 74.7 bits (184), Expect = 2e-14
 Identities = 38/156 (24%), Positives = 67/156 (42%), Gaps = 7/156 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPEC-FFVHMHGLKVVNLSST 97
           +L  + L  N    + +N     E L  L  Q +  L+R+ E   F+ +  L  +++S T
Sbjct: 377 SLRHLDLSFNGAIIMSANFM-GLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDISYT 434

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-E 153
           + ++    +   LT+L +L +          S   A    L +LDL   ++E++  G+ +
Sbjct: 435 NTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFD 494

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            L  L  L +S   L    +    +L SL  L  SF
Sbjct: 495 TLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSF 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 = 74.7 bits (184), Expect = 2e-14
 Identities = 27/152 (17%), Positives = 58/152 (38%), Gaps = 10/152 (6%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
              M   + ++P ++         + L  N  L+ +    F +   L+ ++LS  +IE +
Sbjct: 16  YQCMDQKLSKVPDDIPSS---TKNIDLSFN-PLKILKSYSFSNFSELQWLDLSRCEIETI 71

Query: 103 PSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENL 158
                  L +L +L L     ++     S + L +L+ L   +T++  +       L  L
Sbjct: 72  EDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITL 130

Query: 159 SHLYLSSLQLKKFP-AGILPRLRSLYKLKLSF 189
             L ++   +           L +L  + LS+
Sbjct: 131 KKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSY 162

>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 = 73.5 bits (181), Expect = 4e-14
 Identities = 33/156 (21%), Positives = 63/156 (40%), Gaps = 7/156 (4%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            + + + L  N ++ + S    +   L  L L R   ++ I +  +  +H L  + L+  
Sbjct: 32  SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSNLILTGN 90

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEM 154
            I+       S LT+L +L      +L  +    + +L+ L+ L++    I         
Sbjct: 91  PIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYF 149

Query: 155 --LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             L NL H+ LS   ++      L  LR   ++ LS
Sbjct: 150 SNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLS 185

>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 = 73.1 bits (180), Expect = 6e-14
 Identities = 29/170 (17%), Positives = 65/170 (38%), Gaps = 8/170 (4%)

Query: 26  RLLEFPGEQEWEENLERVSLMRNNIEEIPSNMS-PHCEILSTLLLQRNENLQRIPECFFV 84
             +         E L+ +    + ++ +    +    E L  L +    N +   +  F+
Sbjct: 387 GAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYT-NTKIDFDGIFL 445

Query: 85  HMHGLKVVNLSS-TDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDL 140
            +  L  + ++  +  +   S+V ++ TNL  L L  C+ L+++       L  LQ L++
Sbjct: 446 GLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQ-LEQISWGVFDTLHRLQLLNM 504

Query: 141 YDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
               +  +       L +LS L  S  +++     +    +SL    L+ 
Sbjct: 505 SHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTN 554

>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 = 69.3 bits (170), Expect = 8e-13
 Identities = 30/157 (19%), Positives = 55/157 (35%), Gaps = 7/157 (4%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            +L  + L RN +              S   L  + N   I    F+ +  L+ ++   +
Sbjct: 350 PSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS 409

Query: 98  DIEVLP--SSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEV--PEG 151
            ++ +   S+   L  L  L + +    K         L +L  L +     ++      
Sbjct: 410 TLKRVTEFSAFLSLEKLLYLDISYT-NTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNV 468

Query: 152 MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
                NL+ L LS  QL++   G+   L  L  L +S
Sbjct: 469 FANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMS 505

>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 = 65.8 bits (161), Expect = 1e-11
 Identities = 28/141 (19%), Positives = 60/141 (42%), Gaps = 9/141 (6%)

Query: 54  PSNMSP-HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTN 111
           P +++P    + +      ++ L ++P+         K ++LS   +++L S   S+ + 
Sbjct: 1   PGSLNPCIEVVPNITYQCMDQKLSKVPDDIPSS---TKNIDLSFNPLKILKSYSFSNFSE 57

Query: 112 LRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQL 168
           L+ L L  C  ++ +   +   L  L  L L    I+    G    L +L +L     +L
Sbjct: 58  LQWLDLSRCE-IETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKL 116

Query: 169 KKFPAGILPRLRSLYKLKLSF 189
               +  + +L +L KL ++ 
Sbjct: 117 ASLESFPIGQLITLKKLNVAH 137

>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 = 64.3 bits (157), Expect = 4e-11
 Identities = 25/154 (16%), Positives = 47/154 (30%), Gaps = 10/154 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            ++   L   N              +S + L    +++ + +         + +++    
Sbjct: 262 TIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPK--HFKWQSLSIIRCQ 318

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEM---L 155
           ++  P+   DL  L+SL+L   +          L +L YLDL    +             
Sbjct: 319 LKQFPTL--DLPFLKSLTLTMNK-GSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGT 375

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            +L HL LS              L  L  L    
Sbjct: 376 NSLRHLDLSFNGAIIMS-ANFMGLEELQHLDFQH 408

>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 = 60.0 bits (146), Expect = 7e-10
 Identities = 35/171 (20%), Positives = 61/171 (35%), Gaps = 16/171 (9%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
               + +  N I+ I        + L  L L+ N N   I +    ++ GL V  L   +
Sbjct: 182 VNLSLDMSLNPIDFIQDQAFQGIK-LHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGE 240

Query: 99  IEVLPS----SVSDLTNLRSLSLGWCRRLK------RVPSLARLLALQYLDLYDTRIEEV 148
            +   +      S +  L  +++   R          +     L  +  + L    I+ +
Sbjct: 241 FKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYL 300

Query: 149 PEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY----KLKLSFGNEALR 195
            +  +       L +   QLK+FP   LP L+SL     K  +SF   AL 
Sbjct: 301 EDVPKHF-KWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKVALP 350

>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 = 58.5 bits (142), Expect = 3e-09
 Identities = 32/145 (22%), Positives = 55/145 (37%), Gaps = 7/145 (4%)

Query: 48  NNIEEIPSNMSPHCEILSTLLLQRNEN-LQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV 106
            N+E    ++      ++    +             F  +  +  ++L+   I+ L    
Sbjct: 245 RNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVP 304

Query: 107 SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSL 166
                 +SLS+  C+ LK+ P+L  L  L+ L L   +     + +  L +LS+L LS  
Sbjct: 305 K-HFKWQSLSIIRCQ-LKQFPTLD-LPFLKSLTLTMNKGSISFKKVA-LPSLSYLDLSRN 360

Query: 167 QLKKFPAGILPRL--RSLYKLKLSF 189
            L          L   SL  L LSF
Sbjct: 361 ALSFSGCCSYSDLGTNSLRHLDLSF 385

>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 = 56.6 bits (137), Expect = 1e-08
 Identities = 27/155 (17%), Positives = 47/155 (30%), Gaps = 21/155 (13%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE-CFFVHMHGLKVVNLSST 97
           +LE +  +   +  + S        L  L +  N  +       +F ++  L  V+LS  
Sbjct: 105 SLENLVAVETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAYFSNLTNLVHVDLSYN 163

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I+ +    +DL  LR                        LD+    I+ + +       
Sbjct: 164 YIQTITV--NDLQFLRENP----------------QVNLSLDMSLNPIDFIQDQAFQGIK 205

Query: 158 LSHLYLSS-LQLKKFPAGILPRLRSLYKLKLSFGN 191
           L  L L             L  L  L+  +L  G 
Sbjct: 206 LHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGE 240

>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 = 74.5 bits (183), Expect = 2e-14
 Identities = 39/154 (25%), Positives = 65/154 (42%), Gaps = 6/154 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECF--FVHMHGLKVVNLSS 96
               +    N + +       H   L TL+LQ N  L+ + +       M  L+ +++S 
Sbjct: 325 PFLHLDFSNNLLTDTVFENCGHLTELETLILQMN-QLKELSKIAEMTTQMKSLQQLDISQ 383

Query: 97  TDIEVLPSSV--SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEM 154
             +         S   +L SL++     L           ++ LDL+  +I+ +P+ +  
Sbjct: 384 NSVSYDEKKGDCSWTKSLLSLNMSSNI-LTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVK 442

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           LE L  L ++S QLK  P GI  RL SL K+ L 
Sbjct: 443 LEALQELNVASNQLKSVPDGIFDRLTSLQKIWLH 476

>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 = 62.6 bits (152), Expect = 1e-10
 Identities = 32/157 (20%), Positives = 63/157 (40%), Gaps = 9/157 (5%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
           V   +N +  +P ++S    IL+   + +N  +  +     + +  L+++ +S   I+ L
Sbjct: 5   VDRSKNGLIHVPKDLSQKTTILN---ISQN-YISELWTSDILSLSKLRILIISHNRIQYL 60

Query: 103 PSSV-SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGME--MLENLS 159
             SV      L  L L    +L ++      + L++LDL     + +P   E   +  L 
Sbjct: 61  DISVFKFNQELEYLDLSHN-KLVKISC-HPTVNLKHLDLSFNAFDALPICKEFGNMSQLK 118

Query: 160 HLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRE 196
            L LS+  L+K     +  L     L +       +E
Sbjct: 119 FLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKE 155

>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 = 47.2 bits (112), Expect = 8e-06
 Identities = 39/297 (13%), Positives = 81/297 (27%), Gaps = 14/297 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + +  N I+ +  ++    + L  L L  N  L +I          LK ++LS   
Sbjct: 46  KLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KLVKIS---CHPTVNLKHLDLSFNA 101

Query: 99  IEVLPSS--VSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
            + LP      +++ L+ L L      K        L +  + L         E  E L+
Sbjct: 102 FDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQ 161

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS 216
           + +   L  +         +  +       L   N        + +     L   +    
Sbjct: 162 DFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPK 221

Query: 217 TLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLL 276
                   +++T     +   L           V +  +            +   +   L
Sbjct: 222 LSNLTLNNIETTWNSFIRILQLVWHTT------VWYFSISNVKLQGQLDFRDFDYSGTSL 275

Query: 277 KDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSH-DLKVLRFDSCKNLKNLFSLRL 332
           K +   Q    D        +      +NI  F+    +++       +     L  
Sbjct: 276 KALSIHQ-VVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDF 331

>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 = 42.9 bits (101), Expect = 2e-04
 Identities = 18/96 (18%), Positives = 39/96 (40%), Gaps = 6/96 (6%)

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEV 148
           +V+ S   +  +P  +S       L++     +  + +  +  L  L+ L +   RI+ +
Sbjct: 4   LVDRSKNGLIHVPKDLS--QKTTILNISQ-NYISELWTSDILSLSKLRILIISHNRIQYL 60

Query: 149 PEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
              + +  + L +L LS  +L K        L+ L 
Sbjct: 61  DISVFKFNQELEYLDLSHNKLVKISCHPTVNLKHLD 96

>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 = 70.8 bits (174), Expect = 4e-14
 Identities = 22/155 (14%), Positives = 58/155 (37%), Gaps = 11/155 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST- 97
           + + + L+  ++  IPS+   +   +S + +  +  LQ++    F ++  +  + + +T 
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR 91

Query: 98  DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS---LARLLALQYLDLYD-TRIEEVPEGM 152
           ++  +      +L  L+ L +     LK  P    +        L++ D   +  +P   
Sbjct: 92  NLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNA 150

Query: 153 --EMLENLSHLYLSSLQLKKFPAGI--LPRLRSLY 183
              +      L L +              +L ++Y
Sbjct: 151 FQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVY 185

>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 = 65.0 bits (159), Expect = 4e-12
 Identities = 25/181 (13%), Positives = 57/181 (31%), Gaps = 36/181 (19%)

Query: 39  NLERVSLMRNN-IEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           N+ R+ +  +  ++++ S+   +   ++ + ++   NL  I       +  LK + + +T
Sbjct: 56  NISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT 115

Query: 98  DIEVLP--SSVSDLTNLRSLSLGWCRRLKRVPS-----LARLLALQYLDLYDTRIEEVPE 150
            +++ P  + V        L +     +  +P      L        L LY+     V  
Sbjct: 116 GLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNE--TLTLKLYNNGFTSVQG 173

Query: 151 GM--------------------------EMLENLSHLYLSSLQLKKFPAGILPRLRSLYK 184
                                        +    S L +S   +   P+  L  L+ L  
Sbjct: 174 YAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIA 233

Query: 185 L 185
            
Sbjct: 234 R 234

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

 Score = 73.2 bits (179), Expect = 6e-14
 Identities = 27/151 (17%), Positives = 62/151 (41%), Gaps = 10/151 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
               + +L + ++ +  +        +  ++   + +++ +      ++  +  + L+  
Sbjct: 21  AETIKDNLKKKSVTDAVTQ--NELNSIDQIIANNS-DIKSVQ--GIQYLPNVTKLFLNGN 75

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +  +   +++L NL  L L    ++K + SL  L  L+ L L    I ++  G+  L  
Sbjct: 76  KLTDI-KPLTNLKNLGWLFLDEN-KIKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQ 132

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  LYL + ++       L RL  L  L L 
Sbjct: 133 LESLYLGNNKITDITV--LSRLTKLDTLSLE 161

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

 Score = 68.2 bits (166), Expect = 2e-12
 Identities = 38/151 (25%), Positives = 69/151 (45%), Gaps = 10/151 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           N+ ++ L  N + +I   ++ + + L  L L  N  ++ +       +  LK ++L    
Sbjct: 66  NVTKLFLNGNKLTDI-KPLT-NLKNLGWLFLDEN-KIKDLS--SLKDLKKLKSLSLEHNG 120

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + + +  L  L SL LG  + +  +  L+RL  L  L L D +I ++   +  L  L
Sbjct: 121 ISDI-NGLVHLPQLESLYLGNNK-ITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKL 177

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            +LYLS   +    A  L  L++L  L+L  
Sbjct: 178 QNLYLSKNHISDLRA--LAGLKNLDVLELFS 206

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

 Score = 67.4 bits (164), Expect = 4e-12
 Identities = 46/203 (22%), Positives = 80/203 (39%), Gaps = 13/203 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + L  N I+++ S++    + L +L L+ N  +  I     VH+  L+ + L +  
Sbjct: 88  NLGWLFLDENKIKDL-SSLK-DLKKLKSLSLEHN-GISDIN--GLVHLPQLESLYLGNNK 142

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + + +S LT L +LSL   + +  +  LA L  LQ L L    I ++   +  L+NL
Sbjct: 143 ITDI-TVLSRLTKLDTLSLEDNQ-ISDIVPLAGLTKLQNLYLSKNHISDL-RALAGLKNL 199

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSD-----RLDYFEG 213
             L L S +    P      L     +K + G+    E + +            L  F  
Sbjct: 200 DVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTN 259

Query: 214 YFSTLKDFNIYVKSTDGRGSKNY 236
             S +    + +     R     
Sbjct: 260 EVSFIFYQPVTIGKAKARFHGRV 282

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

 Score = 56.7 bits (136), Expect = 8e-09
 Identities = 17/96 (17%), Positives = 39/96 (40%), Gaps = 4/96 (4%)

Query: 89  LKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEV 148
           +      ST I+ +             +L   + +    +   L ++  +   ++ I+ V
Sbjct: 1   MGETITVSTPIKQI-FPDDAFAETIKDNLKK-KSVTDAVTQNELNSIDQIIANNSDIKSV 58

Query: 149 PEGMEMLENLSHLYLSSLQLKKF-PAGILPRLRSLY 183
            +G++ L N++ L+L+  +L    P   L  L  L+
Sbjct: 59  -QGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLF 93

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 71.8 bits (176), Expect = 1e-13
 Identities = 37/159 (23%), Positives = 64/159 (40%), Gaps = 11/159 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +   ++  +N   +         + L TL+LQRN  L+   +        +  +      
Sbjct: 354 SFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRN-GLKNFFKVAL-MTKNMSSLETLDVS 411

Query: 99  IEVLPSSVSD-----LTNLRSLSLGWCRRLKRV-PSLARLLALQYLDLYDTRIEEVPEGM 152
           +  L S   D       ++  L+L        V   L   +  + LDL++ RI  +P+ +
Sbjct: 412 LNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKV--KVLDLHNNRIMSIPKDV 469

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
             L+ L  L ++S QLK  P G+  RL SL  + L   N
Sbjct: 470 THLQALQELNVASNQLKSVPDGVFDRLTSLQYIWL-HDN 507

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 56.0 bits (135), Expect = 1e-08
 Identities = 32/146 (21%), Positives = 60/146 (41%), Gaps = 9/146 (6%)

Query: 37  EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
            E    V     N+  +P ++ P  + LS   L +N ++  +       +  L+V+ LS 
Sbjct: 30  NELESMVDYSNRNLTHVPKDLPPRTKALS---LSQN-SISELRMPDISFLSELRVLRLSH 85

Query: 97  TDIEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGME-- 153
             I  L   V     +L  L +    RL+ +     + +L++LDL     + +P   E  
Sbjct: 86  NRIRSLDFHVFLFNQDLEYLDVS-HNRLQNISC-CPMASLRHLDLSFNDFDVLPVCKEFG 143

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRL 179
            L  L+ L LS+ + ++     +  L
Sbjct: 144 NLTKLTFLGLSAAKFRQLDLLPVAHL 169

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.1 bits (104), Expect = 8e-05
 Identities = 19/97 (19%), Positives = 42/97 (43%), Gaps = 6/97 (6%)

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEE 147
            +V+ S+ ++  +P  +      ++LSL     +  +    ++ L  L+ L L   RI  
Sbjct: 34  SMVDYSNRNLTHVPKDLP--PRTKALSL-SQNSISELRMPDISFLSELRVLRLSHNRIRS 90

Query: 148 VPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
           +   +    ++L +L +S  +L+      +  LR L 
Sbjct: 91  LDFHVFLFNQDLEYLDVSHNRLQNISCCPMASLRHLD 127

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 41.0 bits (96), Expect = 6e-04
 Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 2/69 (2%)

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRL 179
           R L  VP        + L L    I E+    +  L  L  L LS  +++     +    
Sbjct: 41  RNLTHVPK-DLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFN 99

Query: 180 RSLYKLKLS 188
           + L  L +S
Sbjct: 100 QDLEYLDVS 108

>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 = 72.1 bits (177), Expect = 2e-13
 Identities = 38/160 (23%), Positives = 58/160 (36%), Gaps = 8/160 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
             ER+ L  N I  + ++  P  E L  L L        I +  F ++  L++++L S+ 
Sbjct: 25  TTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK 84

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVP----SLARLLALQYLDLYDTRIEEVPEGME 153
           I  L       L +L  L L +C  L            L AL  LDL   +I  +     
Sbjct: 85  IYFLHPDAFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPS 143

Query: 154 M--LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
              L +L  +  SS Q+       L  L+       S   
Sbjct: 144 FGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAA 183

>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 = 64.8 bits (158), Expect = 3e-11
 Identities = 25/157 (15%), Positives = 57/157 (36%), Gaps = 8/157 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMH--GLKVVNLSS 96
            ++      N I +  +        +       + N++   +  F  +    ++ ++LS 
Sbjct: 217 TVDITGNFSNAISKSQAFSLILAHHIMGAGFGFH-NIKDPDQNTFAGLARSSVRHLDLSH 275

Query: 97  TDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM- 152
             +  L S V   L +L+ L+L + + + ++   +   L  LQ L+L    + E+     
Sbjct: 276 GFVFSLNSRVFETLKDLKVLNLAYNK-INKIADEAFYGLDNLQVLNLSYNLLGELYSSNF 334

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
             L  ++++ L    +          L  L  L L  
Sbjct: 335 YGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRD 371

>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 = 63.7 bits (155), Expect = 6e-11
 Identities = 42/199 (21%), Positives = 70/199 (35%), Gaps = 50/199 (25%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-- 96
           NL+ ++L  N + E+ S+       ++ + LQ+N ++  I +  F  +  L+ ++L    
Sbjct: 315 NLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLDLRDNA 373

Query: 97  -TDIEVLPS------SVSDLTNLRSLSLG---------WCRRLKRVPSLARLLALQYLDL 140
            T I  +PS      S + L  L  ++L              L  +  L R+  LQ L L
Sbjct: 374 LTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILIL 433

Query: 141 YDTRIEEVPEGM-------------------------------EMLENLSHLYLSSLQLK 169
              R                                       E L +L  LYL+   L 
Sbjct: 434 NQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLN 493

Query: 170 KFPAGILPRLRSLYKLKLS 188
             P G+   L +L  L L+
Sbjct: 494 SLPPGVFSHLTALRGLSLN 512

>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 = 60.2 bits (146), Expect = 8e-10
 Identities = 29/173 (16%), Positives = 56/173 (32%), Gaps = 24/173 (13%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCE------ILSTLLLQRNE-----------NLQRIPEC 81
            L   SL  N++    S     C       +L  L +  N             + +    
Sbjct: 175 TLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAF 234

Query: 82  FFVHMHGLKVVNLSSTDIEVLPSSV---SDLTNLRSLSLGWCRRLKRVPS--LARLLALQ 136
             +  H +        +I+    +       +++R L L     +  + S     L  L+
Sbjct: 235 SLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGF-VFSLNSRVFETLKDLK 293

Query: 137 YLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L+L   +I ++ +     L+NL  L LS   L +  +     L  +  + L 
Sbjct: 294 VLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQ 346

>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 = 54.8 bits (132), Expect = 4e-08
 Identities = 30/190 (15%), Positives = 64/190 (33%), Gaps = 26/190 (13%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNM--SPHCEILSTLLLQRNENLQRIPECF 82
           +R L          +L+ +    N I  +  +       + LS   L  N    R+   +
Sbjct: 135 IRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDW 194

Query: 83  FVHMHG-----LKVVNLSSTDIEVLPSSVSD-------------LTNLRSLSLGWCRRLK 124
              M+      L+++++S     V  +                   ++     G+   +K
Sbjct: 195 GKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGF-HNIK 253

Query: 125 RVPSLA----RLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRL 179
                        ++++LDL    +  +   + E L++L  L L+  ++ K        L
Sbjct: 254 DPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGL 313

Query: 180 RSLYKLKLSF 189
            +L  L LS+
Sbjct: 314 DNLQVLNLSY 323

>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 = 68.5 bits (168), Expect = 2e-13
 Identities = 37/144 (25%), Positives = 62/144 (43%), Gaps = 10/144 (6%)

Query: 52  EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLT 110
           EIP+N+      +    L++N  ++ IP   F     L+ ++LS+  I  L       L 
Sbjct: 25  EIPTNLPETITEIR---LEQN-TIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLR 80

Query: 111 NLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQ 167
           +L SL L   + +  +P      L +LQ L L   +I  +     + L NL+ L L   +
Sbjct: 81  SLNSLVLYGNK-ITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK 139

Query: 168 LKKFPAGILPRLRSLYKLKLSFGN 191
           L+    G    LR++  + L   N
Sbjct: 140 LQTIAKGTFSPLRAIQTMHL-AQN 162

>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 = 58.9 bits (143), Expect = 3e-10
 Identities = 29/122 (23%), Positives = 49/122 (40%), Gaps = 8/122 (6%)

Query: 71  RNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPS- 128
           R + L  IP      +  +    L    I+V+P    S    LR + L   + +  +   
Sbjct: 19  RGKGLTEIPTNLPETITEI---RLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ-ISELAPD 74

Query: 129 -LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLK 186
               L +L  L LY  +I E+P+ + E L +L  L L++ ++          L +L  L 
Sbjct: 75  AFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLS 134

Query: 187 LS 188
           L 
Sbjct: 135 LY 136

>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 = 68.1 bits (167), Expect = 2e-13
 Identities = 33/144 (22%), Positives = 52/144 (36%), Gaps = 9/144 (6%)

Query: 52  EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLT 110
           +IP ++  +    + L L  NE         F  +  L+ +N S+  I  +        +
Sbjct: 25  KIPEHIPQY---TAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGAS 81

Query: 111 NLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQ 167
            +  + L    RL+ V       L +L+ L L   RI  V       L ++  L L   Q
Sbjct: 82  GVNEILLT-SNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ 140

Query: 168 LKKFPAGILPRLRSLYKLKLSFGN 191
           +     G    L SL  L L   N
Sbjct: 141 ITTVAPGAFDTLHSLSTLNL-LAN 163

>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 = 56.6 bits (137), Expect = 2e-09
 Identities = 27/123 (21%), Positives = 48/123 (39%), Gaps = 9/123 (7%)

Query: 71  RNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSV--SDLTNLRSLSLGWCRRLKRVPS 128
            N+ L +IPE    +   L    L++ +  VL ++     L  LR ++    + +  +  
Sbjct: 19  SNQKLNKIPEHIPQYTAEL---RLNNNEFTVLEATGIFKKLPQLRKINFSNNK-ITDIEE 74

Query: 129 --LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKL 185
                   +  + L   R+E V   M + LE+L  L L S ++          L S+  L
Sbjct: 75  GAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLL 134

Query: 186 KLS 188
            L 
Sbjct: 135 SLY 137

>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 = 54.3 bits (131), Expect = 1e-08
 Identities = 25/107 (23%), Positives = 45/107 (42%), Gaps = 5/107 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L +++   N I +I          ++ +LL  N  L+ +    F  +  LK + L S  
Sbjct: 58  QLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR-LENVQHKMFKGLESLKTLMLRSNR 116

Query: 99  IEVLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYD 142
           I  + +     L+++R LSL    ++  V   A   L +L  L+L  
Sbjct: 117 ITCVGNDSFIGLSSVRLLSLYDN-QITTVAPGAFDTLHSLSTLNLLA 162

>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 = 49.7 bits (119), Expect = 4e-07
 Identities = 21/101 (20%), Positives = 43/101 (42%), Gaps = 3/101 (2%)

Query: 90  KVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEV 148
             V+ S+  +  +P  +      LR L+      L+      +L  L+ ++  + +I ++
Sbjct: 14  TTVDCSNQKLNKIPEHIPQYTAELR-LNNNEFTVLEATGIFKKLPQLRKINFSNNKITDI 72

Query: 149 PEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            EG  E    ++ + L+S +L+     +   L SL  L L 
Sbjct: 73  EEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLR 113

>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 = 71.1 bits (174), Expect = 2e-13
 Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 18/148 (12%)

Query: 36  WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS 95
                  +++  + +  +P  +  H   ++TL++  N NL  +P         L+ + +S
Sbjct: 38  LNNGNAVLNVGESGLTTLPDCLPAH---ITTLVIPDN-NLTSLPALPP----ELRTLEVS 89

Query: 96  STDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEML 155
              +  LP     L  L   S      L  +PS      L  L ++  ++  +P      
Sbjct: 90  GNQLTSLPVLPPGLLELSIFSNPLT-HLPALPS-----GLCKLWIFGNQLTSLPVL---P 140

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLY 183
             L  L +S  QL   PA     L  L+
Sbjct: 141 PGLQELSVSDNQLASLPALP-SELCKLW 167

>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 = 65.7 bits (160), Expect = 1e-11
 Identities = 33/165 (20%), Positives = 58/165 (35%), Gaps = 27/165 (16%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           ++  + +  NN+  +P+        L TL +  N  L  +P      +  L + +   T 
Sbjct: 62  HITTLVIPDNNLTSLPALPPE----LRTLEVSGN-QLTSLPVLPP-GLLELSIFSNPLTH 115

Query: 99  IEVLPSSVSDL--------------TNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTR 144
           +  LPS +  L                L+ LS+   + L  +P+L     L  L  Y+ +
Sbjct: 116 LPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQ-LASLPAL--PSELCKLWAYNNQ 172

Query: 145 IEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           +  +P        L  L +S  QL   P      L  L+      
Sbjct: 173 LTSLPML---PSGLQELSVSDNQLASLPTLP-SELYKLWAYNNRL 213

>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 = 63.4 bits (154), Expect = 6e-11
 Identities = 32/146 (21%), Positives = 56/146 (38%), Gaps = 15/146 (10%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
             L+ +S+  N +  +P+  S     L  L    N  L  +P        GLK + +S  
Sbjct: 181 SGLQELSVSDNQLASLPTLPS----ELYKLWAYNN-RLTSLPA----LPSGLKELIVSGN 231

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +  LP      + L+ L +   R L  +P L     L  L +Y  ++  +PE +  L +
Sbjct: 232 RLTSLPVL---PSELKELMVSGNR-LTSLPML--PSGLLSLSVYRNQLTRLPESLIHLSS 285

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLY 183
            + + L    L +     L  + S  
Sbjct: 286 ETTVNLEGNPLSERTLQALREITSAP 311

>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 = 58.0 bits (140), Expect = 4e-09
 Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 12/114 (10%)

Query: 70  QRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSL 129
            R   +Q++  C     +G  V+N+  + +  LP  +    ++ +L +     L  +P+L
Sbjct: 26  GRAAVVQKMRACL---NNGNAVLNVGESGLTTLPDCL--PAHITTLVIPDNN-LTSLPAL 79

Query: 130 ARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
                L+ L++   ++  +P     L  LS        L   P+G    L  L+
Sbjct: 80  --PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSG----LCKLW 127

>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 = 71.2 bits (175), Expect = 2e-13
 Identities = 33/155 (21%), Positives = 58/155 (37%), Gaps = 5/155 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L+ + L  N +  + SN     E L  L  Q +   Q      F+ +  L  +++S T 
Sbjct: 374 SLKYLDLSFNGVITMSSNFL-GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH 432

Query: 99  IEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EM 154
             V  + + + L++L  L +      +         L  L +LDL   ++E++       
Sbjct: 433 TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNS 492

Query: 155 LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           L +L  L +S              L SL  L  S 
Sbjct: 493 LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL 527

>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 = 70.1 bits (172), Expect = 5e-13
 Identities = 33/152 (21%), Positives = 62/152 (40%), Gaps = 10/152 (6%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
              M  N  +IP N+         L L  N  L+ +    F     L+V++LS  +I+ +
Sbjct: 12  YQCMELNFYKIPDNLPFS---TKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTI 67

Query: 103 -PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENL 158
              +   L++L +L L     ++ +   + + L +LQ L   +T +  +       L+ L
Sbjct: 68  EDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL 126

Query: 159 SHLYLSSLQLKKFPAG-ILPRLRSLYKLKLSF 189
             L ++   ++ F        L +L  L LS 
Sbjct: 127 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

>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 = 68.9 bits (169), Expect = 1e-12
 Identities = 37/170 (21%), Positives = 63/170 (37%), Gaps = 9/170 (5%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
            L   + P       + + + L  N +  + S        L  L L R   +Q I +  +
Sbjct: 16  ELNFYKIP--DNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAY 72

Query: 84  VHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDL 140
             +  L  + L+   I+ L     S L++L+ L       L  +    +  L  L+ L++
Sbjct: 73  QSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNV 131

Query: 141 YDTRIEEVPEGMEM--LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
               I+          L NL HL LSS +++      L  L  +  L LS
Sbjct: 132 AHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS 181

>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 = 62.4 bits (152), Expect = 1e-10
 Identities = 25/134 (18%), Positives = 46/134 (34%), Gaps = 8/134 (5%)

Query: 60  HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLG 118
              + +        N  +IP+         K ++LS   +  L   S      L+ L L 
Sbjct: 4   VEVVPNITYQCMELNFYKIPDNLPFS---TKNLDLSFNPLRHLGSYSFFSFPELQVLDLS 60

Query: 119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGI 175
            C  ++ +   +   L  L  L L    I+ +  G    L +L  L      L       
Sbjct: 61  RCE-IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP 119

Query: 176 LPRLRSLYKLKLSF 189
           +  L++L +L ++ 
Sbjct: 120 IGHLKTLKELNVAH 133

>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 = 60.4 bits (147), Expect = 6e-10
 Identities = 33/154 (21%), Positives = 51/154 (33%), Gaps = 11/154 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           N+   SL+   IE +      +      L L       + P      +  L   +    +
Sbjct: 283 NVSSFSLVSVTIERVKDF--SYNFGWQHLELVNC-KFGQFPTLKLKSLKRLTFTSNKGGN 339

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRV---PSLARLLALQYLDLYDTRIEEVPEGMEML 155
                 S  DL +L  L L       +     S     +L+YLDL    +  +      L
Sbjct: 340 ----AFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGL 395

Query: 156 ENLSHLYLSSLQLKK-FPAGILPRLRSLYKLKLS 188
           E L HL      LK+     +   LR+L  L +S
Sbjct: 396 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429

>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 = 59.7 bits (145), Expect = 9e-10
 Identities = 35/159 (22%), Positives = 62/159 (38%), Gaps = 11/159 (6%)

Query: 39  NLERVSLMRNNI--EEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           +LE + L RN +  +   S        L  L L  N  +  +   F   +  L+ ++   
Sbjct: 348 SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFL-GLEQLEHLDFQH 405

Query: 97  TDIEVL--PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE--VPE 150
           ++++ +   S    L NL  L +      +         L +L+ L +     +E  +P+
Sbjct: 406 SNLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464

Query: 151 GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
               L NL+ L LS  QL++        L SL  L +S 
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 57.7 bits (140), Expect = 4e-09
 Identities = 22/132 (16%), Positives = 49/132 (37%), Gaps = 6/132 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + +   +     + +      L  L +  N   +      F  +  L  ++LS   
Sbjct: 422 NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 481

Query: 99  I-EVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG--ME 153
           + ++ P++ + L++L+ L++        +       L +LQ LD     I    +     
Sbjct: 482 LEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQH 540

Query: 154 MLENLSHLYLSS 165
              +L+ L L+ 
Sbjct: 541 FPSSLAFLNLTQ 552

>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 = 57.7 bits (140), Expect = 5e-09
 Identities = 34/162 (20%), Positives = 56/162 (34%), Gaps = 11/162 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L  + L  N I+ +          L  L+     NL  +      H+  LK +N++   
Sbjct: 77  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNL 135

Query: 99  IEVL--PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQY----LDLYDTRIEEVPE 150
           I+    P   S+LTNL  L L   + ++ +    L  L  +      LDL    +  +  
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP 194

Query: 151 GMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSFGN 191
           G      L  L L +           +  L  L   +L  G 
Sbjct: 195 GAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGE 236

>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 = 56.2 bits (136), Expect = 1e-08
 Identities = 31/164 (18%), Positives = 51/164 (31%), Gaps = 13/164 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
               + L  N +  I          L  L L+ N +   + +     + GL+V  L   +
Sbjct: 178 LNLSLDLSLNPMNFIQPGAFKEIR-LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGE 236

Query: 99  I-------EVLPSSVSDLTNLR----SLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEE 147
                   +   S++  L NL      L+         +     L  +    L    IE 
Sbjct: 237 FRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIER 296

Query: 148 VPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           V +         HL L + +  +FP   L  L+ L       GN
Sbjct: 297 VKDF-SYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN 339

>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 = 69.1 bits (170), Expect = 5e-13
 Identities = 25/148 (16%), Positives = 60/148 (40%), Gaps = 10/148 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
               R  L + ++ ++ +      E ++ L++     +  I      ++  L+ +NL+  
Sbjct: 22  AEGIRAVLQKASVTDVVT--QEELESITKLVVAGE-KVASIQG--IEYLTNLEYLNLNGN 76

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I  +   +S+L  L +L +G   ++  + +L  L  L+ L L +  I ++   +  L  
Sbjct: 77  QITDIS-PLSNLVKLTNLYIGTN-KITDISALQNLTNLRELYLNEDNISDISP-LANLTK 133

Query: 158 LSHLYLSSLQLKKFPAGI--LPRLRSLY 183
           +  L L +       + +  +  L  L 
Sbjct: 134 MYSLNLGANHNLSDLSPLSNMTGLNYLT 161

>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 = 67.6 bits (166), Expect = 1e-12
 Identities = 31/150 (20%), Positives = 61/150 (40%), Gaps = 9/150 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + +  N I +I +    +   L  L L  + N+  I      ++  +  +NL +  
Sbjct: 89  KLTNLYIGTNKITDISA--LQNLTNLRELYLNED-NISDISP--LANLTKMYSLNLGANH 143

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
                S +S++T L  L++   + +K V  +A L  L  L L   +IE++   +  L +L
Sbjct: 144 NLSDLSPLSNMTGLNYLTVTESK-VKDVTPIANLTDLYSLSLNYNQIEDI-SPLASLTSL 201

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            +      Q+       +  +  L  LK+ 
Sbjct: 202 HYFTAYVNQITDITP--VANMTRLNSLKIG 229

>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 = 66.4 bits (163), Expect = 3e-12
 Identities = 28/147 (19%), Positives = 58/147 (39%), Gaps = 8/147 (5%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           E++ ++ +    +  I   +  +   L  L L  N  +  I      ++  L  + + + 
Sbjct: 44  ESITKLVVAGEKVASIQ-GIE-YLTNLEYLNLNGN-QITDISP--LSNLVKLTNLYIGTN 98

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I  + + + +LTNLR L L     +  +  LA L  +  L+L           +  +  
Sbjct: 99  KITDISA-LQNLTNLRELYLNEDN-ISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTG 156

Query: 158 LSHLYLSSLQLKKFPA-GILPRLRSLY 183
           L++L ++  ++K       L  L SL 
Sbjct: 157 LNYLTVTESKVKDVTPIANLTDLYSLS 183

>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 = 64.5 bits (158), Expect = 2e-11
 Identities = 33/152 (21%), Positives = 69/152 (45%), Gaps = 12/152 (7%)

Query: 39  NLERVSLMRNNIEEIP--SNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS 96
           +L  +SL  N IE+I   ++++     L       N  +  I      +M  L  + + +
Sbjct: 178 DLYSLSLNYNQIEDISPLASLTS----LHYFTAYVN-QITDITP--VANMTRLNSLKIGN 230

Query: 97  TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLE 156
             I  L   +++L+ L  L +G  + +  + ++  L  L+ L++   +I ++   +  L 
Sbjct: 231 NKITDLSP-LANLSQLTWLEIGTNQ-ISDINAVKDLTKLKMLNVGSNQISDISV-LNNLS 287

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            L+ L+L++ QL      ++  L +L  L LS
Sbjct: 288 QLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLS 319

>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 = 63.3 bits (155), Expect = 3e-11
 Identities = 31/151 (20%), Positives = 62/151 (41%), Gaps = 10/151 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +L   +   N I +I      +   L++L +  N  +  +      ++  L  + + +  
Sbjct: 200 SLHYFTAYVNQITDITP--VANMTRLNSLKIGNN-KITDLS--PLANLSQLTWLEIGTNQ 254

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIE-EVPEGMEMLEN 157
           I  + + V DLT L+ L++G  + +  +  L  L  L  L L + ++  E  E +  L N
Sbjct: 255 ISDINA-VKDLTKLKMLNVGSNQ-ISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTN 312

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L+ L+LS   +       L  L  +     +
Sbjct: 313 LTTLFLSQNHITDIRP--LASLSKMDSADFA 341

>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 = 57.6 bits (140), Expect = 3e-09
 Identities = 20/101 (19%), Positives = 36/101 (35%), Gaps = 5/101 (4%)

Query: 88  GLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEE 147
           G   +      I  +    +DL       L     +  V +   L ++  L +   ++  
Sbjct: 1   GAATLATLPAPINQI-FPDADLAEGIRAVLQKAS-VTDVVTQEELESITKLVVAGEKVAS 58

Query: 148 VPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           +  G+E L NL +L L+  Q+       L  L  L  L + 
Sbjct: 59  IQ-GIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIG 96

>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 = 51.8 bits (125), Expect = 2e-07
 Identities = 26/133 (19%), Positives = 52/133 (39%), Gaps = 8/133 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + +  N I ++      +   L+ L +  N  +  I       +  LK++N+ S  
Sbjct: 222 RLNSLKIGNNKITDLSP--LANLSQLTWLEIGTN-QISDINA--VKDLTKLKMLNVGSNQ 276

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPS-LARLLALQYLDLYDTRIEEVPEGMEMLEN 157
           I  + S +++L+ L SL L   +        +  L  L  L L    I ++   +  L  
Sbjct: 277 ISDI-SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIRP-LASLSK 334

Query: 158 LSHLYLSSLQLKK 170
           +     ++  +KK
Sbjct: 335 MDSADFANQVIKK 347

>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 = 69.6 bits (171), Expect = 5e-13
 Identities = 28/150 (18%), Positives = 58/150 (38%), Gaps = 18/150 (12%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
               + L    +  +P         L +L+   N +L  +PE     +  L V N +   
Sbjct: 72  QAHELELNNLGLSSLPELPPH----LESLVASCN-SLTELPELPQ-SLKSLLVDNNNLKA 125

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +  LP        L  L +   + L+++P L     L+ +D+ +  ++++P+      +L
Sbjct: 126 LSDLPP------LLEYLGVSNNQ-LEKLPELQNSSFLKIIDVDNNSLKKLPDL---PPSL 175

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             +   + QL++ P   L  L  L  +   
Sbjct: 176 EFIAAGNNQLEELPE--LQNLPFLTAIYAD 203

>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 = 66.9 bits (164), Expect = 3e-12
 Identities = 27/151 (17%), Positives = 58/151 (38%), Gaps = 15/151 (9%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L+ + +  N+++++P         L  +    N  L+ +PE    ++  L  +   +  
Sbjct: 154 FLKIIDVDNNSLKKLPDLPP----SLEFIAAGNN-QLEELPE--LQNLPFLTAIYADNNS 206

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           ++ LP       +L S+  G    L+ +P L  L  L  +   +  ++ +P+      +L
Sbjct: 207 LKKLPDL---PLSLESIVAGNNI-LEELPELQNLPFLTTIYADNNLLKTLPDL---PPSL 259

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
             L +    L   P  +   L  L   +  F
Sbjct: 260 EALNVRDNYLTDLPE-LPQSLTFLDVSENIF 289

>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 = 63.9 bits (156), Expect = 4e-11
 Identities = 34/152 (22%), Positives = 69/152 (45%), Gaps = 13/152 (8%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
             LE + +  N +E++P     +   L  + +  N +L+++P+        L+ +   + 
Sbjct: 131 PLLEYLGVSNNQLEKLPEL--QNSSFLKIIDVDNN-SLKKLPDL----PPSLEFIAAGNN 183

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +E LP  + +L  L ++       LK++P L   L+L+ +   +  +EE+PE ++ L  
Sbjct: 184 QLEELP-ELQNLPFLTAIYADNN-SLKKLPDL--PLSLESIVAGNNILEELPE-LQNLPF 238

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
           L+ +Y  +  LK  P    P L +L       
Sbjct: 239 LTTIYADNNLLKTLPDLP-PSLEALNVRDNYL 269

>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 = 60.4 bits (147), Expect = 5e-10
 Identities = 30/146 (20%), Positives = 55/146 (37%), Gaps = 16/146 (10%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            +LE +++  N + E+P+        L  L+   N +L  +PE        LK +++   
Sbjct: 317 PSLEELNVSNNKLIELPALPPR----LERLIASFN-HLAEVPEL----PQNLKQLHVEYN 367

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +   P     + +LR  S      L  VP L     L+ L +    + E P+  E +E+
Sbjct: 368 PLREFPDIPESVEDLRMNS-----HLAEVPEL--PQNLKQLHVETNPLREFPDIPESVED 420

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLY 183
           L       +   +F      +L    
Sbjct: 421 LRMNSERVVDPYEFAHETTDKLEDDV 446

>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 = 58.5 bits (142), Expect = 2e-09
 Identities = 31/145 (21%), Positives = 66/145 (45%), Gaps = 15/145 (10%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +LE ++   N +EE+P     +   L+ +    N +L+++P+        L+ +   +  
Sbjct: 174 SLEFIAAGNNQLEELPEL--QNLPFLTAIYADNN-SLKKLPD----LPLSLESIVAGNNI 226

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +E LP  + +L  L ++       LK +P L    +L+ L++ D  + ++P   E+ ++L
Sbjct: 227 LEELPE-LQNLPFLTTIYADNNL-LKTLPDL--PPSLEALNVRDNYLTDLP---ELPQSL 279

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLY 183
           + L +S          + P L  L 
Sbjct: 280 TFLDVSENIFSGLSE-LPPNLYYLN 303

>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 = 55.8 bits (135), Expect = 1e-08
 Identities = 32/159 (20%), Positives = 61/159 (38%), Gaps = 25/159 (15%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +LE +    N +EE+P     +   L+T+    N  L+ +P+        L+ +N+    
Sbjct: 216 SLESIVAGNNILEELPE--LQNLPFLTTIYADNN-LLKTLPD----LPPSLEALNVRDNY 268

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARL--------------LALQYLDLYDTR 144
           +  LP     LT L      +    +  P+L  L               +L+ L++ + +
Sbjct: 269 LTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK 328

Query: 145 IEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
           + E+P    +   L  L  S   L + P      L+ L+
Sbjct: 329 LIELP---ALPPRLERLIASFNHLAEVPELP-QNLKQLH 363

>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 = 54.6 bits (132), Expect = 3e-08
 Identities = 31/173 (17%), Positives = 60/173 (34%), Gaps = 33/173 (19%)

Query: 39  NLERVSLMRNNIEEIPSNMS----------PHCEILSTL----LLQRNENLQRIPECFFV 84
            L+      +N+ E+P                 E           QR   + R+ +C   
Sbjct: 12  FLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCL-- 69

Query: 85  HMHGLKVVNLSSTDIEVLPSSVSDLT-------NLRSL--SLGWCRRLK----RVPSLAR 131
                  + L++  +  LP     L        +L  L       + L      + +L+ 
Sbjct: 70  -DRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSD 128

Query: 132 LLA-LQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
           L   L+YL + + ++E++PE ++    L  + + +  LKK P    P L  + 
Sbjct: 129 LPPLLEYLGVSNNQLEKLPE-LQNSSFLKIIDVDNNSLKKLPDL-PPSLEFIA 179

>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 = 52.3 bits (126), Expect = 2e-07
 Identities = 17/115 (14%), Positives = 34/115 (29%), Gaps = 18/115 (15%)

Query: 89  LKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--------------SLARLLA 134
           L+     S+++  +P    ++ +       W    +  P                     
Sbjct: 13  LQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQ 72

Query: 135 LQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
              L+L +  +  +PE      +L  L  S   L + P      L+SL     + 
Sbjct: 73  AHELELNNLGLSSLPEL---PPHLESLVASCNSLTELPELP-QSLKSLLVDNNNL 123

>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 = 66.6 bits (163), Expect = 8e-13
 Identities = 47/128 (36%), Positives = 65/128 (50%), Gaps = 6/128 (4%)

Query: 67  LLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRRLKR 125
           L L  N+ + ++    F  +  LK + L S  +  LP  V D LT L  L LG   +L  
Sbjct: 45  LYLHDNQ-ITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG-TNQLTV 102

Query: 126 VPS--LARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
           +PS    RL+ L+ L +   ++ E+P G+E L +L+HL L   QLK  P G   RL SL 
Sbjct: 103 LPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLT 162

Query: 184 KLKLSFGN 191
              L FGN
Sbjct: 163 HAYL-FGN 169

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

 Score = 67.4 bits (165), Expect = 1e-12
 Identities = 27/151 (17%), Positives = 62/151 (41%), Gaps = 10/151 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
               + +L + ++ +  +        +  ++   + +++ +      ++  +  + L+  
Sbjct: 24  AETIKDNLKKKSVTDAVTQ--NELNSIDQIIANNS-DIKSVQ--GIQYLPNVTKLFLNGN 78

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +  +   +++L NL  L L    ++K + SL  L  L+ L L    I ++  G+  L  
Sbjct: 79  KLTDI-KPLANLKNLGWLFLDEN-KVKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQ 135

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  LYL + ++       L RL  L  L L 
Sbjct: 136 LESLYLGNNKITDITV--LSRLTKLDTLSLE 164

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

 Score = 62.4 bits (152), Expect = 5e-11
 Identities = 41/168 (24%), Positives = 73/168 (43%), Gaps = 8/168 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + L  N ++++ S++    + L +L L+ N  +  I     VH+  L+ + L +  
Sbjct: 91  NLGWLFLDENKVKDL-SSLK-DLKKLKSLSLEHN-GISDIN--GLVHLPQLESLYLGNNK 145

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + + +S LT L +LSL   + +  +  LA L  LQ L L    I ++   +  L+NL
Sbjct: 146 ITDI-TVLSRLTKLDTLSLEDNQ-ISDIVPLAGLTKLQNLYLSKNHISDL-RALAGLKNL 202

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSD 206
             L L S +    P      L     +K + G+    E + +      
Sbjct: 203 DVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEK 250

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

 Score = 60.1 bits (146), Expect = 3e-10
 Identities = 38/150 (25%), Positives = 69/150 (46%), Gaps = 10/150 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           N+ ++ L  N + +I   ++ + + L  L L  N  ++ +       +  LK ++L    
Sbjct: 69  NVTKLFLNGNKLTDI-KPLA-NLKNLGWLFLDEN-KVKDL--SSLKDLKKLKSLSLEHNG 123

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + + +  L  L SL LG  + +  +  L+RL  L  L L D +I ++   +  L  L
Sbjct: 124 ISDI-NGLVHLPQLESLYLGNNK-ITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKL 180

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            +LYLS   +    A  L  L++L  L+L 
Sbjct: 181 QNLYLSKNHISDLRA--LAGLKNLDVLELF 208

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

 Score = 65.8 bits (161), Expect = 3e-12
 Identities = 46/132 (34%), Positives = 67/132 (50%), Gaps = 7/132 (5%)

Query: 64  LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRR 122
           L+ L+L  N+ LQ +P   F  +  LK + L    ++ LP  V D LTNL  L+L    +
Sbjct: 87  LTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLA-HNQ 144

Query: 123 LKRVPS--LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRL 179
           L+ +P     +L  L  LDL   +++ +PEG+ + L  L  L L   QLK  P G+  RL
Sbjct: 145 LQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRL 204

Query: 180 RSLYKLKLSFGN 191
            SL  + L   N
Sbjct: 205 TSLQYIWL-HDN 215

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

 Score = 58.9 bits (143), Expect = 6e-10
 Identities = 30/152 (19%), Positives = 74/152 (48%), Gaps = 12/152 (7%)

Query: 41  ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE 100
            + +L + ++ +  +        +  ++   ++ ++ +      ++  ++ + L    + 
Sbjct: 22  IKANLKKKSVTDAVTQNEL--NSIDQIIANNSD-IKSVQG--IQYLPNVRYLALGGNKLH 76

Query: 101 VLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVPEGM-EMLE 156
            +       LTNL  L L    +L+ +P+    +L  L+ L L + +++ +P+G+ + L 
Sbjct: 77  DIS--ALKELTNLTYLILTG-NQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLT 133

Query: 157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           NL++L L+  QL+  P G+  +L +L +L LS
Sbjct: 134 NLTYLNLAHNQLQSLPKGVFDKLTNLTELDLS 165

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 64.3 bits (157), Expect = 4e-12
 Identities = 39/129 (30%), Positives = 65/129 (50%), Gaps = 7/129 (5%)

Query: 67  LLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRRLKR 125
           L L+ N  L+ +P   F  +  L  + L    ++ LP+ V + LT+L  L+L    +L+ 
Sbjct: 33  LDLETNS-LKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLS-TNQLQS 90

Query: 126 VPS--LARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSL 182
           +P+    +L  L+ L L   +++ +P+G+ + L  L  L L   QLK  P G+  RL SL
Sbjct: 91  LPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSL 150

Query: 183 YKLKLSFGN 191
             + L   N
Sbjct: 151 QYIWL-HDN 158

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 27/100 (27%), Positives = 47/100 (47%), Gaps = 6/100 (6%)

Query: 92  VNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVP 149
           V   S     +P+ +        L L     LK +P+     L +L  L L   +++ +P
Sbjct: 12  VECYSQGRTSVPTGIP--AQTTYLDLET-NSLKSLPNGVFDELTSLTQLYLGGNKLQSLP 68

Query: 150 EGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
            G+   L +L++L LS+ QL+  P G+  +L  L +L L+
Sbjct: 69  NGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALN 108

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

 Score = 66.9 bits (164), Expect = 4e-12
 Identities = 33/151 (21%), Positives = 66/151 (43%), Gaps = 10/151 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
               +  L + N+ +  S      + ++TL   R   ++ I      +++ L  +N S+ 
Sbjct: 24  AEKMKTVLGKTNVTDTVSQT--DLDQVTTLQADRL-GIKSIDG--VEYLNNLTQINFSNN 78

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +  +   + +LT L  + +   + +  +  LA L  L  L L++ +I ++   ++ L N
Sbjct: 79  QLTDITP-LKNLTKLVDILMNNNQ-IADITPLANLTNLTGLTLFNNQITDIDP-LKNLTN 135

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L+ L LSS  +    A  L  L SL +L   
Sbjct: 136 LNRLELSSNTISDISA--LSGLTSLQQLSFG 164

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

 Score = 64.6 bits (158), Expect = 2e-11
 Identities = 35/168 (20%), Positives = 61/168 (36%), Gaps = 8/168 (4%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N I  I          L+ L L  N  L+ I      ++  L  + L   +
Sbjct: 266 KLTELKLGANQISNISPL--AGLTALTNLELNEN-QLEDISP--ISNLKNLTYLTLYFNN 320

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + S VS LT L+ L     + +  V SLA L  + +L     +I ++   +  L  +
Sbjct: 321 ISDI-SPVSSLTKLQRLFFYNNK-VSDVSSLANLTNINWLSAGHNQISDLTP-LANLTRI 377

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSD 206
           + L L+       P      +     +K   G      T+ +    ++
Sbjct: 378 TQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALIAPATISDGGSYTE 425

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

 Score = 62.3 bits (152), Expect = 1e-10
 Identities = 39/165 (23%), Positives = 65/165 (39%), Gaps = 26/165 (15%)

Query: 39  NLERVSLMRNNIEEIP-----------------SNMSP--HCEILSTLLLQRNENLQRIP 79
           NL R+ L  N I +I                  +++ P  +   L  L +  N  +  I 
Sbjct: 135 NLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN-KVSDIS 193

Query: 80  ECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLD 139
                 +  L+ +  ++  I  +   +  LTNL  LSL   + LK + +LA L  L  LD
Sbjct: 194 V--LAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQ-LKDIGTLASLTNLTDLD 249

Query: 140 LYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA-GILPRLRSLY 183
           L + +I  +   +  L  L+ L L + Q+        L  L +L 
Sbjct: 250 LANNQISNLA-PLSGLTKLTELKLGANQISNISPLAGLTALTNLE 293

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

 Score = 59.6 bits (145), Expect = 8e-10
 Identities = 28/146 (19%), Positives = 55/146 (37%), Gaps = 8/146 (5%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           + +  +   R  I+ I      +   L+ +    N  L  I      ++  L  + +++ 
Sbjct: 46  DQVTTLQADRLGIKSIDGV--EYLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNN 100

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I  +   +++LTNL  L+L   + +  +  L  L  L  L+L    I ++   +  L +
Sbjct: 101 QIADITP-LANLTNLTGLTLFNNQ-ITDIDPLKNLTNLNRLELSSNTISDISA-LSGLTS 157

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLY 183
           L  L   +      P   L  L  L 
Sbjct: 158 LQQLSFGNQVTDLKPLANLTTLERLD 183

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

 Score = 66.1 bits (161), Expect = 8e-12
 Identities = 30/142 (21%), Positives = 52/142 (36%), Gaps = 15/142 (10%)

Query: 45  LMRNNIEEIPSNMSPHC---EILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV 101
              N I    ++        E  +     RNE +  + EC          + L+  ++  
Sbjct: 17  SFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQ---FSELQLNRLNLSS 73

Query: 102 LPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHL 161
           LP ++     +  L +     L  +P L    +L+YLD  D R+  +PE      +L HL
Sbjct: 74  LPDNL--PPQITVLEITQN-ALISLPEL--PASLEYLDACDNRLSTLPEL---PASLKHL 125

Query: 162 YLSSLQLKKFPAGILPRLRSLY 183
            + + QL   P      L  + 
Sbjct: 126 DVDNNQLTMLPELP-ALLEYIN 146

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

 Score = 65.0 bits (158), Expect = 2e-11
 Identities = 31/158 (19%), Positives = 62/158 (39%), Gaps = 19/158 (12%)

Query: 26  RLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVH 85
             +    E         + L R N+  +P N+ P    ++ L + +N  L  +PE     
Sbjct: 48  EAVSLLKE-CLINQFSELQLNRLNLSSLPDNLPPQ---ITVLEITQN-ALISLPELP--- 99

Query: 86  MHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRI 145
              L+ ++     +  LP       +L+ L +    +L  +P L     L+Y++  + ++
Sbjct: 100 -ASLEYLDACDNRLSTLPEL---PASLKHLDVDNN-QLTMLPEL--PALLEYINADNNQL 152

Query: 146 EEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
             +P   E+  +L  L + + QL   P      L +L 
Sbjct: 153 TMLP---ELPTSLEVLSVRNNQLTFLPEL-PESLEALD 186

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

 Score = 60.8 bits (147), Expect = 4e-10
 Identities = 23/144 (15%), Positives = 47/144 (32%), Gaps = 28/144 (19%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            LE ++   N +  +P   +     L  L ++ N  L  +PE        L+ +++S+  
Sbjct: 141 LLEYINADNNQLTMLPELPTS----LEVLSVRNN-QLTFLPEL----PESLEALDVSTNL 191

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +E LP+      +                         +    + RI  +PE +  L+  
Sbjct: 192 LESLPAVPVRNHHSEET-------------------EIFFRCRENRITHIPENILSLDPT 232

Query: 159 SHLYLSSLQLKKFPAGILPRLRSL 182
             + L    L       L +  + 
Sbjct: 233 CTIILEDNPLSSRIRESLSQQTAQ 256

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

 Score = 49.2 bits (117), Expect = 2e-06
 Identities = 20/130 (15%), Positives = 39/130 (30%), Gaps = 10/130 (7%)

Query: 57  MSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSD--LTNLRS 114
           M P     S         +      +F      +   L   +     S + +  +     
Sbjct: 4   MLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSE 63

Query: 115 LSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA 173
           L L     L  +P +L     +  L++    +  +P   E+  +L +L     +L   P 
Sbjct: 64  LQLN-RLNLSSLPDNLPPQ--ITVLEITQNALISLP---ELPASLEYLDACDNRLSTLPE 117

Query: 174 GILPRLRSLY 183
                L+ L 
Sbjct: 118 LP-ASLKHLD 126

>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 = 66.4 bits (161), Expect = 1e-11
 Identities = 77/479 (16%), Positives = 140/479 (29%), Gaps = 145/479 (30%)

Query: 55  SNMSPHC-EILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLR 113
                   +ILS       +      +C  V     K + LS  +I+ +  S   ++   
Sbjct: 12  GEHQYQYKDILSVFE----DAFVDNFDCKDV-QDMPKSI-LSKEEIDHIIMSKDAVS--G 63

Query: 114 SLSLGWCRRLKRVPSLAR----LLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQ-- 167
           +L L W    K+   + +    +L + Y  L    I+       M+  +       L   
Sbjct: 64  TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS-PIKTEQRQPSMMTRMYIEQRDRLYND 122

Query: 168 LKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKS 227
            + F    + RL+   KL+     +AL E                     L+        
Sbjct: 123 NQVFAKYNVSRLQPYLKLR-----QALLE---------------------LRP------- 149

Query: 228 TDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKD--VQCLQMF 285
                +KN  +     G+ G         K+              + +     VQC   F
Sbjct: 150 -----AKNVLI----DGVLGS-------GKTWV-----------ALDVCLSYKVQCKMDF 182

Query: 286 EVDEVTSLNDVLPRELGLVNIGKFSHDLKV-------------LRFDSCKN-LKNLFSLR 331
           ++  +   N   P  + L  + K  + +               LR  S +  L+ L   +
Sbjct: 183 KIFWLNLKNCNSPETV-LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 332 LLP-AL------QNLKVLAV--ISCNSI-----EEIVAVEDEDTEKELATNTIINTVTLP 377
                L      QN K      +SC  +     +++       T   ++ +    T+T  
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 378 RLKKL-------RFYDLPEFKSFCSYNGVLVC---NSLQEIEVR-------RCPKLKR-L 419
            +K L       R  DLP      + N   +     S+++            C KL   +
Sbjct: 302 EVKSLLLKYLDCRPQDLPR--EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359

Query: 420 SLSLPLLDHGQPSPPAALK------VI-----KIEKELWESLDWDQANAKEVLNSYCKF 467
             SL +L+      PA  +       +      I   L   + W      +V+    K 
Sbjct: 360 ESSLNVLE------PAEYRKMFDRLSVFPPSAHIPTILLSLI-WFDVIKSDVMVVVNKL 411

>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 = 61.4 bits (148), Expect = 3e-10
 Identities = 80/496 (16%), Positives = 154/496 (31%), Gaps = 131/496 (26%)

Query: 38  ENLERVSLMRNNIEEI---PSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNL 94
           +++ +  L +  I+ I      +S    +  TLL ++ E +Q+    F        V  +
Sbjct: 39  QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK----F--------VEEV 86

Query: 95  SSTDIEVLPSSVSDLTNLRSL---SLGWCR-RLKRVPSLARLLALQYLDLYDTRIEEVPE 150
              + + L S +       S+        R RL     +       +     +R++   +
Sbjct: 87  LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV-------FAKYNVSRLQPYLK 139

Query: 151 GMEMLENL-SHLYL----------SSL---------QLKKFPAGILPRLRSLYKLKLSFG 190
             + L  L     +          + +            K    I       +   L+  
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI------FW---LNLK 190

Query: 191 N-EALRETVEEAARLSDRLDYFEGYFSTLKD--FNIYVKSTDGRGSKNYCLALSAHGMGG 247
           N  +    +E   +L  ++D     +++  D   NI ++    +      L    +    
Sbjct: 191 NCNSPETVLEMLQKLLYQID---PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY--EN 245

Query: 248 CLVTHLEV-DKSV---FLYGCKI-------------CEIKETIVLLKDVQCLQMFEVDEV 290
           CL+  L V +      F   CKI                  T + L           DEV
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS--MTLTPDEV 303

Query: 291 TSL--------NDVLPRELGLVN------IGKFSHDLKVLRFDSCKNLKNLFSLRLLPAL 336
            SL           LPRE+   N      I +   D  +  +D   N K++   +L   +
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD-GLATWD---NWKHVNCDKLTTII 359

Query: 337 QNLKVLAVISCNSIEEIVAVEDEDTEKELA---TNTIINTVTLPRL-KKLRFYDLPEF-K 391
           +          +S+  +   E       L+    +  I T+ L  +   +   D+     
Sbjct: 360 E----------SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 392 SFCSYNGVLVCNSLQEIEVRRCPKLKRLSL-SLPLLDHGQPSPPAAL-KVIKIEK-ELWE 448
               Y       SL    V + PK   +S+ S+ L    +     AL + I ++   + +
Sbjct: 410 KLHKY-------SL----VEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNIPK 457

Query: 449 SLDWDQANAKEVLNSY 464
           + D D       L+ Y
Sbjct: 458 TFDSDDL-IPPYLDQY 472

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.9 bits (100), Expect = 2e-04
 Identities = 35/271 (12%), Positives = 91/271 (33%), Gaps = 65/271 (23%)

Query: 5   IRDMALRITSKSPLFMVKAGLRLLEFPGE-QEWEE-NLERVS-LMRNNIEEI-PSNMSPH 60
            +D+   + + +P  +      + +       W+  N ++++ ++ +++  + P+     
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

Query: 61  CEILSTLLLQRNENLQRIPECFFVHMHGLKVV--NLSSTDIEVLPSSVSDLTNLRSLSLG 118
            + LS  +   + +   IP         L ++  ++  +D+ V+   V+ L     +   
Sbjct: 375 FDRLS--VFPPSAH---IPT------ILLSLIWFDVIKSDVMVV---VNKLHKYSLVEKQ 420

Query: 119 WCRRLKRVPSLARLLALQ----------YLDLYDTRIEEVPEGMEMLEN----LSHL-Y- 162
                  +PS+   L ++           +D Y+       + +          SH+ + 
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480

Query: 163 LSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLD-------Y----- 210
           L +++        +   R ++ L   F  + +R            L+       Y     
Sbjct: 481 LKNIE----HPERMTLFRMVF-LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535

Query: 211 -----FEGYFSTLKDF------NIYV-KSTD 229
                +E   + + DF      N+   K TD
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTD 566

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

 Score = 63.9 bits (156), Expect = 2e-11
 Identities = 35/151 (23%), Positives = 66/151 (43%), Gaps = 10/151 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            N  +++  ++N+ +  +      + ++TL       +  I      +++ L  + L   
Sbjct: 19  ANAIKIAAGKSNVTDTVTQ--ADLDGITTLSAFGT-GVTTIEG--VQYLNNLIGLELKDN 73

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I  L + + +LT +  L L     LK V ++A L +++ LDL  T+I +V   +  L N
Sbjct: 74  QITDL-APLKNLTKITELELSGN-PLKNVSAIAGLQSIKTLDLTSTQITDV-TPLAGLSN 130

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  LYL   Q+       L  L +L  L + 
Sbjct: 131 LQVLYLDLNQITNISP--LAGLTNLQYLSIG 159

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

 Score = 62.0 bits (151), Expect = 7e-11
 Identities = 33/150 (22%), Positives = 68/150 (45%), Gaps = 10/150 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL  + L  N I ++      +   ++ L L  N  L+ +       +  +K ++L+ST 
Sbjct: 64  NLIGLELKDNQITDLAP--LKNLTKITELELSGN-PLKNVSA--IAGLQSIKTLDLTSTQ 118

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  + + ++ L+NL+ L L   + +  +  LA L  LQYL + + ++ ++   +  L  L
Sbjct: 119 ITDV-TPLAGLSNLQVLYLDLNQ-ITNISPLAGLTNLQYLSIGNAQVSDL-TPLANLSKL 175

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           + L     ++       L  L +L ++ L 
Sbjct: 176 TTLKADDNKISDISP--LASLPNLIEVHLK 203

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

 Score = 62.0 bits (151), Expect = 7e-11
 Identities = 26/153 (16%), Positives = 59/153 (38%), Gaps = 8/153 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           +++ + L    I ++          L  L L  N  +  I       +  L+ +++ +  
Sbjct: 108 SIKTLDLTSTQITDVTPL--AGLSNLQVLYLDLN-QITNISP--LAGLTNLQYLSIGNAQ 162

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +  L + +++L+ L +L      ++  +  LA L  L  + L + +I +V   +    NL
Sbjct: 163 VSDL-TPLANLSKLTTLKAD-DNKISDISPLASLPNLIEVHLKNNQISDV-SPLANTSNL 219

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
             + L++  +   P      L     +K   G 
Sbjct: 220 FIVTLTNQTITNQPVFYNNNLVVPNVVKGPSGA 252

>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 = 60.7 bits (148), Expect = 5e-11
 Identities = 19/128 (14%), Positives = 52/128 (40%), Gaps = 5/128 (3%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           N++ +++   +     + +S     L  L +    ++          +  L ++++S + 
Sbjct: 67  NIKDLTINNIHATNY-NPIS-GLSNLERLRIMGK-DVTSDKIPNLSGLTSLTLLDISHSA 123

Query: 99  IEVL-PSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            +    + ++ L  + S+ L +   +  +  L  L  L+ L++    + +   G+E    
Sbjct: 124 HDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDY-RGIEDFPK 182

Query: 158 LSHLYLSS 165
           L+ LY  S
Sbjct: 183 LNQLYAFS 190

>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 = 52.7 bits (127), Expect = 3e-08
 Identities = 16/109 (14%), Positives = 42/109 (38%), Gaps = 3/109 (2%)

Query: 85  HMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTR 144
            M+ L  + L++ ++  L + +    N++ L++           ++ L  L+ L +    
Sbjct: 42  QMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNIH-ATNYNPISGLSNLERLRIMGKD 99

Query: 145 I-EEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNE 192
           +  +    +  L +L+ L +S           +  L  +  + LS+   
Sbjct: 100 VTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGA 148

>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 = 50.7 bits (122), Expect = 2e-07
 Identities = 21/149 (14%), Positives = 52/149 (34%), Gaps = 8/149 (5%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            +L  ++L   N+ ++ + +  +   +  L +    +           +  L+ + +   
Sbjct: 44  NSLTYITLANINVTDL-TGIE-YAHNIKDLTINNI-HATNYN--PISGLSNLERLRIMGK 98

Query: 98  DI-EVLPSSVSDLTNLRSLSLGWCR-RLKRVPSLARLLALQYLDLYDTRIEEVPEGMEML 155
           D+      ++S LT+L  L +         +  +  L  +  +DL           ++ L
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTL 158

Query: 156 ENLSHLYLSSLQLKKFPA-GILPRLRSLY 183
             L  L +    +  +      P+L  LY
Sbjct: 159 PELKSLNIQFDGVHDYRGIEDFPKLNQLY 187

>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 = 48.8 bits (117), Expect = 6e-07
 Identities = 14/99 (14%), Positives = 32/99 (32%), Gaps = 2/99 (2%)

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVP 149
             +N           + + + +L  ++L     +  +  +     ++ L + +       
Sbjct: 24  AYLNGLLGQSSTANITEAQMNSLTYITLANI-NVTDLTGIEYAHNIKDLTINNIHATNY- 81

Query: 150 EGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             +  L NL  L +    +       L  L SL  L +S
Sbjct: 82  NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDIS 120

>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 = 45.7 bits (109), Expect = 6e-06
 Identities = 17/107 (15%), Positives = 37/107 (34%), Gaps = 2/107 (1%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NLER+ +M  ++             L+ L +  + +   I       +  +  ++LS   
Sbjct: 89  NLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILT-KINTLPKVNSIDLSYNG 147

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRI 145
                  +  L  L+SL++ +   +     +     L  L  +   I
Sbjct: 148 AITDIMPLKTLPELKSLNIQFDG-VHDYRGIEDFPKLNQLYAFSQTI 193

>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 = 62.8 bits (153), Expect = 8e-11
 Identities = 29/145 (20%), Positives = 57/145 (39%), Gaps = 12/145 (8%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  ++  RN + EI  +   H   L+ L    N+ + ++          L  ++ S   
Sbjct: 128 LLTYLNCARNTLTEIDVS---HNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNK 181

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  L   VS    L  L+      + ++  L + + L +LD    ++ E+   +  L  L
Sbjct: 182 ITELD--VSQNKLLNRLNCDTNN-ITKLD-LNQNIQLTFLDCSSNKLTEID--VTPLTQL 235

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLY 183
           ++   S   L +     L +L +L+
Sbjct: 236 TYFDCSVNPLTELDVSTLSKLTTLH 260

>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 = 59.7 bits (145), Expect = 7e-10
 Identities = 28/145 (19%), Positives = 52/145 (35%), Gaps = 12/145 (8%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  +    N + EI          L+      N  L  +       +  L  ++   TD
Sbjct: 213 QLTFLDCSSNKLTEIDVT---PLTQLTYFDCSVN-PLTELDVS---TLSKLTTLHCIQTD 265

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +  +   ++  T L       CR++K +  +     L  LD     I E+   +     L
Sbjct: 266 LLEID--LTHNTQLIYFQAEGCRKIKELD-VTHNTQLYLLDCQAAGITELD--LSQNPKL 320

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLY 183
            +LYL++ +L +       +L+SL 
Sbjct: 321 VYLYLNNTELTELDVSHNTKLKSLS 345

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 58.9 bits (143), Expect = 1e-09
 Identities = 23/146 (15%), Positives = 52/146 (35%), Gaps = 9/146 (6%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
           +N          ++   +        L++L    + ++  +       + GL  +  +S 
Sbjct: 18  DNFASEVAAAFEMQATDTISEEQLATLTSLDCHNS-SITDMTG--IEKLTGLTKLICTSN 74

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
           +I  L   +S  TNL  L+    + L  +  +  L  L YL+    ++ ++         
Sbjct: 75  NITTLD--LSQNTNLTYLACDSNK-LTNLD-VTPLTKLTYLNCDTNKLTKLDVSQ--NPL 128

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLY 183
           L++L  +   L +       +L  L 
Sbjct: 129 LTYLNCARNTLTEIDVSHNTQLTELD 154

>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 = 57.4 bits (139), Expect = 5e-09
 Identities = 21/139 (15%), Positives = 48/139 (34%), Gaps = 11/139 (7%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  +  ++ ++ EI      H   L     +    ++ +      H   L +++  +  
Sbjct: 255 KLTTLHCIQTDLLEIDLT---HNTQLIYFQAEGCRKIKELD---VTHNTQLYLLDCQAAG 308

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  L   +S    L  L L     L  +  ++    L+ L   +  I++    +  +  L
Sbjct: 309 ITELD--LSQNPKLVYLYLNNTE-LTELD-VSHNTKLKSLSCVNAHIQDFSS-VGKIPAL 363

Query: 159 SHLYLSSLQLKKFPAGILP 177
           ++ + +  Q    P   L 
Sbjct: 364 NNNFEAEGQTITMPKETLT 382

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 60.8 bits (148), Expect = 1e-10
 Identities = 35/151 (23%), Positives = 61/151 (40%), Gaps = 11/151 (7%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST 97
            N  + +L + ++ ++ S        +       + N+Q +          LK ++LS  
Sbjct: 19  ANAVKQNLGKQSVTDLVSQ--KELSGVQNFNGDNS-NIQSLAG--MQFFTNLKELHLSHN 73

Query: 98  DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLEN 157
            I  L S + DLT L  LS+    RLK +  +     L  L L +  + +  + +  L+N
Sbjct: 74  QISDL-SPLKDLTKLEELSVNRN-RLKNLNGIP-SACLSRLFLDNNELRDT-DSLIHLKN 129

Query: 158 LSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  L + + +LK      L  L  L  L L 
Sbjct: 130 LEILSIRNNKLKSIVM--LGFLSKLEVLDLH 158

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 58.5 bits (142), Expect = 7e-10
 Identities = 36/153 (23%), Positives = 62/153 (40%), Gaps = 9/153 (5%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
           NL+ + L  N I ++ S +      L  L + RN    R+     +    L  + L + +
Sbjct: 64  NLKELHLSHNQISDL-SPLK-DLTKLEELSVNRN----RLKNLNGIPSACLSRLFLDNNE 117

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           +     S+  L NL  LS+   + LK +  L  L  L+ LDL+   I     G+  L+ +
Sbjct: 118 LRDT-DSLIHLKNLEILSIRNNK-LKSIVMLGFLSKLEVLDLHGNEITNT-GGLTRLKKV 174

Query: 159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           + + L+  +    P    P L     +K   G 
Sbjct: 175 NWIDLTGQKCVNEPVKYQPELYITNTVKDPDGR 207

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 46.9 bits (112), Expect = 5e-06
 Identities = 22/96 (22%), Positives = 38/96 (39%), Gaps = 5/96 (5%)

Query: 94  LSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGME 153
              T I  +      L N    +LG    +  + S   L  +Q  +  ++ I+ +  GM+
Sbjct: 4   QRPTPINQV-FPDPGLANAVKQNLGKQ-SVTDLVSQKELSGVQNFNGDNSNIQSL-AGMQ 60

Query: 154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
              NL  L+LS  Q+       L  L  L +L ++ 
Sbjct: 61  FFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNR 94

>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 = 61.3 bits (148), Expect = 3e-10
 Identities = 31/161 (19%), Positives = 56/161 (34%), Gaps = 20/161 (12%)

Query: 38  ENLERVSLMRNNIEEIPSNMSPHCEILS--------TLLLQRNENLQRIPECFFVHMHGL 89
             L+ V  MR    +   +       +          L L    +L  +       +  +
Sbjct: 409 STLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLCH--LEQLLLV 465

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVP 149
             ++LS   +  LP +++ L  L  L       L+ V  +A L  LQ L L + R+++  
Sbjct: 466 THLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVDGVANLPRLQELLLCNNRLQQSA 524

Query: 150 EGMEM--LENLSHLYLSSLQLKKFP------AGILPRLRSL 182
               +     L  L L    L +        A +LP + S+
Sbjct: 525 AIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

>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 = 54.0 bits (129), Expect = 6e-08
 Identities = 28/163 (17%), Positives = 54/163 (33%), Gaps = 6/163 (3%)

Query: 26  RLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVH 85
           +      E E  + L+ +    N    +   +            +  +    +       
Sbjct: 360 KSTVLQSELESCKELQELEP-ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DP 416

Query: 86  MHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRI 145
           M    + +L S  +        +  ++R L L   + L  +  L +LL + +LDL   R+
Sbjct: 417 MRAAYLDDLRSKFLLENSVLKMEYADVRVLHLA-HKDLTVLCHLEQLLLVTHLDLSHNRL 475

Query: 146 EEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
             +P  +  L  L  L  S   L+      +  L  L +L L 
Sbjct: 476 RALPPALAALRCLEVLQASDNALENVDG--VANLPRLQELLLC 516

>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 = 59.2 bits (144), Expect = 2e-09
 Identities = 31/172 (18%), Positives = 64/172 (37%), Gaps = 16/172 (9%)

Query: 28  LEFPGEQEWEEN---LERVSLMRNNIE-EIPSNMSP--HCEILSTLLLQRNENLQ-RIPE 80
           L+FPG+         LE + L  N+I             C  L  L +  N  +   +  
Sbjct: 138 LDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGN-KISGDVD- 195

Query: 81  CFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLD 139
                   L+ +++SS +       + D + L+ L +   +       +++    L+ L+
Sbjct: 196 --VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLN 253

Query: 140 LYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSF 189
           +   +    +P     L++L +L L+  +   + P  +     +L  L LS 
Sbjct: 254 ISSNQFVGPIPP--LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSG 303

>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 = 57.6 bits (140), Expect = 5e-09
 Identities = 35/159 (22%), Positives = 57/159 (35%), Gaps = 13/159 (8%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQ-RIPECFFVHMHGLKVVNLSS 96
            L+ +++  N     IP         L  L L  N      IP+        L  ++LS 
Sbjct: 248 ELKLLNISSNQFVGPIPPLPLKS---LQYLSLAEN-KFTGEIPDFLSGACDTLTGLDLSG 303

Query: 97  TDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIE-EVPEGM 152
                 +P      + L SL+L        +P  +L ++  L+ LDL       E+PE +
Sbjct: 304 NHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESL 363

Query: 153 -EMLENLSHLYLSSLQLK-KFPAGILP-RLRSLYKLKLS 188
             +  +L  L LSS          +      +L +L L 
Sbjct: 364 TNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQ 402

>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 = 57.2 bits (139), Expect = 7e-09
 Identities = 36/180 (20%), Positives = 62/180 (34%), Gaps = 35/180 (19%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQ-RIPECFFVHMHGLKVVNLSS 96
            L+ +++  N I  ++  +   +   L  L +  N N    IP         L+ +++S 
Sbjct: 179 ELKHLAISGNKISGDVDVSRCVN---LEFLDVSSN-NFSTGIPF--LGDCSALQHLDISG 232

Query: 97  TDIE-VLPSSVSDLTNLRSLSLGW-----------CRRLKRV------------PSLARL 132
             +      ++S  T L+ L++              + L+ +              L+  
Sbjct: 233 NKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGA 292

Query: 133 L-ALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSF 189
              L  LDL        VP        L  L LSS     + P   L ++R L  L LSF
Sbjct: 293 CDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF 352

>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 = 53.4 bits (129), Expect = 9e-08
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 8/132 (6%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQ-RIPECFFVHMHGLKVVNLSS 96
            L  + L  N +   IPS++      L  L L  N  L+  IP+    ++  L+ + L  
Sbjct: 419 ELVSLHLSFNYLSGTIPSSLG-SLSKLRDLKLWLN-MLEGEIPQELM-YVKTLETLILDF 475

Query: 97  TDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGME 153
            D+   +PS +S+ TNL  +SL   R    +P  + RL  L  L L +      +P  + 
Sbjct: 476 NDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELG 535

Query: 154 MLENLSHLYLSS 165
              +L  L L++
Sbjct: 536 DCRSLIWLDLNT 547

>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 = 52.2 bits (126), Expect = 3e-07
 Identities = 29/109 (26%), Positives = 40/109 (36%), Gaps = 8/109 (7%)

Query: 89  LKVVNLSSTDIEV----LPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTR 144
           +  ++LSS  + V    + SS+  LT L SL L        V       +L  LDL    
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNS 111

Query: 145 IE-EVPEGMEM--LENLSHLYLSSLQL-KKFPAGILPRLRSLYKLKLSF 189
           +   V     +     L  L +SS  L          +L SL  L LS 
Sbjct: 112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSA 160

>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 = 48.0 bits (115), Expect = 6e-06
 Identities = 40/161 (24%), Positives = 68/161 (42%), Gaps = 17/161 (10%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQ-RIPECFF-VHMHGLKVVNLS 95
            L+ + L  N    E+P +++     L TL L  N N    I         + L+ + L 
Sbjct: 344 GLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSN-NFSGPILPNLCQNPKNTLQELYLQ 402

Query: 96  STDIE-VLPSSVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIE-EVPEG 151
           +      +P ++S+ + L SL L +   L   +P SL  L  L+ L L+   +E E+P+ 
Sbjct: 403 NNGFTGKIPPTLSNCSELVSLHLSFN-YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE 461

Query: 152 MEMLENLSHLYLSSLQLKKFPAGILPR----LRSLYKLKLS 188
           +  ++ L  L L    L     G +P       +L  + LS
Sbjct: 462 LMYVKTLETLILDFNDLT----GEIPSGLSNCTNLNWISLS 498

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

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 26/124 (20%), Positives = 46/124 (37%), Gaps = 14/124 (11%)

Query: 72  NENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP---S 128
           N     +       + GL+ + LS++ I    S      +L SL L        V    S
Sbjct: 63  NVGFSAVSSSLL-SLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTS 121

Query: 129 LARLLALQYLDLYDTRIE---EVPEGMEMLENLSHLYLSSLQL-KKFPAGI-----LPRL 179
           L     L++L++    ++   +V  G++ L +L  L LS+  +      G         L
Sbjct: 122 LGSCSGLKFLNVSSNTLDFPGKVSGGLK-LNSLEVLDLSANSISGANVVGWVLSDGCGEL 180

Query: 180 RSLY 183
           + L 
Sbjct: 181 KHLA 184

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 53.4 bits (129), Expect = 1e-08
 Identities = 36/106 (33%), Positives = 54/106 (50%), Gaps = 6/106 (5%)

Query: 90  KVVNLSSTDIEVLPSSVSD-LTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIE 146
             + L S  ++ LP  V D LT L  LSL    +++ +P     +L  L  L L++ +++
Sbjct: 31  TRLELESNKLQSLPHGVFDKLTQLTKLSLS-QNQIQSLPDGVFDKLTKLTILYLHENKLQ 89

Query: 147 EVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
            +P G+ + L  L  L L + QLK  P GI  RL SL K+ L   N
Sbjct: 90  SLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWL-HTN 134

>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 = 54.0 bits (129), Expect = 4e-08
 Identities = 23/105 (21%), Positives = 37/105 (35%), Gaps = 4/105 (3%)

Query: 87  HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTR 144
           HG   +  +          +    NL  L +   + L+ +    L  L  L+ L +  + 
Sbjct: 8   HGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG 67

Query: 145 IEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           +  V          LS L LS   L+      +  L SL +L LS
Sbjct: 68  LRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGL-SLQELVLS 111

>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 = 44.7 bits (105), Expect = 4e-05
 Identities = 17/102 (16%), Positives = 41/102 (40%), Gaps = 4/102 (3%)

Query: 43  VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL 102
           +   R+   +   ++ P  E L+ L ++  ++LQ +       +  L+ + +  + +  +
Sbjct: 13  LRCTRDGALDSLHHL-PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV 71

Query: 103 PSSV-SDLTNLRSLSLGWCRRLKRVPSLA-RLLALQYLDLYD 142
                     L  L+L +   L+ +     + L+LQ L L  
Sbjct: 72  APDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQELVLSG 112

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

 Score = 52.5 bits (127), Expect = 1e-07
 Identities = 31/186 (16%), Positives = 61/186 (32%), Gaps = 37/186 (19%)

Query: 39  NLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQ-RIPECFFVHMHGLKVV---- 92
            L  +    N +   +P ++S     L  +    N  +   IP+ +      L       
Sbjct: 126 TLVTLDFSYNALSGTLPPSIS-SLPNLVGITFDGN-RISGAIPDSYG-SFSKLFTSMTIS 182

Query: 93  -------------NLSSTDIEV--------LPSSVSDLTNLRSLSLGWCRRLKRVPSLAR 131
                        NL+   +++                 N + + L        +  +  
Sbjct: 183 RNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGL 242

Query: 132 LLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKL-KLSF 189
              L  LDL + RI   +P+G+  L+ L  L +S   L     G +P+  +L +    ++
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLC----GEIPQGGNLQRFDVSAY 298

Query: 190 -GNEAL 194
             N+ L
Sbjct: 299 ANNKCL 304

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

 Score = 44.1 bits (105), Expect = 6e-05
 Identities = 22/123 (17%), Positives = 42/123 (34%), Gaps = 16/123 (13%)

Query: 53  IPSNMSPHCEILSTLLLQRNENLQ---RIPECFFVHMHGLKVVNLSST-----DIEVLPS 104
           +    +     ++ L L    NL     IP     ++  L  + +         I   P 
Sbjct: 42  LCDTDT-QTYRVNNLDLSGL-NLPKPYPIPSSLA-NLPYLNFLYIGGINNLVGPI---PP 95

Query: 105 SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENLSHLY 162
           +++ LT L  L +        +P  L+++  L  LD     +   +P  +  L NL  + 
Sbjct: 96  AIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGIT 155

Query: 163 LSS 165
              
Sbjct: 156 FDG 158

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 26/126 (20%), Positives = 40/126 (31%), Gaps = 24/126 (19%)

Query: 67  LLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRV 126
           LLL  NE  +   +  F  +  L  + L    +  +  +  +                  
Sbjct: 34  LLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFE------------------ 75

Query: 127 PSLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKL 185
                   +Q L L + +I+E+   M   L  L  L L   Q+     G    L SL  L
Sbjct: 76  ----GASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSL 131

Query: 186 KLSFGN 191
            L   N
Sbjct: 132 NL-ASN 136

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

 Score = 48.9 bits (117), Expect = 5e-07
 Identities = 23/116 (19%), Positives = 52/116 (44%), Gaps = 6/116 (5%)

Query: 72  NENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLAR 131
            E +++  +  + +    + ++L    I V+ +  + L    ++       ++++     
Sbjct: 6   AELIEQAAQ--YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE-IRKLDGFPL 62

Query: 132 LLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLK 186
           L  L+ L + + RI  + EG+ + L +L+ L L++  L +   G L  L SL  L 
Sbjct: 63  LRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVEL--GDLDPLASLKSLT 116

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 49.9 bits (119), Expect = 8e-07
 Identities = 29/173 (16%), Positives = 54/173 (31%), Gaps = 16/173 (9%)

Query: 25  LRLLEFPGEQEWEENLERVSLMRNNI----EEIPSNMSPHCEILSTLLLQRNENLQRIPE 80
                 P  +    +L  ++L   +       +          L  L + +  +      
Sbjct: 108 TGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQA-HSLNFSC 166

Query: 81  CFFVHMHGLKVVNLS----STDIEVLPSSV-SDLTNLRSLSLGWCR--RLKRVPS--LAR 131
                   L  ++LS      +  ++ +        L+ L+L          V S   A 
Sbjct: 167 EQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAA 226

Query: 132 LLALQYLDLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKKFPAGILPRLRSL 182
            + LQ LDL    + +       +    L+ L LS   LK+ P G+  +L  L
Sbjct: 227 RVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVL 279

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 44.1 bits (104), Expect = 5e-05
 Identities = 36/153 (23%), Positives = 54/153 (35%), Gaps = 14/153 (9%)

Query: 23  AGLRLLEFPGEQEWE-ENLERVSLMRNNIEEIPSNMSPHCEI----LSTLLLQRN--ENL 75
           A    L F  EQ      L  + L  N        +S  C +    L  L L+    E  
Sbjct: 157 AQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETP 216

Query: 76  QRIPECFFVHMHGLKVVNLSSTDIEVLPSSV--SDLTNLRSLSLGWCRRLKRVPS-LARL 132
             +          L+ ++LS   +     +      + L SL+L +   LK+VP  L   
Sbjct: 217 SGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTG-LKQVPKGLPA- 274

Query: 133 LALQYLDLYDTRIEEVPEGMEMLENLSHLYLSS 165
             L  LDL   R++  P   E L  + +L L  
Sbjct: 275 -KLSVLDLSYNRLDRNPSPDE-LPQVGNLSLKG 305

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 47.7 bits (114), Expect = 1e-06
 Identities = 21/105 (20%), Positives = 41/105 (39%), Gaps = 5/105 (4%)

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPS--LARLLALQYLDLYDTRIEE 147
             + L      ++P  +S+  +L  + L    R+  + +   + +  L  L L   R+  
Sbjct: 34  TELYLDGNQFTLVPKELSNYKHLTLIDLS-NNRISTLSNQSFSNMTQLLTLILSYNRLRC 92

Query: 148 VPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
           +P    + L++L  L L    +   P G    L +L  L +   N
Sbjct: 93  IPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAI-GAN 136

>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 = 3e-04
 Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 6/105 (5%)

Query: 41  ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE 100
             + L  N    +P  +S + + L+ + L  N  +  +    F +M  L  + LS   + 
Sbjct: 34  TELYLDGNQFTLVPKELS-NYKHLTLIDLSNNR-ISTLSNQSFSNMTQLLTLILSYNRLR 91

Query: 101 VLPSSVSD-LTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYD 142
            +P    D L +LR LSL     +  VP  A   L AL +L +  
Sbjct: 92  CIPPRTFDGLKSLRLLSL-HGNDISVVPEGAFNDLSALSHLAIGA 135

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 47.0 bits (112), Expect = 3e-06
 Identities = 30/154 (19%), Positives = 63/154 (40%), Gaps = 20/154 (12%)

Query: 20  MVKAGLRLLEFPGEQEWEENLERVSL--MRNNIEEIPSNMSPHCEILSTLLLQRN----- 72
            +K  +R+ E        E  E+V L  M   IE++ + +S   +    L L  N     
Sbjct: 6   TIKDAIRIFEERKSVVATE-AEKVELHGMIPPIEKMDATLS-TLKACKHLALSTNNIEKI 63

Query: 73  ENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARL 132
            +L          M  L++++L    I+ + +  +    L  L + + + +  +  + +L
Sbjct: 64  SSLS--------GMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQ-IASLSGIEKL 114

Query: 133 LALQYLDLYDTRIEEVPE--GMEMLENLSHLYLS 164
           + L+ L + + +I    E   +  L+ L  L L+
Sbjct: 115 VNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLA 148

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 20/97 (20%), Positives = 46/97 (47%), Gaps = 3/97 (3%)

Query: 93  NLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM 152
           +     IE + +++S L   + L+L     ++++ SL+ +  L+ L L    I+++    
Sbjct: 31  HGMIPPIEKMDATLSTLKACKHLALSTNN-IEKISSLSGMENLRILSLGRNLIKKIENLD 89

Query: 153 EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            + + L  L++S  Q+       + +L +L  L +S 
Sbjct: 90  AVADTLEELWISYNQIASLSG--IEKLVNLRVLYMSN 124

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

 Score = 45.5 bits (108), Expect = 6e-06
 Identities = 31/133 (23%), Positives = 49/133 (36%), Gaps = 9/133 (6%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
                +  G      NLE +SL+   +  + +   P    L  L L  N  +    +   
Sbjct: 35  KSNDGKIEGLTAEFVNLEFLSLINVGLISVSN--LPKLPKLKKLELSEN-RIFGGLDMLA 91

Query: 84  VHMHGLKVVNLSSTDIEVLPS--SVSDLTNLRSLSLGW--CRRLK--RVPSLARLLALQY 137
             +  L  +NLS   ++ + +   +  L  L+SL L       L   R      L  L Y
Sbjct: 92  EKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTY 151

Query: 138 LDLYDTRIEEVPE 150
           LD YD   +E P+
Sbjct: 152 LDGYDREDQEAPD 164

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

 Score = 43.6 bits (103), Expect = 3e-05
 Identities = 30/98 (30%), Positives = 46/98 (46%), Gaps = 6/98 (6%)

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPE 150
           V++   ++   +    ++  NL  LSL     L  V +L +L  L+ L+L + RI    +
Sbjct: 30  VLDNCKSNDGKIEGLTAEFVNLEFLSL-INVGLISVSNLPKLPKLKKLELSENRIFGGLD 88

Query: 151 G-MEMLENLSHLYLSSLQLKKF----PAGILPRLRSLY 183
              E L NL+HL LS  +LK      P   L  L+SL 
Sbjct: 89  MLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLD 126

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D Length = 170

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 7/103 (6%)

Query: 92  VNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLA--RLLALQYLDLYDTRIEEVP 149
           V+ S   +  +P+ +   T  + L L +  ++ ++      RL  L  LDL + ++  +P
Sbjct: 14  VDCSGKSLASVPTGI--PTTTQVLYL-YDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLP 70

Query: 150 EGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN 191
            G+ + L  L+ L L+  QLK  P G    L+SL  + L   N
Sbjct: 71  AGVFDKLTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWL-LNN 112

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 2/69 (2%)

Query: 121 RRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRL 179
            RL  VP+       Q L L + +I ++  G+ + L NL  LY +S +L   P G+  +L
Sbjct: 22  IRLASVPA-GIPTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKL 80

Query: 180 RSLYKLKLS 188
             L +L L+
Sbjct: 81  TQLTQLDLN 89

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 2/62 (3%)

Query: 131 RLLALQYLDLYDTRIEEVPEGM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF 189
            L+ LQ L     ++  +P G+ + L  L+ L L+   LK  P G    L+SL  + L +
Sbjct: 55  HLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL-Y 113

Query: 190 GN 191
            N
Sbjct: 114 NN 115

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

 Score = 42.4 bits (100), Expect = 5e-05
 Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 4/97 (4%)

Query: 91  VVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPE 150
           V++ S ++   L     +   L  LS      L  + +L +L  L+ L+L D R+    E
Sbjct: 23  VLDNSRSNEGKLEGLTDEFEELEFLSTINVG-LTSIANLPKLNKLKKLELSDNRVSGGLE 81

Query: 151 GM-EMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLK 186
            + E   NL+HL LS  ++K      +  L+ L  LK
Sbjct: 82  VLAEKCPNLTHLNLSGNKIKDL--STIEPLKKLENLK 116

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

 Score = 39.3 bits (92), Expect = 7e-04
 Identities = 33/126 (26%), Positives = 48/126 (38%), Gaps = 11/126 (8%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
                +  G  +  E LE +S +   +  I +N+ P    L  L L  N  +    E   
Sbjct: 28  RSNEGKLEGLTDEFEELEFLSTINVGLTSI-ANL-PKLNKLKKLELSDN-RVSGGLEVLA 84

Query: 84  VHMHGLKVVNLSSTDIEVLPS--SVSDLTNLRSLSLGWCRRLKRVPS-----LARLLALQ 136
                L  +NLS   I+ L +   +  L NL+SL L  C  +  +          L  L 
Sbjct: 85  EKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLT 143

Query: 137 YLDLYD 142
           YLD YD
Sbjct: 144 YLDGYD 149

>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* Length = 592

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 60/411 (14%), Positives = 133/411 (32%), Gaps = 49/411 (11%)

Query: 36  WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS 95
           +    +R+S    N+  +     P   + + +       +         ++  LK V+  
Sbjct: 61  YTATPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFR 120

Query: 96  S---TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLA----LQYLDLYDTRI--E 146
               +D+++   + +   +L +L L  C        L  ++     ++ L + ++    +
Sbjct: 121 RMIVSDLDLDRLAKARADDLETLKLDKCSGFTTD-GLLSIVTHCRKIKTLLMEESSFSEK 179

Query: 147 EVPEGMEMLENLSHLYLSSLQLKKFP-------AGILPRLRSLYKLKLSF-GNEALRETV 198
           +     E+ ++ + L + +  + +F          I    RSL  +K+       L    
Sbjct: 180 DGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFF 239

Query: 199 EEAARLSD----RLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLE 254
           + AA L +     L+   G      +     K      S      +         +  L+
Sbjct: 240 KAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLD 299

Query: 255 VDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLK 314
                 L    +   ++   L++    L++ E   V         + GL  + ++   LK
Sbjct: 300 ------LLYALLET-EDHCTLIQKCPNLEVLETRNVIG-------DRGLEVLAQYCKQLK 345

Query: 315 VLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTV 374
            LR +   + + +     L + + L  LA   C  +E +             TN  + ++
Sbjct: 346 RLRIERGADEQGMEDEEGLVSQRGLIALAQ-GCQELEYM------AVYVSDITNESLESI 398

Query: 375 T--LPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSL 423
              L  L   R   L            L  ++     +  C KL+R +  L
Sbjct: 399 GTYLKNLCDFRLVLL----DREERITDLPLDNGVRSLLIGCKKLRRFAFYL 445

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	467
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.93
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.93
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.92
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.92
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.92
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.92
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.92
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.92
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.92
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.92
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.92
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.91
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.91
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.91
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.91
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.91
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.9
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.9
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.89
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.88
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.88
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.86
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.86
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.86
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.84
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.84
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.84
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.84
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.83
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.83
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.83
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.82
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.82
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.82
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.81
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.81
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.8
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.8
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.8
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.8
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.79
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.79
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.78
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.78
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.76
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.75
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.75
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.75
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.74
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.74
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.74
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.74
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.74
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.74
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.73
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.72
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.72
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.72
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.71
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.71
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.71
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.7
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.7
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.69
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.69
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.68
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.67
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.66
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.65
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.63
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.62
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.61
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.61
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.61
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.61
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.6
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.6
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.6
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.6
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.6
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.59
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.59
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.59
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.59
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.59
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.59
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.59
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.58
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.57
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.56
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.56
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.55
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.54
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.54
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.53
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.53
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.53
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.51
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.48
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.46
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.44
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.44
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.42
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.42
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.4
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.38
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.36
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.35
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.35
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.35
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.33
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.29
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.28
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.28
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.25
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.24
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.14
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.13
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.13
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.08
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.08
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.06
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.02
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.81
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.81
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.74
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.73
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.73
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.72
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.55
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.47
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.23
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.06
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.98
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.96
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.86
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.66
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.48
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.43
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.34
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.2
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.14
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.01
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.51
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.47
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.0
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.37

>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=99.93  E-value=1.8e-25  Score=231.63  Aligned_cols=173  Identities=22%  Similarity=0.241  Sum_probs=138.2

Q ss_pred             CceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           17 PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        17 ~~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      ...+...+.++..+|..+.  +++++|++++|.+..++...+.++++|+.|++++|. +..+++..|.++++|++|++++
T Consensus        13 ~~~~~c~~~~l~~ip~~~~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~i~~~~~~~l~~L~~L~Ls~   89 (606)
T 3vq2_A           13 NITYQCMDQKLSKVPDDIP--SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE-IETIEDKAWHGLHHLSNLILTG   89 (606)
T ss_dssp             TTEEECTTSCCSSCCTTSC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTT
T ss_pred             CCceEccCCCcccCCCCCC--CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCc-ccccCHHHhhchhhcCEeECCC
Confidence            3456777888999998665  689999999999998888777799999999999997 5666555568999999999999


Q ss_pred             CCCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCc--cccccccCCCCCcEEeccCCCCCCcC
Q 012249           97 TDIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE--EVPEGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        97 ~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      |.+..+ |..++++++|++|++++|......+ .++++++|++|++++|.++  .+|..++++++|++|++++|.+..++
T Consensus        90 n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~  169 (606)
T 3vq2_A           90 NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTIT  169 (606)
T ss_dssp             CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEEC
T ss_pred             CcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecC
Confidence            999876 7888999999999999975444343 6899999999999999887  47888999999999999999887766


Q ss_pred             CccccCCCCCc----EEEcccCCC
Q 012249          173 AGILPRLRSLY----KLKLSFGNE  192 (467)
Q Consensus       173 ~~~l~~l~~L~----~L~l~~~~~  192 (467)
                      ...++.+++|+    .|+++.|..
T Consensus       170 ~~~~~~l~~L~~~l~~L~l~~n~l  193 (606)
T 3vq2_A          170 VNDLQFLRENPQVNLSLDMSLNPI  193 (606)
T ss_dssp             TTTTHHHHHCTTCCCEEECTTCCC
T ss_pred             hhhhhhhhccccccceeeccCCCc
Confidence            54334443333    555555543

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

Probab=99.93  E-value=1.2e-25  Score=238.14  Aligned_cols=363  Identities=13%  Similarity=0.132  Sum_probs=251.6

Q ss_pred             CCcccCCcCccCCCCccEEEeecCCCcc------------------cCCCc-cCCCCCCCEEEccCCCCCCCCchhHhhc
Q 012249           25 LRLLEFPGEQEWEENLERVSLMRNNIEE------------------IPSNM-SPHCEILSTLLLQRNENLQRIPECFFVH   85 (467)
Q Consensus        25 ~~l~~~~~~~~~l~~l~~L~l~~~~~~~------------------l~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~~~~   85 (467)
                      +++..+|..+..+++|+.|++++|.+..                  +|..+ +.++++|+.|++++|.+...+|..+ .+
T Consensus       435 N~L~~IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l-~~  513 (876)
T 4ecn_A          435 NRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFL-YD  513 (876)
T ss_dssp             CEEEEECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGG-GG
T ss_pred             CcccchhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHH-hC
Confidence            4455589999999999999999999987                  77765 3379999999999998888888664 89


Q ss_pred             CCCCcEEEccCCC-CCC--chhhhhcCc-------CCCEEEcCCCCCCCcCCC---ccccCCccEEEccCCcCccccccc
Q 012249           86 MHGLKVVNLSSTD-IEV--LPSSVSDLT-------NLRSLSLGWCRRLKRVPS---LARLLALQYLDLYDTRIEEVPEGM  152 (467)
Q Consensus        86 l~~L~~L~l~~~~-~~~--l~~~~~~l~-------~L~~L~l~~~~~~~~~p~---l~~l~~L~~L~l~~~~~~~lp~~~  152 (467)
                      +++|++|++++|. +..  +|..++.+.       +|++|++++|. +..+|.   ++++++|++|++++|.++.+| .+
T Consensus       514 L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~  591 (876)
T 4ecn_A          514 LPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHNKVRHLE-AF  591 (876)
T ss_dssp             CSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSC-CCBCCCHHHHTTCTTCCEEECTTSCCCBCC-CC
T ss_pred             CCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCc-CCccCChhhhhcCCCCCEEECCCCCcccch-hh
Confidence            9999999999998 874  888777766       99999999975 447775   889999999999999999998 89


Q ss_pred             cCCCCCcEEeccCCCCCCcCCccccCCCC-CcEEEcccCCCcccccHHHHHhh-hccCcEEEcccCCccchhhhhhccCC
Q 012249          153 EMLENLSHLYLSSLQLKKFPAGILPRLRS-LYKLKLSFGNEALRETVEEAARL-SDRLDYFEGYFSTLKDFNIYVKSTDG  230 (467)
Q Consensus       153 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~l~~l-~~~L~~L~l~~~~~~~~~~~~~~~~~  230 (467)
                      +.+++|+.|++++|.+..+|..+ .++++ |+.|++++|.... .+ ..+..+ .++|+.|+++.|.+......+.    
T Consensus       592 ~~L~~L~~L~Ls~N~l~~lp~~l-~~l~~~L~~L~Ls~N~L~~-lp-~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~----  664 (876)
T 4ecn_A          592 GTNVKLTDLKLDYNQIEEIPEDF-CAFTDQVEGLGFSHNKLKY-IP-NIFNAKSVYVMGSVDFSYNKIGSEGRNIS----  664 (876)
T ss_dssp             CTTSEESEEECCSSCCSCCCTTS-CEECTTCCEEECCSSCCCS-CC-SCCCTTCSSCEEEEECCSSCTTTTSSSCS----
T ss_pred             cCCCcceEEECcCCccccchHHH-hhccccCCEEECcCCCCCc-Cc-hhhhccccCCCCEEECcCCcCCCccccch----
Confidence            99999999999999999888875 88888 9999999997652 22 233444 0349999999887643210000    


Q ss_pred             CCChhhhhhhhhcCCCccccccccccceeeeecCccccchhhh------hhhcccceeeeeecccccccccccccccccc
Q 012249          231 RGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETI------VLLKDVQCLQMFEVDEVTSLNDVLPRELGLV  304 (467)
Q Consensus       231 ~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~------~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~  304 (467)
                       ..+         +          .....+|+.|+++++....      ...+.++.|.+.++. ++.+..... .....
T Consensus       665 -~~l---------~----------~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~-~~~~~  722 (876)
T 4ecn_A          665 -CSM---------D----------DYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNL-MTSIPENSL-KPKDG  722 (876)
T ss_dssp             -SCT---------T----------TCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCC-CSCCCTTSS-SCTTS
T ss_pred             -hhh---------c----------cccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCc-CCccChHHh-ccccc
Confidence             000         0          0122356666666655221      123456777666552 222211000 00000


Q ss_pred             cccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccc
Q 012249          305 NIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRF  384 (467)
Q Consensus       305 ~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  384 (467)
                      ....++. |+.|+|++| .++.++.......+++|+.|++++| .+..++...                ..+++|+.|++
T Consensus       723 ~l~nl~~-L~~L~Ls~N-~L~~lp~~l~~~~l~~L~~L~Ls~N-~L~~lp~~l----------------~~L~~L~~L~L  783 (876)
T 4ecn_A          723 NYKNTYL-LTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPTQP----------------LNSSQLKAFGI  783 (876)
T ss_dssp             CCTTGGG-CCEEECCSS-CCCCCCGGGSTTTCTTCCEEECCSS-CCSSCCCGG----------------GGCTTCCEEEC
T ss_pred             cccccCC-ccEEECCCC-CCccchHHhhhccCCCcCEEEeCCC-CCCccchhh----------------hcCCCCCEEEC
Confidence            0112336 999999997 4455532211137899999999985 555542221                27899999999


Q ss_pred             cccc------cccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCCCCCcceeeeehHHHhhhcc
Q 012249          385 YDLP------EFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIEKELWESLD  451 (467)
Q Consensus       385 ~~~~------~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~~~L~~l~i~~~~~~~l~  451 (467)
                      .+++      -...++...  ..+++|++|.+.+|. ++.+|..+          +++|+.|++...-+..++
T Consensus       784 s~N~~ls~N~l~~~ip~~l--~~L~~L~~L~Ls~N~-L~~Ip~~l----------~~~L~~LdLs~N~l~~i~  843 (876)
T 4ecn_A          784 RHQRDAEGNRILRQWPTGI--TTCPSLIQLQIGSND-IRKVDEKL----------TPQLYILDIADNPNISID  843 (876)
T ss_dssp             CCCBCTTCCBCCCCCCTTG--GGCSSCCEEECCSSC-CCBCCSCC----------CSSSCEEECCSCTTCEEE
T ss_pred             CCCCCcccccccccChHHH--hcCCCCCEEECCCCC-CCccCHhh----------cCCCCEEECCCCCCCccC
Confidence            7743      233444444  568999999999985 58888764          248888888843343433

>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=3.9e-24  Score=221.59  Aligned_cols=174  Identities=19%  Similarity=0.127  Sum_probs=134.8

Q ss_pred             CceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           17 PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        17 ~~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      ...+...+.++..+|..+..  ++++|++++|.++.++...+.++++|++|++++|. +..+++..|.++++|++|++++
T Consensus        14 ~~~~~c~~~~l~~iP~~l~~--~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~Ls~   90 (606)
T 3t6q_A           14 NKTYNCENLGLNEIPGTLPN--STECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ-IYWIHEDTFQSQHRLDTLVLTA   90 (606)
T ss_dssp             TTEEECTTSCCSSCCTTSCT--TCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCC-CCEECTTTTTTCTTCCEEECTT
T ss_pred             CceEECCCCCcccCcCCCCC--cCcEEEccCCccCcCChhHhccCccceEEECCCCc-cceeChhhccCccccCeeeCCC
Confidence            34566677788888876654  78999999999988766667789999999999987 4555444568899999999999


Q ss_pred             CCCCCc-hhhhhcCcCCCEEEcCCCCCCCcC-C-CccccCCccEEEccCCcCcccc-ccccCCCCCcEEeccCCCCCCcC
Q 012249           97 TDIEVL-PSSVSDLTNLRSLSLGWCRRLKRV-P-SLARLLALQYLDLYDTRIEEVP-EGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        97 ~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~-p-~l~~l~~L~~L~l~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      |.+..+ |..++.+++|++|++++|. +..+ + .++.+++|++|++++|.++.++ ..+..+++|++|++++|.+..++
T Consensus        91 n~l~~~~~~~~~~l~~L~~L~L~~n~-i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  169 (606)
T 3t6q_A           91 NPLIFMAETALSGPKALKHLFFIQTG-ISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLS  169 (606)
T ss_dssp             CCCSEECTTTTSSCTTCCEEECTTSC-CSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSCCCEEC
T ss_pred             CcccccChhhhcccccccEeeccccC-cccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCcccccC
Confidence            988855 6778889999999999874 4444 4 6888899999999999888653 23445889999999998888776


Q ss_pred             CccccCCCCCc--EEEcccCCCcc
Q 012249          173 AGILPRLRSLY--KLKLSFGNEAL  194 (467)
Q Consensus       173 ~~~l~~l~~L~--~L~l~~~~~~~  194 (467)
                      ...++.+++|+  .|++++|....
T Consensus       170 ~~~~~~l~~L~~l~L~l~~n~l~~  193 (606)
T 3t6q_A          170 KEDMSSLQQATNLSLNLNGNDIAG  193 (606)
T ss_dssp             HHHHHTTTTCCSEEEECTTCCCCE
T ss_pred             hhhhhhhcccceeEEecCCCccCc
Confidence            65567888888  77887775543

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

Probab=99.92  E-value=1.3e-24  Score=223.55  Aligned_cols=171  Identities=23%  Similarity=0.268  Sum_probs=134.5

Q ss_pred             CceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           17 PLFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        17 ~~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      .......+.++.++|..+.  +++++|++++|.++.++...+.++++|+.|++++|. +..++...|.++++|++|++++
T Consensus         9 ~~~~~c~~~~l~~ip~~l~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~-i~~i~~~~~~~l~~L~~L~L~~   85 (570)
T 2z63_A            9 NITYQCMELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTG   85 (570)
T ss_dssp             TTEEECCSSCCSSCCSSSC--SSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCC-CCEECTTTTTTCTTCCEEECTT
T ss_pred             CcEEEeCCCCccccCCCcc--ccccEEEccCCccCccChhHhhCCCCceEEECCCCc-CCccCcccccCchhCCEEeCcC
Confidence            3456666777888887553  478999999999988777667789999999999997 6667666678899999999999


Q ss_pred             CCCCCch-hhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcc--ccccccCCCCCcEEeccCCCCCCc
Q 012249           97 TDIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE--VPEGMEMLENLSHLYLSSLQLKKF  171 (467)
Q Consensus        97 ~~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~--lp~~~~~l~~L~~L~l~~~~~~~~  171 (467)
                      |.+..++ ..+..+++|++|++++| .+..++  .++++++|++|++++|.++.  +|..++++++|++|++++|.+..+
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~  164 (570)
T 2z63_A           86 NPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI  164 (570)
T ss_dssp             CCCCEECTTTTTTCTTCCEEECTTS-CCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEE
T ss_pred             CcCCccCHhhhcCcccccccccccc-ccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCcccee
Confidence            9988664 67888999999999986 455555  58899999999999998875  688889999999999999888776


Q ss_pred             CCccccCCCCC----cEEEcccCC
Q 012249          172 PAGILPRLRSL----YKLKLSFGN  191 (467)
Q Consensus       172 ~~~~l~~l~~L----~~L~l~~~~  191 (467)
                      +...++.+++|    ..+++++|.
T Consensus       165 ~~~~~~~l~~L~~~~~~L~l~~n~  188 (570)
T 2z63_A          165 YCTDLRVLHQMPLLNLSLDLSLNP  188 (570)
T ss_dssp             CGGGGHHHHTCTTCCCEEECTTCC
T ss_pred             cHHHccchhccchhhhhcccCCCC
Confidence            65444555555    556665553

>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=99.92  E-value=1.9e-24  Score=223.95  Aligned_cols=173  Identities=18%  Similarity=0.164  Sum_probs=141.9

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.+..++...+.++++|++|++++|. +..+++..|+++++|++|++++|
T Consensus        36 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~-l~~~~p~~~~~l~~L~~L~L~~n  114 (606)
T 3vq2_A           36 NIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP-IQSFSPGSFSGLTSLENLVAVET  114 (606)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCCCCTTSSTTCTTCCEEECTTS
T ss_pred             EEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCc-ccccChhhcCCcccCCEEEccCC
Confidence            45667777877776 78899999999999999998877777799999999999998 55554445689999999999999


Q ss_pred             CCCCch-hhhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCcccc-ccccCCCCCc----EEeccCCCCC
Q 012249           98 DIEVLP-SSVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVP-EGMEMLENLS----HLYLSSLQLK  169 (467)
Q Consensus        98 ~~~~l~-~~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp-~~~~~l~~L~----~L~l~~~~~~  169 (467)
                      .+..++ ..++++++|++|++++|.... .+| .++++++|++|++++|.++.++ ..++.+.+|+    .+++++|.+.
T Consensus       115 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~~l~~L~l~~n~l~  194 (606)
T 3vq2_A          115 KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPID  194 (606)
T ss_dssp             CCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTCCEEECCSSCCCEECTTTTHHHHHCTTCCCEEECTTCCCC
T ss_pred             ccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCCCEEEccCCcceecChhhhhhhhccccccceeeccCCCcc
Confidence            998775 678999999999999986544 467 7999999999999999988764 4466666554    8999999998


Q ss_pred             CcCCccccCCCCCcEEEcccCCCc
Q 012249          170 KFPAGILPRLRSLYKLKLSFGNEA  193 (467)
Q Consensus       170 ~~~~~~l~~l~~L~~L~l~~~~~~  193 (467)
                      .++...+.. .+|+.|++++|...
T Consensus       195 ~~~~~~~~~-~~L~~L~L~~n~~~  217 (606)
T 3vq2_A          195 FIQDQAFQG-IKLHELTLRGNFNS  217 (606)
T ss_dssp             EECTTTTTT-CEEEEEEEESCCSC
T ss_pred             eeCcccccC-ceeeeeeccCCccc
Confidence            888877444 48889988887554

>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=99.92  E-value=1.2e-23  Score=202.58  Aligned_cols=172  Identities=21%  Similarity=0.298  Sum_probs=128.2

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCE
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~  114 (467)
                      ..++++++++++++.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+..++ .+..+++|++
T Consensus        41 ~~l~~L~~L~l~~~~i~~~~~--~~~~~~L~~L~l~~n~-i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~  114 (347)
T 4fmz_A           41 EELESITKLVVAGEKVASIQG--IEYLTNLEYLNLNGNQ-ITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRE  114 (347)
T ss_dssp             HHHTTCSEEECCSSCCCCCTT--GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSE
T ss_pred             hhcccccEEEEeCCccccchh--hhhcCCccEEEccCCc-cccchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCE
Confidence            456688888888888877754  3468888888888886 555655  578888888888888888775 4788888888


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      |++++| .+...+.+..+++|++|++++|.....+..+..+++|++|++++|.+..++.  +..+++|+.|++++|....
T Consensus       115 L~l~~n-~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~--~~~l~~L~~L~l~~n~l~~  191 (347)
T 4fmz_A          115 LYLNED-NISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP--IANLTDLYSLSLNYNQIED  191 (347)
T ss_dssp             EECTTS-CCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECTTSCCCC
T ss_pred             EECcCC-cccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh--hccCCCCCEEEccCCcccc
Confidence            888886 4555666778888888888888443333457888888888888888777666  4788888888888876544


Q ss_pred             cccHHHHHhhhccCcEEEcccCCcc
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      ..   .+..+ ++|+.++++.+...
T Consensus       192 ~~---~~~~l-~~L~~L~l~~n~l~  212 (347)
T 4fmz_A          192 IS---PLASL-TSLHYFTAYVNQIT  212 (347)
T ss_dssp             CG---GGGGC-TTCCEEECCSSCCC
T ss_pred             cc---cccCC-CccceeecccCCCC
Confidence            32   26777 88888888777653

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

Probab=99.92  E-value=9.1e-25  Score=226.92  Aligned_cols=196  Identities=10%  Similarity=0.158  Sum_probs=164.7

Q ss_pred             eEEEcCCCccc------------------CCcCcc--CCCCccEEEeecCCCc-ccCCCccCCCCCCCEEEccCCC-CCC
Q 012249           19 FMVKAGLRLLE------------------FPGEQE--WEENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNE-NLQ   76 (467)
Q Consensus        19 ~~~~~~~~l~~------------------~~~~~~--~l~~l~~L~l~~~~~~-~l~~~~~~~l~~L~~L~l~~~~-~~~   76 (467)
                      .+..+++.+..                  +|..+.  .+++|++|++++|.+. .+|..+ .++++|+.|++++|. +.+
T Consensus       210 ~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l-~~l~~L~~L~Ls~n~~l~~  288 (636)
T 4eco_A          210 QFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFL-KALPEMQLINVACNRGISG  288 (636)
T ss_dssp             EEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTT-TTCSSCCEEECTTCTTSCH
T ss_pred             EEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHH-hcCCCCCEEECcCCCCCcc
Confidence            45666777888                  999999  9999999999999876 566554 489999999999997 554


Q ss_pred             -CCchhHhhcC------CCCcEEEccCCCCCCchh--hhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCcc
Q 012249           77 -RIPECFFVHM------HGLKVVNLSSTDIEVLPS--SVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEE  147 (467)
Q Consensus        77 -~~~~~~~~~l------~~L~~L~l~~~~~~~l~~--~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~  147 (467)
                       .+|..+ +.+      ++|++|++++|.+..+|.  .++.+++|++|++++|...+.+|.++.+++|++|++++|.++.
T Consensus       289 ~~lp~~~-~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L~L~~N~l~~  367 (636)
T 4eco_A          289 EQLKDDW-QALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITE  367 (636)
T ss_dssp             HHHHHHH-HHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSEEEE
T ss_pred             ccchHHH-HhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCcccc
Confidence             577765 454      999999999999999998  8999999999999998655488889999999999999999999


Q ss_pred             ccccccCCCC-CcEEeccCCCCCCcCCccccCCC--CCcEEEcccCCCcccccHHHHH-------hhhccCcEEEcccCC
Q 012249          148 VPEGMEMLEN-LSHLYLSSLQLKKFPAGILPRLR--SLYKLKLSFGNEALRETVEEAA-------RLSDRLDYFEGYFST  217 (467)
Q Consensus       148 lp~~~~~l~~-L~~L~l~~~~~~~~~~~~l~~l~--~L~~L~l~~~~~~~~~~~~~l~-------~l~~~L~~L~l~~~~  217 (467)
                      +|..++.+++ |++|++++|.+..+|..+ ..+.  +|+.|++++|......+ ..++       .+ .+|+.|+++.+.
T Consensus       368 lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~-~~~~l~~L~~L~Ls~N~l~~~~p-~~l~~~~~~~~~~-~~L~~L~Ls~N~  444 (636)
T 4eco_A          368 IPANFCGFTEQVENLSFAHNKLKYIPNIF-DAKSVSVMSAIDFSYNEIGSVDG-KNFDPLDPTPFKG-INVSSINLSNNQ  444 (636)
T ss_dssp             CCTTSEEECTTCCEEECCSSCCSSCCSCC-CTTCSSCEEEEECCSSCTTTTTT-CSSCTTCSSCCCC-CCEEEEECCSSC
T ss_pred             ccHhhhhhcccCcEEEccCCcCcccchhh-hhcccCccCEEECcCCcCCCcch-hhhcccccccccC-CCCCEEECcCCc
Confidence            9999999999 999999999999998865 5544  89999999997655332 2344       55 689999998887


Q ss_pred             cc
Q 012249          218 LK  219 (467)
Q Consensus       218 ~~  219 (467)
                      +.
T Consensus       445 l~  446 (636)
T 4eco_A          445 IS  446 (636)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

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

Probab=99.92  E-value=1.4e-24  Score=230.60  Aligned_cols=358  Identities=15%  Similarity=0.111  Sum_probs=204.7

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-CchhhhhcCcCCCE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VLPSSVSDLTNLRS  114 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l~~~~~~l~~L~~  114 (467)
                      .+++|++|++++|.+.....  ...+++|+.|++++|.+...+|.  ++.+++|++|++++|.+. .+|..++.+++|++
T Consensus       176 ~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n~l~~~~~~--l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~L~~  251 (768)
T 3rgz_A          176 GCGELKHLAISGNKISGDVD--VSRCVNLEFLDVSSNNFSTGIPF--LGDCSALQHLDISGNKLSGDFSRAISTCTELKL  251 (768)
T ss_dssp             CCTTCCEEECCSSEEESCCB--CTTCTTCCEEECCSSCCCSCCCB--CTTCCSCCEEECCSSCCCSCHHHHTTTCSSCCE
T ss_pred             cCCCCCEEECCCCcccccCC--cccCCcCCEEECcCCcCCCCCcc--cccCCCCCEEECcCCcCCCcccHHHhcCCCCCE
Confidence            33444444444444332211  13677777888887775544554  578888888888888877 56777888888888


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCc-cccccccCC-CCCcEEeccCCCCC-CcCCccccCCCCCcEEEcccCC
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIE-EVPEGMEML-ENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~-~lp~~~~~l-~~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      |++++|...+..|.. .+++|++|++++|.++ .+|..+... ++|++|++++|.+. .+|.. ++++++|++|++++|.
T Consensus       252 L~Ls~n~l~~~~~~~-~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~~-~~~l~~L~~L~L~~n~  329 (768)
T 3rgz_A          252 LNISSNQFVGPIPPL-PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPF-FGSCSLLESLALSSNN  329 (768)
T ss_dssp             EECCSSCCEESCCCC-CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCGG-GGGCTTCCEEECCSSE
T ss_pred             EECCCCcccCccCcc-ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccchH-HhcCCCccEEECCCCc
Confidence            888887655555544 7788888888888777 677777664 88999999988875 44444 4888999999998887


Q ss_pred             CcccccHHHHHhhhccCcEEEcccCCccc-hhhhhhccCCCCChhhhhhhhhcCCCccccccccccc--eeeeecCcccc
Q 012249          192 EALRETVEEAARLSDRLDYFEGYFSTLKD-FNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDK--SVFLYGCKICE  268 (467)
Q Consensus       192 ~~~~~~~~~l~~l~~~L~~L~l~~~~~~~-~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~--~~~L~~l~l~~  268 (467)
                      ..+..+...+..+ ++|+.|+++.+.... .+..+....     ..++.+...+..-....+..+..  ..+|+.+.+.+
T Consensus       330 l~~~ip~~~l~~l-~~L~~L~Ls~n~l~~~~p~~l~~l~-----~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~  403 (768)
T 3rgz_A          330 FSGELPMDTLLKM-RGLKVLDLSFNEFSGELPESLTNLS-----ASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQN  403 (768)
T ss_dssp             EEEECCHHHHTTC-TTCCEEECCSSEEEECCCTTHHHHT-----TTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCS
T ss_pred             ccCcCCHHHHhcC-CCCCEEeCcCCccCccccHHHHhhh-----cCCcEEEccCCCcCCCcChhhhhcccCCccEEECCC
Confidence            7656665668888 889999988876542 111111100     01111111110000011222222  44566666666


Q ss_pred             chhhhhhh------cccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhcccee
Q 012249          269 IKETIVLL------KDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVL  342 (467)
Q Consensus       269 ~~~~~~~~------~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L  342 (467)
                      +......|      ..++.|.+.++.--..+         ......++. |++|++++|.....+ + ..+..+++|+.|
T Consensus       404 n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~---------p~~l~~l~~-L~~L~L~~n~l~~~~-p-~~~~~l~~L~~L  471 (768)
T 3rgz_A          404 NGFTGKIPPTLSNCSELVSLHLSFNYLSGTI---------PSSLGSLSK-LRDLKLWLNMLEGEI-P-QELMYVKTLETL  471 (768)
T ss_dssp             SEEEEECCGGGGGCTTCCEEECCSSEEESCC---------CGGGGGCTT-CCEEECCSSCCCSCC-C-GGGGGCTTCCEE
T ss_pred             CccccccCHHHhcCCCCCEEECcCCcccCcc---------cHHHhcCCC-CCEEECCCCcccCcC-C-HHHcCCCCceEE
Confidence            55332222      34455555444211110         011233455 777777765433222 2 234566677777


Q ss_pred             eeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCccccCCc
Q 012249          343 AVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLS  422 (467)
Q Consensus       343 ~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~  422 (467)
                      ++++|.-...++..                ...+++|+.|++.++.-...++...  ..+++|++|++.+|.--..+|..
T Consensus       472 ~L~~N~l~~~~p~~----------------l~~l~~L~~L~L~~N~l~~~~p~~~--~~l~~L~~L~L~~N~l~~~~p~~  533 (768)
T 3rgz_A          472 ILDFNDLTGEIPSG----------------LSNCTNLNWISLSNNRLTGEIPKWI--GRLENLAILKLSNNSFSGNIPAE  533 (768)
T ss_dssp             ECCSSCCCSCCCGG----------------GGGCTTCCEEECCSSCCCSCCCGGG--GGCTTCCEEECCSSCCEEECCGG
T ss_pred             EecCCcccCcCCHH----------------HhcCCCCCEEEccCCccCCcCChHH--hcCCCCCEEECCCCcccCcCCHH
Confidence            77765322222111                1156666666666665444444443  34666666666666444456655


Q ss_pred             cCcccCCCCCCCCcceeeeeh
Q 012249          423 LPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       423 ~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      +..++        +|+.+++.
T Consensus       534 l~~l~--------~L~~L~Ls  546 (768)
T 3rgz_A          534 LGDCR--------SLIWLDLN  546 (768)
T ss_dssp             GGGCT--------TCCEEECC
T ss_pred             HcCCC--------CCCEEECC
Confidence            55544        56666555

>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=5.3e-24  Score=220.59  Aligned_cols=194  Identities=19%  Similarity=0.164  Sum_probs=129.4

Q ss_pred             EEEcCCCcccC-CcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCc-hhHhhcCCCCcEEEccCC
Q 012249           20 MVKAGLRLLEF-PGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIP-ECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        20 ~~~~~~~l~~~-~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~~l~~L~~L~l~~~   97 (467)
                      +..+++.+..+ |..+..+++|++|++++|.+..++...+.++++|+.|++++|.+ ..++ +.+ ..+++|++|++++|
T Consensus        86 L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~-~~l~~L~~L~L~~n  163 (606)
T 3t6q_A           86 LVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHI-SSIKLPKG-FPTEKLKVLDFQNN  163 (606)
T ss_dssp             EECTTCCCSEECTTTTSSCTTCCEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCC-CCCCCCTT-CCCTTCCEEECCSS
T ss_pred             eeCCCCcccccChhhhcccccccEeeccccCcccCCcchhccCCcccEEECCCCcc-cccCcccc-cCCcccCEEEcccC
Confidence            45556666555 56788899999999999998877555566889999999999874 4432 222 35889999999999


Q ss_pred             CCCCc-hhhhhcCcCCC--EEEcCCCCCCCcCCCccccC-----------------------------------------
Q 012249           98 DIEVL-PSSVSDLTNLR--SLSLGWCRRLKRVPSLARLL-----------------------------------------  133 (467)
Q Consensus        98 ~~~~l-~~~~~~l~~L~--~L~l~~~~~~~~~p~l~~l~-----------------------------------------  133 (467)
                      .+..+ +..++.+++|+  .|++++|......|......                                         
T Consensus       164 ~l~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i  243 (606)
T 3t6q_A          164 AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDI  243 (606)
T ss_dssp             CCCEECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCC
T ss_pred             cccccChhhhhhhcccceeEEecCCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhcccccccc
Confidence            88855 56678888888  78888765433332111100                                         


Q ss_pred             -----------CccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHH
Q 012249          134 -----------ALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEA  201 (467)
Q Consensus       134 -----------~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l  201 (467)
                                 +|+.|++++|.++.++.. ++++++|++|++++|.+..+|..+ +++++|++|++++|......+ ..+
T Consensus       244 ~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l-~~l~~L~~L~l~~n~l~~~~~-~~~  321 (606)
T 3t6q_A          244 SPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGL-VGLSTLKKLVLSANKFENLCQ-ISA  321 (606)
T ss_dssp             CGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSC-CSCTTCCEEECTTCCCSBGGG-GCG
T ss_pred             ChhHhchhhcCceeEEEeecCccCccCHHHhccccCCCEEeccCCccCCCChhh-cccccCCEEECccCCcCcCch-hhh
Confidence                       456666666666655543 666777777777777776666654 667777777777665443322 345


Q ss_pred             HhhhccCcEEEcccCCc
Q 012249          202 ARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       202 ~~l~~~L~~L~l~~~~~  218 (467)
                      +.+ ++|+.|+++.+..
T Consensus       322 ~~l-~~L~~L~l~~n~~  337 (606)
T 3t6q_A          322 SNF-PSLTHLSIKGNTK  337 (606)
T ss_dssp             GGC-TTCSEEECCSCSS
T ss_pred             hcc-CcCCEEECCCCCc
Confidence            666 6677777666543

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

Probab=99.92  E-value=4.7e-25  Score=234.23  Aligned_cols=356  Identities=17%  Similarity=0.105  Sum_probs=177.3

Q ss_pred             CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-CchhhhhcCc-CCCEE
Q 012249           38 ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VLPSSVSDLT-NLRSL  115 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l~~~~~~l~-~L~~L  115 (467)
                      ++|++|++++|.+.......+.++++|+.|++++|.+.+.+|...+..+++|++|++++|.+. .+|..+..++ +|++|
T Consensus       294 ~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L  373 (768)
T 3rgz_A          294 DTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTL  373 (768)
T ss_dssp             TTCSEEECCSSEEEECCCGGGGGCTTCCEEECCSSEEEEECCHHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEE
T ss_pred             CcCCEEECcCCcCCCccchHHhcCCCccEEECCCCcccCcCCHHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEE
Confidence            455555555555442222223345555555555554333445443455555555555555544 4444444443 45555


Q ss_pred             EcCCCCCCCcCC-Cccc--cCCccEEEccCCcCc-cccccccCCCCCcEEeccCCCCC-CcCCccccCCCCCcEEEcccC
Q 012249          116 SLGWCRRLKRVP-SLAR--LLALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       116 ~l~~~~~~~~~p-~l~~--l~~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      ++++|...+..| .+..  +++|++|++++|.++ .+|..++++++|++|++++|.+. .+|.. ++++++|+.|++++|
T Consensus       374 ~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~-l~~l~~L~~L~L~~n  452 (768)
T 3rgz_A          374 DLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSS-LGSLSKLRDLKLWLN  452 (768)
T ss_dssp             ECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGG-GGGCTTCCEEECCSS
T ss_pred             EccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHH-HhcCCCCCEEECCCC
Confidence            555443332333 2222  445555555555554 45555666666666666666654 33333 356666666666666


Q ss_pred             CCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccch
Q 012249          191 NEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIK  270 (467)
Q Consensus       191 ~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~  270 (467)
                      ...+..+ ..+..+ ++|+.|+++.|......     +..+..++.++.+...+..-...++.++..+.+|+.|++.++.
T Consensus       453 ~l~~~~p-~~~~~l-~~L~~L~L~~N~l~~~~-----p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~  525 (768)
T 3rgz_A          453 MLEGEIP-QELMYV-KTLETLILDFNDLTGEI-----PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNS  525 (768)
T ss_dssp             CCCSCCC-GGGGGC-TTCCEEECCSSCCCSCC-----CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSC
T ss_pred             cccCcCC-HHHcCC-CCceEEEecCCcccCcC-----CHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCc
Confidence            5443332 345555 66666666665543210     1111112222222222211112334455566666666666655


Q ss_pred             hhhhhh------cccceeeeeeccccccccccc-cc--------------------------------------------
Q 012249          271 ETIVLL------KDVQCLQMFEVDEVTSLNDVL-PR--------------------------------------------  299 (467)
Q Consensus       271 ~~~~~~------~~l~~L~~~~~~~l~~l~~~~-~~--------------------------------------------  299 (467)
                      .....|      +.++.|.+.++.-...++... ..                                            
T Consensus       526 l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  605 (768)
T 3rgz_A          526 FSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLN  605 (768)
T ss_dssp             CEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGG
T ss_pred             ccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhh
Confidence            332222      234444444432211111000 00                                            


Q ss_pred             ---------------ccc-cccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhh
Q 012249          300 ---------------ELG-LVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEK  363 (467)
Q Consensus       300 ---------------~~~-~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~  363 (467)
                                     ... ......++. |+.|+++++. ++...| ..+..++.|+.|+++++.-...++..       
T Consensus       606 ~l~~~~~~~l~~~~~~g~~~~~~~~l~~-L~~LdLs~N~-l~g~ip-~~l~~l~~L~~L~Ls~N~l~g~ip~~-------  675 (768)
T 3rgz_A          606 RLSTRNPCNITSRVYGGHTSPTFDNNGS-MMFLDMSYNM-LSGYIP-KEIGSMPYLFILNLGHNDISGSIPDE-------  675 (768)
T ss_dssp             GGGGTCCSCTTSCEEEEECCCSCSSSBC-CCEEECCSSC-CBSCCC-GGGGGCTTCCEEECCSSCCCSCCCGG-------
T ss_pred             ccccccccccccceecccCchhhhcccc-ccEEECcCCc-ccccCC-HHHhccccCCEEeCcCCccCCCCChH-------
Confidence                           000 001223445 8888888754 333223 24577888888888875332233222       


Q ss_pred             hhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCccccCCc
Q 012249          364 ELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLS  422 (467)
Q Consensus       364 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~  422 (467)
                               ...+++|+.|+++++.-...++...  ..+++|++|++++++--..+|.+
T Consensus       676 ---------l~~L~~L~~LdLs~N~l~g~ip~~l--~~l~~L~~L~ls~N~l~g~iP~~  723 (768)
T 3rgz_A          676 ---------VGDLRGLNILDLSSNKLDGRIPQAM--SALTMLTEIDLSNNNLSGPIPEM  723 (768)
T ss_dssp             ---------GGGCTTCCEEECCSSCCEECCCGGG--GGCCCCSEEECCSSEEEEECCSS
T ss_pred             ---------HhCCCCCCEEECCCCcccCcCChHH--hCCCCCCEEECcCCcccccCCCc
Confidence                     1277888888888877555666555  46788888888887544457764

>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=99.92  E-value=1.6e-24  Score=220.27  Aligned_cols=376  Identities=16%  Similarity=0.153  Sum_probs=241.0

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ..+..+++++..+|..+.  +++++|++++|.+..++...+.++++|++|++++|. +..+++..|.++++|++|++++|
T Consensus         3 ~~l~ls~n~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~N   79 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS--QKTTILNISQNYISELWTSDILSLSKLRILIISHNR-IQYLDISVFKFNQELEYLDLSHN   79 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC--TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSC-CCEEEGGGGTTCTTCCEEECCSS
T ss_pred             ceEecCCCCccccccccc--ccccEEECCCCcccccChhhccccccccEEecCCCc-cCCcChHHhhcccCCCEEecCCC
Confidence            356777888999998766  799999999999998876666789999999999998 55665555689999999999999


Q ss_pred             CCCCchhhhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCccccccccCCCCC--cEEeccCCCC--CC-
Q 012249           98 DIEVLPSSVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENL--SHLYLSSLQL--KK-  170 (467)
Q Consensus        98 ~~~~l~~~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L--~~L~l~~~~~--~~-  170 (467)
                      .+..+|..  .+++|++|++++|.... ..| .++.+++|++|++++|.++.  ..+..+++|  ++|++++|.+  .. 
T Consensus        80 ~l~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~l~~~~~  155 (520)
T 2z7x_B           80 KLVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGETYGEKE  155 (520)
T ss_dssp             CCCEEECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECTTTTSSC
T ss_pred             ceeecCcc--ccCCccEEeccCCccccccchhhhccCCcceEEEecCcccch--hhccccccceeeEEEeeccccccccc
Confidence            99988876  89999999999986544 356 79999999999999998875  356677777  9999888876  21 


Q ss_pred             cCCc-------------------------cccCCCCCcEEEcccCC------------------------------Cccc
Q 012249          171 FPAG-------------------------ILPRLRSLYKLKLSFGN------------------------------EALR  195 (467)
Q Consensus       171 ~~~~-------------------------~l~~l~~L~~L~l~~~~------------------------------~~~~  195 (467)
                      .|..                         .+.++++|+.+++++|.                              ....
T Consensus       156 ~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~  235 (520)
T 2z7x_B          156 DPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWN  235 (520)
T ss_dssp             CTTTTTTCCEEEEEEECCSSSCCCCCCCCCCTTCSEEEECCEEECCSTTTTHHHHHHHHGGGGCTTCCEEEEEEEEEEHH
T ss_pred             ccccccccccceEEEEeccCcchhhhhhhhhhcccceeeccccccccccccceeecchhhhccccchhhccccccccCHH
Confidence            1211                         12335566666665542                              1110


Q ss_pred             ccHHHH---HhhhccCcEEEcccCCcc-chhhhhhccCCCCChhhhhhhh-----------------------hcCCCcc
Q 012249          196 ETVEEA---ARLSDRLDYFEGYFSTLK-DFNIYVKSTDGRGSKNYCLALS-----------------------AHGMGGC  248 (467)
Q Consensus       196 ~~~~~l---~~l~~~L~~L~l~~~~~~-~~~~~~~~~~~~~~l~~l~~l~-----------------------~~~~~~~  248 (467)
                      . +..+   ... ++|+.|+++.+.+. ..+...... ....++.++.+.                       .+.....
T Consensus       236 ~-~~~~~~~~~~-~~L~~L~l~~n~l~~~~p~~~~~~-~~~~l~~L~~l~l~~n~~~~p~~~~~~~~~~~~L~~L~l~~n  312 (520)
T 2z7x_B          236 S-FIRILQLVWH-TTVWYFSISNVKLQGQLDFRDFDY-SGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGT  312 (520)
T ss_dssp             H-HHHHHHHHHT-SSCSEEEEEEEEEESCCCCCCCCC-CSCCCCEEEEEEEEECCCCSCTHHHHHHHHTCCCSEEEEESS
T ss_pred             H-HHHHHHHhhh-CcccEEEeecccccCccccchhhc-ccccCceeEeccccccceecchhhhhcccccCceeEEEcCCC
Confidence            0 0111   112 36777777666543 111111000 001111111110                       0000000


Q ss_pred             cccccc-ccceeeeecCccccchhhhhhh------cccceeeeeecccccccccccccccccccccCccccccEEEEecC
Q 012249          249 LVTHLE-VDKSVFLYGCKICEIKETIVLL------KDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSC  321 (467)
Q Consensus       249 ~~~~~~-~~~~~~L~~l~l~~~~~~~~~~------~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c  321 (467)
                      ...... ...+.+|+.++++++......+      +.++.|.+.++.- +.+..+      ......++. |++|+++++
T Consensus       313 ~l~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l-~~l~~~------~~~~~~l~~-L~~L~Ls~N  384 (520)
T 2z7x_B          313 RMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQL-KELSKI------AEMTTQMKS-LQQLDISQN  384 (520)
T ss_dssp             CCCCCCCCSSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCC-CBHHHH------HHHHTTCTT-CCEEECCSS
T ss_pred             ccccccchhhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCcc-Cccccc------hHHHhhCCC-CCEEECCCC
Confidence            000001 1466788888888876443333      2455555554421 111100      011345677 999999986


Q ss_pred             CCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccc-cccccccccccccccccccCCCcc
Q 012249          322 KNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTL-PRLKKLRFYDLPEFKSFCSYNGVL  400 (467)
Q Consensus       322 ~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~  400 (467)
                      .....+ +...+..+++|+.|++++|. +......                  .+ ++|+.|++.++ .++.++...  .
T Consensus       385 ~l~~~l-~~~~~~~l~~L~~L~Ls~N~-l~~~~~~------------------~l~~~L~~L~Ls~N-~l~~ip~~~--~  441 (520)
T 2z7x_B          385 SVSYDE-KKGDCSWTKSLLSLNMSSNI-LTDTIFR------------------CLPPRIKVLDLHSN-KIKSIPKQV--V  441 (520)
T ss_dssp             CCBCCG-GGCSCCCCTTCCEEECCSSC-CCGGGGG------------------SCCTTCCEEECCSS-CCCCCCGGG--G
T ss_pred             cCCccc-ccchhccCccCCEEECcCCC-CCcchhh------------------hhcccCCEEECCCC-cccccchhh--h
Confidence            543324 33345677899999999864 3322111                  23 79999999997 466776655  4


Q ss_pred             ccCCcceEEEeCCCCccccCCc-cCcccCCCCCCCCcceeeeeh
Q 012249          401 VCNSLQEIEVRRCPKLKRLSLS-LPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       401 ~~~~L~~L~i~~C~~L~~lp~~-~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      .+++|++|++.+| +++.+|.. +..+.        +|+.+++.
T Consensus       442 ~l~~L~~L~L~~N-~l~~l~~~~~~~l~--------~L~~L~l~  476 (520)
T 2z7x_B          442 KLEALQELNVASN-QLKSVPDGIFDRLT--------SLQKIWLH  476 (520)
T ss_dssp             GCTTCCEEECCSS-CCCCCCTTTTTTCT--------TCCEEECC
T ss_pred             cCCCCCEEECCCC-cCCccCHHHhccCC--------cccEEECc
Confidence            7999999999998 78889876 54444        89999887

>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=99.92  E-value=2.7e-23  Score=208.17  Aligned_cols=179  Identities=21%  Similarity=0.302  Sum_probs=88.6

Q ss_pred             CCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch
Q 012249           24 GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP  103 (467)
Q Consensus        24 ~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~  103 (467)
                      +..+..+|. +..+++|++|++++|.+..++.  +.++++|+.|++++|. +..++.  +..+++|++|++++|.+..++
T Consensus        55 ~~~i~~l~~-~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~l~~n~-l~~~~~--~~~l~~L~~L~L~~n~l~~~~  128 (466)
T 1o6v_A           55 RLGIKSIDG-VEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGLTLFNNQITDID  128 (466)
T ss_dssp             SSCCCCCTT-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCCG
T ss_pred             CCCCccCcc-hhhhcCCCEEECCCCccCCchh--hhccccCCEEECCCCc-cccChh--hcCCCCCCEEECCCCCCCCCh
Confidence            334444442 4445555555555555554443  2355555555555554 333333  345555555555555555544


Q ss_pred             hhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCc
Q 012249          104 SSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY  183 (467)
Q Consensus       104 ~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~  183 (467)
                      . +..+++|++|++++| .+..++.++.+++|++|++++ .+..++ .+.++++|++|++++|.+..++.  +.++++|+
T Consensus       129 ~-~~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~-~~~~~~-~~~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~  202 (466)
T 1o6v_A          129 P-LKNLTNLNRLELSSN-TISDISALSGLTSLQQLSFGN-QVTDLK-PLANLTTLERLDISSNKVSDISV--LAKLTNLE  202 (466)
T ss_dssp             G-GTTCTTCSEEEEEEE-EECCCGGGTTCTTCSEEEEEE-SCCCCG-GGTTCTTCCEEECCSSCCCCCGG--GGGCTTCS
T ss_pred             H-HcCCCCCCEEECCCC-ccCCChhhccCCcccEeecCC-cccCch-hhccCCCCCEEECcCCcCCCChh--hccCCCCC
Confidence            3 555555555555554 233334445555555555532 222222 25555555556655555554433  34555566


Q ss_pred             EEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          184 KLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       184 ~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .|++++|......+   ++.+ ++|+.|+++.+..
T Consensus       203 ~L~l~~n~l~~~~~---~~~l-~~L~~L~l~~n~l  233 (466)
T 1o6v_A          203 SLIATNNQISDITP---LGIL-TNLDELSLNGNQL  233 (466)
T ss_dssp             EEECCSSCCCCCGG---GGGC-TTCCEEECCSSCC
T ss_pred             EEEecCCccccccc---cccc-CCCCEEECCCCCc
Confidence            66655554433221   4444 5555555555544

>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=1.4e-23  Score=209.65  Aligned_cols=354  Identities=16%  Similarity=0.118  Sum_probs=236.9

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++..+|. +  .+++++|++++|.+..++...+.++++|+.|++++|.....++...|..+++|++|++++|.
T Consensus        14 ~~~c~~~~l~~lp~-l--~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~   90 (455)
T 3v47_A           14 NAICINRGLHQVPE-L--PAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ   90 (455)
T ss_dssp             EEECCSSCCSSCCC-C--CTTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCT
T ss_pred             ccCcCCCCcccCCC-C--CCccCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCc
Confidence            45666778888887 3  36899999999999987666677999999999999986557776667999999999999999


Q ss_pred             CCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-C--ccccCCccEEEccCCcCccc-ccc-ccCCCCCcEEeccCCCCCCcC
Q 012249           99 IEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-S--LARLLALQYLDLYDTRIEEV-PEG-MEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        99 ~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~--l~~l~~L~~L~l~~~~~~~l-p~~-~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      +..+ |..++++++|++|++++|...+..+ .  +..+++|++|++++|.++.+ |.. +.++++|++|++++|.+..++
T Consensus        91 l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~  170 (455)
T 3v47_A           91 FLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSIC  170 (455)
T ss_dssp             TCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCC
T ss_pred             cCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccC
Confidence            9965 7789999999999999985444344 3  88999999999999999876 544 889999999999999987665


Q ss_pred             CccccCC--CCCcEEEcccCCCcccccH-------HHHHhhhccCcEEEcccCCccchh-hhhhccCCCCChhhhhhhhh
Q 012249          173 AGILPRL--RSLYKLKLSFGNEALRETV-------EEAARLSDRLDYFEGYFSTLKDFN-IYVKSTDGRGSKNYCLALSA  242 (467)
Q Consensus       173 ~~~l~~l--~~L~~L~l~~~~~~~~~~~-------~~l~~l~~~L~~L~l~~~~~~~~~-~~~~~~~~~~~l~~l~~l~~  242 (467)
                      ...+..+  .+|+.|+++++........       ..+..+ ++|+.|+++++.+.... ..........          
T Consensus       171 ~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~-~~L~~L~Ls~n~l~~~~~~~~~~~~~~~----------  239 (455)
T 3v47_A          171 EEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKN-TSITTLDLSGNGFKESMAKRFFDAIAGT----------  239 (455)
T ss_dssp             TTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTT-CEEEEEECTTSCCCHHHHHHHHHHTTTC----------
T ss_pred             hhhhhccccccccccccccCcccccchhhcccccccccccc-ceeeeEecCCCcccccchhhhhcccccc----------
Confidence            5444544  6788888887755432211       012344 67888888888764321 1111000000          


Q ss_pred             cCCCccccccccccceeeeecCccccch------------------hhhhhhcccceeeeeecccccccccccccccccc
Q 012249          243 HGMGGCLVTHLEVDKSVFLYGCKICEIK------------------ETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLV  304 (467)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~L~~l~l~~~~------------------~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~  304 (467)
                                       +|+.+.+..+.                  +.......++.|.+.++.--...         ..
T Consensus       240 -----------------~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~---------~~  293 (455)
T 3v47_A          240 -----------------KIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALL---------KS  293 (455)
T ss_dssp             -----------------CEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEEC---------TT
T ss_pred             -----------------ceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccc---------hh
Confidence                             11222211110                  01111235566655554321110         11


Q ss_pred             cccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccc
Q 012249          305 NIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRF  384 (467)
Q Consensus       305 ~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  384 (467)
                      ....++. |++|+++++. ++.+ +...+..+++|+.|++++| .+.++....               ...+++|++|++
T Consensus       294 ~~~~l~~-L~~L~Ls~n~-l~~~-~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~---------------~~~l~~L~~L~L  354 (455)
T 3v47_A          294 VFSHFTD-LEQLTLAQNE-INKI-DDNAFWGLTHLLKLNLSQN-FLGSIDSRM---------------FENLDKLEVLDL  354 (455)
T ss_dssp             TTTTCTT-CCEEECTTSC-CCEE-CTTTTTTCTTCCEEECCSS-CCCEECGGG---------------GTTCTTCCEEEC
T ss_pred             hcccCCC-CCEEECCCCc-cccc-ChhHhcCcccCCEEECCCC-ccCCcChhH---------------hcCcccCCEEEC
Confidence            1234566 9999998864 4443 2234567888999999886 444442111               126888999999


Q ss_pred             ccccccccc-ccCCCccccCCcceEEEeCCCCccccCCc-cCcccCCCCCCCCcceeeeeh
Q 012249          385 YDLPEFKSF-CSYNGVLVCNSLQEIEVRRCPKLKRLSLS-LPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       385 ~~~~~l~~~-~~~~~~~~~~~L~~L~i~~C~~L~~lp~~-~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      .++. ++.+ +...  ..+++|++|++.++ +++++|.+ +..+        ++|+.+++.
T Consensus       355 s~N~-l~~~~~~~~--~~l~~L~~L~L~~N-~l~~~~~~~~~~l--------~~L~~L~l~  403 (455)
T 3v47_A          355 SYNH-IRALGDQSF--LGLPNLKELALDTN-QLKSVPDGIFDRL--------TSLQKIWLH  403 (455)
T ss_dssp             CSSC-CCEECTTTT--TTCTTCCEEECCSS-CCSCCCTTTTTTC--------TTCCEEECC
T ss_pred             CCCc-ccccChhhc--cccccccEEECCCC-ccccCCHhHhccC--------CcccEEEcc
Confidence            8875 4444 3333  45888999999887 67777654 3344        388888877

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

Probab=99.91  E-value=1.8e-23  Score=215.02  Aligned_cols=149  Identities=21%  Similarity=0.237  Sum_probs=112.3

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.+..++...+.++++|++|++++|. +..+++..|..+++|++|++++|
T Consensus        32 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n  110 (570)
T 2z63_A           32 NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVAVET  110 (570)
T ss_dssp             EEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTTS
T ss_pred             EEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCc-CCccCHhhhcCcccccccccccc
Confidence            35556667766654 67888899999999998888877777789999999999997 66666556688999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCcccc-ccccCCCCC----cEEeccCCCC
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVP-EGMEMLENL----SHLYLSSLQL  168 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp-~~~~~l~~L----~~L~l~~~~~  168 (467)
                      .+..++. .++++++|++|++++|.... .+| .++++++|++|++++|.++.++ ..++.+++|    ..+++++|.+
T Consensus       111 ~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~~~~~L~l~~n~l  189 (570)
T 2z63_A          111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPM  189 (570)
T ss_dssp             CCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTTCCCEEECTTCCC
T ss_pred             ccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchhccchhhhhcccCCCCc
Confidence            8887764 57888999999999875443 356 6888889999999888777553 345555555    5555555544

>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=99.91  E-value=3.2e-23  Score=199.56  Aligned_cols=185  Identities=23%  Similarity=0.357  Sum_probs=141.2

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+..+..++. +..+++|++|++++|.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+
T Consensus        49 L~l~~~~i~~~~~-~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n~-i~~~~~--~~~l~~L~~L~l~~n~i  122 (347)
T 4fmz_A           49 LVVAGEKVASIQG-IEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNK-ITDISA--LQNLTNLRELYLNEDNI  122 (347)
T ss_dssp             EECCSSCCCCCTT-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCSEEECTTSCC
T ss_pred             EEEeCCccccchh-hhhcCCccEEEccCCccccchh--hhcCCcCCEEEccCCc-ccCchH--HcCCCcCCEEECcCCcc
Confidence            4555666666654 6778888888888888877665  4578888888888886 555553  57888888888888888


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++. +..+++|++|++++|......+.+..+++|++|++++|.+..++. +..+++|++|++++|.+..++.  +..+
T Consensus       123 ~~~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~l  198 (347)
T 4fmz_A          123 SDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISP--LASL  198 (347)
T ss_dssp             CCCGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCCGG--GGGC
T ss_pred             cCchh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCccccccc--ccCC
Confidence            87765 778888888888888777776678888888888888888777654 7788888888888888877766  4788


Q ss_pred             CCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          180 RSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       180 ~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ++|+.|++++|.......   +..+ ++|+.|+++++..
T Consensus       199 ~~L~~L~l~~n~l~~~~~---~~~~-~~L~~L~l~~n~l  233 (347)
T 4fmz_A          199 TSLHYFTAYVNQITDITP---VANM-TRLNSLKIGNNKI  233 (347)
T ss_dssp             TTCCEEECCSSCCCCCGG---GGGC-TTCCEEECCSSCC
T ss_pred             CccceeecccCCCCCCch---hhcC-CcCCEEEccCCcc
Confidence            888888888876544332   6677 8888888877755

>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=4e-24  Score=222.12  Aligned_cols=316  Identities=14%  Similarity=0.159  Sum_probs=201.0

Q ss_pred             CchhHhhcCCCCcEEEccCCCCCC------------------chhhhh--cCcCCCEEEcCCCCCCCcCC-CccccCCcc
Q 012249           78 IPECFFVHMHGLKVVNLSSTDIEV------------------LPSSVS--DLTNLRSLSLGWCRRLKRVP-SLARLLALQ  136 (467)
Q Consensus        78 ~~~~~~~~l~~L~~L~l~~~~~~~------------------l~~~~~--~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~  136 (467)
                      +|.. ++++++|++|++++|.+..                  +|..++  ++++|++|++++|...+.+| .++++++|+
T Consensus       198 ip~~-l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~  276 (636)
T 4eco_A          198 VSKA-VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQ  276 (636)
T ss_dssp             ECGG-GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCC
T ss_pred             CCHH-HhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCC
Confidence            5554 4889999999999999887                  898888  99999999999988788888 799999999


Q ss_pred             EEEccCCc-Ccc--ccccccCC------CCCcEEeccCCCCCCcCC--ccccCCCCCcEEEcccCCCcccccHHHHHhhh
Q 012249          137 YLDLYDTR-IEE--VPEGMEML------ENLSHLYLSSLQLKKFPA--GILPRLRSLYKLKLSFGNEALRETVEEAARLS  205 (467)
Q Consensus       137 ~L~l~~~~-~~~--lp~~~~~l------~~L~~L~l~~~~~~~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~  205 (467)
                      +|++++|. ++.  +|..++.+      ++|++|++++|.+..+|.  .+ +++++|+.|++++|...+..+  .++.+ 
T Consensus       277 ~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l-~~l~~L~~L~L~~N~l~g~ip--~~~~l-  352 (636)
T 4eco_A          277 LINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSL-QKMKKLGMLECLYNQLEGKLP--AFGSE-  352 (636)
T ss_dssp             EEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHH-TTCTTCCEEECCSCCCEEECC--CCEEE-
T ss_pred             EEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhh-ccCCCCCEEeCcCCcCccchh--hhCCC-
Confidence            99999997 884  88877776      899999999999988887  54 899999999999987764554  67788 


Q ss_pred             ccCcEEEcccCCccchhhhhhccCCCCChhh-hhhhhhcCCCcccccccccccee--eeecCccccchhhhhhhc-----
Q 012249          206 DRLDYFEGYFSTLKDFNIYVKSTDGRGSKNY-CLALSAHGMGGCLVTHLEVDKSV--FLYGCKICEIKETIVLLK-----  277 (467)
Q Consensus       206 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~-l~~l~~~~~~~~~~~~~~~~~~~--~L~~l~l~~~~~~~~~~~-----  277 (467)
                      ++|+.|+++.+.+...+..      +..+.. ++.+...+..- ..++..+....  +|+.++++++......|.     
T Consensus       353 ~~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          353 IKLASLNLAYNQITEIPAN------FCGFTEQVENLSFAHNKL-KYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPL  425 (636)
T ss_dssp             EEESEEECCSSEEEECCTT------SEEECTTCCEEECCSSCC-SSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTT
T ss_pred             CCCCEEECCCCccccccHh------hhhhcccCcEEEccCCcC-cccchhhhhcccCccCEEECcCCcCCCcchhhhccc
Confidence            8999999988876533221      222222 22222111111 12233333322  677777776664433332     


Q ss_pred             --------ccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchH-------Hhhhcccee
Q 012249          278 --------DVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLL-------PALQNLKVL  342 (467)
Q Consensus       278 --------~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~-------~~l~~L~~L  342 (467)
                              .++.|.+.++.- +.+.   .     .....++. |++|+++++. ++.++. ..+       +++++|+.|
T Consensus       426 ~~~~~~~~~L~~L~Ls~N~l-~~lp---~-----~~~~~l~~-L~~L~Ls~N~-l~~i~~-~~~~~~~~~~~~l~~L~~L  493 (636)
T 4eco_A          426 DPTPFKGINVSSINLSNNQI-SKFP---K-----ELFSTGSP-LSSINLMGNM-LTEIPK-NSLKDENENFKNTYLLTSI  493 (636)
T ss_dssp             CSSCCCCCCEEEEECCSSCC-CSCC---T-----HHHHTTCC-CSEEECCSSC-CSBCCS-SSSEETTEECTTGGGCCEE
T ss_pred             ccccccCCCCCEEECcCCcc-CcCC---H-----HHHccCCC-CCEEECCCCC-CCCcCH-HHhccccccccccCCccEE
Confidence                    233333333211 1100   0     00112455 7777777643 334322 111       223367777


Q ss_pred             eeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCC------CCc
Q 012249          343 AVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRC------PKL  416 (467)
Q Consensus       343 ~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C------~~L  416 (467)
                      ++++| .+..++....              ...+++|+.|++.++. ++.++...  ..+++|++|.++++      .-.
T Consensus       494 ~Ls~N-~l~~lp~~~~--------------~~~l~~L~~L~Ls~N~-l~~ip~~~--~~l~~L~~L~Ls~N~~ls~N~l~  555 (636)
T 4eco_A          494 DLRFN-KLTKLSDDFR--------------ATTLPYLVGIDLSYNS-FSKFPTQP--LNSSTLKGFGIRNQRDAQGNRTL  555 (636)
T ss_dssp             ECCSS-CCCBCCGGGS--------------TTTCTTCCEEECCSSC-CSSCCCGG--GGCSSCCEEECCSCBCTTCCBCC
T ss_pred             ECcCC-cCCccChhhh--------------hccCCCcCEEECCCCC-CCCcChhh--hcCCCCCEEECCCCcccccCccc
Confidence            77764 3443321110              0167888888888764 44455544  45788888888543      234


Q ss_pred             cccCCccCcccCCCCCCCCcceeeeeh
Q 012249          417 KRLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       417 ~~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      ..+|.++..++        +|+.+++.
T Consensus       556 ~~~p~~l~~l~--------~L~~L~Ls  574 (636)
T 4eco_A          556 REWPEGITLCP--------SLTQLQIG  574 (636)
T ss_dssp             CCCCTTGGGCS--------SCCEEECC
T ss_pred             ccChHHHhcCC--------CCCEEECC
Confidence            45777665555        88888887

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

Probab=99.91  E-value=7.5e-24  Score=224.44  Aligned_cols=316  Identities=13%  Similarity=0.120  Sum_probs=181.3

Q ss_pred             CchhHhhcCCCCcEEEccCCCCCC------------------chhhhh--cCcCCCEEEcCCCCCCCcCC-CccccCCcc
Q 012249           78 IPECFFVHMHGLKVVNLSSTDIEV------------------LPSSVS--DLTNLRSLSLGWCRRLKRVP-SLARLLALQ  136 (467)
Q Consensus        78 ~~~~~~~~l~~L~~L~l~~~~~~~------------------l~~~~~--~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~  136 (467)
                      +|.. ++++++|++|++++|.+..                  +|..++  ++++|++|++++|...+.+| .++++++|+
T Consensus       440 IP~~-l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~  518 (876)
T 4ecn_A          440 ISKA-IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQ  518 (876)
T ss_dssp             ECGG-GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCC
T ss_pred             hhHH-HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCC
Confidence            4544 3677777777777777776                  777766  77777777777776666777 577777777


Q ss_pred             EEEccCCc-Ccc--ccccccCCC-------CCcEEeccCCCCCCcCC--ccccCCCCCcEEEcccCCCcccccHHHHHhh
Q 012249          137 YLDLYDTR-IEE--VPEGMEMLE-------NLSHLYLSSLQLKKFPA--GILPRLRSLYKLKLSFGNEALRETVEEAARL  204 (467)
Q Consensus       137 ~L~l~~~~-~~~--lp~~~~~l~-------~L~~L~l~~~~~~~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l  204 (467)
                      +|++++|. ++.  +|..+++++       +|++|++++|.+..+|.  .+ +++++|+.|++++|... ..+  .++.+
T Consensus       519 ~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l-~~L~~L~~L~Ls~N~l~-~lp--~~~~L  594 (876)
T 4ecn_A          519 SLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASL-QKMVKLGLLDCVHNKVR-HLE--AFGTN  594 (876)
T ss_dssp             EEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHH-TTCTTCCEEECTTSCCC-BCC--CCCTT
T ss_pred             EEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhh-hcCCCCCEEECCCCCcc-cch--hhcCC
Confidence            77777775 664  666555444       77777777777777776  44 77777777777777654 332  56667


Q ss_pred             hccCcEEEcccCCccchhhhhhccCCCCChhh-hhhhhhcCCCcccccccccccee--eeecCccccchhhhhhh-----
Q 012249          205 SDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNY-CLALSAHGMGGCLVTHLEVDKSV--FLYGCKICEIKETIVLL-----  276 (467)
Q Consensus       205 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~-l~~l~~~~~~~~~~~~~~~~~~~--~L~~l~l~~~~~~~~~~-----  276 (467)
                       ++|+.|+++.|.+...+.      .+..+.. ++.|...+..- ..++..+....  +|+.|+++++.....++     
T Consensus       595 -~~L~~L~Ls~N~l~~lp~------~l~~l~~~L~~L~Ls~N~L-~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~  666 (876)
T 4ecn_A          595 -VKLTDLKLDYNQIEEIPE------DFCAFTDQVEGLGFSHNKL-KYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCS  666 (876)
T ss_dssp             -SEESEEECCSSCCSCCCT------TSCEECTTCCEEECCSSCC-CSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSC
T ss_pred             -CcceEEECcCCccccchH------HHhhccccCCEEECcCCCC-CcCchhhhccccCCCCEEECcCCcCCCccccchhh
Confidence             777777777776543221      1222222 22221111110 12222233322  37777777665433222     


Q ss_pred             ------cccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccch------HHhhhccceeee
Q 012249          277 ------KDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRL------LPALQNLKVLAV  344 (467)
Q Consensus       277 ------~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~------~~~l~~L~~L~l  344 (467)
                            ..++.|.+.++.- +.+.   .     .....++. |+.|+++++ .++.++....      ++++++|+.|++
T Consensus       667 l~~~~~~~L~~L~Ls~N~L-~~lp---~-----~~~~~l~~-L~~L~Ls~N-~L~~ip~~~~~~~~~~l~nl~~L~~L~L  735 (876)
T 4ecn_A          667 MDDYKGINASTVTLSYNEI-QKFP---T-----ELFATGSP-ISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTTIDL  735 (876)
T ss_dssp             TTTCCCCCEEEEECCSSCC-CSCC---H-----HHHHTTCC-CSEEECCSC-CCSCCCTTSSSCTTSCCTTGGGCCEEEC
T ss_pred             hccccCCCcCEEEccCCcC-CccC---H-----HHHccCCC-CCEEECCCC-cCCccChHHhccccccccccCCccEEEC
Confidence                  1344444443321 1110   0     00112455 777777775 3334322110      224457777777


Q ss_pred             CCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCC------Cccc
Q 012249          345 ISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCP------KLKR  418 (467)
Q Consensus       345 ~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~------~L~~  418 (467)
                      ++| .+..++....              ...+++|+.|++.++. +..++...  ..+++|+.|.+.+++      -...
T Consensus       736 s~N-~L~~lp~~l~--------------~~~l~~L~~L~Ls~N~-L~~lp~~l--~~L~~L~~L~Ls~N~~ls~N~l~~~  797 (876)
T 4ecn_A          736 RFN-KLTSLSDDFR--------------ATTLPYLSNMDVSYNC-FSSFPTQP--LNSSQLKAFGIRHQRDAEGNRILRQ  797 (876)
T ss_dssp             CSS-CCCCCCGGGS--------------TTTCTTCCEEECCSSC-CSSCCCGG--GGCTTCCEEECCCCBCTTCCBCCCC
T ss_pred             CCC-CCccchHHhh--------------hccCCCcCEEEeCCCC-CCccchhh--hcCCCCCEEECCCCCCccccccccc
Confidence            775 4444321110              0167888888888864 44455444  468888888887633      2345


Q ss_pred             cCCccCcccCCCCCCCCcceeeeeh
Q 012249          419 LSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       419 lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      +|..+..+.        +|+.|++.
T Consensus       798 ip~~l~~L~--------~L~~L~Ls  814 (876)
T 4ecn_A          798 WPTGITTCP--------SLIQLQIG  814 (876)
T ss_dssp             CCTTGGGCS--------SCCEEECC
T ss_pred             ChHHHhcCC--------CCCEEECC
Confidence            677665555        88888887

>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=99.91  E-value=1.9e-23  Score=213.80  Aligned_cols=196  Identities=21%  Similarity=0.249  Sum_probs=160.1

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      ....++++.++|..+.  +++++|++++|.++.++...+.++++|++|++++|. +..+++..|..+++|++|++++|.+
T Consensus        10 c~~~~~~l~~ip~~~~--~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~Ls~n~l   86 (549)
T 2z81_A           10 CDGRSRSFTSIPSGLT--AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR-INTIEGDAFYSLGSLEHLDLSDNHL   86 (549)
T ss_dssp             EECTTSCCSSCCSCCC--TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCCCccccccccCC--CCccEEECcCCccCccChhhhhcCCcccEEECCCCC-cCccChhhccccccCCEEECCCCcc
Confidence            4556778899998664  699999999999998776667799999999999998 5666655678999999999999999


Q ss_pred             CCchh-hhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCc-Ccccc-ccccCCCCCcEEeccCCCCCCcCCc
Q 012249          100 EVLPS-SVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTR-IEEVP-EGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus       100 ~~l~~-~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~-~~~lp-~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      ..++. .++.+++|++|++++|.... ..| .++++++|++|++++|. +..+| ..++++++|++|++++|.+......
T Consensus        87 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  166 (549)
T 2z81_A           87 SSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQ  166 (549)
T ss_dssp             CSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTT
T ss_pred             CccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChh
Confidence            97765 48999999999999985433 344 68999999999999996 77776 4699999999999999999765444


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .++++++|++|+++.+..... +...+..+ ++|+.|+++.+....
T Consensus       167 ~l~~l~~L~~L~l~~n~~~~~-~~~~~~~l-~~L~~L~L~~n~l~~  210 (549)
T 2z81_A          167 SLKSIRDIHHLTLHLSESAFL-LEIFADIL-SSVRYLELRDTNLAR  210 (549)
T ss_dssp             TTTTCSEEEEEEEECSBSTTH-HHHHHHST-TTBSEEEEESCBCTT
T ss_pred             hhhccccCceEecccCccccc-chhhHhhc-ccccEEEccCCcccc
Confidence            458999999999998865332 22234567 999999999887644

>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=99.91  E-value=9.8e-23  Score=213.98  Aligned_cols=192  Identities=21%  Similarity=0.206  Sum_probs=152.2

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      ++..++.++..+|..+.  +++++|++++|.+..++...+.++++|+.|++++|. +..+++..|+++++|++|++++|.
T Consensus         8 ~~~cs~~~L~~ip~~~~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~   84 (680)
T 1ziw_A            8 VADCSHLKLTQVPDDLP--TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNT-ISKLEPELCQKLPMLKVLNLQHNE   84 (680)
T ss_dssp             EEECCSSCCSSCCSCSC--TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSC-CCCCCTTHHHHCTTCCEEECCSSC
T ss_pred             eeECCCCCccccccccC--CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCc-cCccCHHHHhcccCcCEEECCCCc
Confidence            46667788889998664  689999999999998888777789999999999998 555555567899999999999999


Q ss_pred             CCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCCCcCCc
Q 012249           99 IEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        99 ~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      +..+|. .++.+++|++|++++|. +..++  .++++++|++|++++|.++.. |..++++++|++|++++|.+..++..
T Consensus        85 l~~l~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  163 (680)
T 1ziw_A           85 LSQLSDKTFAFCTNLTELHLMSNS-IQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSE  163 (680)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSSC-CCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHH
T ss_pred             cCccChhhhccCCCCCEEECCCCc-cCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHH
Confidence            998876 58999999999999975 45554  689999999999999988865 45688999999999999998877764


Q ss_pred             cc--cCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          175 IL--PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       175 ~l--~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      .+  ..+++|+.|++++|......+ ..+..+ .+|+.+.+..+
T Consensus       164 ~~~~~~~~~L~~L~L~~n~l~~~~~-~~~~~l-~~L~~L~l~~~  205 (680)
T 1ziw_A          164 ELDIFANSSLKKLELSSNQIKEFSP-GCFHAI-GRLFGLFLNNV  205 (680)
T ss_dssp             HHGGGTTCEESEEECTTCCCCCBCT-TGGGGS-SEECEEECTTC
T ss_pred             HhhccccccccEEECCCCcccccCh-hhhhhh-hhhhhhhcccc
Confidence            32  356899999999886544322 344444 55555544443

>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=99.91  E-value=8.5e-23  Score=214.44  Aligned_cols=171  Identities=23%  Similarity=0.264  Sum_probs=138.4

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.+..++...+.++++|+.|++++|. +..+|...|+.+++|++|++++|
T Consensus        29 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~~~~l~~L~~L~L~~n  107 (680)
T 1ziw_A           29 VLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE-LSQLSDKTFAFCTNLTELHLMSN  107 (680)
T ss_dssp             EEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS
T ss_pred             EEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCc-cCccChhhhccCCCCCEEECCCC
Confidence            45666777888876 58889999999999999998777777789999999999997 67788766789999999999999


Q ss_pred             CCCCch-hhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-c--cCCCCCcEEeccCCCCCCcC
Q 012249           98 DIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-M--EMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        98 ~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~--~~l~~L~~L~l~~~~~~~~~  172 (467)
                      .+..++ ..++++++|++|++++|......| .++++++|++|++++|.++.++.. +  ..+++|++|++++|.+..++
T Consensus       108 ~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~  187 (680)
T 1ziw_A          108 SIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFS  187 (680)
T ss_dssp             CCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCCCCCBC
T ss_pred             ccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCcccccC
Confidence            999775 678999999999999986555555 688999999999999988877643 3  35689999999999887776


Q ss_pred             CccccCCCCCcEEEcccC
Q 012249          173 AGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~  190 (467)
                      ...++.+.+|+.|++..+
T Consensus       188 ~~~~~~l~~L~~L~l~~~  205 (680)
T 1ziw_A          188 PGCFHAIGRLFGLFLNNV  205 (680)
T ss_dssp             TTGGGGSSEECEEECTTC
T ss_pred             hhhhhhhhhhhhhhcccc
Confidence            655565555555544443

>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=99.90  E-value=2.6e-23  Score=209.10  Aligned_cols=195  Identities=20%  Similarity=0.249  Sum_probs=158.1

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++..+|..+.  ++++.|++++|.+..++...+.++++|+.|++++|. +..+++..|.++++|++|++++|.
T Consensus        15 ~v~c~~~~l~~ip~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~   91 (477)
T 2id5_A           15 AVLCHRKRFVAVPEGIP--TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENI-VSAVEPGAFNNLFNLRTLGLRSNR   91 (477)
T ss_dssp             EEECCSCCCSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EEEeCCCCcCcCCCCCC--CCCcEEECCCCccceECHhHccCCCCCCEEECCCCc-cCEeChhhhhCCccCCEEECCCCc
Confidence            45666778888887654  589999999999998877677789999999999997 555544556899999999999999


Q ss_pred             CCCchh-hhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccc-ccccCCCCCcEEeccCCCCCCcCCcc
Q 012249           99 IEVLPS-SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVP-EGMEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus        99 ~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      +..+|. .+..+++|++|++++|......+ .+..+++|++|++++|.++.++ ..+..+++|++|++++|.+..++...
T Consensus        92 l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  171 (477)
T 2id5_A           92 LKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEA  171 (477)
T ss_dssp             CCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHH
T ss_pred             CCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhH
Confidence            998875 46789999999999976555555 6889999999999999888664 46889999999999999998888776


Q ss_pred             ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          176 LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +.++++|+.|++++|....... ..+..+ ++|+.|+++.+..
T Consensus       172 l~~l~~L~~L~l~~n~i~~~~~-~~~~~l-~~L~~L~l~~~~~  212 (477)
T 2id5_A          172 LSHLHGLIVLRLRHLNINAIRD-YSFKRL-YRLKVLEISHWPY  212 (477)
T ss_dssp             HTTCTTCCEEEEESCCCCEECT-TCSCSC-TTCCEEEEECCTT
T ss_pred             hcccCCCcEEeCCCCcCcEeCh-hhcccC-cccceeeCCCCcc
Confidence            7899999999999886654432 457777 8899999877653

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

Probab=99.90  E-value=4.9e-23  Score=201.55  Aligned_cols=300  Identities=16%  Similarity=0.207  Sum_probs=185.1

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSL  115 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L  115 (467)
                      +++++.+++.++.+..+|..++..+++|+.|++++|. +..++...|..+++|++|++++|.+..++ ..++.+++|++|
T Consensus        44 l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           44 LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             GCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCceEEEecCCchhhCChhHhcccccCcEEECCCCc-ccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEE
Confidence            4567777777777766666655566777777777776 44555444566777777777777766553 445667777777


Q ss_pred             EcCCCCCCCcCC-C-ccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCC
Q 012249          116 SLGWCRRLKRVP-S-LARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNE  192 (467)
Q Consensus       116 ~l~~~~~~~~~p-~-l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  192 (467)
                      ++++| .+..+| . +..+++|++|++++|.++.++. .+..+++|++|++++|.+..++   ++.+++|+.|++++|..
T Consensus       123 ~L~~n-~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~---~~~l~~L~~L~l~~n~l  198 (390)
T 3o6n_A          123 VLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD---LSLIPSLFHANVSYNLL  198 (390)
T ss_dssp             ECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC---GGGCTTCSEEECCSSCC
T ss_pred             ECCCC-ccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccc---cccccccceeecccccc
Confidence            77775 344555 2 4667777777777776665543 3666777777777777666554   25566677777766644


Q ss_pred             cccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhh
Q 012249          193 ALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKET  272 (467)
Q Consensus       193 ~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~  272 (467)
                      ...      ... ..|+.|+++.+.......                                ....+|+.+.+.++...
T Consensus       199 ~~~------~~~-~~L~~L~l~~n~l~~~~~--------------------------------~~~~~L~~L~l~~n~l~  239 (390)
T 3o6n_A          199 STL------AIP-IAVEELDASHNSINVVRG--------------------------------PVNVELTILKLQHNNLT  239 (390)
T ss_dssp             SEE------ECC-SSCSEEECCSSCCCEEEC--------------------------------CCCSSCCEEECCSSCCC
T ss_pred             ccc------CCC-CcceEEECCCCeeeeccc--------------------------------cccccccEEECCCCCCc
Confidence            322      122 566666666655422110                                00012333333333211


Q ss_pred             hhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhh
Q 012249          273 IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEE  352 (467)
Q Consensus       273 ~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~  352 (467)
                                         .          ......++. |++|+++++. ++... ...+..+++|+.|+++++ .+..
T Consensus       240 -------------------~----------~~~l~~l~~-L~~L~Ls~n~-l~~~~-~~~~~~l~~L~~L~L~~n-~l~~  286 (390)
T 3o6n_A          240 -------------------D----------TAWLLNYPG-LVEVDLSYNE-LEKIM-YHPFVKMQRLERLYISNN-RLVA  286 (390)
T ss_dssp             -------------------C----------CGGGGGCTT-CSEEECCSSC-CCEEE-SGGGTTCSSCCEEECCSS-CCCE
T ss_pred             -------------------c----------cHHHcCCCC-ccEEECCCCc-CCCcC-hhHccccccCCEEECCCC-cCcc
Confidence                               1          111234567 9999999864 44432 234577889999999985 5555


Q ss_pred             hhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCC
Q 012249          353 IVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPS  432 (467)
Q Consensus       353 l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~  432 (467)
                      +.....                .+|+|+.|++.++ .+..++...  ..+++|++|.+.+|+ ++.+|.          .
T Consensus       287 ~~~~~~----------------~l~~L~~L~L~~n-~l~~~~~~~--~~l~~L~~L~L~~N~-i~~~~~----------~  336 (390)
T 3o6n_A          287 LNLYGQ----------------PIPTLKVLDLSHN-HLLHVERNQ--PQFDRLENLYLDHNS-IVTLKL----------S  336 (390)
T ss_dssp             EECSSS----------------CCTTCCEEECCSS-CCCCCGGGH--HHHTTCSEEECCSSC-CCCCCC----------C
T ss_pred             cCcccC----------------CCCCCCEEECCCC-cceecCccc--cccCcCCEEECCCCc-cceeCc----------h
Confidence            432221                6899999999987 455665544  468899999999884 666652          2


Q ss_pred             CCCcceeeeeh
Q 012249          433 PPAALKVIKIE  443 (467)
Q Consensus       433 ~~~~L~~l~i~  443 (467)
                      .+++|+.+++.
T Consensus       337 ~~~~L~~L~l~  347 (390)
T 3o6n_A          337 THHTLKNLTLS  347 (390)
T ss_dssp             TTCCCSEEECC
T ss_pred             hhccCCEEEcC
Confidence            34588888887

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

Probab=99.90  E-value=6.7e-23  Score=219.88  Aligned_cols=151  Identities=25%  Similarity=0.267  Sum_probs=127.4

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ......+.++..+|.   ..+++++|++++|.++.+....+.++++|+.|++++|.....+++..|.++++|++|++++|
T Consensus         7 ~~~dcs~~~L~~vP~---lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N   83 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ---VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS   83 (844)
T ss_dssp             EEEEESCCCSSCCCS---SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC
T ss_pred             eEEEccCCCCCCCCC---CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC
Confidence            466777888999997   45689999999999998776677799999999999997677776666799999999999999


Q ss_pred             CCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-C--ccccCCccEEEccCCcCcccc--ccccCCCCCcEEeccCCCCCCc
Q 012249           98 DIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-S--LARLLALQYLDLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKKF  171 (467)
Q Consensus        98 ~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~--l~~l~~L~~L~l~~~~~~~lp--~~~~~l~~L~~L~l~~~~~~~~  171 (467)
                      .+..+ |..++.+++|++|++++|......| .  ++++++|++|++++|.++.++  ..++++++|++|++++|.+..+
T Consensus        84 ~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~  163 (844)
T 3j0a_A           84 KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLV  163 (844)
T ss_dssp             CCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCC
T ss_pred             cCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCee
Confidence            99965 7889999999999999986555455 3  889999999999999888653  4689999999999999887543

>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=6e-23  Score=210.14  Aligned_cols=374  Identities=18%  Similarity=0.175  Sum_probs=238.7

Q ss_pred             eEEEcCCCcccCC-cCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFP-GEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~-~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++ ..+..+++|++|++++|.+..++...+.++++|++|++++|. +..++...++.+++|++|++++|
T Consensus        30 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~n  108 (549)
T 2z81_A           30 SLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNH-LSSLSSSWFGPLSSLKYLNLMGN  108 (549)
T ss_dssp             EEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CCSCCHHHHTTCTTCCEEECTTC
T ss_pred             EEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCc-cCccCHHHhccCCCCcEEECCCC
Confidence            4566677777764 578899999999999999998887767799999999999998 66777776799999999999999


Q ss_pred             CCCC--chhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcc-ccccccCCCCCcEEeccCCCCCCcC
Q 012249           98 DIEV--LPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE-VPEGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        98 ~~~~--l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~-lp~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      .+..  .|..++.+++|++|++++|...+.+|  .+..+++|++|++++|.++. .|..++.+++|++|+++.+.+..++
T Consensus       109 ~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~~~~~  188 (549)
T 2z81_A          109 PYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLL  188 (549)
T ss_dssp             CCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBSTTHH
T ss_pred             cccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCcccccc
Confidence            9984  46778999999999999987677776  68999999999999998875 5666776666666666665555444


Q ss_pred             CccccCCCCCcEEEcccCCCccc--------------------------ccHHHH----HhhhccCcEEEcccCCccchh
Q 012249          173 AGILPRLRSLYKLKLSFGNEALR--------------------------ETVEEA----ARLSDRLDYFEGYFSTLKDFN  222 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~~~~~~--------------------------~~~~~l----~~l~~~L~~L~l~~~~~~~~~  222 (467)
                      ..+++.+++|+.|++++|...+.                          .....+    ..+ ..|+.++++.+......
T Consensus       189 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~-~~L~~l~l~~~~~~~~~  267 (549)
T 2z81_A          189 EIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYI-LELSEVEFDDCTLNGLG  267 (549)
T ss_dssp             HHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGC-TTCCEEEEESCEEECCS
T ss_pred             hhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhh-ccccccccccccccccc
Confidence            44334455555555555433221                          001111    122 33444444333221100


Q ss_pred             hh---------------------------------------hhc-------cCCCCCh-----hhhhhhhhcCCCcccc-
Q 012249          223 IY---------------------------------------VKS-------TDGRGSK-----NYCLALSAHGMGGCLV-  250 (467)
Q Consensus       223 ~~---------------------------------------~~~-------~~~~~~l-----~~l~~l~~~~~~~~~~-  250 (467)
                      ..                                       ...       ...+..+     ..+..+..+....... 
T Consensus       268 ~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~l~~ip~~~~~~l~~L~~L~Ls~N~l~  347 (549)
T 2z81_A          268 DFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMV  347 (549)
T ss_dssp             CCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSCCCCCCHHHHHHCTTCCEEECCSSCCC
T ss_pred             cccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCccccCCHHHHhcCccccEEEccCCccc
Confidence            00                                       000       0000000     1122222222221111 


Q ss_pred             --c---cccccceeeeecCccccchhh--------hhhhcccceeeeeecccccccccccccccccccccCccccccEEE
Q 012249          251 --T---HLEVDKSVFLYGCKICEIKET--------IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLR  317 (467)
Q Consensus       251 --~---~~~~~~~~~L~~l~l~~~~~~--------~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~  317 (467)
                        .   ...+..+++|+.|+++++...        ......++.|.+.++ .++.+.   .      ....++. |++|+
T Consensus       348 ~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp---~------~~~~~~~-L~~L~  416 (549)
T 2z81_A          348 EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRN-TFHPMP---D------SCQWPEK-MRFLN  416 (549)
T ss_dssp             HHHHHHHTCTTSSTTCCEEECTTSCCCCHHHHHHHGGGCTTCCEEECTTC-CCCCCC---S------CCCCCTT-CCEEE
T ss_pred             cccccchhhhhccccCcEEEccCCcccccccchhhhhcCCCCCEEECCCC-CCccCC---h------hhccccc-ccEEE
Confidence              1   112456678888888887632        122345667766665 222211   0      1223456 99999


Q ss_pred             EecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCC
Q 012249          318 FDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYN  397 (467)
Q Consensus       318 l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  397 (467)
                      ++++. ++.++..    ..++|+.|++++| .+..++                   ..+++|++|++.++ .++.++.. 
T Consensus       417 Ls~N~-l~~l~~~----~~~~L~~L~Ls~N-~l~~~~-------------------~~l~~L~~L~Ls~N-~l~~ip~~-  469 (549)
T 2z81_A          417 LSSTG-IRVVKTC----IPQTLEVLDVSNN-NLDSFS-------------------LFLPRLQELYISRN-KLKTLPDA-  469 (549)
T ss_dssp             CTTSC-CSCCCTT----SCTTCSEEECCSS-CCSCCC-------------------CCCTTCCEEECCSS-CCSSCCCG-
T ss_pred             CCCCC-cccccch----hcCCceEEECCCC-Chhhhc-------------------ccCChhcEEECCCC-ccCcCCCc-
Confidence            99865 4443221    1258899999986 454431                   17899999999997 46666653 


Q ss_pred             CccccCCcceEEEeCCCCccccCC-ccCcccCCCCCCCCcceeeeeh
Q 012249          398 GVLVCNSLQEIEVRRCPKLKRLSL-SLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       398 ~~~~~~~L~~L~i~~C~~L~~lp~-~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                        ..+++|++|++++| +++.+|. .+..++        +|+.+++.
T Consensus       470 --~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~--------~L~~L~l~  505 (549)
T 2z81_A          470 --SLFPVLLVMKISRN-QLKSVPDGIFDRLT--------SLQKIWLH  505 (549)
T ss_dssp             --GGCTTCCEEECCSS-CCCCCCTTGGGGCT--------TCCEEECC
T ss_pred             --ccCccCCEEecCCC-ccCCcCHHHHhcCc--------ccCEEEec
Confidence              35899999999998 6777654 465555        88998886

>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=99.90  E-value=1.6e-22  Score=207.42  Aligned_cols=379  Identities=17%  Similarity=0.158  Sum_probs=238.4

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ..+..+++++..+|..+.  +++++|++++|.+..++...+.++++|+.|++++|. +..+++..|.++++|++|++++|
T Consensus        34 ~~l~ls~~~L~~ip~~~~--~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N  110 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDLP--PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR-IRSLDFHVFLFNQDLEYLDVSHN  110 (562)
T ss_dssp             CEEECTTSCCCSCCTTSC--TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECTTS
T ss_pred             cEEEcCCCCCccCCCCCC--CCcCEEECCCCCccccChhhhccCCCccEEECCCCC-CCcCCHHHhCCCCCCCEEECCCC
Confidence            456777888999998664  689999999999998887667789999999999997 56665555689999999999999


Q ss_pred             CCCCchhhhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCccccccccCCCCC--cEEeccCCCC--CCc
Q 012249           98 DIEVLPSSVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENL--SHLYLSSLQL--KKF  171 (467)
Q Consensus        98 ~~~~l~~~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L--~~L~l~~~~~--~~~  171 (467)
                      .+..+|..  .+++|++|++++|.... ..| .++++++|++|++++|.++..  .+..+++|  ++|++++|.+  ...
T Consensus       111 ~l~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~--~~~~l~~L~L~~L~L~~n~l~~~~~  186 (562)
T 3a79_B          111 RLQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQL--DLLPVAHLHLSCILLDLVSYHIKGG  186 (562)
T ss_dssp             CCCEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTT--TTGGGTTSCEEEEEEEESSCCCCSS
T ss_pred             cCCccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCccccC--chhhhhhceeeEEEeeccccccccc
Confidence            99988876  89999999999975433 234 689999999999999987752  35555555  9999988876  332


Q ss_pred             CCcc--------------------------ccCCCCCcEEEcccCCCccc---ccHHHHHhh------------------
Q 012249          172 PAGI--------------------------LPRLRSLYKLKLSFGNEALR---ETVEEAARL------------------  204 (467)
Q Consensus       172 ~~~~--------------------------l~~l~~L~~L~l~~~~~~~~---~~~~~l~~l------------------  204 (467)
                      ....                          +.++++|+.++++.|.....   ..+..+..+                  
T Consensus       187 ~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~~~~  266 (562)
T 3a79_B          187 ETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCS  266 (562)
T ss_dssp             SCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECHHHH
T ss_pred             CcccccccCcceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcHHHH
Confidence            2211                          22455667777666521000   000111111                  


Q ss_pred             --------hccCcEEEcccCCcc-chhhhhhc--cCCCC------------Ch--hhhhh------hhhcCCCccccccc
Q 012249          205 --------SDRLDYFEGYFSTLK-DFNIYVKS--TDGRG------------SK--NYCLA------LSAHGMGGCLVTHL  253 (467)
Q Consensus       205 --------~~~L~~L~l~~~~~~-~~~~~~~~--~~~~~------------~l--~~l~~------l~~~~~~~~~~~~~  253 (467)
                              ..+|+.|+++.+.+. ..+.....  ...+.            .+  .....      +..+..........
T Consensus       267 ~~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~~~~  346 (562)
T 3a79_B          267 VKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHM  346 (562)
T ss_dssp             HHHHHHHTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCCCCC
T ss_pred             HHHHHhhhcccccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCcccc
Confidence                    036777777666543 11111100  00000            00  00000      11011101100111


Q ss_pred             cc-cceeeeecCccccchhhhhhh------cccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCcc
Q 012249          254 EV-DKSVFLYGCKICEIKETIVLL------KDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKN  326 (467)
Q Consensus       254 ~~-~~~~~L~~l~l~~~~~~~~~~------~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~  326 (467)
                      .+ ..+.+|+.+++.++......+      +.++.|.+.++. ++.+...      ......++. |++|+++++.....
T Consensus       347 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~------~~~~~~l~~-L~~L~l~~N~l~~~  418 (562)
T 3a79_B          347 VCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNG-LKNFFKV------ALMTKNMSS-LETLDVSLNSLNSH  418 (562)
T ss_dssp             CCCSSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSC-CCBTTHH------HHTTTTCTT-CCEEECTTSCCBSC
T ss_pred             cCccCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCC-cCCcccc------hhhhcCCCC-CCEEECCCCcCCCc
Confidence            11 456678888888876443333      345555555432 2211100      011345677 99999998654332


Q ss_pred             ccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccc-cccccccccccccccccccCCCccccCCc
Q 012249          327 LFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTL-PRLKKLRFYDLPEFKSFCSYNGVLVCNSL  405 (467)
Q Consensus       327 l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~L  405 (467)
                      + +...+..+++|+.|++++|. +......                  .+ ++|+.|++.++ .++.++...  ..+++|
T Consensus       419 ~-~~~~~~~l~~L~~L~l~~n~-l~~~~~~------------------~l~~~L~~L~L~~N-~l~~ip~~~--~~l~~L  475 (562)
T 3a79_B          419 A-YDRTCAWAESILVLNLSSNM-LTGSVFR------------------CLPPKVKVLDLHNN-RIMSIPKDV--THLQAL  475 (562)
T ss_dssp             C-SSCCCCCCTTCCEEECCSSC-CCGGGGS------------------SCCTTCSEEECCSS-CCCCCCTTT--TSSCCC
T ss_pred             c-ChhhhcCcccCCEEECCCCC-CCcchhh------------------hhcCcCCEEECCCC-cCcccChhh--cCCCCC
Confidence            3 33445678899999999864 4322111                  33 69999999997 677777766  478999


Q ss_pred             ceEEEeCCCCccccCCc-cCcccCCCCCCCCcceeeeeh
Q 012249          406 QEIEVRRCPKLKRLSLS-LPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       406 ~~L~i~~C~~L~~lp~~-~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      ++|++.++ +++++|.+ +..+.        +|+.+++.
T Consensus       476 ~~L~L~~N-~l~~l~~~~~~~l~--------~L~~L~l~  505 (562)
T 3a79_B          476 QELNVASN-QLKSVPDGVFDRLT--------SLQYIWLH  505 (562)
T ss_dssp             SEEECCSS-CCCCCCTTSTTTCT--------TCCCEECC
T ss_pred             CEEECCCC-CCCCCCHHHHhcCC--------CCCEEEec
Confidence            99999998 68899876 54444        89998887

>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=99.89  E-value=5.5e-22  Score=198.65  Aligned_cols=318  Identities=17%  Similarity=0.203  Sum_probs=234.9

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..+++.+..++. +..+++|++|++++|.+..++.  +.++++|+.|++++|. +..++.  +..+++|++|++++|.
T Consensus        72 ~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~l~~n~  145 (466)
T 1o6v_A           72 QINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQ-ITDIDP--LKNLTNLNRLELSSNT  145 (466)
T ss_dssp             EEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCSEEEEEEEE
T ss_pred             EEECCCCccCCchh-hhccccCCEEECCCCccccChh--hcCCCCCCEEECCCCC-CCCChH--HcCCCCCCEEECCCCc
Confidence            35666778888887 8899999999999999987766  5589999999999997 666665  5899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      +..++. +..+++|++|++++  .....+.+..+++|++|++++|.++.++ .+..+++|++|++++|.+..++.  ++.
T Consensus       146 l~~~~~-~~~l~~L~~L~l~~--~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~l~~~~~--~~~  219 (466)
T 1o6v_A          146 ISDISA-LSGLTSLQQLSFGN--QVTDLKPLANLTTLERLDISSNKVSDIS-VLAKLTNLESLIATNNQISDITP--LGI  219 (466)
T ss_dssp             ECCCGG-GTTCTTCSEEEEEE--SCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCCGG--GGG
T ss_pred             cCCChh-hccCCcccEeecCC--cccCchhhccCCCCCEEECcCCcCCCCh-hhccCCCCCEEEecCCccccccc--ccc
Confidence            888764 89999999999974  3455556889999999999999988875 58899999999999999987766  478


Q ss_pred             CCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccce
Q 012249          179 LRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKS  258 (467)
Q Consensus       179 l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~  258 (467)
                      +++|+.|++++|.....   ..+..+ ++|+.|+++.+.......                               +..+
T Consensus       220 l~~L~~L~l~~n~l~~~---~~l~~l-~~L~~L~l~~n~l~~~~~-------------------------------~~~l  264 (466)
T 1o6v_A          220 LTNLDELSLNGNQLKDI---GTLASL-TNLTDLDLANNQISNLAP-------------------------------LSGL  264 (466)
T ss_dssp             CTTCCEEECCSSCCCCC---GGGGGC-TTCSEEECCSSCCCCCGG-------------------------------GTTC
T ss_pred             cCCCCEEECCCCCcccc---hhhhcC-CCCCEEECCCCccccchh-------------------------------hhcC
Confidence            99999999999866543   357788 999999999887643321                               1122


Q ss_pred             eeeecCccccchhh----hhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHH
Q 012249          259 VFLYGCKICEIKET----IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLP  334 (467)
Q Consensus       259 ~~L~~l~l~~~~~~----~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~  334 (467)
                      .+|+.|.+.++...    ......++.|.+.++.- +.          ......++. |++|++++|. +++..+   +.
T Consensus       265 ~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l-~~----------~~~~~~l~~-L~~L~L~~n~-l~~~~~---~~  328 (466)
T 1o6v_A          265 TKLTELKLGANQISNISPLAGLTALTNLELNENQL-ED----------ISPISNLKN-LTYLTLYFNN-ISDISP---VS  328 (466)
T ss_dssp             TTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCC-SC----------CGGGGGCTT-CSEEECCSSC-CSCCGG---GG
T ss_pred             CCCCEEECCCCccCccccccCCCccCeEEcCCCcc-cC----------chhhcCCCC-CCEEECcCCc-CCCchh---hc
Confidence            23444444444311    12234566666655431 11          222445677 9999999974 455434   46


Q ss_pred             hhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCC
Q 012249          335 ALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCP  414 (467)
Q Consensus       335 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~  414 (467)
                      .+++|+.|++++| .+.++...                 ..+++|+.|++.++.- ..+.. .  ..+++|++|.+.+| 
T Consensus       329 ~l~~L~~L~l~~n-~l~~~~~l-----------------~~l~~L~~L~l~~n~l-~~~~~-~--~~l~~L~~L~l~~n-  385 (466)
T 1o6v_A          329 SLTKLQRLFFYNN-KVSDVSSL-----------------ANLTNINWLSAGHNQI-SDLTP-L--ANLTRITQLGLNDQ-  385 (466)
T ss_dssp             GCTTCCEEECCSS-CCCCCGGG-----------------TTCTTCCEEECCSSCC-CBCGG-G--TTCTTCCEEECCCE-
T ss_pred             cCccCCEeECCCC-ccCCchhh-----------------ccCCCCCEEeCCCCcc-Cccch-h--hcCCCCCEEeccCC-
Confidence            7889999999986 55544221                 2789999999998864 33333 2  46899999999988 


Q ss_pred             CccccCCc
Q 012249          415 KLKRLSLS  422 (467)
Q Consensus       415 ~L~~lp~~  422 (467)
                      .++.+|..
T Consensus       386 ~~~~~p~~  393 (466)
T 1o6v_A          386 AWTNAPVN  393 (466)
T ss_dssp             EEECCCBC
T ss_pred             cccCCchh
Confidence            45555543

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

Probab=99.89  E-value=1.8e-22  Score=197.46  Aligned_cols=299  Identities=16%  Similarity=0.163  Sum_probs=211.7

Q ss_pred             eEEEcCCCcccCCcC-ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPGE-QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~-~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...+..+..+|.. +..+++|++|+++++.+..++...+..+++|+.|++++|. +..+++..++.+++|++|++++|
T Consensus        49 ~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n  127 (390)
T 3o6n_A           49 IVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERN  127 (390)
T ss_dssp             EEEEESCEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEEecCCchhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCC-CCcCCHHHhcCCCCCCEEECCCC
Confidence            455666777788875 4778999999999999998887777799999999999998 66676666789999999999999


Q ss_pred             CCCCchhhh-hcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcc
Q 012249           98 DIEVLPSSV-SDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus        98 ~~~~l~~~~-~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      .+..+|..+ ..+++|++|++++|......| .+..+++|++|++++|.++.++  +..+++|+++++++|.+..+    
T Consensus       128 ~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~l~~L~~L~l~~n~l~~~----  201 (390)
T 3o6n_A          128 DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD--LSLIPSLFHANVSYNLLSTL----  201 (390)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCC--GGGCTTCSEEECCSSCCSEE----
T ss_pred             ccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccc--cccccccceeeccccccccc----
Confidence            999988764 889999999999975444444 5899999999999999988774  67789999999999987654    


Q ss_pred             ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccc
Q 012249          176 LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEV  255 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~  255 (467)
                       ....+|+.|++++|.......    ... ++|+.|+++.+.+....                               ++
T Consensus       202 -~~~~~L~~L~l~~n~l~~~~~----~~~-~~L~~L~l~~n~l~~~~-------------------------------~l  244 (390)
T 3o6n_A          202 -AIPIAVEELDASHNSINVVRG----PVN-VELTILKLQHNNLTDTA-------------------------------WL  244 (390)
T ss_dssp             -ECCSSCSEEECCSSCCCEEEC----CCC-SSCCEEECCSSCCCCCG-------------------------------GG
T ss_pred             -CCCCcceEEECCCCeeeeccc----ccc-ccccEEECCCCCCcccH-------------------------------HH
Confidence             344679999999886644322    224 78999999888653210                               12


Q ss_pred             cceeeeecCccccchhhhhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHh
Q 012249          256 DKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPA  335 (467)
Q Consensus       256 ~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~  335 (467)
                      ..+++|+.|+++++......+..                           ...++. |++|+++++ .++.++.  ....
T Consensus       245 ~~l~~L~~L~Ls~n~l~~~~~~~---------------------------~~~l~~-L~~L~L~~n-~l~~~~~--~~~~  293 (390)
T 3o6n_A          245 LNYPGLVEVDLSYNELEKIMYHP---------------------------FVKMQR-LERLYISNN-RLVALNL--YGQP  293 (390)
T ss_dssp             GGCTTCSEEECCSSCCCEEESGG---------------------------GTTCSS-CCEEECCSS-CCCEEEC--SSSC
T ss_pred             cCCCCccEEECCCCcCCCcChhH---------------------------cccccc-CCEEECCCC-cCcccCc--ccCC
Confidence            33345566666655422111111                           122455 777777774 3444422  1245


Q ss_pred             hhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCC
Q 012249          336 LQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCP  414 (467)
Q Consensus       336 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~  414 (467)
                      +++|+.|++++| .+..++...                ..+++|+.|++.+++ ++.++.    ..+++|++|.+.+++
T Consensus       294 l~~L~~L~L~~n-~l~~~~~~~----------------~~l~~L~~L~L~~N~-i~~~~~----~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          294 IPTLKVLDLSHN-HLLHVERNQ----------------PQFDRLENLYLDHNS-IVTLKL----STHHTLKNLTLSHND  350 (390)
T ss_dssp             CTTCCEEECCSS-CCCCCGGGH----------------HHHTTCSEEECCSSC-CCCCCC----CTTCCCSEEECCSSC
T ss_pred             CCCCCEEECCCC-cceecCccc----------------cccCcCCEEECCCCc-cceeCc----hhhccCCEEEcCCCC
Confidence            677777777775 444442211                167778888887765 444432    347778888877763

>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=99.89  E-value=3.3e-22  Score=206.44  Aligned_cols=103  Identities=15%  Similarity=0.186  Sum_probs=70.9

Q ss_pred             cCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccc
Q 012249          307 GKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYD  386 (467)
Q Consensus       307 ~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  386 (467)
                      ..++. |+.|+++++. ++...+ ..+..+++|+.|++++| .+..++....                .+|+|+.|++.+
T Consensus       251 ~~l~~-L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~Ls~N-~l~~l~~~~~----------------~l~~L~~L~Ls~  310 (597)
T 3oja_B          251 LNYPG-LVEVDLSYNE-LEKIMY-HPFVKMQRLERLYISNN-RLVALNLYGQ----------------PIPTLKVLDLSH  310 (597)
T ss_dssp             GGCTT-CSEEECCSSC-CCEEES-GGGTTCSSCCEEECTTS-CCCEEECSSS----------------CCTTCCEEECCS
T ss_pred             ccCCC-CCEEECCCCc-cCCCCH-HHhcCccCCCEEECCCC-CCCCCCcccc----------------cCCCCcEEECCC
Confidence            34567 9999999854 444422 34577889999999885 5555432221                688999999998


Q ss_pred             cccccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCCCCCcceeeeeh
Q 012249          387 LPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       387 ~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      +. +..++...  ..+++|+.|.+.+|+ ++.+|.          ..+++|+.|++.
T Consensus       311 N~-l~~i~~~~--~~l~~L~~L~L~~N~-l~~~~~----------~~~~~L~~L~l~  353 (597)
T 3oja_B          311 NH-LLHVERNQ--PQFDRLENLYLDHNS-IVTLKL----------STHHTLKNLTLS  353 (597)
T ss_dssp             SC-CCCCGGGH--HHHTTCSEEECCSSC-CCCCCC----------CTTCCCSEEECC
T ss_pred             CC-CCccCccc--ccCCCCCEEECCCCC-CCCcCh----------hhcCCCCEEEee
Confidence            75 45555444  468899999999884 666652          235588888887

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

Probab=99.88  E-value=5.5e-22  Score=197.50  Aligned_cols=167  Identities=16%  Similarity=0.200  Sum_probs=111.9

Q ss_pred             CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCC
Q 012249           33 EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNL  112 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L  112 (467)
                      .+..+++|++|+++++.+..+| . +..+++|+.|++++|. +..++   ++.+++|++|++++|.+..++  ++.+++|
T Consensus        37 ~~~~l~~L~~L~Ls~n~l~~~~-~-l~~l~~L~~L~Ls~n~-l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L  108 (457)
T 3bz5_A           37 SEEQLATLTSLDCHNSSITDMT-G-IEKLTGLTKLICTSNN-ITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKL  108 (457)
T ss_dssp             EHHHHTTCCEEECCSSCCCCCT-T-GGGCTTCSEEECCSSC-CSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTC
T ss_pred             ChhHcCCCCEEEccCCCcccCh-h-hcccCCCCEEEccCCc-CCeEc---cccCCCCCEEECcCCCCceee--cCCCCcC
Confidence            3455667777777777777665 3 3367777777777776 44454   467777777777777777664  6777777


Q ss_pred             CEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCC-CCCcCCccccCCCCCcEEEcccCC
Q 012249          113 RSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQ-LKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       113 ~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~-~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      ++|++++| .+..+| ++.+++|++|++++|.++.++  ++.+++|++|++++|. +..++   ++.+++|+.|++++|.
T Consensus       109 ~~L~L~~N-~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~  181 (457)
T 3bz5_A          109 TYLNCDTN-KLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNK  181 (457)
T ss_dssp             CEEECCSS-CCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSC
T ss_pred             CEEECCCC-cCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCc
Confidence            77777775 344444 667777777777777777663  6677777777777774 44442   3667777777777775


Q ss_pred             CcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          192 EALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       192 ~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .... +   ++.+ ++|+.|+++.+.+.
T Consensus       182 l~~l-~---l~~l-~~L~~L~l~~N~l~  204 (457)
T 3bz5_A          182 ITEL-D---VSQN-KLLNRLNCDTNNIT  204 (457)
T ss_dssp             CCCC-C---CTTC-TTCCEEECCSSCCS
T ss_pred             ccee-c---cccC-CCCCEEECcCCcCC
Confidence            5442 1   5566 77777777766653

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

Probab=99.88  E-value=3.6e-22  Score=200.71  Aligned_cols=198  Identities=22%  Similarity=0.199  Sum_probs=166.4

Q ss_pred             eEEEcCCCcccCC-cCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFP-GEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~-~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...++++..++ ..+..+++|++|++++|.+..+....+.++++|+.|++++|. +..+|...|.++++|++|++++|
T Consensus        36 ~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n  114 (477)
T 2id5_A           36 LLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR-LKLIPLGVFTGLSNLTKLDISEN  114 (477)
T ss_dssp             EEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCTTSSTTCTTCCEEECTTS
T ss_pred             EEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCc-CCccCcccccCCCCCCEEECCCC
Confidence            4566777787775 578899999999999999998866667799999999999998 77888777789999999999999


Q ss_pred             CCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCc
Q 012249           98 DIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        98 ~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      .+..+ +..+..+++|++|++++|......+ .+..+++|++|++++|.++.+|. .+.++++|+.|++++|.+..++..
T Consensus       115 ~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~  194 (477)
T 2id5_A          115 KIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDY  194 (477)
T ss_dssp             CCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTT
T ss_pred             ccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChh
Confidence            99955 5678999999999999975444445 79999999999999999998875 488999999999999999888877


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .+.++++|+.|+++++....... ...... .+|+.|+++.+.+.
T Consensus       195 ~~~~l~~L~~L~l~~~~~~~~~~-~~~~~~-~~L~~L~l~~n~l~  237 (477)
T 2id5_A          195 SFKRLYRLKVLEISHWPYLDTMT-PNCLYG-LNLTSLSITHCNLT  237 (477)
T ss_dssp             CSCSCTTCCEEEEECCTTCCEEC-TTTTTT-CCCSEEEEESSCCC
T ss_pred             hcccCcccceeeCCCCccccccC-cccccC-ccccEEECcCCccc
Confidence            77999999999999986655544 233344 58999999888664

>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=99.88  E-value=9.7e-22  Score=199.80  Aligned_cols=143  Identities=20%  Similarity=0.258  Sum_probs=123.6

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcCC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLGW  119 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~~  119 (467)
                      ++++++++.++.+|..+.   ++|+.|++++|. +..+++..|..+++|++|++++|.+..+ |..++++++|++|++++
T Consensus         3 ~~l~ls~n~l~~ip~~~~---~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~   78 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS---QKTTILNISQNY-ISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSH   78 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC---TTCSEEECCSSC-CCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCS
T ss_pred             ceEecCCCCccccccccc---ccccEEECCCCc-ccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCC
Confidence            689999999999987654   899999999998 6666665679999999999999999976 77899999999999999


Q ss_pred             CCCCCcCCCccccCCccEEEccCCcCcc--ccccccCCCCCcEEeccCCCCCCcCCccccCCCCC--cEEEcccCCC
Q 012249          120 CRRLKRVPSLARLLALQYLDLYDTRIEE--VPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSL--YKLKLSFGNE  192 (467)
Q Consensus       120 ~~~~~~~p~l~~l~~L~~L~l~~~~~~~--lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L--~~L~l~~~~~  192 (467)
                      | .++.+|.. .+++|++|++++|.++.  +|..++++++|++|++++|.+....   +..+++|  +.|++++|..
T Consensus        79 N-~l~~lp~~-~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~~~---~~~l~~L~L~~L~l~~n~l  150 (520)
T 2z7x_B           79 N-KLVKISCH-PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSS---VLPIAHLNISKVLLVLGET  150 (520)
T ss_dssp             S-CCCEEECC-CCCCCSEEECCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCGGG---GGGGTTSCEEEEEEEECTT
T ss_pred             C-ceeecCcc-ccCCccEEeccCCccccccchhhhccCCcceEEEecCcccchhh---ccccccceeeEEEeecccc
Confidence            7 56678844 89999999999999886  5688999999999999999986622   4677778  9999998865

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

Probab=99.88  E-value=8.6e-22  Score=196.09  Aligned_cols=308  Identities=14%  Similarity=0.108  Sum_probs=212.0

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..+++.+..+| .+..+++|++|++++|.++.++   +..+++|+.|++++|. +..++   ++.+++|++|++++|.
T Consensus        46 ~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~~~---~~~l~~L~~L~Ls~N~-l~~~~---~~~l~~L~~L~L~~N~  117 (457)
T 3bz5_A           46 SLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSNK-LTNLD---VTPLTKLTYLNCDTNK  117 (457)
T ss_dssp             EEECCSSCCCCCT-TGGGCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSSC-CSCCC---CTTCTTCCEEECCSSC
T ss_pred             EEEccCCCcccCh-hhcccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCCC-Cceee---cCCCCcCCEEECCCCc
Confidence            4566677888887 6889999999999999999875   4589999999999998 55555   5899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCC-cCccccccccCCCCCcEEeccCCCCCCcCCcccc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILP  177 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~-~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~  177 (467)
                      +..++  ++.+++|++|++++|. ++.++ ++.+++|++|++++| .+..+  .++.+++|++|++++|.+..+|   ++
T Consensus       118 l~~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          118 LTKLD--VSQNPLLTYLNCARNT-LTEID-VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTLDCSFNKITELD---VS  188 (457)
T ss_dssp             CSCCC--CTTCTTCCEEECTTSC-CSCCC-CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEEECCSSCCCCCC---CT
T ss_pred             CCeec--CCCCCcCCEEECCCCc-cceec-cccCCcCCEEECCCCCccccc--ccccCCcCCEEECCCCccceec---cc
Confidence            99886  8999999999999974 55454 788999999999999 56566  4788999999999999998887   48


Q ss_pred             CCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccc
Q 012249          178 RLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDK  257 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~  257 (467)
                      .+++|+.|++++|.....    .++.+ ++|+.|+++.+.+...+                                +..
T Consensus       189 ~l~~L~~L~l~~N~l~~~----~l~~l-~~L~~L~Ls~N~l~~ip--------------------------------~~~  231 (457)
T 3bz5_A          189 QNKLLNRLNCDTNNITKL----DLNQN-IQLTFLDCSSNKLTEID--------------------------------VTP  231 (457)
T ss_dssp             TCTTCCEEECCSSCCSCC----CCTTC-TTCSEEECCSSCCSCCC--------------------------------CTT
T ss_pred             cCCCCCEEECcCCcCCee----ccccC-CCCCEEECcCCcccccC--------------------------------ccc
Confidence            999999999999976554    37778 99999999988764321                                122


Q ss_pred             eeeeecCccccchhhhhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchHHhhh
Q 012249          258 SVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQ  337 (467)
Q Consensus       258 ~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~  337 (467)
                      +.+|+.++++++......+..+..|....+                    .... |+.|++++|.....++    ...++
T Consensus       232 l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l--------------------~~n~-L~~L~l~~n~~~~~~~----~~~l~  286 (457)
T 3bz5_A          232 LTQLTYFDCSVNPLTELDVSTLSKLTTLHC--------------------IQTD-LLEIDLTHNTQLIYFQ----AEGCR  286 (457)
T ss_dssp             CTTCSEEECCSSCCSCCCCTTCTTCCEEEC--------------------TTCC-CSCCCCTTCTTCCEEE----CTTCT
T ss_pred             cCCCCEEEeeCCcCCCcCHHHCCCCCEEec--------------------cCCC-CCEEECCCCccCCccc----ccccc
Confidence            234555555555432221222222211110                    0123 6777777766555442    24567


Q ss_pred             ccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCcc
Q 012249          338 NLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLK  417 (467)
Q Consensus       338 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~  417 (467)
                      +|+.|++++|..+..++....     .+..-.   ....++|+.|++.++. ++.++  .  ..+++|+.|++.++ +++
T Consensus       287 ~L~~L~Ls~n~~l~~l~~~~~-----~L~~L~---l~~~~~L~~L~L~~N~-l~~l~--l--~~l~~L~~L~l~~N-~l~  352 (457)
T 3bz5_A          287 KIKELDVTHNTQLYLLDCQAA-----GITELD---LSQNPKLVYLYLNNTE-LTELD--V--SHNTKLKSLSCVNA-HIQ  352 (457)
T ss_dssp             TCCCCCCTTCTTCCEEECTTC-----CCSCCC---CTTCTTCCEEECTTCC-CSCCC--C--TTCTTCSEEECCSS-CCC
T ss_pred             cCCEEECCCCcccceeccCCC-----cceEec---hhhcccCCEEECCCCc-ccccc--c--ccCCcCcEEECCCC-CCC
Confidence            788888888776655532110     000001   1245566666665532 33332  1  34777888877764 344


Q ss_pred             cc
Q 012249          418 RL  419 (467)
Q Consensus       418 ~l  419 (467)
                      ++
T Consensus       353 ~l  354 (457)
T 3bz5_A          353 DF  354 (457)
T ss_dssp             BC
T ss_pred             Cc
Confidence            43

>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=99.88  E-value=1.1e-21  Score=202.52  Aligned_cols=174  Identities=17%  Similarity=0.252  Sum_probs=143.7

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRS  114 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~  114 (467)
                      .+++++.++++++.+..+|..++..+++|+.|++++|. +..+++..|..+++|++|++++|.+..++ ..++.+++|++
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  127 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTV  127 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCC-CCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCE
Confidence            45788999999999999998888789999999999998 66666555689999999999999999775 45689999999


Q ss_pred             EEcCCCCCCCcCC-C-ccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          115 LSLGWCRRLKRVP-S-LARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       115 L~l~~~~~~~~~p-~-l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      |++++| .+..+| . ++.+++|++|++++|.++.++. .++.+++|++|++++|.+..++   ++.+++|+.|++++|.
T Consensus       128 L~L~~n-~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~---~~~l~~L~~L~l~~n~  203 (597)
T 3oja_B          128 LVLERN-DLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVD---LSLIPSLFHANVSYNL  203 (597)
T ss_dssp             EECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCC---GGGCTTCSEEECCSSC
T ss_pred             EEeeCC-CCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcC---hhhhhhhhhhhcccCc
Confidence            999997 566666 3 6899999999999999887654 5899999999999999998876   3678899999999885


Q ss_pred             CcccccHHHHHhhhccCcEEEcccCCccch
Q 012249          192 EALRETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       192 ~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                      ....      ... ..|+.|+++.+.+...
T Consensus       204 l~~l------~~~-~~L~~L~ls~n~l~~~  226 (597)
T 3oja_B          204 LSTL------AIP-IAVEELDASHNSINVV  226 (597)
T ss_dssp             CSEE------ECC-TTCSEEECCSSCCCEE
T ss_pred             cccc------cCC-chhheeeccCCccccc
Confidence            5432      233 6788889888876443

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

Probab=99.86  E-value=7.6e-21  Score=203.91  Aligned_cols=371  Identities=15%  Similarity=0.092  Sum_probs=220.2

Q ss_pred             cccC-CcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCch-hHhhcCCCCcEEEccCCCCCCc--
Q 012249           27 LLEF-PGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE-CFFVHMHGLKVVNLSSTDIEVL--  102 (467)
Q Consensus        27 l~~~-~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~l--  102 (467)
                      ...+ |..+..+++|++|++++|.+..+....+.++++|+.|++++|.+...++. ..++++++|++|++++|.+..+  
T Consensus        61 ~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~  140 (844)
T 3j0a_A           61 PLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYL  140 (844)
T ss_dssp             CCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCC
T ss_pred             ccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCccccccc
Confidence            3445 66788889999999999988877666666899999999999985554443 3457889999999999988754  


Q ss_pred             hhhhhcCcCCCEEEcCCCCCCCcCC-Ccccc--CC------------------------------ccEEEccCCcCc-cc
Q 012249          103 PSSVSDLTNLRSLSLGWCRRLKRVP-SLARL--LA------------------------------LQYLDLYDTRIE-EV  148 (467)
Q Consensus       103 ~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l--~~------------------------------L~~L~l~~~~~~-~l  148 (467)
                      +..++++++|++|++++|......+ .+..+  ++                              |++|++++|.++ ..
T Consensus       141 ~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~  220 (844)
T 3j0a_A          141 HPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDI  220 (844)
T ss_dssp             CGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTT
T ss_pred             chhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhH
Confidence            3568889999999998875433333 23322  22                              666666666433 11


Q ss_pred             cccc------------------------------------cC--CCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccC
Q 012249          149 PEGM------------------------------------EM--LENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       149 p~~~------------------------------------~~--l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      +..+                                    ..  .++|+.|++++|.+..++...+..+++|+.|++++|
T Consensus       221 ~~~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n  300 (844)
T 3j0a_A          221 TGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYN  300 (844)
T ss_dssp             TSGGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSCCCCCEEEEESC
T ss_pred             HHHHHhhcCcccccceecccccccccccccccCCCChhhhhccccCCccEEECCCCcccccChhhhhcCCCCCEEECCCC
Confidence            1111                                    11  256788888888777766665678888888888888


Q ss_pred             CCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccch
Q 012249          191 NEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIK  270 (467)
Q Consensus       191 ~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~  270 (467)
                      ......+ ..+..+ ++|+.|+++.|.+....     ...+..+..++.+...+..-....+..+..+.+|+.|+++++.
T Consensus       301 ~i~~~~~-~~~~~l-~~L~~L~Ls~N~l~~~~-----~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          301 KINKIAD-EAFYGL-DNLQVLNLSYNLLGELY-----SSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             CCCEECT-TTTTTC-SSCCEEEEESCCCSCCC-----SCSCSSCTTCCEEECCSCCCCCCCSSCSCSCCCCCEEEEETCC
T ss_pred             cCCCCCh-HHhcCC-CCCCEEECCCCCCCccC-----HHHhcCCCCCCEEECCCCCCCccChhhhcCCCCCCEEECCCCC
Confidence            6654433 467778 88888888887664321     1223333334333222221111223345667788888887766


Q ss_pred             hh-hhhhcccceeeeeecccccccccccc-c-----cc-c------cccccCccccccEEEEecCCCCccccccchHHhh
Q 012249          271 ET-IVLLKDVQCLQMFEVDEVTSLNDVLP-R-----EL-G------LVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPAL  336 (467)
Q Consensus       271 ~~-~~~~~~l~~L~~~~~~~l~~l~~~~~-~-----~~-~------~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l  336 (467)
                      .. ....+.++.|.+.++.- +.+..... +     .. .      ......++. |+.|+++++. ++...+...+..+
T Consensus       374 l~~i~~~~~L~~L~l~~N~l-~~l~~~~~~l~~L~ls~N~l~~l~~~~~~~~l~~-L~~L~Ls~N~-l~~~~~~~~~~~~  450 (844)
T 3j0a_A          374 LTTIHFIPSIPDIFLSGNKL-VTLPKINLTANLIHLSENRLENLDILYFLLRVPH-LQILILNQNR-FSSCSGDQTPSEN  450 (844)
T ss_dssp             SCCCSSCCSCSEEEEESCCC-CCCCCCCTTCCEEECCSCCCCSSTTHHHHTTCTT-CCEEEEESCC-CCCCCSSSSSCSC
T ss_pred             CCcccCCCCcchhccCCCCc-ccccccccccceeecccCccccCchhhhhhcCCc-cceeeCCCCc-ccccccccccccC
Confidence            32 12234566666654432 11111000 0     00 0      001225677 9999999854 4433332233457


Q ss_pred             hccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCc
Q 012249          337 QNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKL  416 (467)
Q Consensus       337 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L  416 (467)
                      ++|+.|+++++ .+........       ....+   ..+++|+.|+++++ .++.++.... ..+++|++|++.++ ++
T Consensus       451 ~~L~~L~Ls~N-~l~~~~~~~~-------~~~~~---~~l~~L~~L~Ls~N-~l~~~~~~~~-~~l~~L~~L~Ls~N-~l  516 (844)
T 3j0a_A          451 PSLEQLFLGEN-MLQLAWETEL-------CWDVF---EGLSHLQVLYLNHN-YLNSLPPGVF-SHLTALRGLSLNSN-RL  516 (844)
T ss_dssp             TTCCBCEEESC-CCSSSCCSCC-------CSSCS---SCBCCEECCCCCHH-HHTTCCTTSS-SSCCSCSEEEEESC-CC
T ss_pred             CccccccCCCC-cccccccccc-------chhhh---cCcccccEEECCCC-cccccChhHc-cchhhhheeECCCC-CC
Confidence            78888888874 3432211110       00111   26677777777776 3444443321 34677778887776 56


Q ss_pred             cccCC
Q 012249          417 KRLSL  421 (467)
Q Consensus       417 ~~lp~  421 (467)
                      +.+|.
T Consensus       517 ~~l~~  521 (844)
T 3j0a_A          517 TVLSH  521 (844)
T ss_dssp             SSCCC
T ss_pred             CccCh
Confidence            66654

>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=99.86  E-value=2e-20  Score=186.79  Aligned_cols=346  Identities=17%  Similarity=0.170  Sum_probs=234.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-Cc-hhhhhcCcCCCEEEcC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VL-PSSVSDLTNLRSLSLG  118 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l-~~~~~~l~~L~~L~l~  118 (467)
                      +.++..++.++.+|. +   .++|+.|++++|. +..+++..+.++++|++|++++|.+. .+ +..+..+++|++|+++
T Consensus        13 ~~~~c~~~~l~~lp~-l---~~~l~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls   87 (455)
T 3v47_A           13 YNAICINRGLHQVPE-L---PAHVNYVDLSLNS-IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLD   87 (455)
T ss_dssp             TEEECCSSCCSSCCC-C---CTTCCEEECCSSC-CCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECT
T ss_pred             cccCcCCCCcccCCC-C---CCccCEEEecCCc-cCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCC
Confidence            457777778888876 2   3789999999998 55554445689999999999999886 45 5678999999999999


Q ss_pred             CCCCCCcCC-CccccCCccEEEccCCcCcc-cccc--ccCCCCCcEEeccCCCCCCc-CCccccCCCCCcEEEcccCCCc
Q 012249          119 WCRRLKRVP-SLARLLALQYLDLYDTRIEE-VPEG--MEMLENLSHLYLSSLQLKKF-PAGILPRLRSLYKLKLSFGNEA  193 (467)
Q Consensus       119 ~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~-lp~~--~~~l~~L~~L~l~~~~~~~~-~~~~l~~l~~L~~L~l~~~~~~  193 (467)
                      +|......| .++++++|++|++++|.++. +|..  +..+++|++|++++|.+..+ |..+++++++|++|++++|...
T Consensus        88 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~  167 (455)
T 3v47_A           88 YNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVK  167 (455)
T ss_dssp             TCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBS
T ss_pred             CCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCccc
Confidence            986555556 79999999999999999885 4444  88999999999999999877 4444689999999999999665


Q ss_pred             ccccHHHHHhh-hccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhh
Q 012249          194 LRETVEEAARL-SDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKET  272 (467)
Q Consensus       194 ~~~~~~~l~~l-~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~  272 (467)
                      .... ..+..+ ..+|+.|+++.+..........      ...               ....+....+|+.++++++...
T Consensus       168 ~~~~-~~l~~l~~~~L~~L~l~~n~l~~~~~~~~------~~~---------------~~~~~~~~~~L~~L~Ls~n~l~  225 (455)
T 3v47_A          168 SICE-EDLLNFQGKHFTLLRLSSITLQDMNEYWL------GWE---------------KCGNPFKNTSITTLDLSGNGFK  225 (455)
T ss_dssp             CCCT-TTSGGGTTCEEEEEECTTCBCTTCSTTCT------THH---------------HHCCTTTTCEEEEEECTTSCCC
T ss_pred             ccCh-hhhhccccccccccccccCcccccchhhc------ccc---------------ccccccccceeeeEecCCCccc
Confidence            4432 334433 1578888888776543211000      000               0011234457889999888643


Q ss_pred             hhhh---------cccceeeeeecccccccccc---cccccccccccCccccccEEEEecCCCCccccccchHHhhhccc
Q 012249          273 IVLL---------KDVQCLQMFEVDEVTSLNDV---LPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLK  340 (467)
Q Consensus       273 ~~~~---------~~l~~L~~~~~~~l~~l~~~---~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~  340 (467)
                      ...+         ..++.|.+.++.........   .............+. |++|+++++.. +.. ....+..+++|+
T Consensus       226 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-L~~L~l~~n~l-~~~-~~~~~~~l~~L~  302 (455)
T 3v47_A          226 ESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASG-VKTCDLSKSKI-FAL-LKSVFSHFTDLE  302 (455)
T ss_dssp             HHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSC-CCEEECCSSCC-CEE-CTTTTTTCTTCC
T ss_pred             ccchhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccC-ceEEEecCccc-ccc-chhhcccCCCCC
Confidence            3222         45666666555332211100   000000111112345 99999999654 443 223467899999


Q ss_pred             eeeeCCccchhhhhcccCchhhhhhccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCcccc-
Q 012249          341 VLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRL-  419 (467)
Q Consensus       341 ~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~l-  419 (467)
                      .|++++| .+..+....            +   ..+++|++|++.++. ++.+.... ...+++|++|++.+| +++.+ 
T Consensus       303 ~L~Ls~n-~l~~~~~~~------------~---~~l~~L~~L~Ls~N~-l~~~~~~~-~~~l~~L~~L~Ls~N-~l~~~~  363 (455)
T 3v47_A          303 QLTLAQN-EINKIDDNA------------F---WGLTHLLKLNLSQNF-LGSIDSRM-FENLDKLEVLDLSYN-HIRALG  363 (455)
T ss_dssp             EEECTTS-CCCEECTTT------------T---TTCTTCCEEECCSSC-CCEECGGG-GTTCTTCCEEECCSS-CCCEEC
T ss_pred             EEECCCC-cccccChhH------------h---cCcccCCEEECCCCc-cCCcChhH-hcCcccCCEEECCCC-cccccC
Confidence            9999986 454442211            1   278999999999975 44443221 145899999999999 56665 


Q ss_pred             CCccCcccCCCCCCCCcceeeeeh
Q 012249          420 SLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       420 p~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      |..+..+.        +|+.+++.
T Consensus       364 ~~~~~~l~--------~L~~L~L~  379 (455)
T 3v47_A          364 DQSFLGLP--------NLKELALD  379 (455)
T ss_dssp             TTTTTTCT--------TCCEEECC
T ss_pred             hhhccccc--------cccEEECC
Confidence            66665554        88888887

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

Probab=99.86  E-value=2.6e-21  Score=184.34  Aligned_cols=176  Identities=23%  Similarity=0.295  Sum_probs=155.3

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS  116 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~  116 (467)
                      .++++.|+++++.+..+|..+. ++++|+.|++++|. +..+|..+ +.+++|++|++++|.+..+|..++.+++|++|+
T Consensus        80 ~~~l~~L~L~~n~l~~lp~~l~-~l~~L~~L~L~~n~-l~~lp~~~-~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~  156 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQAF-RLSHLQHMTIDAAG-LMELPDTM-QQFAGLETLTLARNPLRALPASIASLNRLRELS  156 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGG-GGTTCSEEEEESSC-CCCCCSCG-GGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEE
T ss_pred             ccceeEEEccCCCchhcChhhh-hCCCCCEEECCCCC-ccchhHHH-hccCCCCEEECCCCccccCcHHHhcCcCCCEEE
Confidence            3689999999999999998876 69999999999998 44788765 899999999999999999999999999999999


Q ss_pred             cCCCCCCCcCC-Cccc---------cCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEE
Q 012249          117 LGWCRRLKRVP-SLAR---------LLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLK  186 (467)
Q Consensus       117 l~~~~~~~~~p-~l~~---------l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  186 (467)
                      +++|...+.+| .++.         +++|++|++++|.++.+|..++++++|++|++++|.+..+|..+ +++++|++|+
T Consensus       157 L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l-~~l~~L~~L~  235 (328)
T 4fcg_A          157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAI-HHLPKLEELD  235 (328)
T ss_dssp             EEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGG-GGCTTCCEEE
T ss_pred             CCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhh-ccCCCCCEEE
Confidence            99988888888 4544         99999999999999999999999999999999999999888875 8999999999


Q ss_pred             cccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          187 LSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       187 l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +++|...+..+ ..++.+ ++|+.|++++|..
T Consensus       236 Ls~n~~~~~~p-~~~~~l-~~L~~L~L~~n~~  265 (328)
T 4fcg_A          236 LRGCTALRNYP-PIFGGR-APLKRLILKDCSN  265 (328)
T ss_dssp             CTTCTTCCBCC-CCTTCC-CCCCEEECTTCTT
T ss_pred             CcCCcchhhhH-HHhcCC-CCCCEEECCCCCc
Confidence            99987766554 467888 9999999988764

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.85  E-value=9.9e-21  Score=194.14  Aligned_cols=147  Identities=20%  Similarity=0.255  Sum_probs=122.9

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSL  115 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L  115 (467)
                      +...++++++++.++.+|..+.   ++++.|++++|. +..++...|.++++|++|++++|.+..+ |..+..+++|++|
T Consensus        30 ~~~~~~l~ls~~~L~~ip~~~~---~~L~~L~Ls~N~-i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L  105 (562)
T 3a79_B           30 NELESMVDYSNRNLTHVPKDLP---PRTKALSLSQNS-ISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYL  105 (562)
T ss_dssp             ---CCEEECTTSCCCSCCTTSC---TTCCEEECCSSC-CCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEE
T ss_pred             cCCCcEEEcCCCCCccCCCCCC---CCcCEEECCCCC-ccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEE
Confidence            3455899999999999987653   899999999998 6667765679999999999999999976 6778999999999


Q ss_pred             EcCCCCCCCcCCCccccCCccEEEccCCcCcccc--ccccCCCCCcEEeccCCCCCCcCCccccCCCCC--cEEEcccCC
Q 012249          116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKKFPAGILPRLRSL--YKLKLSFGN  191 (467)
Q Consensus       116 ~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp--~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L--~~L~l~~~~  191 (467)
                      ++++| .+..+|.. .+++|++|++++|.++.++  ..++++++|++|++++|.+....   +..+++|  +.|++++|.
T Consensus       106 ~Ls~N-~l~~lp~~-~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~~---~~~l~~L~L~~L~L~~n~  180 (562)
T 3a79_B          106 DVSHN-RLQNISCC-PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLD---LLPVAHLHLSCILLDLVS  180 (562)
T ss_dssp             ECTTS-CCCEECSC-CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTTT---TGGGTTSCEEEEEEEESS
T ss_pred             ECCCC-cCCccCcc-ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCccccCc---hhhhhhceeeEEEeeccc
Confidence            99997 46678844 8999999999999999765  68999999999999999986533   2455555  999999886


Q ss_pred             C
Q 012249          192 E  192 (467)
Q Consensus       192 ~  192 (467)
                      .
T Consensus       181 l  181 (562)
T 3a79_B          181 Y  181 (562)
T ss_dssp             C
T ss_pred             c
Confidence            5

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

Probab=99.84  E-value=4.6e-20  Score=176.28  Aligned_cols=306  Identities=17%  Similarity=0.195  Sum_probs=190.2

Q ss_pred             CCcccCCcCccCC------CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           25 LRLLEFPGEQEWE------ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        25 ~~l~~~~~~~~~l------~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      ..+.++|..+...      .+++.++++++.++.+|..+   .++++.|++++|. +..++...+.++++|++|++++|.
T Consensus        14 ~~l~~lp~~~~~~cp~~c~c~l~~l~~~~~~l~~ip~~~---~~~l~~L~l~~n~-i~~~~~~~~~~l~~L~~L~L~~n~   89 (332)
T 2ft3_A           14 PDLDSLPPTYSAMCPFGCHCHLRVVQCSDLGLKAVPKEI---SPDTTLLDLQNND-ISELRKDDFKGLQHLYALVLVNNK   89 (332)
T ss_dssp             -----------CCCCSSCEEETTEEECCSSCCSSCCSCC---CTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CccccCCCcccCCCCCCCcccCCEEECCCCCccccCCCC---CCCCeEEECCCCc-CCccCHhHhhCCCCCcEEECCCCc
Confidence            3445666544322      36899999999999888765   3789999999998 666665556899999999999999


Q ss_pred             CCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCC--cCC
Q 012249           99 IEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKK--FPA  173 (467)
Q Consensus        99 ~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~--~~~  173 (467)
                      +..+ |..+..+++|++|++++| .+..+| .+.  ++|++|++++|.++.+|.. +.++++|++|++++|.+..  +..
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  166 (332)
T 2ft3_A           90 ISKIHEKAFSPLRKLQKLYISKN-HLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEP  166 (332)
T ss_dssp             CCEECGGGSTTCTTCCEEECCSS-CCCSCCSSCC--TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCT
T ss_pred             cCccCHhHhhCcCCCCEEECCCC-cCCccCcccc--ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCc
Confidence            9966 778899999999999996 566777 444  7899999999999988764 8899999999999998853  444


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHL  253 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~  253 (467)
                      ..+..+ +|+.|++++|.......    .-. ++|+.|+++.+.+....                             +.
T Consensus       167 ~~~~~l-~L~~L~l~~n~l~~l~~----~~~-~~L~~L~l~~n~i~~~~-----------------------------~~  211 (332)
T 2ft3_A          167 GAFDGL-KLNYLRISEAKLTGIPK----DLP-ETLNELHLDHNKIQAIE-----------------------------LE  211 (332)
T ss_dssp             TSSCSC-CCSCCBCCSSBCSSCCS----SSC-SSCSCCBCCSSCCCCCC-----------------------------TT
T ss_pred             ccccCC-ccCEEECcCCCCCccCc----ccc-CCCCEEECCCCcCCccC-----------------------------HH
Confidence            444666 89999999886544221    112 67888888877653211                             01


Q ss_pred             cccceeeeecCccccchhhhhhhcccceeeeeecccccccccccccccccccccCccccccEEEEecCCCCccccccchH
Q 012249          254 EVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLL  333 (467)
Q Consensus       254 ~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~  333 (467)
                      .+..+.+|+.|++.++......+..                           ...++. |++|+++++ .++.++.  .+
T Consensus       212 ~l~~l~~L~~L~L~~N~l~~~~~~~---------------------------~~~l~~-L~~L~L~~N-~l~~lp~--~l  260 (332)
T 2ft3_A          212 DLLRYSKLYRLGLGHNQIRMIENGS---------------------------LSFLPT-LRELHLDNN-KLSRVPA--GL  260 (332)
T ss_dssp             SSTTCTTCSCCBCCSSCCCCCCTTG---------------------------GGGCTT-CCEEECCSS-CCCBCCT--TG
T ss_pred             HhcCCCCCCEEECCCCcCCcCChhH---------------------------hhCCCC-CCEEECCCC-cCeecCh--hh
Confidence            1333445666666655322111111                           123466 888888885 3445432  25


Q ss_pred             HhhhccceeeeCCccchhhhhcccCchhhhhhcccccccccccccccccccccccccc-ccccCCCccccCCcceEEEeC
Q 012249          334 PALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFK-SFCSYNGVLVCNSLQEIEVRR  412 (467)
Q Consensus       334 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~~~~L~~L~i~~  412 (467)
                      ..+++|+.|+++++ .+..+.......         ......+++|+.|.+.+++-.. .+.... ...+++|+.|.+.+
T Consensus       261 ~~l~~L~~L~l~~N-~l~~~~~~~~~~---------~~~~~~~~~l~~L~l~~N~~~~~~~~~~~-~~~l~~L~~l~l~~  329 (332)
T 2ft3_A          261 PDLKLLQVVYLHTN-NITKVGVNDFCP---------VGFGVKRAYYNGISLFNNPVPYWEVQPAT-FRCVTDRLAIQFGN  329 (332)
T ss_dssp             GGCTTCCEEECCSS-CCCBCCTTSSSC---------SSCCSSSCCBSEEECCSSSSCGGGSCGGG-GTTBCCSTTEEC--
T ss_pred             hcCccCCEEECCCC-CCCccChhHccc---------cccccccccccceEeecCcccccccCccc-ccccchhhhhhccc
Confidence            67788888888874 455442221100         0000125667777777665321 111111 13456666666665


Q ss_pred             CC
Q 012249          413 CP  414 (467)
Q Consensus       413 C~  414 (467)
                      +.
T Consensus       330 n~  331 (332)
T 2ft3_A          330 YK  331 (332)
T ss_dssp             --
T ss_pred             cc
Confidence            53

>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=99.84  E-value=3.4e-20  Score=178.81  Aligned_cols=196  Identities=20%  Similarity=0.216  Sum_probs=162.3

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      +...+++++..+|..+.  +++++|++++|.++.++...+.++++|+.|++++|. +..++...|.++++|++|++++|.
T Consensus        35 ~c~~~~~~l~~iP~~~~--~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~  111 (353)
T 2z80_A           35 ICKGSSGSLNSIPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG-INTIEEDSFSSLGSLEHLDLSYNY  111 (353)
T ss_dssp             EEECCSTTCSSCCTTCC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EeeCCCCCccccccccc--ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCc-cCccCHhhcCCCCCCCEEECCCCc
Confidence            45667788899998665  489999999999998888667799999999999997 566665556899999999999999


Q ss_pred             CCCchhh-hhcCcCCCEEEcCCCCCCCcCC---CccccCCccEEEccCC-cCcccc-ccccCCCCCcEEeccCCCCCCcC
Q 012249           99 IEVLPSS-VSDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLYDT-RIEEVP-EGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        99 ~~~l~~~-~~~l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~L~l~~~-~~~~lp-~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      +..++.. +..+++|++|++++| .+..+|   .+..+++|++|++++| .++.++ ..++++++|++|++++|.+..++
T Consensus       112 l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~  190 (353)
T 2z80_A          112 LSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYE  190 (353)
T ss_dssp             CSSCCHHHHTTCTTCSEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEEC
T ss_pred             CCcCCHhHhCCCccCCEEECCCC-CCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccC
Confidence            9988765 789999999999997 455665   3889999999999999 677774 56899999999999999998775


Q ss_pred             CccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          173 AGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      ...++++++|++|++++|.... .+...+..+ ++|+.|+++++.+..
T Consensus       191 ~~~l~~l~~L~~L~l~~n~l~~-~~~~~~~~~-~~L~~L~L~~n~l~~  236 (353)
T 2z80_A          191 PKSLKSIQNVSHLILHMKQHIL-LLEIFVDVT-SSVECLELRDTDLDT  236 (353)
T ss_dssp             TTTTTTCSEEEEEEEECSCSTT-HHHHHHHHT-TTEEEEEEESCBCTT
T ss_pred             HHHHhccccCCeecCCCCcccc-chhhhhhhc-ccccEEECCCCcccc
Confidence            5556899999999999987633 332345667 999999999887643

>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=1.9e-19  Score=179.09  Aligned_cols=178  Identities=23%  Similarity=0.287  Sum_probs=140.1

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ..+..++.++..+|..   .+++++|++++|.++.+|.    .+++|+.|++++|. +..++.    -.++|++|++++|
T Consensus        74 ~~L~l~~~~l~~lp~~---~~~L~~L~l~~n~l~~lp~----~~~~L~~L~l~~n~-l~~l~~----~~~~L~~L~L~~n  141 (454)
T 1jl5_A           74 HELELNNLGLSSLPEL---PPHLESLVASCNSLTELPE----LPQSLKSLLVDNNN-LKALSD----LPPLLEYLGVSNN  141 (454)
T ss_dssp             SEEECTTSCCSCCCSC---CTTCSEEECCSSCCSSCCC----CCTTCCEEECCSSC-CSCCCS----CCTTCCEEECCSS
T ss_pred             CEEEecCCccccCCCC---cCCCCEEEccCCcCCcccc----ccCCCcEEECCCCc-cCcccC----CCCCCCEEECcCC
Confidence            3567777888888763   4689999999999988774    34789999999987 444543    1268999999999


Q ss_pred             CCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcccc
Q 012249           98 DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILP  177 (467)
Q Consensus        98 ~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~  177 (467)
                      .+..+| .++.+++|++|++++| .+..+|..  ..+|++|++++|.++.+| .++++++|++|++++|.+..+|..   
T Consensus       142 ~l~~lp-~~~~l~~L~~L~l~~N-~l~~lp~~--~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~~---  213 (454)
T 1jl5_A          142 QLEKLP-ELQNSSFLKIIDVDNN-SLKKLPDL--PPSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPDL---  213 (454)
T ss_dssp             CCSSCC-CCTTCTTCCEEECCSS-CCSCCCCC--CTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCCC---
T ss_pred             CCCCCc-ccCCCCCCCEEECCCC-cCcccCCC--cccccEEECcCCcCCcCc-cccCCCCCCEEECCCCcCCcCCCC---
Confidence            999888 5899999999999997 45566632  248999999999988887 688999999999999998877753   


Q ss_pred             CCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          178 RLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                       ..+|+.|++++|.... .+  .++.+ ++|+.|+++.+.+..
T Consensus       214 -~~~L~~L~l~~n~l~~-lp--~~~~l-~~L~~L~l~~N~l~~  251 (454)
T 1jl5_A          214 -PLSLESIVAGNNILEE-LP--ELQNL-PFLTTIYADNNLLKT  251 (454)
T ss_dssp             -CTTCCEEECCSSCCSS-CC--CCTTC-TTCCEEECCSSCCSS
T ss_pred             -cCcccEEECcCCcCCc-cc--ccCCC-CCCCEEECCCCcCCc
Confidence             2589999999886653 22  37788 899999998887654

>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=99.84  E-value=1.3e-19  Score=188.44  Aligned_cols=154  Identities=23%  Similarity=0.254  Sum_probs=132.2

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      ....+.++.++|..+.  +++++|++++|.++.++...|.++++|++|++++|. +..+++..|.++++|++|++++|.+
T Consensus        36 ~~c~~~~l~~vP~~lp--~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~-i~~i~~~~f~~L~~L~~L~Ls~N~l  112 (635)
T 4g8a_A           36 YQCMELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGNPI  112 (635)
T ss_dssp             EECTTSCCSSCCSSSC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             EECCCCCcCccCCCCC--cCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCc-CCCcChhHhcCCCCCCEEEccCCcC
Confidence            3455678899998663  489999999999999998888899999999999997 7788887789999999999999999


Q ss_pred             CCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcc--ccccccCCCCCcEEeccCCCCCCcCCc
Q 012249          100 EVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE--VPEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus       100 ~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~--lp~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      ..+|. .+.++++|++|++++| .+..+|  .++++++|++|++++|.++.  +|..++.+++|++|++++|.+..++..
T Consensus       113 ~~l~~~~f~~L~~L~~L~Ls~N-~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~  191 (635)
T 4g8a_A          113 QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT  191 (635)
T ss_dssp             CEECGGGGTTCTTCCEEECTTS-CCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGG
T ss_pred             CCCCHHHhcCCCCCCEEECCCC-cCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccccc
Confidence            98874 5789999999999997 566666  58999999999999998874  567789999999999999998777654


Q ss_pred             ccc
Q 012249          175 ILP  177 (467)
Q Consensus       175 ~l~  177 (467)
                      .+.
T Consensus       192 ~l~  194 (635)
T 4g8a_A          192 DLR  194 (635)
T ss_dssp             GGH
T ss_pred             ccc
Confidence            333

>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=99.83  E-value=4.3e-19  Score=176.47  Aligned_cols=156  Identities=18%  Similarity=0.221  Sum_probs=106.6

Q ss_pred             ccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCC
Q 012249           40 LERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGW  119 (467)
Q Consensus        40 l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~  119 (467)
                      +++++++++.++.+|..    .++|+.|++++|. ...+|.    ..++|++|++++|.+..++..   .++|++|++++
T Consensus        73 l~~L~l~~~~l~~lp~~----~~~L~~L~l~~n~-l~~lp~----~~~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~  140 (454)
T 1jl5_A           73 AHELELNNLGLSSLPEL----PPHLESLVASCNS-LTELPE----LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVSN  140 (454)
T ss_dssp             CSEEECTTSCCSCCCSC----CTTCSEEECCSSC-CSSCCC----CCTTCCEEECCSSCCSCCCSC---CTTCCEEECCS
T ss_pred             CCEEEecCCccccCCCC----cCCCCEEEccCCc-CCcccc----ccCCCcEEECCCCccCcccCC---CCCCCEEECcC
Confidence            37788887777776652    3678888888776 444653    346788888888877765532   25788888887


Q ss_pred             CCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHH
Q 012249          120 CRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVE  199 (467)
Q Consensus       120 ~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  199 (467)
                      | .+..+|+++.+++|++|++++|.++.+|..+   .+|++|++++|.+..+|.  ++++++|+.|++++|.......  
T Consensus       141 n-~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~L~~n~l~~l~~--~~~l~~L~~L~l~~N~l~~l~~--  212 (454)
T 1jl5_A          141 N-QLEKLPELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNNQLEELPE--LQNLPFLTAIYADNNSLKKLPD--  212 (454)
T ss_dssp             S-CCSSCCCCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSSCCSSCCC--CTTCTTCCEEECCSSCCSSCCC--
T ss_pred             C-CCCCCcccCCCCCCCEEECCCCcCcccCCCc---ccccEEECcCCcCCcCcc--ccCCCCCCEEECCCCcCCcCCC--
Confidence            6 4455677777888888888888777776543   477888888887777763  4778888888888775543211  


Q ss_pred             HHHhhhccCcEEEcccCCcc
Q 012249          200 EAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       200 ~l~~l~~~L~~L~l~~~~~~  219 (467)
                         .. .+|+.|+++.+...
T Consensus       213 ---~~-~~L~~L~l~~n~l~  228 (454)
T 1jl5_A          213 ---LP-LSLESIVAGNNILE  228 (454)
T ss_dssp             ---CC-TTCCEEECCSSCCS
T ss_pred             ---Cc-CcccEEECcCCcCC
Confidence               12 57777888777654

>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=99.83  E-value=1.9e-19  Score=171.90  Aligned_cols=190  Identities=19%  Similarity=0.261  Sum_probs=152.3

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+..+..+|..+.  ++++.|++++|.++.++...+.++++|+.|++++|. +..+++..+..+++|++|++++|.+
T Consensus        36 l~~~~~~l~~lp~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l  112 (330)
T 1xku_A           36 VQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK-ISKISPGAFAPLVKLERLYLSKNQL  112 (330)
T ss_dssp             EECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEecCCCccccCccCC--CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCc-CCeeCHHHhcCCCCCCEEECCCCcC
Confidence            4556667788887554  589999999999998887667789999999999998 5555444458999999999999999


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCc---cccccccCCCCCcEEeccCCCCCCcCCc
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIE---EVPEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~---~lp~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      ..+|..+.  ++|++|++++|. +..++  .+..+++|++|++++|.++   ..+..+.++++|++|++++|.+..+|..
T Consensus       113 ~~l~~~~~--~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~  189 (330)
T 1xku_A          113 KELPEKMP--KTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQG  189 (330)
T ss_dssp             SBCCSSCC--TTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSS
T ss_pred             CccChhhc--ccccEEECCCCc-ccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCcc
Confidence            98876554  789999999974 55555  5889999999999999876   3455688899999999999999888876


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      +   .++|++|++++|...... ...+..+ ++|+.|+++++.+..
T Consensus       190 ~---~~~L~~L~l~~n~l~~~~-~~~~~~l-~~L~~L~Ls~n~l~~  230 (330)
T 1xku_A          190 L---PPSLTELHLDGNKITKVD-AASLKGL-NNLAKLGLSFNSISA  230 (330)
T ss_dssp             C---CTTCSEEECTTSCCCEEC-TGGGTTC-TTCCEEECCSSCCCE
T ss_pred             c---cccCCEEECCCCcCCccC-HHHhcCC-CCCCEEECCCCcCce
Confidence            5   278999999998765443 3567888 999999998887643

>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=99.83  E-value=1.7e-19  Score=187.56  Aligned_cols=130  Identities=21%  Similarity=0.232  Sum_probs=113.5

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..+|+ .|..+++|++|++++|.++.++...|.++++|++|++++|. +..+|...|.++++|++|++++|
T Consensus        56 ~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~-l~~l~~~~f~~L~~L~~L~Ls~N  134 (635)
T 4g8a_A           56 NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVAVET  134 (635)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCEECGGGGTTCTTCCEEECTTS
T ss_pred             EEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCc-CCCCCHHHhcCCCCCCEEECCCC
Confidence            56777888998885 68999999999999999999988888899999999999998 77888888899999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCcccc
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVP  149 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp  149 (467)
                      .+..++. .++++++|++|++++|.... ..| .++.+++|++|++++|.++.++
T Consensus       135 ~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~  189 (635)
T 4g8a_A          135 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIY  189 (635)
T ss_dssp             CCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEEC
T ss_pred             cCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccc
Confidence            9998875 57899999999999975433 345 5889999999999999887553

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

Probab=99.83  E-value=3.2e-20  Score=175.74  Aligned_cols=172  Identities=18%  Similarity=0.250  Sum_probs=92.3

Q ss_pred             CccEEEeecCCCc---ccCCCccCCCCCCCEEEccC-CCCCCCCchhHhhcCCCCcEEEccCCCCC-CchhhhhcCcCCC
Q 012249           39 NLERVSLMRNNIE---EIPSNMSPHCEILSTLLLQR-NENLQRIPECFFVHMHGLKVVNLSSTDIE-VLPSSVSDLTNLR  113 (467)
Q Consensus        39 ~l~~L~l~~~~~~---~l~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l~~~~~~l~~L~  113 (467)
                      +++.|+++++.+.   .+|..+ .++++|+.|++++ |.+...+|..+ .++++|++|++++|.+. .+|..+..+++|+
T Consensus        51 ~l~~L~L~~~~l~~~~~~~~~l-~~l~~L~~L~L~~~n~l~~~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  128 (313)
T 1ogq_A           51 RVNNLDLSGLNLPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             eEEEEECCCCCccCCcccChhH-hCCCCCCeeeCCCCCcccccCChhH-hcCCCCCEEECcCCeeCCcCCHHHhCCCCCC
Confidence            5666666666655   244333 3566666666663 44444455443 56666666666666665 5555566666666


Q ss_pred             EEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCC-CCcEEeccCCCCC-CcCCccccCCCCCcEEEccc
Q 012249          114 SLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLE-NLSHLYLSSLQLK-KFPAGILPRLRSLYKLKLSF  189 (467)
Q Consensus       114 ~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~-~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~  189 (467)
                      +|++++|......| .+..+++|++|++++|.++ .+|..++.++ +|++|++++|.+. .+|..+ +.++ |+.|++++
T Consensus       129 ~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~-~~l~-L~~L~Ls~  206 (313)
T 1ogq_A          129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF-ANLN-LAFVDLSR  206 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGG-GGCC-CSEEECCS
T ss_pred             EEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHH-hCCc-ccEEECcC
Confidence            66666654333445 4556666666666666555 5555555555 5666666666554 333332 4444 56666555


Q ss_pred             CCCcccccHHHHHhhhccCcEEEcccC
Q 012249          190 GNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       190 ~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      |...... ...+..+ ++|+.|+++.+
T Consensus       207 N~l~~~~-~~~~~~l-~~L~~L~L~~N  231 (313)
T 1ogq_A          207 NMLEGDA-SVLFGSD-KNTQKIHLAKN  231 (313)
T ss_dssp             SEEEECC-GGGCCTT-SCCSEEECCSS
T ss_pred             CcccCcC-CHHHhcC-CCCCEEECCCC
Confidence            5333221 1334444 55555555443

>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=99.83  E-value=1.9e-19  Score=171.47  Aligned_cols=194  Identities=22%  Similarity=0.348  Sum_probs=168.1

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ..+...++.+..+|..+..+++|++|++++|.+..+|..+. .+++|+.|++++|. +..+|..+ ..+++|++|++++|
T Consensus        84 ~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~~~-~l~~L~~L~Ls~n~-l~~lp~~l-~~l~~L~~L~L~~n  160 (328)
T 4fcg_A           84 VALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQ-QFAGLETLTLARNP-LRALPASI-ASLNRLRELSIRAC  160 (328)
T ss_dssp             CEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGG-GGTTCSEEEEESCC-CCCCCGGG-GGCTTCCEEEEEEE
T ss_pred             eEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHHHh-ccCCCCEEECCCCc-cccCcHHH-hcCcCCCEEECCCC
Confidence            35677888999999999999999999999999998887654 89999999999998 55888764 89999999999997


Q ss_pred             CCC-Cchhhhhc---------CcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCC
Q 012249           98 DIE-VLPSSVSD---------LTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSL  166 (467)
Q Consensus        98 ~~~-~l~~~~~~---------l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~  166 (467)
                      ... .+|..+..         +++|++|++++| .+..+| .++.+++|++|++++|.++.+|..++.+++|++|++++|
T Consensus       161 ~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n  239 (328)
T 4fcg_A          161 PELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGC  239 (328)
T ss_dssp             TTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTC
T ss_pred             CCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCC
Confidence            544 77776654         999999999997 566888 799999999999999999999999999999999999998


Q ss_pred             CC-CCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          167 QL-KKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       167 ~~-~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .+ ..+|.. ++++++|+.|++++|...+..+ ..+..+ ++|+.|++++|..
T Consensus       240 ~~~~~~p~~-~~~l~~L~~L~L~~n~~~~~~p-~~~~~l-~~L~~L~L~~n~~  289 (328)
T 4fcg_A          240 TALRNYPPI-FGGRAPLKRLILKDCSNLLTLP-LDIHRL-TQLEKLDLRGCVN  289 (328)
T ss_dssp             TTCCBCCCC-TTCCCCCCEEECTTCTTCCBCC-TTGGGC-TTCCEEECTTCTT
T ss_pred             cchhhhHHH-hcCCCCCCEEECCCCCchhhcc-hhhhcC-CCCCEEeCCCCCc
Confidence            86 556655 4899999999999987766655 468899 9999999998765

>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=99.82  E-value=7.2e-19  Score=164.21  Aligned_cols=195  Identities=27%  Similarity=0.355  Sum_probs=144.0

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++..+|..+  .+++++|+++++.+..++...+..+++|+.|++++|. +..++...+..+++|++|++++|.
T Consensus        15 ~~~c~~~~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~   91 (285)
T 1ozn_A           15 TTSCPQQGLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV-LARIDAAAFTGLALLEQLDLSDNA   91 (285)
T ss_dssp             EEECCSSCCSSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSCT
T ss_pred             EEEcCcCCcccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCc-cceeCHhhcCCccCCCEEeCCCCC
Confidence            4556667777777654  3578888888888887776666688888888888886 455544445788888888888886


Q ss_pred             -CCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCc
Q 012249           99 -IEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        99 -~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                       +..+ +..+..+++|++|++++|......| .+..+++|++|++++|.++.++.. ++.+++|++|++++|.+..++..
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  171 (285)
T 1ozn_A           92 QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPER  171 (285)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTT
T ss_pred             CccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHH
Confidence             7766 5677788888888888865443334 577888888888888888877654 77888888888888888877776


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .+.++++|+.|++++|....... ..++.+ ++|+.|+++++.+
T Consensus       172 ~~~~l~~L~~L~l~~n~l~~~~~-~~~~~l-~~L~~L~l~~n~l  213 (285)
T 1ozn_A          172 AFRGLHSLDRLLLHQNRVAHVHP-HAFRDL-GRLMTLYLFANNL  213 (285)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECT-TTTTTC-TTCCEEECCSSCC
T ss_pred             HhcCccccCEEECCCCcccccCH-hHccCc-ccccEeeCCCCcC
Confidence            56788888888888876544322 456677 7777777776654

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

Probab=99.82  E-value=2e-19  Score=171.88  Aligned_cols=190  Identities=21%  Similarity=0.311  Sum_probs=155.4

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+..+..+|..+.  ++++.|++++|.+..++...+.++++|+.|++++|. +..+++..+..+++|++|++++|.
T Consensus        37 ~l~~~~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~  113 (332)
T 2ft3_A           37 VVQCSDLGLKAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNK-ISKIHEKAFSPLRKLQKLYISKNH  113 (332)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCEECGGGSTTCTTCCEEECCSSC
T ss_pred             EEECCCCCccccCCCCC--CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCc-cCccCHhHhhCcCCCCEEECCCCc
Confidence            35566778888888664  689999999999998877667799999999999998 556654556899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcc---ccccccCCCCCcEEeccCCCCCCcCC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEE---VPEGMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~---lp~~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      +..+|..+.  ++|++|++++|. +..+|  .+..+++|++|++++|.++.   .|..+..+ +|++|++++|.+..+|.
T Consensus       114 l~~l~~~~~--~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~  189 (332)
T 2ft3_A          114 LVEIPPNLP--SSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPK  189 (332)
T ss_dssp             CCSCCSSCC--TTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCS
T ss_pred             CCccCcccc--ccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCc
Confidence            998887655  899999999974 55665  48999999999999998863   35557777 99999999999999887


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .+.   ++|++|++++|...... ...+..+ ++|+.|+++++.+..
T Consensus       190 ~~~---~~L~~L~l~~n~i~~~~-~~~l~~l-~~L~~L~L~~N~l~~  231 (332)
T 2ft3_A          190 DLP---ETLNELHLDHNKIQAIE-LEDLLRY-SKLYRLGLGHNQIRM  231 (332)
T ss_dssp             SSC---SSCSCCBCCSSCCCCCC-TTSSTTC-TTCSCCBCCSSCCCC
T ss_pred             ccc---CCCCEEECCCCcCCccC-HHHhcCC-CCCCEEECCCCcCCc
Confidence            652   78999999998665443 2467788 999999998887643

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

Probab=99.82  E-value=6.5e-19  Score=174.98  Aligned_cols=191  Identities=26%  Similarity=0.304  Sum_probs=140.8

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.++..+|..+.  ++++.|++++|.+..++...+.++++|+.|++++|. +..++...|.++++|++|++++|.+
T Consensus        48 v~c~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~-i~~i~~~~~~~l~~L~~L~L~~n~l  124 (440)
T 3zyj_A           48 VICVRKNLREVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDNRL  124 (440)
T ss_dssp             EECCSCCCSSCCSCCC--TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSC-CCEECGGGGTTCSSCCEEECCSSCC
T ss_pred             EEeCCCCcCcCCCCCC--CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCc-CCccChhhccCCccCCEEECCCCcC
Confidence            4455666777777554  478888888888887776666688888888888887 5566655667888888888888888


Q ss_pred             CCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCC-cCccccc-cccCCCCCcEEeccCCCCCCcCCc
Q 012249          100 EVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDT-RIEEVPE-GMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus       100 ~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~-~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      ..++. .+..+++|++|++++|. +..++  .+..+++|++|+++++ .+..++. .+.++++|++|++++|.+..+|. 
T Consensus       125 ~~~~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-  202 (440)
T 3zyj_A          125 TTIPNGAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-  202 (440)
T ss_dssp             SSCCTTTSCSCSSCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-
T ss_pred             CeeCHhHhhccccCceeeCCCCc-ccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccc-
Confidence            87764 56778888888888864 44554  5778888888888875 6666665 47788888888888888877775 


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                       +..+++|+.|++++|....... ..+..+ ++|+.|+++.+.+
T Consensus       203 -~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l-~~L~~L~L~~n~l  243 (440)
T 3zyj_A          203 -LTPLIKLDELDLSGNHLSAIRP-GSFQGL-MHLQKLWMIQSQI  243 (440)
T ss_dssp             -CTTCSSCCEEECTTSCCCEECT-TTTTTC-TTCCEEECTTCCC
T ss_pred             -cCCCcccCEEECCCCccCccCh-hhhccC-ccCCEEECCCCce
Confidence             4778888888888876544332 567777 7888888877654

>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=99.81  E-value=5.5e-19  Score=168.66  Aligned_cols=123  Identities=24%  Similarity=0.326  Sum_probs=55.2

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEc
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSL  117 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l  117 (467)
                      +++.++++++.++.+|..+   .++++.|++++|. +..++...+.++++|++|++++|.+..+ |..+..+++|++|++
T Consensus        32 ~l~~l~~~~~~l~~lp~~~---~~~l~~L~L~~n~-i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  107 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNNK-ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL  107 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCeEEEecCCCccccCccC---CCCCeEEECCCCc-CCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEEC
Confidence            3455555554444444332   2345555555554 3333333334555555555555554433 444444555555555


Q ss_pred             CCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCC
Q 012249          118 GWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQL  168 (467)
Q Consensus       118 ~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~  168 (467)
                      ++| .++.+| .+.  ++|++|++++|.++.++. .+.++++|++|++++|.+
T Consensus       108 s~n-~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  157 (330)
T 1xku_A          108 SKN-QLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPL  157 (330)
T ss_dssp             CSS-CCSBCCSSCC--TTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCC
T ss_pred             CCC-cCCccChhhc--ccccEEECCCCcccccCHhHhcCCccccEEECCCCcC
Confidence            543 233333 221  344444444444443332 244444444444444444

>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=99.81  E-value=7.1e-19  Score=175.32  Aligned_cols=191  Identities=28%  Similarity=0.312  Sum_probs=137.4

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.++..+|..+.  +++++|++++|.+..++...+.++++|+.|++++|. +..++...|.++++|++|++++|.+
T Consensus        59 v~c~~~~l~~iP~~~~--~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~L~~n~l  135 (452)
T 3zyi_A           59 VVCTRRGLSEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDNWL  135 (452)
T ss_dssp             EECCSSCCSSCCSCCC--TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EEECCCCcCccCCCCC--CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCc-cCCcChhhccCcccCCEEECCCCcC
Confidence            4455566777776554  477888888888877766666678888888888886 5555555567788888888888888


Q ss_pred             CCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCC-cCccccc-cccCCCCCcEEeccCCCCCCcCCc
Q 012249          100 EVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDT-RIEEVPE-GMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus       100 ~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~-~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      ..++. .+..+++|++|++++|. +..+|  .+.++++|++|++++| .+..++. .+.++++|++|++++|.+..+|. 
T Consensus       136 ~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-  213 (452)
T 3zyi_A          136 TVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPN-  213 (452)
T ss_dssp             SBCCTTTSSSCTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCC-
T ss_pred             CccChhhhcccCCCCEEECCCCC-cceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCccccccc-
Confidence            76654 36678888888888864 44554  5778888888888875 6666665 37778888888888888877765 


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                       +..+++|+.|++++|......+ ..+..+ ++|+.|+++++.+
T Consensus       214 -~~~l~~L~~L~Ls~N~l~~~~~-~~~~~l-~~L~~L~L~~n~l  254 (452)
T 3zyi_A          214 -LTPLVGLEELEMSGNHFPEIRP-GSFHGL-SSLKKLWVMNSQV  254 (452)
T ss_dssp             -CTTCTTCCEEECTTSCCSEECG-GGGTTC-TTCCEEECTTSCC
T ss_pred             -ccccccccEEECcCCcCcccCc-ccccCc-cCCCEEEeCCCcC
Confidence             4677888888888876654433 567777 7888888777654

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

Probab=99.80  E-value=9.2e-20  Score=172.55  Aligned_cols=193  Identities=19%  Similarity=0.238  Sum_probs=157.5

Q ss_pred             EEEcCCCcc---cCCcCccCCCCccEEEeec-CCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEc
Q 012249           20 MVKAGLRLL---EFPGEQEWEENLERVSLMR-NNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNL   94 (467)
Q Consensus        20 ~~~~~~~l~---~~~~~~~~l~~l~~L~l~~-~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l   94 (467)
                      +...+..+.   .+|..+..+++|++|++++ |.+. .+|.. +.++++|++|++++|.+...+|.. +..+++|++|++
T Consensus        55 L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~~~p~~-~~~l~~L~~L~L  132 (313)
T 1ogq_A           55 LDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDF-LSQIKTLVTLDF  132 (313)
T ss_dssp             EEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGG-GGGCTTCCEEEC
T ss_pred             EECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCCeeCCcCCHH-HhCCCCCCEEeC
Confidence            344456665   5888999999999999995 8877 56555 458999999999999855567765 489999999999


Q ss_pred             cCCCCC-CchhhhhcCcCCCEEEcCCCCCCCcCC-CccccC-CccEEEccCCcCc-cccccccCCCCCcEEeccCCCCCC
Q 012249           95 SSTDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLL-ALQYLDLYDTRIE-EVPEGMEMLENLSHLYLSSLQLKK  170 (467)
Q Consensus        95 ~~~~~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~-~L~~L~l~~~~~~-~lp~~~~~l~~L~~L~l~~~~~~~  170 (467)
                      ++|.+. .+|..+..+++|++|++++|...+.+| .++.+. +|++|++++|.++ .+|..+..++ |++|++++|.+..
T Consensus       133 s~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~  211 (313)
T 1ogq_A          133 SYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEG  211 (313)
T ss_dssp             CSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEE
T ss_pred             CCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccC
Confidence            999998 788999999999999999986555788 789998 9999999999888 6788888887 9999999999876


Q ss_pred             cCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          171 FPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       171 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .+...+.++++|+.|++++|......+  .+..+ ++|+.|+++.|.+
T Consensus       212 ~~~~~~~~l~~L~~L~L~~N~l~~~~~--~~~~l-~~L~~L~Ls~N~l  256 (313)
T 1ogq_A          212 DASVLFGSDKNTQKIHLAKNSLAFDLG--KVGLS-KNLNGLDLRNNRI  256 (313)
T ss_dssp             CCGGGCCTTSCCSEEECCSSEECCBGG--GCCCC-TTCCEEECCSSCC
T ss_pred             cCCHHHhcCCCCCEEECCCCceeeecC--ccccc-CCCCEEECcCCcc
Confidence            666556999999999999986643332  25556 6777777766643

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

Probab=99.80  E-value=2e-18  Score=159.76  Aligned_cols=194  Identities=25%  Similarity=0.381  Sum_probs=167.0

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++..+|..+.  +++++|++++|.+..++...+.++++|+.|++++|. +..++..+|..+++|++|++++|.
T Consensus        20 ~l~~~~~~l~~ip~~~~--~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n~   96 (270)
T 2o6q_A           20 SVDCSSKKLTAIPSNIP--ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLETLWVTDNK   96 (270)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSC-CSCCCTTTTSSCTTCCEEECCSSC
T ss_pred             EEEccCCCCCccCCCCC--CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCc-cCeeChhhhcCCCCCCEEECCCCc
Confidence            46677888899998664  589999999999998888777799999999999998 667888878899999999999999


Q ss_pred             CCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCc
Q 012249           99 IEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        99 ~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      +..++. .+..+++|++|++++|. +..++  .+..+++|++|++++|.++.+|.. +..+++|++|++++|.+..++..
T Consensus        97 l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~  175 (270)
T 2o6q_A           97 LQALPIGVFDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEG  175 (270)
T ss_dssp             CCCCCTTTTTTCSSCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             CCcCCHhHcccccCCCEEECCCCc-cCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeChh
Confidence            998764 56889999999999975 55554  588999999999999999988865 78999999999999999999887


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .+.++++|+.|++++|..... +...+..+ ++|+.|++++|..
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~-~~~~~~~l-~~L~~L~l~~N~~  217 (270)
T 2o6q_A          176 AFDKLTELKTLKLDNNQLKRV-PEGAFDSL-EKLKMLQLQENPW  217 (270)
T ss_dssp             TTTTCTTCCEEECCSSCCSCC-CTTTTTTC-TTCCEEECCSSCB
T ss_pred             HhccCCCcCEEECCCCcCCcC-CHHHhccc-cCCCEEEecCCCe
Confidence            778999999999999966543 33457788 9999999988875

>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=99.80  E-value=3e-19  Score=168.60  Aligned_cols=192  Identities=20%  Similarity=0.221  Sum_probs=155.3

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCC---chhHhhcCCCCcEEEccC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRI---PECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~---~~~~~~~l~~L~~L~l~~   96 (467)
                      +...+.++..+|..+.  +++++|++++|.++.++...+.++++|+.|++++|. +..+   +..+ ..+++|++|++++
T Consensus        12 l~c~~~~l~~ip~~~~--~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~-~~~~~L~~L~Ls~   87 (306)
T 2z66_A           12 IRCNSKGLTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNG-LSFKGCCSQSD-FGTTSLKYLDLSF   87 (306)
T ss_dssp             EECCSSCCSSCCSCCC--TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCEEEEEEHHH-HSCSCCCEEECCS
T ss_pred             EEcCCCCcccCCCCCC--CCCCEEECCCCccCccCHhHhhccccCCEEECCCCc-cCcccCccccc-ccccccCEEECCC
Confidence            5556777888887554  589999999999999988877789999999999997 4433   4443 5789999999999


Q ss_pred             CCCCCchhhhhcCcCCCEEEcCCCCCCCcCC---CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCCC--
Q 012249           97 TDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLKK--  170 (467)
Q Consensus        97 ~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~~--  170 (467)
                      |.+..+|..+..+++|++|++++|. +...+   .+..+++|++|++++|.+... +..+..+++|++|++++|.+.+  
T Consensus        88 n~i~~l~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~  166 (306)
T 2z66_A           88 NGVITMSSNFLGLEQLEHLDFQHSN-LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF  166 (306)
T ss_dssp             CSEEEEEEEEETCTTCCEEECTTSE-EESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGE
T ss_pred             CccccChhhcCCCCCCCEEECCCCc-ccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCcccccc
Confidence            9999888888999999999999974 44443   588899999999999988854 4558889999999999998864  


Q ss_pred             cCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          171 FPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       171 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      +|.. +..+++|+.|++++|....... ..++.+ ++|+.|+++++.+.
T Consensus       167 ~~~~-~~~l~~L~~L~Ls~n~l~~~~~-~~~~~l-~~L~~L~L~~N~l~  212 (306)
T 2z66_A          167 LPDI-FTELRNLTFLDLSQCQLEQLSP-TAFNSL-SSLQVLNMSHNNFF  212 (306)
T ss_dssp             ECSC-CTTCTTCCEEECTTSCCCEECT-TTTTTC-TTCCEEECTTSCCS
T ss_pred             chhH-HhhCcCCCEEECCCCCcCCcCH-HHhcCC-CCCCEEECCCCccC
Confidence            5555 4899999999999986655432 567788 89999999888653

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

Probab=99.80  E-value=5.9e-19  Score=175.29  Aligned_cols=198  Identities=27%  Similarity=0.300  Sum_probs=172.8

Q ss_pred             eEEEcCCCcccCC-cCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFP-GEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~-~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...++.+..++ ..+..+++|++|++++|.+..++...+.++++|+.|++++|. +..++...|..+++|++|++++|
T Consensus        68 ~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N  146 (440)
T 3zyj_A           68 LLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR-LTTIPNGAFVYLSKLKELWLRNN  146 (440)
T ss_dssp             EEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSC-CSSCCTTTSCSCSSCCEEECCSC
T ss_pred             EEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCc-CCeeCHhHhhccccCceeeCCCC
Confidence            4566677777776 578899999999999999998887778899999999999997 67788777789999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCc
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      .+..++. .+..+++|++|++++|..+..++  .+..+++|++|++++|.++.+| .+..+++|+.|++++|.+..++..
T Consensus       147 ~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~Ls~N~l~~~~~~  225 (440)
T 3zyj_A          147 PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLDELDLSGNHLSAIRPG  225 (440)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCC-CCTTCSSCCEEECTTSCCCEECTT
T ss_pred             cccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcccc-ccCCCcccCEEECCCCccCccChh
Confidence            9997764 67899999999999988888877  5899999999999999999998 588999999999999999888776


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .+.++++|+.|++++|....... ..+..+ ++|+.|++++|.+..
T Consensus       226 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l-~~L~~L~L~~N~l~~  269 (440)
T 3zyj_A          226 SFQGLMHLQKLWMIQSQIQVIER-NAFDNL-QSLVEINLAHNNLTL  269 (440)
T ss_dssp             TTTTCTTCCEEECTTCCCCEECT-TSSTTC-TTCCEEECTTSCCCC
T ss_pred             hhccCccCCEEECCCCceeEECh-hhhcCC-CCCCEEECCCCCCCc
Confidence            67999999999999997655443 568888 999999999987643

>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=99.79  E-value=7.8e-19  Score=175.05  Aligned_cols=198  Identities=25%  Similarity=0.285  Sum_probs=172.8

Q ss_pred             eEEEcCCCcccC-CcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEF-PGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~-~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...++.+..+ +..+..+++|++|++++|.+..++...+.++++|+.|++++|. +..++...|..+++|++|++++|
T Consensus        79 ~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N  157 (452)
T 3zyi_A           79 YLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNW-LTVIPSGAFEYLSKLRELWLRNN  157 (452)
T ss_dssp             EEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CSBCCTTTSSSCTTCCEEECCSC
T ss_pred             EEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCc-CCccChhhhcccCCCCEEECCCC
Confidence            456667777777 4578899999999999999998887777799999999999998 67788777789999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCc
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      .+..++. .+.++++|++|++++|..++.++  .+..+++|++|++++|.++.+| .+..+++|+.|++++|.+..++..
T Consensus       158 ~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~Ls~N~l~~~~~~  236 (452)
T 3zyi_A          158 PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSGNHFPEIRPG  236 (452)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCC-CCTTCTTCCEEECTTSCCSEECGG
T ss_pred             CcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccc-cccccccccEEECcCCcCcccCcc
Confidence            9997764 67899999999999988888887  5899999999999999999887 588999999999999999888777


Q ss_pred             cccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .+.++++|+.|++++|....... ..+..+ ++|+.|++++|.+..
T Consensus       237 ~~~~l~~L~~L~L~~n~l~~~~~-~~~~~l-~~L~~L~L~~N~l~~  280 (452)
T 3zyi_A          237 SFHGLSSLKKLWVMNSQVSLIER-NAFDGL-ASLVELNLAHNNLSS  280 (452)
T ss_dssp             GGTTCTTCCEEECTTSCCCEECT-TTTTTC-TTCCEEECCSSCCSC
T ss_pred             cccCccCCCEEEeCCCcCceECH-HHhcCC-CCCCEEECCCCcCCc
Confidence            67999999999999997755443 568888 999999999987643

>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=99.79  E-value=5.3e-18  Score=158.29  Aligned_cols=198  Identities=24%  Similarity=0.243  Sum_probs=168.2

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.++.+....+..+++|+.|++++|..+..++...+..+++|++|++++|
T Consensus        36 ~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n  115 (285)
T 1ozn_A           36 RIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC  115 (285)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             EEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCC
Confidence            45666777777775 57889999999999999998866667789999999999997566775556789999999999999


Q ss_pred             CCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCC
Q 012249           98 DIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        98 ~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      .+..+ +..+..+++|++|++++|. +..++  .+..+++|++|++++|.++.+|.. +..+++|++|++++|.+..++.
T Consensus       116 ~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  194 (285)
T 1ozn_A          116 GLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHP  194 (285)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             cCCEECHhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCH
Confidence            99966 5678899999999999974 55555  488999999999999999988864 8899999999999999988755


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      ..+.++++|+.|++++|.... .....+..+ ++|+.|++++|.+.
T Consensus       195 ~~~~~l~~L~~L~l~~n~l~~-~~~~~~~~l-~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          195 HAFRDLGRLMTLYLFANNLSA-LPTEALAPL-RALQYLRLNDNPWV  238 (285)
T ss_dssp             TTTTTCTTCCEEECCSSCCSC-CCHHHHTTC-TTCCEEECCSSCEE
T ss_pred             hHccCcccccEeeCCCCcCCc-CCHHHcccC-cccCEEeccCCCcc
Confidence            556899999999999997654 444678899 99999999988763

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

Probab=99.78  E-value=1.5e-18  Score=163.79  Aligned_cols=172  Identities=22%  Similarity=0.250  Sum_probs=139.6

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc---hhhhhcCcCCCEEEc
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL---PSSVSDLTNLRSLSL  117 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l---~~~~~~l~~L~~L~l  117 (467)
                      +.++.+++.++.+|..+   .++++.|++++|. +..+|..+|.++++|++|++++|.+..+   +..+..+++|++|++
T Consensus        10 ~~l~c~~~~l~~ip~~~---~~~l~~L~L~~n~-l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L   85 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGI---PSSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL   85 (306)
T ss_dssp             TEEECCSSCCSSCCSCC---CTTCCEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEEC
T ss_pred             CEEEcCCCCcccCCCCC---CCCCCEEECCCCc-cCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEEC
Confidence            56788888888888764   3689999999998 6688887788999999999999998854   677788999999999


Q ss_pred             CCCCCCCcCC-CccccCCccEEEccCCcCccccc--cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          118 GWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE--GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       118 ~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~--~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      ++| .+..+| .+..+++|++|++++|.++.++.  .+..+++|++|++++|.+...+...+.++++|++|++++|....
T Consensus        86 s~n-~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  164 (306)
T 2z66_A           86 SFN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE  164 (306)
T ss_dssp             CSC-SEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGG
T ss_pred             CCC-ccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCcccc
Confidence            997 455666 68889999999999998887764  68899999999999999876666656889999999999886544


Q ss_pred             cccHHHHHhhhccCcEEEcccCCc
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ......+..+ ++|+.|+++.+.+
T Consensus       165 ~~~~~~~~~l-~~L~~L~Ls~n~l  187 (306)
T 2z66_A          165 NFLPDIFTEL-RNLTFLDLSQCQL  187 (306)
T ss_dssp             GEECSCCTTC-TTCCEEECTTSCC
T ss_pred             ccchhHHhhC-cCCCEEECCCCCc
Confidence            2222456677 8888888877754

>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=99.78  E-value=2.4e-19  Score=172.83  Aligned_cols=175  Identities=21%  Similarity=0.239  Sum_probs=153.4

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.++.++...+.++++|+.|++++|. +..++...++.+++|++|++++|
T Consensus        56 ~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n  134 (353)
T 2z80_A           56 SLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNY-LSNLSSSWFKPLSSLTFLNLLGN  134 (353)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CSSCCHHHHTTCTTCSEEECTTC
T ss_pred             EEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCc-CCcCCHhHhCCCccCCEEECCCC
Confidence            45667788888877 78899999999999999998877667799999999999998 67788877799999999999999


Q ss_pred             CCCCchh--hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCCCcC
Q 012249           98 DIEVLPS--SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        98 ~~~~l~~--~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      .+..+|.  .+..+++|++|++++|..++.++  .+..+++|++|++++|.++.+ |..++.+++|++|++++|.+..++
T Consensus       135 ~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~  214 (353)
T 2z80_A          135 PYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLL  214 (353)
T ss_dssp             CCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHH
T ss_pred             CCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccch
Confidence            9998876  67899999999999986666665  689999999999999998866 677999999999999999998888


Q ss_pred             CccccCCCCCcEEEcccCCCcc
Q 012249          173 AGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      ..++..+++|+.|++++|....
T Consensus       215 ~~~~~~~~~L~~L~L~~n~l~~  236 (353)
T 2z80_A          215 EIFVDVTSSVECLELRDTDLDT  236 (353)
T ss_dssp             HHHHHHTTTEEEEEEESCBCTT
T ss_pred             hhhhhhcccccEEECCCCcccc
Confidence            7766779999999999986544

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

Probab=99.76  E-value=4.2e-17  Score=167.35  Aligned_cols=150  Identities=22%  Similarity=0.244  Sum_probs=79.1

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..+++++..+|..+.  ++|++|++++|.++.+|.    .+++|+.|++++|. +..+|.    .+++|++|++++|.
T Consensus        44 ~L~ls~n~L~~lp~~l~--~~L~~L~L~~N~l~~lp~----~l~~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N~  112 (622)
T 3g06_A           44 VLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLPA----LPPELRTLEVSGNQ-LTSLPV----LPPGLLELSIFSNP  112 (622)
T ss_dssp             EEECCSSCCSCCCSCCC--TTCSEEEECSCCCSCCCC----CCTTCCEEEECSCC-CSCCCC----CCTTCCEEEECSCC
T ss_pred             EEEecCCCcCccChhhC--CCCcEEEecCCCCCCCCC----cCCCCCEEEcCCCc-CCcCCC----CCCCCCEEECcCCc
Confidence            34445555555555443  455666666665555544    34556666666655 344443    44556666666665


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      +..+|.   .+.+|++|++++| .+..+|.  .+++|++|++++|.++.+|..   +.+|+.|++++|.+..+|    ..
T Consensus       113 l~~l~~---~l~~L~~L~L~~N-~l~~lp~--~l~~L~~L~Ls~N~l~~l~~~---~~~L~~L~L~~N~l~~l~----~~  179 (622)
T 3g06_A          113 LTHLPA---LPSGLCKLWIFGN-QLTSLPV--LPPGLQELSVSDNQLASLPAL---PSELCKLWAYNNQLTSLP----ML  179 (622)
T ss_dssp             CCCCCC---CCTTCCEEECCSS-CCSCCCC--CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSCCC----CC
T ss_pred             CCCCCC---CCCCcCEEECCCC-CCCcCCC--CCCCCCEEECcCCcCCCcCCc---cCCCCEEECCCCCCCCCc----cc
Confidence            555544   4455566666554 3444442  125555666665555555432   345555555555555554    23


Q ss_pred             CCCCcEEEcccCCC
Q 012249          179 LRSLYKLKLSFGNE  192 (467)
Q Consensus       179 l~~L~~L~l~~~~~  192 (467)
                      +++|+.|++++|..
T Consensus       180 ~~~L~~L~Ls~N~l  193 (622)
T 3g06_A          180 PSGLQELSVSDNQL  193 (622)
T ss_dssp             CTTCCEEECCSSCC
T ss_pred             CCCCcEEECCCCCC
Confidence            45555555555543

>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=99.75  E-value=1.5e-18  Score=179.07  Aligned_cols=302  Identities=16%  Similarity=0.034  Sum_probs=150.3

Q ss_pred             hcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCC---CcCC-CccccCCccEEEccCCcCccccccccCCCCCc
Q 012249           84 VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRL---KRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLS  159 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~---~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~  159 (467)
                      ..+++|++|++++|.+..++..+..+++|++|+++.+...   ...+ .+..+++|+.|+++++....+|..+..+++|+
T Consensus       217 ~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~  296 (592)
T 3ogk_B          217 RNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIR  296 (592)
T ss_dssp             HHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCC
T ss_pred             hhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCc
Confidence            3444555555555444444444444555555555432111   1111 34555566666665554445555566666666


Q ss_pred             EEeccCCCCCCcCC-ccccCCCCCcEEEcccCCCcccccHHHH-HhhhccCcEEEccc----------CCccchhhhhhc
Q 012249          160 HLYLSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALRETVEEA-ARLSDRLDYFEGYF----------STLKDFNIYVKS  227 (467)
Q Consensus       160 ~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~l-~~l~~~L~~L~l~~----------~~~~~~~~~~~~  227 (467)
                      +|++++|.+..... .++.++++|+.|++..+ . ....+..+ ..+ ++|+.|+++.          +......     
T Consensus       297 ~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~-~-~~~~l~~~~~~~-~~L~~L~L~~g~~~~~~~~~~~~~~~~-----  368 (592)
T 3ogk_B          297 KLDLLYALLETEDHCTLIQKCPNLEVLETRNV-I-GDRGLEVLAQYC-KQLKRLRIERGADEQGMEDEEGLVSQR-----  368 (592)
T ss_dssp             EEEETTCCCCHHHHHHHHTTCTTCCEEEEEGG-G-HHHHHHHHHHHC-TTCCEEEEECCCCSSTTSSTTCCCCHH-----
T ss_pred             EEecCCCcCCHHHHHHHHHhCcCCCEEeccCc-c-CHHHHHHHHHhC-CCCCEEEeecCccccccccccCccCHH-----
Confidence            66666666432111 22356666666666622 1 22222333 333 6666666662          1111000     


Q ss_pred             cCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhh-------hhhhcccceeeeeecc---ccccccccc
Q 012249          228 TDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKET-------IVLLKDVQCLQMFEVD---EVTSLNDVL  297 (467)
Q Consensus       228 ~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~-------~~~~~~l~~L~~~~~~---~l~~l~~~~  297 (467)
                              .+..              ....+++|+.|.+..+...       ....+.++.|.+.++.   .++...   
T Consensus       369 --------~~~~--------------l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p---  423 (592)
T 3ogk_B          369 --------GLIA--------------LAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLP---  423 (592)
T ss_dssp             --------HHHH--------------HHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCC---
T ss_pred             --------HHHH--------------HHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCch---
Confidence                    0000              0122345555555322211       1124467888887543   333210   


Q ss_pred             cccccccc-ccCccccccEEEEecCCC-CccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhcccccccccc
Q 012249          298 PRELGLVN-IGKFSHDLKVLRFDSCKN-LKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVT  375 (467)
Q Consensus       298 ~~~~~~~~-~~~~~~~L~~L~l~~c~~-l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~  375 (467)
                      . +..+.. ...++. |++|+++.|.+ +++.........+++|+.|++++|. +.+.....           .   ...
T Consensus       424 ~-~~~~~~~~~~~~~-L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~-----------~---~~~  486 (592)
T 3ogk_B          424 L-DNGVRSLLIGCKK-LRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGLME-----------F---SRG  486 (592)
T ss_dssp             C-HHHHHHHHHHCTT-CCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHHHH-----------H---HTC
T ss_pred             H-HHHHHHHHHhCCC-CCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHHHH-----------H---Hhc
Confidence            0 000100 223566 99999988764 3432222233457889999999874 43311000           0   126


Q ss_pred             ccccccccccccccccccccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCCCCCcceeeeeh
Q 012249          376 LPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       376 ~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      +++|++|++.+|+ ++..........+++|++|.+.+|+ ++..  +++.+.    ..+|.+....+.
T Consensus       487 ~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~~--~~~~l~----~~~p~l~~~~~~  546 (592)
T 3ogk_B          487 CPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASMT--GQDLMQ----MARPYWNIELIP  546 (592)
T ss_dssp             CTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCTT--CTTGGG----GCCTTEEEEEEC
T ss_pred             CcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc-CCHH--HHHHHH----HhCCCcEEEEec
Confidence            8999999999998 5432221112468999999999997 5543  343333    224455554444

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

Probab=99.75  E-value=2.9e-19  Score=169.54  Aligned_cols=170  Identities=15%  Similarity=0.137  Sum_probs=124.1

Q ss_pred             ccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCC
Q 012249           40 LERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGW  119 (467)
Q Consensus        40 l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~  119 (467)
                      +...+++.+.+.+.+..++..+++|+.|++++|. +..++...+..+++|++|++++|.+...+. +..+++|++|++++
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~   89 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNN   89 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTSC-CCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECCS
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCCc-cCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECcC
Confidence            4444555555555545555567789999999987 555665556888999999999988876554 78888999999988


Q ss_pred             CCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHH
Q 012249          120 CRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVE  199 (467)
Q Consensus       120 ~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  199 (467)
                      |. +..+   ...++|++|++++|.++.++..  .+++|++|++++|.+..++...++.+++|+.|++++|....... .
T Consensus        90 n~-l~~l---~~~~~L~~L~l~~n~l~~~~~~--~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-~  162 (317)
T 3o53_A           90 NY-VQEL---LVGPSIETLHAANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNF-A  162 (317)
T ss_dssp             SE-EEEE---EECTTCCEEECCSSCCSEEEEC--CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEG-G
T ss_pred             Cc-cccc---cCCCCcCEEECCCCccCCcCcc--ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccH-H
Confidence            63 3333   3447888999998888877543  36788999999998888776556788889999998886655433 3


Q ss_pred             HH-HhhhccCcEEEcccCCcc
Q 012249          200 EA-ARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       200 ~l-~~l~~~L~~L~l~~~~~~  219 (467)
                      .+ ..+ ++|+.|+++++.+.
T Consensus       163 ~~~~~l-~~L~~L~L~~N~l~  182 (317)
T 3o53_A          163 ELAASS-DTLEHLNLQYNFIY  182 (317)
T ss_dssp             GGGGGT-TTCCEEECTTSCCC
T ss_pred             HHhhcc-CcCCEEECCCCcCc
Confidence            33 467 88888888887653

>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=99.75  E-value=2.7e-17  Score=153.63  Aligned_cols=191  Identities=22%  Similarity=0.213  Sum_probs=152.1

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...++++..+|..+.  ++++.|++++|.+..++...+..+++|+.|++++|. +..++..  ..+++|++|++++|.
T Consensus        14 ~l~~~~~~l~~ip~~~~--~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~--~~l~~L~~L~Ls~N~   88 (290)
T 1p9a_G           14 EVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQVD--GTLPVLGTLDLSHNQ   88 (290)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC-CCEEECC--SCCTTCCEEECCSSC
T ss_pred             EEECCCCCCCcCCCCCC--CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc-cCcccCC--CCCCcCCEEECCCCc
Confidence            35566777888887664  588899999998887766666688999999999987 5555543  678889999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCcc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      +..+|..+..+++|++|++++| .++.+|  .+..+++|++|++++|.++.+|.. +..+++|+.|++++|.+..+|..+
T Consensus        89 l~~l~~~~~~l~~L~~L~l~~N-~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~  167 (290)
T 1p9a_G           89 LQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL  167 (290)
T ss_dssp             CSSCCCCTTTCTTCCEEECCSS-CCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTT
T ss_pred             CCcCchhhccCCCCCEEECCCC-cCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHH
Confidence            8888888888899999999986 455554  588889999999999988887765 678899999999999998888877


Q ss_pred             ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          176 LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +.++++|+.|++++|......  ..+... ..|+.+.+.+|..
T Consensus       168 ~~~l~~L~~L~L~~N~l~~ip--~~~~~~-~~L~~l~L~~Np~  207 (290)
T 1p9a_G          168 LNGLENLDTLLLQENSLYTIP--KGFFGS-HLLPFAFLHGNPW  207 (290)
T ss_dssp             TTTCTTCCEEECCSSCCCCCC--TTTTTT-CCCSEEECCSCCB
T ss_pred             hcCcCCCCEEECCCCcCCccC--hhhccc-ccCCeEEeCCCCc
Confidence            788899999999988665332  345566 7888888887765

>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=99.74  E-value=1.2e-19  Score=181.39  Aligned_cols=335  Identities=19%  Similarity=0.116  Sum_probs=189.2

Q ss_pred             ccCCCCccEEEeecCCCcc-----cCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCC----CCcEEEccCCCCC----
Q 012249           34 QEWEENLERVSLMRNNIEE-----IPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMH----GLKVVNLSSTDIE----  100 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~-----l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~----~L~~L~l~~~~~~----  100 (467)
                      +..++++++|++++|.++.     ++.. +..+++|+.|++++|.+....+..++..++    +|++|++++|.+.    
T Consensus        24 ~~~~~~L~~L~L~~~~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~  102 (461)
T 1z7x_W           24 LPLLQQCQVVRLDDCGLTEARCKDISSA-LRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGC  102 (461)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHH-HHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGH
T ss_pred             HhhcCCccEEEccCCCCCHHHHHHHHHH-HHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHH
Confidence            4556778888888887762     2332 336788888888887633222334444455    6888888888776    


Q ss_pred             -CchhhhhcCcCCCEEEcCCCCCCCcC-C-Cc-----cccCCccEEEccCCcCcc-----ccccccCCCCCcEEeccCCC
Q 012249          101 -VLPSSVSDLTNLRSLSLGWCRRLKRV-P-SL-----ARLLALQYLDLYDTRIEE-----VPEGMEMLENLSHLYLSSLQ  167 (467)
Q Consensus       101 -~l~~~~~~l~~L~~L~l~~~~~~~~~-p-~l-----~~l~~L~~L~l~~~~~~~-----lp~~~~~l~~L~~L~l~~~~  167 (467)
                       .++..+..+++|++|++++|. ++.. + .+     ....+|++|++++|.++.     ++..+..+++|++|++++|.
T Consensus       103 ~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~  181 (461)
T 1z7x_W          103 GVLSSTLRTLPTLQELHLSDNL-LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNND  181 (461)
T ss_dssp             HHHHHHTTSCTTCCEEECCSSB-CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB
T ss_pred             HHHHHHHccCCceeEEECCCCc-CchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC
Confidence             346677778888888888764 3322 1 12     224568888888887763     34456677888888888877


Q ss_pred             CCCcCCccc-----cCCCCCcEEEcccCCCcccc---cHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhh
Q 012249          168 LKKFPAGIL-----PRLRSLYKLKLSFGNEALRE---TVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLA  239 (467)
Q Consensus       168 ~~~~~~~~l-----~~l~~L~~L~l~~~~~~~~~---~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~  239 (467)
                      +.......+     ...++|++|++++|......   -...+..+ ++|+.|+++.+.+.+...              ..
T Consensus       182 i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~-~~L~~L~Ls~n~l~~~~~--------------~~  246 (461)
T 1z7x_W          182 INEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASK-ASLRELALGSNKLGDVGM--------------AE  246 (461)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHC-TTCCEEECCSSBCHHHHH--------------HH
T ss_pred             cchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhC-CCccEEeccCCcCChHHH--------------HH
Confidence            643222111     13557888888877554321   12345566 788888887776533210              00


Q ss_pred             hhhcCCCccccccccccceeeeecCccccchhhhh----h------hcccceeeeeeccccccccccccccccccc-c-c
Q 012249          240 LSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIV----L------LKDVQCLQMFEVDEVTSLNDVLPRELGLVN-I-G  307 (467)
Q Consensus       240 l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~----~------~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~-~-~  307 (467)
                      +.          ........+|+.|+++++.....    +      .+.++.|.+.++. ++.....     .+.. . .
T Consensus       247 l~----------~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~-----~l~~~l~~  310 (461)
T 1z7x_W          247 LC----------PGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNE-LGDEGAR-----LLCETLLE  310 (461)
T ss_dssp             HH----------HHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCC-CHHHHHH-----HHHHHHTS
T ss_pred             HH----------HHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCC-CchHHHH-----HHHHHhcc
Confidence            00          00011233555666655542211    1      2345566555442 1110000     0000 0 1


Q ss_pred             CccccccEEEEecCCCCccccc---cchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccccccccccccc
Q 012249          308 KFSHDLKVLRFDSCKNLKNLFS---LRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRF  384 (467)
Q Consensus       308 ~~~~~L~~L~l~~c~~l~~l~~---~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  384 (467)
                      ..+. |++|++++|. ++....   ...+..+++|+.|++++| .+.+.....-       .. .+.  ...++|++|++
T Consensus       311 ~~~~-L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l-------~~-~l~--~~~~~L~~L~L  377 (461)
T 1z7x_W          311 PGCQ-LESLWVKSCS-FTAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVREL-------CQ-GLG--QPGSVLRVLWL  377 (461)
T ss_dssp             TTCC-CCEEECTTSC-CBGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHH-------HH-HHT--STTCCCCEEEC
T ss_pred             CCcc-ceeeEcCCCC-CchHHHHHHHHHHhhCCCccEEEccCC-ccccccHHHH-------HH-HHc--CCCCceEEEEC
Confidence            1245 9999999986 333211   123456799999999987 4554311110       00 000  02679999999


Q ss_pred             ccccccc-----ccccCCCccccCCcceEEEeCCCCccc
Q 012249          385 YDLPEFK-----SFCSYNGVLVCNSLQEIEVRRCPKLKR  418 (467)
Q Consensus       385 ~~~~~l~-----~~~~~~~~~~~~~L~~L~i~~C~~L~~  418 (467)
                      .+|. ++     .++...  ..+++|++|++.+|+ +++
T Consensus       378 ~~n~-i~~~~~~~l~~~l--~~~~~L~~L~l~~N~-i~~  412 (461)
T 1z7x_W          378 ADCD-VSDSSCSSLAATL--LANHSLRELDLSNNC-LGD  412 (461)
T ss_dssp             TTSC-CCHHHHHHHHHHH--HHCCCCCEEECCSSS-CCH
T ss_pred             CCCC-CChhhHHHHHHHH--HhCCCccEEECCCCC-CCH
Confidence            9985 44     333332  358999999999984 543

>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=99.74  E-value=1.4e-17  Score=151.28  Aligned_cols=192  Identities=13%  Similarity=0.206  Sum_probs=154.6

Q ss_pred             CCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC-CCCCCc
Q 012249           24 GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-TDIEVL  102 (467)
Q Consensus        24 ~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~-~~~~~l  102 (467)
                      +.++.++|. +.  +++++|++++|.++.++...+.++++|+.|++++|..+..++...|..+++|++|++++ |.+..+
T Consensus        20 c~~l~~ip~-~~--~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i   96 (239)
T 2xwt_C           20 CKDIQRIPS-LP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYI   96 (239)
T ss_dssp             ECSCSSCCC-CC--TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEE
T ss_pred             ccCccccCC-CC--CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEc
Confidence            444788887 43  38999999999999888877778999999999999656777776678999999999998 899877


Q ss_pred             h-hhhhcCcCCCEEEcCCCCCCCcCCCccccCCcc---EEEccCC-cCcccccc-ccCCCCCc-EEeccCCCCCCcCCcc
Q 012249          103 P-SSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQ---YLDLYDT-RIEEVPEG-MEMLENLS-HLYLSSLQLKKFPAGI  175 (467)
Q Consensus       103 ~-~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~---~L~l~~~-~~~~lp~~-~~~l~~L~-~L~l~~~~~~~~~~~~  175 (467)
                      + ..+..+++|++|++++| .+..+|.+..+.+|+   +|++++| .++.+|.. +..+++|+ .|++++|.+..+|..+
T Consensus        97 ~~~~f~~l~~L~~L~l~~n-~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~  175 (239)
T 2xwt_C           97 DPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYA  175 (239)
T ss_dssp             CTTSEECCTTCCEEEEEEE-CCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTT
T ss_pred             CHHHhCCCCCCCEEeCCCC-CCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhh
Confidence            6 46788999999999997 456677777777777   9999999 99988765 88999999 9999999999888877


Q ss_pred             ccCCCCCcEEEcccCC-CcccccHHHHHhhhccCcEEEcccCCccch
Q 012249          176 LPRLRSLYKLKLSFGN-EALRETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~-~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                      +.. ++|+.|++++|. ... .+...+..+.++|+.|+++.+.+...
T Consensus       176 ~~~-~~L~~L~L~~n~~l~~-i~~~~~~~l~~~L~~L~l~~N~l~~l  220 (239)
T 2xwt_C          176 FNG-TKLDAVYLNKNKYLTV-IDKDAFGGVYSGPSLLDVSQTSVTAL  220 (239)
T ss_dssp             TTT-CEEEEEECTTCTTCCE-ECTTTTTTCSBCCSEEECTTCCCCCC
T ss_pred             cCC-CCCCEEEcCCCCCccc-CCHHHhhccccCCcEEECCCCccccC
Confidence            555 899999999985 443 32233443326899999998877554

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

Probab=99.74  E-value=9.9e-17  Score=148.37  Aligned_cols=174  Identities=28%  Similarity=0.435  Sum_probs=152.7

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...++.+..++. .+..+++|++|++++|.++.++..++..+++|+.|++++|. +..++...|..+++|++|++++|
T Consensus        41 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n  119 (270)
T 2o6q_A           41 KLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-LQALPIGVFDQLVNLAELRLDRN  119 (270)
T ss_dssp             EEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSC-CCCCCTTTTTTCSSCCEEECCSS
T ss_pred             EEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCc-CCcCCHhHcccccCCCEEECCCC
Confidence            45666777888876 68899999999999999999998888889999999999998 67777777889999999999999


Q ss_pred             CCCCch-hhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCC
Q 012249           98 DIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        98 ~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      .+..++ ..+..+++|++|++++| .+..+|  .+..+++|++|++++|.++.++.. +..+++|++|++++|.+..++.
T Consensus       120 ~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~  198 (270)
T 2o6q_A          120 QLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPE  198 (270)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCT
T ss_pred             ccCeeCHHHhCcCcCCCEEECCCC-cCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCH
Confidence            999775 45689999999999997 466666  488999999999999999988764 8899999999999999999998


Q ss_pred             ccccCCCCCcEEEcccCCCcc
Q 012249          174 GILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      ..+..+++|+.|++++|....
T Consensus       199 ~~~~~l~~L~~L~l~~N~~~c  219 (270)
T 2o6q_A          199 GAFDSLEKLKMLQLQENPWDC  219 (270)
T ss_dssp             TTTTTCTTCCEEECCSSCBCC
T ss_pred             HHhccccCCCEEEecCCCeeC
Confidence            877899999999999986543

>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=99.74  E-value=1.9e-17  Score=153.69  Aligned_cols=194  Identities=23%  Similarity=0.212  Sum_probs=153.9

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      ....+.++..+|..+.  +++++|++++|.++.++...+.++++|+.|++++|. +..++...+..+++|++|++++|.+
T Consensus        12 ~~c~~~~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l   88 (276)
T 2z62_A           12 YQCMELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGNPI   88 (276)
T ss_dssp             EECTTSCCSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCC-CCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             EEecCCCccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCCCc-CCccCHHHccCCcCCCEEECCCCcc
Confidence            4455666778887654  489999999999998887667789999999999997 6667666678999999999999999


Q ss_pred             CCch-hhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcc--ccccccCCCCCcEEeccCCCCCCcCCcc
Q 012249          100 EVLP-SSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEE--VPEGMEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus       100 ~~l~-~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~--lp~~~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      ..++ ..+..+++|++|++++|......+ .++.+++|++|++++|.++.  +|..++++++|++|++++|.+..++...
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~  168 (276)
T 2z62_A           89 QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD  168 (276)
T ss_dssp             CEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGG
T ss_pred             CccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHH
Confidence            9665 678899999999999975443333 68899999999999998886  6788999999999999999998887655


Q ss_pred             ccCCCCCc----EEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          176 LPRLRSLY----KLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       176 l~~l~~L~----~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      +..+++|+    .|++++|.......  ..... .+|+.|+++++.+.
T Consensus       169 ~~~l~~L~~l~l~L~ls~n~l~~~~~--~~~~~-~~L~~L~L~~n~l~  213 (276)
T 2z62_A          169 LRVLHQMPLLNLSLDLSLNPMNFIQP--GAFKE-IRLKELALDTNQLK  213 (276)
T ss_dssp             GHHHHTCTTCCEEEECCSSCCCEECT--TSSCS-CCEEEEECCSSCCS
T ss_pred             hhhhhhccccceeeecCCCcccccCc--cccCC-CcccEEECCCCcee
Confidence            55555555    88898886654332  22334 57899999888764

>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=99.74  E-value=4.8e-16  Score=159.47  Aligned_cols=155  Identities=19%  Similarity=0.200  Sum_probs=131.0

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLG  118 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~  118 (467)
                      +++.++++++.++.+|..+.   ++|+.|++++|. +..+|.    .+++|++|++++|.+..+|.   .+++|++|+++
T Consensus        41 ~l~~L~ls~n~L~~lp~~l~---~~L~~L~L~~N~-l~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  109 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCLP---AHITTLVIPDNN-LTSLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSIF  109 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCCC---TTCSEEEECSCC-CSCCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEEC
T ss_pred             CCcEEEecCCCcCccChhhC---CCCcEEEecCCC-CCCCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECc
Confidence            68999999999999988653   799999999998 667775    67899999999999999886   78999999999


Q ss_pred             CCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccH
Q 012249          119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETV  198 (467)
Q Consensus       119 ~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  198 (467)
                      +| .+..+|.  .+.+|++|++++|.++.+|..   +++|++|++++|.+..+|.    .+.+|+.|++++|......  
T Consensus       110 ~N-~l~~l~~--~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls~N~l~~l~~----~~~~L~~L~L~~N~l~~l~--  177 (622)
T 3g06_A          110 SN-PLTHLPA--LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQLASLPA----LPSELCKLWAYNNQLTSLP--  177 (622)
T ss_dssp             SC-CCCCCCC--CCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSCCC--
T ss_pred             CC-cCCCCCC--CCCCcCEEECCCCCCCcCCCC---CCCCCEEECcCCcCCCcCC----ccCCCCEEECCCCCCCCCc--
Confidence            97 5666776  678899999999999998865   4899999999999988875    3578999999998665432  


Q ss_pred             HHHHhhhccCcEEEcccCCccc
Q 012249          199 EEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       199 ~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                         ..+ ++|+.|+++.|.+..
T Consensus       178 ---~~~-~~L~~L~Ls~N~l~~  195 (622)
T 3g06_A          178 ---MLP-SGLQELSVSDNQLAS  195 (622)
T ss_dssp             ---CCC-TTCCEEECCSSCCSC
T ss_pred             ---ccC-CCCcEEECCCCCCCC
Confidence               345 899999999887644

>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=99.74  E-value=1.6e-16  Score=145.23  Aligned_cols=173  Identities=26%  Similarity=0.351  Sum_probs=138.6

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+..+..+|..+.  ++++.|++++|.+..++...+.++++|+.|++++|. +..++...|..+++|++|++++|.
T Consensus        18 ~l~~~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~   94 (251)
T 3m19_A           18 EVDCQGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ-LQTLSAGVFDDLTELGTLGLANNQ   94 (251)
T ss_dssp             EEECTTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             EEecCCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc-CCccCHhHhccCCcCCEEECCCCc
Confidence            46667778888887665  488899999998887777667788999999999987 555666666888999999999998


Q ss_pred             CCCch-hhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCc
Q 012249           99 IEVLP-SSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAG  174 (467)
Q Consensus        99 ~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~  174 (467)
                      +..++ ..+..+++|++|++++| .+..+|  .+..+.+|++|++++|.++.+|. .++.+++|++|++++|.+..++..
T Consensus        95 l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~  173 (251)
T 3m19_A           95 LASLPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHG  173 (251)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT
T ss_pred             ccccChhHhcccCCCCEEEcCCC-cCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHH
Confidence            88765 45678899999999986 455555  36888899999999998888876 478888999999999988888876


Q ss_pred             cccCCCCCcEEEcccCCCccc
Q 012249          175 ILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       175 ~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      .+.++++|+.|++++|.....
T Consensus       174 ~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          174 AFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             TTTTCTTCCEEECCSCCBCTT
T ss_pred             HHhCCCCCCEEEeeCCceeCC
Confidence            668888899999988866443

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

Probab=99.73  E-value=3.9e-17  Score=151.30  Aligned_cols=177  Identities=25%  Similarity=0.361  Sum_probs=147.4

Q ss_pred             ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchh-hhhcCcCC
Q 012249           34 QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNL  112 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~-~~~~l~~L  112 (467)
                      ...+++++.+++.++.+..++.  +..+++|+.|++++|. +..++  .+..+++|++|++++|.+..++. .+..+++|
T Consensus        37 ~~~l~~L~~L~l~~~~i~~~~~--l~~l~~L~~L~l~~n~-l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  111 (272)
T 3rfs_A           37 QNELNSIDQIIANNSDIKSVQG--IQYLPNVRYLALGGNK-LHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNL  111 (272)
T ss_dssp             HHHHTTCCEEECTTSCCCCCTT--GGGCTTCCEEECTTSC-CCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTC
T ss_pred             cccccceeeeeeCCCCcccccc--cccCCCCcEEECCCCC-CCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCC
Confidence            3456789999999999887754  3479999999999998 45554  35899999999999999997764 46889999


Q ss_pred             CEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEccc
Q 012249          113 RSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF  189 (467)
Q Consensus       113 ~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  189 (467)
                      ++|++++|. +..++  .++.+++|++|++++|.++.+|.. ++.+++|++|++++|.+..++...++.+++|+.|++++
T Consensus       112 ~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~  190 (272)
T 3rfs_A          112 KELVLVENQ-LQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ  190 (272)
T ss_dssp             CEEECTTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEECCCCc-CCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCC
Confidence            999999975 55555  488999999999999999988765 68999999999999999988887778999999999999


Q ss_pred             CCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          190 GNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       190 ~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      |....... ..++.+ ++|+.|++++|..
T Consensus       191 N~l~~~~~-~~~~~l-~~L~~L~l~~N~~  217 (272)
T 3rfs_A          191 NQLKSVPD-GVFDRL-TSLQYIWLHDNPW  217 (272)
T ss_dssp             SCCSCCCT-TTTTTC-TTCCEEECCSSCB
T ss_pred             CcCCccCH-HHHhCC-cCCCEEEccCCCc
Confidence            97665433 457888 9999999988865

>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=99.72  E-value=1.3e-16  Score=150.57  Aligned_cols=168  Identities=20%  Similarity=0.231  Sum_probs=75.0

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS  116 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~  116 (467)
                      ++++++|+++++.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+..++ .+..+++|++|+
T Consensus        40 l~~L~~L~l~~~~i~~l~~--~~~l~~L~~L~L~~n~-i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~  113 (308)
T 1h6u_A           40 LDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDNQ-ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (308)
T ss_dssp             HHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSC-CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             cCCcCEEEeeCCCccCchh--hhccCCCCEEEccCCc-CCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEE
Confidence            3344455554444444431  1244445555554444 333333  344445555555554444443 344444555555


Q ss_pred             cCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccc
Q 012249          117 LGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRE  196 (467)
Q Consensus       117 l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  196 (467)
                      +++| .+..++.+..+++|++|++++|.++.++. ++.+++|++|++++|.+..++.  +..+++|+.|++++|......
T Consensus       114 l~~n-~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~  189 (308)
T 1h6u_A          114 LTST-QITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLKADDNKISDIS  189 (308)
T ss_dssp             CTTS-CCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCG
T ss_pred             CCCC-CCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCChh--hcCCCCCCEEECCCCccCcCh
Confidence            5443 23333344444445555554444444432 4444445555554444444443  244444555554444332221


Q ss_pred             cHHHHHhhhccCcEEEcccCCc
Q 012249          197 TVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       197 ~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                         .+..+ ++|+.|++++|.+
T Consensus       190 ---~l~~l-~~L~~L~L~~N~l  207 (308)
T 1h6u_A          190 ---PLASL-PNLIEVHLKNNQI  207 (308)
T ss_dssp             ---GGGGC-TTCCEEECTTSCC
T ss_pred             ---hhcCC-CCCCEEEccCCcc
Confidence               13444 4444444444444

>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=99.72  E-value=6.7e-17  Score=150.03  Aligned_cols=197  Identities=19%  Similarity=0.175  Sum_probs=162.4

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..++. .+..+++|++|++++|.+..++...+.++++|+.|++++|. +..++...+.++++|++|++++|
T Consensus        32 ~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n  110 (276)
T 2z62_A           32 NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVAVET  110 (276)
T ss_dssp             EEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTTS
T ss_pred             EEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCc-cCccChhhhcCCccccEEECCCC
Confidence            45666777877776 78889999999999999998887777789999999999998 56666556789999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCC-cCC-CccccCCccEEEccCCcCccccc-cccCCCCCc----EEeccCCCCC
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLK-RVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLS----HLYLSSLQLK  169 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~-~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~----~L~l~~~~~~  169 (467)
                      .+..++. .+..+++|++|++++|.... .+| .+..+++|++|++++|.++.++. .+..+.+|+    .|++++|.+.
T Consensus       111 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~  190 (276)
T 2z62_A          111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMN  190 (276)
T ss_dssp             CCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCC
T ss_pred             CccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCccc
Confidence            9997754 68899999999999975443 256 79999999999999999997754 466666666    8999999999


Q ss_pred             CcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          170 KFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       170 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .++...+ ...+|+.|++++|..... +...+..+ ++|+.|++++|.+.
T Consensus       191 ~~~~~~~-~~~~L~~L~L~~n~l~~~-~~~~~~~l-~~L~~L~l~~N~~~  237 (276)
T 2z62_A          191 FIQPGAF-KEIRLKELALDTNQLKSV-PDGIFDRL-TSLQKIWLHTNPWD  237 (276)
T ss_dssp             EECTTSS-CSCCEEEEECCSSCCSCC-CTTTTTTC-CSCCEEECCSSCBC
T ss_pred             ccCcccc-CCCcccEEECCCCceeec-CHhHhccc-ccccEEEccCCccc
Confidence            9888763 455899999999976543 33456788 99999999988763

>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=99.72  E-value=1.3e-16  Score=149.12  Aligned_cols=179  Identities=24%  Similarity=0.278  Sum_probs=154.9

Q ss_pred             ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCC
Q 012249           34 QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLR  113 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~  113 (467)
                      +..+++++.++++++.++.+|..+.   ++++.|++++|. +..++...|..+++|++|++++|.+..++.. +.+++|+
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~~---~~l~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~   80 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDLP---KDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLG   80 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCCC---TTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCC
T ss_pred             ccccCCccEEECCCCCCCcCCCCCC---CCCCEEEcCCCc-CCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCC
Confidence            4567789999999999999987753   789999999998 5666666678999999999999999987654 7899999


Q ss_pred             EEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          114 SLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       114 ~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      +|++++| .+..+| .+..+++|++|++++|.++.+|. .+..+++|++|++++|.+..++..++..+++|+.|++++|.
T Consensus        81 ~L~Ls~N-~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  159 (290)
T 1p9a_G           81 TLDLSHN-QLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN  159 (290)
T ss_dssp             EEECCSS-CCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             EEECCCC-cCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCc
Confidence            9999996 567788 68899999999999999998874 58999999999999999999999888899999999999997


Q ss_pred             CcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          192 EALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       192 ~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      ..... ...+..+ ++|+.|+++.|.+..
T Consensus       160 l~~l~-~~~~~~l-~~L~~L~L~~N~l~~  186 (290)
T 1p9a_G          160 LTELP-AGLLNGL-ENLDTLLLQENSLYT  186 (290)
T ss_dssp             CSCCC-TTTTTTC-TTCCEEECCSSCCCC
T ss_pred             CCccC-HHHhcCc-CCCCEEECCCCcCCc
Confidence            65433 2457788 999999999988754

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.71  E-value=6.4e-19  Score=176.15  Aligned_cols=349  Identities=16%  Similarity=0.107  Sum_probs=213.5

Q ss_pred             CCccEEEeecCCCcccC-CCccCCCCCCCEEEccCCCCCC----CCchhHhhcCCCCcEEEccCCCCCC-chhhh-hcCc
Q 012249           38 ENLERVSLMRNNIEEIP-SNMSPHCEILSTLLLQRNENLQ----RIPECFFVHMHGLKVVNLSSTDIEV-LPSSV-SDLT  110 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~l~-~~~~~~l~~L~~L~l~~~~~~~----~~~~~~~~~l~~L~~L~l~~~~~~~-l~~~~-~~l~  110 (467)
                      +++++|+++++.+...+ ..++..+++|+.|++++|.+..    .++ ..+..+++|++|++++|.+.. .+..+ ..+.
T Consensus         3 ~~l~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~-~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~   81 (461)
T 1z7x_W            3 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDIS-SALRVNPALAELNLRSNELGDVGVHCVLQGLQ   81 (461)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHH-HHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             ccceehhhhhcccCchhHHHHHhhcCCccEEEccCCCCCHHHHHHHH-HHHHhCCCcCEEeCCCCcCChHHHHHHHHHHh
Confidence            47899999999987432 2234578999999999998322    223 345788999999999998873 23333 3355


Q ss_pred             ----CCCEEEcCCCCCCC----cCC-CccccCCccEEEccCCcCccc-cc----c-ccCCCCCcEEeccCCCCCCcC---
Q 012249          111 ----NLRSLSLGWCRRLK----RVP-SLARLLALQYLDLYDTRIEEV-PE----G-MEMLENLSHLYLSSLQLKKFP---  172 (467)
Q Consensus       111 ----~L~~L~l~~~~~~~----~~p-~l~~l~~L~~L~l~~~~~~~l-p~----~-~~~l~~L~~L~l~~~~~~~~~---  172 (467)
                          +|++|++++|....    .++ .+..+++|++|++++|.++.. +.    . ....++|++|++++|.+....   
T Consensus        82 ~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~  161 (461)
T 1z7x_W           82 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEP  161 (461)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             hCCCceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHH
Confidence                79999999985332    234 588899999999999987732 22    2 234678999999999886533   


Q ss_pred             -CccccCCCCCcEEEcccCCCcccccHHHHHh-----hhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCC
Q 012249          173 -AGILPRLRSLYKLKLSFGNEALRETVEEAAR-----LSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMG  246 (467)
Q Consensus       173 -~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~-----l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~  246 (467)
                       ...+..+++|++|++++|.... ..+..+..     . ++|+.|+++++......                        
T Consensus       162 l~~~l~~~~~L~~L~L~~n~i~~-~~~~~l~~~l~~~~-~~L~~L~L~~n~l~~~~------------------------  215 (461)
T 1z7x_W          162 LASVLRAKPDFKELTVSNNDINE-AGVRVLCQGLKDSP-CQLEALKLESCGVTSDN------------------------  215 (461)
T ss_dssp             HHHHHHHCTTCCEEECCSSBCHH-HHHHHHHHHHHHSC-CCCCEEECTTSCCBTTH------------------------
T ss_pred             HHHHHhhCCCCCEEECcCCCcch-HHHHHHHHHHhcCC-CCceEEEccCCCCcHHH------------------------
Confidence             1224678999999999986533 22334433     3 59999999988764321                        


Q ss_pred             ccccccccccceeeeecCccccchhhhh-----------hhcccceeeeeecccccccccccccccccccccCccccccE
Q 012249          247 GCLVTHLEVDKSVFLYGCKICEIKETIV-----------LLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDLKV  315 (467)
Q Consensus       247 ~~~~~~~~~~~~~~L~~l~l~~~~~~~~-----------~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L~~  315 (467)
                       ...++..+..+++|+.++++++.....           ....++.|.+.+| .++..... .+   ......++. |++
T Consensus       216 -~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n-~l~~~~~~-~l---~~~l~~~~~-L~~  288 (461)
T 1z7x_W          216 -CRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWEC-GITAKGCG-DL---CRVLRAKES-LKE  288 (461)
T ss_dssp             -HHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHH-HH---HHHHHHCTT-CCE
T ss_pred             -HHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCC-CCCHHHHH-HH---HHHHhhCCC-cce
Confidence             000111133445677777777652211           1356777777766 23321100 00   001222466 999


Q ss_pred             EEEecCCCCccccccchHHh----hhccceeeeCCccchhhhhcccCchhhhhhcccccccccccccccccccccccccc
Q 012249          316 LRFDSCKNLKNLFSLRLLPA----LQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFK  391 (467)
Q Consensus       316 L~l~~c~~l~~l~~~~~~~~----l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  391 (467)
                      |+++++. +++.........    .++|+.|++++|. +........           ......+++|++|++.++. +.
T Consensus       289 L~Ls~n~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l-----------~~~l~~~~~L~~L~Ls~n~-i~  354 (461)
T 1z7x_W          289 LSLAGNE-LGDEGARLLCETLLEPGCQLESLWVKSCS-FTAACCSHF-----------SSVLAQNRFLLELQISNNR-LE  354 (461)
T ss_dssp             EECTTCC-CHHHHHHHHHHHHTSTTCCCCEEECTTSC-CBGGGHHHH-----------HHHHHHCSSCCEEECCSSB-CH
T ss_pred             EECCCCC-CchHHHHHHHHHhccCCccceeeEcCCCC-CchHHHHHH-----------HHHHhhCCCccEEEccCCc-cc
Confidence            9999863 443222111122    2589999999874 332210000           0011267999999999874 44


Q ss_pred             ccccCCCc----cccCCcceEEEeCCCCcc-----ccCCccCcccCCCCCCCCcceeeeeh
Q 012249          392 SFCSYNGV----LVCNSLQEIEVRRCPKLK-----RLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       392 ~~~~~~~~----~~~~~L~~L~i~~C~~L~-----~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      +.......    ...++|++|.+.+| +++     .+|..+...+        +|+++++.
T Consensus       355 ~~~~~~l~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~--------~L~~L~l~  406 (461)
T 1z7x_W          355 DAGVRELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANH--------SLRELDLS  406 (461)
T ss_dssp             HHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCC--------CCCEEECC
T ss_pred             cccHHHHHHHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhCC--------CccEEECC
Confidence            33211100    12679999999999 565     4665554443        66666655

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.71  E-value=5.4e-17  Score=147.32  Aligned_cols=191  Identities=14%  Similarity=0.146  Sum_probs=156.6

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCC-CcccCCCccCCCCCCCEEEccC-CCCCCCCchhHhhcCCCCcEEEcc
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNN-IEEIPSNMSPHCEILSTLLLQR-NENLQRIPECFFVHMHGLKVVNLS   95 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~-~~~l~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~L~~L~l~   95 (467)
                      .+...++.+..+|. .+..+++|++|++++|. ++.++...+.++++|+.|++++ |. +..++...|..+++|++|+++
T Consensus        35 ~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~-l~~i~~~~f~~l~~L~~L~l~  113 (239)
T 2xwt_C           35 TLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRN-LTYIDPDALKELPLLKFLGIF  113 (239)
T ss_dssp             EEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETT-CCEECTTSEECCTTCCEEEEE
T ss_pred             EEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCC-eeEcCHHHhCCCCCCCEEeCC
Confidence            45666778888877 67889999999999996 8888877777899999999998 76 667776667889999999999


Q ss_pred             CCCCCCchhhhhcCcCCC---EEEcCCCCCCCcCC--CccccCCcc-EEEccCCcCccccccccCCCCCcEEeccCCC-C
Q 012249           96 STDIEVLPSSVSDLTNLR---SLSLGWCRRLKRVP--SLARLLALQ-YLDLYDTRIEEVPEGMEMLENLSHLYLSSLQ-L  168 (467)
Q Consensus        96 ~~~~~~l~~~~~~l~~L~---~L~l~~~~~~~~~p--~l~~l~~L~-~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~-~  168 (467)
                      +|.+..+|. +..+++|+   +|++++|..++.+|  .+..+++|+ +|++++|.++.+|......++|+.|++++|+ +
T Consensus       114 ~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~~~L~~L~L~~n~~l  192 (239)
T 2xwt_C          114 NTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYL  192 (239)
T ss_dssp             EECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTTTCEEEEEECTTCTTC
T ss_pred             CCCCccccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcCCCCCCEEEcCCCCCc
Confidence            999998886 78888888   99999975677666  488999999 9999999999888765555899999999995 8


Q ss_pred             CCcCCccccCC-CCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          169 KKFPAGILPRL-RSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       169 ~~~~~~~l~~l-~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      ..++...+.++ ++|+.|++++|....... .   .+ ++|+.|.+.++
T Consensus       193 ~~i~~~~~~~l~~~L~~L~l~~N~l~~l~~-~---~~-~~L~~L~l~~~  236 (239)
T 2xwt_C          193 TVIDKDAFGGVYSGPSLLDVSQTSVTALPS-K---GL-EHLKELIARNT  236 (239)
T ss_dssp             CEECTTTTTTCSBCCSEEECTTCCCCCCCC-T---TC-TTCSEEECTTC
T ss_pred             ccCCHHHhhccccCCcEEECCCCccccCCh-h---Hh-ccCceeeccCc
Confidence            88888777888 999999999986654332 1   56 78888887654

>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=99.71  E-value=1.5e-18  Score=179.05  Aligned_cols=366  Identities=15%  Similarity=0.096  Sum_probs=186.7

Q ss_pred             CCCCccEEEeecCCCccc-CCCccCCCCC-CCEEEccCCCCCCC-CchhHhhcCCCCcEEEccCCCCCC-----chhhhh
Q 012249           36 WEENLERVSLMRNNIEEI-PSNMSPHCEI-LSTLLLQRNENLQR-IPECFFVHMHGLKVVNLSSTDIEV-----LPSSVS  107 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l-~~~~~~~l~~-L~~L~l~~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~-----l~~~~~  107 (467)
                      .+++|++|+++++.++.. ...+...+++ |+.|++.+|..... -...+...+++|++|++++|.+..     ++....
T Consensus       110 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~  189 (592)
T 3ogk_B          110 NLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQ  189 (592)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHH
T ss_pred             hCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHh
Confidence            355666666666654421 1111111333 66666666642111 011223466777777777775431     333445


Q ss_pred             cCcCCCEEEcCCCCCC----CcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCC----CCcCCccccC
Q 012249          108 DLTNLRSLSLGWCRRL----KRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQL----KKFPAGILPR  178 (467)
Q Consensus       108 ~l~~L~~L~l~~~~~~----~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~----~~~~~~~l~~  178 (467)
                      .+++|++|++++|...    ..++ .+.++++|++|++++|.+..+|..+..+++|++|+++.+..    ...+.. +..
T Consensus       190 ~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~-l~~  268 (592)
T 3ogk_B          190 HNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMN-LVF  268 (592)
T ss_dssp             HCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSC-CCC
T ss_pred             cCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHH-hhc
Confidence            6677777777765332    1122 24566777777777777666766677777777777764321    112222 356


Q ss_pred             CCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccce
Q 012249          179 LRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKS  258 (467)
Q Consensus       179 l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~  258 (467)
                      +++|+.|++..+.....  ...+..+ ++|+.|+++++...... ..........+   +.|.................+
T Consensus       269 ~~~L~~L~l~~~~~~~l--~~~~~~~-~~L~~L~Ls~~~l~~~~-~~~~~~~~~~L---~~L~L~~~~~~~~l~~~~~~~  341 (592)
T 3ogk_B          269 PRKLCRLGLSYMGPNEM--PILFPFA-AQIRKLDLLYALLETED-HCTLIQKCPNL---EVLETRNVIGDRGLEVLAQYC  341 (592)
T ss_dssp             CTTCCEEEETTCCTTTG--GGGGGGG-GGCCEEEETTCCCCHHH-HHHHHTTCTTC---CEEEEEGGGHHHHHHHHHHHC
T ss_pred             cccccccCccccchhHH--HHHHhhc-CCCcEEecCCCcCCHHH-HHHHHHhCcCC---CEEeccCccCHHHHHHHHHhC
Confidence            66777776665421111  1234455 78888888877643211 11101111111   111111000001111112344


Q ss_pred             eeeecCcccc----------c-hhh-------hhhhcccceeeeeecccccccccccccccccccccC-ccccccEEEEe
Q 012249          259 VFLYGCKICE----------I-KET-------IVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGK-FSHDLKVLRFD  319 (467)
Q Consensus       259 ~~L~~l~l~~----------~-~~~-------~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~-~~~~L~~L~l~  319 (467)
                      ++|+.|++..          + ...       ....+.++.|.+ .|..++...        ...... +++ |++|++.
T Consensus       342 ~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l-~~~~l~~~~--------~~~l~~~~~~-L~~L~l~  411 (592)
T 3ogk_B          342 KQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNES--------LESIGTYLKN-LCDFRLV  411 (592)
T ss_dssp             TTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEE-EESCCCHHH--------HHHHHHHCCS-CCEEEEE
T ss_pred             CCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEe-ecCCccHHH--------HHHHHhhCCC-CcEEEEe
Confidence            5667777662          2 110       112346667766 444433211        111222 566 9999998


Q ss_pred             c---CCCCccccc----cchHHhhhccceeeeCCccc-hhhhhcccCchhhhhhcccccccccccccccccccccccccc
Q 012249          320 S---CKNLKNLFS----LRLLPALQNLKVLAVISCNS-IEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFK  391 (467)
Q Consensus       320 ~---c~~l~~l~~----~~~~~~l~~L~~L~l~~c~~-l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  391 (467)
                      +   |+.+++.+.    ...+.++++|+.|+++.|.+ +.+.....            +  ...+++|+.|++.+|. ++
T Consensus       412 ~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~------------~--~~~~~~L~~L~L~~n~-l~  476 (592)
T 3ogk_B          412 LLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSY------------I--GQYSPNVRWMLLGYVG-ES  476 (592)
T ss_dssp             ECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHH------------H--HHSCTTCCEEEECSCC-SS
T ss_pred             ecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHH------------H--HHhCccceEeeccCCC-CC
Confidence            4   556665311    11256788999999987764 22211000            0  1158999999999876 43


Q ss_pred             ccccCCCccccCCcceEEEeCCCCccc--cCCccCcccCCCCCCCCcceeeeeh
Q 012249          392 SFCSYNGVLVCNSLQEIEVRRCPKLKR--LSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       392 ~~~~~~~~~~~~~L~~L~i~~C~~L~~--lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      ..........+++|++|++.+|+ +++  ++.....        +++|+.+.+.
T Consensus       477 ~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~~--------l~~L~~L~ls  521 (592)
T 3ogk_B          477 DEGLMEFSRGCPNLQKLEMRGCC-FSERAIAAAVTK--------LPSLRYLWVQ  521 (592)
T ss_dssp             HHHHHHHHTCCTTCCEEEEESCC-CBHHHHHHHHHH--------CSSCCEEEEE
T ss_pred             HHHHHHHHhcCcccCeeeccCCC-CcHHHHHHHHHh--------cCccCeeECc
Confidence            32111111457999999999998 654  3332323        3488888877

>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=99.70  E-value=1.9e-16  Score=149.28  Aligned_cols=184  Identities=20%  Similarity=0.293  Sum_probs=150.4

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+..+..++ .+..+++|++|++++|.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+
T Consensus        46 L~l~~~~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~l~~n~l  119 (308)
T 1h6u_A           46 LSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNP-LKNVSA--IAGLQSIKTLDLTSTQI  119 (308)
T ss_dssp             EECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCC-CSCCGG--GTTCTTCCEEECTTSCC
T ss_pred             EEeeCCCccCch-hhhccCCCCEEEccCCcCCCChh--HccCCCCCEEEccCCc-CCCchh--hcCCCCCCEEECCCCCC
Confidence            455566777776 57788899999999998887766  4588999999999997 555653  57899999999999998


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++. +..+++|++|++++| .+..++.+..+++|++|++++|.++.++. +..+++|++|++++|.+.+++.  +..+
T Consensus       120 ~~~~~-l~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~--l~~l  194 (308)
T 1h6u_A          120 TDVTP-LAGLSNLQVLYLDLN-QITNISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKISDISP--LASL  194 (308)
T ss_dssp             CCCGG-GTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG--GGGC
T ss_pred             CCchh-hcCCCCCCEEECCCC-ccCcCccccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCccCcChh--hcCC
Confidence            88765 888999999999986 56666668889999999999998888776 8889999999999999888776  4788


Q ss_pred             CCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          180 RSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       180 ~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ++|+.|++++|......   .+..+ ++|+.|+++++.+
T Consensus       195 ~~L~~L~L~~N~l~~~~---~l~~l-~~L~~L~l~~N~i  229 (308)
T 1h6u_A          195 PNLIEVHLKNNQISDVS---PLANT-SNLFIVTLTNQTI  229 (308)
T ss_dssp             TTCCEEECTTSCCCBCG---GGTTC-TTCCEEEEEEEEE
T ss_pred             CCCCEEEccCCccCccc---cccCC-CCCCEEEccCCee
Confidence            99999999998765543   36778 8899999887765

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

Probab=99.70  E-value=2.9e-18  Score=162.65  Aligned_cols=171  Identities=14%  Similarity=0.115  Sum_probs=132.9

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCE
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~  114 (467)
                      ..+++|++|++++|.++.++...+..+++|+.|++++|.+ ...++  +..+++|++|++++|.+..++    ..++|++
T Consensus        31 ~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~--~~~l~~L~~L~Ls~n~l~~l~----~~~~L~~  103 (317)
T 3o53_A           31 QSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVL-YETLD--LESLSTLRTLDLNNNYVQELL----VGPSIET  103 (317)
T ss_dssp             TTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCC-EEEEE--ETTCTTCCEEECCSSEEEEEE----ECTTCCE
T ss_pred             ccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcC-Ccchh--hhhcCCCCEEECcCCcccccc----CCCCcCE
Confidence            3456899999999999887766666899999999999984 44443  588999999999999887665    3489999


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCc-cccCCCCCcEEEcccCCC
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAG-ILPRLRSLYKLKLSFGNE  192 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~  192 (467)
                      |++++|. +...+ ...+++|++|++++|.++.++. .++.+++|++|++++|.+..++.. +...+++|++|++++|..
T Consensus       104 L~l~~n~-l~~~~-~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l  181 (317)
T 3o53_A          104 LHAANNN-ISRVS-CSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFI  181 (317)
T ss_dssp             EECCSSC-CSEEE-ECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCC
T ss_pred             EECCCCc-cCCcC-ccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcC
Confidence            9999974 44444 1236789999999999987755 588899999999999998776543 335789999999999876


Q ss_pred             cccccHHHHHhhhccCcEEEcccCCc
Q 012249          193 ALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       193 ~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .....   ...+ ++|+.|++++|.+
T Consensus       182 ~~~~~---~~~l-~~L~~L~Ls~N~l  203 (317)
T 3o53_A          182 YDVKG---QVVF-AKLKTLDLSSNKL  203 (317)
T ss_dssp             CEEEC---CCCC-TTCCEEECCSSCC
T ss_pred             ccccc---cccc-ccCCEEECCCCcC
Confidence            54422   2346 8888888887765

>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=3.2e-16  Score=150.63  Aligned_cols=196  Identities=15%  Similarity=0.155  Sum_probs=158.6

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcE-EEccCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKV-VNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~-L~l~~~   97 (467)
                      .+...+.++.++|..+  .+++++|++++|.++.++...|.++++|+.|++++|.....++...|.++++++. +.+.+|
T Consensus        13 ~v~C~~~~Lt~iP~~l--~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N   90 (350)
T 4ay9_X           13 VFLCQESKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN   90 (350)
T ss_dssp             EEEEESTTCCSCCTTC--CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEET
T ss_pred             EEEecCCCCCccCcCc--CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCC
Confidence            4567778899999876  3589999999999999999888899999999999998667788877889988775 566678


Q ss_pred             CCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCC-cCcccccc-ccCC-CCCcEEeccCCCCCCc
Q 012249           98 DIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDT-RIEEVPEG-MEML-ENLSHLYLSSLQLKKF  171 (467)
Q Consensus        98 ~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~-~~~~lp~~-~~~l-~~L~~L~l~~~~~~~~  171 (467)
                      .+..+ |..+..+++|++|++++| .+..+|  ......++..+++.++ .+..++.. +..+ ..++.|++++|.++.+
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~l~~n-~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i  169 (350)
T 4ay9_X           91 NLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEI  169 (350)
T ss_dssp             TCCEECTTSBCCCTTCCEEEEEEE-CCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEE
T ss_pred             cccccCchhhhhcccccccccccc-ccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCC
Confidence            89877 466789999999999996 566666  4556677889999776 78888754 5555 4689999999999999


Q ss_pred             CCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          172 PAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       172 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      +..+ ....+|+++.+..+...+..+...++.+ ++|+.|+++.+.+.
T Consensus       170 ~~~~-f~~~~L~~l~l~~~n~l~~i~~~~f~~l-~~L~~LdLs~N~l~  215 (350)
T 4ay9_X          170 HNSA-FNGTQLDELNLSDNNNLEELPNDVFHGA-SGPVILDISRTRIH  215 (350)
T ss_dssp             CTTS-STTEEEEEEECTTCTTCCCCCTTTTTTE-ECCSEEECTTSCCC
T ss_pred             Chhh-ccccchhHHhhccCCcccCCCHHHhccC-cccchhhcCCCCcC
Confidence            9887 4667899999987555555554567889 99999999888653

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

Probab=99.69  E-value=8.7e-16  Score=142.14  Aligned_cols=170  Identities=28%  Similarity=0.406  Sum_probs=144.3

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...++.+..++ .+..+++|++|++++|.+..++  .+..+++|+.|++++|. +..++...+..+++|++|++++|.+
T Consensus        46 L~l~~~~i~~~~-~l~~l~~L~~L~l~~n~l~~~~--~l~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l  121 (272)
T 3rfs_A           46 IIANNSDIKSVQ-GIQYLPNVRYLALGGNKLHDIS--ALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVENQL  121 (272)
T ss_dssp             EECTTSCCCCCT-TGGGCTTCCEEECTTSCCCCCG--GGTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCC
T ss_pred             eeeCCCCccccc-ccccCCCCcEEECCCCCCCCch--hhcCCCCCCEEECCCCc-cCccChhHhcCCcCCCEEECCCCcC
Confidence            455566666655 4788999999999999998764  34589999999999998 6677777678999999999999999


Q ss_pred             CCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCcc
Q 012249          100 EVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus       100 ~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      ..++. .+..+++|++|++++| .+..++  .+..+++|++|++++|.++.++.. ++.+++|++|++++|.+..++...
T Consensus       122 ~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~  200 (272)
T 3rfs_A          122 QSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGV  200 (272)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTT
T ss_pred             CccCHHHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHH
Confidence            97764 4689999999999997 455655  478999999999999999988765 689999999999999999888877


Q ss_pred             ccCCCCCcEEEcccCCCcc
Q 012249          176 LPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~  194 (467)
                      ++++++|+.|++++|....
T Consensus       201 ~~~l~~L~~L~l~~N~~~~  219 (272)
T 3rfs_A          201 FDRLTSLQYIWLHDNPWDC  219 (272)
T ss_dssp             TTTCTTCCEEECCSSCBCC
T ss_pred             HhCCcCCCEEEccCCCccc
Confidence            7999999999999986543

>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=99.68  E-value=7.1e-16  Score=140.96  Aligned_cols=174  Identities=25%  Similarity=0.363  Sum_probs=148.8

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEc
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSL  117 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l  117 (467)
                      ..++++++++.++.+|..+.   ++++.|++++|. +..++...+.++++|++|++++|.+..++ ..+..+++|++|++
T Consensus        15 ~~~~l~~~~~~l~~~p~~~~---~~l~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGIP---ADTEKLDLQSTG-LATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCCC---TTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCeEEecCCCCccccCCCCC---CCCCEEEccCCC-cCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            56789999999999988753   689999999998 55666555689999999999999999765 45789999999999


Q ss_pred             CCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          118 GWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       118 ~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      ++|. +..++  .+..+++|++|++++|.++.+|.. +..+++|++|++++|.+..++...++++++|+.|++++|....
T Consensus        91 ~~n~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~  169 (251)
T 3m19_A           91 ANNQ-LASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQS  169 (251)
T ss_dssp             TTSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSC
T ss_pred             CCCc-ccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCc
Confidence            9975 55555  578999999999999999988875 6899999999999999999998767899999999999997764


Q ss_pred             cccHHHHHhhhccCcEEEcccCCcc
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      ... ..+..+ ++|+.|++++|.+.
T Consensus       170 ~~~-~~~~~l-~~L~~L~l~~N~~~  192 (251)
T 3m19_A          170 VPH-GAFDRL-GKLQTITLFGNQFD  192 (251)
T ss_dssp             CCT-TTTTTC-TTCCEEECCSCCBC
T ss_pred             cCH-HHHhCC-CCCCEEEeeCCcee
Confidence            433 567888 99999999998763

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

Probab=99.67  E-value=3.9e-16  Score=156.65  Aligned_cols=148  Identities=18%  Similarity=0.145  Sum_probs=89.8

Q ss_pred             CCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEc
Q 012249           61 CEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDL  140 (467)
Q Consensus        61 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l  140 (467)
                      +++|+.|++++|. +..+++..|..+++|++|++++|.+...++ +..+++|++|++++| .+..+|   ..++|++|++
T Consensus        33 ~~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N-~l~~l~---~~~~L~~L~L  106 (487)
T 3oja_A           33 AWNVKELDLSGNP-LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNNN-YVQELL---VGPSIETLHA  106 (487)
T ss_dssp             GGGCCEEECCSSC-CCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCSS-EEEEEE---ECTTCCEEEC
T ss_pred             CCCccEEEeeCCc-CCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecCC-cCCCCC---CCCCcCEEEC
Confidence            3467777777766 344444444667777777777776664443 666677777777765 233332   2366777777


Q ss_pred             cCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHH-hhhccCcEEEcccCCc
Q 012249          141 YDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAA-RLSDRLDYFEGYFSTL  218 (467)
Q Consensus       141 ~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~-~l~~~L~~L~l~~~~~  218 (467)
                      ++|.++.++..  .+++|+.|++++|.+..++...++++++|+.|++++|......+ ..+. .+ ++|+.|++++|.+
T Consensus       107 ~~N~l~~~~~~--~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-~~l~~~l-~~L~~L~Ls~N~l  181 (487)
T 3oja_A          107 ANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNF-AELAASS-DTLEHLNLQYNFI  181 (487)
T ss_dssp             CSSCCCCEEEC--CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEG-GGGGGGT-TTCCEEECTTSCC
T ss_pred             cCCcCCCCCcc--ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcCh-HHHhhhC-CcccEEecCCCcc
Confidence            77766655432  35667777777777766654444667777777777765544332 3333 56 6777777766654

>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=99.66  E-value=1.3e-17  Score=172.07  Aligned_cols=126  Identities=19%  Similarity=0.203  Sum_probs=60.5

Q ss_pred             CCCccEEEeecCCCccc-CCCccCCCCCCCEEEccCCCCCCC-CchhHhhcCCCCcEEEccCCCCCC-----chhhhhcC
Q 012249           37 EENLERVSLMRNNIEEI-PSNMSPHCEILSTLLLQRNENLQR-IPECFFVHMHGLKVVNLSSTDIEV-----LPSSVSDL  109 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l-~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~-----l~~~~~~l  109 (467)
                      +++|++|+++++.++.. ...+...+++|+.|++.+|..... ....++..+++|++|++++|.+..     ++.....+
T Consensus       104 ~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~  183 (594)
T 2p1m_B          104 YTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTY  183 (594)
T ss_dssp             CTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTC
T ss_pred             CCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcC
Confidence            45566666666554421 111111355666666666532222 112233456666666666665331     22222345


Q ss_pred             cCCCEEEcCCCCCCCcCC-----C-ccccCCccEEEccCC-cCccccccccCCCCCcEEecc
Q 012249          110 TNLRSLSLGWCRRLKRVP-----S-LARLLALQYLDLYDT-RIEEVPEGMEMLENLSHLYLS  164 (467)
Q Consensus       110 ~~L~~L~l~~~~~~~~~p-----~-l~~l~~L~~L~l~~~-~~~~lp~~~~~l~~L~~L~l~  164 (467)
                      ++|++|++++|.  ..+.     . ...+++|++|++++| .+..+|..+.++++|++|+++
T Consensus       184 ~~L~~L~l~~~~--~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~  243 (594)
T 2p1m_B          184 TSLVSLNISCLA--SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTG  243 (594)
T ss_dssp             CCCCEEECTTCC--SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECS
T ss_pred             CcCcEEEecccC--CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccc
Confidence            566666666553  1111     1 234466666666665 444454445555555555543

>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=99.65  E-value=1.6e-15  Score=141.72  Aligned_cols=171  Identities=23%  Similarity=0.282  Sum_probs=147.7

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCE
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~  114 (467)
                      ..+++++.|+++++.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+..++. +..+++|++
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~  116 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNK-LTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKS  116 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCE
T ss_pred             hhcCcccEEEccCCCcccChh--HhcCCCCCEEEccCCc-cCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCE
Confidence            457789999999999988864  3479999999999998 556665  5899999999999999998765 899999999


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      |++++| .+..++.+..+++|++|++++|.++.+ ..++.+++|++|++++|.+.+++.  +..+++|+.|++++|....
T Consensus       117 L~L~~n-~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~--l~~l~~L~~L~L~~N~i~~  192 (291)
T 1h6t_A          117 LSLEHN-GISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISD  192 (291)
T ss_dssp             EECTTS-CCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCB
T ss_pred             EECCCC-cCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCccccchh--hcCCCccCEEECCCCcCCC
Confidence            999997 566677899999999999999999988 578999999999999999988876  5899999999999996655


Q ss_pred             cccHHHHHhhhccCcEEEcccCCcc
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .   ..+..+ ++|+.|+++++...
T Consensus       193 l---~~l~~l-~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          193 L---RALAGL-KNLDVLELFSQECL  213 (291)
T ss_dssp             C---GGGTTC-TTCSEEEEEEEEEE
T ss_pred             C---hhhccC-CCCCEEECcCCccc
Confidence            3   347888 99999999888653

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

Probab=99.63  E-value=1e-15  Score=144.68  Aligned_cols=178  Identities=19%  Similarity=0.161  Sum_probs=107.5

Q ss_pred             CCCCccEEEeecCCCc-ccCCCcc-CCCCCCCEEEccCCCCCCCCchhHhhcC-----CCCcEEEccCCCCCCch-hhhh
Q 012249           36 WEENLERVSLMRNNIE-EIPSNMS-PHCEILSTLLLQRNENLQRIPECFFVHM-----HGLKVVNLSSTDIEVLP-SSVS  107 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~-~l~~~~~-~~l~~L~~L~l~~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~l~-~~~~  107 (467)
                      .+++|++|++++|.+. ..|..++ ..+++|+.|++++|. +...|.. +..+     ++|++|++++|.+..++ ..++
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~  170 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS-WATRDAW-LAELQQWLKPGLKVLSIAQAHSLNFSCEQVR  170 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCB-CSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCCCTTTCC
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCC-CcchhHH-HHHHHHhhcCCCcEEEeeCCCCccchHHHhc
Confidence            4567777777777776 4555442 467777777777776 3333433 3444     67777777777777554 5667


Q ss_pred             cCcCCCEEEcCCCCCCCcC--C-C--ccccCCccEEEccCCcCccccc---c-ccCCCCCcEEeccCCCCCCcC-Ccccc
Q 012249          108 DLTNLRSLSLGWCRRLKRV--P-S--LARLLALQYLDLYDTRIEEVPE---G-MEMLENLSHLYLSSLQLKKFP-AGILP  177 (467)
Q Consensus       108 ~l~~L~~L~l~~~~~~~~~--p-~--l~~l~~L~~L~l~~~~~~~lp~---~-~~~l~~L~~L~l~~~~~~~~~-~~~l~  177 (467)
                      .+++|++|++++|...+..  + .  +..+++|++|++++|.++.++.   . +..+++|++|++++|.+...+ ...+.
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  250 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCD  250 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCC
T ss_pred             cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhh
Confidence            7777777777776544331  2 2  2667777777777777664332   2 346677777777777765543 22235


Q ss_pred             CCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          178 RLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .+++|+.|++++|.......  .+  . ++|+.|++++|.+..
T Consensus       251 ~l~~L~~L~Ls~N~l~~ip~--~~--~-~~L~~L~Ls~N~l~~  288 (312)
T 1wwl_A          251 WPSQLNSLNLSFTGLKQVPK--GL--P-AKLSVLDLSYNRLDR  288 (312)
T ss_dssp             CCTTCCEEECTTSCCSSCCS--SC--C-SEEEEEECCSSCCCS
T ss_pred             hcCCCCEEECCCCccChhhh--hc--c-CCceEEECCCCCCCC
Confidence            56777777777765542211  11  1 466777777766544

>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=99.62  E-value=1.1e-14  Score=136.09  Aligned_cols=164  Identities=24%  Similarity=0.357  Sum_probs=142.3

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...++.+..++. +..+++|++|++++|.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.
T Consensus        50 ~L~l~~~~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~L~~n~  123 (291)
T 1h6t_A           50 QIIANNSDIKSVQG-IQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLSS--LKDLKKLKSLSLEHNG  123 (291)
T ss_dssp             EEECTTSCCCCCTT-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGGG--GTTCTTCCEEECTTSC
T ss_pred             EEEccCCCcccChh-HhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCc-CCCChh--hccCCCCCEEECCCCc
Confidence            35556777777754 7889999999999999998776  4589999999999998 556654  5899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      +..++ .+..+++|++|++++| .+..++.+..+++|++|++++|.++.++. +..+++|++|++++|.+..++.  +..
T Consensus       124 i~~~~-~l~~l~~L~~L~l~~n-~l~~~~~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~~l~~--l~~  198 (291)
T 1h6t_A          124 ISDIN-GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRA--LAG  198 (291)
T ss_dssp             CCCCG-GGGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGG--GTT
T ss_pred             CCCCh-hhcCCCCCCEEEccCC-cCCcchhhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcCCCChh--hcc
Confidence            99874 6889999999999997 56666789999999999999999998876 9999999999999999998875  589


Q ss_pred             CCCCcEEEcccCCCc
Q 012249          179 LRSLYKLKLSFGNEA  193 (467)
Q Consensus       179 l~~L~~L~l~~~~~~  193 (467)
                      +++|+.|++++|...
T Consensus       199 l~~L~~L~l~~n~i~  213 (291)
T 1h6t_A          199 LKNLDVLELFSQECL  213 (291)
T ss_dssp             CTTCSEEEEEEEEEE
T ss_pred             CCCCCEEECcCCccc
Confidence            999999999998543

>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=99.61  E-value=5.1e-16  Score=148.33  Aligned_cols=172  Identities=18%  Similarity=0.134  Sum_probs=122.5

Q ss_pred             CccEEEeecCCCcccCCCccCCC--CCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC--chhhhhcCcCCCE
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHC--EILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV--LPSSVSDLTNLRS  114 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l--~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~--l~~~~~~l~~L~~  114 (467)
                      .++.++++++.+..   ..+..+  ++++.+++.++.+....+ .+ ..+++|++|++++|.+..  ++..+..+++|++
T Consensus        48 ~~~~l~l~~~~~~~---~~~~~~~~~~l~~L~l~~n~l~~~~~-~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~  122 (336)
T 2ast_B           48 LWQTLDLTGKNLHP---DVTGRLLSQGVIAFRCPRSFMDQPLA-EH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQN  122 (336)
T ss_dssp             TSSEEECTTCBCCH---HHHHHHHHTTCSEEECTTCEECSCCC-SC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSE
T ss_pred             hheeeccccccCCH---HHHHhhhhccceEEEcCCccccccch-hh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCE
Confidence            46788888776651   122244  788888888887433333 33 478888899988888762  6777788888999


Q ss_pred             EEcCCCCCCCcCC-CccccCCccEEEccCC-cCc--cccccccCCCCCcEEeccCC-CCCC--cCCccccCCC-CCcEEE
Q 012249          115 LSLGWCRRLKRVP-SLARLLALQYLDLYDT-RIE--EVPEGMEMLENLSHLYLSSL-QLKK--FPAGILPRLR-SLYKLK  186 (467)
Q Consensus       115 L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~-~~~--~lp~~~~~l~~L~~L~l~~~-~~~~--~~~~~l~~l~-~L~~L~  186 (467)
                      |++++|......+ .++++++|++|++++| .++  .++..+.++++|++|++++| .+..  ++.. +..++ +|++|+
T Consensus       123 L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-~~~l~~~L~~L~  201 (336)
T 2ast_B          123 LSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA-VAHVSETITQLN  201 (336)
T ss_dssp             EECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH-HHHSCTTCCEEE
T ss_pred             EeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH-HHhcccCCCEEE
Confidence            9988875433444 5777888999999888 677  36666788889999999888 7754  3443 37788 899999


Q ss_pred             cccCC--CcccccHHHHHhhhccCcEEEcccCC
Q 012249          187 LSFGN--EALRETVEEAARLSDRLDYFEGYFST  217 (467)
Q Consensus       187 l~~~~--~~~~~~~~~l~~l~~~L~~L~l~~~~  217 (467)
                      +++|.  .....-...+..+ ++|+.|+++.+.
T Consensus       202 l~~~~~~~~~~~l~~~~~~~-~~L~~L~l~~~~  233 (336)
T 2ast_B          202 LSGYRKNLQKSDLSTLVRRC-PNLVHLDLSDSV  233 (336)
T ss_dssp             CCSCGGGSCHHHHHHHHHHC-TTCSEEECTTCT
T ss_pred             eCCCcccCCHHHHHHHHhhC-CCCCEEeCCCCC
Confidence            98874  2222222355677 899999998775

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

Probab=99.61  E-value=3.1e-15  Score=144.30  Aligned_cols=171  Identities=23%  Similarity=0.330  Sum_probs=97.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhh-cCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEcC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFV-HMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSLG  118 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l~  118 (467)
                      +.++.+++.++.+|..+.   +.++.|++++|. +..++...+. .+++|++|++++|.+..++ ..+..+++|++|+++
T Consensus        21 ~~l~c~~~~l~~iP~~~~---~~l~~L~Ls~N~-l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   96 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSLP---SYTALLDLSHNN-LSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLS   96 (361)
T ss_dssp             TEEECCSSCCSSCCSSCC---TTCSEEECCSSC-CCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEEEeCCCCcCccCccCC---CCCCEEECCCCC-CCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECC
Confidence            355555566665555432   345666666665 4444444444 5666666666666666544 345566666666666


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCCCcCCccc---cCCCCCcEEEcccCCC
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLKKFPAGIL---PRLRSLYKLKLSFGNE  192 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~~~~~~~l---~~l~~L~~L~l~~~~~  192 (467)
                      +|. +..++  .+..+.+|++|++++|.++.+ |..+..+++|++|++++|.+..+|..++   ..+++|+.|++++|.+
T Consensus        97 ~N~-l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l  175 (361)
T 2xot_A           97 SNH-LHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKL  175 (361)
T ss_dssp             SSC-CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCC
T ss_pred             CCc-CCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCC
Confidence            653 33333  356666666666666666655 3346666666666666666666666554   3466666666666644


Q ss_pred             cccccHHHHHhhhcc--CcEEEcccCCc
Q 012249          193 ALRETVEEAARLSDR--LDYFEGYFSTL  218 (467)
Q Consensus       193 ~~~~~~~~l~~l~~~--L~~L~l~~~~~  218 (467)
                      .. .+...+..+ +.  ++.|++.+|.+
T Consensus       176 ~~-l~~~~~~~l-~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          176 KK-LPLTDLQKL-PAWVKNGLYLHNNPL  201 (361)
T ss_dssp             CC-CCHHHHHHS-CHHHHTTEECCSSCE
T ss_pred             Cc-cCHHHhhhc-cHhhcceEEecCCCc
Confidence            32 333455555 44  35666666654

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

Probab=99.61  E-value=2.5e-15  Score=150.70  Aligned_cols=185  Identities=18%  Similarity=0.106  Sum_probs=111.9

Q ss_pred             EEEcCCCcccCC-cCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           20 MVKAGLRLLEFP-GEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        20 ~~~~~~~l~~~~-~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      +..+++.+..++ ..+..+++|++|++++|.+...++  +..+++|+.|++++|. +..++     ..++|++|++++|.
T Consensus        39 L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~-----~~~~L~~L~L~~N~  110 (487)
T 3oja_A           39 LDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNY-VQELL-----VGPSIETLHAANNN  110 (487)
T ss_dssp             EECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSE-EEEEE-----ECTTCCEEECCSSC
T ss_pred             EEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCc-CCCCC-----CCCCcCEEECcCCc
Confidence            444455555554 345556666666666666554333  3356666666666664 33332     22566666666666


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcc-cccccc-CCCCCcEEeccCCCCCCcCCcc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEE-VPEGME-MLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~-lp~~~~-~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      +..++.  ..+++|++|++++|......| .++.+++|++|++++|.++. .|..+. .+++|++|++++|.+..++.. 
T Consensus       111 l~~~~~--~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~~-  187 (487)
T 3oja_A          111 ISRVSC--SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQ-  187 (487)
T ss_dssp             CCCEEE--CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECC-
T ss_pred             CCCCCc--cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCcccccccc-
Confidence            665543  345677777777764444334 56777777777777777765 344444 677777777777777666553 


Q ss_pred             ccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          176 LPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                       ..+++|+.|++++|......+  .+..+ ++|+.|++++|.+.
T Consensus       188 -~~l~~L~~L~Ls~N~l~~~~~--~~~~l-~~L~~L~Ls~N~l~  227 (487)
T 3oja_A          188 -VVFAKLKTLDLSSNKLAFMGP--EFQSA-AGVTWISLRNNKLV  227 (487)
T ss_dssp             -CCCTTCCEEECCSSCCCEECG--GGGGG-TTCSEEECTTSCCC
T ss_pred             -ccCCCCCEEECCCCCCCCCCH--hHcCC-CCccEEEecCCcCc
Confidence             357777777777776554332  36667 77777777777654

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

Probab=99.61  E-value=6.1e-15  Score=130.69  Aligned_cols=127  Identities=29%  Similarity=0.462  Sum_probs=60.0

Q ss_pred             CCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhh-hhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEE
Q 012249           63 ILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSS-VSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLD  139 (467)
Q Consensus        63 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~-~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~  139 (467)
                      +++.|++++|. +..++...+..+++|++|++++|.+..++.. +..+++|++|++++|. +..++  .+..+++|++|+
T Consensus        29 ~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~  106 (208)
T 2o6s_A           29 QTTYLDLETNS-LKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ-LQSLPNGVFDKLTQLKELA  106 (208)
T ss_dssp             TCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEE
T ss_pred             CCcEEEcCCCc-cCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCc-CCccCHhHhcCccCCCEEE
Confidence            44444444444 3333333334444455555554444444322 2444555555555432 22333  244455555555


Q ss_pred             ccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          140 LYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       140 l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      +++|.++.++.. +..+++|++|++++|.+..++...+.++++|+.|++++|.
T Consensus       107 L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~  159 (208)
T 2o6s_A          107 LNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP  159 (208)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             cCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCC
Confidence            555555544433 4455555555555555555554444555555555555553

>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=99.60  E-value=4.2e-15  Score=130.50  Aligned_cols=148  Identities=14%  Similarity=0.205  Sum_probs=84.6

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC-chhhhhcCcCCCE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV-LPSSVSDLTNLRS  114 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-l~~~~~~l~~L~~  114 (467)
                      .++++++++++++.+..++ .+ ..+++|+.|++++|. +..++.  +..+++|++|++++|.+.. .+..+..+++|++
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~~  116 (197)
T 4ezg_A           42 QMNSLTYITLANINVTDLT-GI-EYAHNIKDLTINNIH-ATNYNP--ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEEESSCCSCCT-TG-GGCTTCSEEEEESCC-CSCCGG--GTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEeccCCCccChH-HH-hcCCCCCEEEccCCC-CCcchh--hhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            3456666666666666555 22 356666666666664 333331  3566666666666666653 4455566666666


Q ss_pred             EEcCCCCCCCcCC-CccccCCccEEEccCCc-CccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCC
Q 012249          115 LSLGWCRRLKRVP-SLARLLALQYLDLYDTR-IEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGN  191 (467)
Q Consensus       115 L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~-~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  191 (467)
                      |++++|......+ .+..+++|++|++++|. ++.+| .+..+++|++|++++|.+.+++ . +.++++|+.|++++|.
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~~-~-l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHDYR-G-IEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCCCT-T-GGGCSSCCEEEECBC-
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCcChH-H-hccCCCCCEEEeeCcc
Confidence            6666653333333 45566666666666664 55554 4566666666666666665554 2 3556666666666553

>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=99.60  E-value=1.8e-14  Score=129.60  Aligned_cols=151  Identities=28%  Similarity=0.383  Sum_probs=123.9

Q ss_pred             ccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchh-hhhcCcCCCEEEcC
Q 012249           40 LERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRSLSLG  118 (467)
Q Consensus        40 l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~-~~~~l~~L~~L~l~  118 (467)
                      -+.++.+++.+..+|..+   .++|+.|++++|. +..++...|..+++|++|++++|.+..++. .+..+++|++|+++
T Consensus        21 ~~~v~c~~~~l~~ip~~~---~~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls   96 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAGI---PTNAQILYLHDNQ-ITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG   96 (229)
T ss_dssp             TTEEECTTSCCSSCCSCC---CTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEeEccCCCcCccCCCC---CCCCCEEEcCCCc-cCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECC
Confidence            456778788888888764   3788999999987 555544556888999999999999887764 45788999999999


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      +| .+..++  .+..+.+|++|++++|.++.+|..+..+++|++|++++|.+..++...+..+++|+.|++.+|.....
T Consensus        97 ~N-~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~  174 (229)
T 3e6j_A           97 TN-QLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWDCE  174 (229)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBCTT
T ss_pred             CC-cCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCccCC
Confidence            87 455555  47889999999999999999998899999999999999999988887678999999999999866543

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

Probab=99.60  E-value=5.8e-15  Score=139.46  Aligned_cols=191  Identities=18%  Similarity=0.149  Sum_probs=154.3

Q ss_pred             eEEEcCCCcc-cCCcCc--cCCCCccEEEeecCCCcccCCCccCCC-----CCCCEEEccCCCCCCCCchhHhhcCCCCc
Q 012249           19 FMVKAGLRLL-EFPGEQ--EWEENLERVSLMRNNIEEIPSNMSPHC-----EILSTLLLQRNENLQRIPECFFVHMHGLK   90 (467)
Q Consensus        19 ~~~~~~~~l~-~~~~~~--~~l~~l~~L~l~~~~~~~l~~~~~~~l-----~~L~~L~l~~~~~~~~~~~~~~~~l~~L~   90 (467)
                      .+..+++++. .+|..+  ..+++|++|++++|.+...|.. +..+     ++|+.|++++|. +..++...++.+++|+
T Consensus        99 ~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~-l~~~~~~~~~~l~~L~  176 (312)
T 1wwl_A           99 ELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAW-LAELQQWLKPGLKVLSIAQAH-SLNFSCEQVRVFPALS  176 (312)
T ss_dssp             EEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSH-HHHHHTTCCTTCCEEEEESCS-CCCCCTTTCCCCSSCC
T ss_pred             EEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHH-HHHHHHhhcCCCcEEEeeCCC-CccchHHHhccCCCCC
Confidence            4666677776 577766  8899999999999999877543 3344     899999999998 5666655568999999


Q ss_pred             EEEccCCCCCC---chhhh--hcCcCCCEEEcCCCCCCCcCC----C-ccccCCccEEEccCCcCcccc--ccccCCCCC
Q 012249           91 VVNLSSTDIEV---LPSSV--SDLTNLRSLSLGWCRRLKRVP----S-LARLLALQYLDLYDTRIEEVP--EGMEMLENL  158 (467)
Q Consensus        91 ~L~l~~~~~~~---l~~~~--~~l~~L~~L~l~~~~~~~~~p----~-l~~l~~L~~L~l~~~~~~~lp--~~~~~l~~L  158 (467)
                      +|++++|.+..   ++..+  ..+++|++|++++|. +..++    . +..+++|++|++++|.++..+  ..+..+++|
T Consensus       177 ~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L  255 (312)
T 1wwl_A          177 TLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQL  255 (312)
T ss_dssp             EEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTC
T ss_pred             EEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCC
Confidence            99999999763   35555  889999999999974 55333    2 457899999999999998755  346678999


Q ss_pred             cEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          159 SHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       159 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      ++|++++|.++.+|..+ .  ++|+.|++++|..... +  .+..+ ++|+.|++++|.+.
T Consensus       256 ~~L~Ls~N~l~~ip~~~-~--~~L~~L~Ls~N~l~~~-p--~~~~l-~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          256 NSLNLSFTGLKQVPKGL-P--AKLSVLDLSYNRLDRN-P--SPDEL-PQVGNLSLKGNPFL  309 (312)
T ss_dssp             CEEECTTSCCSSCCSSC-C--SEEEEEECCSSCCCSC-C--CTTTS-CEEEEEECTTCTTT
T ss_pred             CEEECCCCccChhhhhc-c--CCceEEECCCCCCCCC-h--hHhhC-CCCCEEeccCCCCC
Confidence            99999999999999876 3  8999999999977655 2  27888 99999999988764

>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=99.60  E-value=5e-15  Score=142.25  Aligned_cols=104  Identities=22%  Similarity=0.314  Sum_probs=45.7

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-Cchh-hhhcCcCCCEEEcC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VLPS-SVSDLTNLRSLSLG  118 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l~~-~~~~l~~L~~L~l~  118 (467)
                      +.++-+++.++++|..+   .++++.|++++|. +..+|...|.++++|++|++++|.+. .++. .+.++++++.+...
T Consensus        12 ~~v~C~~~~Lt~iP~~l---~~~l~~L~Ls~N~-i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~   87 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL---PRNAIELRFVLTK-LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   87 (350)
T ss_dssp             TEEEEESTTCCSCCTTC---CTTCSEEEEESCC-CSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEE
T ss_pred             CEEEecCCCCCccCcCc---CCCCCEEEccCCc-CCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcc
Confidence            34444555555555443   2345555555554 44455444455555555555555543 2322 23344444433222


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCccc
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEV  148 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~l  148 (467)
                      ++..+..++  .+..+++|++|++++|.++.+
T Consensus        88 ~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~  119 (350)
T 4ay9_X           88 KANNLLYINPEAFQNLPNLQYLLISNTGIKHL  119 (350)
T ss_dssp             EETTCCEECTTSBCCCTTCCEEEEEEECCSSC
T ss_pred             cCCcccccCchhhhhccccccccccccccccC
Confidence            222333332  234444444444444444433

>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=99.60  E-value=1.3e-14  Score=129.60  Aligned_cols=156  Identities=21%  Similarity=0.249  Sum_probs=123.4

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCC-chhHhhcCCCCcEEEccCCCCCCchh-hhhcCcCCCEEEcC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRI-PECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRSLSLG  118 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~l~~-~~~~l~~L~~L~l~  118 (467)
                      +.++++++.++.+|..+   .+.++.|++++|. +..+ +...|..+++|++|++++|.+..++. .+..+++|++|+++
T Consensus        14 ~~l~~s~n~l~~iP~~~---~~~~~~L~L~~N~-l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI---PQYTAELRLNNNE-FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TEEECCSSCCSSCCSCC---CTTCSEEECCSSC-CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CEeEeCCCCcccCccCC---CCCCCEEEcCCCc-CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECC
Confidence            57888888888888754   3467889999987 4444 44556889999999999999887654 68889999999999


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      +|. +..++  .+..+++|++|++++|.++.+ |..+..+++|++|++++|.+..++...+..+++|+.|++++|.....
T Consensus        90 ~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~  168 (220)
T 2v70_A           90 SNR-LENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNCN  168 (220)
T ss_dssp             SSC-CCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEECS
T ss_pred             CCc-cCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcCC
Confidence            974 45444  488899999999999988877 55688999999999999999888665568899999999999876555


Q ss_pred             ccHHHH
Q 012249          196 ETVEEA  201 (467)
Q Consensus       196 ~~~~~l  201 (467)
                      ..+..+
T Consensus       169 c~l~~l  174 (220)
T 2v70_A          169 CYLAWL  174 (220)
T ss_dssp             GGGHHH
T ss_pred             CchHHH
Confidence            443333

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

Probab=99.59  E-value=6e-15  Score=139.24  Aligned_cols=153  Identities=24%  Similarity=0.193  Sum_probs=64.8

Q ss_pred             CccEEEeecCCCcc-cCCCcc-CCCCCCCEEEccCCCCCCCCc---hhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCC
Q 012249           39 NLERVSLMRNNIEE-IPSNMS-PHCEILSTLLLQRNENLQRIP---ECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNL  112 (467)
Q Consensus        39 ~l~~L~l~~~~~~~-l~~~~~-~~l~~L~~L~l~~~~~~~~~~---~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L  112 (467)
                      +|++|++++|.+.. .+..++ ..+++|+.|++++|.+....+   ...+..+++|++|++++|.+..++ ..++.+++|
T Consensus        92 ~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L  171 (310)
T 4glp_A           92 RLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPAL  171 (310)
T ss_dssp             CCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTC
T ss_pred             ceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCC
Confidence            35555555554442 222211 344555555555554322211   111124455555555555554332 334445555


Q ss_pred             CEEEcCCCCCCCc--CC---CccccCCccEEEccCCcCcccccc----ccCCCCCcEEeccCCCCCCc-CCccccCC---
Q 012249          113 RSLSLGWCRRLKR--VP---SLARLLALQYLDLYDTRIEEVPEG----MEMLENLSHLYLSSLQLKKF-PAGILPRL---  179 (467)
Q Consensus       113 ~~L~l~~~~~~~~--~p---~l~~l~~L~~L~l~~~~~~~lp~~----~~~l~~L~~L~l~~~~~~~~-~~~~l~~l---  179 (467)
                      ++|++++|...+.  ++   .++.+++|++|++++|.++.++..    ++.+++|++|++++|.+... |..+ ..+   
T Consensus       172 ~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~-~~~~~~  250 (310)
T 4glp_A          172 TSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSA-PRCMWS  250 (310)
T ss_dssp             CEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCC-SSCCCC
T ss_pred             CEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhH-HhccCc
Confidence            5555555432221  11   123444555555555544433321    23445555555555554433 3222 222   


Q ss_pred             CCCcEEEcccCCC
Q 012249          180 RSLYKLKLSFGNE  192 (467)
Q Consensus       180 ~~L~~L~l~~~~~  192 (467)
                      ++|++|++++|..
T Consensus       251 ~~L~~L~Ls~N~l  263 (310)
T 4glp_A          251 SALNSLNLSFAGL  263 (310)
T ss_dssp             TTCCCEECCSSCC
T ss_pred             CcCCEEECCCCCC
Confidence            3555555554433

>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=99.59  E-value=1.7e-16  Score=154.70  Aligned_cols=196  Identities=15%  Similarity=0.031  Sum_probs=138.8

Q ss_pred             cCCCcccCCcCccCCCCccEEEeecCCCcccCC----CccCCCCCCCEEEccCCCC---CCCCchhH------hhcCCCC
Q 012249           23 AGLRLLEFPGEQEWEENLERVSLMRNNIEEIPS----NMSPHCEILSTLLLQRNEN---LQRIPECF------FVHMHGL   89 (467)
Q Consensus        23 ~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~----~~~~~l~~L~~L~l~~~~~---~~~~~~~~------~~~l~~L   89 (467)
                      ....+..++..+..+++|++|++++|.+.....    ..+..+++|+.|++++|..   ...+|..+      +..+++|
T Consensus        17 ~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L   96 (386)
T 2ca6_A           17 TTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKL   96 (386)
T ss_dssp             CSHHHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTC
T ss_pred             CHHHHHHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcc
Confidence            344556667777778899999999998773211    1234789999999998742   12344433      3688999


Q ss_pred             cEEEccCCCCCC-----chhhhhcCcCCCEEEcCCCCCCCcCC-----Ccccc---------CCccEEEccCCcCc--cc
Q 012249           90 KVVNLSSTDIEV-----LPSSVSDLTNLRSLSLGWCRRLKRVP-----SLARL---------LALQYLDLYDTRIE--EV  148 (467)
Q Consensus        90 ~~L~l~~~~~~~-----l~~~~~~l~~L~~L~l~~~~~~~~~p-----~l~~l---------~~L~~L~l~~~~~~--~l  148 (467)
                      ++|++++|.+..     ++..+..+++|++|++++|......+     .+..+         ++|++|++++|.++  .+
T Consensus        97 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~  176 (386)
T 2ca6_A           97 HTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM  176 (386)
T ss_dssp             CEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             cEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHH
Confidence            999999998885     67788899999999999975322212     24444         89999999999886  44


Q ss_pred             c---ccccCCCCCcEEeccCCCCCC-----cCCccccCCCCCcEEEcccCCCccc---ccHHHHHhhhccCcEEEcccCC
Q 012249          149 P---EGMEMLENLSHLYLSSLQLKK-----FPAGILPRLRSLYKLKLSFGNEALR---ETVEEAARLSDRLDYFEGYFST  217 (467)
Q Consensus       149 p---~~~~~l~~L~~L~l~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~~~~---~~~~~l~~l~~~L~~L~l~~~~  217 (467)
                      +   ..+..+++|++|++++|.+..     +....+.++++|+.|++++|.....   .-...+..+ ++|+.|++++|.
T Consensus       177 ~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~-~~L~~L~L~~n~  255 (386)
T 2ca6_A          177 KEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSW-PNLRELGLNDCL  255 (386)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGC-TTCCEEECTTCC
T ss_pred             HHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccC-CCcCEEECCCCC
Confidence            4   457788899999999998862     2221247889999999998865321   112356677 888999888876


Q ss_pred             cc
Q 012249          218 LK  219 (467)
Q Consensus       218 ~~  219 (467)
                      +.
T Consensus       256 i~  257 (386)
T 2ca6_A          256 LS  257 (386)
T ss_dssp             CC
T ss_pred             Cc
Confidence            53

>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=99.59  E-value=9.9e-16  Score=146.33  Aligned_cols=176  Identities=15%  Similarity=0.132  Sum_probs=108.4

Q ss_pred             CCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCC-CchhHhhcCCCCcEEEccCCCCC-CchhhhhcCcCCCEE
Q 012249           38 ENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQR-IPECFFVHMHGLKVVNLSSTDIE-VLPSSVSDLTNLRSL  115 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~-~l~~~~~~l~~L~~L  115 (467)
                      ++++.++++++.+...+...+ .+++|+.|++++|.+... ++ ..+..+++|++|++++|.+. ..+..+..+++|++|
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~-~~~~L~~L~L~~~~l~~~~~~-~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L  147 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHF-SPFRVQHMDLSNSVIEVSTLH-GILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRL  147 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCC-CCBCCCEEECTTCEECHHHHH-HHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEE
T ss_pred             ccceEEEcCCccccccchhhc-cCCCCCEEEccCCCcCHHHHH-HHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEE
Confidence            567777777776665544444 567777777777763222 33 33466777777777777666 455666667777777


Q ss_pred             EcCCCCCCCc--CC-CccccCCccEEEccCC-cCcc--ccccccCCC-CCcEEeccCCC--C--CCcCCccccCCCCCcE
Q 012249          116 SLGWCRRLKR--VP-SLARLLALQYLDLYDT-RIEE--VPEGMEMLE-NLSHLYLSSLQ--L--KKFPAGILPRLRSLYK  184 (467)
Q Consensus       116 ~l~~~~~~~~--~p-~l~~l~~L~~L~l~~~-~~~~--lp~~~~~l~-~L~~L~l~~~~--~--~~~~~~~l~~l~~L~~  184 (467)
                      ++++|..++.  ++ .+..+++|++|++++| .++.  ++..+..++ +|++|++++|.  +  ..++.. +.++++|+.
T Consensus       148 ~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~-~~~~~~L~~  226 (336)
T 2ast_B          148 NLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTL-VRRCPNLVH  226 (336)
T ss_dssp             ECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHH-HHHCTTCSE
T ss_pred             ECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHH-HhhCCCCCE
Confidence            7777644443  33 3666777777777777 6663  455566677 77777777763  3  223333 356677777


Q ss_pred             EEcccCCCcccccHHHHHhhhccCcEEEcccCC
Q 012249          185 LKLSFGNEALRETVEEAARLSDRLDYFEGYFST  217 (467)
Q Consensus       185 L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~  217 (467)
                      |++++|.......+..++.+ ++|+.|++++|.
T Consensus       227 L~l~~~~~l~~~~~~~l~~l-~~L~~L~l~~~~  258 (336)
T 2ast_B          227 LDLSDSVMLKNDCFQEFFQL-NYLQHLSLSRCY  258 (336)
T ss_dssp             EECTTCTTCCGGGGGGGGGC-TTCCEEECTTCT
T ss_pred             EeCCCCCcCCHHHHHHHhCC-CCCCEeeCCCCC
Confidence            77777653333333456666 777777776664

>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=99.59  E-value=2.8e-14  Score=128.39  Aligned_cols=146  Identities=25%  Similarity=0.380  Sum_probs=128.2

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.++..+|..+.  +++++|++++|.+..++...+..+++|+.|++++|. +..++...|..+++|++|++++|.+
T Consensus        24 v~c~~~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~-l~~i~~~~~~~l~~L~~L~Ls~N~l  100 (229)
T 3e6j_A           24 VDCRSKRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDLGTNQL  100 (229)
T ss_dssp             EECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             eEccCCCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC-CCCcChhhcccCCCcCEEECCCCcC
Confidence            5556778889998664  699999999999998877777799999999999998 6788877789999999999999999


Q ss_pred             CCchhh-hhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCC
Q 012249          100 EVLPSS-VSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLK  169 (467)
Q Consensus       100 ~~l~~~-~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~  169 (467)
                      ..++.. +..+++|++|++++| .+..+| .+..+.+|++|++++|.++.+|. .+..+++|+.|++++|.+.
T Consensus       101 ~~l~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          101 TVLPSAVFDRLVHLKELFMCCN-KLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSS-CCCSCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             CccChhHhCcchhhCeEeccCC-cccccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            988654 678999999999997 566888 79999999999999999998885 4889999999999999864

>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=99.59  E-value=2.1e-14  Score=128.32  Aligned_cols=151  Identities=26%  Similarity=0.389  Sum_probs=111.3

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcCC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLGW  119 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~~  119 (467)
                      +.++.+++.++.+|..+.   ++++.|++++|. +..++...|..+++|++|++++|.+..+ |..+..+++|++|++++
T Consensus        14 ~~v~c~~~~l~~iP~~l~---~~l~~L~l~~n~-i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~   89 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP---ETITEIRLEQNT-IKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG   89 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC---TTCCEEECCSSC-CCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS
T ss_pred             CEEEcCCCCcCcCCCccC---cCCCEEECCCCc-CCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC
Confidence            456666667777766532   567777777776 5556655567777788888888877755 56677788888888887


Q ss_pred             CCCCCcCC--CccccCCccEEEccCCcCcccc-ccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccc
Q 012249          120 CRRLKRVP--SLARLLALQYLDLYDTRIEEVP-EGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRE  196 (467)
Q Consensus       120 ~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp-~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  196 (467)
                      | .+..+|  .+..+++|++|++++|.++.++ ..+..+++|++|++++|.+..++...+..+++|+.|++++|......
T Consensus        90 N-~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c  168 (220)
T 2v9t_B           90 N-KITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFICDC  168 (220)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEECSG
T ss_pred             C-cCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcCCCC
Confidence            5 455555  3677888888888888888764 45788888999999988888888776688889999999988654443

>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=99.59  E-value=2.4e-14  Score=127.86  Aligned_cols=147  Identities=22%  Similarity=0.318  Sum_probs=105.6

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++..+|..+.  ++++.|++++|.+..++...+..+++|+.|++++|. +..+++..|..+++|++|++++|.
T Consensus        15 ~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~-i~~~~~~~~~~l~~L~~L~Ls~N~   91 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ-ISELAPDAFQGLRSLNSLVLYGNK   91 (220)
T ss_dssp             EEECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC-CCEECTTTTTTCSSCCEEECCSSC
T ss_pred             EEEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc-CCCcCHHHhhCCcCCCEEECCCCc
Confidence            34555667777776554  577888888888877776666677888888888887 445544445778888888888888


Q ss_pred             CCCchhh-hhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCC
Q 012249           99 IEVLPSS-VSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQL  168 (467)
Q Consensus        99 ~~~l~~~-~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~  168 (467)
                      +..+|.. +..+++|++|++++|......| .+..+++|++|++++|.++.++.. +..+++|+.|++++|.+
T Consensus        92 l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B           92 ITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPF  164 (220)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCc
Confidence            8877654 4678888888888864333334 577788888888888887777654 77788888888887765

>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=99.59  E-value=9.3e-15  Score=149.70  Aligned_cols=173  Identities=24%  Similarity=0.290  Sum_probs=146.5

Q ss_pred             ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCC
Q 012249           34 QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLR  113 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~  113 (467)
                      ...+++|+.|+++++.+..++.  +..+++|+.|++++|. +..+++  +..+++|++|++++|.+..++ .+..+++|+
T Consensus        39 ~~~L~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~Ls~N~-l~~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~  112 (605)
T 1m9s_A           39 QNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNK-LTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLK  112 (605)
T ss_dssp             HHHHTTCCCCBCTTCCCCCCTT--GGGCTTCCEEECTTSC-CCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCC
T ss_pred             hhcCCCCCEEECcCCCCCCChH--HccCCCCCEEEeeCCC-CCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCC
Confidence            3457789999999999988764  3479999999999998 555665  589999999999999998876 688999999


Q ss_pred             EEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCc
Q 012249          114 SLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEA  193 (467)
Q Consensus       114 ~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  193 (467)
                      +|++++| .+..++.+..+++|+.|++++|.++.+ ..++.+++|+.|++++|.+..++.  +..+++|+.|++++|.+.
T Consensus       113 ~L~Ls~N-~l~~l~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~i~  188 (605)
T 1m9s_A          113 SLSLEHN-GISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS  188 (605)
T ss_dssp             EEECTTS-CCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC
T ss_pred             EEEecCC-CCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCcCCCchh--hccCCCCCEEECcCCCCC
Confidence            9999997 566677899999999999999999888 578899999999999999988776  589999999999999665


Q ss_pred             ccccHHHHHhhhccCcEEEcccCCccc
Q 012249          194 LRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       194 ~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      ..   ..+..+ ++|+.|+++.|.+..
T Consensus       189 ~l---~~l~~l-~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          189 DL---RALAGL-KNLDVLELFSQECLN  211 (605)
T ss_dssp             BC---GGGTTC-TTCSEEECCSEEEEC
T ss_pred             CC---hHHccC-CCCCEEEccCCcCcC
Confidence            53   457888 999999998886643

>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=99.58  E-value=4.2e-16  Score=160.81  Aligned_cols=129  Identities=17%  Similarity=0.190  Sum_probs=59.2

Q ss_pred             hcCCCCcEEEccCCCCC-Cchhhhh-cCcCCCEEEcCCCCCCCc--CCC-ccccCCccEEEccCCcCcc-----cccccc
Q 012249           84 VHMHGLKVVNLSSTDIE-VLPSSVS-DLTNLRSLSLGWCRRLKR--VPS-LARLLALQYLDLYDTRIEE-----VPEGME  153 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~-~l~~~~~-~l~~L~~L~l~~~~~~~~--~p~-l~~l~~L~~L~l~~~~~~~-----lp~~~~  153 (467)
                      ..+++|++|++++|.+. ..+..+. .+++|++|++.+|..++.  ++. ..++++|++|++++|.++.     ++....
T Consensus       102 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             HhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            44555666666555544 2222332 455566666655543333  222 2345556666665554332     222223


Q ss_pred             CCCCCcEEeccCCCCCCcCC----ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEccc
Q 012249          154 MLENLSHLYLSSLQLKKFPA----GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYF  215 (467)
Q Consensus       154 ~l~~L~~L~l~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~  215 (467)
                      .+++|+.|++++|. ..+..    .+..++++|+.|++++|..... ....+..+ ++|+.|.+..
T Consensus       182 ~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~-l~~~~~~~-~~L~~L~l~~  244 (594)
T 2p1m_B          182 TYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEK-LATLLQRA-PQLEELGTGG  244 (594)
T ss_dssp             TCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHH-HHHHHHHC-TTCSEEECSB
T ss_pred             cCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHH-HHHHHhcC-CcceEccccc
Confidence            45566666665554 11111    1113455666666655522222 11334444 5666665543

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

Probab=99.57  E-value=1.8e-14  Score=132.38  Aligned_cols=165  Identities=21%  Similarity=0.248  Sum_probs=87.6

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLG  118 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~  118 (467)
                      ++..+++..+.+++++.  +..+++|+.|++++|. +..++ . +..+++|++|++++|.+..++. +..+++|++|+++
T Consensus        20 ~l~~l~l~~~~i~~~~~--~~~l~~L~~L~l~~n~-i~~l~-~-l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~   93 (263)
T 1xeu_A           20 NAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNSN-IQSLA-G-MQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVN   93 (263)
T ss_dssp             HHHHHHHTCSCTTSEEC--HHHHTTCSEEECTTSC-CCCCT-T-GGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECC
T ss_pred             HHHHHHhcCCCcccccc--hhhcCcCcEEECcCCC-cccch-H-HhhCCCCCEEECCCCccCCChh-hccCCCCCEEECC
Confidence            34444445555554431  2245556666666554 34444 1 3555666666666665555544 5556666666666


Q ss_pred             CCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccH
Q 012249          119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETV  198 (467)
Q Consensus       119 ~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  198 (467)
                      +| .++.+|.+.. .+|++|++++|.++.++ .+..+++|++|++++|.+.+++.  ++.+++|+.|++++|.....   
T Consensus        94 ~N-~l~~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~i~~~~~--l~~l~~L~~L~L~~N~i~~~---  165 (263)
T 1xeu_A           94 RN-RLKNLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRNNKLKSIVM--LGFLSKLEVLDLHGNEITNT---  165 (263)
T ss_dssp             SS-CCSCCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTTSCCCBCGG--GGGCTTCCEEECTTSCCCBC---
T ss_pred             CC-ccCCcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECCCCcCCCChH--HccCCCCCEEECCCCcCcch---
Confidence            54 3444443333 55666666666555553 35556666666666666555542  35566666666666544333   


Q ss_pred             HHHHhhhccCcEEEcccCCc
Q 012249          199 EEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       199 ~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ..+..+ ++|+.|+++++..
T Consensus       166 ~~l~~l-~~L~~L~l~~N~~  184 (263)
T 1xeu_A          166 GGLTRL-KKVNWIDLTGQKC  184 (263)
T ss_dssp             TTSTTC-CCCCEEEEEEEEE
T ss_pred             HHhccC-CCCCEEeCCCCcc
Confidence            334555 5666666655543

>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=99.56  E-value=2.8e-14  Score=125.19  Aligned_cols=147  Identities=14%  Similarity=0.245  Sum_probs=124.0

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...++.+..+| .+..+++|++|++++|.+..++ . +..+++|+.|++++|.+....+.. +..+++|++|++++|.
T Consensus        48 ~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~~~~~-~-l~~l~~L~~L~l~~n~l~~~~~~~-l~~l~~L~~L~Ls~n~  123 (197)
T 4ezg_A           48 YITLANINVTDLT-GIEYAHNIKDLTINNIHATNYN-P-ISGLSNLERLRIMGKDVTSDKIPN-LSGLTSLTLLDISHSA  123 (197)
T ss_dssp             EEEEESSCCSCCT-TGGGCTTCSEEEEESCCCSCCG-G-GTTCTTCCEEEEECTTCBGGGSCC-CTTCTTCCEEECCSSB
T ss_pred             EEeccCCCccChH-HHhcCCCCCEEEccCCCCCcch-h-hhcCCCCCEEEeECCccCcccChh-hcCCCCCCEEEecCCc
Confidence            4566778888888 6889999999999999887664 3 448999999999999854434444 4899999999999999


Q ss_pred             CCC-chhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCC
Q 012249           99 IEV-LPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKK  170 (467)
Q Consensus        99 ~~~-l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~  170 (467)
                      +.. .+..+..+++|++|++++|..++.+|.+..+++|++|++++|.++.++ .+..+++|++|++++|++.+
T Consensus       124 i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          124 HDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             CBGGGHHHHTTCSSCCEEECCSCTBCCCCGGGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEECBC----
T ss_pred             cCcHhHHHHhhCCCCCEEEccCCCCccccHhhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEeeCcccCC
Confidence            984 678899999999999999866888888999999999999999999887 78999999999999998753

>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=99.56  E-value=4.4e-14  Score=126.17  Aligned_cols=148  Identities=22%  Similarity=0.279  Sum_probs=125.6

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCccc-CCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEI-PSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l-~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+..+|..+.  +.+++|++++|.++.+ +...+..+++|+.|++++|. +..++...|..+++|++|++++|
T Consensus        15 ~l~~s~n~l~~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~~L~~L~Ls~N   91 (220)
T 2v70_A           15 TVDCSNQKLNKIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK-ITDIEEGAFEGASGVNEILLTSN   91 (220)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS
T ss_pred             EeEeCCCCcccCccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc-CCEECHHHhCCCCCCCEEECCCC
Confidence            45667788889998664  3678999999999977 44556789999999999998 66777666799999999999999


Q ss_pred             CCCCch-hhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCC
Q 012249           98 DIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLK  169 (467)
Q Consensus        98 ~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~  169 (467)
                      .+..++ ..+..+++|++|++++|......| .+..+++|++|++++|.++.+ |..+..+++|+.|++++|.+.
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           92 RLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             CCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEE
T ss_pred             ccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCc
Confidence            999775 457899999999999975544445 689999999999999999987 667999999999999999863

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

Probab=99.55  E-value=1.6e-13  Score=121.45  Aligned_cols=165  Identities=22%  Similarity=0.361  Sum_probs=132.7

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+..+..+|..+  .+++++|++++|.++.++...+..+++|+.|++++|. +..++...|..+++|++|++++|.+
T Consensus        12 v~c~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~l   88 (208)
T 2o6s_A           12 VECYSQGRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK-LQSLPNGVFNKLTSLTYLNLSTNQL   88 (208)
T ss_dssp             EECCSSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEecCCCccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc-cCccChhhcCCCCCcCEEECCCCcC
Confidence            445566777888655  3589999999999998888777789999999999997 6677777778999999999999999


Q ss_pred             CCchhh-hhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCcc
Q 012249          100 EVLPSS-VSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGI  175 (467)
Q Consensus       100 ~~l~~~-~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~  175 (467)
                      ..++.. +..+++|++|++++| .+..++  .+..+++|++|++++|.++.++.. +..+++|++|++++|.+.      
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~------  161 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD------  161 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC------
T ss_pred             CccCHhHhcCccCCCEEEcCCC-cCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCee------
Confidence            977654 688999999999997 455555  478999999999999999888765 788999999999998653      


Q ss_pred             ccCCCCCcEEEcccCCCccc
Q 012249          176 LPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       176 l~~l~~L~~L~l~~~~~~~~  195 (467)
                       +.+++|+.|+++.+...+.
T Consensus       162 -~~~~~l~~L~~~~n~~~g~  180 (208)
T 2o6s_A          162 -CTCPGIRYLSEWINKHSGV  180 (208)
T ss_dssp             -CCTTTTHHHHHHHHHCTTT
T ss_pred             -cCCCCHHHHHHHHHhCCce
Confidence             4566677777766644433

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

Probab=99.55  E-value=5.4e-14  Score=135.59  Aligned_cols=174  Identities=26%  Similarity=0.279  Sum_probs=146.6

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccC-CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSP-HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+...+.++..+|..+.  +.++.|++++|.++.++...+. .+++|+.|++++|. +..++...|..+++|++|++++|
T Consensus        22 ~l~c~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~-i~~i~~~~~~~l~~L~~L~Ls~N   98 (361)
T 2xot_A           22 ILSCSKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNH-LNFISSEAFVPVPNLRYLDLSSN   98 (361)
T ss_dssp             EEECCSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS
T ss_pred             EEEeCCCCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCc-CCccChhhccCCCCCCEEECCCC
Confidence            46677788999998654  3689999999999998888776 89999999999998 67777666799999999999999


Q ss_pred             CCCCchh-hhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccc----cCCCCCcEEeccCCCCCCc
Q 012249           98 DIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGM----EMLENLSHLYLSSLQLKKF  171 (467)
Q Consensus        98 ~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~----~~l~~L~~L~l~~~~~~~~  171 (467)
                      .+..++. .+..+++|++|++++|......| .+..+++|++|++++|.++.+|..+    ..+++|++|++++|.+..+
T Consensus        99 ~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l  178 (361)
T 2xot_A           99 HLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKL  178 (361)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCC
T ss_pred             cCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCcc
Confidence            9997764 57899999999999975444445 6999999999999999999998764    6799999999999999999


Q ss_pred             CCccccCCCC--CcEEEcccCCCccc
Q 012249          172 PAGILPRLRS--LYKLKLSFGNEALR  195 (467)
Q Consensus       172 ~~~~l~~l~~--L~~L~l~~~~~~~~  195 (467)
                      +...+..++.  ++.|++.+|...-.
T Consensus       179 ~~~~~~~l~~~~l~~l~l~~N~~~C~  204 (361)
T 2xot_A          179 PLTDLQKLPAWVKNGLYLHNNPLECD  204 (361)
T ss_dssp             CHHHHHHSCHHHHTTEECCSSCEECC
T ss_pred             CHHHhhhccHhhcceEEecCCCccCC
Confidence            8766677776  48899999866544

>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=99.54  E-value=7.6e-14  Score=142.96  Aligned_cols=164  Identities=23%  Similarity=0.343  Sum_probs=141.1

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...++.+..++ .+..+++|+.|++++|.+..++.  +..+++|+.|++++|. +..++.  +..+++|++|++++|.+
T Consensus        48 L~l~~n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~~--l~~l~~L~~L~Ls~N~l  121 (605)
T 1m9s_A           48 IIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENK-IKDLSS--LKDLKKLKSLSLEHNGI  121 (605)
T ss_dssp             CBCTTCCCCCCT-TGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSC-CCCCTT--STTCTTCCEEECTTSCC
T ss_pred             EECcCCCCCCCh-HHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCC-CCCChh--hccCCCCCEEEecCCCC
Confidence            345566677776 58889999999999999998776  4589999999999998 555653  58999999999999999


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++ .+..+++|+.|++++| .+..++.+..+++|+.|++++|.+..++. +..+++|+.|++++|.+..++.  +..+
T Consensus       122 ~~l~-~l~~l~~L~~L~Ls~N-~l~~l~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~l~~--l~~l  196 (605)
T 1m9s_A          122 SDIN-GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISDLRA--LAGL  196 (605)
T ss_dssp             CCCG-GGGGCTTCSEEECCSS-CCCCCGGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCBCGG--GTTC
T ss_pred             CCCc-cccCCCccCEEECCCC-ccCCchhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCCCCCChH--HccC
Confidence            9875 5899999999999997 56666789999999999999999998866 9999999999999999988864  5899


Q ss_pred             CCCcEEEcccCCCcc
Q 012249          180 RSLYKLKLSFGNEAL  194 (467)
Q Consensus       180 ~~L~~L~l~~~~~~~  194 (467)
                      ++|+.|++++|.+..
T Consensus       197 ~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          197 KNLDVLELFSQECLN  211 (605)
T ss_dssp             TTCSEEECCSEEEEC
T ss_pred             CCCCEEEccCCcCcC
Confidence            999999999985543

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

Probab=99.54  E-value=7.9e-15  Score=134.84  Aligned_cols=158  Identities=18%  Similarity=0.228  Sum_probs=134.2

Q ss_pred             CCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchh
Q 012249           25 LRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS  104 (467)
Q Consensus        25 ~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~  104 (467)
                      +.+..++ .+..+++|++|++++|.+..++ . +..+++|+.|++++|. +..++.  +..+++|++|++++|.+..++.
T Consensus        29 ~~i~~~~-~~~~l~~L~~L~l~~n~i~~l~-~-l~~l~~L~~L~L~~N~-i~~~~~--l~~l~~L~~L~L~~N~l~~l~~  102 (263)
T 1xeu_A           29 QSVTDLV-SQKELSGVQNFNGDNSNIQSLA-G-MQFFTNLKELHLSHNQ-ISDLSP--LKDLTKLEELSVNRNRLKNLNG  102 (263)
T ss_dssp             SCTTSEE-CHHHHTTCSEEECTTSCCCCCT-T-GGGCTTCCEEECCSSC-CCCCGG--GTTCSSCCEEECCSSCCSCCTT
T ss_pred             CCccccc-chhhcCcCcEEECcCCCcccch-H-HhhCCCCCEEECCCCc-cCCChh--hccCCCCCEEECCCCccCCcCc
Confidence            3444555 4677889999999999999887 3 3489999999999998 666766  6899999999999999998875


Q ss_pred             hhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcE
Q 012249          105 SVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYK  184 (467)
Q Consensus       105 ~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~  184 (467)
                      ...  ++|++|++++| .++.++.+..+++|++|++++|.++.++ .++.+++|++|++++|.+..++ . +..+++|+.
T Consensus       103 ~~~--~~L~~L~L~~N-~l~~~~~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~N~i~~~~-~-l~~l~~L~~  176 (263)
T 1xeu_A          103 IPS--ACLSRLFLDNN-ELRDTDSLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNEITNTG-G-LTRLKKVNW  176 (263)
T ss_dssp             CCC--SSCCEEECCSS-CCSBSGGGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSCCCBCT-T-STTCCCCCE
T ss_pred             ccc--CcccEEEccCC-ccCCChhhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCcCcchH-H-hccCCCCCE
Confidence            333  99999999997 6677788999999999999999999886 7899999999999999998873 3 589999999


Q ss_pred             EEcccCCCcc
Q 012249          185 LKLSFGNEAL  194 (467)
Q Consensus       185 L~l~~~~~~~  194 (467)
                      |++++|....
T Consensus       177 L~l~~N~~~~  186 (263)
T 1xeu_A          177 IDLTGQKCVN  186 (263)
T ss_dssp             EEEEEEEEEC
T ss_pred             EeCCCCcccC
Confidence            9999985533

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.53  E-value=3.3e-15  Score=144.29  Aligned_cols=182  Identities=16%  Similarity=0.199  Sum_probs=117.5

Q ss_pred             CCCCccEEEeecCCCcccCC----CccCCCC-CCCEEEccCCCCCCCCchhHhhcC-----CCCcEEEccCCCCCCc-hh
Q 012249           36 WEENLERVSLMRNNIEEIPS----NMSPHCE-ILSTLLLQRNENLQRIPECFFVHM-----HGLKVVNLSSTDIEVL-PS  104 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~----~~~~~l~-~L~~L~l~~~~~~~~~~~~~~~~l-----~~L~~L~l~~~~~~~l-~~  104 (467)
                      ..++|++|++++|.++..+.    ..+..++ +|+.|++++|.+ .......+..+     ++|++|++++|.+... +.
T Consensus        20 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l-~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~   98 (362)
T 3goz_A           20 IPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSL-GFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSD   98 (362)
T ss_dssp             SCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCG-GGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHH
T ss_pred             CCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCC-CHHHHHHHHHHHhccCCCccEEECcCCcCChHHHH
Confidence            34458888888888876654    3444677 888888888873 33332223343     8888888888887733 33


Q ss_pred             h----hhcC-cCCCEEEcCCCCCCCcCC--C----ccc-cCCccEEEccCCcCc-----cccccccCCC-CCcEEeccCC
Q 012249          105 S----VSDL-TNLRSLSLGWCRRLKRVP--S----LAR-LLALQYLDLYDTRIE-----EVPEGMEMLE-NLSHLYLSSL  166 (467)
Q Consensus       105 ~----~~~l-~~L~~L~l~~~~~~~~~p--~----l~~-l~~L~~L~l~~~~~~-----~lp~~~~~l~-~L~~L~l~~~  166 (467)
                      .    +..+ ++|++|++++|. ++..+  .    +.. ..+|++|++++|.++     .++..+..++ +|++|++++|
T Consensus        99 ~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n  177 (362)
T 3goz_A           99 ELVKTLAAIPFTITVLDLGWND-FSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGN  177 (362)
T ss_dssp             HHHHHHHTSCTTCCEEECCSSC-GGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS
T ss_pred             HHHHHHHhCCCCccEEECcCCc-CCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCC
Confidence            2    3444 788888888874 44444  2    233 358888888888777     4444556665 8888888888


Q ss_pred             CCCCcCCc----cccCC-CCCcEEEcccCCCccccc---HHHHHhhhccCcEEEcccCCcc
Q 012249          167 QLKKFPAG----ILPRL-RSLYKLKLSFGNEALRET---VEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       167 ~~~~~~~~----~l~~l-~~L~~L~l~~~~~~~~~~---~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      .+......    .+..+ ++|++|++++|.......   ...+...+++|+.|++++|.+.
T Consensus       178 ~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~  238 (362)
T 3goz_A          178 NLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLH  238 (362)
T ss_dssp             CGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCC
T ss_pred             CCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCC
Confidence            87655432    12444 588888888886543211   1234443257888888777653

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

Probab=99.53  E-value=3.6e-14  Score=133.92  Aligned_cols=193  Identities=16%  Similarity=0.081  Sum_probs=150.9

Q ss_pred             ceEEEcCCCcc-cCCcCc--cCCCCccEEEeecCCCcccCC----CccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCc
Q 012249           18 LFMVKAGLRLL-EFPGEQ--EWEENLERVSLMRNNIEEIPS----NMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLK   90 (467)
Q Consensus        18 ~~~~~~~~~l~-~~~~~~--~~l~~l~~L~l~~~~~~~l~~----~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~   90 (467)
                      ..+...++.+. ..|..+  ..+++|++|++++|.+.....    ..+..+++|+.|++++|. +..++...++.+++|+
T Consensus        94 ~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~  172 (310)
T 4glp_A           94 KELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAH-SPAFSCEQVRAFPALT  172 (310)
T ss_dssp             CEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCS-SCCCCTTSCCCCTTCC
T ss_pred             eEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCC-cchhhHHHhccCCCCC
Confidence            34566666665 455555  789999999999999874222    122368999999999998 5666655668999999


Q ss_pred             EEEccCCCCCC---chh--hhhcCcCCCEEEcCCCCCCCcCCC-----ccccCCccEEEccCCcCccc-cccccCC---C
Q 012249           91 VVNLSSTDIEV---LPS--SVSDLTNLRSLSLGWCRRLKRVPS-----LARLLALQYLDLYDTRIEEV-PEGMEML---E  156 (467)
Q Consensus        91 ~L~l~~~~~~~---l~~--~~~~l~~L~~L~l~~~~~~~~~p~-----l~~l~~L~~L~l~~~~~~~l-p~~~~~l---~  156 (467)
                      +|++++|.+..   ++.  .++.+++|++|++++| .++.++.     +..+++|++|++++|.++.. |..+..+   +
T Consensus       173 ~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~  251 (310)
T 4glp_A          173 SLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNT-GMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSS  251 (310)
T ss_dssp             EEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSS-CCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCT
T ss_pred             EEECCCCCCccchhhhHHHhhhcCCCCCEEECCCC-CCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcC
Confidence            99999998763   332  2368999999999997 4555442     46889999999999999976 7777666   6


Q ss_pred             CCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          157 NLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       157 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      +|++|++++|.+..+|..+ .  ++|++|++++|......   .+..+ ++|+.|++++|.+.
T Consensus       252 ~L~~L~Ls~N~l~~lp~~~-~--~~L~~L~Ls~N~l~~~~---~~~~l-~~L~~L~L~~N~l~  307 (310)
T 4glp_A          252 ALNSLNLSFAGLEQVPKGL-P--AKLRVLDLSSNRLNRAP---QPDEL-PEVDNLTLDGNPFL  307 (310)
T ss_dssp             TCCCEECCSSCCCSCCSCC-C--SCCSCEECCSCCCCSCC---CTTSC-CCCSCEECSSTTTS
T ss_pred             cCCEEECCCCCCCchhhhh-c--CCCCEEECCCCcCCCCc---hhhhC-CCccEEECcCCCCC
Confidence            9999999999999998876 2  79999999999776532   25778 99999999988764

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

Probab=99.53  E-value=2e-13  Score=138.35  Aligned_cols=175  Identities=19%  Similarity=0.230  Sum_probs=143.4

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...++++..+|..+.  ++|++|++++|.++.+| .   .+++|+.|++++|. +..+|. + ..  +|++|++++|.
T Consensus        63 ~L~Ls~n~L~~lp~~l~--~~L~~L~Ls~N~l~~ip-~---~l~~L~~L~Ls~N~-l~~ip~-l-~~--~L~~L~Ls~N~  131 (571)
T 3cvr_A           63 ELQLNRLNLSSLPDNLP--PQITVLEITQNALISLP-E---LPASLEYLDACDNR-LSTLPE-L-PA--SLKHLDVDNNQ  131 (571)
T ss_dssp             EEECCSSCCSCCCSCCC--TTCSEEECCSSCCSCCC-C---CCTTCCEEECCSSC-CSCCCC-C-CT--TCCEEECCSSC
T ss_pred             EEEeCCCCCCccCHhHc--CCCCEEECcCCCCcccc-c---ccCCCCEEEccCCC-CCCcch-h-hc--CCCEEECCCCc
Confidence            46677888888988663  78999999999999888 2   57899999999998 555776 3 44  99999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPR  178 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~  178 (467)
                      +..+|.   .+++|++|++++| .++.+|.  .+++|++|++++|.++.+|. +.  ++|++|++++|.+..+|. + ..
T Consensus       132 l~~lp~---~l~~L~~L~Ls~N-~l~~lp~--~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~~lp~-~-~~  200 (571)
T 3cvr_A          132 LTMLPE---LPALLEYINADNN-QLTMLPE--LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLESLPA-V-PV  200 (571)
T ss_dssp             CSCCCC---CCTTCCEEECCSS-CCSCCCC--CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCSSCCC-C-C-
T ss_pred             CCCCCC---cCccccEEeCCCC-ccCcCCC--cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCCchhh-H-HH
Confidence            998887   7899999999997 4566776  67899999999999999988 65  899999999999998888 4 43


Q ss_pred             CCCC-------cEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          179 LRSL-------YKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       179 l~~L-------~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                        +|       +.|++++|.+... + ..+..+ ++|+.|++++|.+..
T Consensus       201 --~L~~~~~~L~~L~Ls~N~l~~l-p-~~l~~l-~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          201 --RNHHSEETEIFFRCRENRITHI-P-ENILSL-DPTCTIILEDNPLSS  244 (571)
T ss_dssp             ---------CCEEEECCSSCCCCC-C-GGGGGS-CTTEEEECCSSSCCH
T ss_pred             --hhhcccccceEEecCCCcceec-C-HHHhcC-CCCCEEEeeCCcCCC
Confidence              66       9999999977543 2 356678 999999999998754

>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=99.51  E-value=7.5e-15  Score=143.08  Aligned_cols=158  Identities=13%  Similarity=0.093  Sum_probs=91.8

Q ss_pred             CCCCCCEEEccCCCCCCCCchh---HhhcCCCCcEEEccCCCCC----Cchhhh-------hcCcCCCEEEcCCCCCCC-
Q 012249           60 HCEILSTLLLQRNENLQRIPEC---FFVHMHGLKVVNLSSTDIE----VLPSSV-------SDLTNLRSLSLGWCRRLK-  124 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~~L~l~~~~~~----~l~~~~-------~~l~~L~~L~l~~~~~~~-  124 (467)
                      .+++|+.|++++|.+....+..   .+..+++|++|++++|.+.    .+|..+       ..+++|++|++++|.... 
T Consensus        30 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~  109 (386)
T 2ca6_A           30 EDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  109 (386)
T ss_dssp             HCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             cCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHH
Confidence            5777888888887632222211   2356778888888877554    234433       567788888887764333 


Q ss_pred             ---cCC-CccccCCccEEEccCCcCcc-----ccccccCC---------CCCcEEeccCCCCC--CcCC--ccccCCCCC
Q 012249          125 ---RVP-SLARLLALQYLDLYDTRIEE-----VPEGMEML---------ENLSHLYLSSLQLK--KFPA--GILPRLRSL  182 (467)
Q Consensus       125 ---~~p-~l~~l~~L~~L~l~~~~~~~-----lp~~~~~l---------~~L~~L~l~~~~~~--~~~~--~~l~~l~~L  182 (467)
                         .+| .+..+++|++|++++|.++.     ++..+..+         ++|++|++++|.+.  .++.  ..+..+++|
T Consensus       110 ~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  189 (386)
T 2ca6_A          110 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLL  189 (386)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCc
Confidence               133 46677777777777776652     22233333         67777777777764  2331  113466677


Q ss_pred             cEEEcccCCCcccc---cHH-HHHhhhccCcEEEcccCCc
Q 012249          183 YKLKLSFGNEALRE---TVE-EAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       183 ~~L~l~~~~~~~~~---~~~-~l~~l~~~L~~L~l~~~~~  218 (467)
                      ++|++++|......   ... .+..+ ++|+.|+++.|.+
T Consensus       190 ~~L~L~~n~l~~~g~~~l~~~~l~~~-~~L~~L~Ls~n~l  228 (386)
T 2ca6_A          190 HTVKMVQNGIRPEGIEHLLLEGLAYC-QELKVLDLQDNTF  228 (386)
T ss_dssp             CEEECCSSCCCHHHHHHHHHTTGGGC-TTCCEEECCSSCC
T ss_pred             CEEECcCCCCCHhHHHHHHHHHhhcC-CCccEEECcCCCC
Confidence            77777766443211   111 33445 6666666666654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.48  E-value=6.1e-14  Score=135.33  Aligned_cols=173  Identities=17%  Similarity=0.139  Sum_probs=106.4

Q ss_pred             EEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCch----hHhhcCC-CCcEEEccCCCCCCc-hhhhhcC-----cC
Q 012249           43 VSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE----CFFVHMH-GLKVVNLSSTDIEVL-PSSVSDL-----TN  111 (467)
Q Consensus        43 L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~----~~~~~l~-~L~~L~l~~~~~~~l-~~~~~~l-----~~  111 (467)
                      +.++.+.++..........++|+.|++++|. +...+.    ..+..++ +|++|++++|.+... +..+..+     ++
T Consensus         3 ~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~   81 (362)
T 3goz_A            3 YKLTLHPGSNPVEEFTSIPHGVTSLDLSLNN-LYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPAN   81 (362)
T ss_dssp             EECCCCTTCCHHHHHHTSCTTCCEEECTTSC-GGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTT
T ss_pred             cccccccchHHHHHHHhCCCCceEEEccCCC-CChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCC
Confidence            4566666664433444345568888888887 555543    4456777 788888888887743 4445443     88


Q ss_pred             CCEEEcCCCCCCCcCC--C----cccc-CCccEEEccCCcCccccc-----cccC-CCCCcEEeccCCCCCCcC-----C
Q 012249          112 LRSLSLGWCRRLKRVP--S----LARL-LALQYLDLYDTRIEEVPE-----GMEM-LENLSHLYLSSLQLKKFP-----A  173 (467)
Q Consensus       112 L~~L~l~~~~~~~~~p--~----l~~l-~~L~~L~l~~~~~~~lp~-----~~~~-l~~L~~L~l~~~~~~~~~-----~  173 (467)
                      |++|++++|. ++..+  .    +..+ ++|++|++++|.++..+.     .+.. .++|++|++++|.+....     .
T Consensus        82 L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  160 (362)
T 3goz_A           82 VTSLNLSGNF-LSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQ  160 (362)
T ss_dssp             CCEEECCSSC-GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHH
T ss_pred             ccEEECcCCc-CChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHH
Confidence            8888888874 44333  2    3334 778888888887775443     1333 357888888888775322     2


Q ss_pred             ccccCCC-CCcEEEcccCCCcccccH---HHHHhhhccCcEEEcccCCc
Q 012249          174 GILPRLR-SLYKLKLSFGNEALRETV---EEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       174 ~~l~~l~-~L~~L~l~~~~~~~~~~~---~~l~~l~~~L~~L~l~~~~~  218 (467)
                      . +..++ +|++|++++|........   ..+...+++|+.|+++.|.+
T Consensus       161 ~-l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i  208 (362)
T 3goz_A          161 I-LAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLL  208 (362)
T ss_dssp             H-HHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCG
T ss_pred             H-HhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCC
Confidence            2 23444 788888887755433221   12333313777777777754

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

Probab=99.46  E-value=1.2e-12  Score=132.73  Aligned_cols=163  Identities=21%  Similarity=0.290  Sum_probs=135.1

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+..+++.+..+|   ..+++|+.|++++|.++.+|. +. .  +|+.|++++|. +..+|.    .+++|++|++++|.
T Consensus        84 ~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~l~~ip~-l~-~--~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N~  151 (571)
T 3cvr_A           84 VLEITQNALISLP---ELPASLEYLDACDNRLSTLPE-LP-A--SLKHLDVDNNQ-LTMLPE----LPALLEYINADNNQ  151 (571)
T ss_dssp             EEECCSSCCSCCC---CCCTTCCEEECCSSCCSCCCC-CC-T--TCCEEECCSSC-CSCCCC----CCTTCCEEECCSSC
T ss_pred             EEECcCCCCcccc---cccCCCCEEEccCCCCCCcch-hh-c--CCCEEECCCCc-CCCCCC----cCccccEEeCCCCc
Confidence            4566778888888   457899999999999998887 43 3  99999999998 555776    68999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCC-------cEEeccCCCCCCc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL-------SHLYLSSLQLKKF  171 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L-------~~L~l~~~~~~~~  171 (467)
                      +..+|.   .+++|++|++++| .++.+|.+.  .+|++|++++|.++.+|. +..  +|       +.|++++|.+..+
T Consensus       152 l~~lp~---~l~~L~~L~Ls~N-~L~~lp~l~--~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~l  222 (571)
T 3cvr_A          152 LTMLPE---LPTSLEVLSVRNN-QLTFLPELP--ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRENRITHI  222 (571)
T ss_dssp             CSCCCC---CCTTCCEEECCSS-CCSCCCCCC--TTCCEEECCSSCCSSCCC-CC----------CCEEEECCSSCCCCC
T ss_pred             cCcCCC---cCCCcCEEECCCC-CCCCcchhh--CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCCCcceec
Confidence            998886   6789999999997 466677644  899999999999999988 654  77       9999999999999


Q ss_pred             CCccccCCCCCcEEEcccCCCcccccHHHHHhh
Q 012249          172 PAGILPRLRSLYKLKLSFGNEALRETVEEAARL  204 (467)
Q Consensus       172 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l  204 (467)
                      |..+ .++++|+.|++++|...+.. ...+..+
T Consensus       223 p~~l-~~l~~L~~L~L~~N~l~~~~-p~~l~~l  253 (571)
T 3cvr_A          223 PENI-LSLDPTCTIILEDNPLSSRI-RESLSQQ  253 (571)
T ss_dssp             CGGG-GGSCTTEEEECCSSSCCHHH-HHHHHHH
T ss_pred             CHHH-hcCCCCCEEEeeCCcCCCcC-HHHHHHh
Confidence            9987 56999999999999776543 3566665

>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=99.44  E-value=4.2e-13  Score=114.39  Aligned_cols=131  Identities=22%  Similarity=0.246  Sum_probs=84.6

Q ss_pred             CCccEEEeecCCCc--ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC-chhhhhcCcCCCE
Q 012249           38 ENLERVSLMRNNIE--EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV-LPSSVSDLTNLRS  114 (467)
Q Consensus        38 ~~l~~L~l~~~~~~--~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-l~~~~~~l~~L~~  114 (467)
                      +++++|++++|.+.  .++.. +..+++|+.|++++|. +..+  ..+..+++|++|++++|.+.. +|..+..+++|++
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 AAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINVG-LISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESSC-CCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             ccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCCC-CCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            46777777777776  56554 3367777777777776 3344  224667777777777777775 5555566777777


Q ss_pred             EEcCCCCCCCcCC---CccccCCccEEEccCCcCccccc----cccCCCCCcEEeccCCCCCCcCC
Q 012249          115 LSLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVPE----GMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus       115 L~l~~~~~~~~~p---~l~~l~~L~~L~l~~~~~~~lp~----~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      |++++| .+..+|   .+..+++|++|++++|.++.+|.    .+..+++|++|++++|.+.++|.
T Consensus       100 L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~  164 (168)
T 2ell_A          100 LNLSGN-KLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQEAPD  164 (168)
T ss_dssp             EECBSS-SCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCBCCS
T ss_pred             EeccCC-ccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhhccc
Confidence            777775 344432   46666677777777776666654    46666777777776666655554

>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=99.44  E-value=3.6e-13  Score=114.86  Aligned_cols=131  Identities=18%  Similarity=0.231  Sum_probs=97.0

Q ss_pred             CCCCCCEEEccCCCCC-CCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccE
Q 012249           60 HCEILSTLLLQRNENL-QRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQY  137 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~-~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~  137 (467)
                      ..++|+.|++++|.+. ..+|.. +..+++|++|++++|.+..+ ..+..+++|++|++++|.....+| .+..+++|++
T Consensus        22 ~~~~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           22 TPAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             CcccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            3577888888888743 256654 47788888888888888776 667788888888888875444466 4556888888


Q ss_pred             EEccCCcCcccc--ccccCCCCCcEEeccCCCCCCcCC---ccccCCCCCcEEEcccCCC
Q 012249          138 LDLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKKFPA---GILPRLRSLYKLKLSFGNE  192 (467)
Q Consensus       138 L~l~~~~~~~lp--~~~~~l~~L~~L~l~~~~~~~~~~---~~l~~l~~L~~L~l~~~~~  192 (467)
                      |++++|.++.+|  ..+..+++|++|++++|.+..++.   ..+..+++|+.|+++.|..
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTS
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCCh
Confidence            888888888765  567788888888888888777766   3457777888887777644

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.42  E-value=2.5e-13  Score=142.48  Aligned_cols=157  Identities=17%  Similarity=0.187  Sum_probs=100.4

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCC---CCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCC
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNEN---LQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLR  113 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~---~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~  113 (467)
                      .++++.+++..+.+...+.... ....|+.+.+.....   ...++...+..++.|++|+|++|.+..+|..+..+++|+
T Consensus       172 ~~~~~~l~L~~n~~~~~~~~~l-~~l~Ls~~~i~~~~~~~n~~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~  250 (727)
T 4b8c_D          172 TPLTPKIELFANGKDEANQALL-QHKKLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLT  250 (727)
T ss_dssp             ---------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCS
T ss_pred             CCccceEEeeCCCCCcchhhHh-hcCccCcccccCccccccceecChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCC
Confidence            3568889998888776655544 444455544443221   112445556899999999999999999998899999999


Q ss_pred             EEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCC
Q 012249          114 SLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNE  192 (467)
Q Consensus       114 ~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  192 (467)
                      +|++++| .+..+| .++.+.+|++|++++|.++.+|..++++++|++|++++|.+..+|..+ +++++|+.|++++|.+
T Consensus       251 ~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~lp~~~-~~l~~L~~L~L~~N~l  328 (727)
T 4b8c_D          251 RLYLNGN-SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEF-GNLCNLQFLGVEGNPL  328 (727)
T ss_dssp             CCBCTTS-CCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSCCCCCCSST-TSCTTCCCEECTTSCC
T ss_pred             EEEeeCC-cCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCCCCccChhh-hcCCCccEEeCCCCcc
Confidence            9999997 556888 799999999999999999999999999999999999999999999885 9999999999999977


Q ss_pred             cccc
Q 012249          193 ALRE  196 (467)
Q Consensus       193 ~~~~  196 (467)
                      .+..
T Consensus       329 ~~~~  332 (727)
T 4b8c_D          329 EKQF  332 (727)
T ss_dssp             CSHH
T ss_pred             CCCC
Confidence            6543

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

Probab=99.42  E-value=2.7e-13  Score=113.16  Aligned_cols=106  Identities=21%  Similarity=0.283  Sum_probs=52.3

Q ss_pred             CccEEEeecCCCc--ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC-chhhhhcCcCCCEE
Q 012249           39 NLERVSLMRNNIE--EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV-LPSSVSDLTNLRSL  115 (467)
Q Consensus        39 ~l~~L~l~~~~~~--~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-l~~~~~~l~~L~~L  115 (467)
                      +++.|++++|.+.  .++.. +..+++|+.|++++|. +..+  ..+..+++|++|++++|.+.. +|..+..+++|++|
T Consensus        18 ~l~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~l~~n~-l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           18 DVKELVLDNSRSNEGKLEGL-TDEFEELEFLSTINVG-LTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GCSEEECTTCBCBTTBCCSC-CTTCTTCCEEECTTSC-CCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEE
T ss_pred             cCeEEEccCCcCChhHHHHH-HhhcCCCcEEECcCCC-CCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEE
Confidence            5566666666555  44432 2355566666666554 3333  223455555555555555554 44444445555555


Q ss_pred             EcCCCCCCCcCC---CccccCCccEEEccCCcCcccc
Q 012249          116 SLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVP  149 (467)
Q Consensus       116 ~l~~~~~~~~~p---~l~~l~~L~~L~l~~~~~~~lp  149 (467)
                      ++++|. +...+   .+..+++|++|++++|.++.+|
T Consensus        94 ~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~  129 (149)
T 2je0_A           94 NLSGNK-IKDLSTIEPLKKLENLKSLDLFNCEVTNLN  129 (149)
T ss_dssp             ECTTSC-CCSHHHHGGGGGCTTCCEEECTTCGGGGST
T ss_pred             ECCCCc-CCChHHHHHHhhCCCCCEEeCcCCcccchH
Confidence            555542 22221   3444444444444444444433

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

Probab=99.40  E-value=3.9e-12  Score=110.92  Aligned_cols=126  Identities=18%  Similarity=0.286  Sum_probs=85.9

Q ss_pred             CEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccC
Q 012249           65 STLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYD  142 (467)
Q Consensus        65 ~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~  142 (467)
                      +.++++++. +..+|..+   .+.|++|++++|.+..+|..+..+++|++|++++|. +..++  .+..+++|++|++++
T Consensus        13 ~~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           13 TVVRCSNKG-LKVLPKGI---PRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSC-CSSCCSCC---CTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCC-CCcCCCCC---CCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCc-CCEeCHhHccCCCCCCEEECCC
Confidence            345555554 44555432   245666677766666666666667777777777653 33333  467777777777777


Q ss_pred             CcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          143 TRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       143 ~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      |.++.++. .+..+++|++|++++|.+..++...+..+++|+.|++++|.....
T Consensus        88 N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~C~  141 (193)
T 2wfh_A           88 NRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYCD  141 (193)
T ss_dssp             SCCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEECS
T ss_pred             CccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCeecC
Confidence            77776654 477888888888888888888877667888888888888765443

>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=99.38  E-value=4.8e-12  Score=110.31  Aligned_cols=108  Identities=21%  Similarity=0.204  Sum_probs=54.9

Q ss_pred             CCcEEEccCCCCCCchh--hhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEec
Q 012249           88 GLKVVNLSSTDIEVLPS--SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYL  163 (467)
Q Consensus        88 ~L~~L~l~~~~~~~l~~--~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l  163 (467)
                      .+++|++++|.+..++.  .+..+++|++|++++|......| .+..+.+|++|++++|.++.++.. +..+++|++|++
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  109 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL  109 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEEC
Confidence            34444444444443332  13444444444444432222223 344555555555555555544432 556666666666


Q ss_pred             cCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          164 SSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       164 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      ++|.+..++...+..+++|+.|++++|.....
T Consensus       110 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~  141 (192)
T 1w8a_A          110 YDNQISCVMPGSFEHLNSLTSLNLASNPFNCN  141 (192)
T ss_dssp             CSSCCCEECTTSSTTCTTCCEEECTTCCBCCS
T ss_pred             CCCcCCeeCHHHhhcCCCCCEEEeCCCCccCc
Confidence            66666555444446666677777766655443

>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=99.36  E-value=1.4e-13  Score=140.18  Aligned_cols=178  Identities=23%  Similarity=0.244  Sum_probs=92.4

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCC-------------CCCCCchhHhhcCCCCcEEE-ccCCCCC
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNE-------------NLQRIPECFFVHMHGLKVVN-LSSTDIE  100 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~-------------~~~~~~~~~~~~l~~L~~L~-l~~~~~~  100 (467)
                      ...++++.|++++|.++.+|..+. +|++|+.|++.+|.             .....| ..++.+++|+.|+ ++.+.+.
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~~i~-~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~-~~l~~l~~L~~L~~l~~n~~~  423 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQSELE-SCKELQELEPENKWCLLTIILLMRALDPLLYEK-ETLQYFSTLKAVDPMRAAYLD  423 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHHHHH-HHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHH-HHHHHHHHHHHHCGGGHHHHH
T ss_pred             ccCccceeccCChhhHHhhHHHHH-HHHHHHHhccccchhhhhHHHHHHhcccccCCH-HHHHHHHhcccCcchhhcccc
Confidence            446678888888888888877665 77888888775542             122222 2234444444444 2322222


Q ss_pred             Cchh------hhhc--CcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcC
Q 012249          101 VLPS------SVSD--LTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus       101 ~l~~------~~~~--l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      .++.      .+..  ...|++|++++| .++.+|.++.+++|+.|++++|.++.+|..++++++|+.|++++|.++.+|
T Consensus       424 ~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~~lp  502 (567)
T 1dce_A          424 DLRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD  502 (567)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSEEECTTS-CCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG
T ss_pred             hhhhhhhhcccccccCccCceEEEecCC-CCCCCcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc
Confidence            1111      0111  123555555554 344445555555555555555555555555555555555555555555555


Q ss_pred             CccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          173 AGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                       . ++++++|+.|++++|..........++.+ ++|+.|++++|.+
T Consensus       503 -~-l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l-~~L~~L~L~~N~l  545 (567)
T 1dce_A          503 -G-VANLPRLQELLLCNNRLQQSAAIQPLVSC-PRLVLLNLQGNSL  545 (567)
T ss_dssp             -G-GTTCSSCCEEECCSSCCCSSSTTGGGGGC-TTCCEEECTTSGG
T ss_pred             -c-cCCCCCCcEEECCCCCCCCCCCcHHHhcC-CCCCEEEecCCcC
Confidence             2 25555555555555544333212345555 5555555555544

>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=99.35  E-value=7.2e-12  Score=109.23  Aligned_cols=125  Identities=27%  Similarity=0.408  Sum_probs=102.2

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCch-hHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPE-CFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLG  118 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~  118 (467)
                      +.++++++.++++|..+.   .+++.|++++|. +..++. .+|..+++|++|++++|.+..+ |..+..+++|++|+++
T Consensus        11 ~~l~~s~~~l~~ip~~~~---~~l~~L~l~~n~-i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP---LHTTELLLNDNE-LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC---TTCSEEECCSCC-CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CEEEcCCCCcCcCccCCC---CCCCEEECCCCc-CCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            678888888888887654   389999999997 555554 3568999999999999999866 6788899999999999


Q ss_pred             CCCCCCcCC-CccccCCccEEEccCCcCccc-cccccCCCCCcEEeccCCCCC
Q 012249          119 WCRRLKRVP-SLARLLALQYLDLYDTRIEEV-PEGMEMLENLSHLYLSSLQLK  169 (467)
Q Consensus       119 ~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~l-p~~~~~l~~L~~L~l~~~~~~  169 (467)
                      +|......+ .+..+++|++|++++|.++.+ |..+..+++|++|++++|.+.
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            975444444 588999999999999998866 567889999999999999864

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.35  E-value=3.3e-13  Score=141.64  Aligned_cols=117  Identities=25%  Similarity=0.368  Sum_probs=99.2

Q ss_pred             CCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-Ccccc
Q 012249           54 PSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARL  132 (467)
Q Consensus        54 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l  132 (467)
                      +...+..+++|+.|++++|. +..+|..++ .+++|++|+|++|.+..+|..++.+++|++|++++|. +..+| .++.+
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n~-l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~l  292 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNLQ-IFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSC  292 (727)
T ss_dssp             ------CCCCCCEEECTTSC-CSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSC-CSSCCSSGGGG
T ss_pred             ChhhhccCCCCcEEECCCCC-CCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCc-CCccChhhcCC
Confidence            34445688999999999998 568887774 8999999999999999999999999999999999975 56788 79999


Q ss_pred             CCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCC
Q 012249          133 LALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus       133 ~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      .+|++|++++|.++.+|..++++++|++|++++|.+...+.
T Consensus       293 ~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p  333 (727)
T 4b8c_D          293 FQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFL  333 (727)
T ss_dssp             TTCSEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSHHH
T ss_pred             CCCCEEECCCCCCCccChhhhcCCCccEEeCCCCccCCCCh
Confidence            99999999999999999999999999999999999875443

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

Probab=99.35  E-value=2.2e-12  Score=107.52  Aligned_cols=126  Identities=17%  Similarity=0.219  Sum_probs=83.5

Q ss_pred             CCCCCEEEccCCCCC-CCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEE
Q 012249           61 CEILSTLLLQRNENL-QRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYL  138 (467)
Q Consensus        61 l~~L~~L~l~~~~~~-~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L  138 (467)
                      .++++.|++++|.+. ..+|.. +..+++|++|++++|.+..+ ..+..+++|++|++++|.....+| .+..+++|++|
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGL-TDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSC-CTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEE
T ss_pred             CccCeEEEccCCcCChhHHHHH-HhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEE
Confidence            466777888877743 255553 36777778888777777766 556777777777777764433355 45557777777


Q ss_pred             EccCCcCcccc--ccccCCCCCcEEeccCCCCCCcCC---ccccCCCCCcEEEcc
Q 012249          139 DLYDTRIEEVP--EGMEMLENLSHLYLSSLQLKKFPA---GILPRLRSLYKLKLS  188 (467)
Q Consensus       139 ~l~~~~~~~lp--~~~~~l~~L~~L~l~~~~~~~~~~---~~l~~l~~L~~L~l~  188 (467)
                      ++++|.++.+|  ..++.+++|++|++++|.+..++.   ..++.+++|+.|+++
T Consensus        94 ~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           94 NLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             ECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             ECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            77777777654  556777777777777777666655   334566666666554

>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=99.33  E-value=3.4e-12  Score=109.60  Aligned_cols=127  Identities=16%  Similarity=0.166  Sum_probs=73.4

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-C-ccccCCccE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-S-LARLLALQY  137 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~-l~~l~~L~~  137 (467)
                      ++++|+.|++++|. +..++. +....++|++|++++|.+..+ ..+..+++|++|++++| .+..+| . +..+++|++
T Consensus        17 ~~~~L~~L~l~~n~-l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           17 NAVRDRELDLRGYK-IPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNN-RICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             CTTSCEEEECTTSC-CCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSS-CCCEECSCHHHHCTTCCE
T ss_pred             CcCCceEEEeeCCC-CchhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCC-cccccCcchhhcCCCCCE
Confidence            45566666666665 334432 222233666666666666655 34566666666666665 334444 3 356666666


Q ss_pred             EEccCCcCccccc--cccCCCCCcEEeccCCCCCCcCCc---cccCCCCCcEEEcccC
Q 012249          138 LDLYDTRIEEVPE--GMEMLENLSHLYLSSLQLKKFPAG---ILPRLRSLYKLKLSFG  190 (467)
Q Consensus       138 L~l~~~~~~~lp~--~~~~l~~L~~L~l~~~~~~~~~~~---~l~~l~~L~~L~l~~~  190 (467)
                      |++++|.++.+|.  .+..+++|++|++++|.+..+|..   ++..+++|+.|+++.+
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEEC
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcC
Confidence            6666666666665  566666666677666666555553   2356666666666555

>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=99.29  E-value=1.2e-11  Score=106.19  Aligned_cols=134  Identities=16%  Similarity=0.225  Sum_probs=111.3

Q ss_pred             hhcCCCCcEEEccCCCCCCchhhhhcC-cCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccc-cCCCCCcE
Q 012249           83 FVHMHGLKVVNLSSTDIEVLPSSVSDL-TNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGM-EMLENLSH  160 (467)
Q Consensus        83 ~~~l~~L~~L~l~~~~~~~l~~~~~~l-~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~-~~l~~L~~  160 (467)
                      +.++.+|++|++++|.+..++. +..+ ++|++|++++| .+..++.+..+++|++|++++|.++.+|..+ ..+++|++
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N-~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDN-EIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSS-CCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             cCCcCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCC-CCCcccccccCCCCCEEECCCCcccccCcchhhcCCCCCE
Confidence            3578899999999999998865 5554 59999999997 4555678999999999999999999998665 89999999


Q ss_pred             EeccCCCCCCcCC-ccccCCCCCcEEEcccCCCccccc--HHHHHhhhccCcEEEcccCCcc
Q 012249          161 LYLSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALRET--VEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       161 L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~--~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      |++++|.+..+|. ..+..+++|+.|++++|.......  ...+..+ ++|+.|+++.+...
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l-~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKV-PQVRVLDFQKVKLK  153 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHC-TTCSEETTEECCHH
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHC-CccceeCCCcCCHH
Confidence            9999999988886 234899999999999997654332  1258888 99999999887653

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

Probab=99.28  E-value=5.1e-11  Score=102.32  Aligned_cols=108  Identities=31%  Similarity=0.465  Sum_probs=63.7

Q ss_pred             CCCcEEEccCCCCCCchh-hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEe
Q 012249           87 HGLKVVNLSSTDIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLY  162 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~  162 (467)
                      ++|++|++++|.+..++. .+..+++|++|++++| .+..++  .+..+++|++|++++|.++.+|.. +..+++|++|+
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~  106 (177)
T 2o6r_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELA  106 (177)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCC-cceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEE
Confidence            344455555544444332 2344555555555554 233333  245566666666666666666543 56677777777


Q ss_pred             ccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          163 LSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       163 l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      +++|.+..++..++..+++|+.|++++|.....
T Consensus       107 l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~  139 (177)
T 2o6r_A          107 LDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS  139 (177)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             CcCCcceEeCHHHhcCCcccCEEEecCCCeecc
Confidence            777777777776666777888888887765443

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

Probab=99.28  E-value=5e-11  Score=103.84  Aligned_cols=122  Identities=29%  Similarity=0.474  Sum_probs=97.4

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEcCC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSLGW  119 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l~~  119 (467)
                      +.++++++.++.+|..+.   ++++.|++++|. +..+|. .|..+++|++|++++|.+..++ ..+..+++|++|++++
T Consensus        13 ~~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           13 TVVRCSNKGLKVLPKGIP---RDVTELYLDGNQ-FTLVPK-ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSCCSSCCSCCC---TTCCEEECCSSC-CCSCCG-GGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCCCcCCCCCC---CCCCEEECCCCc-CchhHH-HhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            567788888888876643   578888988887 567774 4588889999999999888765 4678889999999998


Q ss_pred             CCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCC
Q 012249          120 CRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQL  168 (467)
Q Consensus       120 ~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~  168 (467)
                      |. +..++  .+..+++|++|++++|.++.+|.. +..+++|+.|++++|.+
T Consensus        88 N~-l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           88 NR-LRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             SC-CCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             Cc-cCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCe
Confidence            64 45444  588889999999999988888764 77889999999988875

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

Probab=99.25  E-value=8.4e-11  Score=100.94  Aligned_cols=126  Identities=25%  Similarity=0.418  Sum_probs=92.4

Q ss_pred             ccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhh-hhcCcCCCEEEcC
Q 012249           40 LERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSS-VSDLTNLRSLSLG  118 (467)
Q Consensus        40 l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~-~~~l~~L~~L~l~  118 (467)
                      .+.++++++.+..+|..+   .++|+.|++++|. +..++...+..+++|++|++++|.+..++.. +..+++|++|+++
T Consensus         9 ~~~l~~~~~~l~~~p~~~---~~~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~   84 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGI---PSSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLH   84 (177)
T ss_dssp             TTEEECCSSCCSSCCTTC---CTTCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEecCCCCccCCCCC---CCCCcEEEeCCCc-ccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECC
Confidence            356777777777776543   3678888888877 5566666667788888888888888766543 5778888888888


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCC
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKK  170 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~  170 (467)
                      +| .++.+|  .+..+++|++|++++|.++.+|.. +..+++|++|++++|.+..
T Consensus        85 ~N-~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           85 EN-KLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             CC-CccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeec
Confidence            86 344554  367888888888888888877765 4778888888888887643

>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=99.24  E-value=2.6e-11  Score=123.35  Aligned_cols=186  Identities=20%  Similarity=0.192  Sum_probs=136.9

Q ss_pred             EcCCCcccCCcCccCCCCccEEEeecCC-------------CcccCCCccCCCCCCCEEE-ccCCCCCCCCchhH-----
Q 012249           22 KAGLRLLEFPGEQEWEENLERVSLMRNN-------------IEEIPSNMSPHCEILSTLL-LQRNENLQRIPECF-----   82 (467)
Q Consensus        22 ~~~~~l~~~~~~~~~l~~l~~L~l~~~~-------------~~~l~~~~~~~l~~L~~L~-l~~~~~~~~~~~~~-----   82 (467)
                      .+++++..+|..++.+++|+.|++.++.             ........+.++++|+.|+ +..+. ...++...     
T Consensus       356 Ls~n~L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~-~~~L~~l~l~~n~  434 (567)
T 1dce_A          356 LSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY-LDDLRSKFLLENS  434 (567)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHH-HHHHHHHHHHHHH
T ss_pred             CChhhHHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcc-cchhhhhhhhccc
Confidence            3455667788888888899998875542             2222222334677888887 44443 22222100     


Q ss_pred             hh--cCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCc
Q 012249           83 FV--HMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLS  159 (467)
Q Consensus        83 ~~--~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~  159 (467)
                      +.  ....|++|++++|.+..+|. ++.+++|++|++++| .+..+| .++.+++|++|++++|.++.+| .++.+++|+
T Consensus       435 i~~l~~~~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~  511 (567)
T 1dce_A          435 VLKMEYADVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQ  511 (567)
T ss_dssp             HHHHHHTTCSEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCC
T ss_pred             ccccCccCceEEEecCCCCCCCcC-ccccccCcEeecCcc-cccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCc
Confidence            01  12368999999999999887 899999999999997 566888 7999999999999999999998 899999999


Q ss_pred             EEeccCCCCCCc--CCccccCCCCCcEEEcccCCCccccc--HHHHHhhhccCcEEEc
Q 012249          160 HLYLSSLQLKKF--PAGILPRLRSLYKLKLSFGNEALRET--VEEAARLSDRLDYFEG  213 (467)
Q Consensus       160 ~L~l~~~~~~~~--~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~l~~l~~~L~~L~l  213 (467)
                      +|++++|.+..+  |..+ +++++|+.|++++|.+....+  ...+..+ ++|+.|++
T Consensus       512 ~L~Ls~N~l~~~~~p~~l-~~l~~L~~L~L~~N~l~~~~~~~~~l~~~l-p~L~~L~l  567 (567)
T 1dce_A          512 ELLLCNNRLQQSAAIQPL-VSCPRLVLLNLQGNSLCQEEGIQERLAEML-PSVSSILT  567 (567)
T ss_dssp             EEECCSSCCCSSSTTGGG-GGCTTCCEEECTTSGGGGSSSCTTHHHHHC-TTCSEEEC
T ss_pred             EEECCCCCCCCCCCcHHH-hcCCCCCEEEecCCcCCCCccHHHHHHHHC-cccCccCC
Confidence            999999999888  5554 899999999999996654422  2345557 88888753

>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=99.14  E-value=1.4e-10  Score=110.23  Aligned_cols=179  Identities=16%  Similarity=0.211  Sum_probs=122.3

Q ss_pred             CCCccEEEeecCCCc--------------------ccCCCccCC--------CCCCCEEEccCCCCCCCCchhHhhcCCC
Q 012249           37 EENLERVSLMRNNIE--------------------EIPSNMSPH--------CEILSTLLLQRNENLQRIPECFFVHMHG   88 (467)
Q Consensus        37 l~~l~~L~l~~~~~~--------------------~l~~~~~~~--------l~~L~~L~l~~~~~~~~~~~~~~~~l~~   88 (467)
                      +++|+.|++++|.+.                    .++...|.+        |++|+.+.+.. . +..++...|.++++
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~-i~~I~~~aF~~~~~  125 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE-K-IKNIEDAAFKGCDN  125 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT-T-CCEECTTTTTTCTT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc-c-ccchhHHHhhcCcc
Confidence            557777777777666                    456666667        78888888877 3 66777777788888


Q ss_pred             CcEEEccCCCCCCch-hhhhcCcCCCEEEcCCC-----------------CCCC---------cCC--------------
Q 012249           89 LKVVNLSSTDIEVLP-SSVSDLTNLRSLSLGWC-----------------RRLK---------RVP--------------  127 (467)
Q Consensus        89 L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l~~~-----------------~~~~---------~~p--------------  127 (467)
                      |+.+++.++.+..++ ..+..+.++.++.....                 ..+.         .++              
T Consensus       126 L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~  205 (329)
T 3sb4_A          126 LKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDIN  205 (329)
T ss_dssp             CCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCS
T ss_pred             cceEEcCCCCccccchhhhcCCCceEEecCcchhhhhccccccccccccccccceeEEecCCCcHHHHHhhcccCccccc
Confidence            888888888766543 34445555555544331                 0000         000              


Q ss_pred             --------------Cc-cccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCc-EEEcccC
Q 012249          128 --------------SL-ARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLY-KLKLSFG  190 (467)
Q Consensus       128 --------------~l-~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~-~L~l~~~  190 (467)
                                    .+ ..+.+|+.+++.+|+++.+|.. +.+|.+|+.+++..+ +..++...|.++.+|+ .+.+..+
T Consensus       206 ~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~~  284 (329)
T 3sb4_A          206 FLTIEGKLDNADFKLIRDYMPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPAS  284 (329)
T ss_dssp             EEEEEECCCHHHHHHHHHHCTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECTT
T ss_pred             eEEEeeeecHHHHHHHHHhcCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEccc
Confidence                          00 0267899999998888888765 788889999999886 8888888888999998 8888762


Q ss_pred             CCcccccHHHHHhhhccCcEEEcccCCccch
Q 012249          191 NEALRETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       191 ~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                       . .......|..+ ++|+.+.+..+.....
T Consensus       285 -l-~~I~~~aF~~c-~~L~~l~l~~n~i~~I  312 (329)
T 3sb4_A          285 -V-TAIEFGAFMGC-DNLRYVLATGDKITTL  312 (329)
T ss_dssp             -C-CEECTTTTTTC-TTEEEEEECSSCCCEE
T ss_pred             -c-eEEchhhhhCC-ccCCEEEeCCCccCcc
Confidence             3 23333577777 8899988877665443

>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=99.13  E-value=8.7e-13  Score=115.72  Aligned_cols=131  Identities=27%  Similarity=0.326  Sum_probs=86.6

Q ss_pred             CCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCC
Q 012249           77 RIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEML  155 (467)
Q Consensus        77 ~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l  155 (467)
                      .+|.. +..+++|++|++++|.+..+| .+..+++|++|++++| .+..+| .+..+++|++|++++|.++.+| .+..+
T Consensus        39 ~l~~~-~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n-~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l  114 (198)
T 1ds9_A           39 KMDAT-LSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GIEKL  114 (198)
T ss_dssp             CCHHH-HHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEE-EECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHH
T ss_pred             hhhHH-HhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCC-CcccccchhhcCCcCCEEECcCCcCCcCC-ccccC
Confidence            34443 467777777777777777666 6677777777777775 344566 3555677777777777777766 56777


Q ss_pred             CCCcEEeccCCCCCCcCC-ccccCCCCCcEEEcccCCCccc---------ccHHHHHhhhccCcEEE
Q 012249          156 ENLSHLYLSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALR---------ETVEEAARLSDRLDYFE  212 (467)
Q Consensus       156 ~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~---------~~~~~l~~l~~~L~~L~  212 (467)
                      ++|++|++++|.+..++. ..+..+++|+.|++++|.....         .....+..+ ++|+.|+
T Consensus       115 ~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l-~~L~~Ld  180 (198)
T 1ds9_A          115 VNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRL-PNLKKLD  180 (198)
T ss_dssp             HHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHC-SSCSEEC
T ss_pred             CCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhC-CCcEEEC
Confidence            777777777777766554 2246777788888877744222         111246677 8888775

>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=99.13  E-value=5.7e-13  Score=116.89  Aligned_cols=143  Identities=21%  Similarity=0.318  Sum_probs=112.2

Q ss_pred             CccEEEeecC--CCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEE
Q 012249           39 NLERVSLMRN--NIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS  116 (467)
Q Consensus        39 ~l~~L~l~~~--~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~  116 (467)
                      .++...+.+.  .++.++.. +..+++|+.|++++|. +..+| . +..+++|++|++++|.+..+|..+..+++|++|+
T Consensus        24 ~l~~~~l~~~~~~l~~l~~~-~~~l~~L~~L~ls~n~-l~~l~-~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~   99 (198)
T 1ds9_A           24 EAEKVELHGMIPPIEKMDAT-LSTLKACKHLALSTNN-IEKIS-S-LSGMENLRILSLGRNLIKKIENLDAVADTLEELW   99 (198)
T ss_dssp             TCSEEECCBCCTTCCCCHHH-HHHTTTCSEEECSEEE-ESCCC-C-HHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEE
T ss_pred             chheeEeccccCcHhhhhHH-HhcCCCCCEEECCCCC-Ccccc-c-cccCCCCCEEECCCCCcccccchhhcCCcCCEEE
Confidence            4555666544  44555544 3478999999999997 55577 3 5789999999999999998888888889999999


Q ss_pred             cCCCCCCCcCCCccccCCccEEEccCCcCccccc--cccCCCCCcEEeccCCCCCCcCC----------ccccCCCCCcE
Q 012249          117 LGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPE--GMEMLENLSHLYLSSLQLKKFPA----------GILPRLRSLYK  184 (467)
Q Consensus       117 l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~--~~~~l~~L~~L~l~~~~~~~~~~----------~~l~~l~~L~~  184 (467)
                      +++| .+..+|.+..+++|++|++++|.++.++.  .+..+++|++|++++|.+...+.          .++..+++|+.
T Consensus       100 L~~N-~l~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~  178 (198)
T 1ds9_A          100 ISYN-QIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKK  178 (198)
T ss_dssp             EEEE-ECCCHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSE
T ss_pred             CcCC-cCCcCCccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEE
Confidence            9997 55666778889999999999999987765  68899999999999998744321          23578899998


Q ss_pred             EE
Q 012249          185 LK  186 (467)
Q Consensus       185 L~  186 (467)
                      |+
T Consensus       179 Ld  180 (198)
T 1ds9_A          179 LD  180 (198)
T ss_dssp             EC
T ss_pred             EC
Confidence            87

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

Probab=99.08  E-value=7e-10  Score=94.80  Aligned_cols=102  Identities=25%  Similarity=0.384  Sum_probs=66.2

Q ss_pred             cEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCC
Q 012249           90 KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQ  167 (467)
Q Consensus        90 ~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~  167 (467)
                      +.++++++.+..+|..+.  .+|++|++++|......| .+..+++|++|++++|.++.+|.. +.++++|++|++++|.
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc
Confidence            556666666666655442  566666666653322223 466667777777777777776654 4677777777777777


Q ss_pred             CCCcCCccccCCCCCcEEEcccCCCc
Q 012249          168 LKKFPAGILPRLRSLYKLKLSFGNEA  193 (467)
Q Consensus       168 ~~~~~~~~l~~l~~L~~L~l~~~~~~  193 (467)
                      +..++...+.++++|+.|++++|.+.
T Consensus        93 l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           93 LKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             cceeCHHHhccccCCCEEEeCCCCcc
Confidence            77777765577777777777777554

>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=99.08  E-value=7.2e-10  Score=94.34  Aligned_cols=105  Identities=28%  Similarity=0.339  Sum_probs=73.8

Q ss_pred             CcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCC
Q 012249           89 LKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSL  166 (467)
Q Consensus        89 L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~  166 (467)
                      .++++++++.+..+|..+  ..+|++|++++|......| .+..+++|++|++++|.++.+|.. +..+++|++|++++|
T Consensus        11 ~~~l~~s~n~l~~ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   88 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN   88 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEeCCCCcCccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCC
Confidence            456677777776666544  3667777777753333334 477777777777777777777665 578888888888888


Q ss_pred             CCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          167 QLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       167 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      .+..++...+.++++|+.|++++|.....
T Consensus        89 ~l~~~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           89 QLKSIPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             ccCEeCHHHhcCCCCCCEEEeCCCCCCCC
Confidence            88888776667888888888888865433

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

Probab=99.06  E-value=9.2e-10  Score=94.05  Aligned_cols=105  Identities=21%  Similarity=0.359  Sum_probs=75.1

Q ss_pred             cEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhh-hhcCcCCCEEEcCC
Q 012249           41 ERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSS-VSDLTNLRSLSLGW  119 (467)
Q Consensus        41 ~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~-~~~l~~L~~L~l~~  119 (467)
                      +.++++++.+..+|..+.   ++|+.|++++|. +..+++..|..+++|++|++++|.+..+|.. +..+++|++|++++
T Consensus        15 ~~l~~~~n~l~~iP~~~~---~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP---TDKQRLWLNNNQ-ITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC---TTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             cEEEeCCCCCCccCCCcC---CCCcEEEeCCCC-ccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            567777777777776542   677888888887 5555545557788888888888888877654 46788888888887


Q ss_pred             CCCCCcCC--CccccCCccEEEccCCcCccccc
Q 012249          120 CRRLKRVP--SLARLLALQYLDLYDTRIEEVPE  150 (467)
Q Consensus       120 ~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~  150 (467)
                      | .+..+|  .+..+++|++|++++|.+...+.
T Consensus        91 N-~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~  122 (174)
T 2r9u_A           91 N-HLKSIPRGAFDNLKSLTHIYLYNNPWDCECR  122 (174)
T ss_dssp             S-CCCCCCTTTTTTCTTCSEEECCSSCBCTTBG
T ss_pred             C-ccceeCHHHhccccCCCEEEeCCCCcccccc
Confidence            6 455555  37778888888888887665443

>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=99.05  E-value=6.7e-10  Score=105.42  Aligned_cols=170  Identities=16%  Similarity=0.155  Sum_probs=126.9

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC-------C---------
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI-------E---------  100 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~-------~---------  100 (467)
                      +++|+.+.+.. .+..++...|.+|++|+.+++..+. +..++...|..+..+..+.......       .         
T Consensus       100 ~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~-i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~  177 (329)
T 3sb4_A          100 KQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKT-APNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEP  177 (329)
T ss_dssp             CTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSS-CCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCC
T ss_pred             cCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCC-ccccchhhhcCCCceEEecCcchhhhhccccccccccccccc
Confidence            89999999988 8888988889899999999999987 5566766677777777666554110       0         


Q ss_pred             -----------Cchhh---------------------------h-hcCcCCCEEEcCCCCCCCcCC--CccccCCccEEE
Q 012249          101 -----------VLPSS---------------------------V-SDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLD  139 (467)
Q Consensus       101 -----------~l~~~---------------------------~-~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~  139 (467)
                                 .++..                           + ..+++|+.+++++| .+..+|  .+..+.+|+.++
T Consensus       178 L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n-~i~~I~~~aF~~~~~L~~l~  256 (329)
T 3sb4_A          178 LETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKT-NATTIPDFTFAQKKYLLKIK  256 (329)
T ss_dssp             CEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTB-CCCEECTTTTTTCTTCCEEE
T ss_pred             cceeEEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCC-CcceecHhhhhCCCCCCEEE
Confidence                       01110                           0 13788999999985 477777  688899999999


Q ss_pred             ccCCcCcccccc-ccCCCCCc-EEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEc
Q 012249          140 LYDTRIEEVPEG-MEMLENLS-HLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEG  213 (467)
Q Consensus       140 l~~~~~~~lp~~-~~~l~~L~-~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l  213 (467)
                      +.++ ++.++.. +.++.+|+ .+++.. .+..++...|.+|++|+.+++..+....... ..|.++ ++|+.++.
T Consensus       257 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          257 LPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLATGDKITTLGD-ELFGNG-VPSKLIYK  328 (329)
T ss_dssp             CCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEECSSCCCEECT-TTTCTT-CCCCEEEC
T ss_pred             CCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeCCCccCccch-hhhcCC-cchhhhcc
Confidence            9886 7777654 78899998 999987 7888888888899999999987765544332 567777 88887753

>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=99.02  E-value=1.7e-09  Score=91.95  Aligned_cols=102  Identities=23%  Similarity=0.370  Sum_probs=70.1

Q ss_pred             ccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhh-hhcCcCCCEEEcC
Q 012249           40 LERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSS-VSDLTNLRSLSLG  118 (467)
Q Consensus        40 l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~-~~~l~~L~~L~l~  118 (467)
                      .+.++++++.++.+|..+   .++++.|++++|. +..+++..|..+++|++|++++|.+..++.. +..+++|++|+++
T Consensus        11 ~~~l~~s~n~l~~ip~~~---~~~l~~L~L~~N~-i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI---PTTTQVLYLYDNQ-ITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC---CTTCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEEeCCCCcCccCccC---CCCCcEEEcCCCc-CCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            456777777777777654   2667777777776 5555444457777777777777777766544 4677777777777


Q ss_pred             CCCCCCcCC--CccccCCccEEEccCCcCc
Q 012249          119 WCRRLKRVP--SLARLLALQYLDLYDTRIE  146 (467)
Q Consensus       119 ~~~~~~~~p--~l~~l~~L~~L~l~~~~~~  146 (467)
                      +| .+..+|  .+..+++|++|++++|.++
T Consensus        87 ~N-~l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           87 DN-QLKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             SS-CCCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CC-ccCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            75 444444  3777778888888777665

>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=98.81  E-value=1.7e-08  Score=96.46  Aligned_cols=112  Identities=20%  Similarity=0.168  Sum_probs=73.1

Q ss_pred             EEEccCC-CCCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCC
Q 012249           91 VVNLSST-DIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSL  166 (467)
Q Consensus        91 ~L~l~~~-~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~  166 (467)
                      .++++++ ++..+|. +..+.+|++|+++++..+..++  .+..+.+|++|++++|.++.++. .+.++++|++|++++|
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N   90 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCC
Confidence            3456665 6666666 6666777777776523444444  46677777777777777776654 4677888888888888


Q ss_pred             CCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhh
Q 012249          167 QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARL  204 (467)
Q Consensus       167 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l  204 (467)
                      .+..+|..++..+. |+.|++.+|.+...-.+..+...
T Consensus        91 ~l~~~~~~~~~~~~-L~~l~l~~N~~~c~c~l~~~~~~  127 (347)
T 2ifg_A           91 ALESLSWKTVQGLS-LQELVLSGNPLHCSCALRWLQRW  127 (347)
T ss_dssp             CCSCCCSTTTCSCC-CCEEECCSSCCCCCGGGHHHHHH
T ss_pred             ccceeCHHHcccCC-ceEEEeeCCCccCCCccHHHHHH
Confidence            88777776655555 88888887766544443444433

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.81  E-value=4.2e-08  Score=95.31  Aligned_cols=171  Identities=14%  Similarity=0.139  Sum_probs=122.5

Q ss_pred             CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCC
Q 012249           33 EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNL  112 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L  112 (467)
                      +|..+ +|+.+.+..+ +..+....|.++ +|+.+.+...  +..++...|.+|++|+.+++..+.+..++.....+.+|
T Consensus       131 aF~~~-~L~~i~l~~~-i~~I~~~aF~~~-~L~~i~lp~~--l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L  205 (401)
T 4fdw_A          131 AFRNS-QIAKVVLNEG-LKSIGDMAFFNS-TVQEIVFPST--LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGI  205 (401)
T ss_dssp             TTTTC-CCSEEECCTT-CCEECTTTTTTC-CCCEEECCTT--CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCC
T ss_pred             hcccC-CccEEEeCCC-ccEECHHhcCCC-CceEEEeCCC--ccEehHHHhhCcccCCeeecCCCcceEechhhEeeccc
Confidence            44454 6888887655 777777777664 6888888763  66677777888889999999888888887666667888


Q ss_pred             CEEEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEccc
Q 012249          113 RSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF  189 (467)
Q Consensus       113 ~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  189 (467)
                      +.+.+..  .+..++  ++..+.+|+.+++..+ ++.++.. +.+ .+|+.+.+ .+.+..++...|.+|++|+.+.+..
T Consensus       206 ~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~l-p~~i~~I~~~aF~~c~~L~~l~l~~  280 (401)
T 4fdw_A          206 EEVLLPV--TLKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVKL-PNGVTNIASRAFYYCPELAEVTTYG  280 (401)
T ss_dssp             SEEECCT--TCCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEEE-ETTCCEECTTTTTTCTTCCEEEEES
T ss_pred             CEEEeCC--chheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEEEe-CCCccEEChhHhhCCCCCCEEEeCC
Confidence            8888875  366666  6888888888888763 5666554 444 67888888 3557777777778888888888876


Q ss_pred             CCCc----ccccHHHHHhhhccCcEEEcc
Q 012249          190 GNEA----LRETVEEAARLSDRLDYFEGY  214 (467)
Q Consensus       190 ~~~~----~~~~~~~l~~l~~~L~~L~l~  214 (467)
                      +...    .......+..+ .+|+.+.+.
T Consensus       281 ~~~~~~~~~~I~~~aF~~c-~~L~~l~l~  308 (401)
T 4fdw_A          281 STFNDDPEAMIHPYCLEGC-PKLARFEIP  308 (401)
T ss_dssp             SCCCCCTTCEECTTTTTTC-TTCCEECCC
T ss_pred             ccccCCcccEECHHHhhCC-ccCCeEEeC
Confidence            6332    11222456666 788877775

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.74  E-value=5.9e-08  Score=94.30  Aligned_cols=177  Identities=10%  Similarity=0.113  Sum_probs=117.2

Q ss_pred             cccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-h
Q 012249           27 LLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-S  104 (467)
Q Consensus        27 l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~  104 (467)
                      +..++. +|..+ +|+.+.+.. .+..+....|.+|++|+.+++..+. +..++...|. +..|+.+.+..+ +..++ .
T Consensus       146 i~~I~~~aF~~~-~L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n~-l~~I~~~aF~-~~~L~~l~lp~~-l~~I~~~  220 (401)
T 4fdw_A          146 LKSIGDMAFFNS-TVQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKTK-ITKLPASTFV-YAGIEEVLLPVT-LKEIGSQ  220 (401)
T ss_dssp             CCEECTTTTTTC-CCCEEECCT-TCCEECSSTTTTCTTCCEEECTTSC-CSEECTTTTT-TCCCSEEECCTT-CCEECTT
T ss_pred             ccEECHHhcCCC-CceEEEeCC-CccEehHHHhhCcccCCeeecCCCc-ceEechhhEe-ecccCEEEeCCc-hheehhh
Confidence            445544 34443 688888874 6777777788888888888888776 6677777665 578888888743 55553 4


Q ss_pred             hhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCC-----CcCCccc
Q 012249          105 SVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLK-----KFPAGIL  176 (467)
Q Consensus       105 ~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~-----~~~~~~l  176 (467)
                      .+..+.+|+.+.+..+  +..++  ++.. .+|+.+.+. +.++.++. .+.+|++|+.+.+.++...     .++...|
T Consensus       221 aF~~~~~L~~l~l~~~--l~~I~~~aF~~-~~L~~i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF  296 (401)
T 4fdw_A          221 AFLKTSQLKTIEIPEN--VSTIGQEAFRE-SGITTVKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCL  296 (401)
T ss_dssp             TTTTCTTCCCEECCTT--CCEECTTTTTT-CCCSEEEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTT
T ss_pred             HhhCCCCCCEEecCCC--ccCcccccccc-CCccEEEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHh
Confidence            5667888888888763  55555  4544 667777773 34555644 4677777877777766543     5666667


Q ss_pred             cCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEccc
Q 012249          177 PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYF  215 (467)
Q Consensus       177 ~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~  215 (467)
                      .+|++|+.+.+..+ . .......+..+ .+|+.+.+..
T Consensus       297 ~~c~~L~~l~l~~~-i-~~I~~~aF~~c-~~L~~l~lp~  332 (401)
T 4fdw_A          297 EGCPKLARFEIPES-I-RILGQGLLGGN-RKVTQLTIPA  332 (401)
T ss_dssp             TTCTTCCEECCCTT-C-CEECTTTTTTC-CSCCEEEECT
T ss_pred             hCCccCCeEEeCCc-e-EEEhhhhhcCC-CCccEEEECc
Confidence            77777777777642 2 22222456666 7777777743

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.73  E-value=1.1e-09  Score=105.34  Aligned_cols=36  Identities=22%  Similarity=0.288  Sum_probs=16.2

Q ss_pred             CCccEEEccCCcCcc-----ccccccCCCCCcEEeccCCCC
Q 012249          133 LALQYLDLYDTRIEE-----VPEGMEMLENLSHLYLSSLQL  168 (467)
Q Consensus       133 ~~L~~L~l~~~~~~~-----lp~~~~~l~~L~~L~l~~~~~  168 (467)
                      ++|++|++++|.++.     ++..+..+++|++|++++|.+
T Consensus       155 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l  195 (372)
T 3un9_A          155 CQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGL  195 (372)
T ss_dssp             CCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSC
T ss_pred             CccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCC
Confidence            445555555554431     222334444455555555544

>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=98.73  E-value=3.5e-08  Score=94.23  Aligned_cols=98  Identities=17%  Similarity=0.086  Sum_probs=62.6

Q ss_pred             EEcCC-CcccCCcCccCCCCccEEEeec-CCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           21 VKAGL-RLLEFPGEQEWEENLERVSLMR-NNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        21 ~~~~~-~l~~~~~~~~~l~~l~~L~l~~-~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      ...+. ++..+|. +..+++|+.|++++ |.+..++...+.++++|+.|++++|. +..+++..|.++++|++|+|++|.
T Consensus        14 ~~~~~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           14 RCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             ECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCc-cceeCHHHhcCCcCCCEEeCCCCc
Confidence            44444 5666776 66666777777774 67766666555567777777777775 455555555677777777777777


Q ss_pred             CCCchhhhhcCcCCCEEEcCCC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWC  120 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~  120 (467)
                      +..+|..+.....|++|++.+|
T Consensus        92 l~~~~~~~~~~~~L~~l~l~~N  113 (347)
T 2ifg_A           92 LESLSWKTVQGLSLQELVLSGN  113 (347)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSS
T ss_pred             cceeCHHHcccCCceEEEeeCC
Confidence            7666554443333666666665

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.72  E-value=4.7e-09  Score=101.01  Aligned_cols=165  Identities=15%  Similarity=0.109  Sum_probs=115.3

Q ss_pred             CCccEEEeecCCCcc-----cCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC-----chhhh-
Q 012249           38 ENLERVSLMRNNIEE-----IPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV-----LPSSV-  106 (467)
Q Consensus        38 ~~l~~L~l~~~~~~~-----l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-----l~~~~-  106 (467)
                      ++++.+++++|.++.     +...+...+++|+.|++++|.+...-...+...+++|++|++++|.+..     +...+ 
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            578999999999873     2222222447999999999984332223344556789999999999873     22333 


Q ss_pred             hcCcCCCEEEcCCCCCCCcCC------CccccCCccEEEccCCcCcc-----ccccccCCCCCcEEeccCCCCCCcCCc-
Q 012249          107 SDLTNLRSLSLGWCRRLKRVP------SLARLLALQYLDLYDTRIEE-----VPEGMEMLENLSHLYLSSLQLKKFPAG-  174 (467)
Q Consensus       107 ~~l~~L~~L~l~~~~~~~~~p------~l~~l~~L~~L~l~~~~~~~-----lp~~~~~l~~L~~L~l~~~~~~~~~~~-  174 (467)
                      ...++|++|++++|. ++..+      .+...++|++|++++|.++.     ++..+...++|++|++++|.++..... 
T Consensus       152 ~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~  230 (372)
T 3un9_A          152 HDQCQITTLRLSNNP-LTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALA  230 (372)
T ss_dssp             STTCCCCEEECCSSC-CHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHH
T ss_pred             hcCCccceeeCCCCC-CChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHH
Confidence            247889999999984 44322      35778899999999998873     355677888999999999988643321 


Q ss_pred             ---cccCCCCCcEEEcccCCCcccccHHHHHhh
Q 012249          175 ---ILPRLRSLYKLKLSFGNEALRETVEEAARL  204 (467)
Q Consensus       175 ---~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l  204 (467)
                         .+...++|++|++++|.+.. .....+..+
T Consensus       231 l~~~L~~~~~L~~L~Ls~N~i~~-~g~~~L~~~  262 (372)
T 3un9_A          231 LARAAREHPSLELLHLYFNELSS-EGRQVLRDL  262 (372)
T ss_dssp             HHHHHHHCSSCCEEECTTSSCCH-HHHHHHHHC
T ss_pred             HHHHHHhCCCCCEEeccCCCCCH-HHHHHHHHH
Confidence               12466889999999886533 333455544

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.55  E-value=7.3e-07  Score=86.60  Aligned_cols=147  Identities=14%  Similarity=0.157  Sum_probs=62.6

Q ss_pred             ccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCC
Q 012249           34 QEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNL  112 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L  112 (467)
                      |..+++|+.+.+. +.++.+....|.+|.+|+.+++..+  +..++...|..+..|+.+.+..+ +..+ ...+..+..+
T Consensus        67 F~~c~~L~~i~lp-~~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~c~~L~~i~~p~~-l~~i~~~aF~~~~~~  142 (394)
T 4fs7_A           67 FQGCRKVTEIKIP-STVREIGEFAFENCSKLEIINIPDS--VKMIGRCTFSGCYALKSILLPLM-LKSIGVEAFKGCDFK  142 (394)
T ss_dssp             TTTCTTEEEEECC-TTCCEECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCTTCCCCCCCTT-CCEECTTTTTTCCCS
T ss_pred             hhCCCCceEEEeC-CCccCcchhHhhCCCCCcEEEeCCC--ceEccchhhcccccchhhcccCc-eeeecceeeeccccc
Confidence            3444555555553 2344444445555555555555433  33444444455555554443322 1111 1122222222


Q ss_pred             CEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEccc
Q 012249          113 RSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF  189 (467)
Q Consensus       113 ~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  189 (467)
                      ......   ....++  ++..+.+|+.+.+.++ +..++. .+.++.+|+.+.+..+ +..+....+.++..|+.+.+..
T Consensus       143 ~~~~~~---~~~~i~~~aF~~c~~L~~i~l~~~-~~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~  217 (394)
T 4fs7_A          143 EITIPE---GVTVIGDEAFATCESLEYVSLPDS-METLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPN  217 (394)
T ss_dssp             EEECCT---TCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCT
T ss_pred             ccccCc---cccccchhhhcccCCCcEEecCCc-cceeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCC
Confidence            111111   111222  3555555666655433 233332 2445555555555433 4444444445555555554443

>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=98.47  E-value=5.8e-08  Score=81.70  Aligned_cols=93  Identities=9%  Similarity=0.114  Sum_probs=68.0

Q ss_pred             cccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhccccccccc-cccccccccccccccc
Q 012249          312 DLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTV-TLPRLKKLRFYDLPEF  390 (467)
Q Consensus       312 ~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~l  390 (467)
                      .|++|++++|. +++. .+..+..+++|+.|++++|..+++.--            ..+.... ..++|++|+|++|+++
T Consensus        62 ~L~~LDLs~~~-Itd~-GL~~L~~~~~L~~L~L~~C~~ItD~gL------------~~L~~~~~~~~~L~~L~Ls~C~~I  127 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSI-GFDHMEGLQYVEKIRLCKCHYIEDGCL------------ERLSQLENLQKSMLEMEIISCGNV  127 (176)
T ss_dssp             CEEEEEEESCC-CCGG-GGGGGTTCSCCCEEEEESCTTCCHHHH------------HHHHTCHHHHHHCCEEEEESCTTC
T ss_pred             eEeEEeCcCCC-ccHH-HHHHhcCCCCCCEEEeCCCCccCHHHH------------HHHHhcccccCCCCEEEcCCCCcC
Confidence            39999999987 6663 455567899999999999988776511            1111000 1358999999999998


Q ss_pred             cccccCCCccccCCcceEEEeCCCCcccc
Q 012249          391 KSFCSYNGVLVCNSLQEIEVRRCPKLKRL  419 (467)
Q Consensus       391 ~~~~~~~~~~~~~~L~~L~i~~C~~L~~l  419 (467)
                      ++-....- ..+++|++|.+++|+++++.
T Consensus       128 TD~Gl~~L-~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          128 TDKGIIAL-HHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             CHHHHHHG-GGCTTCCEEEEESCTTCCCH
T ss_pred             CHHHHHHH-hcCCCCCEEECCCCCCCCch
Confidence            88554432 35899999999999999874

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.23  E-value=6.2e-07  Score=85.55  Aligned_cols=14  Identities=21%  Similarity=0.207  Sum_probs=7.2

Q ss_pred             CCCCcEEeccCCCC
Q 012249          155 LENLSHLYLSSLQL  168 (467)
Q Consensus       155 l~~L~~L~l~~~~~  168 (467)
                      +++|++|++.+|.+
T Consensus       251 ~p~Lr~L~L~~~~i  264 (362)
T 2ra8_A          251 FPNLKWLGIVDAEE  264 (362)
T ss_dssp             CTTCCEEEEESCTT
T ss_pred             CCCcCEEeCCCCCC
Confidence            45555555555444

>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=98.06  E-value=1.6e-05  Score=66.73  Aligned_cols=83  Identities=16%  Similarity=0.182  Sum_probs=48.8

Q ss_pred             CCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC-CC-CchhhhhcC----cCCCEEEcCCCCCCCcCC--CccccCC
Q 012249           63 ILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD-IE-VLPSSVSDL----TNLRSLSLGWCRRLKRVP--SLARLLA  134 (467)
Q Consensus        63 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-~~-~l~~~~~~l----~~L~~L~l~~~~~~~~~p--~l~~l~~  134 (467)
                      +|+.|++++|. +....-..+.++++|++|++++|. +. .-...+..+    ++|++|++++|..+++..  .+.++++
T Consensus        62 ~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~  140 (176)
T 3e4g_A           62 KIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN  140 (176)
T ss_dssp             CEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTT
T ss_pred             eEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCC
Confidence            46666666665 333322223566667777776663 44 112233432    467777777777666654  4667777


Q ss_pred             ccEEEccCC-cCc
Q 012249          135 LQYLDLYDT-RIE  146 (467)
Q Consensus       135 L~~L~l~~~-~~~  146 (467)
                      |++|++++| .++
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            777777777 555

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.98  E-value=6.2e-06  Score=78.61  Aligned_cols=176  Identities=19%  Similarity=0.179  Sum_probs=113.0

Q ss_pred             CccCCCCccEEEeecCCCcc-----c----CCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC-Cc
Q 012249           33 EQEWEENLERVSLMRNNIEE-----I----PSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE-VL  102 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~-----l----~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~l  102 (467)
                      ....+++|+.|.+.....+.     +    ...+...+|+|+.|.+.++.. ..++. +  .+++|++|++..+.+. ..
T Consensus       134 s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~-l~l~~-~--~~~~L~~L~L~~~~l~~~~  209 (362)
T 2ra8_A          134 NKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNN-LSIGK-K--PRPNLKSLEIISGGLPDSV  209 (362)
T ss_dssp             THHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBT-CBCCS-C--BCTTCSEEEEECSBCCHHH
T ss_pred             hhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCC-ceecc-c--cCCCCcEEEEecCCCChHH
Confidence            35567899999986543221     1    112334689999999998842 23443 2  4889999999998876 22


Q ss_pred             hhhhh--cCcCCCEEEcCCCC-------CCCcCC---CccccCCccEEEccCCcCcc-cccc---ccCCCCCcEEeccCC
Q 012249          103 PSSVS--DLTNLRSLSLGWCR-------RLKRVP---SLARLLALQYLDLYDTRIEE-VPEG---MEMLENLSHLYLSSL  166 (467)
Q Consensus       103 ~~~~~--~l~~L~~L~l~~~~-------~~~~~p---~l~~l~~L~~L~l~~~~~~~-lp~~---~~~l~~L~~L~l~~~  166 (467)
                      ...+.  .+++|++|++..+.       .+..+.   ....+++|++|++.+|.+.. .+..   ...+++|++|+++.|
T Consensus       210 l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n  289 (362)
T 2ra8_A          210 VEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAG  289 (362)
T ss_dssp             HHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSS
T ss_pred             HHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCC
Confidence            23343  79999999985321       111121   12457899999999997762 2222   236899999999999


Q ss_pred             CCCC-----cCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          167 QLKK-----FPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       167 ~~~~-----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      .+.+     ++..+ .++++|+.|+++.|.. +...+..++.. - ...++++.+
T Consensus       290 ~L~d~G~~~L~~~L-~~l~~L~~L~L~~n~i-~d~~~~~l~~a-l-g~~~~~~~~  340 (362)
T 2ra8_A          290 VLTDEGARLLLDHV-DKIKHLKFINMKYNYL-SDEMKKELQKS-L-PMKIDVSDS  340 (362)
T ss_dssp             CCBHHHHHHHHTTH-HHHTTCSEEECCSBBC-CHHHHHHHHHH-C-CSEEECCSB
T ss_pred             CCChHHHHHHHhhc-ccCCcceEEECCCCcC-CHHHHHHHHHH-c-CCEEEecCC
Confidence            8854     33332 5679999999998843 33334445442 1 244566544

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.96  E-value=6.8e-06  Score=70.53  Aligned_cols=84  Identities=20%  Similarity=0.169  Sum_probs=38.1

Q ss_pred             hcCCCCcEEEccCC-CCC-----CchhhhhcCcCCCEEEcCCCCCCCcCC------CccccCCccEEEccCCcCcc----
Q 012249           84 VHMHGLKVVNLSST-DIE-----VLPSSVSDLTNLRSLSLGWCRRLKRVP------SLARLLALQYLDLYDTRIEE----  147 (467)
Q Consensus        84 ~~l~~L~~L~l~~~-~~~-----~l~~~~~~l~~L~~L~l~~~~~~~~~p------~l~~l~~L~~L~l~~~~~~~----  147 (467)
                      ...+.|++|++++| .+.     .+...+...++|++|++++|. ++...      .+...++|++|++++|.+..    
T Consensus        33 ~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~-i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~  111 (185)
T 1io0_A           33 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTR-SNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSC-CCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             hcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCC-CChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            34455555555555 444     223334444555555555542 22211      12333445555555554441    


Q ss_pred             -ccccccCCCCCcEEec--cCCCC
Q 012249          148 -VPEGMEMLENLSHLYL--SSLQL  168 (467)
Q Consensus       148 -lp~~~~~l~~L~~L~l--~~~~~  168 (467)
                       +...+...++|++|++  ++|.+
T Consensus       112 ~l~~~L~~n~~L~~L~L~~~~N~i  135 (185)
T 1io0_A          112 ALVEALQSNTSLIELRIDNQSQPL  135 (185)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCC
T ss_pred             HHHHHHHhCCCceEEEecCCCCCC
Confidence             3334444555555555  44544

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.86  E-value=1.1e-05  Score=69.18  Aligned_cols=109  Identities=13%  Similarity=0.026  Sum_probs=72.3

Q ss_pred             cCCCCCCCEEEccCC-CCCCCCc----hhHhhcCCCCcEEEccCCCCC-----CchhhhhcCcCCCEEEcCCCCCCCcC-
Q 012249           58 SPHCEILSTLLLQRN-ENLQRIP----ECFFVHMHGLKVVNLSSTDIE-----VLPSSVSDLTNLRSLSLGWCRRLKRV-  126 (467)
Q Consensus        58 ~~~l~~L~~L~l~~~-~~~~~~~----~~~~~~l~~L~~L~l~~~~~~-----~l~~~~~~l~~L~~L~l~~~~~~~~~-  126 (467)
                      ....+.|+.|++++| . ++.-.    ...+...+.|++|++++|.+.     .+...+...+.|++|++++|. ++.. 
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  109 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMN-IPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF-ISGSG  109 (185)
T ss_dssp             HTTCTTCCEEECTTCTT-CCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC-CCHHH
T ss_pred             HhcCCCCCEEEecCCCC-CCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCc-CCHHH
Confidence            346788888888888 5 33211    122356788899999998887     345566777889999999874 4432 


Q ss_pred             ----C-CccccCCccEEEc--cCCcCcc-----ccccccCCCCCcEEeccCCCC
Q 012249          127 ----P-SLARLLALQYLDL--YDTRIEE-----VPEGMEMLENLSHLYLSSLQL  168 (467)
Q Consensus       127 ----p-~l~~l~~L~~L~l--~~~~~~~-----lp~~~~~l~~L~~L~l~~~~~  168 (467)
                          . .+...+.|++|++  ++|.+..     +...+...++|++|++++|.+
T Consensus       110 ~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          110 ILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence                2 4667788999999  7787772     333444555666666665544

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.66  E-value=0.0012  Score=63.72  Aligned_cols=151  Identities=14%  Similarity=0.177  Sum_probs=101.2

Q ss_pred             CccCCC-CccEEEeecCCCcccCCCccCCCCCCCEEEccCCC--CCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhc
Q 012249           33 EQEWEE-NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNE--NLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSD  108 (467)
Q Consensus        33 ~~~~l~-~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~--~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~  108 (467)
                      +|..++ .|+.+.+.. .++.+....|.+|.+|+.+.+..+.  .+..++...|..+..|+.+.+..+ +..+. ..+..
T Consensus        58 aF~~~~~~L~sI~iP~-svt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~  135 (394)
T 4gt6_A           58 VFCNYKYVLTSVQIPD-TVTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHH  135 (394)
T ss_dssp             TTTTCCSCCCEEEECT-TCCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTT
T ss_pred             hccCCCCcCEEEEECC-CeeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhh
Confidence            455554 589999864 5788888889899999999987652  255677777888999988777654 44443 45678


Q ss_pred             CcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEE
Q 012249          109 LTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLK  186 (467)
Q Consensus       109 l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~  186 (467)
                      +.+|+.+.+..  .+..++  .+..+..|+.+.+..+ ++.+.........|+.+.+... ...+....+..+.++....
T Consensus       136 c~~L~~i~lp~--~~~~I~~~~F~~c~~L~~i~~~~~-~~~I~~~aF~~~~l~~i~ip~~-~~~i~~~af~~c~~l~~~~  211 (394)
T 4gt6_A          136 CEELDTVTIPE--GVTSVADGMFSYCYSLHTVTLPDS-VTAIEERAFTGTALTQIHIPAK-VTRIGTNAFSECFALSTIT  211 (394)
T ss_dssp             CTTCCEEECCT--TCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCCCSEEEECTT-CCEECTTTTTTCTTCCEEE
T ss_pred             hcccccccccc--eeeeecccceecccccccccccce-eeEeccccccccceeEEEECCc-ccccccchhhhccccceec
Confidence            89999999875  345555  5778888888888654 4455444333456777776543 2333333355666666655


Q ss_pred             ccc
Q 012249          187 LSF  189 (467)
Q Consensus       187 l~~  189 (467)
                      ...
T Consensus       212 ~~~  214 (394)
T 4gt6_A          212 SDS  214 (394)
T ss_dssp             ECC
T ss_pred             ccc
Confidence            443

>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=97.48  E-value=0.00014  Score=65.74  Aligned_cols=62  Identities=27%  Similarity=0.252  Sum_probs=29.2

Q ss_pred             hcCCCCcEEEccCCCCCCc---hhhhhcCcCCCEEEcCCCCCCCcCCCccccC--CccEEEccCCcCc
Q 012249           84 VHMHGLKVVNLSSTDIEVL---PSSVSDLTNLRSLSLGWCRRLKRVPSLARLL--ALQYLDLYDTRIE  146 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l---~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~--~L~~L~l~~~~~~  146 (467)
                      .++++|+.|+|++|.+..+   +..+..+++|++|++++| .+..+..+..+.  +|++|++++|.+.
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N-~i~~~~~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTS-CCCSGGGGGGGTTSCCSEEECTTSTTG
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCC-ccCCchhhhhcccCCcceEEccCCcCc
Confidence            3455566666666555533   233445555555555554 233322222222  4555555555443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.43  E-value=0.0012  Score=63.66  Aligned_cols=169  Identities=12%  Similarity=0.093  Sum_probs=91.3

Q ss_pred             CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCC
Q 012249           33 EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNL  112 (467)
Q Consensus        33 ~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L  112 (467)
                      .+..+..|+.+.+..+. ..+....+ .+..|+.+.+...  ...+....|..+..|+.+.+..+....-...+..+..+
T Consensus       203 ~F~~~~~L~~i~~~~~~-~~i~~~~~-~~~~l~~i~ip~~--~~~i~~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l  278 (394)
T 4fs7_A          203 CFAECILLENMEFPNSL-YYLGDFAL-SKTGVKNIIIPDS--FTELGKSVFYGCTDLESISIQNNKLRIGGSLFYNCSGL  278 (394)
T ss_dssp             TTTTCTTCCBCCCCTTC-CEECTTTT-TTCCCCEEEECTT--CCEECSSTTTTCSSCCEEEECCTTCEECSCTTTTCTTC
T ss_pred             hhccccccceeecCCCc-eEeehhhc-ccCCCceEEECCC--ceecccccccccccceeEEcCCCcceeecccccccccc
Confidence            34455666666554432 22223333 4566777766543  33444555667777777777665333223345556666


Q ss_pred             CEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEccc
Q 012249          113 RSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSF  189 (467)
Q Consensus       113 ~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  189 (467)
                      +.+.....    .++  .+..+.+|+.+.+..+ ++.++. .+.++.+|+.+++.. .+..+....|.+|++|+.+.+..
T Consensus       279 ~~~~~~~~----~i~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~c~~L~~i~lp~  352 (394)
T 4fs7_A          279 KKVIYGSV----IVPEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPL  352 (394)
T ss_dssp             CEEEECSS----EECTTTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCT
T ss_pred             ceeccCce----eeccccccccccccccccccc-cceechhhhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECc
Confidence            66655432    122  4556666666666443 444443 355666777666643 35556665566677777766654


Q ss_pred             CCCcccccHHHHHhhhccCcEEEcc
Q 012249          190 GNEALRETVEEAARLSDRLDYFEGY  214 (467)
Q Consensus       190 ~~~~~~~~~~~l~~l~~~L~~L~l~  214 (467)
                      + . .......+... .+|+.+.+.
T Consensus       353 ~-l-~~I~~~aF~~C-~~L~~i~lp  374 (394)
T 4fs7_A          353 S-L-RKIGANAFQGC-INLKKVELP  374 (394)
T ss_dssp             T-C-CEECTTTBTTC-TTCCEEEEE
T ss_pred             c-c-cEehHHHhhCC-CCCCEEEEC
Confidence            3 1 22222345555 666666663

>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=97.34  E-value=0.0004  Score=62.74  Aligned_cols=78  Identities=23%  Similarity=0.262  Sum_probs=57.9

Q ss_pred             CCCCCCEEEccCCCCCCCCch--hHhhcCCCCcEEEccCCCCCCchhhhhcCc--CCCEEEcCCCCCCCcCC--------
Q 012249           60 HCEILSTLLLQRNENLQRIPE--CFFVHMHGLKVVNLSSTDIEVLPSSVSDLT--NLRSLSLGWCRRLKRVP--------  127 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~--~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~--~L~~L~l~~~~~~~~~p--------  127 (467)
                      ++++|+.|++++|. +..++.  ..+..+++|++|+|++|.+..+. .+..+.  +|++|++++|.....+|        
T Consensus       168 ~l~~L~~L~Ls~N~-l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          168 NIPELLSLNLSNNR-LYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HCTTCCEEECTTSC-CCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hCCCCCEEECCCCC-CCCCccchhHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            58899999999998 444332  34579999999999999999762 344444  99999999987555454        


Q ss_pred             CccccCCccEEE
Q 012249          128 SLARLLALQYLD  139 (467)
Q Consensus       128 ~l~~l~~L~~L~  139 (467)
                      .+..+++|+.||
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            145666666665

>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=97.20  E-value=0.003  Score=60.49  Aligned_cols=145  Identities=13%  Similarity=0.169  Sum_probs=84.3

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCcc
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQ  136 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~  136 (467)
                      .+..+..+.+...  ...+....+..+..|+.+.+..+ +..+ ...+..+..|+.+.+..+  +..++  .+..+.+|+
T Consensus       192 ~~~~~~~~~~~~~--~~~i~~~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~--v~~I~~~aF~~~~~l~  266 (379)
T 4h09_A          192 AAKTGTEFTIPST--VKTVTAYGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN--VTSIGSFLLQNCTALK  266 (379)
T ss_dssp             TTCCCSEEECCTT--CCEECTTTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT--CCEECTTTTTTCTTCC
T ss_pred             ccccccccccccc--eeEEeecccccccccceeeeccc-eeEEccccccCCccceEEEcCCC--ccEeCccccceeehhc
Confidence            3444444444433  22233334456667777766543 3322 234566777777777653  44444  466677777


Q ss_pred             EEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEc
Q 012249          137 YLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEG  213 (467)
Q Consensus       137 ~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l  213 (467)
                      .+.+.. .++.++. .+.++.+|+.+.+..+.+..++...|.+|.+|+.+.+..+  ........+.+. ++|+.+.+
T Consensus       267 ~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C-~~L~~i~i  340 (379)
T 4h09_A          267 TLNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA--LKTIQVYAFKNC-KALSTISY  340 (379)
T ss_dssp             EEEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTC-TTCCCCCC
T ss_pred             cccccc-cceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCcc--ccEEHHHHhhCC-CCCCEEEE
Confidence            777644 3555544 3667777777777776677777766777777777777543  222222455565 77776665

>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=97.14  E-value=0.0027  Score=60.78  Aligned_cols=148  Identities=13%  Similarity=0.158  Sum_probs=106.8

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRS  114 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~  114 (467)
                      ....+..+.+... ...+....+..+.+++.+.+..+  +..++...|..+..|+.+.+..+ +..+. ..+..+..|+.
T Consensus       192 ~~~~~~~~~~~~~-~~~i~~~~f~~~~~l~~i~~~~~--~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~  267 (379)
T 4h09_A          192 AAKTGTEFTIPST-VKTVTAYGFSYGKNLKKITITSG--VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKT  267 (379)
T ss_dssp             TTCCCSEEECCTT-CCEECTTTTTTCSSCSEEECCTT--CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCE
T ss_pred             ccccccccccccc-eeEEeecccccccccceeeeccc--eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcc
Confidence            3445555555433 23344445557888888888665  55566666788889999988765 55443 45677888999


Q ss_pred             EEcCCCCCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccC
Q 012249          115 LSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       115 L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      +.+..  .+..++  .+..+.+|+.+.+.++.++.++.. +.+|.+|+.+.+.. .+..+....|.+|++|+.+.+..+
T Consensus       268 i~l~~--~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~-~l~~I~~~aF~~C~~L~~i~ip~~  343 (379)
T 4h09_A          268 LNFYA--KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPT-ALKTIQVYAFKNCKALSTISYPKS  343 (379)
T ss_dssp             EEECC--CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCCCCCCTT
T ss_pred             ccccc--cceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCc-cccEEHHHHhhCCCCCCEEEECCc
Confidence            98875  366666  588889999999988888877654 78899999999864 477777777889999998887643

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.01  E-value=0.0022  Score=61.79  Aligned_cols=142  Identities=16%  Similarity=0.283  Sum_probs=93.1

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCch-hhhhcCcCCCEEEc
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLP-SSVSDLTNLRSLSL  117 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~-~~~~~l~~L~~L~l  117 (467)
                      .+..+.+. +.+..+....|.+|.+|+.+.+...  ...++...|.++..|+.+.+. +.+..++ ..+..|.+|+.+.+
T Consensus       243 ~~~~~~ip-~~v~~i~~~aF~~c~~L~~i~lp~~--~~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~l  318 (394)
T 4gt6_A          243 EDPAFKIP-NGVARIETHAFDSCAYLASVKMPDS--VVSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDI  318 (394)
T ss_dssp             CCSEEECC-TTEEEECTTTTTTCSSCCEEECCTT--CCEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEEC
T ss_pred             ccceEEcC-CcceEcccceeeecccccEEecccc--cceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEe
Confidence            34444443 3445566667778889998888665  345666777888999998886 3455554 45677889999998


Q ss_pred             CCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccC
Q 012249          118 GWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       118 ~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      ..  .++.++  ++..+.+|+.+.+..+ ++.+.. .+.+|.+|+.+++.++... .  ..+..+.+|+.+.+..+
T Consensus       319 p~--~v~~I~~~aF~~C~~L~~i~ip~s-v~~I~~~aF~~C~~L~~i~~~~~~~~-~--~~~~~~~~L~~i~i~~~  388 (394)
T 4gt6_A          319 PE--GITQILDDAFAGCEQLERIAIPSS-VTKIPESAFSNCTALNNIEYSGSRSQ-W--NAISTDSGLQNLPVAPG  388 (394)
T ss_dssp             CT--TCCEECTTTTTTCTTCCEEEECTT-CCBCCGGGGTTCTTCCEEEESSCHHH-H--HTCBCCCCC--------
T ss_pred             CC--cccEehHhHhhCCCCCCEEEECcc-cCEEhHhHhhCCCCCCEEEECCceee-h--hhhhccCCCCEEEeCCC
Confidence            76  366666  6888899999988543 666654 4788999999988876421 1  11356777777776543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.51  E-value=0.036  Score=43.92  Aligned_cols=58  Identities=19%  Similarity=0.273  Sum_probs=46.7

Q ss_pred             cEEEccCCcCc--cccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          136 QYLDLYDTRIE--EVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       136 ~~L~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      ..++.++.+++  .+|..+.  ++|++|++++|.+..++..+|..+++|+.|++.+|...-.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~Cd   70 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWRCD   70 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCBCS
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCeecc
Confidence            46777888887  7886543  4689999999999999998888899999999998865443

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.47  E-value=0.022  Score=45.14  Aligned_cols=55  Identities=18%  Similarity=0.297  Sum_probs=30.3

Q ss_pred             EEEeecCCCc--ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCC
Q 012249           42 RVSLMRNNIE--EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIE  100 (467)
Q Consensus        42 ~L~l~~~~~~--~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~  100 (467)
                      .++-+++.++  .+|..+   -++++.|++++|. +..++...|..+++|++|+|.+|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~l---p~~l~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF---PVDTTELVLTGNN-LTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC---CTTCSEEECTTSC-CSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCCC---CcCCCEEECCCCc-CCccChhhhhhccccCEEEecCCCee
Confidence            4444455554  555432   2346666666665 55555555566666666666666443

>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=94.00  E-value=0.097  Score=44.56  Aligned_cols=16  Identities=13%  Similarity=0.223  Sum_probs=7.4

Q ss_pred             hhhcCcCCCEEEcCCC
Q 012249          105 SVSDLTNLRSLSLGWC  120 (467)
Q Consensus       105 ~~~~l~~L~~L~l~~~  120 (467)
                      .+..-..|+.|++++|
T Consensus        65 aL~~N~~L~~L~L~~n   80 (197)
T 1pgv_A           65 AACNSKHIEKFSLANT   80 (197)
T ss_dssp             HHTTCSCCCEEECTTS
T ss_pred             HHhhCCCcCEEEccCC
Confidence            3344444555555443

>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=93.37  E-value=0.14  Score=43.53  Aligned_cols=113  Identities=15%  Similarity=0.085  Sum_probs=74.8

Q ss_pred             hhhcCcCCCEEEcCCCCCCCcCC------CccccCCccEEEccCCcCc-----cccccccCCCCCcEEeccCCCCCCcCC
Q 012249          105 SVSDLTNLRSLSLGWCRRLKRVP------SLARLLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus       105 ~~~~l~~L~~L~l~~~~~~~~~p------~l~~l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      .+.+-+.|+.|+++++..++...      .+..=..|+.|++++|.+.     .+...+..-+.|++|+++.|.+..--.
T Consensus        36 ll~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga  115 (197)
T 1pgv_A           36 LREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELL  115 (197)
T ss_dssp             HHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHH
T ss_pred             HHhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHH
Confidence            33556778888887753444322      3555678999999999888     334456667899999999999853221


Q ss_pred             ----ccccCCCCCcEEEcccCCC--ccccc----HHHHHhhhccCcEEEcccCCc
Q 012249          174 ----GILPRLRSLYKLKLSFGNE--ALRET----VEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       174 ----~~l~~l~~L~~L~l~~~~~--~~~~~----~~~l~~l~~~L~~L~l~~~~~  218 (467)
                          ..+..-+.|++|+++++..  .+...    ...+..- +.|+.|+++.+..
T Consensus       116 ~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N-~tL~~L~l~~~~~  169 (197)
T 1pgv_A          116 ARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEEN-ESLLRVGISFASM  169 (197)
T ss_dssp             HHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHC-SSCCEEECCCCCH
T ss_pred             HHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhC-CCcCeEeccCCCc
Confidence                1235667799999986532  22221    2345556 7899999876643

---

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	467
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-08
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	6e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	5e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.002
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-04
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	3e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.001
d1ozna_	284	c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 recept	0.002

>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 = 52.3 bits (124), Expect = 4e-08
 Identities = 29/163 (17%), Positives = 65/163 (39%), Gaps = 7/163 (4%)

Query: 24  GLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFF 83
            L L + P  ++   +   + L  N I EI      + + L TL+L  N  + +I    F
Sbjct: 19  DLGLEKVP--KDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAF 75

Query: 84  VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDT 143
             +  L+ + LS   ++ LP  +        +      ++++      L  +  ++L   
Sbjct: 76  APLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRK-SVFNGLNQMIVVELGTN 134

Query: 144 RIEEV---PEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLY 183
            ++         + ++ LS++ ++   +   P G+ P L  L+
Sbjct: 135 PLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELH 177

>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 = 48.9 bits (115), Expect = 6e-07
 Identities = 29/167 (17%), Positives = 59/167 (35%), Gaps = 12/167 (7%)

Query: 30  FPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGL 89
             G  +  + L  + +   NI  IP  + P    L+ L L  N+  +          +  
Sbjct: 142 ENGAFQGMKKLSYIRIADTNITTIPQGLPPS---LTELHLDGNKITKVDAASLKGLNNLA 198

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVP 149
           K+    ++   V   S+++  +LR L L   + +K    LA    +Q + L++  I  + 
Sbjct: 199 KLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIG 258

Query: 150 EGM-------EMLENLSHLYLSS--LQLKKFPAGILPRLRSLYKLKL 187
                         + S + L S  +Q  +        +     ++L
Sbjct: 259 SNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQL 305

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 52.3 bits (124), Expect = 5e-08
 Identities = 27/127 (21%), Positives = 46/127 (36%), Gaps = 8/127 (6%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
            L  + L  N I  I          L+ L        Q        ++  L  + L   +
Sbjct: 264 KLTELKLGANQISNISPLAG-----LTALTNLELNENQLEDISPISNLKNLTYLTLYFNN 318

Query: 99  IEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENL 158
           I  +   VS LT L+ L     + +  V SLA L  + +L     +I ++   +  L  +
Sbjct: 319 ISDISP-VSSLTKLQRLFFANNK-VSDVSSLANLTNINWLSAGHNQISDLTP-LANLTRI 375

Query: 159 SHLYLSS 165
           + L L+ 
Sbjct: 376 TQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 51.2 bits (121), Expect = 1e-07
 Identities = 32/177 (18%), Positives = 62/177 (35%), Gaps = 30/177 (16%)

Query: 33  EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVV 92
                 NL+ +SL  N +++I +        L+ L L  N+     P      +  L  +
Sbjct: 214 PLGILTNLDELSLNGNQLKDIGTL--ASLTNLTDLDLANNQISNLAP---LSGLTKLTEL 268

Query: 93  NLSSTDIEVLPSSVS---------------------DLTNLRSLSLGWCRRLKRVPSLAR 131
            L +  I  +                          +L NL  L+L +   +  +  ++ 
Sbjct: 269 KLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNN-ISDISPVSS 327

Query: 132 LLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLS 188
           L  LQ L   + ++ +V   +  L N++ L     Q+       L  L  + +L L+
Sbjct: 328 LTKLQRLFFANNKVSDVSS-LANLTNINWLSAGHNQISDLTP--LANLTRITQLGLN 381

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.1 bits (87), Expect = 0.002
 Identities = 52/328 (15%), Positives = 101/328 (30%), Gaps = 21/328 (6%)

Query: 107 SDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSL 166
           + L       LG    +    S   L  +  L      I+ + +G+E L NL+ +  S+ 
Sbjct: 19  TALAEKMKTVLG-KTNVTDTVSQTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNN 76

Query: 167 QLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVK 226
           QL       L  L  L  + ++    A    +     L+    +           N+   
Sbjct: 77  QLTDITP--LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNL 134

Query: 227 STDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFE 286
           +     S       +  G+            +       +  ++   +    V  + +  
Sbjct: 135 NRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA 194

Query: 287 VDEVTSLNDVLPRELGLVNIGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVIS 346
                        ++  +       +L  L  +  + LK++ +L  L  L +L     ++
Sbjct: 195 KLTNLESLIATNNQISDITPLGILTNLDELSLNGNQ-LKDIGTLASLTNLTDLD----LA 249

Query: 347 CNSIEEIVAVEDED--TEKELATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGV----- 399
            N I  +  +      TE +L  N I N   L  L  L   +L E +             
Sbjct: 250 NNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNL 309

Query: 400 ----LVCNSLQE-IEVRRCPKLKRLSLS 422
               L  N++ +   V    KL+RL  +
Sbjct: 310 TYLTLYFNNISDISPVSSLTKLQRLFFA 337

>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 = 47.9 bits (112), Expect = 1e-06
 Identities = 21/130 (16%), Positives = 40/130 (30%), Gaps = 9/130 (6%)

Query: 36  WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLS 95
                +   L ++      S             L                   L+ +N+S
Sbjct: 233 DNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVS 292

Query: 96  STDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEML 155
           +  +  LP+       L  L   +   L  VP L     L+ L +    + E P   ++ 
Sbjct: 293 NNKLIELPALPP---RLERLIASFN-HLAEVPEL--PQNLKQLHVEYNPLREFP---DIP 343

Query: 156 ENLSHLYLSS 165
           E++  L ++S
Sbjct: 344 ESVEDLRMNS 353

>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 = 44.4 bits (103), Expect = 2e-05
 Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 7/75 (9%)

Query: 109 LTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQL 168
             +L  L++   + L  +P+L     L+ L      + EVPE   + +NL  L++    L
Sbjct: 283 PPSLEELNVSNNK-LIELPAL--PPRLERLIASFNHLAEVPE---LPQNLKQLHVEYNPL 336

Query: 169 KKFPAGILPRLRSLY 183
           ++FP  I   +  L 
Sbjct: 337 REFPD-IPESVEDLR 350

>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 = 38.3 bits (87), Expect = 0.002
 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 7/70 (10%)

Query: 70  QRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSL 129
           QR   + R+ +C          + L++  +  LP       +L SL    C  L  +P L
Sbjct: 24  QREMAVSRLRDCLD---RQAHELELNNLGLSSLPEL---PPHLESLVAS-CNSLTELPEL 76

Query: 130 ARLLALQYLD 139
            + L    +D
Sbjct: 77  PQSLKSLLVD 86

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

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]

 Score = 38.5 bits (89), Expect = 3e-04
 Identities = 29/100 (29%), Positives = 44/100 (44%), Gaps = 3/100 (3%)

Query: 90  KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVP 149
           +V++L+  D+ VL   +  L  +  L L   R     P+LA L  L+ L   D  +E V 
Sbjct: 1   RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 150 EGMEMLENLSHLYLSSLQLKKFPA-GILPRLRSLYKLKLS 188
            G+  L  L  L L + +L++  A   L     L  L L 
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQ 98

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 39.9 bits (91), Expect = 3e-04
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 4/53 (7%)

Query: 78  IPECFFVHMHGLKVVNLSSTDIEVLPSSV-SDLTNLRSLSLGWCRRLKRVPSL 129
           +P   F    G  ++++S T I  LPS    +L  LR+ S      LK++P+L
Sbjct: 192 LPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST---YNLKKLPTL 241

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

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]

 Score = 37.7 bits (86), Expect = 0.001
 Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)

Query: 119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSS 165
              ++  +  LA L  LQ L L    I ++   +  L+NL  L L S
Sbjct: 164 EDNQISDIVPLAGLTKLQNLYLSKNHISDLRA-LAGLKNLDVLELFS 209

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]} Length = 284

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]

 Score = 37.5 bits (85), Expect = 0.002
 Identities = 38/152 (25%), Positives = 62/152 (40%), Gaps = 3/152 (1%)

Query: 39  NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD 98
             +R+ L  N I  +P+     C  L+ L L  N   +     F       ++    +  
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 99  IEVL-PSSVSDLTNLRSLSLGWCRRLKRVPS-LARLLALQYLDLYDTRIEEVPEGMEML- 155
           +  + P++   L  L +L L  C   +  P     L ALQYL L D  ++ +P+      
Sbjct: 93  LRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDL 152

Query: 156 ENLSHLYLSSLQLKKFPAGILPRLRSLYKLKL 187
            NL+HL+L   ++   P      L SL +L L
Sbjct: 153 GNLTHLFLHGNRISSVPERAFRGLHSLDRLLL 184

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	467
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.76
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.75
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.75
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.73
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.69
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.66
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.66
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.65
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.62
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.58
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.58
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.57
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.56
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.55
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.54
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.5
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.46
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.45
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.42
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.42
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.4
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.37
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.36
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.35
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.32
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.31
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.3
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.09
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.95
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.94
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.91
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.74
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.64
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.57
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.49
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.48
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.26
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.11
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.98
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.43
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.38

>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=99.76  E-value=2.6e-17  Score=157.87  Aligned_cols=298  Identities=18%  Similarity=0.253  Sum_probs=170.1

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSL  115 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L  115 (467)
                      .+.++++|+++++.++.+. ++. .+++|+.|++++|. +..+++  ++++++|++|++++|.+..++. ++.+++|+.|
T Consensus        42 ~l~~l~~L~l~~~~I~~l~-gl~-~L~nL~~L~Ls~N~-l~~l~~--l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L  115 (384)
T d2omza2          42 DLDQVTTLQADRLGIKSID-GVE-YLNNLTQINFSNNQ-LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGL  115 (384)
T ss_dssp             HHTTCCEEECCSSCCCCCT-TGG-GCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEE
T ss_pred             HhCCCCEEECCCCCCCCcc-ccc-cCCCCCEEeCcCCc-CCCCcc--ccCCcccccccccccccccccc-cccccccccc
Confidence            4568999999999998774 343 78999999999997 667765  5899999999999999987764 7899999999


Q ss_pred             EcCCCCCCCcCCCccccCCccEEEccCCcCccc------------------------------------------ccccc
Q 012249          116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEV------------------------------------------PEGME  153 (467)
Q Consensus       116 ~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~l------------------------------------------p~~~~  153 (467)
                      ++.++. ....+.......+.......+.+..+                                          .....
T Consensus       116 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (384)
T d2omza2         116 TLFNNQ-ITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLA  194 (384)
T ss_dssp             ECCSSC-CCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGG
T ss_pred             cccccc-ccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccc
Confidence            998853 44443223333333333322211100                                          11223


Q ss_pred             CCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccchhhhhhccCCCCC
Q 012249          154 MLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKDFNIYVKSTDGRGS  233 (467)
Q Consensus       154 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~~~~~~~~~~~~~~  233 (467)
                      .+++++.++++.+.+..++.  ...+++|++|++++|.....   ..+..+ ++|+.+++..+.+....           
T Consensus       195 ~l~~~~~l~l~~n~i~~~~~--~~~~~~L~~L~l~~n~l~~~---~~l~~l-~~L~~L~l~~n~l~~~~-----------  257 (384)
T d2omza2         195 KLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLKDI---GTLASL-TNLTDLDLANNQISNLA-----------  257 (384)
T ss_dssp             GCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCCCC---GGGGGC-TTCSEEECCSSCCCCCG-----------
T ss_pred             cccccceeeccCCccCCCCc--ccccCCCCEEECCCCCCCCc---chhhcc-cccchhccccCccCCCC-----------
Confidence            33444444444444433332  12334444444444432221   123333 44444444333321110           


Q ss_pred             hhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcccceeeeeecccccccccccccccccccccCccccc
Q 012249          234 KNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFEVDEVTSLNDVLPRELGLVNIGKFSHDL  313 (467)
Q Consensus       234 l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~L  313 (467)
                                          .+..                  .+.++.|.+.++. ++.          ......++. +
T Consensus       258 --------------------~~~~------------------~~~L~~L~l~~~~-l~~----------~~~~~~~~~-l  287 (384)
T d2omza2         258 --------------------PLSG------------------LTKLTELKLGANQ-ISN----------ISPLAGLTA-L  287 (384)
T ss_dssp             --------------------GGTT------------------CTTCSEEECCSSC-CCC----------CGGGTTCTT-C
T ss_pred             --------------------cccc------------------cccCCEeeccCcc-cCC----------CCccccccc-c
Confidence                                0111                  1233333333221 111          112233455 7


Q ss_pred             cEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhhhcccccccccccccccccccccccccccc
Q 012249          314 KVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKELATNTIINTVTLPRLKKLRFYDLPEFKSF  393 (467)
Q Consensus       314 ~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  393 (467)
                      +.+.+..+. ++.+   ..+..+++++.|+++++ .++++....                 .+|+|++|++.+| .++.+
T Consensus       288 ~~l~~~~n~-l~~~---~~~~~~~~l~~L~ls~n-~l~~l~~l~-----------------~l~~L~~L~L~~n-~l~~l  344 (384)
T d2omza2         288 TNLELNENQ-LEDI---SPISNLKNLTYLTLYFN-NISDISPVS-----------------SLTKLQRLFFANN-KVSDV  344 (384)
T ss_dssp             SEEECCSSC-CSCC---GGGGGCTTCSEEECCSS-CCSCCGGGG-----------------GCTTCCEEECCSS-CCCCC
T ss_pred             ccccccccc-cccc---cccchhcccCeEECCCC-CCCCCcccc-----------------cCCCCCEEECCCC-CCCCC
Confidence            777777643 3332   23566778888888875 566553222                 7888888888887 46665


Q ss_pred             ccCCCccccCCcceEEEeCCCCccccCCccCcccCCCCCCCCcceeeeeh
Q 012249          394 CSYNGVLVCNSLQEIEVRRCPKLKRLSLSLPLLDHGQPSPPAALKVIKIE  443 (467)
Q Consensus       394 ~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~~~~~~~~~L~~l~i~  443 (467)
                      ...   ..+++|++|++.+| +++++|. +..+        ++|+.|++.
T Consensus       345 ~~l---~~l~~L~~L~l~~N-~l~~l~~-l~~l--------~~L~~L~L~  381 (384)
T d2omza2         345 SSL---ANLTNINWLSAGHN-QISDLTP-LANL--------TRITQLGLN  381 (384)
T ss_dssp             GGG---GGCTTCCEEECCSS-CCCBCGG-GTTC--------TTCSEEECC
T ss_pred             hhH---cCCCCCCEEECCCC-cCCCChh-hccC--------CCCCEeeCC
Confidence            532   35888999999877 6777653 4444        388888775

>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=99.75  E-value=5.9e-17  Score=155.33  Aligned_cols=186  Identities=22%  Similarity=0.308  Sum_probs=137.1

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.+++.+ .++..+++|++|++++|.+++++.  +.++++|+.|++++|. +..+++  ++.+++|+.|++.++.+
T Consensus        49 L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~--l~~L~~L~~L~L~~n~-i~~i~~--l~~l~~L~~L~~~~~~~  122 (384)
T d2omza2          49 LQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGLTLFNNQI  122 (384)
T ss_dssp             EECCSSCCCCC-TTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCC
T ss_pred             EECCCCCCCCc-cccccCCCCCEEeCcCCcCCCCcc--ccCCcccccccccccc-cccccc--ccccccccccccccccc
Confidence            45556667666 467889999999999999998874  4589999999999998 555554  58999999999999887


Q ss_pred             CCchhhhhcCcCCCEEEcCCC------------------------------------------CCCCcCCCccccCCccE
Q 012249          100 EVLPSSVSDLTNLRSLSLGWC------------------------------------------RRLKRVPSLARLLALQY  137 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~------------------------------------------~~~~~~p~l~~l~~L~~  137 (467)
                      ..++.. .....+.......+                                          ...........+++++.
T Consensus       123 ~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  201 (384)
T d2omza2         123 TDIDPL-KNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLES  201 (384)
T ss_dssp             CCCGGG-TTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSE
T ss_pred             cccccc-cccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccce
Confidence            755432 22223333322111                                          01111114667788999


Q ss_pred             EEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCC
Q 012249          138 LDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFST  217 (467)
Q Consensus       138 L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~  217 (467)
                      ++++++.++.++. ...+++|+.|++++|.+..++.  +..+++|+.|++.+|......   .+..+ ++|+.|+++.+.
T Consensus       202 l~l~~n~i~~~~~-~~~~~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~---~~~~~-~~L~~L~l~~~~  274 (384)
T d2omza2         202 LIATNNQISDITP-LGILTNLDELSLNGNQLKDIGT--LASLTNLTDLDLANNQISNLA---PLSGL-TKLTELKLGANQ  274 (384)
T ss_dssp             EECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECCSSCCCCCG---GGTTC-TTCSEEECCSSC
T ss_pred             eeccCCccCCCCc-ccccCCCCEEECCCCCCCCcch--hhcccccchhccccCccCCCC---ccccc-ccCCEeeccCcc
Confidence            9999998887753 5677899999999999988764  478999999999998665433   46777 899999998776


Q ss_pred             cc
Q 012249          218 LK  219 (467)
Q Consensus       218 ~~  219 (467)
                      ..
T Consensus       275 l~  276 (384)
T d2omza2         275 IS  276 (384)
T ss_dssp             CC
T ss_pred             cC
Confidence            53

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.1e-17  Score=152.10  Aligned_cols=192  Identities=21%  Similarity=0.170  Sum_probs=164.4

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++.++|..+.  +++++|++++|.++.++...+.++++|+.|++++|. +..++.  ++.+++|++|++++|.
T Consensus        14 ~v~C~~~~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~-l~~l~~--~~~l~~L~~L~Ls~N~   88 (266)
T d1p9ag_          14 EVNCDKRNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQV--DGTLPVLGTLDLSHNQ   88 (266)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC-CCEEEC--CSCCTTCCEEECCSSC
T ss_pred             EEEccCCCCCeeCcCcC--cCCCEEECcCCcCCCcCHHHhhcccccccccccccc-cccccc--cccccccccccccccc
Confidence            35667788999998764  589999999999999988878899999999999997 666765  4689999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccc
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGIL  176 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l  176 (467)
                      +...+..+..+++|++|+++++......+ .+..+.++++|+++++.++.+|.. +..+++++.+++++|++..++...+
T Consensus        89 l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~  168 (266)
T d1p9ag_          89 LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLL  168 (266)
T ss_dssp             CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTT
T ss_pred             ccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCcccc
Confidence            99888888999999999999975444334 678999999999999999988765 6789999999999999999998877


Q ss_pred             cCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          177 PRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       177 ~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      +.+++|++|++++|.... .+ ..+..+ +.|+.|++++|..
T Consensus       169 ~~l~~L~~L~Ls~N~L~~-lp-~~~~~~-~~L~~L~L~~Np~  207 (266)
T d1p9ag_         169 NGLENLDTLLLQENSLYT-IP-KGFFGS-HLLPFAFLHGNPW  207 (266)
T ss_dssp             TTCTTCCEEECCSSCCCC-CC-TTTTTT-CCCSEEECCSCCB
T ss_pred             ccccccceeecccCCCcc-cC-hhHCCC-CCCCEEEecCCCC
Confidence            999999999999997653 33 356678 9999999998865

>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=99.73  E-value=2.4e-16  Score=146.22  Aligned_cols=189  Identities=19%  Similarity=0.243  Sum_probs=143.4

Q ss_pred             eEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCC
Q 012249           19 FMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTD   98 (467)
Q Consensus        19 ~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~   98 (467)
                      .+...+.++.++|..+.  +++++|++++|.+++++...+.++++|+.|++.+|. ...+++..|..++.|++|++++|.
T Consensus        14 ~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~-~~~i~~~~f~~l~~L~~L~l~~n~   90 (305)
T d1xkua_          14 VVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK-ISKISPGAFAPLVKLERLYLSKNQ   90 (305)
T ss_dssp             EEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCCCccCCCCC--CCCCEEECcCCcCCCcChhHhhcccccccccccccc-ccccchhhhhCCCccCEecccCCc
Confidence            34556677899998764  589999999999999988777789999999999998 556666667899999999999999


Q ss_pred             CCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCc---cccccccCCCCCcEEeccCCCCCCcCC
Q 012249           99 IEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIE---EVPEGMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        99 ~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~---~lp~~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      ++.+|..  ....++.|....+ .+..++  .+.....+..++...+...   ..+..+..+++|+.+++..|.+..++.
T Consensus        91 l~~l~~~--~~~~l~~L~~~~n-~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~  167 (305)
T d1xkua_          91 LKELPEK--MPKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQ  167 (305)
T ss_dssp             CSBCCSS--CCTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCS
T ss_pred             cCcCccc--hhhhhhhhhcccc-chhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCc
Confidence            9988853  4568899999886 455555  4666777888888777444   223457788899999999998888876


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      .   -+++|+.|+++++....... ..+..+ +.++.|.++.+..
T Consensus       168 ~---~~~~L~~L~l~~n~~~~~~~-~~~~~~-~~l~~L~~s~n~l  207 (305)
T d1xkua_         168 G---LPPSLTELHLDGNKITKVDA-ASLKGL-NNLAKLGLSFNSI  207 (305)
T ss_dssp             S---CCTTCSEEECTTSCCCEECT-GGGTTC-TTCCEEECCSSCC
T ss_pred             c---cCCccCEEECCCCcCCCCCh-hHhhcc-ccccccccccccc
Confidence            4   35788888888875544432 456666 7777777665543

>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=99.69  E-value=3.4e-16  Score=143.66  Aligned_cols=198  Identities=26%  Similarity=0.352  Sum_probs=162.1

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC-
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-   96 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~-   96 (467)
                      ..+..++.+++++|..+.  +.+++|++++|.++.++...+.++++|+.|+++++. +..++...+..+..++.+.... 
T Consensus        14 ~~v~c~~~~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~-l~~i~~~~~~~~~~~~~l~~~~~   90 (284)
T d1ozna_          14 VTTSCPQQGLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV-LARIDAAAFTGLALLEQLDLSDN   90 (284)
T ss_dssp             CEEECCSSCCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCCCCCCccCCCCC--CCCCEEECcCCcCCCCCHHHhhcccccccccccccc-ccccccccccccccccccccccc
Confidence            456667777899998664  478999999999999998888899999999999997 6677766778888999988764 


Q ss_pred             CCCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCC
Q 012249           97 TDIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        97 ~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      +.+..+ +..+..+++|++|++++|......+ .+....+|+.++++++.++.+|. .+..+++|++|++++|.+..++.
T Consensus        91 ~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~  170 (284)
T d1ozna_          91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPE  170 (284)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             cccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccch
Confidence            466666 5667889999999999975433333 57788899999999999998875 47789999999999999998888


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      ..+.++++|+.+++..|......+ ..+..+ ++|+.|+++.+.+..
T Consensus       171 ~~f~~l~~L~~l~l~~N~l~~i~~-~~f~~l-~~L~~L~l~~N~i~~  215 (284)
T d1ozna_         171 RAFRGLHSLDRLLLHQNRVAHVHP-HAFRDL-GRLMTLYLFANNLSA  215 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECT-TTTTTC-TTCCEEECCSSCCSC
T ss_pred             hhhccccccchhhhhhccccccCh-hHhhhh-hhccccccccccccc
Confidence            777899999999999987665443 678888 999999998887643

>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=99.66  E-value=4.7e-17  Score=151.71  Aligned_cols=129  Identities=20%  Similarity=0.356  Sum_probs=64.1

Q ss_pred             CccEEEeecCCCc---ccCCCccCCCCCCCEEEccC-CCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCC
Q 012249           39 NLERVSLMRNNIE---EIPSNMSPHCEILSTLLLQR-NENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLR  113 (467)
Q Consensus        39 ~l~~L~l~~~~~~---~l~~~~~~~l~~L~~L~l~~-~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~  113 (467)
                      +++.|+++++.+.   .+|..+. ++++|++|++++ |.+.+.+|..+ +++++|++|++++|.+..+ +..+..+.+|+
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~-~L~~L~~L~Ls~~N~l~g~iP~~i-~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLA-NLPYLNFLYIGGINNLVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGG-GCTTCSEEEEEEETTEESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             EEEEEECCCCCCCCCCCCChHHh-cCcccccccccccccccccccccc-ccccccchhhhccccccccccccccchhhhc
Confidence            4555555555444   2444433 555555555554 33344455443 4555555555555555532 33344555555


Q ss_pred             EEEcCCCCCCCcCC-CccccCCccEEEccCCcCc-cccccccCCCCC-cEEeccCCCCC
Q 012249          114 SLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIE-EVPEGMEMLENL-SHLYLSSLQLK  169 (467)
Q Consensus       114 ~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~-~lp~~~~~l~~L-~~L~l~~~~~~  169 (467)
                      +++++.|.....+| .+.+++.|+++++++|.+. .+|..+..+..+ +.++++.|++.
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~  187 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             ccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccc
Confidence            55555554444444 4555555555555555444 344444444443 44555554443

>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=99.66  E-value=2.7e-15  Score=137.52  Aligned_cols=198  Identities=23%  Similarity=0.231  Sum_probs=169.5

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      .+..+++.+.++|+ .+..+++|++++++++.+..++...+..+..++.+.+..+.....++...|.++++|++|++++|
T Consensus        36 ~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n  115 (284)
T d1ozna_          36 RIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC  115 (284)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             EEECcCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEecCCc
Confidence            46777888989886 58899999999999999998888888789999999887766677787777899999999999999


Q ss_pred             CCCCch-hhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCC
Q 012249           98 DIEVLP-SSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPA  173 (467)
Q Consensus        98 ~~~~l~-~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~  173 (467)
                      .+..++ ..+....+|+.+++++| .++.+|  .+..+.+|+.|++++|.++.++. .+.++++|+++++++|.+..++.
T Consensus       116 ~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~  194 (284)
T d1ozna_         116 GLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHP  194 (284)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECT
T ss_pred             ccccccccccchhcccchhhhccc-cccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccCh
Confidence            988664 45677899999999996 566665  58889999999999999998865 57899999999999999988877


Q ss_pred             ccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCcc
Q 012249          174 GILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTLK  219 (467)
Q Consensus       174 ~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~  219 (467)
                      ..+.++++|+.|+++.|..... ....++.+ .+|+.|++++|.+.
T Consensus       195 ~~f~~l~~L~~L~l~~N~i~~~-~~~~~~~~-~~L~~L~l~~N~l~  238 (284)
T d1ozna_         195 HAFRDLGRLMTLYLFANNLSAL-PTEALAPL-RALQYLRLNDNPWV  238 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCCSCC-CHHHHTTC-TTCCEEECCSSCEE
T ss_pred             hHhhhhhhcccccccccccccc-cccccccc-cccCEEEecCCCCC
Confidence            6679999999999999977554 44788899 99999999988753

>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=99.65  E-value=1.7e-15  Score=140.37  Aligned_cols=146  Identities=19%  Similarity=0.254  Sum_probs=73.0

Q ss_pred             CCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchh-hhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEcc
Q 012249           64 LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPS-SVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLY  141 (467)
Q Consensus        64 L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~-~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~  141 (467)
                      .+.++.++.. ...+|..+   .+.+++|++++|.++.+|+ .+.++++|++|++++|......| .+.++++|++|+++
T Consensus        12 ~~~~~C~~~~-L~~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~   87 (305)
T d1xkua_          12 LRVVQCSDLG-LEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS   87 (305)
T ss_dssp             TTEEECTTSC-CCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCEEEecCCC-CCccCCCC---CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEeccc
Confidence            3445544443 44455433   1345666666666665553 45556666666666654333333 45556666666666


Q ss_pred             CCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc-cccHHHHHhhhccCcEEEcccC
Q 012249          142 DTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL-RETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       142 ~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      +|+++.+|...  ...+..|+...+.+..++...+.....+..+....+.... ......+..+ ++|+.+++..+
T Consensus        88 ~n~l~~l~~~~--~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l-~~L~~l~l~~n  160 (305)
T d1xkua_          88 KNQLKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGM-KKLSYIRIADT  160 (305)
T ss_dssp             SSCCSBCCSSC--CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGC-TTCCEEECCSS
T ss_pred             CCccCcCccch--hhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccc-cccCccccccC
Confidence            66666555432  2355556666555555555444445555555554442211 1111234444 55555555444

>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=99.62  E-value=3.7e-15  Score=135.15  Aligned_cols=177  Identities=24%  Similarity=0.286  Sum_probs=149.4

Q ss_pred             CCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEE
Q 012249           37 EENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLS  116 (467)
Q Consensus        37 l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~  116 (467)
                      ...+.+++-+++.++.+|..+.   ++++.|++++|. +..++...|.++++|++|++++|.++.++. ++.+++|++|+
T Consensus         9 ~~~~~~v~C~~~~L~~iP~~lp---~~l~~L~Ls~N~-i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~   83 (266)
T d1p9ag_           9 VASHLEVNCDKRNLTALPPDLP---KDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLD   83 (266)
T ss_dssp             STTCCEEECTTSCCSSCCSCCC---TTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEE
T ss_pred             cCCCeEEEccCCCCCeeCcCcC---cCCCEEECcCCc-CCCcCHHHhhcccccccccccccccccccc-ccccccccccc
Confidence            3456677888888999987653   579999999998 777887778999999999999999998864 57899999999


Q ss_pred             cCCCCCCCcCC-CccccCCccEEEccCCcCccccc-cccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          117 LGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       117 l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      +++|. +...+ .+..+++|++|+++++.+..++. .+..+.++++|++.+|.+..++...+..+++++.+++++|....
T Consensus        84 Ls~N~-l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~  162 (266)
T d1p9ag_          84 LSHNQ-LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTE  162 (266)
T ss_dssp             CCSSC-CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSC
T ss_pred             ccccc-ccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccc
Confidence            99974 55555 78899999999999998887654 47789999999999999999998888899999999999997654


Q ss_pred             cccHHHHHhhhccCcEEEcccCCccch
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLKDF  221 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~~~  221 (467)
                      .. ...++.+ ++|+.|++++|.+...
T Consensus       163 ~~-~~~~~~l-~~L~~L~Ls~N~L~~l  187 (266)
T d1p9ag_         163 LP-AGLLNGL-ENLDTLLLQENSLYTI  187 (266)
T ss_dssp             CC-TTTTTTC-TTCCEEECCSSCCCCC
T ss_pred             cC-ccccccc-cccceeecccCCCccc
Confidence            43 3568889 9999999999987543

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.58  E-value=2e-14  Score=124.20  Aligned_cols=163  Identities=21%  Similarity=0.288  Sum_probs=132.7

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCE
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~  114 (467)
                      ..++++++|+++++.+.++.. + ..+++|++|++++|. +..+++  ++++++|++|++++|.+..++. +..+++|++
T Consensus        37 ~~l~~l~~L~l~~~~i~~l~~-l-~~l~nL~~L~Ls~N~-l~~~~~--l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~  110 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIKSIDG-V-EYLNNLTQINFSNNQ-LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTG  110 (199)
T ss_dssp             HHHTTCCEEECTTSCCCCCTT-G-GGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSE
T ss_pred             HHhcCCCEEECCCCCCCCccc-c-ccCCCcCcCcccccc-ccCccc--ccCCcccccccccccccccccc-ccccccccc
Confidence            346689999999999887753 3 378999999999997 555654  5899999999999999888764 789999999


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      |++++|. ....+.+..+++|+.|++++|.+..++ .+..+++|+.|++.+|.+.+++.  ++++++|+.|++++|....
T Consensus       111 L~l~~~~-~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n~l~~l~~--l~~l~~L~~L~ls~N~i~~  186 (199)
T d2omxa2         111 LTLFNNQ-ITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQVTDLKP--LANLTTLERLDISSNKVSD  186 (199)
T ss_dssp             EECCSSC-CCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCC
T ss_pred             ccccccc-cccccccchhhhhHHhhhhhhhhcccc-cccccccccccccccccccCCcc--ccCCCCCCEEECCCCCCCC
Confidence            9999864 445556888999999999999888775 58889999999999999988775  5899999999999986544


Q ss_pred             cccHHHHHhhhccCcEE
Q 012249          195 RETVEEAARLSDRLDYF  211 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L  211 (467)
                      .   ..++.+ ++|+.|
T Consensus       187 i---~~l~~L-~~L~~L  199 (199)
T d2omxa2         187 I---SVLAKL-TNLESL  199 (199)
T ss_dssp             C---GGGGGC-TTCSEE
T ss_pred             C---ccccCC-CCCCcC
Confidence            2   356777 777765

>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=99.58  E-value=1.3e-14  Score=126.56  Aligned_cols=166  Identities=23%  Similarity=0.305  Sum_probs=136.9

Q ss_pred             CCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEE
Q 012249           36 WEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSL  115 (467)
Q Consensus        36 ~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L  115 (467)
                      .+.++++++++++.++.++. + ..+++|+.|++++|. +..++.  ++.+++|++|++++|.++.++ .+..+++|+.|
T Consensus        44 ~L~~L~~L~l~~~~i~~l~~-l-~~l~~L~~L~L~~n~-i~~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L  117 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKSVQG-I-QYLPNVTKLFLNGNK-LTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSL  117 (210)
T ss_dssp             HHHTCCEEECTTSCCCCCTT-G-GGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEE
T ss_pred             HhcCccEEECcCCCCCCchh-H-hhCCCCCEEeCCCcc-ccCccc--cccCccccccccccccccccc-ccccccccccc
Confidence            35688999999999887754 3 379999999999997 556664  478999999999999999887 48889999999


Q ss_pred             EcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccc
Q 012249          116 SLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALR  195 (467)
Q Consensus       116 ~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  195 (467)
                      ++.+| ....++.+..+++++.++++++.++..+ .+..+++|+++++++|.+.+++.  +.++++|++|++++|.....
T Consensus       118 ~l~~~-~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~l~~i~~--l~~l~~L~~L~Ls~N~i~~l  193 (210)
T d1h6ta2         118 SLEHN-GISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISDL  193 (210)
T ss_dssp             ECTTS-CCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCBC
T ss_pred             ccccc-cccccccccccccccccccccccccccc-ccccccccccccccccccccccc--ccCCCCCCEEECCCCCCCCC
Confidence            99986 4556667889999999999999887654 57788999999999999988765  48999999999999866432


Q ss_pred             ccHHHHHhhhccCcEEEccc
Q 012249          196 ETVEEAARLSDRLDYFEGYF  215 (467)
Q Consensus       196 ~~~~~l~~l~~~L~~L~l~~  215 (467)
                         ..++.+ ++|+.|++++
T Consensus       194 ---~~l~~l-~~L~~L~Ls~  209 (210)
T d1h6ta2         194 ---RALAGL-KNLDVLELFS  209 (210)
T ss_dssp             ---GGGTTC-TTCSEEEEEE
T ss_pred             ---hhhcCC-CCCCEEEccC
Confidence               458888 9999998853

>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=99.57  E-value=4.3e-14  Score=123.16  Aligned_cols=159  Identities=24%  Similarity=0.365  Sum_probs=135.8

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+..+..++ .+..+++|++|++++|.++.++.  +..+++|+.|++++|. +..++.  +..+++|+.|+++++.+
T Consensus        51 L~l~~~~i~~l~-~l~~l~~L~~L~L~~n~i~~l~~--~~~l~~L~~L~l~~n~-i~~l~~--l~~l~~L~~L~l~~~~~  124 (210)
T d1h6ta2          51 IIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLSS--LKDLKKLKSLSLEHNGI  124 (210)
T ss_dssp             EECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGGG--GTTCTTCCEEECTTSCC
T ss_pred             EECcCCCCCCch-hHhhCCCCCEEeCCCccccCccc--cccCcccccccccccc-cccccc--ccccccccccccccccc
Confidence            456667777765 47889999999999999998764  3489999999999997 666764  57899999999999998


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++ .+..+++++.+++++| .+...+.+..+++|+++++++|.++.++ .++++++|+.|++++|.+++++.  +.++
T Consensus       125 ~~~~-~l~~l~~l~~l~~~~n-~l~~~~~~~~l~~L~~l~l~~n~l~~i~-~l~~l~~L~~L~Ls~N~i~~l~~--l~~l  199 (210)
T d1h6ta2         125 SDIN-GLVHLPQLESLYLGNN-KITDITVLSRLTKLDTLSLEDNQISDIV-PLAGLTKLQNLYLSKNHISDLRA--LAGL  199 (210)
T ss_dssp             CCCG-GGGGCTTCCEEECCSS-CCCCCGGGGGCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCBCGG--GTTC
T ss_pred             cccc-cccccccccccccccc-cccccccccccccccccccccccccccc-cccCCCCCCEEECCCCCCCCChh--hcCC
Confidence            8775 5789999999999996 5666667889999999999999998876 48899999999999999998874  5899


Q ss_pred             CCCcEEEccc
Q 012249          180 RSLYKLKLSF  189 (467)
Q Consensus       180 ~~L~~L~l~~  189 (467)
                      ++|++|++++
T Consensus       200 ~~L~~L~Ls~  209 (210)
T d1h6ta2         200 KNLDVLELFS  209 (210)
T ss_dssp             TTCSEEEEEE
T ss_pred             CCCCEEEccC
Confidence            9999999874

>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=99.56  E-value=1.5e-13  Score=129.43  Aligned_cols=134  Identities=19%  Similarity=0.294  Sum_probs=69.7

Q ss_pred             CccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcC
Q 012249           39 NLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLG  118 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~  118 (467)
                      ++++|+++++.++++|.    ..++|+.|++++|. +..+|.    ...+|+.|++.+|.+..++..   .+.|++|+++
T Consensus        39 ~l~~LdLs~~~L~~lp~----~~~~L~~L~Ls~N~-l~~lp~----~~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~  106 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPE----LPPHLESLVASCNS-LTELPE----LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVS  106 (353)
T ss_dssp             TCSEEECTTSCCSCCCS----CCTTCSEEECCSSC-CSSCCC----CCTTCCEEECCSSCCSCCCSC---CTTCCEEECC
T ss_pred             CCCEEEeCCCCCCCCCC----CCCCCCEEECCCCC-Cccccc----chhhhhhhhhhhcccchhhhh---cccccccccc
Confidence            45666666666666653    23566666666665 445553    234566666666665544321   1346666666


Q ss_pred             CCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccC
Q 012249          119 WCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       119 ~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~  190 (467)
                      +| .+..+|..+.+++|++|+++++.+...+...   ..+..+.+..+.......  +..++.++.+.+..+
T Consensus       107 ~n-~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~~---~~l~~l~~~~~~~~~~~~--l~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         107 NN-QLEKLPELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGNNQLEELPE--LQNLPFLTAIYADNN  172 (353)
T ss_dssp             SS-CCSSCCCCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCSSCCSSCCC--CTTCTTCCEEECCSS
T ss_pred             cc-ccccccchhhhccceeecccccccccccccc---ccccchhhcccccccccc--ccccccceecccccc
Confidence            64 3555555556666666666666555443322   233344443333222111  244455555555544

>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=99.55  E-value=4.2e-15  Score=138.29  Aligned_cols=191  Identities=18%  Similarity=0.217  Sum_probs=144.3

Q ss_pred             EcCCCcc---cCCcCccCCCCccEEEeec-CCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           22 KAGLRLL---EFPGEQEWEENLERVSLMR-NNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        22 ~~~~~l~---~~~~~~~~l~~l~~L~l~~-~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      ..+.++.   .+|..+..+++|++|++++ |.+. .+|..+. ++++|++|++++|.+ ..++...+..+..|+++++++
T Consensus        57 L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~-~L~~L~~L~Ls~N~l-~~~~~~~~~~~~~L~~l~l~~  134 (313)
T d1ogqa_          57 LSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIA-KLTQLHYLYITHTNV-SGAIPDFLSQIKTLVTLDFSY  134 (313)
T ss_dssp             EECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGG-GCTTCSEEEEEEECC-EEECCGGGGGCTTCCEEECCS
T ss_pred             CCCCCCCCCCCCChHHhcCccccccccccccccccccccccc-cccccchhhhccccc-cccccccccchhhhccccccc
Confidence            3455554   5789999999999999986 7776 7887765 899999999999984 444444568999999999999


Q ss_pred             CCCC-CchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCc-cEEEccCCcCcc-ccccccCCCCCcEEeccCCCCCCcC
Q 012249           97 TDIE-VLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLAL-QYLDLYDTRIEE-VPEGMEMLENLSHLYLSSLQLKKFP  172 (467)
Q Consensus        97 ~~~~-~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L-~~L~l~~~~~~~-lp~~~~~l~~L~~L~l~~~~~~~~~  172 (467)
                      |.+. .+|..+++++.|+++++++|.....+| .+..+..+ +.++++++.++. .|..+..+..+ .+++..+......
T Consensus       135 N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~-~l~l~~~~~~~~~  213 (313)
T d1ogqa_         135 NALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA-FVDLSRNMLEGDA  213 (313)
T ss_dssp             SEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCS-EEECCSSEEEECC
T ss_pred             ccccccCchhhccCcccceeeccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc
Confidence            9766 678899999999999999987666788 67777775 889998887774 44456665444 6777776653333


Q ss_pred             CccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          173 AGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       173 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      ...++.+++++.+++..+......  ..++.+ ++|+.|+++.|.+
T Consensus       214 ~~~~~~~~~l~~l~~~~~~l~~~~--~~~~~~-~~L~~L~Ls~N~l  256 (313)
T d1ogqa_         214 SVLFGSDKNTQKIHLAKNSLAFDL--GKVGLS-KNLNGLDLRNNRI  256 (313)
T ss_dssp             GGGCCTTSCCSEEECCSSEECCBG--GGCCCC-TTCCEEECCSSCC
T ss_pred             cccccccccccccccccccccccc--cccccc-cccccccCccCee
Confidence            333477888888888877554332  356666 7888888877765

>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=99.55  E-value=9e-14  Score=120.00  Aligned_cols=155  Identities=21%  Similarity=0.357  Sum_probs=131.2

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.++..+. ++..+++|++|++++|.++.++.  +.++++|+.|++++|. ...++.  ++.++.|+.|+++++..
T Consensus        45 L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L~l~~~~~  118 (199)
T d2omxa2          45 LQADRLGIKSID-GVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGLTLFNNQI  118 (199)
T ss_dssp             EECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCC
T ss_pred             EECCCCCCCCcc-ccccCCCcCcCccccccccCccc--ccCCcccccccccccc-cccccc--ccccccccccccccccc
Confidence            455566666664 57889999999999999998765  4589999999999997 566664  58999999999999988


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++ .+..+++|++|++++| .+..++.+..+.+|+.|++.+|.++.++ .++++++|++|++++|++++++.  +.++
T Consensus       119 ~~~~-~~~~l~~L~~L~l~~n-~l~~~~~l~~~~~L~~L~l~~n~l~~l~-~l~~l~~L~~L~ls~N~i~~i~~--l~~L  193 (199)
T d2omxa2         119 TDID-PLKNLTNLNRLELSSN-TISDISALSGLTSLQQLNFSSNQVTDLK-PLANLTTLERLDISSNKVSDISV--LAKL  193 (199)
T ss_dssp             CCCG-GGTTCTTCSEEECCSS-CCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCCGG--GGGC
T ss_pred             cccc-ccchhhhhHHhhhhhh-hhcccccccccccccccccccccccCCc-cccCCCCCCEEECCCCCCCCCcc--ccCC
Confidence            7764 4788999999999997 4666778899999999999999999886 58999999999999999988874  4789


Q ss_pred             CCCcEE
Q 012249          180 RSLYKL  185 (467)
Q Consensus       180 ~~L~~L  185 (467)
                      ++|++|
T Consensus       194 ~~L~~L  199 (199)
T d2omxa2         194 TNLESL  199 (199)
T ss_dssp             TTCSEE
T ss_pred             CCCCcC
Confidence            999876

>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=99.54  E-value=1.8e-13  Score=120.73  Aligned_cols=172  Identities=20%  Similarity=0.228  Sum_probs=113.7

Q ss_pred             cCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCE
Q 012249           35 EWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRS  114 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~  114 (467)
                      ..+++|+.|++.++.+++++ .+ .++++|+.|++++|. +..+++  +..+++++++++++|.++.++ .+..+++|++
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~-~l-~~l~~L~~L~ls~n~-i~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~  111 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIE-GV-QYLNNLIGLELKDNQ-ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-TG-GGCTTCCEEECCSSC-CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             HHcCCcCEEECCCCCCCcch-hH-hcCCCCcEeecCCce-eecccc--ccccccccccccccccccccc-cccccccccc
Confidence            34567788888888777764 33 378888888888876 444443  467788888888888777664 4677888888


Q ss_pred             EEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcc
Q 012249          115 LSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEAL  194 (467)
Q Consensus       115 L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  194 (467)
                      ++++++. ....+.+.....++.+.++++.+...+ .+.++++|++|++.+|.+...+.  ++++++|+.|++++|....
T Consensus       112 l~l~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~~~~--l~~l~~L~~L~Ls~n~l~~  187 (227)
T d1h6ua2         112 LDLTSTQ-ITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLKADDNKISD  187 (227)
T ss_dssp             EECTTSC-CCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCC
T ss_pred             ccccccc-ccccchhccccchhhhhchhhhhchhh-hhccccccccccccccccccchh--hcccccceecccCCCccCC
Confidence            8887753 333444556666777777666555432 35566777777777776655444  3677777777777765433


Q ss_pred             cccHHHHHhhhccCcEEEcccCCccc
Q 012249          195 RETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       195 ~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      .   ..++.+ ++|+.|++++|.+.+
T Consensus       188 l---~~l~~l-~~L~~L~Ls~N~lt~  209 (227)
T d1h6ua2         188 I---SPLASL-PNLIEVHLKNNQISD  209 (227)
T ss_dssp             C---GGGGGC-TTCCEEECTTSCCCB
T ss_pred             C---hhhcCC-CCCCEEECcCCcCCC
Confidence            2   236667 777777777776544

>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=99.50  E-value=4.7e-14  Score=128.94  Aligned_cols=216  Identities=17%  Similarity=0.177  Sum_probs=118.7

Q ss_pred             ccccCCccEEEccCCcCc--cccccccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhc
Q 012249          129 LARLLALQYLDLYDTRIE--EVPEGMEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSD  206 (467)
Q Consensus       129 l~~l~~L~~L~l~~~~~~--~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~  206 (467)
                      .....+|++||+++|.++  .++..+.++++|++|++++|.+.+.....++++++|+.|+++++...+...+..+..-|+
T Consensus        42 ~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~  121 (284)
T d2astb2          42 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  121 (284)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             hccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHH
Confidence            334456777777776554  244456677777777777776643222223677778888887765545444444443337


Q ss_pred             cCcEEEcccCCccchhhhhhccCCCCChhhhhhhhhcCCCccccccccccceeeeecCccccchhhhhhhcccceeeeee
Q 012249          207 RLDYFEGYFSTLKDFNIYVKSTDGRGSKNYCLALSAHGMGGCLVTHLEVDKSVFLYGCKICEIKETIVLLKDVQCLQMFE  286 (467)
Q Consensus       207 ~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~~~~~~~~l~~L~~~~  286 (467)
                      +|++|+++++......             .....                               .....+.++.|.+.+
T Consensus       122 ~L~~L~ls~c~~~~~~-------------~~~~~-------------------------------~~~~~~~L~~L~l~~  157 (284)
T d2astb2         122 RLDELNLSWCFDFTEK-------------HVQVA-------------------------------VAHVSETITQLNLSG  157 (284)
T ss_dssp             TCCEEECCCCTTCCHH-------------HHHHH-------------------------------HHHSCTTCCEEECCS
T ss_pred             hccccccccccccccc-------------cchhh-------------------------------hcccccccchhhhcc
Confidence            8888887665321100             00000                               001112333333333


Q ss_pred             cc-ccccccccccccccccc-ccCccccccEEEEecCCCCccccccchHHhhhccceeeeCCccchhhhhcccCchhhhh
Q 012249          287 VD-EVTSLNDVLPRELGLVN-IGKFSHDLKVLRFDSCKNLKNLFSLRLLPALQNLKVLAVISCNSIEEIVAVEDEDTEKE  364 (467)
Q Consensus       287 ~~-~l~~l~~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~  364 (467)
                      |. .++...        +.. ...+|+ |++|++++|..+++- .+..+..+++|+.|++++|+.+.+...         
T Consensus       158 ~~~~i~~~~--------l~~l~~~~~~-L~~L~L~~~~~itd~-~~~~l~~~~~L~~L~L~~C~~i~~~~l---------  218 (284)
T d2astb2         158 YRKNLQKSD--------LSTLVRRCPN-LVHLDLSDSVMLKND-CFQEFFQLNYLQHLSLSRCYDIIPETL---------  218 (284)
T ss_dssp             CGGGSCHHH--------HHHHHHHCTT-CSEEECTTCTTCCGG-GGGGGGGCTTCCEEECTTCTTCCGGGG---------
T ss_pred             ccccccccc--------cccccccccc-ccccccccccCCCch-hhhhhcccCcCCEEECCCCCCCChHHH---------
Confidence            31 111100        000 112466 999999999888763 444567788999999999987764311         


Q ss_pred             hccccccccccccccccccccccccccccccCCCccccCCcceEEEeCCCCcccc
Q 012249          365 LATNTIINTVTLPRLKKLRFYDLPEFKSFCSYNGVLVCNSLQEIEVRRCPKLKRL  419 (467)
Q Consensus       365 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~i~~C~~L~~l  419 (467)
                            ..+..+|+|+.|++.+|-.-..+....  ..+|+|+   + +|.+++.+
T Consensus       219 ------~~L~~~~~L~~L~l~~~~~d~~l~~l~--~~lp~L~---i-~~~~ls~~  261 (284)
T d2astb2         219 ------LELGEIPTLKTLQVFGIVPDGTLQLLK--EALPHLQ---I-NCSHFTTI  261 (284)
T ss_dssp             ------GGGGGCTTCCEEECTTSSCTTCHHHHH--HHSTTSE---E-SCCCSCCT
T ss_pred             ------HHHhcCCCCCEEeeeCCCCHHHHHHHH--HhCcccc---c-cCccCCCC
Confidence                  112278899999998872222221111  3455655   3 57777764

>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=99.46  E-value=7.3e-13  Score=116.74  Aligned_cols=180  Identities=20%  Similarity=0.293  Sum_probs=145.8

Q ss_pred             EEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           20 MVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        20 ~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      +...+.+++.++ ++..+++|+++++++|.+..+..  +..+++++.+++.+|. ...++.  +.+++.|++++++++..
T Consensus        46 L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~-~~~i~~--l~~l~~L~~l~l~~~~~  119 (227)
T d1h6ua2          46 LSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNP-LKNVSA--IAGLQSIKTLDLTSTQI  119 (227)
T ss_dssp             EECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCC-CSCCGG--GTTCTTCCEEECTTSCC
T ss_pred             EECCCCCCCcch-hHhcCCCCcEeecCCceeecccc--cccccccccccccccc-cccccc--ccccccccccccccccc
Confidence            455677788874 68899999999999999887654  4589999999999987 555654  47899999999999887


Q ss_pred             CCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCccccCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILPRL  179 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l  179 (467)
                      ..++ .+...+.++.+.++++ .+...+.+..+++|++|++++|.+...+ .++++++|+.|++++|++++++.  +.++
T Consensus       120 ~~~~-~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~Ls~n~l~~l~~--l~~l  194 (227)
T d1h6ua2         120 TDVT-PLAGLSNLQVLYLDLN-QITNISPLAGLTNLQYLSIGNAQVSDLT-PLANLSKLTTLKADDNKISDISP--LASL  194 (227)
T ss_dssp             CCCG-GGTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCCGG--GGGC
T ss_pred             cccc-hhccccchhhhhchhh-hhchhhhhccccccccccccccccccch-hhcccccceecccCCCccCCChh--hcCC
Confidence            7664 3677889999999885 4445556788899999999999887664 47889999999999999988875  5899


Q ss_pred             CCCcEEEcccCCCcccccHHHHHhhhccCcEEEcc
Q 012249          180 RSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGY  214 (467)
Q Consensus       180 ~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~  214 (467)
                      ++|++|++++|.....   ..++.+ ++|+.|+++
T Consensus       195 ~~L~~L~Ls~N~lt~i---~~l~~l-~~L~~L~ls  225 (227)
T d1h6ua2         195 PNLIEVHLKNNQISDV---SPLANT-SNLFIVTLT  225 (227)
T ss_dssp             TTCCEEECTTSCCCBC---GGGTTC-TTCCEEEEE
T ss_pred             CCCCEEECcCCcCCCC---cccccC-CCCCEEEee
Confidence            9999999999965443   347788 999999885

>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=99.45  E-value=1.1e-12  Score=116.75  Aligned_cols=197  Identities=13%  Similarity=0.136  Sum_probs=149.5

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC-
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS-   96 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~-   96 (467)
                      ..+...+.++..+|..+.  +++++|++++|.++.++...|.++++|++|++++|.....++...|..++.++++.+.. 
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CEEEEeCCCCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            356677778889997653  48999999999999999888889999999999999866667766678999999999876 


Q ss_pred             CCCCCc-hhhhhcCcCCCEEEcCCCCCCCcCC---CccccCCccEEEccCCcCcccccc-ccCC-CCCcEEeccCCCCCC
Q 012249           97 TDIEVL-PSSVSDLTNLRSLSLGWCRRLKRVP---SLARLLALQYLDLYDTRIEEVPEG-MEML-ENLSHLYLSSLQLKK  170 (467)
Q Consensus        97 ~~~~~l-~~~~~~l~~L~~L~l~~~~~~~~~p---~l~~l~~L~~L~l~~~~~~~lp~~-~~~l-~~L~~L~l~~~~~~~  170 (467)
                      +.+..+ +..+..+++|++++++++ .+...+   .+..+..+..+...++.+..++.. +..+ ..++.+++.++.+..
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~  167 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQE  167 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESC-CCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCE
T ss_pred             ccccccccccccccccccccccchh-hhcccccccccccccccccccccccccccccccccccccccceeeecccccccc
Confidence            466644 456788999999999997 455555   355566676677777677777543 4554 478899999999998


Q ss_pred             cCCccccCCCCCcEEEc-ccCCCcccccHHHHHhhhccCcEEEcccCCccc
Q 012249          171 FPAGILPRLRSLYKLKL-SFGNEALRETVEEAARLSDRLDYFEGYFSTLKD  220 (467)
Q Consensus       171 ~~~~~l~~l~~L~~L~l-~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~~~  220 (467)
                      ++..+ .+..++..+.. .++.. ...+...+.++ ++|+.|+++++.+..
T Consensus       168 i~~~~-~~~~~l~~~~~l~~n~l-~~l~~~~f~~l-~~L~~L~Ls~N~l~~  215 (242)
T d1xwdc1         168 IHNCA-FNGTQLDELNLSDNNNL-EELPNDVFHGA-SGPVILDISRTRIHS  215 (242)
T ss_dssp             ECTTT-TTTCCEEEEECTTCTTC-CCCCTTTTTTS-CCCSEEECTTSCCCC
T ss_pred             ccccc-ccchhhhcccccccccc-ccccHHHhcCC-CCCCEEECCCCcCCc
Confidence            88876 45566666654 44433 33333457888 999999999887643

>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=99.42  E-value=1.9e-13  Score=124.88  Aligned_cols=180  Identities=22%  Similarity=0.233  Sum_probs=129.0

Q ss_pred             cCCCCccEEEeecCCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC-CCC--CchhhhhcCc
Q 012249           35 EWEENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST-DIE--VLPSSVSDLT  110 (467)
Q Consensus        35 ~~l~~l~~L~l~~~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~-~~~--~l~~~~~~l~  110 (467)
                      ....++++++++++.+. .....++.+|++|+.|++.+|...+..+.. +.++++|++|++++| .+.  .+......++
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~  121 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  121 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHHH
Confidence            34558999999988775 222334568999999999999743333443 478899999999996 565  3344456789


Q ss_pred             CCCEEEcCCCCCCCcCC---Cccc-cCCccEEEccCC--cCc--cccccccCCCCCcEEeccCCC-CCCcCCccccCCCC
Q 012249          111 NLRSLSLGWCRRLKRVP---SLAR-LLALQYLDLYDT--RIE--EVPEGMEMLENLSHLYLSSLQ-LKKFPAGILPRLRS  181 (467)
Q Consensus       111 ~L~~L~l~~~~~~~~~p---~l~~-l~~L~~L~l~~~--~~~--~lp~~~~~l~~L~~L~l~~~~-~~~~~~~~l~~l~~  181 (467)
                      +|++|++++|..+....   .+.. .++|+.|+++++  .++  .+.....++++|++|++++|. +++-....+.++++
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            99999999987665432   2333 468999999986  344  344445678999999999875 54333222478999


Q ss_pred             CcEEEcccCCCcccccHHHHHhhhccCcEEEcccC
Q 012249          182 LYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFS  216 (467)
Q Consensus       182 L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~  216 (467)
                      |++|++++|.......+..++++ ++|+.|++.++
T Consensus       202 L~~L~L~~C~~i~~~~l~~L~~~-~~L~~L~l~~~  235 (284)
T d2astb2         202 LQHLSLSRCYDIIPETLLELGEI-PTLKTLQVFGI  235 (284)
T ss_dssp             CCEEECTTCTTCCGGGGGGGGGC-TTCCEEECTTS
T ss_pred             CCEEECCCCCCCChHHHHHHhcC-CCCCEEeeeCC
Confidence            99999998766566555677888 89999998765

>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=99.42  E-value=2.8e-11  Score=113.47  Aligned_cols=176  Identities=22%  Similarity=0.247  Sum_probs=122.4

Q ss_pred             ceEEEcCCCcccCCcCccCCCCccEEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCC
Q 012249           18 LFMVKAGLRLLEFPGEQEWEENLERVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSST   97 (467)
Q Consensus        18 ~~~~~~~~~l~~~~~~~~~l~~l~~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~   97 (467)
                      ..+..++.++.++|+.   .++|++|++++|.++++|..    ..+|+.|++.+|. ...++.    -.+.|++|++++|
T Consensus        41 ~~LdLs~~~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n~-l~~l~~----lp~~L~~L~L~~n  108 (353)
T d1jl5a_          41 HELELNNLGLSSLPEL---PPHLESLVASCNSLTELPEL----PQSLKSLLVDNNN-LKALSD----LPPLLEYLGVSNN  108 (353)
T ss_dssp             SEEECTTSCCSCCCSC---CTTCSEEECCSSCCSSCCCC----CTTCCEEECCSSC-CSCCCS----CCTTCCEEECCSS
T ss_pred             CEEEeCCCCCCCCCCC---CCCCCEEECCCCCCcccccc----hhhhhhhhhhhcc-cchhhh----hcccccccccccc
Confidence            3667788888999863   56899999999999998863    4689999999997 555542    1246999999999


Q ss_pred             CCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCCCCcCCcccc
Q 012249           98 DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQLKKFPAGILP  177 (467)
Q Consensus        98 ~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~~~~~~~~l~  177 (467)
                      .+..+|. ++.+++|++|+++++. ....+.  ....+..+.+..+.... +..+..++.++.+++..+....++...  
T Consensus       109 ~l~~lp~-~~~l~~L~~L~l~~~~-~~~~~~--~~~~l~~l~~~~~~~~~-~~~l~~l~~l~~L~l~~n~~~~~~~~~--  181 (353)
T d1jl5a_         109 QLEKLPE-LQNSSFLKIIDVDNNS-LKKLPD--LPPSLEFIAAGNNQLEE-LPELQNLPFLTAIYADNNSLKKLPDLP--  181 (353)
T ss_dssp             CCSSCCC-CTTCTTCCEEECCSSC-CSCCCC--CCTTCCEEECCSSCCSS-CCCCTTCTTCCEEECCSSCCSSCCCCC--
T ss_pred             ccccccc-hhhhccceeecccccc-cccccc--ccccccchhhccccccc-cccccccccceeccccccccccccccc--
Confidence            9999885 6889999999999864 344431  23455667666654333 245777888999999888776655422  


Q ss_pred             CCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          178 RLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       178 ~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                        ...+.+..........   .....+ +.|+.+.++.+..
T Consensus       182 --~~~~~l~~~~~~~~~~---~~~~~l-~~L~~l~l~~n~~  216 (353)
T d1jl5a_         182 --LSLESIVAGNNILEEL---PELQNL-PFLTTIYADNNLL  216 (353)
T ss_dssp             --TTCCEEECCSSCCSSC---CCCTTC-TTCCEEECCSSCC
T ss_pred             --cccccccccccccccc---cccccc-ccccccccccccc
Confidence              2234444444322211   234556 7888888877654

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.40  E-value=8.2e-13  Score=104.15  Aligned_cols=84  Identities=24%  Similarity=0.265  Sum_probs=38.2

Q ss_pred             hcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccc--cccCCCCCcEE
Q 012249           84 VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPE--GMEMLENLSHL  161 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~--~~~~l~~L~~L  161 (467)
                      +.+++|++|++++|.+..+|..++.+++|++|++++| .++.+|++..+++|++|++++|.++.++.  .++.+++|+++
T Consensus        17 ~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L   95 (124)
T d1dcea3          17 EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLL   95 (124)
T ss_dssp             GGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCGGGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEE
T ss_pred             ccCCCCCEEECCCCccCcchhhhhhhhcccccccccc-cccccCccccccccCeEECCCCccCCCCCchhhcCCCCCCEE
Confidence            4444444444444444444444444444444444443 33333444444444444444444443332  23444444444


Q ss_pred             eccCCCC
Q 012249          162 YLSSLQL  168 (467)
Q Consensus       162 ~l~~~~~  168 (467)
                      ++++|++
T Consensus        96 ~l~~N~i  102 (124)
T d1dcea3          96 NLQGNSL  102 (124)
T ss_dssp             ECTTSGG
T ss_pred             ECCCCcC
Confidence            4444443

>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=99.37  E-value=1.2e-12  Score=108.41  Aligned_cols=108  Identities=18%  Similarity=0.192  Sum_probs=52.4

Q ss_pred             CCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-C-ccccCCccE
Q 012249           60 HCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-S-LARLLALQY  137 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~-l~~l~~L~~  137 (467)
                      ++.++|.|++++|. +..++. ++..+++|++|++++|.+..++ .+..+++|++|++++|. +..++ . +..+++|++
T Consensus        16 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_          16 NAVRDRELDLRGYK-IPVIEN-LGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLTE   91 (162)
T ss_dssp             CTTSCEEEECTTSC-CCSCCC-GGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSC-CCEECSCHHHHCTTCCE
T ss_pred             CcCcCcEEECCCCC-CCccCc-cccccccCCEEECCCCCCCccC-CcccCcchhhhhccccc-ccCCCcccccccccccc
Confidence            44555555555555 444432 2345555555555555555442 24455555555555542 33333 2 234555555


Q ss_pred             EEccCCcCccccc--cccCCCCCcEEeccCCCCCCc
Q 012249          138 LDLYDTRIEEVPE--GMEMLENLSHLYLSSLQLKKF  171 (467)
Q Consensus       138 L~l~~~~~~~lp~--~~~~l~~L~~L~l~~~~~~~~  171 (467)
                      |++++|.++.++.  .+..+++|+++++++|.+...
T Consensus        92 L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~  127 (162)
T d1a9na_          92 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNK  127 (162)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGS
T ss_pred             ceeccccccccccccccccccccchhhcCCCccccc
Confidence            5555555444432  244445555555555444333

>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=99.36  E-value=3.5e-12  Score=100.46  Aligned_cols=118  Identities=28%  Similarity=0.334  Sum_probs=96.3

Q ss_pred             cEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEccCCcCccccccccCCCCCcEEeccCCCC
Q 012249           90 KVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSSLQL  168 (467)
Q Consensus        90 ~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~~~~  168 (467)
                      |+|++++|++..++. +..+++|++|++++| .++.+| .++.+++|++|++++|.++.+| .++.+++|+++++++|++
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N-~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCC-ccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCcc
Confidence            689999999998874 899999999999996 577887 7899999999999999999986 589999999999999999


Q ss_pred             CCcCC-ccccCCCCCcEEEcccCCCcccc--cHHHHHhhhccCcEE
Q 012249          169 KKFPA-GILPRLRSLYKLKLSFGNEALRE--TVEEAARLSDRLDYF  211 (467)
Q Consensus       169 ~~~~~-~~l~~l~~L~~L~l~~~~~~~~~--~~~~l~~l~~~L~~L  211 (467)
                      ..++. ..++.+++|+.|++++|......  ....+..+ ++|+.+
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~l-p~L~~L  122 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEML-PSVSSI  122 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHC-TTCSEE
T ss_pred             CCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHC-cCcceE
Confidence            88774 33588999999999998664332  22344445 666654

>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=99.35  E-value=8.7e-13  Score=112.97  Aligned_cols=123  Identities=26%  Similarity=0.398  Sum_probs=62.9

Q ss_pred             EEEeecCCCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCCc-hhhhhcCcCCCEEEcCCC
Q 012249           42 RVSLMRNNIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEVL-PSSVSDLTNLRSLSLGWC  120 (467)
Q Consensus        42 ~L~l~~~~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-~~~~~~l~~L~~L~l~~~  120 (467)
                      .++.+++.++.+|..+.   ++++.|++++|.+...++...|..+++|+.|++++|.+..+ +..+..+++|++|++++|
T Consensus        12 ~v~Cs~~~L~~iP~~lp---~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             EEECTTSCCSSCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             EEEEeCCCcCccCCCCC---CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            34444445555554432   34555555555532334344445555555555555555533 234445555555555554


Q ss_pred             CCCCcCC--CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCC
Q 012249          121 RRLKRVP--SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQL  168 (467)
Q Consensus       121 ~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~  168 (467)
                       .+..+|  .+.++++|++|++++|.++.+|.. +..+++|+++++++|.+
T Consensus        89 -~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          89 -KIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             -CCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             -cccccCHHHHhCCCcccccccCCccccccCHHHhcCCccccccccccccc
Confidence             333333  355555666666666656555443 45566666666666554

>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=99.32  E-value=1.5e-12  Score=107.90  Aligned_cols=128  Identities=16%  Similarity=0.201  Sum_probs=82.4

Q ss_pred             hcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCcccccc-ccCCCCCcEEe
Q 012249           84 VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLY  162 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~  162 (467)
                      .+...+|.|++++|++..++..+..+++|++|++++| .+..++++..+++|++|++++|.++.++.. +..+++|++|+
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N-~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~   93 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDN-EIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSS-CCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             cCcCcCcEEECCCCCCCccCccccccccCCEEECCCC-CCCccCCcccCcchhhhhcccccccCCCccccccccccccce
Confidence            3555677777777777766655566777777777775 455556666777777777777777766654 34577777777


Q ss_pred             ccCCCCCCcCC-ccccCCCCCcEEEcccCCCccccc--HHHHHhhhccCcEEEc
Q 012249          163 LSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALRET--VEEAARLSDRLDYFEG  213 (467)
Q Consensus       163 l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~--~~~l~~l~~~L~~L~l  213 (467)
                      +++|.+..++. ..+..+++|+.|++++|.......  ...++.+ ++|+.|+.
T Consensus        94 L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~l-p~L~~LD~  146 (162)
T d1a9na_          94 LTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKV-PQVRVLDF  146 (162)
T ss_dssp             CCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHC-TTCSEETT
T ss_pred             eccccccccccccccccccccchhhcCCCccccccchHHHHHHHC-CCcCeeCC
Confidence            77777766553 224667777777777765433322  1245666 77776654

>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=99.31  E-value=1e-11  Score=106.18  Aligned_cols=130  Identities=20%  Similarity=0.156  Sum_probs=107.3

Q ss_pred             CCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCCCC-c-hhhhhcCcCCCEEEcCCCCCCCcCC-CccccCCccEEEc
Q 012249           64 LSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDIEV-L-PSSVSDLTNLRSLSLGWCRRLKRVP-SLARLLALQYLDL  140 (467)
Q Consensus        64 L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~-l-~~~~~~l~~L~~L~l~~~~~~~~~p-~l~~l~~L~~L~l  140 (467)
                      .++++.+++. ...+|..+   .+.+++|++++|.+.. + +..+..+++|++|++++|......+ .+..+++|++|++
T Consensus        10 ~~~v~Cs~~~-L~~iP~~l---p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_          10 GTTVDCTGRG-LKEIPRDI---PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TTEEECTTSC-CSSCCSCC---CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CCEEEEeCCC-cCccCCCC---CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeee
Confidence            4678888887 66788654   2689999999999974 4 3566889999999999975544444 6888999999999


Q ss_pred             cCCcCcccccc-ccCCCCCcEEeccCCCCCCcCCccccCCCCCcEEEcccCCCccccc
Q 012249          141 YDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPAGILPRLRSLYKLKLSFGNEALRET  197 (467)
Q Consensus       141 ~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  197 (467)
                      ++|.++.+|.. +.++++|++|++++|.+..++...|..+++|+++++++|.......
T Consensus        86 s~N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~  143 (192)
T d1w8aa_          86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCH  143 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGG
T ss_pred             ccccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccccc
Confidence            99999988764 7899999999999999999999888999999999999986654433

>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=99.30  E-value=5.6e-12  Score=112.03  Aligned_cols=192  Identities=16%  Similarity=0.122  Sum_probs=143.1

Q ss_pred             eEEEcCCCcccCCc-CccCCCCccEEEeecCCCc-ccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccC
Q 012249           19 FMVKAGLRLLEFPG-EQEWEENLERVSLMRNNIE-EIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSS   96 (467)
Q Consensus        19 ~~~~~~~~l~~~~~-~~~~l~~l~~L~l~~~~~~-~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~   96 (467)
                      .+...++.+..+|. .+..+++|+++++++|.+. .++...+.++++++.+.+..+......+...|.++++|+++++.+
T Consensus        33 ~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~  112 (242)
T d1xwdc1          33 ELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISN  112 (242)
T ss_dssp             EEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEES
T ss_pred             EEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccch
Confidence            36677788888887 5788999999999999876 466666778999999998765546667767778999999999999


Q ss_pred             CCCCCchh--hhhcCcCCCEEEcCCCCCCCcCC--CccccC-CccEEEccCCcCccccccccCCCCCcEEe-ccCCCCCC
Q 012249           97 TDIEVLPS--SVSDLTNLRSLSLGWCRRLKRVP--SLARLL-ALQYLDLYDTRIEEVPEGMEMLENLSHLY-LSSLQLKK  170 (467)
Q Consensus        97 ~~~~~l~~--~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~-~L~~L~l~~~~~~~lp~~~~~l~~L~~L~-l~~~~~~~  170 (467)
                      +.+...+.  .+..+..+..+...+ ..+..++  .+..+. .++.|++.++.++.++....+..+++.+. +.++.+++
T Consensus       113 ~~l~~~~~~~~~~~l~~l~~~~~~n-~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~l~~  191 (242)
T d1xwdc1         113 TGIKHLPDVHKIHSLQKVLLDIQDN-INIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEE  191 (242)
T ss_dssp             CCCCSCCCCTTTCBSSCEEEEEESC-TTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTTCCC
T ss_pred             hhhcccccccccccccccccccccc-cccccccccccccccccceeeecccccccccccccccchhhhcccccccccccc
Confidence            98886543  233445555555554 4555555  455554 78999999999999988777777776664 57778999


Q ss_pred             cCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEc
Q 012249          171 FPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEG  213 (467)
Q Consensus       171 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l  213 (467)
                      +|..+|.++++|++|++++|..... +...+.++ ++|+.+++
T Consensus       192 l~~~~f~~l~~L~~L~Ls~N~l~~l-~~~~~~~l-~~L~~l~~  232 (242)
T d1xwdc1         192 LPNDVFHGASGPVILDISRTRIHSL-PSYGLENL-KKLRARST  232 (242)
T ss_dssp             CCTTTTTTSCCCSEEECTTSCCCCC-CSSSCTTC-CEEESSSE
T ss_pred             ccHHHhcCCCCCCEEECCCCcCCcc-CHHHHcCC-cccccCcC
Confidence            9988889999999999999876533 22345555 55555544

>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=99.09  E-value=6e-13  Score=114.28  Aligned_cols=126  Identities=30%  Similarity=0.370  Sum_probs=57.6

Q ss_pred             hcCCCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCCCc-cccCCccEEEccCCcCccccccccCCCCCcEEe
Q 012249           84 VHMHGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSL-ARLLALQYLDLYDTRIEEVPEGMEMLENLSHLY  162 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l-~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~  162 (467)
                      ..+++|++|++++|.++.++ .+..+++|++|++++| .++.+|.+ ..+.+|++|++++|.++.++ .+..+++|++|+
T Consensus        45 ~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~  121 (198)
T d1m9la_          45 STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLY  121 (198)
T ss_dssp             HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEE
T ss_pred             hcccccceeECcccCCCCcc-cccCCccccChhhccc-ccccccccccccccccccccccccccccc-cccccccccccc
Confidence            44455555555555444443 2444455555555543 23333322 22334555555555444442 344455555555


Q ss_pred             ccCCCCCCcCC-ccccCCCCCcEEEcccCCCcccc---------cHHHHHhhhccCcEEEc
Q 012249          163 LSSLQLKKFPA-GILPRLRSLYKLKLSFGNEALRE---------TVEEAARLSDRLDYFEG  213 (467)
Q Consensus       163 l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~---------~~~~l~~l~~~L~~L~l  213 (467)
                      +++|.+.+++. ..+..+++|+.|++++|......         ....+..+ ++|+.|+-
T Consensus       122 L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~l-p~L~~LD~  181 (198)
T d1m9la_         122 MSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRL-PNLKKLDG  181 (198)
T ss_dssp             ESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHC-SSCCEESS
T ss_pred             cccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHC-CCcCEeCC
Confidence            55555544432 11345555555555554221110         01235666 77777653

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=1.8e-09  Score=88.30  Aligned_cols=99  Identities=17%  Similarity=0.083  Sum_probs=56.4

Q ss_pred             EEcCCCcccCCcCccCCCCccEEEeecC-CCcccCCCccCCCCCCCEEEccCCCCCCCCchhHhhcCCCCcEEEccCCCC
Q 012249           21 VKAGLRLLEFPGEQEWEENLERVSLMRN-NIEEIPSNMSPHCEILSTLLLQRNENLQRIPECFFVHMHGLKVVNLSSTDI   99 (467)
Q Consensus        21 ~~~~~~l~~~~~~~~~l~~l~~L~l~~~-~~~~l~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~   99 (467)
                      ...+..+.++|..+..++++++|++.++ .++.++...|.++++|+.|++++|. +..+++..|..+++|++|+|++|.+
T Consensus        14 ~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~-l~~i~~~~f~~l~~L~~L~Ls~N~l   92 (156)
T d2ifga3          14 RCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDAFHFTPRLSRLNLSFNAL   92 (156)
T ss_dssp             ECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSC-CCEECTTGGGSCSCCCEEECCSSCC
T ss_pred             EecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccc-cCCcccccccccccccceeccCCCC
Confidence            3344455555555555566666666544 3555555555556666666666665 5555555555666666666666666


Q ss_pred             CCchhhhhcCcCCCEEEcCCC
Q 012249          100 EVLPSSVSDLTNLRSLSLGWC  120 (467)
Q Consensus       100 ~~l~~~~~~l~~L~~L~l~~~  120 (467)
                      ..+|..+.....|++|++++|
T Consensus        93 ~~l~~~~~~~~~l~~L~L~~N  113 (156)
T d2ifga3          93 ESLSWKTVQGLSLQELVLSGN  113 (156)
T ss_dssp             SCCCSTTTCSCCCCEEECCSS
T ss_pred             cccChhhhccccccccccCCC
Confidence            655554444445555655554

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.94  E-value=3.2e-11  Score=103.29  Aligned_cols=127  Identities=21%  Similarity=0.265  Sum_probs=106.1

Q ss_pred             CCcEEEccCC--CCCCchhhhhcCcCCCEEEcCCCCCCCcCCCccccCCccEEEccCCcCccccccccCCCCCcEEeccC
Q 012249           88 GLKVVNLSST--DIEVLPSSVSDLTNLRSLSLGWCRRLKRVPSLARLLALQYLDLYDTRIEEVPEGMEMLENLSHLYLSS  165 (467)
Q Consensus        88 ~L~~L~l~~~--~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p~l~~l~~L~~L~l~~~~~~~lp~~~~~l~~L~~L~l~~  165 (467)
                      .++.+++.+.  .++.++..+..+++|++|++++| .++.++++..+++|++|++++|.++.+|.....+++|+.|++++
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n-~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~  102 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY  102 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEE-EESCCCCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSE
T ss_pred             ccceeeeecccCchhhhhhHHhcccccceeECccc-CCCCcccccCCccccChhhccccccccccccccccccccccccc
Confidence            3455566554  46678889999999999999996 57778889999999999999999998886666778999999999


Q ss_pred             CCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHhhhccCcEEEcccCCc
Q 012249          166 LQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       166 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~l~~~L~~L~l~~~~~  218 (467)
                      |.+..++.  +.++++|+.|++++|.......+..++.+ ++|+.|++++|..
T Consensus       103 N~i~~l~~--~~~l~~L~~L~L~~N~i~~~~~~~~l~~l-~~L~~L~L~~N~l  152 (198)
T d1m9la_         103 NQIASLSG--IEKLVNLRVLYMSNNKITNWGEIDKLAAL-DKLEDLLLAGNPL  152 (198)
T ss_dssp             EECCCHHH--HHHHHHSSEEEESEEECCCHHHHHHHTTT-TTCSEEEECSSHH
T ss_pred             cccccccc--ccccccccccccccchhccccccccccCC-CccceeecCCCcc
Confidence            99988764  47899999999999977655455678889 9999999988864

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=4.9e-09  Score=85.56  Aligned_cols=116  Identities=20%  Similarity=0.132  Sum_probs=88.1

Q ss_pred             CCCcEEEccCCCCCCchhhhhcCcCCCEEEcCCCCCCCcCC--CccccCCccEEEccCCcCccccc-cccCCCCCcEEec
Q 012249           87 HGLKVVNLSSTDIEVLPSSVSDLTNLRSLSLGWCRRLKRVP--SLARLLALQYLDLYDTRIEEVPE-GMEMLENLSHLYL  163 (467)
Q Consensus        87 ~~L~~L~l~~~~~~~l~~~~~~l~~L~~L~l~~~~~~~~~p--~l~~l~~L~~L~l~~~~~~~lp~-~~~~l~~L~~L~l  163 (467)
                      .....++.++++....|..+..+++|++|++.++..++.++  ++..+.+|+.|++++|+++.++. .+..+++|++|++
T Consensus         8 ~~~~~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           8 HGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (156)
T ss_dssp             SSSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             CCCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceec
Confidence            34456777777777777777788888888888766677776  58888899999999998888854 4888999999999


Q ss_pred             cCCCCCCcCCccccCCCCCcEEEcccCCCcccccHHHHHh
Q 012249          164 SSLQLKKFPAGILPRLRSLYKLKLSFGNEALRETVEEAAR  203 (467)
Q Consensus       164 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~  203 (467)
                      ++|++..++..++.. .+|+.|++++|.+.-.-....+..
T Consensus        88 s~N~l~~l~~~~~~~-~~l~~L~L~~Np~~C~C~~~~l~~  126 (156)
T d2ifga3          88 SFNALESLSWKTVQG-LSLQELVLSGNPLHCSCALRWLQR  126 (156)
T ss_dssp             CSSCCSCCCSTTTCS-CCCCEEECCSSCCCCCGGGHHHHH
T ss_pred             cCCCCcccChhhhcc-ccccccccCCCcccCCchHHHHHH
Confidence            999999998887544 469999999886643333333333

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.74  E-value=1.2e-09  Score=105.69  Aligned_cols=106  Identities=18%  Similarity=0.240  Sum_probs=74.8

Q ss_pred             CccEEEeecCCCcccC-CCccCCCCCCCEEEccCCCCCCCCc----hhHhhcCCCCcEEEccCCCCCC-----chhhhh-
Q 012249           39 NLERVSLMRNNIEEIP-SNMSPHCEILSTLLLQRNENLQRIP----ECFFVHMHGLKVVNLSSTDIEV-----LPSSVS-  107 (467)
Q Consensus        39 ~l~~L~l~~~~~~~l~-~~~~~~l~~L~~L~l~~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~~-----l~~~~~-  107 (467)
                      +|+.|++++++++... ..++..++++++|++.+|. +....    ...+..+++|++|++++|.+..     +...+. 
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~-i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~   81 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQT   81 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCS
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCC-CCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhc
Confidence            6889999999987321 2334468899999999997 33211    1234788999999999998752     222232 


Q ss_pred             cCcCCCEEEcCCCCCCCcCC------CccccCCccEEEccCCcCc
Q 012249          108 DLTNLRSLSLGWCRRLKRVP------SLARLLALQYLDLYDTRIE  146 (467)
Q Consensus       108 ~l~~L~~L~l~~~~~~~~~p------~l~~l~~L~~L~l~~~~~~  146 (467)
                      ....|++|++++|. ++...      .+..+++|++|++++|.++
T Consensus        82 ~~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          82 PSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCCEEECCCCC-ccccccccccchhhccccccccccccccch
Confidence            23579999999974 54432      3677889999999998776

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.64  E-value=1e-08  Score=95.58  Aligned_cols=187  Identities=16%  Similarity=0.028  Sum_probs=104.3

Q ss_pred             ccCCcCccCCCCccEEEeecCCCcc-----cCCCccCCCCCCCEEEccCCCCCCC---Cch------hHhhcCCCCcEEE
Q 012249           28 LEFPGEQEWEENLERVSLMRNNIEE-----IPSNMSPHCEILSTLLLQRNENLQR---IPE------CFFVHMHGLKVVN   93 (467)
Q Consensus        28 ~~~~~~~~~l~~l~~L~l~~~~~~~-----l~~~~~~~l~~L~~L~l~~~~~~~~---~~~------~~~~~l~~L~~L~   93 (467)
                      ..+...+.....++.|++++|.+..     +... ....++|+.+++.++.....   .+.      ..+..+++|+.|+
T Consensus        21 ~~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~-l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~   99 (344)
T d2ca6a1          21 KSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSEN-IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVR   99 (344)
T ss_dssp             HTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHT-TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEE
T ss_pred             HHHHHHHhhCCCCCEEECcCCcCCHHHHHHHHHH-HHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccc
Confidence            3444444556678888888877642     2222 23677888888887642111   111      1234567888888


Q ss_pred             ccCCCCCC-----chhhhhcCcCCCEEEcCCCCCCCcCC--C-------------ccccCCccEEEccCCcCc-----cc
Q 012249           94 LSSTDIEV-----LPSSVSDLTNLRSLSLGWCRRLKRVP--S-------------LARLLALQYLDLYDTRIE-----EV  148 (467)
Q Consensus        94 l~~~~~~~-----l~~~~~~l~~L~~L~l~~~~~~~~~p--~-------------l~~l~~L~~L~l~~~~~~-----~l  148 (467)
                      +++|.+..     +...+..+++|++|++++|. ++...  .             ....+.|+.++++++.++     .+
T Consensus       100 L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~-l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l  178 (344)
T d2ca6a1         100 LSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNG-LGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEW  178 (344)
T ss_dssp             CCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSC-CHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHH
T ss_pred             ccccccccccccchhhhhcccccchheeccccc-ccccccccccccccccccccccccCcccceeecccccccccccccc
Confidence            88887652     34455667888888888764 22110  0             123456777777776554     22


Q ss_pred             cccccCCCCCcEEeccCCCCCCc-----CCccccCCCCCcEEEcccCCCcccccHH----HHHhhhccCcEEEcccCCc
Q 012249          149 PEGMEMLENLSHLYLSSLQLKKF-----PAGILPRLRSLYKLKLSFGNEALRETVE----EAARLSDRLDYFEGYFSTL  218 (467)
Q Consensus       149 p~~~~~l~~L~~L~l~~~~~~~~-----~~~~l~~l~~L~~L~l~~~~~~~~~~~~----~l~~l~~~L~~L~l~~~~~  218 (467)
                      ...+...++|+.+++++|.+..-     ....+..+++|+.|++++|.+... ...    .+... ++|++|++++|.+
T Consensus       179 ~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~-g~~~L~~~l~~~-~~L~~L~Ls~n~i  255 (344)
T d2ca6a1         179 AKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL-GSSALAIALKSW-PNLRELGLNDCLL  255 (344)
T ss_dssp             HHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH-HHHHHHHHGGGC-TTCCEEECTTCCC
T ss_pred             cchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccc-cccccccccccc-ccchhhhhhcCcc
Confidence            33345566777777777766421     111135566677777776643221 111    22333 5666666655543

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.57  E-value=4e-08  Score=91.42  Aligned_cols=40  Identities=30%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             ccccCCccEEEccCCcCc-----cccccccCCCCCcEEeccCCCC
Q 012249          129 LARLLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYLSSLQL  168 (467)
Q Consensus       129 l~~l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l~~~~~  168 (467)
                      +..+++|+.|++++|.++     .+...+..+++|++|++++|.+
T Consensus       211 l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i  255 (344)
T d2ca6a1         211 LAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLL  255 (344)
T ss_dssp             GGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCC
T ss_pred             hcchhhhcccccccccccccccccccccccccccchhhhhhcCcc
Confidence            444555555555555443     1223344555555555555554

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=2.1e-08  Score=96.80  Aligned_cols=86  Identities=22%  Similarity=0.231  Sum_probs=62.5

Q ss_pred             ccCCCCccEEEeecCCCcc-----cCCCccCCCCCCCEEEccCCCCCCCCc-hhHh----hcCCCCcEEEccCCCCCC--
Q 012249           34 QEWEENLERVSLMRNNIEE-----IPSNMSPHCEILSTLLLQRNENLQRIP-ECFF----VHMHGLKVVNLSSTDIEV--  101 (467)
Q Consensus        34 ~~~l~~l~~L~l~~~~~~~-----l~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~----~~l~~L~~L~l~~~~~~~--  101 (467)
                      +..+++++.|++.+|.++.     +... +..+++|+.|++++|. +...+ ..+.    .....|++|++++|.+..  
T Consensus        23 ~~~l~~l~~L~L~~~~i~~~~~~~l~~~-L~~~~~L~~LdLs~N~-i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~  100 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDCGLTEARCKDISSA-LRVNPALAELNLRSNE-LGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAG  100 (460)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHH-HHTCTTCCEEECTTCC-CHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGG
T ss_pred             HHhCCCCCEEEeCCCCCCHHHHHHHHHH-HhcCCCCCEEECcCCc-CChHHHHHHHHHHhcCCCCCCEEECCCCCccccc
Confidence            3457899999999998862     2222 3478999999999997 33211 1111    123579999999999862  


Q ss_pred             ---chhhhhcCcCCCEEEcCCCC
Q 012249          102 ---LPSSVSDLTNLRSLSLGWCR  121 (467)
Q Consensus       102 ---l~~~~~~l~~L~~L~l~~~~  121 (467)
                         ++..+..+++|++|++++|.
T Consensus       101 ~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1         101 CGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             HHHHHHHTTSCTTCCEEECCSSB
T ss_pred             cccccchhhcccccccccccccc
Confidence               45677889999999999874

>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=97.48  E-value=4.2e-06  Score=68.07  Aligned_cols=36  Identities=31%  Similarity=0.313  Sum_probs=17.0

Q ss_pred             hcCCCCcEEEccCCCCCCc---hhhhhcCcCCCEEEcCC
Q 012249           84 VHMHGLKVVNLSSTDIEVL---PSSVSDLTNLRSLSLGW  119 (467)
Q Consensus        84 ~~l~~L~~L~l~~~~~~~l---~~~~~~l~~L~~L~l~~  119 (467)
                      ..++.|++|++++|.++.+   +..+..+++|++|++++
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~  100 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG  100 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTT
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCccccccccc
Confidence            4455555555555555433   22233444444444444

>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=97.26  E-value=3.8e-05  Score=62.20  Aligned_cols=79  Identities=24%  Similarity=0.254  Sum_probs=46.3

Q ss_pred             hcCcCCCEEEcCCCCCCCcCC----CccccCCccEEEccCCcCcccccc-ccCCCCCcEEeccCCCCCCcCC-------c
Q 012249          107 SDLTNLRSLSLGWCRRLKRVP----SLARLLALQYLDLYDTRIEEVPEG-MEMLENLSHLYLSSLQLKKFPA-------G  174 (467)
Q Consensus       107 ~~l~~L~~L~l~~~~~~~~~p----~l~~l~~L~~L~l~~~~~~~lp~~-~~~l~~L~~L~l~~~~~~~~~~-------~  174 (467)
                      ..+++|++|++++| .++.++    .+..+++|+.|++++|.++.++.. .....+|+.+++.+|++.....       .
T Consensus        62 ~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          62 ENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             HhCCCCCEeeCCCc-cccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            45677777777775 344433    245667777777777777766542 2233456777777776643322       1


Q ss_pred             cccCCCCCcEEE
Q 012249          175 ILPRLRSLYKLK  186 (467)
Q Consensus       175 ~l~~l~~L~~L~  186 (467)
                      ++..+++|+.|+
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            235566777664

>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=97.11  E-value=0.00029  Score=57.00  Aligned_cols=36  Identities=6%  Similarity=0.088  Sum_probs=16.4

Q ss_pred             cCCccEEEccCCcCc-----cccccccCCCCCcEEeccCCC
Q 012249          132 LLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYLSSLQ  167 (467)
Q Consensus       132 l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l~~~~  167 (467)
                      .+.|++|++++|.++     .+-..+...++|++|++.++.
T Consensus        71 n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          71 SPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             CSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             cccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCc
Confidence            344455555554444     122234444555555555443

>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=96.98  E-value=0.00064  Score=54.92  Aligned_cols=86  Identities=13%  Similarity=0.024  Sum_probs=51.1

Q ss_pred             CCCCCCEEEccCCCCCCCCc----hhHhhcCCCCcEEEccCCCCC-----CchhhhhcCcCCCEEEcCCCCCCCcCC---
Q 012249           60 HCEILSTLLLQRNENLQRIP----ECFFVHMHGLKVVNLSSTDIE-----VLPSSVSDLTNLRSLSLGWCRRLKRVP---  127 (467)
Q Consensus        60 ~l~~L~~L~l~~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~-----~l~~~~~~l~~L~~L~l~~~~~~~~~p---  127 (467)
                      +.+.|+.|+++++..+..-.    ...+...+.|++|++++|.+.     .+...+...+.|++|++++|. ++...   
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~~~   91 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF-LTPELLAR   91 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB-CCHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh-cchHHHHH
Confidence            45677777776543222110    112345667777777777665     344555667778888888763 33321   


Q ss_pred             ---CccccCCccEEEccCCcCc
Q 012249          128 ---SLARLLALQYLDLYDTRIE  146 (467)
Q Consensus       128 ---~l~~l~~L~~L~l~~~~~~  146 (467)
                         ++..-+.|++|+++++.+.
T Consensus        92 l~~aL~~n~sL~~L~l~~n~~~  113 (167)
T d1pgva_          92 LLRSTLVTQSIVEFKADNQRQS  113 (167)
T ss_dssp             HHHHTTTTCCCSEEECCCCSSC
T ss_pred             HHHHHHhCCcCCEEECCCCcCC
Confidence               3555667888888776544

>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=96.43  E-value=0.0028  Score=50.84  Aligned_cols=58  Identities=21%  Similarity=0.223  Sum_probs=29.5

Q ss_pred             cCCccEEEccCCcCc-----cccccccCCCCCcEEecc--CCCCCC-----cCCccccCCCCCcEEEcccC
Q 012249          132 LLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYLS--SLQLKK-----FPAGILPRLRSLYKLKLSFG  190 (467)
Q Consensus       132 l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l~--~~~~~~-----~~~~~l~~l~~L~~L~l~~~  190 (467)
                      .+.++.+++++|.+.     .+...+...++|+.+++.  .+.+..     +... +...++|++|++..+
T Consensus        73 ~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~-L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          73 NNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANM-LEKNTTLLKFGYHFT  142 (166)
T ss_dssp             CSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHH-HHHCSSCCEEECCCS
T ss_pred             cccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHH-HHhCCCcCEEeCcCC
Confidence            344555555544443     233445556666655543  333422     2111 356677888877765

>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=96.38  E-value=0.0013  Score=52.91  Aligned_cols=84  Identities=15%  Similarity=0.129  Sum_probs=41.8

Q ss_pred             cCCccEEEccCCcCc-----cccccccCCCCCcEEeccCCCCCC-----cCCccccCCCCCcEEEcccCCC-cccccH--
Q 012249          132 LLALQYLDLYDTRIE-----EVPEGMEMLENLSHLYLSSLQLKK-----FPAGILPRLRSLYKLKLSFGNE-ALRETV--  198 (467)
Q Consensus       132 l~~L~~L~l~~~~~~-----~lp~~~~~l~~L~~L~l~~~~~~~-----~~~~~l~~l~~L~~L~l~~~~~-~~~~~~--  198 (467)
                      .++|++|++++|.++     .+-..+...+.++.+++++|.+..     +... +...++|+.+++..+.. .+....  
T Consensus        45 n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~-l~~~~~L~~l~L~l~~n~i~~~~~~~  123 (166)
T d1io0a_          45 NTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEA-LQSNTSLIELRIDNQSQPLGNNVEME  123 (166)
T ss_dssp             CCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHG-GGGCSSCCEEECCCCSSCCCHHHHHH
T ss_pred             CCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHH-HHhCccccEEeeccCCCcCcHHHHHH
Confidence            344444444444443     222334556677777777776532     1122 35566777666654321 112111  


Q ss_pred             --HHHHhhhccCcEEEcccCC
Q 012249          199 --EEAARLSDRLDYFEGYFST  217 (467)
Q Consensus       199 --~~l~~l~~~L~~L~l~~~~  217 (467)
                        ..+... +.|+.|++..+.
T Consensus       124 La~~L~~n-~~L~~L~l~~~~  143 (166)
T d1io0a_         124 IANMLEKN-TTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHHHHC-SSCCEEECCCSS
T ss_pred             HHHHHHhC-CCcCEEeCcCCC
Confidence              233444 777777776554