Citrus Sinensis ID: 040318

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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------
Protein Sequence
DNIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR
Secondary Structure (PSIPRED)
cccccccccHHHHccccccccccHHHHccccccEEEccccccccccccccccccccccccEEEccccccccccHHHHccccccEEccccccccccccHHHHcccccccEEEccccccccccccccccccccccccccccccccccEEEEEEcccHHHHHHcccccccccEEEEEEEEccccccccccccccccccEEEEEccccccccccccccEEEcccccccccEEEEEEccccccccccccccccccEEEEEcccccEEEcccccccccccccccccccccccEEccccccccccccccccccccccEEEEcccccccccccccccccccEEEEEccccccccccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
ccccccccHEEEEEccccccccHHHHHHcccEEEEEccccccccccHcccHHHHHHHHHHEEccccccHHHccHHHHHHHHHHEEEccccccHccccHHHHHcHHHcEEEEEEccccccccccccccccccHHHHHHHHHHHHccEEEEEcccHHHHHHHcccHHHHHHHHHccccccccccHcHHHccccccccEEEEEccccEEEEEcccccccccccccccccEEEEEEcccccccccHHHccccccEEEEcccHcHHEEccHccccccccccccccccHHccEEEEcccHHHHHccccccccccccEEEEcccccHcccccccccccccEEEEEccHHHHHHcccccHHHHHHccccccccc
Coil and Loop (DISEMBL)
dnirysnipsilelssnnkvfepswflsraswtcldngpsriknsltelpsgisSLVSlqhldvsytdirgLPHELTALLNLRYLNLertyhlsrfppelicsfsKLEVLRMLESgadstaeqgsvlsedAEPLMKELLCLKLLNLISFSLyssrgvrnflkfpklLRITQAlsisdceipllnvSHLAYMEHLKDLVIDnsnleelktdcTGEVQKVLQCGFRSLHLASIAFCSRvkdltwlafapnlKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSiyqgalplpqlkeirvtqcpklktlplnssstkLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR
Flexible Loop (DISEMBL)
dnirysnipsilelssnnkVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCpklktlplnssstklRNIVISGGKDWWEELQWEDQATqnafstcfvpsr
Low Complexity Region (SEG)
DNIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHeltallnlrylnlertyHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPlmkellclkllnlisfslYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR
Disordered region (IsUnstruct)
**********ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRML********************LMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCF****
Disordered Region (DISOPRED)
*NIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQ**********LM*ELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK*************FAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPL******LRN*VISGGKDWWEELQWEDQATQNAFSTCFVPS*
Disordered Region (DISEMBL)
DNIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESG*********VLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR
Disordered Region (DISPRO)
*NIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCFV***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
DNIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR
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	366	2.2.26 [Sep-21-2011]
Q9FLB4	874	Putative disease resistan	yes	no	0.806	0.337	0.350	7e-36
Q8RXS5	888	Probable disease resistan	no	no	0.816	0.336	0.348	6e-33
Q8L3R3	885	Disease resistance protei	no	no	0.825	0.341	0.393	4e-32
Q9C8T9	898	Putative disease resistan	no	no	0.786	0.320	0.347	5e-29
O64973	889	Disease resistance protei	no	no	0.816	0.336	0.352	7e-29
Q9SH22	884	Probable disease resistan	no	no	0.789	0.326	0.332	1e-26
O64789	925	Probable disease resistan	no	no	0.770	0.304	0.340	3e-26
O22727	967	Probable disease resistan	no	no	0.797	0.301	0.343	3e-25
O64790	762	Probable disease resistan	no	no	0.784	0.376	0.336	6e-25
P60838	894	Probable disease resistan	no	no	0.811	0.332	0.321	3e-24

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

 Score =  151 bits (382), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 115/328 (35%), Positives = 177/328 (53%), Gaps = 33/328 (10%)

Query: 45  SLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSF 104
           +L ELPS  S L SL+ L++S T I  LP  L AL NL YLNLE TY L R     I   
Sbjct: 563 NLIELPS-FSPLYSLRFLNLSCTGITSLPDGLYALRNLLYLNLEHTYMLKRIYE--IHDL 619

Query: 105 SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP 164
             LEVL++  SG D T           + L++++  +K L L++ +L +S G+  FL   
Sbjct: 620 PNLEVLKLYASGIDIT-----------DKLVRQIQAMKHLYLLTITLRNSSGLEIFLGDT 668

Query: 165 KLLRITQALSISD------CEIPLLNVSHLAYME----HLKDLVIDNSNLEELKTDCTG- 213
           +    T+ L++ +       ++PL  +S   ++E    H+  + I+ S+  E  ++  G 
Sbjct: 669 RFSSYTEGLTLDEQSYYQSLKVPLATISSSRFLEIQDSHIPKIEIEGSSSNE--SEIVGP 726

Query: 214 EVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVE---KLN 270
            V++     F +L    +  C+ +KDLTWL FAP+L  + ++   D+E IIS     +L 
Sbjct: 727 RVRR--DISFINLRKVRLDNCTGLKDLTWLVFAPHLATLYVVCLPDIEHIISRSEESRLQ 784

Query: 271 QLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSST 330
           +  ++ G + F  +LE L L +   LKSIY+  L   +LKEI +  CPKL  LPL+S S 
Sbjct: 785 KTCELAGVIPF-RELEFLTLRNLGQLKSIYRDPLLFGKLKEINIKSCPKLTKLPLDSRSA 843

Query: 331 KLRNIVISGGKDWWEELQWEDQATQNAF 358
             +N+VI+  ++W + LQWED AT+  F
Sbjct: 844 WKQNVVINAEEEWLQGLQWEDVATKERF 871

Potential 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 =  142 bits (357), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 112/321 (34%), Positives = 165/321 (51%), Gaps = 22/321 (6%)

Query: 42  IKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELI 101
           +   L  LP+ IS  VSLQ+L +S T IR  P  L  L  L YLNLE T  +     E I
Sbjct: 566 MNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMV-----ESI 620

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
           C  S L  L++L        E   VL+E       + L + L  L S        +  FL
Sbjct: 621 CGISGLTSLKVLRLFVSGFPEDPCVLNELQLLENLQTLTITL-GLASI-------LEQFL 672

Query: 162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV--- 218
              +L   T+AL I +       +S +A M+ L++L   +S++ E+K      V  +   
Sbjct: 673 SNQRLASCTRALRIENLNPQSSVISFVATMDSLQELHFADSDIWEIKVKRNETVLPLHIP 732

Query: 219 -LQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMG 277
                F +L   S+ FC+R++DLTWL FAPNL ++ ++   DL+E+I+ EK  Q + I  
Sbjct: 733 TTTTFFPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVINKEKAEQQNLIP- 791

Query: 278 ELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVI 337
               F +L+ L L + + LK I++G LP P L++I V  C +L+ LPLN +S    ++VI
Sbjct: 792 ----FQELKELRLENVQMLKHIHRGPLPFPCLQKILVNGCSELRKLPLNFTSVPRGDLVI 847

Query: 338 SGGKDWWEELQWEDQATQNAF 358
              K W E L+WED+AT+  F
Sbjct: 848 EAHKKWIEILEWEDEATKARF 868

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  139 bits (349), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 128/325 (39%), Positives = 171/325 (52%), Gaps = 23/325 (7%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           +SL+ELP  IS LVSLQ+LD+S T I  LPH L  L  L +L LERT  L       I  
Sbjct: 574 HSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLERTRRLESISG--ISY 631

Query: 104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
            S L  LR+ +S   +T + G         LMKEL  L+ L LI+  + SS  V     +
Sbjct: 632 LSSLRTLRLRDS--KTTLDTG---------LMKELQLLEHLELITTDI-SSGLVGELFCY 679

Query: 164 PKLLRITQALSISD-CEIPLLNVSHLAY--MEHLKDLVIDNSNLEELKTDCTGEVQKVLQ 220
           P++ R  Q + I D  E P  +V  L    + +L  + I N  + E+  + T   + +  
Sbjct: 680 PRVGRCIQHIYIRDHWERPEESVGVLVLPAIHNLCYISIWNCWMWEIMIEKTPWKKNLTN 739

Query: 221 CGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELN 280
             F +L    I  C  +KDLTWL FAPNL  + +  C  LE+IIS EK    S +  E+ 
Sbjct: 740 PNFSNLSNVRIEGCDGLKDLTWLLFAPNLINLRVWGCKHLEDIISKEK--AASVLEKEIL 797

Query: 281 FFAKLELLDLYHAENLKSIYQGALPLPQLKEIRV-TQCPKLKTLPLNSSS-TKLRNIVIS 338
            F KLE L+LY    LKSIY  ALP  +L+ + +   CPKL+ LPL+S S  K+   VI 
Sbjct: 798 PFQKLECLNLYQLSELKSIYWNALPFQRLRCLDILNNCPKLRKLPLDSKSVVKVEEFVIK 857

Query: 339 -GGKDWWEELQWEDQATQNAF-STC 361
              K W E ++WED+ATQ  F  TC
Sbjct: 858 YKEKKWIERVEWEDEATQYRFLPTC 882

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  129 bits (323), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 112/322 (34%), Positives = 171/322 (53%), Gaps = 34/322 (10%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
           L+ELP+GIS LVSLQ+L++S T IR LP  L  L  L +L LERT  L       I    
Sbjct: 574 LSELPNGISELVSLQYLNLSSTGIRHLPKGLQELKKLIHLYLERTSQLGSMVG--ISCLH 631

Query: 106 KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS-SRGVRNFLKFP 164
            L+VL++           GS  + D + + KEL  L+ L +++ ++   + G   FL   
Sbjct: 632 NLKVLKL----------SGSSYAWDLDTV-KELEALEHLEVLTTTIDDCTLGTDQFLSSH 680

Query: 165 KLLRITQALSISDCEIPLLNVSHL---AYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQC 221
           +L+   + L IS+      N S +     M+ L++  I++ +  E+K    G +     C
Sbjct: 681 RLMSCIRFLKISNNSNRNRNSSRISLPVTMDRLQEFTIEHCHTSEIKM---GRI-----C 732

Query: 222 GFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLN--QLSDIMGEL 279
            F SL   +++ C R+++LT+L FAPNLK + ++  + LE+II+ EK +  + S I+   
Sbjct: 733 SFSSLIEVNLSNCRRLRELTFLMFAPNLKRLHVVSSNQLEDIINKEKAHDGEKSGIVP-- 790

Query: 280 NFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRN---IV 336
             F KL  L LY+   LK+IY   LP P L++I V  CP LK LPL+S S K      I+
Sbjct: 791 --FPKLNELHLYNLRELKNIYWSPLPFPCLEKINVMGCPNLKKLPLDSKSGKHGGNGLII 848

Query: 337 ISGGKDWWEELQWEDQATQNAF 358
                +W   ++WED+AT+  F
Sbjct: 849 THREMEWITRVEWEDEATKTRF 870

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  128 bits (321), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 113/321 (35%), Positives = 156/321 (48%), Gaps = 22/321 (6%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
            SL ELP  IS L SL++ ++SYT I  LP  L  L  L +LNLE   H+S      I  
Sbjct: 574 QSLNELPEEISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLE---HMSSLGS--ILG 628

Query: 104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
            S L  LR L         + S L  D   L+KEL  L+ L +I+  + SS      L  
Sbjct: 629 ISNLWNLRTL-------GLRDSRLLLDM-SLVKELQLLEHLEVITLDISSSLVAEPLLCS 680

Query: 164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELK----TDCTGEVQKVL 219
            +L+   + +     +   + V  L  M +L+ L I    + E+K    T  +   +   
Sbjct: 681 QRLVECIKEVDFKYLKEESVRVLTLPTMGNLRKLGIKRCGMREIKIERTTSSSSRNKSPT 740

Query: 220 QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGEL 279
              F +L    IA C  +KDLTWL FAPNL  + +    ++E+IIS EK  + S     +
Sbjct: 741 TPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEVGFSKEVEDIISEEKAEEHS---ATI 797

Query: 280 NFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRN--IVI 337
             F KLE L L+    LK IY  AL  P LK I V +C KL+ LPL+S S       ++ 
Sbjct: 798 VPFRKLETLHLFELRGLKRIYAKALHFPCLKVIHVEKCEKLRKLPLDSKSGIAGEELVIY 857

Query: 338 SGGKDWWEELQWEDQATQNAF 358
            G ++W E ++WEDQATQ  F
Sbjct: 858 YGEREWIERVEWEDQATQLRF 878

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH22|DRL20_ARATH Probable disease resistance protein At1g63360 OS=Arabidopsis thaliana GN=At1g63360 PE=2 SV=1

 Score =  120 bits (302), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 107/322 (33%), Positives = 163/322 (50%), Gaps = 33/322 (10%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
            SL ELP  IS+LVSL++L++ YT+I  LP  +  L  + +LNLE T  L       I S
Sbjct: 579 KSLFELPEEISNLVSLKYLNLLYTEISHLPKGIQELKKIIHLNLEYTRKLESITG--ISS 636

Query: 104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
              L+VL++  S           L  D    +KEL  L+ L +++ ++      + FL  
Sbjct: 637 LHNLKVLKLFRSR----------LPWDLNT-VKELETLEHLEILTTTIDPR--AKQFLSS 683

Query: 164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEE--LKTDCTGEVQKVLQC 221
            +LL  ++ L I    +  LN        HL+ L +    L E  +K+    E++    C
Sbjct: 684 HRLLSHSRLLEIYGSSVSSLN-------RHLESLSVSTDKLREFQIKSCSISEIKMGGIC 736

Query: 222 GFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKL--NQLSDIMGEL 279
            F SL   +I  C  +++LT+L FAP ++ + + H  DLE+II+ EK    + S I+   
Sbjct: 737 NFLSLVDVNIFNCEGLRELTFLIFAPKIRSLSVWHAKDLEDIINEEKACEGEESGILP-- 794

Query: 280 NFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKL-RNIVIS 338
             F +L  L L+    LK IY   LP   L+EI + +CP L+ LPL+S+S K   N  I 
Sbjct: 795 --FPELNFLTLHDLPKLKKIYWRPLPFLCLEEINIRECPNLRKLPLDSTSGKQGENGCII 852

Query: 339 GGKD--WWEELQWEDQATQNAF 358
             KD  W+E ++W D+AT+  F
Sbjct: 853 RNKDSRWFEGVKWADEATKKRF 874

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  119 bits (298), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 111/326 (34%), Positives = 156/326 (47%), Gaps = 44/326 (13%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
             ELP  IS LVSLQ+LD+S+T I  LP  L  L  L +L+L  T  L            
Sbjct: 583 FNELPEQISGLVSLQYLDLSFTRIEQLPVGLKELKKLTFLDLAYTARLCSISGISRLLSL 642

Query: 106 KLEVLRMLESGADSTA----EQGSVLSEDAEPLMKELLCL--KLLNLISFSLYSSRGVRN 159
           ++  L   +   D++     +Q   L + A  L  EL+ L  +L  +IS       G+  
Sbjct: 643 RVLSLLGSKVHGDASVLKELQQLENLQDLAITLSAELISLDQRLAKVISI-----LGIEG 697

Query: 160 FLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELK-----TDCTG- 213
           FL+ P                   ++S LA ME+L  L + NS   E+K     TD +  
Sbjct: 698 FLQKP------------------FDLSFLASMENLSSLWVKNSYFSEIKCRESETDSSYL 739

Query: 214 EVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLS 273
            +   + C F +L    I  C  +KDLTW+ FAPNL ++ I    ++ EII+ EK   L+
Sbjct: 740 HINPKIPC-FTNLSRLDIVKCHSMKDLTWILFAPNLVVLFIEDSREVGEIINKEKATNLT 798

Query: 274 DIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSST-KL 332
            I      F KLE L L +   L+SIY   LP P L  I V +CPKL+ LPLN++S  K+
Sbjct: 799 SITP----FLKLERLILCYLPKLESIYWSPLPFPLLLNIDVEECPKLRKLPLNATSAPKV 854

Query: 333 RNIVISGGKDWWEELQWEDQATQNAF 358
               I     +  EL+WED+ T+N F
Sbjct: 855 EEFRILM---YPPELEWEDEDTKNRF 877

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  116 bits (291), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 111/323 (34%), Positives = 157/323 (48%), Gaps = 31/323 (9%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
             ELP  IS LVSLQ+LD+S+T I  LP  L  L  L +LNL  T        E +CS S
Sbjct: 574 FNELPEQISGLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNLCFT--------ERLCSIS 625

Query: 106 KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK 165
            +  L          + + S +  DA  ++KEL   +L NL    +  S  + +  +  +
Sbjct: 626 GISRLLS----LRWLSLRESNVHGDAS-VLKELQ--QLENLQDLRITESAELISLDQ--R 676

Query: 166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTG--------EVQK 217
           L ++   L I        ++S LA ME+L  L+++NS   E+   C           +  
Sbjct: 677 LAKLISVLRIEGFLQKPFDLSFLASMENLYGLLVENSYFSEINIKCRESETESSYLHINP 736

Query: 218 VLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMG 277
            + C F +L    I  C  +KDLTW+ FAPNL  + I    ++ EII+ EK   L+ I+ 
Sbjct: 737 KIPC-FTNLTGLIIMKCHSMKDLTWILFAPNLVNLDIRDSREVGEIINKEKAINLTSIIT 795

Query: 278 ELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRN--I 335
               F KLE L LY    L+SIY   LP P L  I V  CPKL+ LPLN++S  L     
Sbjct: 796 P---FQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVKYCPKLRKLPLNATSVPLVEEFE 852

Query: 336 VISGGKDWWEELQWEDQATQNAF 358
           +     +   EL+WED+ T+N F
Sbjct: 853 IRMDPPEQENELEWEDEDTKNRF 875

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64790|DRL17_ARATH Probable disease resistance protein At1g61300 OS=Arabidopsis thaliana GN=At1g61300 PE=2 SV=2

 Score =  115 bits (288), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 109/324 (33%), Positives = 153/324 (47%), Gaps = 37/324 (11%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
             +LP  IS LVSLQ LD+S T I+ LP  L  L  L +LNL  T  L        CS S
Sbjct: 459 FNKLPEQISGLVSLQFLDLSNTSIKQLPVGLKKLKKLTFLNLAYTVRL--------CSIS 510

Query: 106 KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK 165
            +  L             GS +  DA  ++KEL  L+ L  ++ +L +   +       +
Sbjct: 511 GISRLLS----LRLLRLLGSKVHGDAS-VLKELQKLQNLQHLAITLSAELSLNQ-----R 560

Query: 166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCG--- 222
           L  +   L I        ++S LA ME+L  L + NS   E+K   +      L+     
Sbjct: 561 LANLISILGIEGFLQKPFDLSFLASMENLSSLWVKNSYFSEIKCRESETASSYLRINPKI 620

Query: 223 --FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELN 280
             F +L    ++ C  +KDLTW+ FAPNL  + I    ++ EII+ EK   L+ I     
Sbjct: 621 PCFTNLSRLGLSKCHSIKDLTWILFAPNLVYLYIEDSREVGEIINKEKATNLTSITP--- 677

Query: 281 FFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSST------KLRN 334
            F KLE L LY+   L+SIY   L  P+L  I V  CPKL+ LPLN++S       ++R 
Sbjct: 678 -FLKLERLILYNLPKLESIYWSPLHFPRLLIIHVLDCPKLRKLPLNATSVPLVEEFQIRM 736

Query: 335 IVISGGKDWWEELQWEDQATQNAF 358
                G     EL+WED+ T+N F
Sbjct: 737 YPPGLGN----ELEWEDEDTKNRF 756

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  112 bits (281), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 106/330 (32%), Positives = 170/330 (51%), Gaps = 33/330 (10%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           +SL +LP+ IS LVSL++LD+S+T I+ LP  L  L  LRYL L+    L         +
Sbjct: 574 SSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLDYMKRLKSISGIS--N 631

Query: 104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
            S L  L++L+S           +S D   + +  L L+ L +++ S+ SS  V   L  
Sbjct: 632 ISSLRKLQLLQSK----------MSLDMSLVEELQL-LEHLEVLNISIKSSLVVEKLLNA 680

Query: 164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCG- 222
           P+L++  Q L +   +     V  L  M++L  ++I    + E+K +     +K L    
Sbjct: 681 PRLVKCLQILVLRGVQEESSGVLTLPDMDNLNKVIIRKCGMCEIKIE-----RKTLSLSS 735

Query: 223 --------FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSD 274
                     +L    I+ C  +KDLTWL FAPNL  + ++  + +E II+ EK   +S 
Sbjct: 736 NRSPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSELVEGIINQEKAMTMSG 795

Query: 275 IMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSS-STKLR 333
           I+     F KLE L L++   L+SIY   L  P LK I +T+CP+L+ LPL+S  + +  
Sbjct: 796 IIP----FQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSEIAIRDE 851

Query: 334 NIVIS-GGKDWWEELQWEDQATQNAFSTCF 362
            +VI    ++W E ++W+++AT+  F   F
Sbjct: 852 ELVIKYQEEEWLERVEWDNEATRLRFLPFF 881

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	366
24461866	890	NBS-LRR type disease resistance protein	0.860	0.353	0.481	1e-66
24461865	892	NBS-LRR type disease resistance protein	0.857	0.352	0.482	4e-64
224122896	820	cc-nbs-lrr resistance protein [Populus t	0.950	0.424	0.396	4e-56
24461861	890	NBS-LRR type disease resistance protein	0.833	0.342	0.462	4e-54
24461863	889	NBS-LRR type disease resistance protein	0.857	0.353	0.422	6e-53
359482672	905	PREDICTED: probable disease resistance p	0.885	0.358	0.405	7e-52
147866649	350	hypothetical protein VITISV_018478 [Viti	0.879	0.92	0.407	1e-51
147852651	882	hypothetical protein VITISV_017542 [Viti	0.795	0.329	0.393	3e-51
24461864	899	NBS-LRR type disease resistance protein	0.846	0.344	0.439	2e-50
255553103	910	Disease resistance protein RPS5, putativ	0.898	0.361	0.375	8e-49

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  259 bits (663), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 156/324 (48%), Positives = 212/324 (65%), Gaps = 9/324 (2%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           +SLT LP GIS LVSLQHLD+S + I  LP EL AL+NL+ LNLE T+ L+  P +LI +
Sbjct: 569 SSLTNLPEGISKLVSLQHLDLSKSSIEELPLELKALVNLKCLNLEYTWSLTTIPRQLISN 628

Query: 104 FSKLEVLRMLESG--ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
            S+L VLRM  +   A   A + S+L    E +++ELL LK L +ISF+L SS G+++FL
Sbjct: 629 LSRLHVLRMFAASHSAFDRASEDSILFGGGELIVEELLGLKYLEVISFTLRSSHGLQSFL 688

Query: 162 KFPKLLRITQALSISDC--EIPLLNVSHLAYMEHLKDL-VIDNSNLEELKTDCTGEVQKV 218
              KL   T+AL +  C  +   L VS LA ++ L  L + +   LEELK D T EVQ+ 
Sbjct: 689 SSHKLRSCTRALLLQ-CFNDSTSLEVSALADLKQLNRLWITECKKLEELKMDYTREVQQF 747

Query: 219 LQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGE 278
           +   F SL    I  CS++KDLT+L FAPNL+ I +M C  +EE++S+ K  ++ +++  
Sbjct: 748 V---FHSLKKVEILACSKLKDLTFLVFAPNLESIELMGCPAMEEMVSMGKFAEVPEVVAN 804

Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVIS 338
           LN FAKL+ L L+ A NLKSIY   LP P LK +  + C KLK LPL+S+S + RNIVIS
Sbjct: 805 LNPFAKLQNLKLFGATNLKSIYWKPLPFPHLKSMSFSHCYKLKKLPLDSNSARERNIVIS 864

Query: 339 GGKDWWEELQWEDQATQNAFSTCF 362
           G + WWE+L+W D+AT+NAF  CF
Sbjct: 865 GTRRWWEQLEWVDEATRNAFLPCF 888

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  251 bits (641), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 155/321 (48%), Positives = 206/321 (64%), Gaps = 7/321 (2%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
           LT+LP GIS LVSLQHLD+S +DI   P EL AL+NL+ L+LE T +L   P +LI + S
Sbjct: 572 LTKLPVGISELVSLQHLDLSESDIEEFPGELKALVNLKCLDLEYTRNLITIPRQLISNLS 631

Query: 106 KLEVLRMLESGADS--TAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
           +L VLRM  +  ++   A + S+L    E +++ELL LK L +I+ +L SS G+++FL  
Sbjct: 632 RLRVLRMFGASHNAFDEASENSILFGGGELIVEELLGLKHLEVITLTLRSSYGLQSFLNS 691

Query: 164 PKLLRITQALSISDCEIPL-LNVSHLAYMEHLKDLVIDNSN-LEELKTDCTGEVQKVLQC 221
            KL   TQAL +   +    L VS LA ++ L  L I NS  LEELK D   EVQ   Q 
Sbjct: 692 HKLRSCTQALLLQHFKDSTSLEVSALADLKQLNRLQIANSVILEELKMDYAEEVQ---QF 748

Query: 222 GFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNF 281
            FRSL++  I  C ++KDLT+L FAPNLK I +  C  +EEI S  K  ++ ++M  LN 
Sbjct: 749 AFRSLNMVEICNCIQLKDLTFLVFAPNLKSIKVGICHAMEEIASEGKFAEVPEVMANLNP 808

Query: 282 FAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGK 341
           F KL+ L++  A NLKSIY  +LP P LK +    C KLK LPL+S+S K R IVISG +
Sbjct: 809 FEKLQNLEVAGARNLKSIYWKSLPFPHLKAMSFLHCKKLKKLPLDSNSAKERKIVISGER 868

Query: 342 DWWEELQWEDQATQNAFSTCF 362
           +W E+LQWED+AT+NAF  CF
Sbjct: 869 NWREQLQWEDEATRNAFLRCF 889

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122896|ref|XP_002318943.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222857319|gb|EEE94866.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  224 bits (572), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 143/361 (39%), Positives = 200/361 (55%), Gaps = 13/361 (3%)

Query: 4   RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLD 63
           R +++ ++    +N K+   ++F    S   LD   +R    +TE PSGI  LVSLQ+L+
Sbjct: 466 RCNDLVTLFLKKNNLKMISDTFFQFMLSLKVLDLSENR---EITEFPSGILKLVSLQYLN 522

Query: 64  VSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQ 123
           +S T IR LP +L  L+ L+ LNLE TY L   P ++I +FS L VLRM    +  +   
Sbjct: 523 LSRTGIRQLPVQLKNLVKLKCLNLEHTYELRTIPMQVISNFSSLTVLRMFHCASSDSVVG 582

Query: 124 GSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPL- 182
             V +     L ++L CL+ LNL++ ++ S   ++ F  F K L  TQALS+        
Sbjct: 583 DGVQTGGPGSLARDLQCLEHLNLLTITIRSQYSLQTFASFNKFLTATQALSLQKFHHARS 642

Query: 183 LNVSHLAYMEHLKDL-VIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT 241
           L++S L  M  L DL +ID SNL++L  + +   +   +  F SL   SI  C++++DL 
Sbjct: 643 LDISLLEGMNSLDDLELIDCSNLKDLSINNSSITR---ETSFNSLRRVSIVNCTKLEDLA 699

Query: 242 WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQ 301
           WL  APN+K + I  C  +EEII  EK  Q +     L  F +LE L L     LK IY 
Sbjct: 700 WLTLAPNIKFLTISRCSKMEEIIRQEKSGQRN-----LKVFEELEFLRLVSLPKLKVIYP 754

Query: 302 GALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTC 361
            ALP P LKEI V  CP L+ LPLNS+S K   IVI G +DWW  L+WED+A Q+ F   
Sbjct: 755 DALPFPSLKEIFVDDCPNLRKLPLNSNSAKEHRIVIQGWEDWWRRLEWEDEAAQHTFLHS 814

Query: 362 F 362
           F
Sbjct: 815 F 815

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  218 bits (555), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 147/318 (46%), Positives = 196/318 (61%), Gaps = 13/318 (4%)

Query: 49  LPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLE 108
           LP GIS LVSL++LD+S + I  +P EL AL+NL+ LNLE T  L + P +LI +FS+L 
Sbjct: 578 LPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKCLNLEYTGRLLKIPLQLISNFSRLH 637

Query: 109 VLRMLESGADSTAEQ--GSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL 166
           VLRM  +   S       SVL    E L++ELL LK L ++S +L SSR +++FL    L
Sbjct: 638 VLRMFGNAYFSYGNYPIESVLFGGGELLVEELLGLKHLEVLSLTLGSSRALQSFLTSHML 697

Query: 167 LRITQALSISDCEIPL-LNVSHLAYMEHLKDLVI-DNSNLEELKTDCTGEVQKVLQCGFR 224
              T+A+ + D +    ++VS LA ++ LK L I D   L ELK D  GEVQ+    GF 
Sbjct: 698 RSCTRAMLLQDFQGSTSVDVSGLADLKRLKRLRISDCYELVELKIDYAGEVQRY---GFH 754

Query: 225 SLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAK 284
           SL    + +CS++KDLT L   PNLK I +  C+ +EEIISV       +  G  N FAK
Sbjct: 755 SLQSFEVNYCSKLKDLTLLVLIPNLKSIEVTDCEAMEEIISV------GEFAGNPNAFAK 808

Query: 285 LELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWW 344
           L+ L + +  NLKSIY   LP P L+E+ V+ C +LK LPL+S+S K   IVI G  +WW
Sbjct: 809 LQYLGIGNLPNLKSIYWKPLPFPCLEELTVSDCYELKKLPLDSNSAKEHKIVIRGAANWW 868

Query: 345 EELQWEDQATQNAFSTCF 362
             LQWED+ATQNAF +CF
Sbjct: 869 RNLQWEDEATQNAFLSCF 886

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  214 bits (545), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 136/322 (42%), Positives = 195/322 (60%), Gaps = 8/322 (2%)

Query: 48  ELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKL 107
           +LP G+S L SL+ LD+S T I  LP EL  L+NL+ LNL     LS+ P +LI + S+L
Sbjct: 569 KLPLGMSMLGSLELLDISQTSIGELPEELKLLVNLKCLNLRWATWLSKIPRQLISNSSRL 628

Query: 108 EVLRMLESG-ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL 166
            VLRM  +G + S A + SVL    E L++ELL LK L ++  +L SS  ++ F    KL
Sbjct: 629 HVLRMFATGCSHSEASEDSVLFGGGEVLIQELLGLKYLEVLELTLRSSHALQLFFSSNKL 688

Query: 167 LRITQALSISDCE--IPLLNVSHLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQ-CG 222
               ++L + +      +++ +  A + HL +L ID+ + +EELK D T  V+K  +   
Sbjct: 689 KSCIRSLLLDEVRGTKSIIDATAFADLNHLNELRIDSVAEVEELKIDYTEIVRKRREPFV 748

Query: 223 FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFF 282
           F SLH  ++  C ++KDLT+L FAPNLK + +++C  +EEIISV K  ++ ++MG ++ F
Sbjct: 749 FGSLHRVTLGQCLKLKDLTFLVFAPNLKSLQLLNCRAMEEIISVGKFAEVPEVMGHISPF 808

Query: 283 AKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKD 342
             L+ L L+    LKSIY   LP   LKE+RV  C +LK LPL+S+S K    VI G  +
Sbjct: 809 ENLQRLHLFDLPRLKSIYWKPLPFTHLKEMRVHGCNQLKKLPLDSNSAKF---VIRGEAE 865

Query: 343 WWEELQWEDQATQNAFSTCFVP 364
            W  LQWED ATQ AF +CF P
Sbjct: 866 GWNRLQWEDDATQIAFRSCFQP 887

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482672|ref|XP_003632805.1| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  210 bits (535), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 137/338 (40%), Positives = 195/338 (57%), Gaps = 14/338 (4%)

Query: 43  KNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           KNS+TELP GIS+LVSLQ+L++S T+I+ LP EL  L  L+ L L     LS  P +LI 
Sbjct: 567 KNSITELPRGISNLVSLQYLNLSQTNIKELPIELKNLDKLKCLVLVDMPQLSSIPEQLIS 626

Query: 103 SFSKLEVLRMLESG-ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
           S S L+V+ M  SG ++ T  +  +LS+D E L++EL  LK L+ +  S+ S+   +  L
Sbjct: 627 SLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGLGVSVKSASAFKRLL 686

Query: 162 KFPKLLRITQALSISDCE-IPLLNVSHLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVL 219
              KL      L + +      LN++ L+  + L  L I    +LE+L+ D  GE ++ +
Sbjct: 687 SSYKLRICISGLCLKNFNGSSSLNLTSLSNAKCLSSLYISKCGSLEDLEIDWAGEGKETV 746

Query: 220 QCG-----------FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK 268
           +             F SL    I  CSR+KDLTWL F PNLK++ I+ CD ++E+I   K
Sbjct: 747 ESNYLNSKVSSHNSFHSLVWLGIERCSRLKDLTWLVFVPNLKVLTIIDCDQMQEVIGTGK 806

Query: 269 LNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSS 328
             + ++    L+ F KL++L+L     LKSI+  ALP   L  I V  CP LK LPL+++
Sbjct: 807 CGESAENGENLSPFVKLQVLELDDLPQLKSIFWKALPFIYLNTIHVRNCPLLKKLPLSAN 866

Query: 329 STKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVPSR 366
           S K   IVI+G   WW E++WED+ATQN F  CFVP R
Sbjct: 867 SAKGNRIVIAGHNKWWNEVEWEDEATQNVFLPCFVPVR 904

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147866649|emb|CAN81572.1| hypothetical protein VITISV_018478 [Vitis vinifera]

 Score =  210 bits (534), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 137/336 (40%), Positives = 196/336 (58%), Gaps = 14/336 (4%)

Query: 43  KNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           +N++TELP GIS+LVSLQ+L +S T+I+ LP EL  L  L+ L L     LS  P +LI 
Sbjct: 12  RNTMTELPQGISNLVSLQYLSLSKTNIKELPIELKNLGKLKCLVLVDMPQLSSIPEQLIS 71

Query: 103 SFSKLEVLRMLESG-ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
           S S L+V+ M  SG ++ T  +  +LS+D E L++EL  LK L+ +  S+ S+   +  L
Sbjct: 72  SLSMLQVIDMFNSGISERTVLKDGILSDDNEALVQELESLKYLHGLGVSVTSASAFKRLL 131

Query: 162 KFPKLLRITQALSISDCE-IPLLNVSHLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVL 219
              K+      L + +      LN++ L+ ++ L  L I N  +LE+L+ D   E ++  
Sbjct: 132 SSDKIRSCISRLCLKNFNGSSSLNLTSLSNVKCLLSLYIPNCGSLEDLEIDWAWEGKETT 191

Query: 220 QCG-----------FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK 268
           +             F SL    +  CSR+KDLTWL FAPNLK+++I  CD ++EII   K
Sbjct: 192 ESNSLNSKVSSHNSFHSLSWLGVERCSRLKDLTWLVFAPNLKVLLITSCDQMQEIIGTGK 251

Query: 269 LNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSS 328
             + ++    L+ FAKL++L L     LKSI+  ALP   L  I V  CP LK LPL+++
Sbjct: 252 CGESAENGENLSPFAKLQVLHLDDLPQLKSIFWKALPFIYLNTIYVDSCPLLKKLPLDAN 311

Query: 329 STKLRNIVISGGKDWWEELQWEDQATQNAFSTCFVP 364
           S K   IVISG  +WW E++WED+ATQNAF  CFVP
Sbjct: 312 SAKGHRIVISGQTEWWNEVEWEDEATQNAFLPCFVP 347

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147852651|emb|CAN80649.1| hypothetical protein VITISV_017542 [Vitis vinifera]

 Score =  208 bits (529), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 131/333 (39%), Positives = 185/333 (55%), Gaps = 42/333 (12%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           NS+TELP  IS+LVSL++LD+S+T+I+ LP EL  L NL+ L L     LS  P +LI S
Sbjct: 568 NSITELPREISNLVSLRYLDLSFTEIKELPIELKNLGNLKCLLLSFMPQLSSVPEQLISS 627

Query: 104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
              L+V+ M + G          + +  E L++EL  LK L+ +S ++ S+   +  L  
Sbjct: 628 LLMLQVIDMFDCG----------ICDGDEALVEELESLKYLHDLSVTITSTSAFKRLLSS 677

Query: 164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQCG 222
            KL                           L++L I N  +LE+L+ D  GE +K ++  
Sbjct: 678 DKL--------------------RSCISRRLRNLFISNCGSLEDLEIDWVGEGKKTVESN 717

Query: 223 -----------FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQ 271
                      F SL   ++  CSR+KDLTW+AFAPNLK++ I+ CD ++E+I   K ++
Sbjct: 718 YLNSKVSSHNSFHSLEALTVVSCSRLKDLTWVAFAPNLKVLTIIDCDQMQEVIGTRKSDE 777

Query: 272 LSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTK 331
            ++    L  FAKL++L L     LKSI+  ALPL  L  I V  CP LK LPLN++S K
Sbjct: 778 SAENGENLGPFAKLQVLHLVGLPQLKSIFWKALPLIYLNRIHVRNCPLLKKLPLNANSAK 837

Query: 332 LRNIVISGGKDWWEELQWEDQATQNAFSTCFVP 364
              IVISG  +WW E++WED+AT NAF  CFVP
Sbjct: 838 GHRIVISGQTEWWNEVEWEDEATHNAFLPCFVP 870

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  206 bits (524), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 141/321 (43%), Positives = 187/321 (58%), Gaps = 11/321 (3%)

Query: 46  LTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS 105
           ++  P G+S LVSLQHLD+S T I+ LP EL AL NL+ LNL++T++L   P +LI  FS
Sbjct: 582 MSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENLKSLNLDQTHYLITIPRQLISRFS 641

Query: 106 KLEVLRMLESG--ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF 163
            L VLRM   G  + +     S L    + L++ L  LK L ++S +L +S+ ++  L  
Sbjct: 642 CLVVLRMFGVGDWSPNGKRNDSDLFSGGDLLVEALRGLKHLEVLSLTLNNSQDLQCVLNS 701

Query: 164 PKLLRITQALSI-SDCEIPLLNVSHLAYMEHLKDLVI-DNSNLEELKTDCTGEVQKVLQC 221
            KL   TQAL + S      L+VS LA +EHL  L I +   LEELK      V      
Sbjct: 702 EKLRSCTQALYLHSFKRSEPLDVSALAGLEHLNRLWIHECEELEELKMARQPFV------ 755

Query: 222 GFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNF 281
            F+SL    I  C R+K+LT+L FAPNLK I +  C  +EEIIS  K     ++M  +  
Sbjct: 756 -FQSLEKIQIYGCHRLKNLTFLLFAPNLKSIEVSSCFAMEEIISEVKFADFPEVMPIIKP 814

Query: 282 FAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGK 341
           FA+L  L L     LKSIY+  LP P L+++ V  C +L+ LPL+S+S K R IVI G  
Sbjct: 815 FAQLYSLRLGGLTVLKSIYKRPLPFPCLRDLTVNSCDELRKLPLDSNSAKERKIVIRGYT 874

Query: 342 DWWEELQWEDQATQNAFSTCF 362
            WWE+LQWEDQ TQNAF  CF
Sbjct: 875 KWWEQLQWEDQDTQNAFRPCF 895

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553103|ref|XP_002517594.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223543226|gb|EEF44758.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  200 bits (509), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 130/346 (37%), Positives = 193/346 (55%), Gaps = 17/346 (4%)

Query: 25  WFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY 84
           +F S  + T LD      K  + ELPSGIS +VSLQ+L++SYT I  LP  L  L  L+Y
Sbjct: 556 FFRSMKALTVLDLS----KTGIQELPSGISDMVSLQYLNISYTVINQLPAGLMRLEKLKY 611

Query: 85  LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLL 144
           LNLE   +L   P +L+ S S+L+ LRML  G     +    L  D    +KEL CL+ L
Sbjct: 612 LNLEHNENLYMIPKQLVRSLSRLQALRMLGCGPVHYPQAKDNLLSDG-VCVKELQCLENL 670

Query: 145 NLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPL-LNVSHLAYMEHL---KDLVID 200
           N +S ++  +  +++F    KL    +A+S+ +    + LN+S LA M+HL    + +  
Sbjct: 671 NRLSITVRCASALQSFFSTHKLRSCVEAISLENFSSSVSLNISWLANMQHLLTCPNSLNI 730

Query: 201 NSNLEELKTDCTGEVQKVL----QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMH 256
           NSN+   +    G +        +C F +L    +  C +++DLTWL   PNL ++ +  
Sbjct: 731 NSNMARTERQAVGNLHNSTILRTRC-FNNLQEVRVRKCFQLRDLTWLILVPNLTVLEVTM 789

Query: 257 CDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQ 316
           C +LEEIISVE+L  +  I   LN FA+L++L+L+    +K IY   LP P LK+I V  
Sbjct: 790 CRNLEEIISVEQLGFVGKI---LNPFARLQVLELHDLPQMKRIYPSILPFPFLKKIEVFN 846

Query: 317 CPKLKTLPLNSSSTKLRNIVISGGKDWWEELQWEDQATQNAFSTCF 362
           CP LK +PL S+S K R +VI     WW  ++WE++ T+ AFS  +
Sbjct: 847 CPMLKKVPLGSNSAKGRKVVIEADDHWWNGVEWENRETKAAFSRFY 892

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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	366
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.904	0.374	0.337	1.3e-28
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.816	0.336	0.314	1.6e-27
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.535	0.202	0.357	5e-26
TAIR|locus:2031356	884	AT1G63360 [Arabidopsis thalian	0.524	0.217	0.339	7.9e-26
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.480	0.195	0.373	9.9e-26
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.469	0.193	0.377	1e-25
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.822	0.344	0.301	1.3e-25
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.562	0.230	0.328	1.4e-25
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.540	0.223	0.338	2.1e-25
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.464	0.223	0.371	3.3e-25

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

 Score = 329 (120.9 bits), Expect = 1.3e-28, P = 1.3e-28
 Identities = 121/359 (33%), Positives = 168/359 (46%)

Query:    12 LELSSNNKVFEPS--WFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDI 69
             L L +N K+ + S  +F    S   LD   +   +SL+ELP  IS LVSLQ+LD+S T I
Sbjct:   543 LFLQNNYKLVDISMEFFRCMPSLAVLDLSEN---HSLSELPEEISELVSLQYLDLSGTYI 599

Query:    70 RGLPHXXXXXXXXXXXXXXXXXHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSE 129
               LPH                  L       I   S L  LR+ +S   +T + G  L +
Sbjct:   600 ERLPHGLHELRKLVHLKLERTRRLESISG--ISYLSSLRTLRLRDS--KTTLDTG--LMK 653

Query:   130 DAEPXXXXXXXXXXXXXXXXXXYSSRGVRNFLKFPKLLRITQALSISD-CEIPLLNVSHL 188
             + +                    SS  V     +P++ R  Q + I D  E P  +V  L
Sbjct:   654 ELQ--------LLEHLELITTDISSGLVGELFCYPRVGRCIQHIYIRDHWERPEESVGVL 705

Query:   189 AY--MEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFA 246
                 + +L  + I N  + E+  + T   + +    F +L    I  C  +KDLTWL FA
Sbjct:   706 VLPAIHNLCYISIWNCWMWEIMIEKTPWKKNLTNPNFSNLSNVRIEGCDGLKDLTWLLFA 765

Query:   247 PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPL 306
             PNL  + +  C  LE+IIS EK    S +  E+  F KLE L+LY    LKSIY  ALP 
Sbjct:   766 PNLINLRVWGCKHLEDIISKEKA--ASVLEKEILPFQKLECLNLYQLSELKSIYWNALPF 823

Query:   307 PQLKEIRV-TQCPKLKTLPLNSSST-KLRNIVIS-GGKDWWEELQWEDQATQNAF-STC 361
              +L+ + +   CPKL+ LPL+S S  K+   VI    K W E ++WED+ATQ  F  TC
Sbjct:   824 QRLRCLDILNNCPKLRKLPLDSKSVVKVEEFVIKYKEKKWIERVEWEDEATQYRFLPTC 882

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:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 319 (117.4 bits), Expect = 1.6e-27, P = 1.6e-27
 Identities = 101/321 (31%), Positives = 153/321 (47%)

Query:    42 IKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHXXXXXXXXXXXXXXXXXHLSRFPPELI 101
             +   L  LP+ IS  VSLQ+L +S T IR  P                    +R   E I
Sbjct:   566 MNRDLRHLPNEISECVSLQYLSLSRTRIRIWP----AGLVELRKLLYLNLEYTRMV-ESI 620

Query:   102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPXXXXXXXXXXXXXXXXXXYSSRGVRNFL 161
             C  S L  L++L        E   VL+E                       +S  +  FL
Sbjct:   621 CGISGLTSLKVLRLFVSGFPEDPCVLNE-------LQLLENLQTLTITLGLASI-LEQFL 672

Query:   162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV--- 218
                +L   T+AL I +       +S +A M+ L++L   +S++ E+K      V  +   
Sbjct:   673 SNQRLASCTRALRIENLNPQSSVISFVATMDSLQELHFADSDIWEIKVKRNETVLPLHIP 732

Query:   219 -LQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMG 277
                  F +L   S+ FC+R++DLTWL FAPNL ++ ++   DL+E+I+ EK  Q + I  
Sbjct:   733 TTTTFFPNLSQVSLEFCTRLRDLTWLIFAPNLTVLRVISASDLKEVINKEKAEQQNLIP- 791

Query:   278 ELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVI 337
                 F +L+ L L + + LK I++G LP P L++I V  C +L+ LPLN +S    ++VI
Sbjct:   792 ----FQELKELRLENVQMLKHIHRGPLPFPCLQKILVNGCSELRKLPLNFTSVPRGDLVI 847

Query:   338 SGGKDWWEELQWEDQATQNAF 358
                K W E L+WED+AT+  F
Sbjct:   848 EAHKKWIEILEWEDEATKARF 868

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 255 (94.8 bits), Expect = 5.0e-26, Sum P(2) = 5.0e-26
 Identities = 75/210 (35%), Positives = 103/210 (49%)

Query:   165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGE--------VQ 216
             +L ++   L I        ++S LA ME+L  L+++NS   E+   C           + 
Sbjct:   676 RLAKLISVLRIEGFLQKPFDLSFLASMENLYGLLVENSYFSEINIKCRESETESSYLHIN 735

Query:   217 KVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIM 276
               + C F +L    I  C  +KDLTW+ FAPNL  + I    ++ EII+ EK   L+ I+
Sbjct:   736 PKIPC-FTNLTGLIIMKCHSMKDLTWILFAPNLVNLDIRDSREVGEIINKEKAINLTSII 794

Query:   277 GELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKL-RNI 335
                  F KLE L LY    L+SIY   LP P L  I V  CPKL+ LPLN++S  L    
Sbjct:   795 TP---FQKLERLFLYGLPKLESIYWSPLPFPLLSNIVVKYCPKLRKLPLNATSVPLVEEF 851

Query:   336 VISGGKDWWE-ELQWEDQATQNAFSTCFVP 364
              I       E EL+WED+ T+N F     P
Sbjct:   852 EIRMDPPEQENELEWEDEDTKNRFLPSIKP 881

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031356 AT1G63360 [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 7.9e-26, Sum P(2) = 7.9e-26
 Identities = 70/206 (33%), Positives = 107/206 (51%)

Query:   158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKT-DCT-GEV 215
             + FL   +LL  ++ L I    +  LN        HL+ L +    L E +   C+  E+
Sbjct:   678 KQFLSSHRLLSHSRLLEIYGSSVSSLN-------RHLESLSVSTDKLREFQIKSCSISEI 730

Query:   216 QKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDI 275
             +    C F SL   +I  C  +++LT+L FAP ++ + + H  DLE+II+ EK  +  + 
Sbjct:   731 KMGGICNFLSLVDVNIFNCEGLRELTFLIFAPKIRSLSVWHAKDLEDIINEEKACE-GEE 789

Query:   276 MGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKL-RN 334
              G L F  +L  L L+    LK IY   LP   L+EI + +CP L+ LPL+S+S K   N
Sbjct:   790 SGILPF-PELNFLTLHDLPKLKKIYWRPLPFLCLEEINIRECPNLRKLPLDSTSGKQGEN 848

Query:   335 IVISGGKD--WWEELQWEDQATQNAF 358
               I   KD  W+E ++W D+AT+  F
Sbjct:   849 GCIIRNKDSRWFEGVKWADEATKKRF 874

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 267 (99.0 bits), Expect = 9.9e-26, Sum P(2) = 9.9e-26
 Identities = 71/190 (37%), Positives = 103/190 (54%)

Query:   184 NVSHLAYMEHLKDLVIDNSNLEELK-----TDCTG-EVQKVLQCGFRSLHLASIAFCSRV 237
             ++S LA ME+L  L ++NS   E+K     T+ +   +   + C F +L    I  C  +
Sbjct:   691 DLSFLASMENLSSLRVENSYFSEIKCRESETESSYLRINPKIPC-FTNLSRLEIMKCHSM 749

Query:   238 KDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLK 297
             KDLTW+ FAPNL +++I    ++ EII+ EK   L+ I      F KLE L LY+   L+
Sbjct:   750 KDLTWILFAPNLVVLLIEDSREVGEIINKEKATNLTSITP----FLKLEWLILYNLPKLE 805

Query:   298 SIYQGALPLPQLKEIRVTQCPKLKTLPLNSSS-TKLRNIVIS--GGKDWWEELQWEDQAT 354
             SIY   LP P L  + V+ CPKL+ LPLN++S +K+    I      +   EL+WED  T
Sbjct:   806 SIYWSPLPFPVLLTMDVSNCPKLRKLPLNATSVSKVEEFEIHMYPPPEQENELEWEDDDT 865

Query:   355 QNAFSTCFVP 364
             +N F     P
Sbjct:   866 KNRFLPSIKP 875

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 1.0e-25, Sum P(2) = 1.0e-25
 Identities = 69/183 (37%), Positives = 94/183 (51%)

Query:   183 LNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQK-----VLQCGFRSLHLASIAFCSRV 237
             + V  L  M +L+ L I    + E+K + T             C F +L    IA C  +
Sbjct:   700 VRVLTLPTMGNLRKLGIKRCGMREIKIERTTSSSSRNKSPTTPC-FSNLSRVFIAKCHGL 758

Query:   238 KDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLK 297
             KDLTWL FAPNL  + +    ++E+IIS EK  + S  +     F KLE L L+    LK
Sbjct:   759 KDLTWLLFAPNLTFLEVGFSKEVEDIISEEKAEEHSATIVP---FRKLETLHLFELRGLK 815

Query:   298 SIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRN--IVISGGKDWWEELQWEDQATQ 355
              IY  AL  P LK I V +C KL+ LPL+S S       ++  G ++W E ++WEDQATQ
Sbjct:   816 RIYAKALHFPCLKVIHVEKCEKLRKLPLDSKSGIAGEELVIYYGEREWIERVEWEDQATQ 875

Query:   356 NAF 358
               F
Sbjct:   876 LRF 878

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 301 (111.0 bits), Expect = 1.3e-25, P = 1.3e-25
 Identities = 97/322 (30%), Positives = 149/322 (46%)

Query:    45 SLTELPSGISSLVSLQHLDVSYTDIRGLPHXXXXXXXXXXXXXXXXXHLSRFPPELICSF 104
             +L ELPS  S L SL+ L++S T I  LP                   L R     I   
Sbjct:   563 NLIELPS-FSPLYSLRFLNLSCTGITSLPDGLYALRNLLYLNLEHTYMLKRIYE--IHDL 619

Query:   105 SKLEVLRMLESGADSTAEQGSVLSEDAEPXXXXXXXXXXXXXXXXXXYSSRGVRNFLKFP 164
               LEVL++  SG D T +   V    A                        G   F  + 
Sbjct:   620 PNLEVLKLYASGIDITDKL--VRQIQAMKHLYLLTITLRNSSGLEIFL---GDTRFSSYT 674

Query:   165 KLLRITQALSISDCEIPLLNVSHLAYME----HLKDLVIDNSNLEELKTDCTG-EVQKVL 219
             + L + +       ++PL  +S   ++E    H+  + I+ S+  E  ++  G  V++ +
Sbjct:   675 EGLTLDEQSYYQSLKVPLATISSSRFLEIQDSHIPKIEIEGSSSNE--SEIVGPRVRRDI 732

Query:   220 QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIIS---VEKLNQLSDIM 276
                F +L    +  C+ +KDLTWL FAP+L  + ++   D+E IIS     +L +  ++ 
Sbjct:   733 S--FINLRKVRLDNCTGLKDLTWLVFAPHLATLYVVCLPDIEHIISRSEESRLQKTCELA 790

Query:   277 GELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIV 336
             G + F  +LE L L +   LKSIY+  L   +LKEI +  CPKL  LPL+S S   +N+V
Sbjct:   791 GVIPF-RELEFLTLRNLGQLKSIYRDPLLFGKLKEINIKSCPKLTKLPLDSRSAWKQNVV 849

Query:   337 ISGGKDWWEELQWEDQATQNAF 358
             I+  ++W + LQWED AT+  F
Sbjct:   850 INAEEEWLQGLQWEDVATKERF 871

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

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

 Score = 248 (92.4 bits), Expect = 1.4e-25, Sum P(2) = 1.4e-25
 Identities = 71/216 (32%), Positives = 114/216 (52%)

Query:   153 SSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDC- 211
             SS  V   L  P+L++  Q L +   +     V  L  M++L  ++I    + E+K +  
Sbjct:   670 SSLVVEKLLNAPRLVKCLQILVLRGVQEESSGVLTLPDMDNLNKVIIRKCGMCEIKIERK 729

Query:   212 TGEVQKVLQCGFRSLHLAS---IAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK 268
             T  +        + LH  S   I+ C  +KDLTWL FAPNL  + ++  + +E II+ EK
Sbjct:   730 TLSLSSNRSPKTQFLHNLSTVHISSCDGLKDLTWLLFAPNLTSLEVLDSELVEGIINQEK 789

Query:   269 LNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSS 328
                +S I+     F KLE L L++   L+SIY   L  P LK I +T+CP+L+ LPL+S 
Sbjct:   790 AMTMSGIIP----FQKLESLRLHNLAMLRSIYWQPLSFPCLKTIHITKCPELRKLPLDSE 845

Query:   329 -STKLRNIVIS-GGKDWWEELQWEDQATQNAFSTCF 362
              + +   +VI    ++W E ++W+++AT+  F   F
Sbjct:   846 IAIRDEELVIKYQEEEWLERVEWDNEATRLRFLPFF 881

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 252 (93.8 bits), Expect = 2.1e-25, Sum P(2) = 2.1e-25
 Identities = 71/210 (33%), Positives = 110/210 (52%)

Query:   153 SSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCT 212
             SS  +   L   +L+R  Q +S+   +   + +  L  +  L+++ I    + ++  +  
Sbjct:   672 SSSALEQLLCSHRLVRCLQKVSVKYLDEESVRILTLPSIGDLREVFIGGCGMRDIIIERN 731

Query:   213 GEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQL 272
               +     C F +L    I  C+ +KDLTWL FAPNL  + + +   +EEIIS EK +  
Sbjct:   732 TSLTS--PC-FPNLSKVLITGCNGLKDLTWLLFAPNLTHLNVWNSRQIEEIISQEKAST- 787

Query:   273 SDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRV-TQCPKLKTLPLNSSSTK 331
             +DI+     F KLE L L+    LKSIY   LP P L +I V  +C KL  LPL+S S  
Sbjct:   788 ADIVP----FRKLEYLHLWDLPELKSIYWNPLPFPCLNQINVQNKCRKLTKLPLDSQSCI 843

Query:   332 L--RNIVIS-GGKDWWEELQWEDQATQNAF 358
             +    +VI  G ++W E ++WED+AT+  F
Sbjct:   844 VAGEELVIQYGDEEWKERVEWEDKATRLRF 873

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:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 251 (93.4 bits), Expect = 3.3e-25, Sum P(2) = 3.3e-25
 Identities = 68/183 (37%), Positives = 97/183 (53%)

Query:   184 NVSHLAYMEHLKDLVIDNSNLEELK---TDCTGEVQKV---LQCGFRSLHLASIAFCSRV 237
             ++S LA ME+L  L + NS   E+K   ++      ++   + C F +L    ++ C  +
Sbjct:   579 DLSFLASMENLSSLWVKNSYFSEIKCRESETASSYLRINPKIPC-FTNLSRLGLSKCHSI 637

Query:   238 KDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLK 297
             KDLTW+ FAPNL  + I    ++ EII+ EK   L+ I      F KLE L LY+   L+
Sbjct:   638 KDLTWILFAPNLVYLYIEDSREVGEIINKEKATNLTSITP----FLKLERLILYNLPKLE 693

Query:   298 SIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKL-RNIVISG-GKDWWEELQWEDQATQ 355
             SIY   L  P+L  I V  CPKL+ LPLN++S  L     I         EL+WED+ T+
Sbjct:   694 SIYWSPLHFPRLLIIHVLDCPKLRKLPLNATSVPLVEEFQIRMYPPGLGNELEWEDEDTK 753

Query:   356 NAF 358
             N F
Sbjct:   754 NRF 756

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	366
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.86
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.85
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.82
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.81
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.78
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.78
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.62
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.58
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.56
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.54
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.52
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.49
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.49
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.47
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.45
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.43
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.42
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.4
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.37
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.35
KOG4341	483	consensus F-box protein containing LRR [General fu	99.34
KOG4341	483	consensus F-box protein containing LRR [General fu	99.23
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.16
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.15
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.13
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.03
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.95
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.9
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.88
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.86
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.79
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.79
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.78
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.78
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.78
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.74
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.69
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.57
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.5
PLN03150	623	hypothetical protein; Provisional	98.44
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.4
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.36
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.2
PLN03150	623	hypothetical protein; Provisional	98.18
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.18
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.14
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.08
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.05
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.01
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.99
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.97
PRK15386	426	type III secretion protein GogB; Provisional	97.91
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.88
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.84
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.8
PRK15386	426	type III secretion protein GogB; Provisional	97.73
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.7
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.55
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.41
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.39
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.34
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.29
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.11
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.09
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.42
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	96.22
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.18
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.86
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.23
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.67
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.49
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.42
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	92.87
smart00370	26	LRR Leucine-rich repeats, outliers.	92.87
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	92.38
KOG0473	326	consensus Leucine-rich repeat protein [Function un	91.95
smart00370	26	LRR Leucine-rich repeats, outliers.	90.25
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.25
KOG0473	326	consensus Leucine-rich repeat protein [Function un	88.41

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

Probab=99.88  E-value=7.1e-22  Score=205.42  Aligned_cols=224  Identities=17%  Similarity=0.221  Sum_probs=121.4

Q ss_pred             CCCCcCEEEccCCCCC-ccchhhhhcCCcccEEECCCCCCCCCcC-ccCccccccccCCEEeccCCCCc-cCchhhhcCc
Q 040318            4 RYSNIPSILELSSNNK-VFEPSWFLSRASWTCLDNGPSRIKNSLT-ELPSGISSLVSLQHLDVSYTDIR-GLPHELTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~-~l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~   80 (366)
                      .+++|+.|++++|.+. .+|..++..+++|++|++++|    .+. .+|.  +.+++|++|++++|.+. .+|..++.++
T Consensus        91 ~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n----~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~  164 (968)
T PLN00113         91 RLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNN----NFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFS  164 (968)
T ss_pred             CCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCC----ccccccCc--cccCCCCEEECcCCcccccCChHHhcCC
Confidence            4667777777777665 466665556777777777777    333 2342  34666777777777665 5566677777


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      +|++|++++|.....+|.. +.++++|++|++.+|.+             ....+..+..+++|+.|+++++.....  +
T Consensus       165 ~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l-------------~~~~p~~l~~l~~L~~L~L~~n~l~~~--~  228 (968)
T PLN00113        165 SLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQL-------------VGQIPRELGQMKSLKWIYLGYNNLSGE--I  228 (968)
T ss_pred             CCCEEECccCcccccCChh-hhhCcCCCeeeccCCCC-------------cCcCChHHcCcCCccEEECcCCccCCc--C
Confidence            7777777773333345554 66777777777777654             122344556666666666665544321  1


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCc-c
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK-D  239 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~-~  239 (366)
                      ......+.+|++|++.++......+..+..+++|+.|++.++.+.......+        ..+++|+.|++++| .++ .
T Consensus       229 p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l--------~~l~~L~~L~Ls~n-~l~~~  299 (968)
T PLN00113        229 PYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSI--------FSLQKLISLDLSDN-SLSGE  299 (968)
T ss_pred             ChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhH--------hhccCcCEEECcCC-eeccC
Confidence            1111223456666666655411122245556666666666554432111111        23455555555555 222 2


Q ss_pred             cc-cccCCCCccEEEEEccC
Q 040318          240 LT-WLAFAPNLKIIVIMHCD  258 (366)
Q Consensus       240 l~-~l~~l~~L~~L~L~~c~  258 (366)
                      ++ .+..+++|++|++++|.
T Consensus       300 ~p~~~~~l~~L~~L~l~~n~  319 (968)
T PLN00113        300 IPELVIQLQNLEILHLFSNN  319 (968)
T ss_pred             CChhHcCCCCCcEEECCCCc
Confidence            22 23345555555555444

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

Probab=99.87  E-value=9.5e-22  Score=204.49  Aligned_cols=285  Identities=17%  Similarity=0.139  Sum_probs=138.7

Q ss_pred             CCCCcCEEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCCcC-ccCccccccccCCEEeccCCCCc-cCchhhhcCc
Q 040318            4 RYSNIPSILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLT-ELPSGISSLVSLQHLDVSYTDIR-GLPHELTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~   80 (366)
                      .+++|++|++++|++.. +|.   ..+++|++|++++|    .+. .+|..++.+++|++|++++|.+. .+|..+.+++
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~---~~l~~L~~L~Ls~n----~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~  188 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPR---GSIPNLETLDLSNN----MLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLT  188 (968)
T ss_pred             cCCCCCEEECcCCccccccCc---cccCCCCEEECcCC----cccccCChHHhcCCCCCEEECccCcccccCChhhhhCc
Confidence            45667777777666653 332   34566666666666    333 34555666666666666666554 5555666666


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc-cc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV-RN  159 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-~~  159 (366)
                      +|++|++++|.....+|.+ +.++++|++|++.+|.+.             ...+..+..+++|+.|+++++..... +.
T Consensus       189 ~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~-------------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~  254 (968)
T PLN00113        189 SLEFLTLASNQLVGQIPRE-LGQMKSLKWIYLGYNNLS-------------GEIPYEIGGLTSLNHLDLVYNNLTGPIPS  254 (968)
T ss_pred             CCCeeeccCCCCcCcCChH-HcCcCCccEEECcCCccC-------------CcCChhHhcCCCCCEEECcCceeccccCh
Confidence            6666666663333344544 566666666666665441             12233344445555555544332211 00


Q ss_pred             -c--------------------cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccc
Q 040318          160 -F--------------------LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV  218 (366)
Q Consensus       160 -~--------------------~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~  218 (366)
                       +                    ......+.+|+.|+++++......+..+..+++|+.|++.+|.+.......+      
T Consensus       255 ~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~------  328 (968)
T PLN00113        255 SLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVAL------  328 (968)
T ss_pred             hHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhH------
Confidence             0                    0001112334444444443311111133444455555554444332111111      


Q ss_pred             cccCCCCCcEEeEecCCCCc-ccc-cccCCCCccEEEEEccCCcccccccc-ccc----------cc-cccccccccccc
Q 040318          219 LQCGFRSLHLASIAFCSRVK-DLT-WLAFAPNLKIIVIMHCDDLEEIISVE-KLN----------QL-SDIMGELNFFAK  284 (366)
Q Consensus       219 p~~~~~~L~~L~l~~~~~l~-~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~-~~~----------~~-~~~~~~~~~~~~  284 (366)
                        ..+++|+.|++.+|. ++ .++ .++.+++|+.|++++|.....+...- ...          .+ ...+..+..+++
T Consensus       329 --~~l~~L~~L~L~~n~-l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~  405 (968)
T PLN00113        329 --TSLPRLQVLQLWSNK-FSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRS  405 (968)
T ss_pred             --hcCCCCCEEECcCCC-CcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCC
Confidence              346667777776663 33 233 34566667777776665332211100 000          00 011223445666


Q ss_pred             ccccccccccccccccCCCcCCCCccEEeccCCC
Q 040318          285 LELLDLYHAENLKSIYQGALPLPQLKEIRVTQCP  318 (366)
Q Consensus       285 L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~  318 (366)
                      |+.|+++++.-...++.....+++|+.|+++++.
T Consensus       406 L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~  439 (968)
T PLN00113        406 LRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNN  439 (968)
T ss_pred             CCEEECcCCEeeeECChhHhcCCCCCEEECcCCc
Confidence            7777776664443444444556777777777654

>PLN03210 Resistant to P

Probab=99.86  E-value=6.1e-21  Score=199.61  Aligned_cols=285  Identities=17%  Similarity=0.215  Sum_probs=155.4

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCC-CCccCchhhhcCccCC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYT-DIRGLPHELTALLNLR   83 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~-~i~~l~~~i~~l~~L~   83 (366)
                      ..+|+.|++.++.+..++.+ +..+++|++|+++++.   .++.+|. +..+++|+.|++++| .+..+|..++++++|+
T Consensus       610 ~~~L~~L~L~~s~l~~L~~~-~~~l~~Lk~L~Ls~~~---~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~  684 (1153)
T PLN03210        610 PENLVKLQMQGSKLEKLWDG-VHSLTGLRNIDLRGSK---NLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLE  684 (1153)
T ss_pred             ccCCcEEECcCccccccccc-cccCCCCCEEECCCCC---CcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCC
Confidence            34455555555555554444 4455555555555543   3444443 444555555555555 3445555555555555


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      .|++++|+.+..+|.. + ++++|+.|++.+|...             ...+.   ...+|+.|+++++....++...  
T Consensus       685 ~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Lsgc~~L-------------~~~p~---~~~nL~~L~L~~n~i~~lP~~~--  744 (1153)
T PLN03210        685 DLDMSRCENLEILPTG-I-NLKSLYRLNLSGCSRL-------------KSFPD---ISTNISWLDLDETAIEEFPSNL--  744 (1153)
T ss_pred             EEeCCCCCCcCccCCc-C-CCCCCCEEeCCCCCCc-------------ccccc---ccCCcCeeecCCCccccccccc--
Confidence            5555555555555543 2 4555555555555320             00010   1234555555544433333211  


Q ss_pred             ccccccccEEEEeccCCCCc-------CccchhhhcccCceEeccc-ccceeeccccCccccccccCCCCCcEEeEecCC
Q 040318          164 PKLLRITQALSISDCEIPLL-------NVSHLAYMEHLKDLVIDNS-NLEELKTDCTGEVQKVLQCGFRSLHLASIAFCS  235 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~-------~~~~l~~~~~L~~L~l~~~-~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~  235 (366)
                        .+++|+.|.+.++.....       .......+++|+.|++.++ .+..++.. +        ..+++|+.|++.+|.
T Consensus       745 --~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~s-i--------~~L~~L~~L~Ls~C~  813 (1153)
T PLN03210        745 --RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSS-I--------QNLHKLEHLEIENCI  813 (1153)
T ss_pred             --cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChh-h--------hCCCCCCEEECCCCC
Confidence              123344444443322000       0001112345666666553 22222221 1        357778888887777


Q ss_pred             CCcccccccCCCCccEEEEEccCCccccccccc--------ccccccccccccccccccccccccccccccccCCCcCCC
Q 040318          236 RVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK--------LNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLP  307 (366)
Q Consensus       236 ~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~--------~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  307 (366)
                      .++.+|....+++|+.|++++|..+........        ...++.++..+..+++|+.|++++|..++.++.....++
T Consensus       814 ~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~  893 (1153)
T PLN03210        814 NLETLPTGINLESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLK  893 (1153)
T ss_pred             CcCeeCCCCCccccCEEECCCCCccccccccccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCccccccc
Confidence            777776555677778888877766654321100        011233444677889999999999999999888888899


Q ss_pred             CccEEeccCCCCCCCCCC
Q 040318          308 QLKEIRVTQCPKLKTLPL  325 (366)
Q Consensus       308 ~L~~L~l~~c~~l~~lp~  325 (366)
                      +|+.+++++|++|+.++.
T Consensus       894 ~L~~L~l~~C~~L~~~~l  911 (1153)
T PLN03210        894 HLETVDFSDCGALTEASW  911 (1153)
T ss_pred             CCCeeecCCCcccccccC
Confidence            999999999999986643

syringae 6; Provisional

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

Probab=99.86  E-value=1.3e-22  Score=185.53  Aligned_cols=282  Identities=15%  Similarity=0.139  Sum_probs=168.2

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~   83 (366)
                      .+|+.|+|.+|-|..+.....+.++.|++||+|.|    .+.++|. .+..-.++++|+|++|.|+.+.. .+..+.+|.
T Consensus       125 ghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN----~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~  200 (873)
T KOG4194|consen  125 GHLEKLDLRHNLISSVTSEELSALPALRSLDLSRN----LISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLL  200 (873)
T ss_pred             cceeEEeeeccccccccHHHHHhHhhhhhhhhhhc----hhhcccCCCCCCCCCceEEeeccccccccccccccccchhe
Confidence            35666666666666665555667777777888877    6777764 34555778888888887775532 455666788


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      .|.|++ +.++.+|...+.++++|+.|++.+|.+.-.             -.-.+..++.|+.+.+..+.......=.  
T Consensus       201 tlkLsr-NrittLp~r~Fk~L~~L~~LdLnrN~iriv-------------e~ltFqgL~Sl~nlklqrN~I~kL~DG~--  264 (873)
T KOG4194|consen  201 TLKLSR-NRITTLPQRSFKRLPKLESLDLNRNRIRIV-------------EGLTFQGLPSLQNLKLQRNDISKLDDGA--  264 (873)
T ss_pred             eeeccc-CcccccCHHHhhhcchhhhhhccccceeee-------------hhhhhcCchhhhhhhhhhcCcccccCcc--
Confidence            888888 788888877677788888888888866211             1223455666666666655443322111  


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-  242 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-  242 (366)
                      .-.+..+++|++..++........+.+++.|+.|+++.|.+..+..+.+        +.+++|+.|+++++ .++.++. 
T Consensus       265 Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~W--------sftqkL~~LdLs~N-~i~~l~~~  335 (873)
T KOG4194|consen  265 FYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSW--------SFTQKLKELDLSSN-RITRLDEG  335 (873)
T ss_pred             eeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchh--------hhcccceeEecccc-ccccCChh
Confidence            0123446777776665522333366677777777777777777776655        35677777777777 5666542 


Q ss_pred             -ccCCCCccEEEEEccCCccccccccc----------------ccccccccccccccccccccccccccccccccCC-Cc
Q 040318          243 -LAFAPNLKIIVIMHCDDLEEIISVEK----------------LNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-AL  304 (366)
Q Consensus       243 -l~~l~~L~~L~L~~c~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~  304 (366)
                       +..+..|+.|.|+++.. +.+..-+.                ...+++....+.++++|++|.+.+ .+++.++.. ..
T Consensus       336 sf~~L~~Le~LnLs~Nsi-~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~g-Nqlk~I~krAfs  413 (873)
T KOG4194|consen  336 SFRVLSQLEELNLSHNSI-DHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTG-NQLKSIPKRAFS  413 (873)
T ss_pred             HHHHHHHhhhhcccccch-HHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecC-ceeeecchhhhc
Confidence             33344444444444331 11100000                000112222566677777777766 356666543 33


Q ss_pred             CCCCccEEeccCCC
Q 040318          305 PLPQLKEIRVTQCP  318 (366)
Q Consensus       305 ~~~~L~~L~l~~c~  318 (366)
                      +++.|++|++.+.+
T Consensus       414 gl~~LE~LdL~~Na  427 (873)
T KOG4194|consen  414 GLEALEHLDLGDNA  427 (873)
T ss_pred             cCcccceecCCCCc
Confidence            47788888887643

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.85  E-value=9.3e-22  Score=196.72  Aligned_cols=336  Identities=31%  Similarity=0.442  Sum_probs=247.4

Q ss_pred             CCCCCCCcCEEEccCCC--CCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhc
Q 040318            1 DNIRYSNIPSILELSSN--NKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTA   78 (366)
Q Consensus         1 ~~~~~~~L~~L~l~~~~--~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~   78 (366)
                      +.++++.|++|.++++.  +..++..+|..+|.|++||+++|.   .+.++|..++.+.+||||+++++.+..+|..+++
T Consensus       540 ~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~---~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~  616 (889)
T KOG4658|consen  540 GSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNS---SLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGN  616 (889)
T ss_pred             CCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCC---ccCcCChHHhhhhhhhcccccCCCccccchHHHH
Confidence            35688899999999987  677888889999999999999998   8899999999999999999999999999999999


Q ss_pred             CccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318           79 LLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus        79 l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      +..|.+|++..+..+..++. +...|++|++|.+......           ........+..+.+|+.+.+.........
T Consensus       617 Lk~L~~Lnl~~~~~l~~~~~-i~~~L~~Lr~L~l~~s~~~-----------~~~~~l~el~~Le~L~~ls~~~~s~~~~e  684 (889)
T KOG4658|consen  617 LKKLIYLNLEVTGRLESIPG-ILLELQSLRVLRLPRSALS-----------NDKLLLKELENLEHLENLSITISSVLLLE  684 (889)
T ss_pred             HHhhheeccccccccccccc-hhhhcccccEEEeeccccc-----------cchhhHHhhhcccchhhheeecchhHhHh
Confidence            99999999998666666654 3667999999999876521           23455666778888888888654442223


Q ss_pred             cccccccccccccEEEEeccCCCCcCcc-chhhhcccCceEecccccceeeccccCcccccccc-CCCCCcEEeEecCCC
Q 040318          159 NFLKFPKLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQC-GFRSLHLASIAFCSR  236 (366)
Q Consensus       159 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~-~~~~L~~L~l~~~~~  236 (366)
                      .+.....+....+.+.+.++..  .... .+..+++|+.|.+...++.+...+.....   ... .|+++..+.+.+|..
T Consensus       685 ~l~~~~~L~~~~~~l~~~~~~~--~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~---~~~~~f~~l~~~~~~~~~~  759 (889)
T KOG4658|consen  685 DLLGMTRLRSLLQSLSIEGCSK--RTLISSLGSLGNLEELSILDCGISEIVIEWEESL---IVLLCFPNLSKVSILNCHM  759 (889)
T ss_pred             hhhhhHHHHHHhHhhhhccccc--ceeecccccccCcceEEEEcCCCchhhccccccc---chhhhHHHHHHHHhhcccc
Confidence            3334434333344555433332  2222 77888999999998866654433222100   002 277888999999988


Q ss_pred             CcccccccCCCCccEEEEEccCCccccccccccccccccccccccccccccc-ccccccccccccCCCcCCCCccEEecc
Q 040318          237 VKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELL-DLYHAENLKSIYQGALPLPQLKEIRVT  315 (366)
Q Consensus       237 l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L-~l~~~~~l~~~~~~~~~~~~L~~L~l~  315 (366)
                      ..++.+....|+|+.|.+.+|..++++++..+.-.  ........|.++..+ .+.+...+..+......++.|+++.+.
T Consensus       760 ~r~l~~~~f~~~L~~l~l~~~~~~e~~i~~~k~~~--~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~l~~~~l~~~~ve  837 (889)
T KOG4658|consen  760 LRDLTWLLFAPHLTSLSLVSCRLLEDIIPKLKALL--ELKELILPFNKLEGLRMLCSLGGLPQLYWLPLSFLKLEELIVE  837 (889)
T ss_pred             ccccchhhccCcccEEEEecccccccCCCHHHHhh--hcccEEecccccccceeeecCCCCceeEecccCccchhheehh
Confidence            88888888889999999999999999987444322  111123345566666 455666666666666667789999999


Q ss_pred             CCCCCCCCCCCCCCCC-c--ceeEEEcchhhhcccccCcccccccc
Q 040318          316 QCPKLKTLPLNSSSTK-L--RNIVISGGKDWWEELQWEDQATQNAF  358 (366)
Q Consensus       316 ~c~~l~~lp~~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~  358 (366)
                      .||++..+|....... .  +.....-++.|-+.++|.+++++..|
T Consensus       838 ~~p~l~~~P~~~~~~i~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  883 (889)
T KOG4658|consen  838 ECPKLGKLPLLSTLTIVGCEEKLKEYPDGEWLEGVYWEDELTKLRF  883 (889)
T ss_pred             cCcccccCccccccceeccccceeecCCccceeeEEehhhhhhhhc
Confidence            9999999999865554 2  34444456668889999999998776

>PLN03210 Resistant to P

Probab=99.82  E-value=1.1e-19  Score=190.28  Aligned_cols=286  Identities=19%  Similarity=0.206  Sum_probs=180.0

Q ss_pred             CCCCcCEEEccCCCC------C-ccchhhhhcC-CcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchh
Q 040318            4 RYSNIPSILELSSNN------K-VFEPSWFLSR-ASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHE   75 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~------~-~l~~~~~~~~-~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~   75 (366)
                      .|++|+.|.+..+..      . ++|.. +..+ +.|+.|++.++    .++.+|..+ ...+|++|+++++.+..+|..
T Consensus       556 ~m~~L~~L~~~~~~~~~~~~~~~~lp~~-~~~lp~~Lr~L~~~~~----~l~~lP~~f-~~~~L~~L~L~~s~l~~L~~~  629 (1153)
T PLN03210        556 GMRNLLFLKFYTKKWDQKKEVRWHLPEG-FDYLPPKLRLLRWDKY----PLRCMPSNF-RPENLVKLQMQGSKLEKLWDG  629 (1153)
T ss_pred             cCccccEEEEecccccccccceeecCcc-hhhcCcccEEEEecCC----CCCCCCCcC-CccCCcEEECcCccccccccc
Confidence            467777777754321      1 24555 4444 35777777777    667777655 456777777777777777777


Q ss_pred             hhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccc-
Q 040318           76 LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSS-  154 (366)
Q Consensus        76 i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-  154 (366)
                      +..+++|++|++++|+.+..+|.  +..+++|+.|++.+|..             ....+..+..+++|+.|+++++.. 
T Consensus       630 ~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~-------------L~~lp~si~~L~~L~~L~L~~c~~L  694 (1153)
T PLN03210        630 VHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSS-------------LVELPSSIQYLNKLEDLDMSRCENL  694 (1153)
T ss_pred             cccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCC-------------ccccchhhhccCCCCEEeCCCCCCc
Confidence            77777777777777666666665  66777777777777643             223455566677777777765432 


Q ss_pred             cccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeecccc------------------Cccc
Q 040318          155 RGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCT------------------GEVQ  216 (366)
Q Consensus       155 ~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~------------------~~~~  216 (366)
                      ..++...    .+.+|+.|.+.+|..  ..... ....+|+.|++.++.++.++....                  +...
T Consensus       695 ~~Lp~~i----~l~sL~~L~Lsgc~~--L~~~p-~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~  767 (1153)
T PLN03210        695 EILPTGI----NLKSLYRLNLSGCSR--LKSFP-DISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQ  767 (1153)
T ss_pred             CccCCcC----CCCCCCEEeCCCCCC--ccccc-cccCCcCeeecCCCccccccccccccccccccccccchhhcccccc
Confidence            2222211    234566777766654  22221 112456666666555444332100                  0000


Q ss_pred             ---cccccCCCCCcEEeEecCCCCcccc-cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccc
Q 040318          217 ---KVLQCGFRSLHLASIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYH  292 (366)
Q Consensus       217 ---~~p~~~~~~L~~L~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  292 (366)
                         ......+++|+.|++++|+.+..+| .++++++|+.|+|++|..++.+..            . ..+++|+.|++++
T Consensus       768 ~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~------------~-~~L~sL~~L~Ls~  834 (1153)
T PLN03210        768 PLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPT------------G-INLESLESLDLSG  834 (1153)
T ss_pred             ccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCC------------C-CCccccCEEECCC
Confidence               0001235789999999998787776 577899999999999988876542            1 2466777777776


Q ss_pred             ccccccc--------------------cCCCcCCCCccEEeccCCCCCCCCCCCCCCC
Q 040318          293 AENLKSI--------------------YQGALPLPQLKEIRVTQCPKLKTLPLNSSST  330 (366)
Q Consensus       293 ~~~l~~~--------------------~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~  330 (366)
                      |..+..+                    +.....+++|+.|++.+|++++.+|..+..+
T Consensus       835 c~~L~~~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L  892 (1153)
T PLN03210        835 CSRLRTFPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKL  892 (1153)
T ss_pred             CCccccccccccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccc
Confidence            6555433                    3334468899999999999999999876665

syringae 6; Provisional

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

Probab=99.81  E-value=3.4e-21  Score=177.86  Aligned_cols=303  Identities=19%  Similarity=0.244  Sum_probs=175.3

Q ss_pred             CCCCcCEEEccCCCCCc--cchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchh-hhcCc
Q 040318            4 RYSNIPSILELSSNNKV--FEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~--l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~   80 (366)
                      .+|.||.+.++.|++..  +|.. +-.+..|.+||+|.|    .+.+.|..+...+++-.|+|++|+|..+|.. +-+++
T Consensus        76 ~Lp~LRsv~~R~N~LKnsGiP~d-iF~l~dLt~lDLShN----qL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLt  150 (1255)
T KOG0444|consen   76 DLPRLRSVIVRDNNLKNSGIPTD-IFRLKDLTILDLSHN----QLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLT  150 (1255)
T ss_pred             cchhhHHHhhhccccccCCCCch-hcccccceeeecchh----hhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhH
Confidence            45566666666665542  5555 334666666666666    5566666666666666666666666665543 24555


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      .|-.|||+. +.+..+|+. +.++.+|+.|++++|++             .......+..+..|+.|.+++...+ ...+
T Consensus       151 DLLfLDLS~-NrLe~LPPQ-~RRL~~LqtL~Ls~NPL-------------~hfQLrQLPsmtsL~vLhms~TqRT-l~N~  214 (1255)
T KOG0444|consen  151 DLLFLDLSN-NRLEMLPPQ-IRRLSMLQTLKLSNNPL-------------NHFQLRQLPSMTSLSVLHMSNTQRT-LDNI  214 (1255)
T ss_pred             hHhhhcccc-chhhhcCHH-HHHHhhhhhhhcCCChh-------------hHHHHhcCccchhhhhhhcccccch-hhcC
Confidence            566666666 566666665 66666666666666654             2233445556666666666654332 2233


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccc
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDL  240 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l  240 (366)
                      ......+.||..++++.++- ...+..+..+++|+.|++++|+++++....         ..-.+|+.|+++.+ .++.+
T Consensus       215 Ptsld~l~NL~dvDlS~N~L-p~vPecly~l~~LrrLNLS~N~iteL~~~~---------~~W~~lEtLNlSrN-QLt~L  283 (1255)
T KOG0444|consen  215 PTSLDDLHNLRDVDLSENNL-PIVPECLYKLRNLRRLNLSGNKITELNMTE---------GEWENLETLNLSRN-QLTVL  283 (1255)
T ss_pred             CCchhhhhhhhhccccccCC-CcchHHHhhhhhhheeccCcCceeeeeccH---------HHHhhhhhhccccc-hhccc
Confidence            33334455677777766554 111126677788888888888887765411         12355666666666 56665


Q ss_pred             cc-ccCCCCccEEEEEccCCccccccc--c----------cccccccccccccccccccccccccccccccccCCCcCCC
Q 040318          241 TW-LAFAPNLKIIVIMHCDDLEEIISV--E----------KLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLP  307 (366)
Q Consensus       241 ~~-l~~l~~L~~L~L~~c~~~~~~~~~--~----------~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  307 (366)
                      |. +..+++|++|.+.+++.--+.++.  .          ....++-++..+..|++|+.|.|++ ..+-.++....-++
T Consensus       284 P~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVPEglcRC~kL~kL~L~~-NrLiTLPeaIHlL~  362 (1255)
T KOG0444|consen  284 PDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVPEGLCRCVKLQKLKLDH-NRLITLPEAIHLLP  362 (1255)
T ss_pred             hHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccccCchhhhhhHHHHHhcccc-cceeechhhhhhcC
Confidence            52 345666666666555433222220  0          0011222334666788888888865 45556666677788


Q ss_pred             CccEEeccCCCCCCCCCCCCCCCCcceeEEEcc
Q 040318          308 QLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGG  340 (366)
Q Consensus       308 ~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~  340 (366)
                      .|+.|++...|+|. +|......+..+.+.+.+
T Consensus       363 ~l~vLDlreNpnLV-MPPKP~da~~~lefYNID  394 (1255)
T KOG0444|consen  363 DLKVLDLRENPNLV-MPPKPNDARKKLEFYNID  394 (1255)
T ss_pred             CcceeeccCCcCcc-CCCCcchhhhcceeeecc
Confidence            89999998888887 555555443445554444

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

Probab=99.78  E-value=3.2e-21  Score=178.04  Aligned_cols=301  Identities=16%  Similarity=0.172  Sum_probs=220.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .|.+|+.|.+.+|++..+... .+.++.|+.+.+..|.+  .-..+|..++++..|..|||++|++++.|..+.+..++.
T Consensus        53 ~lqkLEHLs~~HN~L~~vhGE-Ls~Lp~LRsv~~R~N~L--KnsGiP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~i  129 (1255)
T KOG0444|consen   53 RLQKLEHLSMAHNQLISVHGE-LSDLPRLRSVIVRDNNL--KNSGIPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSI  129 (1255)
T ss_pred             HHhhhhhhhhhhhhhHhhhhh-hccchhhHHHhhhcccc--ccCCCCchhcccccceeeecchhhhhhcchhhhhhcCcE
Confidence            456677778888887776665 67788888888888854  334589889999999999999999999999999999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc--cccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV--RNFL  161 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~--~~~~  161 (366)
                      +|+|++ +++..+|..++-+++.|-.|+++.|++              ...+..+..+.+|++|.++++....+  ..+.
T Consensus       130 VLNLS~-N~IetIPn~lfinLtDLLfLDLS~NrL--------------e~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLP  194 (1255)
T KOG0444|consen  130 VLNLSY-NNIETIPNSLFINLTDLLFLDLSNNRL--------------EMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLP  194 (1255)
T ss_pred             EEEccc-CccccCCchHHHhhHhHhhhccccchh--------------hhcCHHHHHHhhhhhhhcCCChhhHHHHhcCc
Confidence            999999 889999988888999999999999977              56677788899999999998876543  2232


Q ss_pred             ccccccccccEEEEeccCCCCcCcc--chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc
Q 040318          162 KFPKLLRITQALSISDCEIPLLNVS--HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD  239 (366)
Q Consensus       162 ~~~~~~~~L~~L~l~~~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~  239 (366)
                      .    +.+|+.|.+++-+. +...+  ++..+.+|..++++.|.+..++...+         .+++|+.|+++++ .++.
T Consensus       195 s----mtsL~vLhms~TqR-Tl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly---------~l~~LrrLNLS~N-~ite  259 (1255)
T KOG0444|consen  195 S----MTSLSVLHMSNTQR-TLDNIPTSLDDLHNLRDVDLSENNLPIVPECLY---------KLRNLRRLNLSGN-KITE  259 (1255)
T ss_pred             c----chhhhhhhcccccc-hhhcCCCchhhhhhhhhccccccCCCcchHHHh---------hhhhhheeccCcC-ceee
Confidence            2    23367777776554 22222  77888999999999988877765444         6789999999999 7888


Q ss_pred             cc-cccCCCCccEEEEEccCCcccccc------------cccccccccccccccccccccccccccccccccccCCCcCC
Q 040318          240 LT-WLAFAPNLKIIVIMHCDDLEEIIS------------VEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPL  306 (366)
Q Consensus       240 l~-~l~~l~~L~~L~L~~c~~~~~~~~------------~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~  306 (366)
                      +. ..+.-.+|+.|+++.++...-...            ..+--.++++++.++.+..|+.+...+ ..++-.+.+...|
T Consensus       260 L~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan-N~LElVPEglcRC  338 (1255)
T KOG0444|consen  260 LNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN-NKLELVPEGLCRC  338 (1255)
T ss_pred             eeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc-cccccCchhhhhh
Confidence            65 445667899999998764321110            000011234444555555555555544 3455556667779


Q ss_pred             CCccEEeccCCCCCCCCCCCCCCCCcceeEEEcc
Q 040318          307 PQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGG  340 (366)
Q Consensus       307 ~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~  340 (366)
                      +.|++|.+++ .+|-++|..+-.+ +.+++++.-
T Consensus       339 ~kL~kL~L~~-NrLiTLPeaIHlL-~~l~vLDlr  370 (1255)
T KOG0444|consen  339 VKLQKLKLDH-NRLITLPEAIHLL-PDLKVLDLR  370 (1255)
T ss_pred             HHHHHhcccc-cceeechhhhhhc-CCcceeecc
Confidence            9999999964 6777799987766 777777643

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

Probab=99.78  E-value=3e-20  Score=170.27  Aligned_cols=107  Identities=20%  Similarity=0.215  Sum_probs=71.5

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCc-hhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~   84 (366)
                      +..+.|++++|.+.++....|.++++|+.+++.+|    .++.+|.......+|+.|+|.+|.|+.+. +.++.++.|+.
T Consensus        78 ~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N----~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrs  153 (873)
T KOG4194|consen   78 SQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKN----ELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRS  153 (873)
T ss_pred             cceeeeeccccccccCcHHHHhcCCcceeeeeccc----hhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhh
Confidence            34566777777777776666777777777777777    67777775444566777777777766443 35666677777


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |||+. +.+.+++..-+..-.++++|++.+|.+
T Consensus       154 lDLSr-N~is~i~~~sfp~~~ni~~L~La~N~I  185 (873)
T KOG4194|consen  154 LDLSR-NLISEIPKPSFPAKVNIKKLNLASNRI  185 (873)
T ss_pred             hhhhh-chhhcccCCCCCCCCCceEEeeccccc
Confidence            77777 666666543244445677777777665

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

Probab=99.62  E-value=8.9e-18  Score=147.90  Aligned_cols=301  Identities=17%  Similarity=0.166  Sum_probs=170.5

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcccc-ccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGIS-SLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~-~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      +..|..|+++.|.+..+|+  |..|..|..|+++.|    .++.+|.... ++.++..||++.|+++++|..+..+.+|.
T Consensus       205 l~~L~~LyL~~Nki~~lPe--f~gcs~L~Elh~g~N----~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~  278 (565)
T KOG0472|consen  205 LESLELLYLRRNKIRFLPE--FPGCSLLKELHVGEN----QIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLE  278 (565)
T ss_pred             hhhhHHHHhhhcccccCCC--CCccHHHHHHHhccc----HHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhh
Confidence            3455566777777777774  777788888888877    7777777654 68888888888888888888888888888


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEE-ecccc--ccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFS-LYSSR--GVRNF  160 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~-~~~~~--~~~~~  160 (366)
                      +||+++ +.++.+|.+ ++++ .|+.|.+.||++.+...  ..++..+....+.+.....=..++-+ +...+  +.+.+
T Consensus       279 rLDlSN-N~is~Lp~s-Lgnl-hL~~L~leGNPlrTiRr--~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~  353 (565)
T KOG0472|consen  279 RLDLSN-NDISSLPYS-LGNL-HLKFLALEGNPLRTIRR--EIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSE  353 (565)
T ss_pred             hhcccC-CccccCCcc-cccc-eeeehhhcCCchHHHHH--HHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCC
Confidence            888888 778888876 7888 78888888887654320  00001111112211110000000000 00000  00011


Q ss_pred             cccc-cccccccEEEEeccCCCCcCccchh--hhcccCceEecccccceeecccc-------------Cccccccc--cC
Q 040318          161 LKFP-KLLRITQALSISDCEIPLLNVSHLA--YMEHLKDLVIDNSNLEELKTDCT-------------GEVQKVLQ--CG  222 (366)
Q Consensus       161 ~~~~-~~~~~L~~L~l~~~~~~~~~~~~l~--~~~~L~~L~l~~~~l~~l~~~~~-------------~~~~~~p~--~~  222 (366)
                      .... ...-+.+.|.+++-+...+....+.  .-.-....++++|++.+++.+..             ..-+|+|.  ..
T Consensus       354 ~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~  433 (565)
T KOG0472|consen  354 SFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQ  433 (565)
T ss_pred             cccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHh
Confidence            0000 0111233444433332111111111  11124445555555555443211             11223333  67


Q ss_pred             CCCCcEEeEecCCCCcccc-cccCCCCccEEEEEccCCcccccc----------cccccccccccc-ccccccccccccc
Q 040318          223 FRSLHLASIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIIS----------VEKLNQLSDIMG-ELNFFAKLELLDL  290 (366)
Q Consensus       223 ~~~L~~L~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~----------~~~~~~~~~~~~-~~~~~~~L~~L~l  290 (366)
                      +++|..|+++++ -+.++| ..+.+..|+.|+|+.++.-+-.-.          ......+..+.. .+.++.+|.+|++
T Consensus       434 l~kLt~L~L~NN-~Ln~LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL  512 (565)
T KOG0472|consen  434 LQKLTFLDLSNN-LLNDLPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDL  512 (565)
T ss_pred             hhcceeeecccc-hhhhcchhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceecc
Confidence            888999999888 577776 355777788899887753321100          000011222222 3678889999999


Q ss_pred             ccccccccccCCCcCCCCccEEeccCCC
Q 040318          291 YHAENLKSIYQGALPLPQLKEIRVTQCP  318 (366)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~L~~L~l~~c~  318 (366)
                      .+ .++..++...+.|.+|++|++++.|
T Consensus       513 ~n-Ndlq~IPp~LgnmtnL~hLeL~gNp  539 (565)
T KOG0472|consen  513 QN-NDLQQIPPILGNMTNLRHLELDGNP  539 (565)
T ss_pred             CC-CchhhCChhhccccceeEEEecCCc
Confidence            66 5788888888999999999999875

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

Probab=99.58  E-value=6.4e-18  Score=148.79  Aligned_cols=234  Identities=22%  Similarity=0.279  Sum_probs=133.4

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccC
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNL   82 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L   82 (366)
                      -++..+++|++++|.+..+|+. ++.+..++.|+++.+    .+..+|..++.+..|+.|+.++|.+.++|..++.+..|
T Consensus        65 ~nL~~l~vl~~~~n~l~~lp~a-ig~l~~l~~l~vs~n----~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~i~~~~~l  139 (565)
T KOG0472|consen   65 KNLACLTVLNVHDNKLSQLPAA-IGELEALKSLNVSHN----KLSELPEQIGSLISLVKLDCSSNELKELPDSIGRLLDL  139 (565)
T ss_pred             hcccceeEEEeccchhhhCCHH-HHHHHHHHHhhcccc----hHhhccHHHhhhhhhhhhhccccceeecCchHHHHhhh
Confidence            3566777888888888888777 677778888888888    77788887888888888888888888888888888888


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCcccccc--------c-cccchHHHHHhhcCCCCcceEEEEecc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGS--------V-LSEDAEPLMKELLCLKLLNLISFSLYS  153 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--------~-~~~~~~~~~~~l~~l~~L~~L~l~~~~  153 (366)
                      ..++..+ +++..+|.+ +.++.+|..+++.++...+.+.-..        + -...-...+..++.+.+|+.|.+..+.
T Consensus       140 ~dl~~~~-N~i~slp~~-~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nk  217 (565)
T KOG0472|consen  140 EDLDATN-NQISSLPED-MVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNK  217 (565)
T ss_pred             hhhhccc-cccccCchH-HHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcc
Confidence            8887777 777777776 7777777777777776532210000        0 000001122233333333333333333


Q ss_pred             ccccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEec
Q 040318          154 SRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAF  233 (366)
Q Consensus       154 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~  233 (366)
                      ....|.+..    |..|.+|++...............++++.+|++..|++++++.+..         .+++|++|++++
T Consensus       218 i~~lPef~g----cs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~c---------lLrsL~rLDlSN  284 (565)
T KOG0472|consen  218 IRFLPEFPG----CSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEIC---------LLRSLERLDLSN  284 (565)
T ss_pred             cccCCCCCc----cHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHH---------HhhhhhhhcccC
Confidence            333332221    2224444444333311111133344555555555555555544222         345555566655


Q ss_pred             CCCCcccc-cccCCCCccEEEEEccC
Q 040318          234 CSRVKDLT-WLAFAPNLKIIVIMHCD  258 (366)
Q Consensus       234 ~~~l~~l~-~l~~l~~L~~L~L~~c~  258 (366)
                      + .++.+| .++++ +|+.|.+.+++
T Consensus       285 N-~is~Lp~sLgnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  285 N-DISSLPYSLGNL-HLKFLALEGNP  308 (565)
T ss_pred             C-ccccCCcccccc-eeeehhhcCCc
Confidence            5 455554 34455 55555555554

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.56  E-value=3e-14  Score=140.43  Aligned_cols=240  Identities=21%  Similarity=0.128  Sum_probs=126.9

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeec
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNL   87 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L   87 (366)
                      -..|++++++++.+|..+ .  ++|+.|++++|    .++.+|..   .++|++|++++|+++.+|..   .++|+.|++
T Consensus       203 ~~~LdLs~~~LtsLP~~l-~--~~L~~L~L~~N----~Lt~LP~l---p~~Lk~LdLs~N~LtsLP~l---p~sL~~L~L  269 (788)
T PRK15387        203 NAVLNVGESGLTTLPDCL-P--AHITTLVIPDN----NLTSLPAL---PPELRTLEVSGNQLTSLPVL---PPGLLELSI  269 (788)
T ss_pred             CcEEEcCCCCCCcCCcch-h--cCCCEEEccCC----cCCCCCCC---CCCCcEEEecCCccCcccCc---ccccceeec
Confidence            456777777777777652 2  36777777777    66666642   46777777777777766642   345666666


Q ss_pred             cccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc----
Q 040318           88 ERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF----  163 (366)
Q Consensus        88 ~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~----  163 (366)
                      ++ +.+..+|..    ..+|+.|++.+|.+...              +.   ..++|+.|+++++....++.+...    
T Consensus       270 s~-N~L~~Lp~l----p~~L~~L~Ls~N~Lt~L--------------P~---~p~~L~~LdLS~N~L~~Lp~lp~~L~~L  327 (788)
T PRK15387        270 FS-NPLTHLPAL----PSGLCKLWIFGNQLTSL--------------PV---LPPGLQELSVSDNQLASLPALPSELCKL  327 (788)
T ss_pred             cC-Cchhhhhhc----hhhcCEEECcCCccccc--------------cc---cccccceeECCCCccccCCCCccccccc
Confidence            66 445554431    13455566655544211              10   124455555555444433321100    


Q ss_pred             ----------ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEec
Q 040318          164 ----------PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAF  233 (366)
Q Consensus       164 ----------~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~  233 (366)
                                .....+|+.|+++++......  .  ..++|+.|++++|.+..++.            .+.+|+.|++++
T Consensus       328 ~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~LP--~--lp~~L~~L~Ls~N~L~~LP~------------l~~~L~~LdLs~  391 (788)
T PRK15387        328 WAYNNQLTSLPTLPSGLQELSVSDNQLASLP--T--LPSELYKLWAYNNRLTSLPA------------LPSGLKELIVSG  391 (788)
T ss_pred             ccccCccccccccccccceEecCCCccCCCC--C--CCcccceehhhccccccCcc------------cccccceEEecC
Confidence                      001123444444443331111  0  01234444444444433221            234677777777


Q ss_pred             CCCCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEe
Q 040318          234 CSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIR  313 (366)
Q Consensus       234 ~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~  313 (366)
                      | .++.++..  .++|+.|++++|... .+.             .  .+.+|+.|+++++ .++.++.....+++|+.|+
T Consensus       392 N-~Lt~LP~l--~s~L~~LdLS~N~Ls-sIP-------------~--l~~~L~~L~Ls~N-qLt~LP~sl~~L~~L~~Ld  451 (788)
T PRK15387        392 N-RLTSLPVL--PSELKELMVSGNRLT-SLP-------------M--LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVN  451 (788)
T ss_pred             C-cccCCCCc--ccCCCEEEccCCcCC-CCC-------------c--chhhhhhhhhccC-cccccChHHhhccCCCeEE
Confidence            7 56655532  356777777776532 221             1  1346777777763 4556665556677888888


Q ss_pred             ccCCC
Q 040318          314 VTQCP  318 (366)
Q Consensus       314 l~~c~  318 (366)
                      +++++
T Consensus       452 Ls~N~  456 (788)
T PRK15387        452 LEGNP  456 (788)
T ss_pred             CCCCC
Confidence            87764

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.54  E-value=5.7e-14  Score=138.50  Aligned_cols=240  Identities=20%  Similarity=0.136  Sum_probs=149.9

Q ss_pred             CcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcE
Q 040318           30 ASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEV  109 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~  109 (366)
                      ..-..|+++++    .++.+|..+.  .+|+.|++.+|+++.+|..   .++|++|++++ +.+..+|..    .++|+.
T Consensus       201 ~~~~~LdLs~~----~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~-N~LtsLP~l----p~sL~~  266 (788)
T PRK15387        201 NGNAVLNVGES----GLTTLPDCLP--AHITTLVIPDNNLTSLPAL---PPELRTLEVSG-NQLTSLPVL----PPGLLE  266 (788)
T ss_pred             CCCcEEEcCCC----CCCcCCcchh--cCCCEEEccCCcCCCCCCC---CCCCcEEEecC-CccCcccCc----ccccce
Confidence            45678999999    7889998775  5899999999999998853   57999999999 788888752    468999


Q ss_pred             EEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchh
Q 040318          110 LRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLA  189 (366)
Q Consensus       110 L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~  189 (366)
                      |++.+|.+.              ..+.   ...+|+.|.++++....++.      .+++|+.|+++++.......    
T Consensus       267 L~Ls~N~L~--------------~Lp~---lp~~L~~L~Ls~N~Lt~LP~------~p~~L~~LdLS~N~L~~Lp~----  319 (788)
T PRK15387        267 LSIFSNPLT--------------HLPA---LPSGLCKLWIFGNQLTSLPV------LPPGLQELSVSDNQLASLPA----  319 (788)
T ss_pred             eeccCCchh--------------hhhh---chhhcCEEECcCCccccccc------cccccceeECCCCccccCCC----
Confidence            999998761              2222   22678889998887776654      23568999998876522211    


Q ss_pred             hhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccccc------------------CCCCccE
Q 040318          190 YMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLA------------------FAPNLKI  251 (366)
Q Consensus       190 ~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~------------------~l~~L~~  251 (366)
                      ...+|+.|.+.+|.+..++.            ...+|+.|++++| .++.+|.+.                  ..++|+.
T Consensus       320 lp~~L~~L~Ls~N~L~~LP~------------lp~~Lq~LdLS~N-~Ls~LP~lp~~L~~L~Ls~N~L~~LP~l~~~L~~  386 (788)
T PRK15387        320 LPSELCKLWAYNNQLTSLPT------------LPSGLQELSVSDN-QLASLPTLPSELYKLWAYNNRLTSLPALPSGLKE  386 (788)
T ss_pred             CcccccccccccCccccccc------------cccccceEecCCC-ccCCCCCCCcccceehhhccccccCcccccccce
Confidence            12346666666666654331            1234555555555 444444221                  1234455


Q ss_pred             EEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCCCCCCCCC
Q 040318          252 IVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTK  331 (366)
Q Consensus       252 L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~  331 (366)
                      |++++|... .+.               ...++|+.|+++++ .++.++.   ...+|+.|+++++ +++.+|..+..+ 
T Consensus       387 LdLs~N~Lt-~LP---------------~l~s~L~~LdLS~N-~LssIP~---l~~~L~~L~Ls~N-qLt~LP~sl~~L-  444 (788)
T PRK15387        387 LIVSGNRLT-SLP---------------VLPSELKELMVSGN-RLTSLPM---LPSGLLSLSVYRN-QLTRLPESLIHL-  444 (788)
T ss_pred             EEecCCccc-CCC---------------CcccCCCEEEccCC-cCCCCCc---chhhhhhhhhccC-cccccChHHhhc-
Confidence            555444321 111               11346777777664 3444432   1336777777764 577777765555 


Q ss_pred             cceeEEEcchhhhc
Q 040318          332 LRNIVISGGKDWWE  345 (366)
Q Consensus       332 ~~~~~~~~~~~~~~  345 (366)
                      ..+..++...+-++
T Consensus       445 ~~L~~LdLs~N~Ls  458 (788)
T PRK15387        445 SSETTVNLEGNPLS  458 (788)
T ss_pred             cCCCeEECCCCCCC
Confidence            55666665554433

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

Probab=99.52  E-value=2.9e-16  Score=151.35  Aligned_cols=107  Identities=17%  Similarity=0.250  Sum_probs=65.4

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      +.++.|...+|.+..+...  ..-.+|++++++.+    .+..+|..++.+.+|+.+++.+|+++.+|..+....+|+.|
T Consensus       219 ~~l~~L~a~~n~l~~~~~~--p~p~nl~~~dis~n----~l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l  292 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTTLDVH--PVPLNLQYLDISHN----NLSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSL  292 (1081)
T ss_pred             cchheeeeccCcceeeccc--cccccceeeecchh----hhhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHH
Confidence            3444444444444432221  22346677777777    66666666666777777777777777676666667777777


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADST  120 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~  120 (366)
                      ++.. +.+..+|.. ...++.|++|++..|.+...
T Consensus       293 ~~~~-nel~yip~~-le~~~sL~tLdL~~N~L~~l  325 (1081)
T KOG0618|consen  293 SAAY-NELEYIPPF-LEGLKSLRTLDLQSNNLPSL  325 (1081)
T ss_pred             Hhhh-hhhhhCCCc-ccccceeeeeeehhcccccc
Confidence            6666 566666664 55577777777777766443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.49  E-value=8.9e-14  Score=137.73  Aligned_cols=244  Identities=16%  Similarity=0.157  Sum_probs=144.7

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      +.+.|.+.++.++.+|..+   .+.|+.|++++|    .++.+|..+.  .+|++|++++|.++.+|..+.  .+|+.|+
T Consensus       179 ~~~~L~L~~~~LtsLP~~I---p~~L~~L~Ls~N----~LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~  247 (754)
T PRK15370        179 NKTELRLKILGLTTIPACI---PEQITTLILDNN----ELKSLPENLQ--GNIKTLYANSNQLTSIPATLP--DTIQEME  247 (754)
T ss_pred             CceEEEeCCCCcCcCCccc---ccCCcEEEecCC----CCCcCChhhc--cCCCEEECCCCccccCChhhh--ccccEEE
Confidence            4567777777777777652   356788888888    6677776543  578888888887777776543  4678888


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..+|.. +.  .+|+.|++++|.+...              +..+.  ++|+.|+++++....++..     .
T Consensus       248 Ls~-N~L~~LP~~-l~--s~L~~L~Ls~N~L~~L--------------P~~l~--~sL~~L~Ls~N~Lt~LP~~-----l  302 (754)
T PRK15370        248 LSI-NRITELPER-LP--SALQSLDLFHNKISCL--------------PENLP--EELRYLSVYDNSIRTLPAH-----L  302 (754)
T ss_pred             CcC-CccCcCChh-Hh--CCCCEEECcCCccCcc--------------ccccC--CCCcEEECCCCccccCccc-----c
Confidence            877 566777765 32  4678888877765221              22221  4677777777666554421     1


Q ss_pred             cccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCC
Q 040318          167 LRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFA  246 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l  246 (366)
                      ..+|+.|++.++...   .+.....++|+.|++.+|.++.++.           ..+++|+.|++++| .++.++. .-.
T Consensus       303 p~sL~~L~Ls~N~Lt---~LP~~l~~sL~~L~Ls~N~Lt~LP~-----------~l~~sL~~L~Ls~N-~L~~LP~-~lp  366 (754)
T PRK15370        303 PSGITHLNVQSNSLT---ALPETLPPGLKTLEAGENALTSLPA-----------SLPPELQVLDVSKN-QITVLPE-TLP  366 (754)
T ss_pred             hhhHHHHHhcCCccc---cCCccccccceeccccCCccccCCh-----------hhcCcccEEECCCC-CCCcCCh-hhc
Confidence            234667777665541   1211123567777777776655432           23467777877777 5665542 113


Q ss_pred             CCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCC----CcCCCCccEEeccCCC
Q 040318          247 PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG----ALPLPQLKEIRVTQCP  318 (366)
Q Consensus       247 ~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~----~~~~~~L~~L~l~~c~  318 (366)
                      ++|+.|+|++|... .+..            .+  .+.|+.|+++++ .+..++..    ...++.+..+++.+.+
T Consensus       367 ~~L~~LdLs~N~Lt-~LP~------------~l--~~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        367 PTITTLDVSRNALT-NLPE------------NL--PAALQIMQASRN-NLVRLPESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             CCcCEEECCCCcCC-CCCH------------hH--HHHHHHHhhccC-CcccCchhHHHHhhcCCCccEEEeeCCC
Confidence            57777777776532 2221            11  135667777664 33333322    1124566666666544

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

Probab=99.49  E-value=4.7e-16  Score=149.91  Aligned_cols=246  Identities=20%  Similarity=0.242  Sum_probs=170.5

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      -.+|++++++.+.+..+| +++..+.+|+.++..+|    .+..+|..+.....|++|.+..|.+..+|.....+..|++
T Consensus       240 p~nl~~~dis~n~l~~lp-~wi~~~~nle~l~~n~N----~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~t  314 (1081)
T KOG0618|consen  240 PLNLQYLDISHNNLSNLP-EWIGACANLEALNANHN----RLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRT  314 (1081)
T ss_pred             cccceeeecchhhhhcch-HHHHhcccceEecccch----hHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeee
Confidence            357899999999999999 66999999999999999    8899999999999999999999999999999999999999


Q ss_pred             eeccccccCCCcChhhhcCCCC-CcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc--ccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSK-LEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG--VRNFL  161 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~  161 (366)
                      |+|.. +.+.++|...+..+.. |+.|+.+.+.+...+..+             =..++.|+.|.+.++..++  ++.+.
T Consensus       315 LdL~~-N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~-------------e~~~~~Lq~LylanN~Ltd~c~p~l~  380 (1081)
T KOG0618|consen  315 LDLQS-NNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYE-------------ENNHAALQELYLANNHLTDSCFPVLV  380 (1081)
T ss_pred             eeehh-ccccccchHHHhhhhHHHHHHhhhhcccccccccc-------------chhhHHHHHHHHhcCcccccchhhhc
Confidence            99999 8999998764555443 666776666553222000             0122344444444444332  22221


Q ss_pred             ccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc
Q 040318          162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT  241 (366)
Q Consensus       162 ~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~  241 (366)
                          ...+|+.|++++++..+.....+.++..|+.|++++|+++.++...         ..++.|+.|...++ .+..+|
T Consensus       381 ----~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~Lp~tv---------a~~~~L~tL~ahsN-~l~~fP  446 (1081)
T KOG0618|consen  381 ----NFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTLPDTV---------ANLGRLHTLRAHSN-QLLSFP  446 (1081)
T ss_pred             ----cccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhhhHHH---------HhhhhhHHHhhcCC-ceeech
Confidence                1223666666665442233336667778888888888887776422         25777888877777 677777


Q ss_pred             cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccc
Q 040318          242 WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAEN  295 (366)
Q Consensus       242 ~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  295 (366)
                      -+++++.|+.+|++.+..-+-..+           .... -|+||+|+++|...
T Consensus       447 e~~~l~qL~~lDlS~N~L~~~~l~-----------~~~p-~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  447 ELAQLPQLKVLDLSCNNLSEVTLP-----------EALP-SPNLKYLDLSGNTR  488 (1081)
T ss_pred             hhhhcCcceEEecccchhhhhhhh-----------hhCC-CcccceeeccCCcc
Confidence            777888888888875543332221           1111 27888888887654

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

Probab=99.47  E-value=8.2e-16  Score=120.76  Aligned_cols=158  Identities=22%  Similarity=0.300  Sum_probs=118.2

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccC
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNL   82 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L   82 (366)
                      +.+++++.|.+++|.++.+|+. +..+.+|++|++++|    .++++|..++.++.|+.|++..|.+..+|.+++.++.|
T Consensus        30 f~~s~ITrLtLSHNKl~~vppn-ia~l~nlevln~~nn----qie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~l  104 (264)
T KOG0617|consen   30 FNMSNITRLTLSHNKLTVVPPN-IAELKNLEVLNLSNN----QIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPAL  104 (264)
T ss_pred             cchhhhhhhhcccCceeecCCc-HHHhhhhhhhhcccc----hhhhcChhhhhchhhhheecchhhhhcCccccCCCchh
Confidence            4567788888888888888888 778888888888888    88888888888888888888888888888888888888


Q ss_pred             CEeeccccccCC--CcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           83 RYLNLERTYHLS--RFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        83 ~~L~L~~c~~~~--~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      ++||+.. +++.  .+|.. +-.|+.|+-|.+++|.+              ...+..++.+++|+.|.+..+...+.+  
T Consensus       105 evldlty-nnl~e~~lpgn-ff~m~tlralyl~dndf--------------e~lp~dvg~lt~lqil~lrdndll~lp--  166 (264)
T KOG0617|consen  105 EVLDLTY-NNLNENSLPGN-FFYMTTLRALYLGDNDF--------------EILPPDVGKLTNLQILSLRDNDLLSLP--  166 (264)
T ss_pred             hhhhccc-cccccccCCcc-hhHHHHHHHHHhcCCCc--------------ccCChhhhhhcceeEEeeccCchhhCc--
Confidence            8888887 4443  36665 66777888888887765              455666777777777766544322211  


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceee
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELK  208 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~  208 (366)
                                               -.++.+.+|+.|++.+|++..++
T Consensus       167 -------------------------keig~lt~lrelhiqgnrl~vlp  189 (264)
T KOG0617|consen  167 -------------------------KEIGDLTRLRELHIQGNRLTVLP  189 (264)
T ss_pred             -------------------------HHHHHHHHHHHHhcccceeeecC
Confidence                                     15567788888888888876543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.45  E-value=1.1e-13  Score=137.02  Aligned_cols=202  Identities=14%  Similarity=0.175  Sum_probs=142.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      ++|+.|++++|.++.+|..++   ++|++|++++|    .++.+|..+.  .+|+.|++++|++..+|..+.  .+|+.|
T Consensus       199 ~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N----~LtsLP~~l~--~~L~~L~Ls~N~L~~LP~~l~--s~L~~L  267 (754)
T PRK15370        199 EQITTLILDNNELKSLPENLQ---GNIKTLYANSN----QLTSIPATLP--DTIQEMELSINRITELPERLP--SALQSL  267 (754)
T ss_pred             cCCcEEEecCCCCCcCChhhc---cCCCEEECCCC----ccccCChhhh--ccccEEECcCCccCcCChhHh--CCCCEE
Confidence            478999999999999998743   58999999999    7888887554  589999999999999987764  589999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..+|.. +.  .+|+.|++++|.+...+              ..+.  ..|+.|+++++....++..     
T Consensus       268 ~Ls~-N~L~~LP~~-l~--~sL~~L~Ls~N~Lt~LP--------------~~lp--~sL~~L~Ls~N~Lt~LP~~-----  322 (754)
T PRK15370        268 DLFH-NKISCLPEN-LP--EELRYLSVYDNSIRTLP--------------AHLP--SGITHLNVQSNSLTALPET-----  322 (754)
T ss_pred             ECcC-CccCccccc-cC--CCCcEEECCCCccccCc--------------ccch--hhHHHHHhcCCccccCCcc-----
Confidence            9997 788888875 33  58999999999773321              1111  3567777777666554321     


Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccC
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAF  245 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~  245 (366)
                      ..++|+.|.+.++...   .+.-.-.++|+.|++++|++..++.           ...++|+.|++++| .++.+|.- -
T Consensus       323 l~~sL~~L~Ls~N~Lt---~LP~~l~~sL~~L~Ls~N~L~~LP~-----------~lp~~L~~LdLs~N-~Lt~LP~~-l  386 (754)
T PRK15370        323 LPPGLKTLEAGENALT---SLPASLPPELQVLDVSKNQITVLPE-----------TLPPTITTLDVSRN-ALTNLPEN-L  386 (754)
T ss_pred             ccccceeccccCCccc---cCChhhcCcccEEECCCCCCCcCCh-----------hhcCCcCEEECCCC-cCCCCCHh-H
Confidence            2345888888777652   2211123678888888877765432           23357888888888 56666531 1


Q ss_pred             CCCccEEEEEccCC
Q 040318          246 APNLKIIVIMHCDD  259 (366)
Q Consensus       246 l~~L~~L~L~~c~~  259 (366)
                      .+.|+.|++++|..
T Consensus       387 ~~sL~~LdLs~N~L  400 (754)
T PRK15370        387 PAALQIMQASRNNL  400 (754)
T ss_pred             HHHHHHHhhccCCc
Confidence            23577788877654

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

Probab=99.43  E-value=9e-15  Score=128.86  Aligned_cols=245  Identities=16%  Similarity=0.176  Sum_probs=160.2

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccC-CCCccCch-hhhcCccCC
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSY-TDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~-~~i~~l~~-~i~~l~~L~   83 (366)
                      ..+.+.|..|.|+.+|+.+|+.+++|+.||+|.|    .++.| |.+|..+++|..|-+.+ |+|+.+|+ .++++..|+
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N----~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slq  143 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKN----NISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQ  143 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceeccccc----chhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHH
Confidence            4566888899999999999999999999999999    88887 66788899988888887 68999987 568889999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHH-hhcCCCCcceEEEEeccccc---cc-
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMK-ELLCLKLLNLISFSLYSSRG---VR-  158 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~~~---~~-  158 (366)
                      .|.+.- +.+..++.+++..+++|..|.+.+|.+...              .. .+..+..++.+.+..+.+..   .+ 
T Consensus       144 rLllNa-n~i~Cir~~al~dL~~l~lLslyDn~~q~i--------------~~~tf~~l~~i~tlhlA~np~icdCnL~w  208 (498)
T KOG4237|consen  144 RLLLNA-NHINCIRQDALRDLPSLSLLSLYDNKIQSI--------------CKGTFQGLAAIKTLHLAQNPFICDCNLPW  208 (498)
T ss_pred             HHhcCh-hhhcchhHHHHHHhhhcchhcccchhhhhh--------------ccccccchhccchHhhhcCccccccccch
Confidence            998877 677777777788999999999988865222              11 23333333333333222100   00 


Q ss_pred             ------------cccc-c---------------ccccccccEE---EEeccCCCC-cCccchhhhcccCceEecccccce
Q 040318          159 ------------NFLK-F---------------PKLLRITQAL---SISDCEIPL-LNVSHLAYMEHLKDLVIDNSNLEE  206 (366)
Q Consensus       159 ------------~~~~-~---------------~~~~~~L~~L---~l~~~~~~~-~~~~~l~~~~~L~~L~l~~~~l~~  206 (366)
                                  .+.. .               ......++.+   ....|.... .....+.++++|++|++++|+++.
T Consensus       209 la~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~  288 (498)
T KOG4237|consen  209 LADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITR  288 (498)
T ss_pred             hhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccch
Confidence                        0000 0               0000112222   111222200 111167888999999999999988


Q ss_pred             eeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCCCCccEEEEEccCCccccccccccccccccccccccccc
Q 040318          207 LKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAK  284 (366)
Q Consensus       207 l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (366)
                      +...++        .....+++|.+..+ ++..+.  -+..+..|+.|+|.+++... +.+           ..+....+
T Consensus       289 i~~~aF--------e~~a~l~eL~L~~N-~l~~v~~~~f~~ls~L~tL~L~~N~it~-~~~-----------~aF~~~~~  347 (498)
T KOG4237|consen  289 IEDGAF--------EGAAELQELYLTRN-KLEFVSSGMFQGLSGLKTLSLYDNQITT-VAP-----------GAFQTLFS  347 (498)
T ss_pred             hhhhhh--------cchhhhhhhhcCcc-hHHHHHHHhhhccccceeeeecCCeeEE-Eec-----------ccccccce
Confidence            887666        36677888888777 555543  24567788888888776433 221           14555666


Q ss_pred             ccccccc
Q 040318          285 LELLDLY  291 (366)
Q Consensus       285 L~~L~l~  291 (366)
                      |.+|++-
T Consensus       348 l~~l~l~  354 (498)
T KOG4237|consen  348 LSTLNLL  354 (498)
T ss_pred             eeeeehc
Confidence            6777664

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

Probab=99.42  E-value=3.2e-14  Score=129.56  Aligned_cols=257  Identities=18%  Similarity=0.107  Sum_probs=136.6

Q ss_pred             EEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCCcC-----ccCccccccccCCEEeccCCCCcc-------Cchhh
Q 040318           10 SILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLT-----ELPSGISSLVSLQHLDVSYTDIRG-------LPHEL   76 (366)
Q Consensus        10 ~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~-----~l~~~~~~l~~L~~L~l~~~~i~~-------l~~~i   76 (366)
                      .|+|.++.+.. -....+..+++|++|+++++    .++     .++..+...+++++|+++++.+..       ++..+
T Consensus         2 ~l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~----~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l   77 (319)
T cd00116           2 QLSLKGELLKTERATELLPKLLCLQVLRLEGN----TLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGL   77 (319)
T ss_pred             ccccccCcccccchHHHHHHHhhccEEeecCC----CCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHH
Confidence            35566665542 22333666777888888888    442     244445566778888888775542       22345


Q ss_pred             hcCccCCEeeccccccCCCcChhhhcCCC---CCcEEEccCCCCCCccccccccccchHHHHHhhcCC-CCcceEEEEec
Q 040318           77 TALLNLRYLNLERTYHLSRFPPELICSFS---KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCL-KLLNLISFSLY  152 (366)
Q Consensus        77 ~~l~~L~~L~L~~c~~~~~l~~~~l~~l~---~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~  152 (366)
                      ..+++|+.|++++|......+.. +..+.   +|++|++++|.+...         ........+..+ ++|+.|+++++
T Consensus        78 ~~~~~L~~L~l~~~~~~~~~~~~-~~~l~~~~~L~~L~ls~~~~~~~---------~~~~l~~~l~~~~~~L~~L~L~~n  147 (319)
T cd00116          78 TKGCGLQELDLSDNALGPDGCGV-LESLLRSSSLQELKLNNNGLGDR---------GLRLLAKGLKDLPPALEKLVLGRN  147 (319)
T ss_pred             HhcCceeEEEccCCCCChhHHHH-HHHHhccCcccEEEeeCCccchH---------HHHHHHHHHHhCCCCceEEEcCCC
Confidence            66778888888774332223322 43443   388888887765110         011223445555 77788888776


Q ss_pred             cccc--cccccccccccccccEEEEeccCCCCcCcc----chhhhcccCceEecccccceeeccccCccccccccCCCCC
Q 040318          153 SSRG--VRNFLKFPKLLRITQALSISDCEIPLLNVS----HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSL  226 (366)
Q Consensus       153 ~~~~--~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~----~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L  226 (366)
                      ....  ...+......+..|++|++.++...+....    .+..+++|+.|++.++.+.+.+.....  .  ....+++|
T Consensus       148 ~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~--~--~~~~~~~L  223 (319)
T cd00116         148 RLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALA--E--TLASLKSL  223 (319)
T ss_pred             cCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHH--H--HhcccCCC
Confidence            6552  112222222334577777776654111101    233445777777777665433321110  0  00356777


Q ss_pred             cEEeEecCCCCccc--cccc-----CCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          227 HLASIAFCSRVKDL--TWLA-----FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       227 ~~L~l~~~~~l~~l--~~l~-----~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +.|++++| .+++.  ..+.     ..+.|++|++++|....+...        .+......+++|++++++++
T Consensus       224 ~~L~ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~--------~l~~~~~~~~~L~~l~l~~N  288 (319)
T cd00116         224 EVLNLGDN-NLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAK--------DLAEVLAEKESLLELDLRGN  288 (319)
T ss_pred             CEEecCCC-cCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHH--------HHHHHHhcCCCccEEECCCC
Confidence            77877777 45431  1111     236777777777754322110        11113344567777777764

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).

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.40  E-value=3.4e-13  Score=135.64  Aligned_cols=283  Identities=23%  Similarity=0.251  Sum_probs=177.7

Q ss_pred             CCCCCcCEEEccCC-CCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCC-CccCchhhhcCc
Q 040318            3 IRYSNIPSILELSS-NNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTD-IRGLPHELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~-~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~-i~~l~~~i~~l~   80 (366)
                      ..+|.|++||+++| .+.++|.+ ++.+-+||+|+++++    .+..+|..+.+++.|.+|++..+. ...+|.....+.
T Consensus       568 ~~m~~LrVLDLs~~~~l~~LP~~-I~~Li~LryL~L~~t----~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~  642 (889)
T KOG4658|consen  568 RSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDT----GISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQ  642 (889)
T ss_pred             hhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCC----CccccchHHHHHHhhheeccccccccccccchhhhcc
Confidence            36999999999976 46779998 899999999999999    889999999999999999999984 445566667799


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEec-ccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLY-SSRGVRN  159 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~-~~~~~~~  159 (366)
                      +|++|.+.. .... .....+..+.+|++|..-.+...            .......+..+.+|+.+..... .......
T Consensus       643 ~Lr~L~l~~-s~~~-~~~~~l~el~~Le~L~~ls~~~~------------s~~~~e~l~~~~~L~~~~~~l~~~~~~~~~  708 (889)
T KOG4658|consen  643 SLRVLRLPR-SALS-NDKLLLKELENLEHLENLSITIS------------SVLLLEDLLGMTRLRSLLQSLSIEGCSKRT  708 (889)
T ss_pred             cccEEEeec-cccc-cchhhHHhhhcccchhhheeecc------------hhHhHhhhhhhHHHHHHhHhhhhcccccce
Confidence            999999977 3321 12222455566666555444331            1123334444444443322211 1123333


Q ss_pred             ccccccccccccEEEEeccCCCCcCccc-----hh-hhcccCceEecc-cccceeeccccCccccccccCCCCCcEEeEe
Q 040318          160 FLKFPKLLRITQALSISDCEIPLLNVSH-----LA-YMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQCGFRSLHLASIA  232 (366)
Q Consensus       160 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~-----l~-~~~~L~~L~l~~-~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~  232 (366)
                      .......+.+|+.|.+.+|.........     .. .++++..+.+.+ ....+..          +....|+|+.|++.
T Consensus       709 ~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~----------~~~f~~~L~~l~l~  778 (889)
T KOG4658|consen  709 LISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLT----------WLLFAPHLTSLSLV  778 (889)
T ss_pred             eecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccc----------hhhccCcccEEEEe
Confidence            3333445567999999998882211111     11 133333333333 2222211          11356899999999


Q ss_pred             cCCCCccc-ccccCCCCccEEEEEccCCccc-ccccccccccccccccccccccccccccccccccccccCCC----cCC
Q 040318          233 FCSRVKDL-TWLAFAPNLKIIVIMHCDDLEE-IISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGA----LPL  306 (366)
Q Consensus       233 ~~~~l~~l-~~l~~l~~L~~L~L~~c~~~~~-~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~----~~~  306 (366)
                      .|+.+.+. +....+..+..+.+..+....- ...            ..++++++..+.+.+.. +.++.+..    ..+
T Consensus       779 ~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~------------~l~~l~~i~~~~l~~~~-l~~~~ve~~p~l~~~  845 (889)
T KOG4658|consen  779 SCRLLEDIIPKLKALLELKELILPFNKLEGLRMLC------------SLGGLPQLYWLPLSFLK-LEELIVEECPKLGKL  845 (889)
T ss_pred             cccccccCCCHHHHhhhcccEEecccccccceeee------------cCCCCceeEecccCccc-hhheehhcCcccccC
Confidence            99877774 3344455555544433322111 111            56677777777776644 66665554    678


Q ss_pred             CCccEEeccCC-CCCCCCCCCC
Q 040318          307 PQLKEIRVTQC-PKLKTLPLNS  327 (366)
Q Consensus       307 ~~L~~L~l~~c-~~l~~lp~~~  327 (366)
                      |.+.++.+.+| +.+..+|.+.
T Consensus       846 P~~~~~~i~~~~~~~~~~~~~~  867 (889)
T KOG4658|consen  846 PLLSTLTIVGCEEKLKEYPDGE  867 (889)
T ss_pred             ccccccceeccccceeecCCcc
Confidence            99999999997 8888888873

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

Probab=99.37  E-value=2.6e-13  Score=123.59  Aligned_cols=260  Identities=19%  Similarity=0.113  Sum_probs=168.5

Q ss_pred             CCCcCEEEccCCCCCc-----cchhhhhcCCcccEEECCCCCCCCCcCc-------cCccccccccCCEEeccCCCCc-c
Q 040318            5 YSNIPSILELSSNNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTE-------LPSGISSLVSLQHLDVSYTDIR-G   71 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-------l~~~~~~l~~L~~L~l~~~~i~-~   71 (366)
                      +++|+.|++.++.+..     ++.. +...+.|+.|+++++    .+..       ++..+..+++|++|++++|.+. .
T Consensus        22 l~~L~~l~l~~~~l~~~~~~~i~~~-l~~~~~l~~l~l~~~----~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~   96 (319)
T cd00116          22 LLCLQVLRLEGNTLGEEAAKALASA-LRPQPSLKELCLSLN----ETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPD   96 (319)
T ss_pred             HhhccEEeecCCCCcHHHHHHHHHH-HhhCCCceEEecccc----ccCCcchHHHHHHHHHHhcCceeEEEccCCCCChh
Confidence            4568999999998853     4433 667788999999998    4442       2344667889999999999876 3


Q ss_pred             CchhhhcCcc---CCEeeccccccCCC-----cChhhhcCC-CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCC
Q 040318           72 LPHELTALLN---LRYLNLERTYHLSR-----FPPELICSF-SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLK  142 (366)
Q Consensus        72 l~~~i~~l~~---L~~L~L~~c~~~~~-----l~~~~l~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  142 (366)
                      .+..+..+.+   |++|++++| .+..     +... +..+ ++|++|++.+|.+...         ........+..++
T Consensus        97 ~~~~~~~l~~~~~L~~L~ls~~-~~~~~~~~~l~~~-l~~~~~~L~~L~L~~n~l~~~---------~~~~~~~~~~~~~  165 (319)
T cd00116          97 GCGVLESLLRSSSLQELKLNNN-GLGDRGLRLLAKG-LKDLPPALEKLVLGRNRLEGA---------SCEALAKALRANR  165 (319)
T ss_pred             HHHHHHHHhccCcccEEEeeCC-ccchHHHHHHHHH-HHhCCCCceEEEcCCCcCCch---------HHHHHHHHHHhCC
Confidence            4455555555   999999984 4442     2222 5666 8999999999977211         1123455677788


Q ss_pred             CcceEEEEecccccc--ccccccccccccccEEEEeccCCCCcCcc----chhhhcccCceEecccccceeeccccCccc
Q 040318          143 LLNLISFSLYSSRGV--RNFLKFPKLLRITQALSISDCEIPLLNVS----HLAYMEHLKDLVIDNSNLEELKTDCTGEVQ  216 (366)
Q Consensus       143 ~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~~L~l~~~~~~~~~~~----~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~  216 (366)
                      +|+.|+++++...+.  ..+.......++|++|++++|...+....    .+..+++|++|+++++.+.+.+.....  .
T Consensus       166 ~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~--~  243 (319)
T cd00116         166 DLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALA--S  243 (319)
T ss_pred             CcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHH--H
Confidence            999999998766531  11211112235799999999875211111    455678899999999877654332111  0


Q ss_pred             cccccCCCCCcEEeEecCCCCcc-----c-ccccCCCCccEEEEEccCCccccccccccccccccccccccc-ccccccc
Q 040318          217 KVLQCGFRSLHLASIAFCSRVKD-----L-TWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFF-AKLELLD  289 (366)
Q Consensus       217 ~~p~~~~~~L~~L~l~~~~~l~~-----l-~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~-~~L~~L~  289 (366)
                      .++ ...+.|++|++.+| .+++     + ..+..+++|+++++++|...++...        .+...+..+ +.|+.++
T Consensus       244 ~~~-~~~~~L~~L~l~~n-~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~~--------~~~~~~~~~~~~~~~~~  313 (319)
T cd00116         244 ALL-SPNISLLTLSLSCN-DITDDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQ--------LLAESLLEPGNELESLW  313 (319)
T ss_pred             HHh-ccCCCceEEEccCC-CCCcHHHHHHHHHHhcCCCccEEECCCCCCcHHHHH--------HHHHHHhhcCCchhhcc
Confidence            011 13479999999999 5653     1 2344668999999999876654211        111133344 5677666


Q ss_pred             ccc
Q 040318          290 LYH  292 (366)
Q Consensus       290 l~~  292 (366)
                      +.+
T Consensus       314 ~~~  316 (319)
T cd00116         314 VKD  316 (319)
T ss_pred             cCC
Confidence            643

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).

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

Probab=99.35  E-value=3e-14  Score=112.00  Aligned_cols=135  Identities=21%  Similarity=0.306  Sum_probs=122.2

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCc--cCchhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIR--GLPHELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~--~l~~~i~~l~~   81 (366)
                      ++.+|+.|+++.|.++++|.+ ++.++.|+.|++.-|    .+..+|..|+.++-|+.||+.+|++.  .+|..+-.+.-
T Consensus        54 ~l~nlevln~~nnqie~lp~~-issl~klr~lnvgmn----rl~~lprgfgs~p~levldltynnl~e~~lpgnff~m~t  128 (264)
T KOG0617|consen   54 ELKNLEVLNLSNNQIEELPTS-ISSLPKLRILNVGMN----RLNILPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTT  128 (264)
T ss_pred             HhhhhhhhhcccchhhhcChh-hhhchhhhheecchh----hhhcCccccCCCchhhhhhccccccccccCCcchhHHHH
Confidence            578899999999999999999 899999999999999    78889999999999999999999876  78888889999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccc
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRN  159 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  159 (366)
                      |+.|++++ +.+..+|.+ ++++++|+.|.+..|.+              -..+..++.+.+|++|.+.++.....+.
T Consensus       129 lralyl~d-ndfe~lp~d-vg~lt~lqil~lrdndl--------------l~lpkeig~lt~lrelhiqgnrl~vlpp  190 (264)
T KOG0617|consen  129 LRALYLGD-NDFEILPPD-VGKLTNLQILSLRDNDL--------------LSLPKEIGDLTRLRELHIQGNRLTVLPP  190 (264)
T ss_pred             HHHHHhcC-CCcccCChh-hhhhcceeEEeeccCch--------------hhCcHHHHHHHHHHHHhcccceeeecCh
Confidence            99999999 888899998 99999999999999876              4678889999999999999888766543

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

Probab=99.34  E-value=2.5e-14  Score=127.03  Aligned_cols=260  Identities=17%  Similarity=0.142  Sum_probs=142.2

Q ss_pred             cccEEECCCCCCCCCcCcc--CccccccccCCEEeccCC-CCc--cCchhhhcCccCCEeeccccccCCCcChh-hhcCC
Q 040318           31 SWTCLDNGPSRIKNSLTEL--PSGISSLVSLQHLDVSYT-DIR--GLPHELTALLNLRYLNLERTYHLSRFPPE-LICSF  104 (366)
Q Consensus        31 ~L~~L~l~~~~~~~~~~~l--~~~~~~l~~L~~L~l~~~-~i~--~l~~~i~~l~~L~~L~L~~c~~~~~l~~~-~l~~l  104 (366)
                      -|+.|.++++.   ....-  -.....++++++|++.+| .++  .+-..-.++.+|+++++..|..+++.... +...+
T Consensus       139 ~lk~LSlrG~r---~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC  215 (483)
T KOG4341|consen  139 FLKELSLRGCR---AVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGC  215 (483)
T ss_pred             ccccccccccc---cCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhh
Confidence            46777777774   33322  223445777777777777 444  22233456777777777777666664433 23457


Q ss_pred             CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcC
Q 040318          105 SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLN  184 (366)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~  184 (366)
                      ++|++|++++|...+.           ..+-......+.++.+...++.....+.+.....++..+..+++.+|...++.
T Consensus       216 ~kL~~lNlSwc~qi~~-----------~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~  284 (483)
T KOG4341|consen  216 RKLKYLNLSWCPQISG-----------NGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDE  284 (483)
T ss_pred             hhHHHhhhccCchhhc-----------CcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccch
Confidence            7777777777754221           11222234445555555555544444455544445555555666666553333


Q ss_pred             cc--chhhhcccCceEecc-cccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--ccc-CCCCccEEEEEccC
Q 040318          185 VS--HLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLA-FAPNLKIIVIMHCD  258 (366)
Q Consensus       185 ~~--~l~~~~~L~~L~l~~-~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~-~l~~L~~L~L~~c~  258 (366)
                      ..  .-..+..|+.+...+ ..+.+......+       ..+++|+.|.+..|..+++..  .++ +.+.|+.+++..|.
T Consensus       285 ~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg-------~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~  357 (483)
T KOG4341|consen  285 DLWLIACGCHALQVLCYSSCTDITDEVLWALG-------QHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECG  357 (483)
T ss_pred             HHHHHhhhhhHhhhhcccCCCCCchHHHHHHh-------cCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccc
Confidence            32  223455666666655 334444333333       456777777777776666532  233 56667777766666


Q ss_pred             Ccccccccccccccccccccccccccccccccccccccccc-----cCCCcCCCCccEEeccCCCCCC
Q 040318          259 DLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSI-----YQGALPLPQLKEIRVTQCPKLK  321 (366)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~-----~~~~~~~~~L~~L~l~~c~~l~  321 (366)
                      .+.+..          +.....++|.||++.+++|...++.     .....++..|+.+++++||.++
T Consensus       358 ~~~d~t----------L~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~  415 (483)
T KOG4341|consen  358 LITDGT----------LASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLIT  415 (483)
T ss_pred             eehhhh----------HhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCch
Confidence            555431          1113345677777777766655444     2223345566666777776666

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

Probab=99.23  E-value=2.7e-13  Score=120.52  Aligned_cols=287  Identities=15%  Similarity=0.123  Sum_probs=193.5

Q ss_pred             CcCEEEccCCCCCc--cchhhhhcCCcccEEECCCCCCCCCcCcc--CccccccccCCEEeccCC-CCcc--CchhhhcC
Q 040318            7 NIPSILELSSNNKV--FEPSWFLSRASWTCLDNGPSRIKNSLTEL--PSGISSLVSLQHLDVSYT-DIRG--LPHELTAL   79 (366)
Q Consensus         7 ~L~~L~l~~~~~~~--l~~~~~~~~~~L~~L~l~~~~~~~~~~~l--~~~~~~l~~L~~L~l~~~-~i~~--l~~~i~~l   79 (366)
                      .|+.|.++|+.-..  -...+..++|+++.|++.+|.   .+++.  ...-..|++|++|++..| .++.  +-.....+
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~---~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC  215 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCK---KITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGC  215 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcce---eccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhh
Confidence            47888888775432  223346789999999999996   55542  222345999999999997 6663  33345679


Q ss_pred             ccCCEeeccccccCCC--cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           80 LNLRYLNLERTYHLSR--FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~~--l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      ++|++++++.|..+..  +.. ...++..++.+...+|.-..           ...+...=....-+..+++..+...+.
T Consensus       216 ~kL~~lNlSwc~qi~~~gv~~-~~rG~~~l~~~~~kGC~e~~-----------le~l~~~~~~~~~i~~lnl~~c~~lTD  283 (483)
T KOG4341|consen  216 RKLKYLNLSWCPQISGNGVQA-LQRGCKELEKLSLKGCLELE-----------LEALLKAAAYCLEILKLNLQHCNQLTD  283 (483)
T ss_pred             hhHHHhhhccCchhhcCcchH-Hhccchhhhhhhhccccccc-----------HHHHHHHhccChHhhccchhhhccccc
Confidence            9999999999988765  323 36678888888888874311           112222223334445555444433222


Q ss_pred             ccccccccccccccEEEEeccCCCCcCcc-chh-hhcccCceEecc-cccceeeccccCccccccccCCCCCcEEeEecC
Q 040318          158 RNFLKFPKLLRITQALSISDCEIPLLNVS-HLA-YMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFC  234 (366)
Q Consensus       158 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~l~-~~~~L~~L~l~~-~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~  234 (366)
                      ..+-....++..|+.+..++|...+.... .++ .+.+|+.+.+.. .++.+.++-.++       ..++.|+.+++..|
T Consensus       284 ~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~-------rn~~~Le~l~~e~~  356 (483)
T KOG4341|consen  284 EDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLG-------RNCPHLERLDLEEC  356 (483)
T ss_pred             hHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhh-------cCChhhhhhccccc
Confidence            22333334566789999999988444433 443 567899999987 567666665555       57899999999999


Q ss_pred             CCCccc--c-cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCC-CcCCCCcc
Q 040318          235 SRVKDL--T-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-ALPLPQLK  310 (366)
Q Consensus       235 ~~l~~l--~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~L~  310 (366)
                      ..+++.  . ...+++.|+++.+++|..+++...       ..+.....+...|+.+.+++|+..++-... ...+++|+
T Consensus       357 ~~~~d~tL~sls~~C~~lr~lslshce~itD~gi-------~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Le  429 (483)
T KOG4341|consen  357 GLITDGTLASLSRNCPRLRVLSLSHCELITDEGI-------RHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLE  429 (483)
T ss_pred             ceehhhhHhhhccCCchhccCChhhhhhhhhhhh-------hhhhhccccccccceeeecCCCCchHHHHHHHhhCcccc
Confidence            766553  2 233789999999999998887622       112224456778999999999887665433 44588999


Q ss_pred             EEeccCCCCCCC
Q 040318          311 EIRVTQCPKLKT  322 (366)
Q Consensus       311 ~L~l~~c~~l~~  322 (366)
                      .+++.+|..+++
T Consensus       430 ri~l~~~q~vtk  441 (483)
T KOG4341|consen  430 RIELIDCQDVTK  441 (483)
T ss_pred             eeeeechhhhhh
Confidence            999999988875

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

Probab=99.16  E-value=4e-11  Score=97.76  Aligned_cols=131  Identities=20%  Similarity=0.194  Sum_probs=51.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhh-cCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhh-hcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFL-SRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHEL-TALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~-~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i-~~l~~   81 (366)
                      ++..++.|+|.++.|..+..  .+ .+.+|+.|++++|    .++.++. +..++.|+.|++++|.++.+...+ ..+++
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~   89 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIEN--LGATLDKLEVLDLSNN----QITKLEG-LPGLPRLKTLDLSNNRISSISEGLDKNLPN   89 (175)
T ss_dssp             -------------------S----TT-TT--EEE-TTS------S--TT-----TT--EEE--SS---S-CHHHHHH-TT
T ss_pred             cccccccccccccccccccc--hhhhhcCCCEEECCCC----CCccccC-ccChhhhhhcccCCCCCCccccchHHhCCc
Confidence            45568889999998887754  34 5788999999999    7788764 777899999999999888886555 46889


Q ss_pred             CCEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEec
Q 040318           82 LRYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLY  152 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  152 (366)
                      |++|++++ +.+.++.. ..+..+++|+.|++.+|++...          ...-...+..+|+|+.|+-...
T Consensus        90 L~~L~L~~-N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~----------~~YR~~vi~~lP~Lk~LD~~~V  150 (175)
T PF14580_consen   90 LQELYLSN-NKISDLNELEPLSSLPKLRVLSLEGNPVCEK----------KNYRLFVIYKLPSLKVLDGQDV  150 (175)
T ss_dssp             --EEE-TT-S---SCCCCGGGGG-TT--EEE-TT-GGGGS----------TTHHHHHHHH-TT-SEETTEET
T ss_pred             CCEEECcC-CcCCChHHhHHHHcCCCcceeeccCCcccch----------hhHHHHHHHHcChhheeCCEEc
Confidence            99999988 77766432 2267788999999998876221          2233445566677777766543

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

Probab=99.15  E-value=1e-11  Score=111.17  Aligned_cols=213  Identities=16%  Similarity=0.114  Sum_probs=152.0

Q ss_pred             hhcCCcccEEECCCCCCCCCcCccCc--cccccccCCEEeccCCCCc---cCchhhhcCccCCEeeccccccCCCcChhh
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTELPS--GISSLVSLQHLDVSYTDIR---GLPHELTALLNLRYLNLERTYHLSRFPPEL  100 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l~~--~~~~l~~L~~L~l~~~~i~---~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~  100 (366)
                      -++++.|+...+.++    .+...+.  ....|++++.|||++|-+.   .+-..+.++++|+.|+++. +.+.....+.
T Consensus       117 Qsn~kkL~~IsLdn~----~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~-Nrl~~~~~s~  191 (505)
T KOG3207|consen  117 QSNLKKLREISLDNY----RVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSS-NRLSNFISSN  191 (505)
T ss_pred             hhhHHhhhheeecCc----cccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhccccc-ccccCCcccc
Confidence            567889999999999    6776663  5677999999999999655   3345668899999999998 6665543321


Q ss_pred             -hcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccC
Q 040318          101 -ICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCE  179 (366)
Q Consensus       101 -l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  179 (366)
                       -..++.|+.|.++.|++            ....+...+..++.|+.|.++.+.......  .....+..|++|+|++..
T Consensus       192 ~~~~l~~lK~L~l~~CGl------------s~k~V~~~~~~fPsl~~L~L~~N~~~~~~~--~~~~i~~~L~~LdLs~N~  257 (505)
T KOG3207|consen  192 TTLLLSHLKQLVLNSCGL------------SWKDVQWILLTFPSLEVLYLEANEIILIKA--TSTKILQTLQELDLSNNN  257 (505)
T ss_pred             chhhhhhhheEEeccCCC------------CHHHHHHHHHhCCcHHHhhhhcccccceec--chhhhhhHHhhccccCCc
Confidence             23578999999999988            234666777888999999999875322221  122334559999999998


Q ss_pred             CCCcCcc-chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccc---cCCCCccEEEEE
Q 040318          180 IPLLNVS-HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWL---AFAPNLKIIVIM  255 (366)
Q Consensus       180 ~~~~~~~-~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l---~~l~~L~~L~L~  255 (366)
                      ..+.... ..+.++.|+.|++..+++.++..-..+  +.--...|++|++|++..+ .+.+++.+   ..+++|+.|.+.
T Consensus       258 li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~--s~~kt~~f~kL~~L~i~~N-~I~~w~sl~~l~~l~nlk~l~~~  334 (505)
T KOG3207|consen  258 LIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVE--SLDKTHTFPKLEYLNISEN-NIRDWRSLNHLRTLENLKHLRIT  334 (505)
T ss_pred             ccccccccccccccchhhhhccccCcchhcCCCcc--chhhhcccccceeeecccC-ccccccccchhhccchhhhhhcc
Confidence            8555555 678899999999998888776541110  0000157899999999988 56555544   456788888876


Q ss_pred             ccCCc
Q 040318          256 HCDDL  260 (366)
Q Consensus       256 ~c~~~  260 (366)
                      .++.-
T Consensus       335 ~n~ln  339 (505)
T KOG3207|consen  335 LNYLN  339 (505)
T ss_pred             ccccc
Confidence            65543

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

Probab=99.13  E-value=1.3e-12  Score=115.49  Aligned_cols=240  Identities=17%  Similarity=0.117  Sum_probs=148.3

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccC-chhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~   81 (366)
                      .+++||+|+|+.|+|+.|.+..|+.++.|..|-+.+++   .++++|.. |..+..|+-|.+..|++..+ ...+..+++
T Consensus        89 ~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~N---kI~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~  165 (498)
T KOG4237|consen   89 TLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNN---KITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPS  165 (498)
T ss_pred             chhhhceecccccchhhcChHhhhhhHhhhHHHhhcCC---chhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhh
Confidence            67899999999999999999989999999888777743   99999875 77799999999999988854 457889999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCC--------------------
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCL--------------------  141 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l--------------------  141 (366)
                      |..|.+.+ +.+..++...+..+..++++++..+.+.....+........ ..+..++..                    
T Consensus       166 l~lLslyD-n~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a-~~~ietsgarc~~p~rl~~~Ri~q~~a~k  243 (498)
T KOG4237|consen  166 LSLLSLYD-NKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLA-MNPIETSGARCVSPYRLYYKRINQEDARK  243 (498)
T ss_pred             cchhcccc-hhhhhhccccccchhccchHhhhcCccccccccchhhhHHh-hchhhcccceecchHHHHHHHhcccchhh
Confidence            99999999 88888887668899999999988877422211100000000 000000000                    


Q ss_pred             --CCcceE--EEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCcccc
Q 040318          142 --KLLNLI--SFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQK  217 (366)
Q Consensus       142 --~~L~~L--~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~  217 (366)
                        ..++.+  .+......+...-......+++|+.|+++++....+....+.....++.|.+..|+++.+...++     
T Consensus       244 f~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f-----  318 (498)
T KOG4237|consen  244 FLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMF-----  318 (498)
T ss_pred             hhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhh-----
Confidence              000000  00000000000000112334556666666666522333366666677777777777766665555     


Q ss_pred             ccccCCCCCcEEeEecCCCCccccc--ccCCCCccEEEEEcc
Q 040318          218 VLQCGFRSLHLASIAFCSRVKDLTW--LAFAPNLKIIVIMHC  257 (366)
Q Consensus       218 ~p~~~~~~L~~L~l~~~~~l~~l~~--l~~l~~L~~L~L~~c  257 (366)
                         .++..|+.|++.++ .++.+.+  +..+..|..|.+-.+
T Consensus       319 ---~~ls~L~tL~L~~N-~it~~~~~aF~~~~~l~~l~l~~N  356 (498)
T KOG4237|consen  319 ---QGLSGLKTLSLYDN-QITTVAPGAFQTLFSLSTLNLLSN  356 (498)
T ss_pred             ---hccccceeeeecCC-eeEEEecccccccceeeeeehccC
Confidence               35666777777776 5665443  234555666665543

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

Probab=99.03  E-value=8.2e-11  Score=95.92  Aligned_cols=119  Identities=18%  Similarity=0.207  Sum_probs=41.8

Q ss_pred             CCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcccc-ccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCC
Q 040318           16 SNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGIS-SLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLS   94 (366)
Q Consensus        16 ~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~-~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~   94 (366)
                      +.|++.+.  +.+...+++|+++++    .++.+.. ++ .+.+|+.|++++|+++.+. .+..++.|++|++++ +.++
T Consensus         7 ~~i~~~~~--~~n~~~~~~L~L~~n----~I~~Ie~-L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~-N~I~   77 (175)
T PF14580_consen    7 NMIEQIAQ--YNNPVKLRELNLRGN----QISTIEN-LGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSN-NRIS   77 (175)
T ss_dssp             -----------------------------------S---TT-TT--EEE-TTS--S--T-T----TT--EEE--S-S---
T ss_pred             cccccccc--ccccccccccccccc----ccccccc-hhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCC-CCCC
Confidence            34555555  466778899999999    7787754 65 5789999999999999885 688899999999999 8999


Q ss_pred             CcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           95 RFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        95 ~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      ++...+...+++|++|++.+|.+...            .....+..+++|+.|++.++...
T Consensus        78 ~i~~~l~~~lp~L~~L~L~~N~I~~l------------~~l~~L~~l~~L~~L~L~~NPv~  126 (175)
T PF14580_consen   78 SISEGLDKNLPNLQELYLSNNKISDL------------NELEPLSSLPKLRVLSLEGNPVC  126 (175)
T ss_dssp             S-CHHHHHH-TT--EEE-TTS---SC------------CCCGGGGG-TT--EEE-TT-GGG
T ss_pred             ccccchHHhCCcCCEEECcCCcCCCh------------HHhHHHHcCCCcceeeccCCccc
Confidence            88765234689999999999987333            23456677788888888776654

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

Probab=98.95  E-value=1.5e-11  Score=105.10  Aligned_cols=62  Identities=18%  Similarity=0.120  Sum_probs=40.3

Q ss_pred             CCCCCcEEeEecCCCCcc--cccccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccc
Q 040318          222 GFRSLHLASIAFCSRVKD--LTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAE  294 (366)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~--l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  294 (366)
                      .||+|.+|++++|..+++  +..+.+++.|++|.++.|+.+.....           -.+...|.|.+|++.+|-
T Consensus       311 rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~-----------~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETL-----------LELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             hCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHe-----------eeeccCcceEEEEecccc
Confidence            677888888887776666  33455677777777777776543211           145566777777776653

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

Probab=98.90  E-value=3.5e-10  Score=101.49  Aligned_cols=135  Identities=15%  Similarity=0.035  Sum_probs=57.9

Q ss_pred             CCCCcCEEEccCCCCCcc--chhhhhcCCcccEEECCCCCCCCCcCccC-cc-ccccccCCEEeccCCCCc--cCchhhh
Q 040318            4 RYSNIPSILELSSNNKVF--EPSWFLSRASWTCLDNGPSRIKNSLTELP-SG-ISSLVSLQHLDVSYTDIR--GLPHELT   77 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l--~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~-~~~l~~L~~L~l~~~~i~--~l~~~i~   77 (366)
                      .|++++.|+|++|-+...  -..+...+|+|+.|+++.|.    +.-.- .. -..+++|+.|.+++|+++  .+-..+.
T Consensus       144 ~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nr----l~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~  219 (505)
T KOG3207|consen  144 ILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNR----LSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILL  219 (505)
T ss_pred             hCCcceeecchhhhHHhHHHHHHHHHhcccchhccccccc----ccCCccccchhhhhhhheEEeccCCCCHHHHHHHHH
Confidence            455555555555544321  12234445555555555552    22111 10 112455555555555554  2222233


Q ss_pred             cCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           78 ALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        78 ~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      .+++|+.|++..++.+.....+ ..-++.|+.|++++|.+..+            ......+.++.|+.|.++.++..
T Consensus       220 ~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs~N~li~~------------~~~~~~~~l~~L~~Lnls~tgi~  284 (505)
T KOG3207|consen  220 TFPSLEVLYLEANEIILIKATS-TKILQTLQELDLSNNNLIDF------------DQGYKVGTLPGLNQLNLSSTGIA  284 (505)
T ss_pred             hCCcHHHhhhhcccccceecch-hhhhhHHhhccccCCccccc------------ccccccccccchhhhhccccCcc
Confidence            4555555555552222111111 22344555555555544222            22233445555555555544433

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

Probab=98.88  E-value=2.9e-10  Score=97.51  Aligned_cols=130  Identities=13%  Similarity=0.074  Sum_probs=105.3

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      .|+.++|++|.|+.+.++ ..-.|.+++|++|+|    .+..+.. +..+++|+.||+++|.++.+..+-.++-|++.|.
T Consensus       285 ~LtelDLS~N~I~~iDES-vKL~Pkir~L~lS~N----~i~~v~n-La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  285 ELTELDLSGNLITQIDES-VKLAPKLRRLILSQN----RIRTVQN-LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             hhhhccccccchhhhhhh-hhhccceeEEecccc----ceeeehh-hhhcccceEeecccchhHhhhhhHhhhcCEeeee
Confidence            477899999999988888 778899999999999    6666655 7788999999999998887766667788999999


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      |+. +.+.++..  +.++-+|..|++.+|.+.            .......+++++.|+.+.+.++.....
T Consensus       359 La~-N~iE~LSG--L~KLYSLvnLDl~~N~Ie------------~ldeV~~IG~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  359 LAQ-NKIETLSG--LRKLYSLVNLDLSSNQIE------------ELDEVNHIGNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             hhh-hhHhhhhh--hHhhhhheeccccccchh------------hHHHhcccccccHHHHHhhcCCCcccc
Confidence            998 78877766  788888999999999772            224456688889999998887766543

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

Probab=98.86  E-value=5.6e-10  Score=97.58  Aligned_cols=248  Identities=17%  Similarity=0.144  Sum_probs=132.6

Q ss_pred             hhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCC---Cc-cCchh-------hhcCccCCEeeccc
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTD---IR-GLPHE-------LTALLNLRYLNLER   89 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~---i~-~l~~~-------i~~l~~L~~L~L~~   89 (366)
                      ...+..+..+++++|    .++.     +...+...++|+..++++--   .. .+|..       +..++.|++++|++
T Consensus        26 ~~~~~s~~~l~lsgn----t~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSD  101 (382)
T KOG1909|consen   26 LEPMDSLTKLDLSGN----TFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSD  101 (382)
T ss_pred             hcccCceEEEeccCC----chhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccc
Confidence            445677888888888    4442     33345566778887777641   11 34433       34566888888888


Q ss_pred             cccCCC--cC--hhhhcCCCCCcEEEccCCCCCCccc--cccccccchHHHHHhhcCCCCcceEEEEeccccccc--ccc
Q 040318           90 TYHLSR--FP--PELICSFSKLEVLRMLESGADSTAE--QGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR--NFL  161 (366)
Q Consensus        90 c~~~~~--l~--~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~  161 (366)
                       +.+..  ++  .+++.+++.|++|.+.+|++....+  ++....+  -...+..+.-+.|+.+....+...+.+  .+.
T Consensus       102 -NA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~--l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A  178 (382)
T KOG1909|consen  102 -NAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFE--LAVNKKAASKPKLRVFICGRNRLENGGATALA  178 (382)
T ss_pred             -cccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHH--HHHHhccCCCcceEEEEeeccccccccHHHHH
Confidence             54443  22  2457778888888888887632210  0000000  002233455677787777766654433  233


Q ss_pred             ccccccccccEEEEeccCCCCcCc--c--chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCC
Q 040318          162 KFPKLLRITQALSISDCEIPLLNV--S--HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRV  237 (366)
Q Consensus       162 ~~~~~~~~L~~L~l~~~~~~~~~~--~--~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l  237 (366)
                      ...+..+.|+.+.+.......-..  .  .+..+++|+.|++..|.++.-+....+  .  +-+.+++|+.|++++| .+
T Consensus       179 ~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~La--k--aL~s~~~L~El~l~dc-ll  253 (382)
T KOG1909|consen  179 EAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALA--K--ALSSWPHLRELNLGDC-LL  253 (382)
T ss_pred             HHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHH--H--Hhcccchheeeccccc-cc
Confidence            333334456666666555422222  1  566677777777777665543322111  0  1135667777777777 44


Q ss_pred             cccc------c-ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          238 KDLT------W-LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       238 ~~l~------~-l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      .+=.      . -...|.|+.|.+.+|..-.+...        .+.......|.|+.|++++|
T Consensus       254 ~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~--------~la~~~~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  254 ENEGAIAFVDALKESAPSLEVLELAGNEITRDAAL--------ALAACMAEKPDLEKLNLNGN  308 (382)
T ss_pred             ccccHHHHHHHHhccCCCCceeccCcchhHHHHHH--------HHHHHHhcchhhHHhcCCcc
Confidence            4411      0 11356666666666654443221        11112233566666666654

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

Probab=98.79  E-value=7.5e-10  Score=102.53  Aligned_cols=152  Identities=24%  Similarity=0.281  Sum_probs=127.3

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++..|++|+|+.|.+..+|.. +..++ |++|-+++|    +++.+|..++.+..|..||.+.|++..+|..++++.+|+
T Consensus       119 ~L~~lt~l~ls~NqlS~lp~~-lC~lp-Lkvli~sNN----kl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr  192 (722)
T KOG0532|consen  119 NLEALTFLDLSSNQLSHLPDG-LCDLP-LKVLIVSNN----KLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLR  192 (722)
T ss_pred             hhhHHHHhhhccchhhcCChh-hhcCc-ceeEEEecC----ccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHH
Confidence            466788999999999999998 56666 899999999    889999999999999999999999999999999999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      .|++.. +.+.++|.+ +. .-.|..||++.|++              ..++-.+..|++|++|-+..+....-+.-...
T Consensus       193 ~l~vrR-n~l~~lp~E-l~-~LpLi~lDfScNki--------------s~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~  255 (722)
T KOG0532|consen  193 DLNVRR-NHLEDLPEE-LC-SLPLIRLDFSCNKI--------------SYLPVDFRKMRHLQVLQLENNPLQSPPAQICE  255 (722)
T ss_pred             HHHHhh-hhhhhCCHH-Hh-CCceeeeecccCce--------------eecchhhhhhhhheeeeeccCCCCCChHHHHh
Confidence            999999 888999998 66 45599999999876              45677889999999999999988776654444


Q ss_pred             ccccccccEEEEecc
Q 040318          164 PKLLRITQALSISDC  178 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~  178 (366)
                      .+...-.+.|++..|
T Consensus       256 kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  256 KGKVHIFKYLSTQAC  270 (722)
T ss_pred             ccceeeeeeecchhc
Confidence            444444567777766

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

Probab=98.79  E-value=1.1e-08  Score=96.16  Aligned_cols=176  Identities=24%  Similarity=0.335  Sum_probs=93.8

Q ss_pred             cCCcccEEECCCCCCCCCcCccCccccccc-cCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCC
Q 040318           28 SRASWTCLDNGPSRIKNSLTELPSGISSLV-SLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSK  106 (366)
Q Consensus        28 ~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~-~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~  106 (366)
                      ..+.+..|++.++    .+.+++....... +|+.|++++|.+..+|..+..+++|+.|++++ +.+.+++.. ...+++
T Consensus       114 ~~~~l~~L~l~~n----~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~-N~l~~l~~~-~~~~~~  187 (394)
T COG4886         114 ELTNLTSLDLDNN----NITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSF-NDLSDLPKL-LSNLSN  187 (394)
T ss_pred             cccceeEEecCCc----ccccCccccccchhhcccccccccchhhhhhhhhccccccccccCC-chhhhhhhh-hhhhhh
Confidence            3445555555555    5555555444442 55555555555555544555555555555555 455555542 335555


Q ss_pred             CcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCcc
Q 040318          107 LEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVS  186 (366)
Q Consensus       107 L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~  186 (366)
                      |+.|++.++.+                                     ..++...   .....|+++.+.+...  ....
T Consensus       188 L~~L~ls~N~i-------------------------------------~~l~~~~---~~~~~L~~l~~~~N~~--~~~~  225 (394)
T COG4886         188 LNNLDLSGNKI-------------------------------------SDLPPEI---ELLSALEELDLSNNSI--IELL  225 (394)
T ss_pred             hhheeccCCcc-------------------------------------ccCchhh---hhhhhhhhhhhcCCcc--eecc
Confidence            55555555544                                     3322211   1122244444444422  2222


Q ss_pred             -chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccCCcc
Q 040318          187 -HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLE  261 (366)
Q Consensus       187 -~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~  261 (366)
                       .+..+.++..+.+.++++..+..         ....++.++.|++.++ .+++++.++.+.+++.|+++++....
T Consensus       226 ~~~~~~~~l~~l~l~~n~~~~~~~---------~~~~l~~l~~L~~s~n-~i~~i~~~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         226 SSLSNLKNLSGLELSNNKLEDLPE---------SIGNLSNLETLDLSNN-QISSISSLGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             hhhhhcccccccccCCceeeeccc---------hhccccccceeccccc-cccccccccccCccCEEeccCccccc
Confidence             44555666666665565554211         1135666888888777 67777667777788888887765443

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

Probab=98.78  E-value=3.5e-09  Score=99.42  Aligned_cols=128  Identities=30%  Similarity=0.369  Sum_probs=104.8

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCC-cccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRA-SWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~-~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+.++.|++.++.+.++++. ...++ +|+.|+++++    .+..+|..+..+++|+.|++++|++..+|...+..++|+
T Consensus       115 ~~~l~~L~l~~n~i~~i~~~-~~~~~~nL~~L~l~~N----~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~  189 (394)
T COG4886         115 LTNLTSLDLDNNNITDIPPL-IGLLKSNLKELDLSDN----KIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLN  189 (394)
T ss_pred             ccceeEEecCCcccccCccc-cccchhhccccccccc----chhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhh
Confidence            46789999999999999886 55564 9999999999    889998778999999999999999999988777899999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS  153 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  153 (366)
                      .|++++ +.+..+|.. +..+..|++|.+.++..              ...+..+..+.++..+.+..+.
T Consensus       190 ~L~ls~-N~i~~l~~~-~~~~~~L~~l~~~~N~~--------------~~~~~~~~~~~~l~~l~l~~n~  243 (394)
T COG4886         190 NLDLSG-NKISDLPPE-IELLSALEELDLSNNSI--------------IELLSSLSNLKNLSGLELSNNK  243 (394)
T ss_pred             heeccC-CccccCchh-hhhhhhhhhhhhcCCcc--------------eecchhhhhcccccccccCCce
Confidence            999999 899999985 56778899999999843              1344455566666666554443

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

Probab=98.78  E-value=1.8e-10  Score=98.64  Aligned_cols=182  Identities=20%  Similarity=0.148  Sum_probs=92.9

Q ss_pred             cCCEEeccCCCCc--cCchhhhcCccCCEeeccccccCCC-cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHH
Q 040318           58 SLQHLDVSYTDIR--GLPHELTALLNLRYLNLERTYHLSR-FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPL  134 (366)
Q Consensus        58 ~L~~L~l~~~~i~--~l~~~i~~l~~L~~L~L~~c~~~~~-l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~  134 (366)
                      .|++|||+...++  .+...++.|..|+.|.+.+ ..+.+ +... +.+-.+|+.|+++.|...+           ....
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg-~~LdD~I~~~-iAkN~~L~~lnlsm~sG~t-----------~n~~  252 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEG-LRLDDPIVNT-IAKNSNLVRLNLSMCSGFT-----------ENAL  252 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccc-cccCcHHHHH-Hhccccceeeccccccccc-----------hhHH
Confidence            3566666665544  3334455556666666655 33332 3232 4444556666665553311           1122


Q ss_pred             HHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCC-CcCcc--chhhhcccCceEecc-cccceeecc
Q 040318          135 MKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIP-LLNVS--HLAYMEHLKDLVIDN-SNLEELKTD  210 (366)
Q Consensus       135 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~~--~l~~~~~L~~L~l~~-~~l~~l~~~  210 (366)
                      --.+.+++.|..|+++++.......-......-++|+.|+++++... .....  -...+|+|-.|+++. ..++.-.+.
T Consensus       253 ~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~  332 (419)
T KOG2120|consen  253 QLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQ  332 (419)
T ss_pred             HHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHH
Confidence            22345556666666665554332222222233344566666655441 01111  234566777777765 222221010


Q ss_pred             ccCccccccccCCCCCcEEeEecCCCCcc--cccccCCCCccEEEEEccCCc
Q 040318          211 CTGEVQKVLQCGFRSLHLASIAFCSRVKD--LTWLAFAPNLKIIVIMHCDDL  260 (366)
Q Consensus       211 ~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--l~~l~~l~~L~~L~L~~c~~~  260 (366)
                      .+        -.|+.|++|+++.|..+.-  +-.+...|.|++|++.+|-.-
T Consensus       333 ~~--------~kf~~L~~lSlsRCY~i~p~~~~~l~s~psl~yLdv~g~vsd  376 (419)
T KOG2120|consen  333 EF--------FKFNYLQHLSLSRCYDIIPETLLELNSKPSLVYLDVFGCVSD  376 (419)
T ss_pred             HH--------HhcchheeeehhhhcCCChHHeeeeccCcceEEEEeccccCc
Confidence            01        3678888888888875543  334567888999988887544

>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=98.78  E-value=6e-09  Score=69.89  Aligned_cols=60  Identities=25%  Similarity=0.343  Sum_probs=48.9

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDI   69 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i   69 (366)
                      |+|++|++++|.+..++...|..+++|++|++++|    .++.++. .+..+++|++|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N----~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN----NLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSS----SESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC----ccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            57888888888888888777888888888888888    7777754 567788888888888864

...

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

Probab=98.74  E-value=4.8e-10  Score=103.77  Aligned_cols=174  Identities=20%  Similarity=0.183  Sum_probs=138.9

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +......+++.|.+..+|.. +..|..|+.+.++.|    .+-.+|..+..+..|.+||++.|++..+|..+..++ |+.
T Consensus        74 ltdt~~aDlsrNR~~elp~~-~~~f~~Le~liLy~n----~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkv  147 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSELPEE-ACAFVSLESLILYHN----CIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKV  147 (722)
T ss_pred             ccchhhhhccccccccCchH-HHHHHHHHHHHHHhc----cceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-cee
Confidence            44456678888999888888 788889999999988    778899889999999999999999999988887765 788


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |-+++ ++++.+|.+ ++.+..|.+|+.+.|.+              ...+..++.+..|+.|.+..+....++.-....
T Consensus       148 li~sN-Nkl~~lp~~-ig~~~tl~~ld~s~nei--------------~slpsql~~l~slr~l~vrRn~l~~lp~El~~L  211 (722)
T KOG0532|consen  148 LIVSN-NKLTSLPEE-IGLLPTLAHLDVSKNEI--------------QSLPSQLGYLTSLRDLNVRRNHLEDLPEELCSL  211 (722)
T ss_pred             EEEec-CccccCCcc-cccchhHHHhhhhhhhh--------------hhchHHhhhHHHHHHHHHhhhhhhhCCHHHhCC
Confidence            88888 889999988 88889999999999865              567788888888998888887777665433221


Q ss_pred             cccccccEEEEeccCCCCcCc-cchhhhcccCceEecccccce
Q 040318          165 KLLRITQALSISDCEIPLLNV-SHLAYMEHLKDLVIDNSNLEE  206 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~-~~l~~~~~L~~L~l~~~~l~~  206 (366)
                         + |..|+++.++.  ... ..+..|++|++|.+.+|-+..
T Consensus       212 ---p-Li~lDfScNki--s~iPv~fr~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  212 ---P-LIRLDFSCNKI--SYLPVDFRKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             ---c-eeeeecccCce--eecchhhhhhhhheeeeeccCCCCC
Confidence               1 77888877665  322 278889999999998876653

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

Probab=98.69  E-value=4.3e-09  Score=92.10  Aligned_cols=242  Identities=16%  Similarity=0.102  Sum_probs=160.8

Q ss_pred             CCCCcCEEEccCCCCCc-----cchhhhhcCCcccEEECCCCCCCCCcCccCcc-------ccccccCCEEeccCCCCc-
Q 040318            4 RYSNIPSILELSSNNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-------ISSLVSLQHLDVSYTDIR-   70 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-------~~~l~~L~~L~l~~~~i~-   70 (366)
                      .+..++.++|+||.+..     +... +.+-+.|+..++++-.----..++|..       +-.++.|++|+||.|-+. 
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~-L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKV-LASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHH-HhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            35678899999998863     3333 667789999998865200011234443       335779999999999544 


Q ss_pred             ----cCchhhhcCccCCEeeccccccCCCcChh-------------hhcCCCCCcEEEccCCCCCCccccccccccchHH
Q 040318           71 ----GLPHELTALLNLRYLNLERTYHLSRFPPE-------------LICSFSKLEVLRMLESGADSTAEQGSVLSEDAEP  133 (366)
Q Consensus        71 ----~l~~~i~~l~~L~~L~L~~c~~~~~l~~~-------------~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  133 (366)
                          .+-..++.+..|++|.|.+| .+.....+             .+.+-++|+.+...+|+....         ....
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~-Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~---------ga~~  176 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNC-GLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENG---------GATA  176 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcC-CCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccc---------cHHH
Confidence                23335678899999999985 44432211             145567899999999877332         1234


Q ss_pred             HHHhhcCCCCcceEEEEeccccccc--cccccccccccccEEEEeccCCCCcCcc----chhhhcccCceEeccccccee
Q 040318          134 LMKELLCLKLLNLISFSLYSSRGVR--NFLKFPKLLRITQALSISDCEIPLLNVS----HLAYMEHLKDLVIDNSNLEEL  207 (366)
Q Consensus       134 ~~~~l~~l~~L~~L~l~~~~~~~~~--~~~~~~~~~~~L~~L~l~~~~~~~~~~~----~l~~~~~L~~L~l~~~~l~~l  207 (366)
                      ....+..++.|+.+.+..+.+..-.  .+.....++++|+.|++.++........    .+..+++|+.++++.+.++.-
T Consensus       177 ~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~  256 (382)
T KOG1909|consen  177 LAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENE  256 (382)
T ss_pred             HHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccc
Confidence            4566778899999999877654322  2333345678899999988876222222    677788999999988666654


Q ss_pred             eccccCccccccccCCCCCcEEeEecCCCCcc------cccccCCCCccEEEEEccCCc
Q 040318          208 KTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD------LTWLAFAPNLKIIVIMHCDDL  260 (366)
Q Consensus       208 ~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~------l~~l~~l~~L~~L~L~~c~~~  260 (366)
                      ++..+.  ..+. ...|+|+.|.+.+| .++.      ....+..|.|++|+|++|...
T Consensus       257 Ga~a~~--~al~-~~~p~L~vl~l~gN-eIt~da~~~la~~~~ek~dL~kLnLngN~l~  311 (382)
T KOG1909|consen  257 GAIAFV--DALK-ESAPSLEVLELAGN-EITRDAALALAACMAEKPDLEKLNLNGNRLG  311 (382)
T ss_pred             cHHHHH--HHHh-ccCCCCceeccCcc-hhHHHHHHHHHHHHhcchhhHHhcCCccccc
Confidence            442220  0001 35899999999999 5554      123456899999999999874

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

Probab=98.57  E-value=7.1e-09  Score=97.80  Aligned_cols=102  Identities=24%  Similarity=0.233  Sum_probs=55.5

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      .+..+.+..+.+..+... ...+++|..|++.+|    .+..+...+..+++|++|++++|.|+.+. .+..+..|+.|+
T Consensus        73 ~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   73 SLKELNLRQNLIAKILNH-LSKLKSLEALDLYDN----KIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELN  146 (414)
T ss_pred             hHHhhccchhhhhhhhcc-cccccceeeeecccc----chhhcccchhhhhcchheecccccccccc-chhhccchhhhe
Confidence            344444444444442222 445566666666666    55555443455666666666666665552 445555566666


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      +.+ +.+..+..  +..+++|+.+++.+|.+
T Consensus       147 l~~-N~i~~~~~--~~~l~~L~~l~l~~n~i  174 (414)
T KOG0531|consen  147 LSG-NLISDISG--LESLKSLKLLDLSYNRI  174 (414)
T ss_pred             ecc-CcchhccC--CccchhhhcccCCcchh
Confidence            666 55555544  44566666666666654

>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=98.50  E-value=8.3e-08  Score=64.30  Aligned_cols=56  Identities=36%  Similarity=0.612  Sum_probs=30.9

Q ss_pred             CcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCCEeeccc
Q 040318           30 ASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLER   89 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~   89 (366)
                      |+|++|++++|    .+..+|. .+..+++|++|++++|.++.++. .+..+++|++|++++
T Consensus         1 p~L~~L~l~~n----~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~   58 (61)
T PF13855_consen    1 PNLESLDLSNN----KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSN   58 (61)
T ss_dssp             TTESEEEETSS----TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETS
T ss_pred             CcCcEEECCCC----CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcC
Confidence            34556666666    5555543 34455666666666655554433 445555555555555

...

>PLN03150 hypothetical protein; Provisional

Probab=98.44  E-value=7.5e-07  Score=88.13  Aligned_cols=67  Identities=25%  Similarity=0.447  Sum_probs=30.1

Q ss_pred             cCccccccccCCEEeccCCCCc-cCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCC
Q 040318           49 LPSGISSLVSLQHLDVSYTDIR-GLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESG  116 (366)
Q Consensus        49 l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~  116 (366)
                      +|..+..+++|+.|++++|.+. .+|..++.+++|+.|+|++|.....+|.. +.++++|+.|++++|.
T Consensus       434 ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~-l~~L~~L~~L~Ls~N~  501 (623)
T PLN03150        434 IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNLNGNS  501 (623)
T ss_pred             CCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEECcCCc
Confidence            3444444444555555444443 44444444444555554442111233433 4444455555544443

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

Probab=98.40  E-value=4.8e-08  Score=92.15  Aligned_cols=194  Identities=19%  Similarity=0.197  Sum_probs=131.9

Q ss_pred             cCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCC
Q 040318           28 SRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKL  107 (366)
Q Consensus        28 ~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L  107 (366)
                      .+..++.+.+..+    .+..+...+..+.+|..|++.+|.+..+...+..+++|++|++++ +.++.+..  +..++.|
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  142 (414)
T KOG0531|consen   70 SLTSLKELNLRQN----LIAKILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSF-NKITKLEG--LSTLTLL  142 (414)
T ss_pred             HhHhHHhhccchh----hhhhhhcccccccceeeeeccccchhhcccchhhhhcchheeccc-cccccccc--hhhccch
Confidence            4667777778888    666655557888999999999999988765588899999999999 89998877  7888889


Q ss_pred             cEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccc
Q 040318          108 EVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSH  187 (366)
Q Consensus       108 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~  187 (366)
                      +.|++.+|.+               .....+..++.|+.++++++.....+...  ...+..++.+.+.+...  .....
T Consensus       143 ~~L~l~~N~i---------------~~~~~~~~l~~L~~l~l~~n~i~~ie~~~--~~~~~~l~~l~l~~n~i--~~i~~  203 (414)
T KOG0531|consen  143 KELNLSGNLI---------------SDISGLESLKSLKLLDLSYNRIVDIENDE--LSELISLEELDLGGNSI--REIEG  203 (414)
T ss_pred             hhheeccCcc---------------hhccCCccchhhhcccCCcchhhhhhhhh--hhhccchHHHhccCCch--hcccc
Confidence            9999999977               44455556888888888888777665520  12233466777776665  22223


Q ss_pred             hhhhcccCceEecccccceeeccccCccccccccCCC--CCcEEeEecCCCCccc-ccccCCCCccEEEEEccC
Q 040318          188 LAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFR--SLHLASIAFCSRVKDL-TWLAFAPNLKIIVIMHCD  258 (366)
Q Consensus       188 l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~--~L~~L~l~~~~~l~~l-~~l~~l~~L~~L~L~~c~  258 (366)
                      +..+..+..+.+..+.+..+..-          ....  +|+.+++.++ .+... ..+..++++..|++.++.
T Consensus       204 ~~~~~~l~~~~l~~n~i~~~~~l----------~~~~~~~L~~l~l~~n-~i~~~~~~~~~~~~l~~l~~~~n~  266 (414)
T KOG0531|consen  204 LDLLKKLVLLSLLDNKISKLEGL----------NELVMLHLRELYLSGN-RISRSPEGLENLKNLPVLDLSSNR  266 (414)
T ss_pred             hHHHHHHHHhhcccccceeccCc----------ccchhHHHHHHhcccC-ccccccccccccccccccchhhcc
Confidence            34444444445555555444320          1122  2677777777 45544 445556666666666544

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

Probab=98.36  E-value=6.3e-08  Score=83.38  Aligned_cols=130  Identities=17%  Similarity=0.194  Sum_probs=84.6

Q ss_pred             ccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHH
Q 040318           55 SLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPL  134 (366)
Q Consensus        55 ~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~  134 (366)
                      -..-|+.+|+++|.|+.+-+++.-.+.++.|+++. +.+..+..  +..+.+|++|++++|.+.+.           ...
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~-N~i~~v~n--La~L~~L~~LDLS~N~Ls~~-----------~Gw  347 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQ-NRIRTVQN--LAELPQLQLLDLSGNLLAEC-----------VGW  347 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccc-cceeeehh--hhhcccceEeecccchhHhh-----------hhh
Confidence            34567777777777777666677777777777777 66666554  66777777777777755111           011


Q ss_pred             HHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCcc-chhhhcccCceEecccccc
Q 040318          135 MKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLE  205 (366)
Q Consensus       135 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~~~l~  205 (366)
                      -   ..+-+++.|.++.+...+...+....    +|..|++.+++....+.. .++++|.|+.+.+.+|.+.
T Consensus       348 h---~KLGNIKtL~La~N~iE~LSGL~KLY----SLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  348 H---LKLGNIKTLKLAQNKIETLSGLRKLY----SLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLA  412 (490)
T ss_pred             H---hhhcCEeeeehhhhhHhhhhhhHhhh----hheeccccccchhhHHHhcccccccHHHHHhhcCCCcc
Confidence            1   12455666677666655554443332    377777777776444444 8889999999999886654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.20  E-value=2.6e-07  Score=79.52  Aligned_cols=81  Identities=11%  Similarity=0.148  Sum_probs=37.9

Q ss_pred             cccccccEEEEeccCCCCcCcc-chhhhcccCceEecccccceeec-cccCccccccccCCCCCcEEeEecCCCCcccc-
Q 040318          165 KLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLEELKT-DCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-  241 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~l~~-~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-  241 (366)
                      ..++++..+.+..|...+...- ....+|.+.-|++..+++.+.+. +..        ..|++|..|.+.+.+-+..+. 
T Consensus       196 r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~L--------n~f~~l~dlRv~~~Pl~d~l~~  267 (418)
T KOG2982|consen  196 RIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDAL--------NGFPQLVDLRVSENPLSDPLRG  267 (418)
T ss_pred             hhcccchheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHH--------cCCchhheeeccCCcccccccC
Confidence            3445555555555543222221 33344455555555554433221 111        456677777666665433332 


Q ss_pred             ------cccCCCCccEEE
Q 040318          242 ------WLAFAPNLKIIV  253 (366)
Q Consensus       242 ------~l~~l~~L~~L~  253 (366)
                            .++.+++++.|+
T Consensus       268 ~err~llIaRL~~v~vLN  285 (418)
T KOG2982|consen  268 GERRFLLIARLTKVQVLN  285 (418)
T ss_pred             CcceEEEEeeccceEEec
Confidence                  134555555553

>PLN03150 hypothetical protein; Provisional

Probab=98.18  E-value=4.6e-06  Score=82.65  Aligned_cols=77  Identities=23%  Similarity=0.355  Sum_probs=37.1

Q ss_pred             cCEEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCCcC-ccCccccccccCCEEeccCCCCc-cCchhhhcCccCCE
Q 040318            8 IPSILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLT-ELPSGISSLVSLQHLDVSYTDIR-GLPHELTALLNLRY   84 (366)
Q Consensus         8 L~~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~~L~~   84 (366)
                      ++.|+|+++.+.. +|.. +..+++|+.|++++|    .+. .+|..+..+++|+.|++++|++. .+|..++.+++|++
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~~  494 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPND-ISKLRHLQSINLSGN----SIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRI  494 (623)
T ss_pred             EEEEECCCCCccccCCHH-HhCCCCCCEEECCCC----cccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCE
Confidence            3444555444442 3333 445555555555555    332 34444445555555555555444 44444555555555


Q ss_pred             eeccc
Q 040318           85 LNLER   89 (366)
Q Consensus        85 L~L~~   89 (366)
                      |+|++
T Consensus       495 L~Ls~  499 (623)
T PLN03150        495 LNLNG  499 (623)
T ss_pred             EECcC
Confidence            55554

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

Probab=98.18  E-value=4.1e-07  Score=87.60  Aligned_cols=40  Identities=18%  Similarity=0.286  Sum_probs=25.4

Q ss_pred             cccccccccccccccccCCCcC--CCCccEEeccCCCCCCCC
Q 040318          284 KLELLDLYHAENLKSIYQGALP--LPQLKEIRVTQCPKLKTL  323 (366)
Q Consensus       284 ~L~~L~l~~~~~l~~~~~~~~~--~~~L~~L~l~~c~~l~~l  323 (366)
                      .++.|.+..|...+.-......  +..++.+++.+|+.++..
T Consensus       402 ~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~~~  443 (482)
T KOG1947|consen  402 SLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVITLK  443 (482)
T ss_pred             ccceEecccCccccccchHHHhhhhhccccCCccCcccccch
Confidence            3777888777665444333222  667788888888777743

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

Probab=98.14  E-value=1.7e-06  Score=85.75  Aligned_cols=136  Identities=18%  Similarity=0.137  Sum_probs=82.3

Q ss_pred             CcCEEEccCCCCC--ccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            7 NIPSILELSSNNK--VFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +|+.|+++|...-  ..+..+..-+|.|+.|.+++-.+  .-+++.....++++|..||+++++++.+ .+++++++|++
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~--~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQF--DNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQV  199 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCcee--cchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHH
Confidence            5777888775532  24444455678888888887632  2222333345678888888888888877 67888888888


Q ss_pred             eeccccccCCC-cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc
Q 040318           85 LNLERTYHLSR-FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS  153 (366)
Q Consensus        85 L~L~~c~~~~~-l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  153 (366)
                      |.+.+ -.+.. .....+.++++|+.||+++......+       .....-.+--..+++|+.|+.++..
T Consensus       200 L~mrn-Le~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~-------~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  200 LSMRN-LEFESYQDLIDLFNLKKLRVLDISRDKNNDDT-------KIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HhccC-CCCCchhhHHHHhcccCCCeeeccccccccch-------HHHHHHHHhcccCccccEEecCCcc
Confidence            87766 22222 11112677888888888876552221       0001111222346778888777544

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

Probab=98.08  E-value=4.7e-06  Score=51.36  Aligned_cols=37  Identities=30%  Similarity=0.447  Sum_probs=17.4

Q ss_pred             cccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCcc
Q 040318           31 SWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRG   71 (366)
Q Consensus        31 ~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~   71 (366)
                      +|++|++++|    .++++|..+.+|++|++|++++|.++.
T Consensus         2 ~L~~L~l~~N----~i~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNN----QITDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSS----S-SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCC----CCcccCchHhCCCCCCEEEecCCCCCC
Confidence            4455555555    444444444455555555555554443

...

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

Probab=98.05  E-value=5e-06  Score=51.21  Aligned_cols=41  Identities=7%  Similarity=0.161  Sum_probs=34.7

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS   51 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~   51 (366)
                      ++|++|++++|.++++++. ++++++|++|++++|    .+++++.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~-l~~l~~L~~L~l~~N----~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPE-LSNLPNLETLNLSNN----PISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGH-GTTCTTSSEEEETSS----CCSBEGG
T ss_pred             CcceEEEccCCCCcccCch-HhCCCCCCEEEecCC----CCCCCcC
Confidence            5899999999999999987 899999999999999    7776653

...

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

Probab=98.01  E-value=1.8e-07  Score=89.45  Aligned_cols=126  Identities=16%  Similarity=0.161  Sum_probs=81.5

Q ss_pred             ccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEE
Q 040318           32 WTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLR  111 (366)
Q Consensus        32 L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~  111 (366)
                      |.+.+.++|    .+..+...+.-++.|+.|+|++|+++.+- .+..++.|++|||++ |.++.+|.--...+. |..|.
T Consensus       166 L~~a~fsyN----~L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsy-N~L~~vp~l~~~gc~-L~~L~  238 (1096)
T KOG1859|consen  166 LATASFSYN----RLVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSY-NCLRHVPQLSMVGCK-LQLLN  238 (1096)
T ss_pred             Hhhhhcchh----hHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhccccccccccc-chhccccccchhhhh-heeee
Confidence            444455565    55555555666777888888888777653 677788888888887 777777651123344 77788


Q ss_pred             ccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCC
Q 040318          112 MLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEI  180 (366)
Q Consensus       112 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  180 (366)
                      +++|.+               .....+.++++|+.|+++++-...+..+...-.+ ..|+.|.+.++..
T Consensus       239 lrnN~l---------------~tL~gie~LksL~~LDlsyNll~~hseL~pLwsL-s~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  239 LRNNAL---------------TTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSL-SSLIVLWLEGNPL  291 (1096)
T ss_pred             ecccHH---------------HhhhhHHhhhhhhccchhHhhhhcchhhhHHHHH-HHHHHHhhcCCcc
Confidence            877754               5556677778888888887766665554443322 2366666665543

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.99  E-value=1.7e-06  Score=74.63  Aligned_cols=228  Identities=16%  Similarity=0.069  Sum_probs=128.0

Q ss_pred             cccEEECCCCCCCCCcCccCc--cc-cccccCCEEeccCCCCccC---chhhhcCccCCEeeccccccCCC-cChhhh-c
Q 040318           31 SWTCLDNGPSRIKNSLTELPS--GI-SSLVSLQHLDVSYTDIRGL---PHELTALLNLRYLNLERTYHLSR-FPPELI-C  102 (366)
Q Consensus        31 ~L~~L~l~~~~~~~~~~~l~~--~~-~~l~~L~~L~l~~~~i~~l---~~~i~~l~~L~~L~L~~c~~~~~-l~~~~l-~  102 (366)
                      .++.|-+.++    .+...-.  .+ ..+..++.|||.+|.+...   -..+.+++.|++|+++. +.+.. +..  + .
T Consensus        46 a~ellvln~~----~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~-N~L~s~I~~--lp~  118 (418)
T KOG2982|consen   46 ALELLVLNGS----IIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSC-NSLSSDIKS--LPL  118 (418)
T ss_pred             chhhheecCC----CCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccC-CcCCCcccc--Ccc
Confidence            4445555566    4443221  12 3478899999999988743   34557889999999987 55432 211  2 2


Q ss_pred             CCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc-ccccccccEEEEeccCCC
Q 040318          103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF-PKLLRITQALSISDCEIP  181 (366)
Q Consensus       103 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~~  181 (366)
                      -+.+|+.|.+.++.+..            ......+..++.+++|.++.+....+..-... ...-+.+.++.+..|...
T Consensus       119 p~~nl~~lVLNgT~L~w------------~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~  186 (418)
T KOG2982|consen  119 PLKNLRVLVLNGTGLSW------------TQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQ  186 (418)
T ss_pred             cccceEEEEEcCCCCCh------------hhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHH
Confidence            34678888888887622            24445567778888887776532211100000 001112445555554431


Q ss_pred             CcCcc--chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc---cccccCCCCccEEEEEc
Q 040318          182 LLNVS--HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD---LTWLAFAPNLKIIVIMH  256 (366)
Q Consensus       182 ~~~~~--~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~---l~~l~~l~~L~~L~L~~  256 (366)
                      .....  ...-+|++..+.+..+.+++...+--.       ..+|.+-.|.++.+ ++.+   +..+..+|.|..|.+.+
T Consensus       187 ~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~s-------e~~p~~~~LnL~~~-~idswasvD~Ln~f~~l~dlRv~~  258 (418)
T KOG2982|consen  187 LWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGS-------EPFPSLSCLNLGAN-NIDSWASVDALNGFPQLVDLRVSE  258 (418)
T ss_pred             HHHHHHhHHhhcccchheeeecCcccchhhcccC-------CCCCcchhhhhccc-ccccHHHHHHHcCCchhheeeccC
Confidence            11111  223457777777766666555432211       35666667777666 4544   44566889999999988


Q ss_pred             cCCcccccccccccccccccccccccccccccccc
Q 040318          257 CDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLY  291 (366)
Q Consensus       257 c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  291 (366)
                      .+..+.....+-..      -.++.+++++.|+=+
T Consensus       259 ~Pl~d~l~~~err~------llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  259 NPLSDPLRGGERRF------LLIARLTKVQVLNGS  287 (418)
T ss_pred             CcccccccCCcceE------EEEeeccceEEecCc
Confidence            87766553311111      144566777777543

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

Probab=97.97  E-value=1.3e-07  Score=90.31  Aligned_cols=96  Identities=21%  Similarity=0.220  Sum_probs=43.0

Q ss_pred             EccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccc
Q 040318           12 LELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTY   91 (366)
Q Consensus        12 ~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~   91 (366)
                      ++++|.+..+..+ .+-+++|+.||++.|    .+.+.. .+..|++|++|||++|.++.+|..-.--..|+.|.+++ |
T Consensus       170 ~fsyN~L~~mD~S-Lqll~ale~LnLshN----k~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrn-N  242 (1096)
T KOG1859|consen  170 SFSYNRLVLMDES-LQLLPALESLNLSHN----KFTKVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRN-N  242 (1096)
T ss_pred             hcchhhHHhHHHH-HHHHHHhhhhccchh----hhhhhH-HHHhcccccccccccchhccccccchhhhhheeeeecc-c
Confidence            3344444444333 444455555555555    444443 34445555555555554444433111111255555544 4


Q ss_pred             cCCCcChhhhcCCCCCcEEEccCCC
Q 040318           92 HLSRFPPELICSFSKLEVLRMLESG  116 (366)
Q Consensus        92 ~~~~l~~~~l~~l~~L~~L~l~~~~  116 (366)
                      .++.+..  +.++.+|+.|++++|-
T Consensus       243 ~l~tL~g--ie~LksL~~LDlsyNl  265 (1096)
T KOG1859|consen  243 ALTTLRG--IENLKSLYGLDLSYNL  265 (1096)
T ss_pred             HHHhhhh--HHhhhhhhccchhHhh
Confidence            4444433  4455555555555443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.91  E-value=3.1e-05  Score=71.21  Aligned_cols=135  Identities=19%  Similarity=0.196  Sum_probs=75.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCC-CCccCchhhhcCccC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYT-DIRGLPHELTALLNL   82 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~-~i~~l~~~i~~l~~L   82 (366)
                      .|++++.|++++|.+..+|.  +  ..+|+.|.+++|.   .++.+|..+  ..+|++|++++| .+..+|..      |
T Consensus        50 ~~~~l~~L~Is~c~L~sLP~--L--P~sLtsL~Lsnc~---nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~s------L  114 (426)
T PRK15386         50 EARASGRLYIKDCDIESLPV--L--PNELTEITIENCN---NLTTLPGSI--PEGLEKLTVCHCPEISGLPES------V  114 (426)
T ss_pred             HhcCCCEEEeCCCCCcccCC--C--CCCCcEEEccCCC---CcccCCchh--hhhhhheEccCcccccccccc------c
Confidence            35777788888777777762  1  3357888887775   666666544  257788888877 56555543      5


Q ss_pred             CEeeccc--cccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           83 RYLNLER--TYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        83 ~~L~L~~--c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      +.|++..  |..+..+|.+       |+.|.+.++...           .....+..  -...|+.|.+.++.....+  
T Consensus       115 e~L~L~~n~~~~L~~LPss-------Lk~L~I~~~n~~-----------~~~~lp~~--LPsSLk~L~Is~c~~i~LP--  172 (426)
T PRK15386        115 RSLEIKGSATDSIKNVPNG-------LTSLSINSYNPE-----------NQARIDNL--ISPSLKTLSLTGCSNIILP--  172 (426)
T ss_pred             ceEEeCCCCCcccccCcch-------Hhheeccccccc-----------cccccccc--cCCcccEEEecCCCcccCc--
Confidence            5555543  2223444443       445555432110           00001111  1167888888876644322  


Q ss_pred             cccccccccccEEEEecc
Q 040318          161 LKFPKLLRITQALSISDC  178 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~  178 (366)
                         ..++.+|++|++..+
T Consensus       173 ---~~LP~SLk~L~ls~n  187 (426)
T PRK15386        173 ---EKLPESLQSITLHIE  187 (426)
T ss_pred             ---ccccccCcEEEeccc
Confidence               123456888888764

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

Probab=97.88  E-value=1.5e-05  Score=79.04  Aligned_cols=128  Identities=22%  Similarity=0.189  Sum_probs=90.6

Q ss_pred             CCCCcCEEEccCCCCCc--cchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccC--chhhhcC
Q 040318            4 RYSNIPSILELSSNNKV--FEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGL--PHELTAL   79 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~--l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l--~~~i~~l   79 (366)
                      -+|.|++|.+.+-.+..  +.. ...++|+|..||+|++    .++.+ ..++++++|+.|.+.+-.+..-  -..+-.+
T Consensus       146 ~LPsL~sL~i~~~~~~~~dF~~-lc~sFpNL~sLDIS~T----nI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L  219 (699)
T KOG3665|consen  146 MLPSLRSLVISGRQFDNDDFSQ-LCASFPNLRSLDISGT----NISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNL  219 (699)
T ss_pred             hCcccceEEecCceecchhHHH-HhhccCccceeecCCC----CccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcc
Confidence            58999999999877653  223 3778999999999999    77777 5689999999999888776632  2356789


Q ss_pred             ccCCEeeccccccCCCcC---h---hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEE
Q 040318           80 LNLRYLNLERTYHLSRFP---P---ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFS  150 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~~l~---~---~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  150 (366)
                      ++|++||++. ......+   .   +--..+++|+.||.+++.+            .....-..+..+++|+.+.+-
T Consensus       220 ~~L~vLDIS~-~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi------------~~~~le~ll~sH~~L~~i~~~  283 (699)
T KOG3665|consen  220 KKLRVLDISR-DKNNDDTKIIEQYLECGMVLPELRFLDCSGTDI------------NEEILEELLNSHPNLQQIAAL  283 (699)
T ss_pred             cCCCeeeccc-cccccchHHHHHHHHhcccCccccEEecCCcch------------hHHHHHHHHHhCccHhhhhhh
Confidence            9999999998 4333322   1   1013489999999998866            122333334456666655543

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

Probab=97.84  E-value=2.4e-06  Score=82.26  Aligned_cols=35  Identities=20%  Similarity=0.290  Sum_probs=19.2

Q ss_pred             ccccccccc-ccccCCCcCCCCccEEeccCCCCCCC
Q 040318          288 LDLYHAENL-KSIYQGALPLPQLKEIRVTQCPKLKT  322 (366)
Q Consensus       288 L~l~~~~~l-~~~~~~~~~~~~L~~L~l~~c~~l~~  322 (366)
                      +.+.+|+.+ ..+......+..++.|++..|..++.
T Consensus       381 ~~l~gc~~l~~~l~~~~~~~~~l~~L~l~~~~~~t~  416 (482)
T KOG1947|consen  381 LSLRGCPNLTESLELRLCRSDSLRVLNLSDCRLVTD  416 (482)
T ss_pred             HHhcCCcccchHHHHHhccCCccceEecccCccccc
Confidence            444455555 22222222334488888888877663

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

Probab=97.80  E-value=2.7e-05  Score=63.66  Aligned_cols=109  Identities=18%  Similarity=0.236  Sum_probs=81.7

Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCC--CCcccccc
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCS--RVKDLTWL  243 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~--~l~~l~~l  243 (366)
                      ...+...++++++..  .....+..++.|.+|.+.+|++.++..+..        ..+|+|..|.+.++.  .+.++.++
T Consensus        40 ~~d~~d~iDLtdNdl--~~l~~lp~l~rL~tLll~nNrIt~I~p~L~--------~~~p~l~~L~LtnNsi~~l~dl~pL  109 (233)
T KOG1644|consen   40 TLDQFDAIDLTDNDL--RKLDNLPHLPRLHTLLLNNNRITRIDPDLD--------TFLPNLKTLILTNNSIQELGDLDPL  109 (233)
T ss_pred             cccccceecccccch--hhcccCCCccccceEEecCCcceeeccchh--------hhccccceEEecCcchhhhhhcchh
Confidence            344566778777776  555577889999999999999999876544        468999999999984  45667788


Q ss_pred             cCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          244 AFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +.+|+|++|.+-+++.-+.---         -...+..+|+|+.|++.+-
T Consensus       110 a~~p~L~~Ltll~Npv~~k~~Y---------R~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  110 ASCPKLEYLTLLGNPVEHKKNY---------RLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             ccCCccceeeecCCchhcccCc---------eeEEEEecCcceEeehhhh
Confidence            8999999999988775443210         0124567899999999853

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.73  E-value=0.00018  Score=66.26  Aligned_cols=60  Identities=17%  Similarity=0.223  Sum_probs=30.2

Q ss_pred             CCcccEEECCCCCCCCCcCccCccccccccCCEEeccCC-CCccCchhhhcCccCCEeeccccccCCCcC
Q 040318           29 RASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYT-DIRGLPHELTALLNLRYLNLERTYHLSRFP   97 (366)
Q Consensus        29 ~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~-~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~   97 (366)
                      +++++.|++++|    .++.+|. +  -.+|+.|.+++| .++.+|..+  ..+|++|++++|..+..+|
T Consensus        51 ~~~l~~L~Is~c----~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         51 ARASGRLYIKDC----DIESLPV-L--PNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             hcCCCEEEeCCC----CCcccCC-C--CCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc
Confidence            455666666655    5555552 1  124555666554 444444433  2355666665554444444

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

Probab=97.70  E-value=9.2e-06  Score=62.25  Aligned_cols=102  Identities=21%  Similarity=0.244  Sum_probs=61.4

Q ss_pred             EEEccCCCCCccchh--hhhcCCcccEEECCCCCCCCCcCccCccccc-cccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318           10 SILELSSNNKVFEPS--WFLSRASWTCLDNGPSRIKNSLTELPSGISS-LVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus        10 ~L~l~~~~~~~l~~~--~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~-l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      .++|+.+.+..++..  ....-.+|...++++|    .++++|..+.. .+.++.|++++|.+..+|..+.-++.|+.|+
T Consensus        31 ~ldLssc~lm~i~davy~l~~~~el~~i~ls~N----~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   31 FLDLSSCQLMYIADAVYMLSKGYELTKISLSDN----GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLN  106 (177)
T ss_pred             hcccccchhhHHHHHHHHHhCCceEEEEecccc----hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcc
Confidence            355555555433332  1333445566677777    66666655433 4467777777777777777777777777777


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++. +.+...|.- +..+.+|-.|+..++..
T Consensus       107 l~~-N~l~~~p~v-i~~L~~l~~Lds~~na~  135 (177)
T KOG4579|consen  107 LRF-NPLNAEPRV-IAPLIKLDMLDSPENAR  135 (177)
T ss_pred             ccc-CccccchHH-HHHHHhHHHhcCCCCcc
Confidence            777 555555543 44466666676666644

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

Probab=97.55  E-value=9.4e-05  Score=60.58  Aligned_cols=82  Identities=23%  Similarity=0.321  Sum_probs=47.5

Q ss_pred             CcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhh-cCccCCEeeccccccCCCcCh-hhhcCCCCC
Q 040318           30 ASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELT-ALLNLRYLNLERTYHLSRFPP-ELICSFSKL  107 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~-~l~~L~~L~L~~c~~~~~l~~-~~l~~l~~L  107 (366)
                      .+...+|+++|    .+.+++. +.+++.|..|.+..|+|+.+-+.+. .+++|+.|.+.+ +++..+.. .=+..|++|
T Consensus        42 d~~d~iDLtdN----dl~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~Ltn-Nsi~~l~dl~pLa~~p~L  115 (233)
T KOG1644|consen   42 DQFDAIDLTDN----DLRKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTN-NSIQELGDLDPLASCPKL  115 (233)
T ss_pred             cccceeccccc----chhhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecC-cchhhhhhcchhccCCcc
Confidence            34556667766    4455443 5566677777777777765544443 345577777766 55444321 004556677


Q ss_pred             cEEEccCCCC
Q 040318          108 EVLRMLESGA  117 (366)
Q Consensus       108 ~~L~l~~~~~  117 (366)
                      +.|.+-+|..
T Consensus       116 ~~Ltll~Npv  125 (233)
T KOG1644|consen  116 EYLTLLGNPV  125 (233)
T ss_pred             ceeeecCCch
Confidence            7777766654

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

Probab=97.41  E-value=1.3e-05  Score=61.42  Aligned_cols=109  Identities=17%  Similarity=0.222  Sum_probs=82.7

Q ss_pred             CCcccEEECCCCCCCCCcCccCcc---ccccccCCEEeccCCCCccCchhhh-cCccCCEeeccccccCCCcChhhhcCC
Q 040318           29 RASWTCLDNGPSRIKNSLTELPSG---ISSLVSLQHLDVSYTDIRGLPHELT-ALLNLRYLNLERTYHLSRFPPELICSF  104 (366)
Q Consensus        29 ~~~L~~L~l~~~~~~~~~~~l~~~---~~~l~~L~~L~l~~~~i~~l~~~i~-~l~~L~~L~L~~c~~~~~l~~~~l~~l  104 (366)
                      .+-+..++++.|    .+-.++..   +....+|...++++|.+..+|+.+. +++-+..|++++ +.+.++|.+ +..+
T Consensus        26 akE~h~ldLssc----~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~-neisdvPeE-~Aam   99 (177)
T KOG4579|consen   26 AKELHFLDLSSC----QLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLAN-NEISDVPEE-LAAM   99 (177)
T ss_pred             HHHhhhcccccc----hhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcch-hhhhhchHH-Hhhh
Confidence            345677899999    66766654   4456677778999999998887664 456899999999 899999998 9999


Q ss_pred             CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318          105 SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      +.|+.|+++.|.+              ...+..+..+.++..|+...+....+
T Consensus       100 ~aLr~lNl~~N~l--------------~~~p~vi~~L~~l~~Lds~~na~~ei  138 (177)
T KOG4579|consen  100 PALRSLNLRFNPL--------------NAEPRVIAPLIKLDMLDSPENARAEI  138 (177)
T ss_pred             HHhhhcccccCcc--------------ccchHHHHHHHhHHHhcCCCCccccC
Confidence            9999999999987              23345555577777777665554443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.39  E-value=1.4e-05  Score=68.48  Aligned_cols=100  Identities=15%  Similarity=0.117  Sum_probs=59.0

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCc--hhhhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLP--HELTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~--~~i~~l~~L   82 (366)
                      +.+.+.|+..|+++.++.-  ...|+.|++|.||-|    .++.+.+ +.+|.+|++|+|..|.|..+-  ..+.++++|
T Consensus        18 l~~vkKLNcwg~~L~DIsi--c~kMp~lEVLsLSvN----kIssL~p-l~rCtrLkElYLRkN~I~sldEL~YLknlpsL   90 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISI--CEKMPLLEVLSLSVN----KISSLAP-LQRCTRLKELYLRKNCIESLDELEYLKNLPSL   90 (388)
T ss_pred             HHHhhhhcccCCCccHHHH--HHhcccceeEEeecc----ccccchh-HHHHHHHHHHHHHhcccccHHHHHHHhcCchh
Confidence            3455667777777766543  566777777777777    6666644 566777777777777665442  234566666


Q ss_pred             CEeeccccccCCCcC----hhhhcCCCCCcEEE
Q 040318           83 RYLNLERTYHLSRFP----PELICSFSKLEVLR  111 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~----~~~l~~l~~L~~L~  111 (366)
                      +.|-|..+.....-+    ..++.-+++|+.|+
T Consensus        91 r~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   91 RTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            666665432222222    12344555665554

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

Probab=97.34  E-value=0.00022  Score=61.19  Aligned_cols=198  Identities=15%  Similarity=0.125  Sum_probs=101.2

Q ss_pred             hcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCc----cCc-------hhhhcCccCCEeecccc
Q 040318           27 LSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIR----GLP-------HELTALLNLRYLNLERT   90 (366)
Q Consensus        27 ~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~----~l~-------~~i~~l~~L~~L~L~~c   90 (366)
                      ..+..+..+++|+|    .++.     +...+.+-.+|+..+.+.....    .++       +.+-+|+.|+..+|+++
T Consensus        27 ~~~d~~~evdLSGN----tigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDN  102 (388)
T COG5238          27 EMMDELVEVDLSGN----TIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDN  102 (388)
T ss_pred             HhhcceeEEeccCC----cccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeecccc
Confidence            34667777777777    3332     2223444566777666654211    222       23456788888888873


Q ss_pred             ccCCCcCh---hhhcCCCCCcEEEccCCCCCCccccccccccc--hHHHHHhhcCCCCcceEEEEecccccccc--cccc
Q 040318           91 YHLSRFPP---ELICSFSKLEVLRMLESGADSTAEQGSVLSED--AEPLMKELLCLKLLNLISFSLYSSRGVRN--FLKF  163 (366)
Q Consensus        91 ~~~~~l~~---~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~--~~~~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~  163 (366)
                      ..-...|.   ++++.-+.|.||.+++|+.....+  ..+...  .-...+....-+.|+.+....+.....+.  +...
T Consensus       103 Afg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG--~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~  180 (388)
T COG5238         103 AFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAG--GRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAAL  180 (388)
T ss_pred             ccCcccchHHHHHHhcCCCceeEEeecCCCCccch--hHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHH
Confidence            32223442   446777888888888887633310  000000  00112234456777777776665544322  1111


Q ss_pred             ccccccccEEEEeccCCCCc--Ccc---chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecC
Q 040318          164 PKLLRITQALSISDCEIPLL--NVS---HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFC  234 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~--~~~---~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~  234 (366)
                      ...-.+|+.+.+..+..+..  +.+   .+..+.+|+.|++..|.++..+....+  ...  ..-+.|+.|.+.+|
T Consensus       181 l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La--~al--~~W~~lrEL~lnDC  252 (388)
T COG5238         181 LESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLA--DAL--CEWNLLRELRLNDC  252 (388)
T ss_pred             HHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHH--HHh--cccchhhhccccch
Confidence            11113466666665554221  222   344566777777777665544332211  001  12344677777777

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

Probab=97.29  E-value=0.00012  Score=62.34  Aligned_cols=84  Identities=21%  Similarity=0.263  Sum_probs=48.8

Q ss_pred             hhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCC--CCc-cCchhhhcCccCCEeeccccccCCC---cChh
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYT--DIR-GLPHELTALLNLRYLNLERTYHLSR---FPPE   99 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~--~i~-~l~~~i~~l~~L~~L~L~~c~~~~~---l~~~   99 (366)
                      ...+..|+.|.+.++    .++.+-. +..+++|++|.++.|  ++. .++..+..+++|+++++++ +++..   ++. 
T Consensus        39 ~d~~~~le~ls~~n~----gltt~~~-~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~-Nki~~lstl~p-  111 (260)
T KOG2739|consen   39 TDEFVELELLSVINV----GLTTLTN-FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSG-NKIKDLSTLRP-  111 (260)
T ss_pred             cccccchhhhhhhcc----ceeeccc-CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecC-Cccccccccch-
Confidence            334556666666666    3333322 445667777777777  433 4444455567777777777 55543   333 


Q ss_pred             hhcCCCCCcEEEccCCCC
Q 040318          100 LICSFSKLEVLRMLESGA  117 (366)
Q Consensus       100 ~l~~l~~L~~L~l~~~~~  117 (366)
                       +..+.+|..|++..|..
T Consensus       112 -l~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen  112 -LKELENLKSLDLFNCSV  128 (260)
T ss_pred             -hhhhcchhhhhcccCCc
Confidence             45566666777766654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.11  E-value=5.6e-05  Score=64.90  Aligned_cols=83  Identities=18%  Similarity=0.202  Sum_probs=68.8

Q ss_pred             cCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcCh-hhhcCCCC
Q 040318           28 SRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPP-ELICSFSK  106 (366)
Q Consensus        28 ~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~-~~l~~l~~  106 (366)
                      .+.+.+.|+..+|    .+++|.- ..+++.|+.|.|+-|.|+.+ +.+..|++|++|+|.. +.+.++.. +++.++++
T Consensus        17 dl~~vkKLNcwg~----~L~DIsi-c~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRk-N~I~sldEL~YLknlps   89 (388)
T KOG2123|consen   17 DLENVKKLNCWGC----GLDDISI-CEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRK-NCIESLDELEYLKNLPS   89 (388)
T ss_pred             HHHHhhhhcccCC----CccHHHH-HHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHh-cccccHHHHHHHhcCch
Confidence            3556788999999    7777754 56799999999999999988 4688999999999999 78877764 55788999


Q ss_pred             CcEEEccCCCC
Q 040318          107 LEVLRMLESGA  117 (366)
Q Consensus       107 L~~L~l~~~~~  117 (366)
                      |+.|.+..|.-
T Consensus        90 Lr~LWL~ENPC  100 (388)
T KOG2123|consen   90 LRTLWLDENPC  100 (388)
T ss_pred             hhhHhhccCCc
Confidence            99999988653

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

Probab=97.09  E-value=0.00022  Score=61.16  Aligned_cols=243  Identities=14%  Similarity=0.045  Sum_probs=147.1

Q ss_pred             ccccccCCEEeccCCCCc-----cCchhhhcCccCCEeeccccccCC----CcCh------hhhcCCCCCcEEEccCCCC
Q 040318           53 ISSLVSLQHLDVSYTDIR-----GLPHELTALLNLRYLNLERTYHLS----RFPP------ELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        53 ~~~l~~L~~L~l~~~~i~-----~l~~~i~~l~~L~~L~L~~c~~~~----~l~~------~~l~~l~~L~~L~l~~~~~  117 (366)
                      +-.+..+..++|++|.|.     .+...|.+-.+|+..+++. -...    .++.      .++.+|++|+..+++.|.+
T Consensus        26 l~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd-~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAf  104 (388)
T COG5238          26 LEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSD-AFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAF  104 (388)
T ss_pred             HHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhh-hhhcccHHHHHHHHHHHHHHHhcCCcceeeecccccc
Confidence            445789999999999876     3444566667899888875 2222    1222      1377899999999999977


Q ss_pred             CCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc--ccc---------ccccccccccEEEEeccCCCCcCcc
Q 040318          118 DSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR--NFL---------KFPKLLRITQALSISDCEIPLLNVS  186 (366)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~---------~~~~~~~~L~~L~l~~~~~~~~~~~  186 (366)
                      ...         ........+++...|.+|.+.+++...+.  .+.         +...-.+.|+++....++.......
T Consensus       105 g~~---------~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~  175 (388)
T COG5238         105 GSE---------FPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKE  175 (388)
T ss_pred             Ccc---------cchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHH
Confidence            322         23455667888999999999987654321  111         1111234577776665554222111


Q ss_pred             ----chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc------ccCCCCccEEEEEc
Q 040318          187 ----HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW------LAFAPNLKIIVIMH  256 (366)
Q Consensus       187 ----~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~------l~~l~~L~~L~L~~  256 (366)
                          .+..-..|+.+.+..|.+..-+......   .-...+.+|+.|+++++ -++...+      +..-+.|+.|.+..
T Consensus       176 ~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~---~gl~y~~~LevLDlqDN-tft~~gS~~La~al~~W~~lrEL~lnD  251 (388)
T COG5238         176 LSAALLESHENLKEVKIQQNGIRPEGVTMLAF---LGLFYSHSLEVLDLQDN-TFTLEGSRYLADALCEWNLLRELRLND  251 (388)
T ss_pred             HHHHHHHhhcCceeEEeeecCcCcchhHHHHH---HHHHHhCcceeeecccc-chhhhhHHHHHHHhcccchhhhccccc
Confidence                3333468889999887776443321100   00146889999999998 4444221      22346689999999


Q ss_pred             cCCcccccccccccccccccc--ccccccccccccccccccccccc-------CCCcCCCCccEEeccCC
Q 040318          257 CDDLEEIISVEKLNQLSDIMG--ELNFFAKLELLDLYHAENLKSIY-------QGALPLPQLKEIRVTQC  317 (366)
Q Consensus       257 c~~~~~~~~~~~~~~~~~~~~--~~~~~~~L~~L~l~~~~~l~~~~-------~~~~~~~~L~~L~l~~c  317 (366)
                      |-.......        ++..  .-..+|+|..|-+.+...-..+.       .....+|-|..|.+.+.
T Consensus       252 Clls~~G~~--------~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngN  313 (388)
T COG5238         252 CLLSNEGVK--------SVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGN  313 (388)
T ss_pred             hhhccccHH--------HHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccC
Confidence            876554432        1111  12346888888887643322221       12345788887777763

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

Probab=96.42  E-value=0.0023  Score=54.74  Aligned_cols=88  Identities=19%  Similarity=0.224  Sum_probs=45.9

Q ss_pred             ccccCCEEeccCCCCccCchhhhcCccCCEeeccccc-cC-CCcChhhhcCCCCCcEEEccCCCCCCccccccccccchH
Q 040318           55 SLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTY-HL-SRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAE  132 (366)
Q Consensus        55 ~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~-~~-~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  132 (366)
                      .+..|+.|.+.+++++.+ ..+..+++|+.|.++.++ ++ ..++.- +..+++|++|++++|++.-            .
T Consensus        41 ~~~~le~ls~~n~gltt~-~~~P~Lp~LkkL~lsdn~~~~~~~l~vl-~e~~P~l~~l~ls~Nki~~------------l  106 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTL-TNFPKLPKLKKLELSDNYRRVSGGLEVL-AEKAPNLKVLNLSGNKIKD------------L  106 (260)
T ss_pred             cccchhhhhhhccceeec-ccCCCcchhhhhcccCCcccccccceeh-hhhCCceeEEeecCCcccc------------c
Confidence            345566666666655543 234556677777776631 11 223332 4455777777777776511            1


Q ss_pred             HHHHhhcCCCCcceEEEEeccccc
Q 040318          133 PLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus       133 ~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      .....+..+++|..|++..+..+.
T Consensus       107 stl~pl~~l~nL~~Ldl~n~~~~~  130 (260)
T KOG2739|consen  107 STLRPLKELENLKSLDLFNCSVTN  130 (260)
T ss_pred             cccchhhhhcchhhhhcccCCccc
Confidence            222333444555566666555443

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

Probab=96.22  E-value=0.0094  Score=46.07  Aligned_cols=101  Identities=15%  Similarity=0.219  Sum_probs=43.2

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~   81 (366)
                      .|++|+.+.+.. .+..++...|.+++.|+.+.+..+     +..++. .+..+..|+.+.+.. .+..++. .+..+.+
T Consensus        10 ~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-----~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~   82 (129)
T PF13306_consen   10 NCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-----LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTN   82 (129)
T ss_dssp             T-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-----TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TT
T ss_pred             CCCCCCEEEECC-CeeEeChhhccccccccccccccc-----ccccceeeeecccccccccccc-ccccccccccccccc
Confidence            455666666653 455566666666666666666543     233332 244555666666654 3332222 3445666


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccC
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLE  114 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~  114 (366)
                      |+.+++.. + +..++...+.++ +|+.+.+..
T Consensus        83 l~~i~~~~-~-~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   83 LKNIDIPS-N-ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             ECEEEETT-T--BEEHTTTTTT--T--EEE-TT
T ss_pred             ccccccCc-c-ccEEchhhhcCC-CceEEEECC
Confidence            66666644 2 344444445555 666666554

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.18  E-value=0.00066  Score=55.75  Aligned_cols=66  Identities=24%  Similarity=0.332  Sum_probs=46.7

Q ss_pred             CCCCCcEEeEecCCCCccc--cccc-CCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccc
Q 040318          222 GFRSLHLASIAFCSRVKDL--TWLA-FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKS  298 (366)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~l--~~l~-~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  298 (366)
                      .++.++.|++.+|..+.+.  ..++ -.|+|+.|+|++|+.+++...           ..+..+++|+.|.|.+++.+..
T Consensus       123 ~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL-----------~~L~~lknLr~L~l~~l~~v~~  191 (221)
T KOG3864|consen  123 DLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGL-----------ACLLKLKNLRRLHLYDLPYVAN  191 (221)
T ss_pred             ccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHH-----------HHHHHhhhhHHHHhcCchhhhc
Confidence            5677888888888877773  3333 458888888888888887532           2566788888888877665443

>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=95.86  E-value=0.0034  Score=32.13  Aligned_cols=17  Identities=29%  Similarity=0.556  Sum_probs=7.9

Q ss_pred             CCEEeccCCCCccCchh
Q 040318           59 LQHLDVSYTDIRGLPHE   75 (366)
Q Consensus        59 L~~L~l~~~~i~~l~~~   75 (366)
                      |++|++++|+++.+|..
T Consensus         2 L~~Ldls~n~l~~ip~~   18 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSS   18 (22)
T ss_dssp             ESEEEETSSEESEEGTT
T ss_pred             ccEEECCCCcCEeCChh
Confidence            44444444444444443

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

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

Probab=95.23  E-value=0.048  Score=42.03  Aligned_cols=95  Identities=15%  Similarity=0.225  Sum_probs=52.5

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~   81 (366)
                      .+++|+.+.+..+ +..++...|.+++.++.+.+..+     +..++. .+..+.+|+.+++..+ +..++. .+.++ +
T Consensus        33 ~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~~-----~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~  104 (129)
T PF13306_consen   33 NCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPNN-----LKSIGDNAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-N  104 (129)
T ss_dssp             T-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETST-----T-EE-TTTTTT-TTECEEEETTT--BEEHTTTTTT--T
T ss_pred             ccccccccccccc-ccccceeeeeccccccccccccc-----ccccccccccccccccccccCcc-ccEEchhhhcCC-C
Confidence            5678999999874 88888888999999999999754     344443 4566999999999765 554443 45666 8


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCc
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLE  108 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~  108 (366)
                      |+.+.+..  .+..++...+.++++|+
T Consensus       105 l~~i~~~~--~~~~i~~~~F~~~~~l~  129 (129)
T PF13306_consen  105 LKEINIPS--NITKIEENAFKNCTKLK  129 (129)
T ss_dssp             --EEE-TT--B-SS----GGG------
T ss_pred             ceEEEECC--CccEECCccccccccCC
Confidence            99888764  45566666677877764

>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=94.67  E-value=0.011  Score=30.22  Aligned_cols=9  Identities=22%  Similarity=0.154  Sum_probs=4.6

Q ss_pred             ccEEECCCC
Q 040318           32 WTCLDNGPS   40 (366)
Q Consensus        32 L~~L~l~~~   40 (366)
                      |++||+++|
T Consensus         2 L~~Ldls~n   10 (22)
T PF00560_consen    2 LEYLDLSGN   10 (22)
T ss_dssp             ESEEEETSS
T ss_pred             ccEEECCCC
Confidence            445555555

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

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

Probab=94.49  E-value=0.025  Score=26.83  Aligned_cols=14  Identities=29%  Similarity=0.491  Sum_probs=4.8

Q ss_pred             cCCEEeccCCCCcc
Q 040318           58 SLQHLDVSYTDIRG   71 (366)
Q Consensus        58 ~L~~L~l~~~~i~~   71 (366)
                      +|+.|++++|+++.
T Consensus         2 ~L~~L~l~~n~L~~   15 (17)
T PF13504_consen    2 NLRTLDLSNNRLTS   15 (17)
T ss_dssp             T-SEEEETSS--SS
T ss_pred             ccCEEECCCCCCCC
Confidence            34444444444433

...

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.42  E-value=0.013  Score=48.35  Aligned_cols=71  Identities=15%  Similarity=0.083  Sum_probs=49.4

Q ss_pred             hHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCcc-chhhhcccCceEecc
Q 040318          131 AEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDN  201 (366)
Q Consensus       131 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~  201 (366)
                      .......+..++.++.|.+..+...+-..+..+....++|+.|++++|...+...+ .+..+++|+.|.+..
T Consensus       114 ~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  114 MYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             HHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            44556667777888888887766655555555566778899999999988444444 666777777777654

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

Probab=92.87  E-value=0.11  Score=27.59  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=12.7

Q ss_pred             CCcCEEEccCCCCCccchhhh
Q 040318            6 SNIPSILELSSNNKVFEPSWF   26 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~   26 (366)
                      ++|++|+|.+|.+..+|..+|
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHHc
Confidence            456666666666666665544

>smart00370 LRR Leucine-rich repeats, outliers

Probab=92.87  E-value=0.11  Score=27.59  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=12.7

Q ss_pred             CCcCEEEccCCCCCccchhhh
Q 040318            6 SNIPSILELSSNNKVFEPSWF   26 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~   26 (366)
                      ++|++|+|.+|.+..+|..+|
T Consensus         2 ~~L~~L~L~~N~l~~lp~~~f   22 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPGAF   22 (26)
T ss_pred             CCCCEEECCCCcCCcCCHHHc
Confidence            456666666666666665544

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

Probab=92.38  E-value=0.085  Score=28.06  Aligned_cols=17  Identities=24%  Similarity=0.729  Sum_probs=14.2

Q ss_pred             CCCccEEeccCCCCCCC
Q 040318          306 LPQLKEIRVTQCPKLKT  322 (366)
Q Consensus       306 ~~~L~~L~l~~c~~l~~  322 (366)
                      +|+|++|++++|+++++
T Consensus         1 c~~L~~L~l~~C~~itD   17 (26)
T smart00367        1 CPNLRELDLSGCTNITD   17 (26)
T ss_pred             CCCCCEeCCCCCCCcCH
Confidence            57899999999988874

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

Probab=91.95  E-value=0.0042  Score=52.27  Aligned_cols=90  Identities=19%  Similarity=0.101  Sum_probs=52.1

Q ss_pred             cchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhh
Q 040318           21 FEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPEL  100 (366)
Q Consensus        21 l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~  100 (366)
                      +|.-.+..+....+||++.+    .+..+-..+.-+..|..|+++.+.+..+|...+....++.+++.. +.....|.+ 
T Consensus        33 ~~v~ei~~~kr~tvld~~s~----r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~-n~~~~~p~s-  106 (326)
T KOG0473|consen   33 IPVREIASFKRVTVLDLSSN----RLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHK-NNHSQQPKS-  106 (326)
T ss_pred             cchhhhhccceeeeehhhhh----HHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhc-cchhhCCcc-
Confidence            34333445556666666666    444444445555566666666666666666666666666666655 555556655 


Q ss_pred             hcCCCCCcEEEccCCC
Q 040318          101 ICSFSKLEVLRMLESG  116 (366)
Q Consensus       101 l~~l~~L~~L~l~~~~  116 (366)
                      ....+.++.++.-++.
T Consensus       107 ~~k~~~~k~~e~k~~~  122 (326)
T KOG0473|consen  107 QKKEPHPKKNEQKKTE  122 (326)
T ss_pred             ccccCCcchhhhccCc
Confidence            5566666666665554

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.25  E-value=0.26  Score=26.04  Aligned_cols=17  Identities=35%  Similarity=0.647  Sum_probs=8.2

Q ss_pred             cCCEEeccCCCCccCch
Q 040318           58 SLQHLDVSYTDIRGLPH   74 (366)
Q Consensus        58 ~L~~L~l~~~~i~~l~~   74 (366)
                      +|++|++++|+++.+|.
T Consensus         3 ~L~~L~L~~N~l~~lp~   19 (26)
T smart00370        3 NLRELDLSNNQLSSLPP   19 (26)
T ss_pred             CCCEEECCCCcCCcCCH
Confidence            44555555554444443

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

Probab=90.25  E-value=0.26  Score=26.04  Aligned_cols=17  Identities=35%  Similarity=0.647  Sum_probs=8.2

Q ss_pred             cCCEEeccCCCCccCch
Q 040318           58 SLQHLDVSYTDIRGLPH   74 (366)
Q Consensus        58 ~L~~L~l~~~~i~~l~~   74 (366)
                      +|++|++++|+++.+|.
T Consensus         3 ~L~~L~L~~N~l~~lp~   19 (26)
T smart00369        3 NLRELDLSNNQLSSLPP   19 (26)
T ss_pred             CCCEEECCCCcCCcCCH
Confidence            44555555554444443

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

Probab=88.41  E-value=0.018  Score=48.67  Aligned_cols=81  Identities=9%  Similarity=0.018  Sum_probs=57.5

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+.+.+.||++.+++..+... |+.++.|..|+++-+    .+..+|.+++....++++++..|.....|.+.++.+.++
T Consensus        40 ~~kr~tvld~~s~r~vn~~~n-~s~~t~~~rl~~skn----q~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k  114 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNRLVNLGKN-FSILTRLVRLDLSKN----QIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPK  114 (326)
T ss_pred             ccceeeeehhhhhHHHhhccc-hHHHHHHHHHhccHh----hHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcc
Confidence            345666777777766665555 666777777777777    667777777777777777777777777777777777777


Q ss_pred             Eeeccc
Q 040318           84 YLNLER   89 (366)
Q Consensus        84 ~L~L~~   89 (366)
                      ++++-.
T Consensus       115 ~~e~k~  120 (326)
T KOG0473|consen  115 KNEQKK  120 (326)
T ss_pred             hhhhcc
Confidence            777766

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	366
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	8e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	8e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-07
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-05
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	9e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	9e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	9e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	3e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	6e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-04

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

 Score = 56.1 bits (136), Expect = 5e-09
 Identities = 16/67 (23%), Positives = 30/67 (44%), Gaps = 1/67 (1%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
             +  LP+ I++L +L+ L +  + +  L   +  L  L  L+L     L  +PP     
Sbjct: 193 TGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPI-FGG 251

Query: 104 FSKLEVL 110
            + L+ L
Sbjct: 252 RAPLKRL 258

>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 = 55.0 bits (133), Expect = 1e-08
 Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 1/72 (1%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
             L ELP  +     L+ L ++   +R LP  + +L  LR L++     L+  P   + S
Sbjct: 114 AGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEP-LAS 172

Query: 104 FSKLEVLRMLES 115
                  + L +
Sbjct: 173 TDASGEHQGLVN 184

>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 = 53.8 bits (130), Expect = 3e-08
 Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 2/67 (2%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
             L + P     L  LQH+ +    +  LP  +     L  L L R   L   P   I S
Sbjct: 91  VPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN-PLRALPAS-IAS 148

Query: 104 FSKLEVL 110
            ++L  L
Sbjct: 149 LNRLREL 155

>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 = 50.3 bits (121), Expect = 4e-07
 Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 2/70 (2%)

Query: 44  NSLTELPSGISSLVSLQHLDVS-YTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
            +L   P        L+ L +   +++  LP ++  L  L  L+L    +LSR P   I 
Sbjct: 240 TALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL-IA 298

Query: 103 SFSKLEVLRM 112
                 ++ +
Sbjct: 299 QLPANCIILV 308

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

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 50/291 (17%), Positives = 90/291 (30%), Gaps = 72/291 (24%)

Query: 44  NSLTELPSGISSLVS--LQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELI 101
            +L      +          L++    +   P +   L +L+++ ++    L   P   +
Sbjct: 66  RALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMELPDT-M 123

Query: 102 CSFSKLEVLRM----LESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISF----SLYS 153
             F+ LE L +    L +   S               +  L  L+ L++ +      L  
Sbjct: 124 QQFAGLETLTLARNPLRALPAS---------------IASLNRLRELSIRACPELTELPE 168

Query: 154 SRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTG 213
                +     + L   Q+L +    I  L  S +A +++LK L I NS L  L      
Sbjct: 169 PLASTDASGEHQGLVNLQSLRLEWTGIRSLPAS-IANLQNLKSLKIRNSPLSAL------ 221

Query: 214 EVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLS 273
                           +I                 L+ + +  C  L             
Sbjct: 222 --------------GPAIHHLP------------KLEELDLRGCTALRN---------YP 246

Query: 274 DIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLP 324
            I G       L+ L L    NL ++      L QL+++ +  C  L  LP
Sbjct: 247 PIFGGRA---PLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294

>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 = 40.7 bits (96), Expect = 4e-04
 Identities = 11/62 (17%), Positives = 24/62 (38%), Gaps = 2/62 (3%)

Query: 44  NSLTELPSGISSLVSLQHLDVSY-TDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           ++L  LP  I  L  L+ LD+    ++  LP  +  L     + +   +  ++       
Sbjct: 264 SNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPP-HLQAQLDQHRPV 322

Query: 103 SF 104
           + 
Sbjct: 323 AR 324

>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 = 52.0 bits (125), Expect = 2e-07
 Identities = 41/294 (13%), Positives = 87/294 (29%), Gaps = 30/294 (10%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGLPH--ELTALLNLRYLNLERTYHLSRFPPEL 100
           N L+ L S     L SL++L++     + L        L NL+ L +      S      
Sbjct: 84  NHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRID 143

Query: 101 ICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF 160
               + L  L +          +   L       +K +  +  L L          +   
Sbjct: 144 FAGLTSLNELEI----------KALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEI-FA 192

Query: 161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQ 220
                +    + L + D  +     S L   E    +         L TD +      L 
Sbjct: 193 DILSSV----RYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVL-TDESFNELLKLL 247

Query: 221 CGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLE----EIISVEKLNQLSDIM 276
                L       C+    L  L      +  V+     +E      + + +     D+ 
Sbjct: 248 RYILELSEVEFDDCT----LNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLS 303

Query: 277 GELNFFAKLELLDLYHAENLKSIYQGAL-PLPQLKEIRVTQCPKLKTLPLNSSS 329
              +   K++ + + ++  +  +       L  L+ + +++   +    L +S+
Sbjct: 304 TVYSLLEKVKRITVENS-KVFLVPCSFSQHLKSLEFLDLSEN-LMVEEYLKNSA 355

>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 = 47.8 bits (114), Expect = 4e-06
 Identities = 61/329 (18%), Positives = 115/329 (34%), Gaps = 37/329 (11%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLE----RTYHLSRFP 97
            SL    S  + S+  + HL +  ++   L       L ++RYL L       +  S  P
Sbjct: 158 LSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLP 217

Query: 98  PELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV 157
            + + S  K    R      +S  E   +L    E    E     L  L  F+   S  V
Sbjct: 218 VDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVV 277

Query: 158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQ- 216
              L   + + I + L I    +     +  + +E +K + ++NS +  +    +  ++ 
Sbjct: 278 SE-LGKVETVTI-RRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKS 335

Query: 217 -KVL---QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKL--- 269
            + L   +      +L + A       L  L  + N    +    + L  + ++  L   
Sbjct: 336 LEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDIS 395

Query: 270 -NQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALP------------------LPQLK 310
            N    +     +  K+  L+L     ++ +                        LP+L+
Sbjct: 396 RNTFHPMPDSCQWPEKMRFLNLSST-GIRVVKTCIPQTLEVLDVSNNNLDSFSLFLPRLQ 454

Query: 311 EIRVTQCPKLKTLPLNSSSTKLRNIVISG 339
           E+ +++  KLKTLP  S    L  + IS 
Sbjct: 455 ELYISRN-KLKTLPDASLFPVLLVMKISR 482

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

 Score = 46.6 bits (111), Expect = 8e-06
 Identities = 55/301 (18%), Positives = 105/301 (34%), Gaps = 25/301 (8%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELIC 102
            S T +PSG+++  +++ LD+S+  I  + H  L A  NL+ L L+ +  ++    +   
Sbjct: 15  RSFTSIPSGLTA--AMKSLDLSFNKITYIGHGDLRACANLQVLILKSS-RINTIEGDAFY 71

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           S   LE L +            + LS  +      L  LK LNL+     +      F  
Sbjct: 72  SLGSLEHLDL----------SDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPN 121

Query: 163 FPKLLRITQALSISDC-EIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQC 221
              L    Q L I +      +     A +  L +L I   +L   ++     ++ +   
Sbjct: 122 LTNL----QTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHL 177

Query: 222 GFRSLHLASI--AFCSRVKDLTWLAFAPN-LKIIVIMHCDDLEEIISVEKLNQLSDIMGE 278
                  A +   F   +  + +L      L           E    ++KL     ++ +
Sbjct: 178 TLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTD 237

Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVIS 338
            +F   L+LL       L  +      L  L +   ++   +  L     +  +R + I 
Sbjct: 238 ESFNELLKLLRYIL--ELSEVEFDDCTLNGLGDFNPSESDVVSELG-KVETVTIRRLHIP 294

Query: 339 G 339
            
Sbjct: 295 Q 295

>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 = 42.8 bits (101), Expect = 1e-04
 Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 7/73 (9%)

Query: 43  KNSLTELPSG---ISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPE 99
           +N L  +      + +L +L  LD+S      +P        +R+LNL  T  +      
Sbjct: 370 QNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSST-GIRVVKT- 427

Query: 100 LICSFSKLEVLRM 112
             C    LEVL +
Sbjct: 428 --CIPQTLEVLDV 438

>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 = 50.6 bits (120), Expect = 6e-07
 Identities = 75/444 (16%), Positives = 127/444 (28%), Gaps = 144/444 (32%)

Query: 11  ILELSSNNKV--F-----EP--SWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQH 61
            L       V  F          + +S                     PS ++ +   Q 
Sbjct: 70  TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ-------------PSMMTRMYIEQR 116

Query: 62  LDVSYTDIRGLP----------HEL-TALLNLR---YLNLE---------------RTYH 92
            D  Y D +              +L  ALL LR    + ++                +Y 
Sbjct: 117 -DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK 175

Query: 93  LSRFPPELI------CSFSKLEVLRMLE-----------SGADSTAEQGSVLSEDAEPLM 135
           +       I         S   VL ML+           S +D +     +     +  +
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS-SNIKLRIHSIQAEL 234

Query: 136 KELLCLKLLN---LISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYME 192
           + LL  K      L+  ++ +++    F    K+L  T+   ++D  +     +H++   
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD-FLSAATTTHISLDH 293

Query: 193 HLKDLVIDNSNLEELKTDCTGEVQKVL---QCGFRSLHLASIAFCSRVKD--LTWLAFAP 247
           H   L  D    + L         + L           L+ IA    ++D   TW     
Sbjct: 294 HSMTLTPDEV--KSLLLKYLDCRPQDLPREVLTTNPRRLSIIA--ESIRDGLATW----D 345

Query: 248 NLKIIVIMHCDDLEEII--SVEKLN---------QLS----------------------- 273
           N K +   +CD L  II  S+  L          +LS                       
Sbjct: 346 NWKHV---NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS 402

Query: 274 DIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLR 333
           D+M  +N   K  L++    E+  SI    L L         +      L         R
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL-------KVKLENEYALH--------R 447

Query: 334 NIV----ISGGKDWWEEL-QWEDQ 352
           +IV    I    D  + +  + DQ
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQ 471

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

 Score = 49.9 bits (119), Expect = 8e-07
 Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 7/76 (9%)

Query: 44  NSLTELPSGI--SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLS-----RF 96
           N LT L      ++L  L ++DVSY      P +      L+   +            R 
Sbjct: 738 NKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQ 797

Query: 97  PPELICSFSKLEVLRM 112
            P  I +   L  L++
Sbjct: 798 WPTGITTCPSLIQLQI 813

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

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 40/308 (12%), Positives = 97/308 (31%), Gaps = 41/308 (13%)

Query: 44  NSLTELPS--GISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELI 101
           N+L E P+   +  +V L  LD  +  +R L       + L  L L+    +   P +  
Sbjct: 558 NNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDYN-QIEEIPEDFC 615

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPL-MKELLCLKLLNLISFSLYS-SRGVRN 159
               ++E L              + L         K +  +  ++     + S  R +  
Sbjct: 616 AFTDQVEGLGF----------SHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISC 665

Query: 160 FLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVL 219
            +   K +  +  +++S  EI        A    +  +++ N+ +  +  +         
Sbjct: 666 SMDDYKGINAST-VTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNY 724

Query: 220 QCGFRSLHLASIAFC--SRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMG 277
                 L    + F   + + D       P L  + + +             N  S    
Sbjct: 725 -KNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSY-------------NCFSSFPT 770

Query: 278 ELNFFAKLELLDLYHAENLKSIYQ-GALP-----LPQLKEIRVTQCPKLKTLPLNSSSTK 331
           +    ++L+   + H  + +        P      P L ++++     ++ +     + +
Sbjct: 771 QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN-DIRKVD-EKLTPQ 828

Query: 332 LRNIVISG 339
           L  + I+ 
Sbjct: 829 LYILDIAD 836

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

 Score = 43.7 bits (103), Expect = 9e-05
 Identities = 12/97 (12%), Positives = 29/97 (29%), Gaps = 21/97 (21%)

Query: 36  DNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALL--------------- 80
           D     + N +T +   I  L  LQ +  + +        +                   
Sbjct: 427 DTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELS 486

Query: 81  -----NLRYLNLERTYHLSRFPPELICSFSKLEVLRM 112
                +L  + L    ++++ P   +    +L+ L +
Sbjct: 487 WSNLKDLTDVELYNCPNMTQLPDF-LYDLPELQSLNI 522

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

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 3/70 (4%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
             L + P+GI++  SL  L +   DIR +  +L     L  L++             +C 
Sbjct: 793 RILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--TPQLYILDIADN-PNISIDVTSVCP 849

Query: 104 FSKLEVLRML 113
           + +  +  +L
Sbjct: 850 YIEAGMYVLL 859

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

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 29/301 (9%), Positives = 73/301 (24%), Gaps = 70/301 (23%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTAL-LNLRYLNLERTYHLSRFPPELIC 102
            +   +P  I  L  L+ L                  L        +      +    + 
Sbjct: 334 GAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLD 393

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
              +L +  +L+   +   E   +  +         + LK   + + +        N + 
Sbjct: 394 YDQRLNLSDLLQDAINRNPEMKPIKKD-------SRISLKDTQIGNLT--------NRIT 438

Query: 163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCG 222
           F                I       +  +  L+ +   NS           E        
Sbjct: 439 F----------------IS----KAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAK 478

Query: 223 FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFF 282
                  S +               +L  + + +C              ++ +   L   
Sbjct: 479 QYENEELSWSNLK------------DLTDVELYNC------------PNMTQLPDFLYDL 514

Query: 283 AKLELLDLYH---------AENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLR 333
            +L+ L++             +   +       P+++   +     L+  P ++S  K+ 
Sbjct: 515 PELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMV 573

Query: 334 N 334
            
Sbjct: 574 K 574

>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 = 49.6 bits (119), Expect = 9e-07
 Identities = 44/291 (15%), Positives = 88/291 (30%), Gaps = 43/291 (14%)

Query: 44  NSLTELPSGI-SSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELI 101
           N L  +     S   +L+HL    T I  +    L     L  L L    H+S       
Sbjct: 91  NPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSN-HISSIKLPKG 149

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
               KL+VL            Q + +   ++  M  L     L+L       +       
Sbjct: 150 FPTEKLKVLDF----------QNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAF 199

Query: 162 KFPKLLRITQALSISDCEIPLLNVSHLAY--MEHLKDLVIDNSNLEELKTDCTGEVQKVL 219
                    Q+L+    +  L+    L    ++ L     ++ + E++        + + 
Sbjct: 200 DSAVF----QSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAV---FEGLC 252

Query: 220 QCGFRSLHLASIAFCSRVKDLTWLAFA--PNLKIIVIMHCDDLEEIISVEKLNQLSDIMG 277
           +    S++L          +++   F     L+ + +                 LS++  
Sbjct: 253 EMSVESINLQK----HYFFNISSNTFHCFSGLQELDLTA-------------THLSELPS 295

Query: 278 ELNFFAKLELLDLYHAENLKSIYQGAL-PLPQLKEIRVTQCPKLKTLPLNS 327
            L   + L+ L L      +++ Q +    P L  + +    K   L    
Sbjct: 296 GLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNTKRLELGTGC 345

>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 = 49.2 bits (118), Expect = 1e-06
 Identities = 44/294 (14%), Positives = 95/294 (32%), Gaps = 32/294 (10%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELI 101
           N L  + +   S L++L  LD++   I  +      +   L  L L     L       +
Sbjct: 43  NVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTAN-PLIFMAETAL 101

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
                L+ L              + +S      +     L+ L L   +  SS  +    
Sbjct: 102 SGPKALKHLFF----------IQTGISSIDFIPLHNQKTLESLYL-GSNHISSIKLPKGF 150

Query: 162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLE------ELKTDCTGEV 215
              KL    + L   +  I  L+   ++ ++   +L ++ +  +              + 
Sbjct: 151 PTEKL----KVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQS 206

Query: 216 QKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKL----NQ 271
                     +    +   + ++ L    F       +     +    +SVE +    + 
Sbjct: 207 LNFGGTQNLLVIFKGLKNST-IQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHY 265

Query: 272 LSDI-MGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLP 324
             +I     + F+ L+ LDL    +L  +  G + L  LK++ ++   K + L 
Sbjct: 266 FFNISSNTFHCFSGLQELDLTAT-HLSELPSGLVGLSTLKKLVLSAN-KFENLC 317

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 50/299 (16%), Positives = 94/299 (31%), Gaps = 44/299 (14%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELIC 102
             L E+P  + +  S + L+ S+  +  +     + L+NL +L+L R   +     +   
Sbjct: 22  LGLNEIPGTLPN--STECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQ 78

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           S  +L+ L +            + L   AE  +     LK L            ++  + 
Sbjct: 79  SQHRLDTLVL----------TANPLIFMAETALSGPKALKHLFF----------IQTGIS 118

Query: 163 ------FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQ 216
                       +   L +    I  + +      E LK L   N+ +  L  +    +Q
Sbjct: 119 SIDFIPLHNQKTLES-LYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQ 177

Query: 217 K--VLQCGFRSLHLASI-AFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKL---- 269
           +   L        +A I            L F     ++VI        I S+       
Sbjct: 178 QATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFED 237

Query: 270 ---NQLSDIMGELNFFAKLELLDLYHAENLKSIYQGAL-PLPQLKEIRVTQCPKLKTLP 324
                +S  + E      +E ++L       +I          L+E+ +T    L  LP
Sbjct: 238 MDDEDISPAVFEGLCEMSVESINLQKH-YFFNISSNTFHCFSGLQELDLTAT-HLSELP 294

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 44.6 bits (106), Expect = 4e-05
 Identities = 58/319 (18%), Positives = 106/319 (33%), Gaps = 66/319 (20%)

Query: 43  KNSLTELPSGI-SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELI 101
           K+    + S        LQ LD++ T +  LP  L  L  L+ L L              
Sbjct: 263 KHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISA 321

Query: 102 CSFSKLEVLRM--------LESGADSTAEQGSVL---------SEDAEPLMKELLCLKLL 144
            +F  L  L +        L +G     E    L         S+     ++ L  L+ L
Sbjct: 322 SNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSL 381

Query: 145 NLISFSLYSSRGVRNFLKFPKLLRIT---------------------QALSISDCEIPLL 183
           NL S++   S     F + P+L  +                      + L++S   + + 
Sbjct: 382 NL-SYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDIS 440

Query: 184 NVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWL 243
           +      +  L+ L +  ++  +     T  +Q         L +  ++FC  +  +   
Sbjct: 441 SEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQ-----TLGRLEILVLSFC-DLSSIDQH 494

Query: 244 AFA--PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAEN-LKSIY 300
           AF     +  + + H             N+L+     +   + L+ + L  A N +  I 
Sbjct: 495 AFTSLKMMNHVDLSH-------------NRLTSS--SIEALSHLKGIYLNLASNHISIIL 539

Query: 301 QGALP-LPQLKEIRVTQCP 318
              LP L Q + I + Q P
Sbjct: 540 PSLLPILSQQRTINLRQNP 558

>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 = 48.5 bits (116), Expect = 2e-06
 Identities = 15/109 (13%), Positives = 33/109 (30%), Gaps = 8/109 (7%)

Query: 11  ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIK-----NSLTEL--PSGISSLVSLQHLD 63
           ++ ++ N  +          +      G          N+L      + +  +  L  L+
Sbjct: 277 LINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLE 336

Query: 64  VSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM 112
             Y  + G      + + L  LNL     ++  P        ++E L  
Sbjct: 337 CLYNQLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSF 384

>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 = 46.7 bits (111), Expect = 5e-06
 Identities = 52/289 (17%), Positives = 96/289 (33%), Gaps = 41/289 (14%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELIC 102
            SL  +PSG++   +++ LD+S   I  + +  L   +NL+ L L     ++    +   
Sbjct: 41  GSLNSIPSGLTE--AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFS 97

Query: 103 SFSKLEVLRM-------LESGA-DSTAE---------QGSVLSEDAEPLMKELLCLKLLN 145
           S   LE L +       L S      +              L E +  L   L  L++L 
Sbjct: 98  SLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETS--LFSHLTKLQILR 155

Query: 146 LISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLE 205
           + +   ++    ++F     L    + L I   ++       L  ++++  L++      
Sbjct: 156 VGNMDTFTKIQRKDFAGLTFL----EELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHI 211

Query: 206 ELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIIS 265
            L          V     R   L +  F      L+       +K     +         
Sbjct: 212 LLLEIFVDVTSSVECLELRDTDLDTFHFSE----LSTGETNSLIKKFTFRNVKI------ 261

Query: 266 VEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGAL-PLPQLKEIR 313
                 L  +M  LN  + L  L+      LKS+  G    L  L++I 
Sbjct: 262 --TDESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIW 307

>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 = 43.2 bits (102), Expect = 8e-05
 Identities = 28/175 (16%), Positives = 58/175 (33%), Gaps = 18/175 (10%)

Query: 11  ILELSSNN--KVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGI-SSLVSLQHLDVSYT 67
            L L  N    + E S F   +  T L        ++ T++     + L  L+ L++  +
Sbjct: 128 FLNLLGNPYKTLGETSLF---SHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS 184

Query: 68  DIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLE-SGADSTAEQGS 125
           D++    + L ++ N+ +L L                      +  LE    D      S
Sbjct: 185 DLQSYEPKSLKSIQNVSHLILHMK-QHILLLEI---FVDVTSSVECLELRDTDLDTFHFS 240

Query: 126 VLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEI 180
            LS      + +    + + +   SL+    ++   +   L      L  S  ++
Sbjct: 241 ELSTGETNSLIKKFTFRNVKITDESLFQ--VMKLLNQISGL----LELEFSRNQL 289

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

 Score = 46.9 bits (112), Expect = 7e-06
 Identities = 33/169 (19%), Positives = 65/169 (38%), Gaps = 17/169 (10%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHELTALLN---LRYLNLERTYHLSRFPPE 99
           N L+    G    L +LQ L +S   I+ L  E   +     L+ L L     +  F P 
Sbjct: 131 NGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSN-QIKEFSPG 189

Query: 100 LICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS-SRGVR 158
              +  +L  L +     ++     S+  +    L      ++ L+L +  L + S    
Sbjct: 190 CFHAIGRLFGLFL-----NNVQLGPSLTEKLCLEL--ANTSIRNLSLSNSQLSTTSNTTF 242

Query: 159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEEL 207
             LK+  L      L +S   + ++     A++  L+   ++ +N++ L
Sbjct: 243 LGLKWTNL----TMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHL 287

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

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 32/165 (19%), Positives = 68/165 (41%), Gaps = 19/165 (11%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELIC 102
             LT++P  + +  ++  L++++  +R L     T    L  L++     +S+  PEL  
Sbjct: 14  LKLTQVPDDLPT--NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPELCQ 70

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
               L+VL +          Q + LS+ ++        L  L+L   +         F+K
Sbjct: 71  KLPMLKVLNL----------QHNELSQLSDKTFAFCTNLTELHL-MSNSIQKIKNNPFVK 119

Query: 163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEEL 207
              L      L +S   +    +     +E+L++L++ N+ ++ L
Sbjct: 120 QKNL----ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQAL 160

>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 = 43.8 bits (104), Expect = 7e-05
 Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 5/73 (6%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL---PHELTALLNLRYLNLERTYHLSRFPPE 99
           N   +L     + + SLQ L +    ++ +   P     L NL  L+L    +++    +
Sbjct: 440 NKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDD 498

Query: 100 LICSFSKLEVLRM 112
           ++    KLE+L +
Sbjct: 499 MLEGLEKLEILDL 511

>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 = 43.5 bits (103), Expect = 9e-05
 Identities = 46/281 (16%), Positives = 85/281 (30%), Gaps = 57/281 (20%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL--PHELTALLNLRYLNLERTYHLSRFPPEL 100
           N ++++ S   S L  L+ LD+   +I       E   L N+  + L       +     
Sbjct: 391 NKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-KYLQLTRNS 449

Query: 101 ICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF 160
                 L+ L                L                   +  ++ SS     F
Sbjct: 450 FALVPSLQRLM---------------LRR---------------VALK-NVDSSPSP--F 476

Query: 161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQ 220
                L      L +S+  I  +N   L  +E L+ L + ++NL  L             
Sbjct: 477 QPLRNL----TILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFL 532

Query: 221 CGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDI-MGEL 279
            G   LH+ ++       ++    F  +L  + I+              N L+ +     
Sbjct: 533 KGLSHLHILNLESN-GFDEIPVEVF-KDLFELKIIDLGL----------NNLNTLPASVF 580

Query: 280 NFFAKLELLDLYHAENLKSIYQGALP--LPQLKEIRVTQCP 318
           N    L+ L+L     + S+ +         L E+ +   P
Sbjct: 581 NNQVSLKSLNLQK-NLITSVEKKVFGPAFRNLTELDMRFNP 620

>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 = 45.6 bits (108), Expect = 2e-05
 Identities = 45/291 (15%), Positives = 97/291 (33%), Gaps = 32/291 (10%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELIC 102
            +LT++P  +++    + L +S+  IR +       L  L+ L L   Y       E   
Sbjct: 14  CNLTQVPQVLNTT---ERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFR 70

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           +   L +L +            S +        + L  L  L L    L  +     + +
Sbjct: 71  NLPNLRILDL----------GSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFR 120

Query: 163 FPKLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQC 221
             K L     L +S  +I  L +      +  LK +   ++ +  +   C  E++ +   
Sbjct: 121 NLKALTR---LDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLV---CEHELEPLQGK 174

Query: 222 GFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNF 281
                 LA+ +  S    + W       + +V+   D      +V+     S+ + +   
Sbjct: 175 TLSFFSLAANSLYS-RVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQA 233

Query: 282 FA-----KLELLDLYHAENLKSIYQGA---LPLPQLKEIRVTQCPKLKTLP 324
           F+      +         N+K   Q     L    ++ + ++    + +L 
Sbjct: 234 FSLILAHHIMGAGFGFH-NIKDPDQNTFAGLARSSVRHLDLSHG-FVFSLN 282

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

 Score = 44.0 bits (104), Expect = 4e-05
 Identities = 37/210 (17%), Positives = 72/210 (34%), Gaps = 31/210 (14%)

Query: 6   SNIPS---ILELSSNN-KVFEPSWF--LSRASWTCLDNGPSRIKNSLTELPSGI-SSLVS 58
             I +   +L L  N  ++ + + F  L       L        N +  +  G  + L +
Sbjct: 60  DGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSR------NHIRTIEIGAFNGLAN 113

Query: 59  LQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA 117
           L  L++    +  +P+     L  L+ L L     +   P         L  L + E   
Sbjct: 114 LNTLELFDNRLTTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLGELK- 171

Query: 118 DSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISD 177
                + S +SE A         L  L  ++ ++ + R + N     KL      L +S 
Sbjct: 172 -----RLSYISEGA------FEGLSNLRYLNLAMCNLREIPNLTPLIKL----DELDLSG 216

Query: 178 CEIPLLNVSHLAYMEHLKDLVIDNSNLEEL 207
             +  +       + HL+ L +  S ++ +
Sbjct: 217 NHLSAIRPGSFQGLMHLQKLWMIQSQIQVI 246

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

 Score = 43.8 bits (104), Expect = 4e-05
 Identities = 11/79 (13%), Positives = 23/79 (29%), Gaps = 7/79 (8%)

Query: 12  LELSSNN-KVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIR 70
           L L  N     +     ++     L +      N L  +     S   +  + +    + 
Sbjct: 174 LNLQYNFIYDVKGQVVFAKLKTLDLSS------NKLAFMGPEFQSAAGVTWISLRNNKLV 227

Query: 71  GLPHELTALLNLRYLNLER 89
            +   L    NL + +L  
Sbjct: 228 LIEKALRFSQNLEHFDLRG 246

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

 Score = 43.9 bits (104), Expect = 6e-05
 Identities = 45/278 (16%), Positives = 91/278 (32%), Gaps = 31/278 (11%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELIC 102
            +  ++P  +    S ++LD+S+  +R L      +   L+ L+L R   +         
Sbjct: 17  LNFYKIPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQ 73

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           S S L  L +           G+ +   A      L  L+ L  +  +L S         
Sbjct: 74  SLSHLSTLIL----------TGNPIQSLALGAFSGLSSLQKLVAVETNLASLEN-FPIGH 122

Query: 163 FPKLLRITQALSISDCEIPLLNVSH-LAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQC 221
              L    + L+++   I    +    + + +L+ L + ++ ++ +       + + +  
Sbjct: 123 LKTL----KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQ-MPL 177

Query: 222 GFRSLHLAS------IAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDI 275
              SL L+            +   L  L    N   + +M       I  +  L     +
Sbjct: 178 LNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMK----TCIQGLAGLEVHRLV 233

Query: 276 MGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIR 313
           +GE      LE  D    E L ++      L  L    
Sbjct: 234 LGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYL 271

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

 Score = 43.9 bits (104), Expect = 6e-05
 Identities = 50/302 (16%), Positives = 87/302 (28%), Gaps = 43/302 (14%)

Query: 44  NSLTELPSG-ISSLVSLQ----HLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPP 98
           N +  +    +  L  +      LD+S   +  +       + L  L L   +       
Sbjct: 159 NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMK 218

Query: 99  ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR 158
             I   + LEV R L  G            + A   +  L  ++   L     Y    + 
Sbjct: 219 TCIQGLAGLEVHR-LVLGEFRNEGNLEKFDKSALEGLCNLT-IEEFRLAYLDYYLDDIID 276

Query: 159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV 218
            F     +     + S+    I    V   +Y    + L + N    +  T         
Sbjct: 277 LFNCLTNV----SSFSLVSVTI--ERVKDFSYNFGWQHLELVNCKFGQFPTLKLKS---- 326

Query: 219 LQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGE 278
                + L   S     +  +       P+L+ +      DL         N LS     
Sbjct: 327 ----LKRLTFTSN----KGGNAFSEVDLPSLEFL------DLSR-------NGLSFKGCC 365

Query: 279 LNFFA---KLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNI 335
                    L+ LDL     + ++    L L QL+ +       LK +   S    LRN+
Sbjct: 366 SQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNL 423

Query: 336 VI 337
           + 
Sbjct: 424 IY 425

>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 = 43.6 bits (103), Expect = 6e-05
 Identities = 42/210 (20%), Positives = 70/210 (33%), Gaps = 31/210 (14%)

Query: 6   SNIPS---ILELSSNN-KVFEPSWF--LSRASWTCLDNGPSRIKNSLTELPSGI-SSLVS 58
             IPS    L L  NN ++ +   F  L       L        NS+ ++  G  + L S
Sbjct: 71  QGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGR------NSIRQIEVGAFNGLAS 124

Query: 59  LQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA 117
           L  L++    +  +P      L  LR L L     +   P         L  L + E   
Sbjct: 125 LNTLELFDNWLTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRLDLGELK- 182

Query: 118 DSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISD 177
                +   +SE A         L  L  ++  + + + + N      L    + L +S 
Sbjct: 183 -----KLEYISEGA------FEGLFNLKYLNLGMCNIKDMPNLTPLVGL----EELEMSG 227

Query: 178 CEIPLLNVSHLAYMEHLKDLVIDNSNLEEL 207
              P +       +  LK L + NS +  +
Sbjct: 228 NHFPEIRPGSFHGLSSLKKLWVMNSQVSLI 257

>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 = 43.9 bits (104), Expect = 7e-05
 Identities = 18/71 (25%), Positives = 26/71 (36%), Gaps = 3/71 (4%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELI 101
           N L  L S    S   LQ LD+S  +I+ +      +L +L  L L     +        
Sbjct: 38  NPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAF 96

Query: 102 CSFSKLEVLRM 112
              S L+ L  
Sbjct: 97  SGLSSLQKLVA 107

>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 = 43.5 bits (103), Expect = 7e-05
 Identities = 48/299 (16%), Positives = 90/299 (30%), Gaps = 37/299 (12%)

Query: 44  NSLTEL-PSGISSLVSLQ----HLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPP 98
           N +  +  + +  L  +      LD+S   +  +       + L  L L   +       
Sbjct: 159 NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMK 218

Query: 99  ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR 158
             I   + LEV R L  G            + A   +  L  ++   L     Y    + 
Sbjct: 219 TCIQGLAGLEVHR-LVLGEFRNEGNLEKFDKSALEGLCNLT-IEEFRLAYLDYYLDDIID 276

Query: 159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV 218
            F     +     + S+    I    V   +Y    + L + N    +  T     ++++
Sbjct: 277 LFNCLTNV----SSFSLVSVTI--ERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRL 330

Query: 219 LQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGE 278
                +  +  S                P+L+ +      DL    S   L+        
Sbjct: 331 TFTSNKGGNAFSEVDL------------PSLEFL------DL----SRNGLSFKGCCSQS 368

Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVI 337
                 L+ LDL     + ++    L L QL+ +       LK +   S    LRN++ 
Sbjct: 369 DFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIY 425

>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 = 43.1 bits (102), Expect = 1e-04
 Identities = 11/67 (16%), Positives = 23/67 (34%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           +             SL++LD+S+  +  +      L  L +L+ + +         +  S
Sbjct: 360 SFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS 419

Query: 104 FSKLEVL 110
              L  L
Sbjct: 420 LRNLIYL 426

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 21/71 (29%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELI 101
           N +  L  G  S L SLQ L    T++  L    +  L  L+ LN+      S   PE  
Sbjct: 86  NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 102 CSFSKLEVLRM 112
            + + LE L +
Sbjct: 146 SNLTNLEHLDL 156

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

 Score = 43.1 bits (102), Expect = 8e-05
 Identities = 57/316 (18%), Positives = 110/316 (34%), Gaps = 66/316 (20%)

Query: 44  NSLTELPSGI-SSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELI 101
             + E+ +   +   ++Q L + +  IR LP      +  L  L LER   LS  P  + 
Sbjct: 79  LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIF 137

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNL-------ISFSLYSS 154
            +  KL  L M            + L    +   +    L+ L L       +  SL   
Sbjct: 138 HNTPKLTTLSM----------SNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSL--- 184

Query: 155 RGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGE 214
                    P L       ++S   +     S LA    +++L   ++++  ++      
Sbjct: 185 --------IPSL----FHANVSYNLL-----STLAIPIAVEELDASHNSINVVRGP---- 223

Query: 215 VQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKI-------IVIMHCDDLEEIISVE 267
               +      L L        + D  WL   P L         +  +      ++  +E
Sbjct: 224 ----VNVELTILKLQHN----NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLE 275

Query: 268 KL----NQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTL 323
           +L    N+L  +         L++LDL H  +L  + +      +L+ + +     + TL
Sbjct: 276 RLYISNNRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRLENLYLDHN-SIVTL 333

Query: 324 PLNSSSTKLRNIVISG 339
            L++  T L+N+ +S 
Sbjct: 334 KLSTHHT-LKNLTLSH 348

>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 = 43.5 bits (103), Expect = 9e-05
 Identities = 14/70 (20%), Positives = 32/70 (45%), Gaps = 4/70 (5%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELIC 102
             L+++P  I S  S +++D+S+  ++ L  +  +    L++L+L R   +     +   
Sbjct: 21  QKLSKVPDDIPS--STKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWH 77

Query: 103 SFSKLEVLRM 112
               L  L +
Sbjct: 78  GLHHLSNLIL 87

>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 = 43.5 bits (103), Expect = 9e-05
 Identities = 22/105 (20%), Positives = 39/105 (37%), Gaps = 7/105 (6%)

Query: 11  ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP--SGISSLVSLQHLDVSYTD 68
            L+LS N  +   + F+       LD       ++L  +   S   SL  L +LD+SYT+
Sbjct: 380 HLDLSFNGAIIMSANFMGLEELQHLDFQ----HSTLKRVTEFSAFLSLEKLLYLDISYTN 435

Query: 69  IRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM 112
            +         L +L  L +            +  + + L  L +
Sbjct: 436 TKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDL 480

>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 = 41.9 bits (99), Expect = 2e-04
 Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 2/71 (2%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYLNLERTYHLSRFPPELI 101
           N +     G  S L SL++L    T +  L    +  L+ L+ LN+   +  S   P   
Sbjct: 90  NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYF 149

Query: 102 CSFSKLEVLRM 112
            + + L  + +
Sbjct: 150 SNLTNLVHVDL 160

>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 = 41.6 bits (98), Expect = 3e-04
 Identities = 24/170 (14%), Positives = 55/170 (32%), Gaps = 16/170 (9%)

Query: 44  NSLTELPSGI-----SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPP 98
           N +  +          +      LD+S   I  +  +    + L  L L   ++ S    
Sbjct: 163 NYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMK 222

Query: 99  ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNL-ISFSLYSSRGV 157
             + + + L V R++             L      +M+ L  + +    ++++   S  +
Sbjct: 223 TCLQNLAGLHVHRLILGEFKDERN----LEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDI 278

Query: 158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEEL 207
             F     +     A+S++   I  L    +      + L I    L++ 
Sbjct: 279 VKFHCLANV----SAMSLAGVSIKYL--EDVPKHFKWQSLSIIRCQLKQF 322

>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 = 40.0 bits (94), Expect = 9e-04
 Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 3/69 (4%)

Query: 44  NSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELI 101
             +  +       L  L +L ++   I+   P   + L +L  L    T  L+      I
Sbjct: 66  CEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPI 124

Query: 102 CSFSKLEVL 110
                L+ L
Sbjct: 125 GQLITLKKL 133

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 43.3 bits (102), Expect = 9e-05
 Identities = 19/211 (9%), Positives = 52/211 (24%), Gaps = 20/211 (9%)

Query: 12  LELSSNN-KVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIR 70
           L L  N     +     ++     L +      N L  +     S   +  + +    + 
Sbjct: 174 LNLQYNFIYDVKGQVVFAKLKTLDLSS------NKLAFMGPEFQSAAGVTWISLRNNKLV 227

Query: 71  GLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSED 130
            +   L    NL + +L           +      +++ +   ++    T +     +  
Sbjct: 228 LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVA-KQTVKKLTGQNEEECTVP 286

Query: 131 AEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRIT------------QALSISDC 178
                    C  L    +  L + +   + L   +                 + +     
Sbjct: 287 TLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQREIDALKE 346

Query: 179 EIPLLNVSHLAYMEHLKDLVIDNSNLEELKT 209
           +   +        +    L      L+E  +
Sbjct: 347 QYRTVIDQVTLRKQAKITLEQKKKALDEQVS 377

>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 = 43.3 bits (102), Expect = 9e-05
 Identities = 18/69 (26%), Positives = 24/69 (34%), Gaps = 4/69 (5%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICS 103
           N LT LP   S L     L V    +  LP  L  L +   +NLE    LS    + +  
Sbjct: 251 NRLTSLPMLPSGL---LSLSVYRNQLTRLPESLIHLSSETTVNLEGN-PLSERTLQALRE 306

Query: 104 FSKLEVLRM 112
            +       
Sbjct: 307 ITSAPGYSG 315

>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 = 41.4 bits (97), Expect = 3e-04
 Identities = 18/81 (22%), Positives = 24/81 (29%), Gaps = 16/81 (19%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALL--------------NLRYLNLER 89
           N LT LP     L+ L       T +  LP  L  L                L+ L++  
Sbjct: 91  NQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSD 150

Query: 90  TYHLSRFPPELICSFSKLEVL 110
              L+  P        KL   
Sbjct: 151 N-QLASLPAL-PSELCKLWAY 169

>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 = 43.4 bits (102), Expect = 9e-05
 Identities = 55/332 (16%), Positives = 112/332 (33%), Gaps = 26/332 (7%)

Query: 12  LELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRG 71
           +++     +    +F + A+      G       + E    +     L  L +SY     
Sbjct: 225 VKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNE 284

Query: 72  LPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDA 131
           +P        +R L+L      +     LI     LEVL       D   E  +   +  
Sbjct: 285 MPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQL 344

Query: 132 EPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLA-Y 190
           + L  E    +        L S RG+    +  + L   + +++   +I   ++  +  Y
Sbjct: 345 KRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQEL---EYMAVYVSDITNESLESIGTY 401

Query: 191 MEHLKDLVIDNSNLEELKTDCTGE--VQKVLQCGFRSLHLASIAFCSRVKDLTWLAFA-- 246
           +++L D  +   + EE  TD   +  V+ +L    +    A       + DL        
Sbjct: 402 LKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQY 461

Query: 247 -PNLKIIVIMHCDD----LEEIISV----EKLN----QLSD--IMGELNFFAKLELLDLY 291
            PN++ +++ +  +    L E        +KL       S+  I   +     L  L + 
Sbjct: 462 SPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRYLWVQ 521

Query: 292 HAE---NLKSIYQGALPLPQLKEIRVTQCPKL 320
                   + + Q A P   ++ I   + P++
Sbjct: 522 GYRASMTGQDLMQMARPYWNIELIPSRRVPEV 553

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.4 bits (102), Expect = 1e-04
 Identities = 57/311 (18%), Positives = 111/311 (35%), Gaps = 56/311 (18%)

Query: 44  NSLTELPSGI-SSLVSLQHLDVSYTDIRGLPHEL-TALLNLRYLNLERTYHLSRFPPELI 101
             + E+ +   +   ++Q L + +  IR LP  +   +  L  L LER   LS  P  + 
Sbjct: 85  LQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIF 143

Query: 102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL 161
            +  KL  L M            + L    +   +    L+ L L            N L
Sbjct: 144 HNTPKLTTLSM----------SNNNLERIEDDTFQATTSLQNLQL----------SSNRL 183

Query: 162 KF--PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVL 219
                 L+      ++S   +     S LA    +++L   ++++  ++     E+    
Sbjct: 184 THVDLSLIPSLFHANVSYNLL-----STLAIPIAVEELDASHNSINVVRGPVNVELT--- 235

Query: 220 QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKI-------IVIMHCDDLEEIISVEKL--- 269
                 L L        + D  WL   P L         +  +      ++  +E+L   
Sbjct: 236 -----ILKLQHN----NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYIS 286

Query: 270 -NQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSS 328
            N+L  +         L++LDL H  +L  + +      +L+ + +     + TL L++ 
Sbjct: 287 NNRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTH 344

Query: 329 STKLRNIVISG 339
            T L+N+ +S 
Sbjct: 345 HT-LKNLTLSH 354

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

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 25/105 (23%), Positives = 41/105 (39%), Gaps = 7/105 (6%)

Query: 11  ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG--ISSLVSLQHLDVSYTD 68
            L+LS N  +   S FL       LD       ++L ++       SL +L +LD+S+T 
Sbjct: 82  YLDLSFNGVITMSSNFLGLEQLEHLDFQ----HSNLKQMSEFSVFLSLRNLIYLDISHTH 137

Query: 69  IRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM 112
            R   +     L +L  L +        F P++      L  L +
Sbjct: 138 TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL 182

>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 = 42.4 bits (100), Expect = 1e-04
 Identities = 31/131 (23%), Positives = 45/131 (34%), Gaps = 27/131 (20%)

Query: 6   SNIPS---ILELSSNN-KVFEPSWFLSRASWTCLDNGPSRIK------------------ 43
            ++P    IL LS N    F  +  +     T L+   + +                   
Sbjct: 27  PDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSH 86

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLPHEL-TALLNLRYLNLERTYHLSRFPPELIC 102
           N L  LP    +L +L  LDVS+  +  LP      L  L+ L L+    L   PP L  
Sbjct: 87  NQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTLPPGL-- 143

Query: 103 SFSKLEVLRML 113
             +    L  L
Sbjct: 144 -LTPTPKLEKL 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 = 41.9 bits (99), Expect = 2e-04
 Identities = 10/72 (13%), Positives = 26/72 (36%), Gaps = 2/72 (2%)

Query: 44  NSLTELPSGI-SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           NS++ + +G  ++   L+ L ++   +  +P  L     ++ + L    ++S       C
Sbjct: 226 NSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFC 284

Query: 103 SFSKLEVLRMLE 114
                       
Sbjct: 285 PPGYNTKKASYS 296

>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 = 42.4 bits (99), Expect = 2e-04
 Identities = 47/265 (17%), Positives = 98/265 (36%), Gaps = 53/265 (20%)

Query: 43  KNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           K S+T+     + L S+  +  + +DI+ +   +  L N+  L L     L+   P  + 
Sbjct: 30  KKSVTDA-VTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGN-KLTDIKP--LT 84

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLS----EDAEPLMKELLCLKLLNLISFSLYSSRGVR 158
           +   L  L                L     +D   L K+L  LK L+L    +     + 
Sbjct: 85  NLKNLGWL---------------FLDENKIKDLSSL-KDLKKLKSLSLEHNGI---SDIN 125

Query: 159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKV 218
             +  P+L    ++L + + +I   +++ L+ +  L  L ++++ + ++           
Sbjct: 126 GLVHLPQL----ESLYLGNNKI--TDITVLSRLTKLDTLSLEDNQISDIV---------- 169

Query: 219 LQCGFRSLHLASIAFCS--RVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEK----LNQL 272
                  L      + S   + DL  LA   NL ++ +   + L + I+ +      N +
Sbjct: 170 ---PLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTV 226

Query: 273 SDIMGELNFFAKLELLDLYHAENLK 297
            +  G L     +     Y   N+K
Sbjct: 227 KNTDGSLVTPEIISDDGDYEKPNVK 251

>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 = 42.2 bits (100), Expect = 2e-04
 Identities = 18/79 (22%), Positives = 30/79 (37%), Gaps = 1/79 (1%)

Query: 33  TCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYH 92
           T +D     +    + + S + SL  L+ L +S + I G         +L  L+L R   
Sbjct: 53  TSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSL 112

Query: 93  LSRFPPEL-ICSFSKLEVL 110
                    + S S L+ L
Sbjct: 113 SGPVTTLTSLGSCSGLKFL 131

>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 = 42.1 bits (98), Expect = 2e-04
 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)

Query: 43  KNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNL 87
              LT L   +  L+ + HLD+S+  +R LP  L AL  L  L  
Sbjct: 450 HKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQA 493

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 29/116 (25%), Positives = 43/116 (37%), Gaps = 18/116 (15%)

Query: 6   SNIPS---ILELSSNN-KVFEPSWF--LSRASWTCLDNGPSRIKNSLTELPSGI-SSLVS 58
           +N+P     + L  N  KV  P  F    +     L N      N ++EL       L S
Sbjct: 28  TNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSN------NQISELAPDAFQGLRS 81

Query: 59  LQHLDVSYTDIRGLPHEL-TALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRML 113
           L  L +    I  LP  L   L +L+ L L     ++    +   +F  L  L +L
Sbjct: 82  LNSLVLYGNKITELPKSLFEGLFSLQLLLLNAN-KINCLRVD---AFQDLHNLNLL 133

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

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 12/73 (16%), Positives = 26/73 (35%), Gaps = 2/73 (2%)

Query: 44  NSLTELPSGI-SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           N +  + +G  S L +L+ L +    +  +P  L  L  L+ + L    ++++      C
Sbjct: 227 NQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFC 285

Query: 103 SFSKLEVLRMLES 115
                        
Sbjct: 286 PVGFGVKRAYYNG 298

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

 Score = 41.0 bits (96), Expect = 4e-04
 Identities = 26/118 (22%), Positives = 44/118 (37%), Gaps = 19/118 (16%)

Query: 6   SNIPS---ILELSSNN-KVFEPSWF---LSRASWTCLDNGPSRIKNSLTELPSGI-SSLV 57
            ++PS   +L+LS NN       W    L+      L +      N L  + S     + 
Sbjct: 35  QSLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSH------NHLNFISSEAFVPVP 88

Query: 58  SLQHLDVSYTDIRGLPHE-LTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLE 114
           +L++LD+S   +  L     + L  L  L L    H+         +F  +  L+ L 
Sbjct: 89  NLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNN-HIVVVDRN---AFEDMAQLQKLY 142

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

 Score = 40.5 bits (95), Expect = 6e-04
 Identities = 46/300 (15%), Positives = 93/300 (31%), Gaps = 67/300 (22%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYLNLERTYHLSRFPPELIC 102
                +P GI +    + LD+    I+ L   E  +  +L  L L     +S   P    
Sbjct: 21  KRFVAVPEGIPT--ETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFN 77

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           +   L  L +          + + L      +   L  L  L++ S +         F  
Sbjct: 78  NLFNLRTLGL----------RSNRLKLIPLGVFTGLSNLTKLDI-SENKIVILLDYMFQD 126

Query: 163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCG 222
              L    ++L + D ++  ++    + +  L+ L ++  NL  + T+            
Sbjct: 127 LYNL----KSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEA----------- 171

Query: 223 FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDI-MGELNF 281
              L                      L ++ + H               ++ I       
Sbjct: 172 LSHL--------------------HGLIVLRLRH-------------LNINAIRDYSFKR 198

Query: 282 FAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLN--SSSTKLRNIVISG 339
             +L++L++ H   L ++    L    L  + +T C  L  +P         LR + +S 
Sbjct: 199 LYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSY 257

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 39.8 bits (94), Expect = 8e-04
 Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 5/72 (6%)

Query: 44  NSLT-ELPSGISSLVSLQHLDVSYTDIRG-LPHELTALLNLRYLNLERTYHLS-RFPPEL 100
           N+L   +P  I+ L  L +L +++T++ G +P  L+ +  L  L+      LS   PP  
Sbjct: 87  NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYN-ALSGTLPPS- 144

Query: 101 ICSFSKLEVLRM 112
           I S   L  +  
Sbjct: 145 ISSLPNLVGITF 156

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	366
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.94
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.94
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.93
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.93
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.93
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.92
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.92
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.92
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.91
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.91
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.91
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.91
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.91
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.91
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.91
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.91
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.9
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.9
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.9
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.9
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.9
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.9
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.9
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.9
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.89
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.89
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.89
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.89
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.88
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.88
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.88
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.88
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.88
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.88
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.87
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.87
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.87
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.86
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.86
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.86
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.86
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.86
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.86
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.85
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.85
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.84
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.84
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.83
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.83
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.82
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.82
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.81
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.81
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.81
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.81
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.8
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.8
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.79
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.79
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.78
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.78
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.78
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.78
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.76
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.76
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.76
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.75
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.75
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.74
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.74
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.74
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.74
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.73
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.73
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.72
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.72
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.7
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.7
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.7
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.7
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.7
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.69
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.69
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.68
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.67
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.67
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.66
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.66
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.64
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.63
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.61
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.59
3m19_A	251	Variable lymphocyte receptor A diversity region; a	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
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.54
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.53
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.53
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.53
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.52
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.5
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.49
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.47
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.47
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.46
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.45
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.44
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.44
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.39
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.38
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.37
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.37
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.36
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.36
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.35
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.34
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.34
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.32
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.3
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.29
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.29
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.25
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.25
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.24
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.24
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.24
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.24
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.24
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.22
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.13
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.04
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.02
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.02
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.87
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.79
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.65
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.64
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.6
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.52
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.5
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.38
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.38
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.36
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.33
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.28
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.16
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.04
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.02
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.79
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.73
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.98
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.7
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	95.7
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	95.31
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.9

>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=99.94  E-value=5.7e-26  Score=208.05  Aligned_cols=280  Identities=18%  Similarity=0.202  Sum_probs=152.9

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++++|+.|+++++.+..++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.++.++ .+..+++|+
T Consensus        42 ~l~~L~~L~l~~~~i~~~~~--~~~~~~L~~L~l~~n----~i~~~~~-~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~  113 (347)
T 4fmz_A           42 ELESITKLVVAGEKVASIQG--IEYLTNLEYLNLNGN----QITDISP-LSNLVKLTNLYIGTNKITDIS-ALQNLTNLR  113 (347)
T ss_dssp             HHTTCSEEECCSSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCS
T ss_pred             hcccccEEEEeCCccccchh--hhhcCCccEEEccCC----ccccchh-hhcCCcCCEEEccCCcccCch-HHcCCCcCC
Confidence            34566677777666666554  566667777777766    5555555 566666677776666666554 466666666


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++.  +..+++|++|++.+|.....              +..+..+++|+.|+++++.....+.+...
T Consensus       114 ~L~l~~-n~i~~~~~--~~~l~~L~~L~l~~n~~~~~--------------~~~~~~l~~L~~L~l~~~~~~~~~~~~~l  176 (347)
T 4fmz_A          114 ELYLNE-DNISDISP--LANLTKMYSLNLGANHNLSD--------------LSPLSNMTGLNYLTVTESKVKDVTPIANL  176 (347)
T ss_dssp             EEECTT-SCCCCCGG--GTTCTTCCEEECTTCTTCCC--------------CGGGTTCTTCCEEECCSSCCCCCGGGGGC
T ss_pred             EEECcC-CcccCchh--hccCCceeEEECCCCCCccc--------------ccchhhCCCCcEEEecCCCcCCchhhccC
Confidence            666666 45555554  56666666666666633111              11134444444444444433332221110


Q ss_pred             ------------------ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCC
Q 040318          164 ------------------PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRS  225 (366)
Q Consensus       164 ------------------~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~  225 (366)
                                        ...+++|+.+++.++..  .....+..+++|++|+++++.+..+..          ...+++
T Consensus       177 ~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l--~~~~~~~~~~~L~~L~l~~n~l~~~~~----------~~~l~~  244 (347)
T 4fmz_A          177 TDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQI--TDITPVANMTRLNSLKIGNNKITDLSP----------LANLSQ  244 (347)
T ss_dssp             TTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCC--CCCGGGGGCTTCCEEECCSSCCCCCGG----------GTTCTT
T ss_pred             CCCCEEEccCCcccccccccCCCccceeecccCCC--CCCchhhcCCcCCEEEccCCccCCCcc----------hhcCCC
Confidence                              11223344555544443  111124455555555555555544332          135666


Q ss_pred             CcEEeEecCCCCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcC
Q 040318          226 LHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALP  305 (366)
Q Consensus       226 L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  305 (366)
                      |+.|++++| .++.++.+..+++|++|++++|.... + +            .+..+++|+.|++++|.-..........
T Consensus       245 L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~l~~-~-~------------~~~~l~~L~~L~L~~n~l~~~~~~~l~~  309 (347)
T 4fmz_A          245 LTWLEIGTN-QISDINAVKDLTKLKMLNVGSNQISD-I-S------------VLNNLSQLNSLFLNNNQLGNEDMEVIGG  309 (347)
T ss_dssp             CCEEECCSS-CCCCCGGGTTCTTCCEEECCSSCCCC-C-G------------GGGGCTTCSEEECCSSCCCGGGHHHHHT
T ss_pred             CCEEECCCC-ccCCChhHhcCCCcCEEEccCCccCC-C-h------------hhcCCCCCCEEECcCCcCCCcChhHhhc
Confidence            677777666 56666656666677777776664322 2 1            4556777777777776433222233445


Q ss_pred             CCCccEEeccCCCCCCCCCCCCCCCCcceeEEE
Q 040318          306 LPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVIS  338 (366)
Q Consensus       306 ~~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~  338 (366)
                      +++|+.|++++|+ ++.++. +..+ ..+..++
T Consensus       310 l~~L~~L~L~~n~-l~~~~~-~~~l-~~L~~L~  339 (347)
T 4fmz_A          310 LTNLTTLFLSQNH-ITDIRP-LASL-SKMDSAD  339 (347)
T ss_dssp             CTTCSEEECCSSS-CCCCGG-GGGC-TTCSEES
T ss_pred             cccCCEEEccCCc-cccccC-hhhh-hccceee
Confidence            7788888888775 555544 2222 4444443

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

Probab=99.94  E-value=3.8e-26  Score=212.67  Aligned_cols=295  Identities=16%  Similarity=0.164  Sum_probs=192.3

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCc
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~   80 (366)
                      ..+++++.|+++++.+..+|..++..+++|++|++++|    .++.++. .+..+++|++|++++|.++.++ ..++.++
T Consensus        42 ~~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  117 (390)
T 3o6n_A           42 ITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL----QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVP  117 (390)
T ss_dssp             GGGCCCSEEEEESCEESEECTHHHHHCCCCSEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             cccCCceEEEecCCchhhCChhHhcccccCcEEECCCC----cccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCC
Confidence            45789999999999999999888899999999999999    7777754 6888999999999999988765 4578999


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      +|++|++++ +.+..+|.+++.++++|++|++++|.+..             ..+..+..+++|+.|+++++.....+  
T Consensus       118 ~L~~L~L~~-n~l~~l~~~~~~~l~~L~~L~L~~n~l~~-------------~~~~~~~~l~~L~~L~l~~n~l~~~~--  181 (390)
T 3o6n_A          118 LLTVLVLER-NDLSSLPRGIFHNTPKLTTLSMSNNNLER-------------IEDDTFQATTSLQNLQLSSNRLTHVD--  181 (390)
T ss_dssp             TCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCB-------------CCTTTTSSCTTCCEEECCSSCCSBCC--
T ss_pred             CCCEEECCC-CccCcCCHHHhcCCCCCcEEECCCCccCc-------------cChhhccCCCCCCEEECCCCcCCccc--
Confidence            999999999 78888888756889999999999997622             22345677889999999887765542  


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccC-----------ccccccccCCCCCcEE
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTG-----------EVQKVLQCGFRSLHLA  229 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~-----------~~~~~p~~~~~~L~~L  229 (366)
                         ...+++|+.+++.++...     .+...++|+.|++.++.+..+......           .........+++|+.|
T Consensus       182 ---~~~l~~L~~L~l~~n~l~-----~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L  253 (390)
T 3o6n_A          182 ---LSLIPSLFHANVSYNLLS-----TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEV  253 (390)
T ss_dssp             ---GGGCTTCSEEECCSSCCS-----EEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             ---cccccccceeeccccccc-----ccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCCCCccEE
Confidence               122344666666554331     111223455555555444433220000           0000000345566666


Q ss_pred             eEecCCCCccc--ccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCC
Q 040318          230 SIAFCSRVKDL--TWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLP  307 (366)
Q Consensus       230 ~l~~~~~l~~l--~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  307 (366)
                      ++++| .++.+  ..+..+++|++|++++|.... +            ......+++|++|+++++ .++.++.....++
T Consensus       254 ~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~n~l~~-~------------~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~  318 (390)
T 3o6n_A          254 DLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVA-L------------NLYGQPIPTLKVLDLSHN-HLLHVERNQPQFD  318 (390)
T ss_dssp             ECCSS-CCCEEESGGGTTCSSCCEEECCSSCCCE-E------------ECSSSCCTTCCEEECCSS-CCCCCGGGHHHHT
T ss_pred             ECCCC-cCCCcChhHccccccCCEEECCCCcCcc-c------------CcccCCCCCCCEEECCCC-cceecCccccccC
Confidence            66665 34443  234456666666666554322 1            113456788888888876 4555555555678


Q ss_pred             CccEEeccCCCCCCCCCCCCCCCCcceeEEEcchhhh
Q 040318          308 QLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWW  344 (366)
Q Consensus       308 ~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~~~  344 (366)
                      +|+.|++++|+ ++.+|.  ... ..++.++...+.|
T Consensus       319 ~L~~L~L~~N~-i~~~~~--~~~-~~L~~L~l~~N~~  351 (390)
T 3o6n_A          319 RLENLYLDHNS-IVTLKL--STH-HTLKNLTLSHNDW  351 (390)
T ss_dssp             TCSEEECCSSC-CCCCCC--CTT-CCCSEEECCSSCE
T ss_pred             cCCEEECCCCc-cceeCc--hhh-ccCCEEEcCCCCc
Confidence            88888888874 666652  233 4566665554433

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

Probab=99.93  E-value=9.6e-25  Score=208.54  Aligned_cols=278  Identities=15%  Similarity=0.117  Sum_probs=195.1

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchh-hhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~   83 (366)
                      ++++.|++++|.+..+++..|..+++|++|++++|    .++.+ |..+.++++|++|++++|.++.+|.. +.++++|+
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  107 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN----IVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLT  107 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCC
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCC----ccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCC
Confidence            57889999999998887666889999999999999    67776 66788899999999999988877754 67889999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++...+..+++|++|++.+|.+..             ..+..+..+++|+.|+++++.....+..  .
T Consensus       108 ~L~Ls~-n~i~~~~~~~~~~l~~L~~L~l~~n~l~~-------------~~~~~~~~l~~L~~L~l~~n~l~~~~~~--~  171 (477)
T 2id5_A          108 KLDISE-NKIVILLDYMFQDLYNLKSLEVGDNDLVY-------------ISHRAFSGLNSLEQLTLEKCNLTSIPTE--A  171 (477)
T ss_dssp             EEECTT-SCCCEECTTTTTTCTTCCEEEECCTTCCE-------------ECTTSSTTCTTCCEEEEESCCCSSCCHH--H
T ss_pred             EEECCC-CccccCChhHccccccCCEEECCCCccce-------------eChhhccCCCCCCEEECCCCcCcccChh--H
Confidence            999988 66766655448889999999998887621             2234567788888888888766554321  1


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccc-cceeeccccCccccccccCCCCCcEEeEecCCCCcccc-
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSN-LEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-  241 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~-l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-  241 (366)
                      ...+++|+.|++.++.........+..+++|+.|++.++. +..+.....         ...+|+.|++++| .++.++ 
T Consensus       172 l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~---------~~~~L~~L~l~~n-~l~~~~~  241 (477)
T 2id5_A          172 LSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCL---------YGLNLTSLSITHC-NLTAVPY  241 (477)
T ss_dssp             HTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTT---------TTCCCSEEEEESS-CCCSCCH
T ss_pred             hcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccc---------cCccccEEECcCC-cccccCH
Confidence            1234568888888877633333366777888888887743 333332211         2347888888888 677766 


Q ss_pred             -cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCC
Q 040318          242 -WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKL  320 (366)
Q Consensus       242 -~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l  320 (366)
                       .+..+++|++|+|++|.......            ..+..+++|+.|+++++.--.........+++|+.|+++++ ++
T Consensus       242 ~~~~~l~~L~~L~Ls~n~l~~~~~------------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N-~l  308 (477)
T 2id5_A          242 LAVRHLVYLRFLNLSYNPISTIEG------------SMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGN-QL  308 (477)
T ss_dssp             HHHTTCTTCCEEECCSSCCCEECT------------TSCTTCTTCCEEECCSSCCSEECTTTBTTCTTCCEEECCSS-CC
T ss_pred             HHhcCccccCeeECCCCcCCccCh------------hhccccccCCEEECCCCccceECHHHhcCcccCCEEECCCC-cC
Confidence             35678888888888776433221            14566778888888775332222334456778888888876 56


Q ss_pred             CCCCCC
Q 040318          321 KTLPLN  326 (366)
Q Consensus       321 ~~lp~~  326 (366)
                      +.+|..
T Consensus       309 ~~~~~~  314 (477)
T 2id5_A          309 TTLEES  314 (477)
T ss_dssp             SCCCGG
T ss_pred             ceeCHh
Confidence            666654

>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=99.93  E-value=7.7e-25  Score=200.52  Aligned_cols=274  Identities=16%  Similarity=0.216  Sum_probs=204.0

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|++|++++|.+.+++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.+..++. +..+++|+
T Consensus        64 ~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n----~i~~~~~-~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~  135 (347)
T 4fmz_A           64 YLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTN----KITDISA-LQNLTNLRELYLNEDNISDISP-LANLTKMY  135 (347)
T ss_dssp             GCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS----CCCCCGG-GTTCTTCSEEECTTSCCCCCGG-GTTCTTCC
T ss_pred             hcCCccEEEccCCccccchh--hhcCCcCCEEEccCC----cccCchH-HcCCCcCCEEECcCCcccCchh-hccCCcee
Confidence            58899999999999988877  788999999999999    7777754 8889999999999999888765 78889999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCcccccc-------ccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGS-------VLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-------~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      +|++++|.....++.  +..+++|++|++.+|.+.....+..       ............+..+++|+.++++++....
T Consensus       136 ~L~l~~n~~~~~~~~--~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~  213 (347)
T 4fmz_A          136 SLNLGANHNLSDLSP--LSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITD  213 (347)
T ss_dssp             EEECTTCTTCCCCGG--GTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCC
T ss_pred             EEECCCCCCcccccc--hhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcccccccccCCCccceeecccCCCCC
Confidence            999988656665554  7888888888888887643321100       0000000001114455666666666555444


Q ss_pred             cccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCC
Q 040318          157 VRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSR  236 (366)
Q Consensus       157 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~  236 (366)
                      ...    ...+++|++|+++++..  .....+..+++|++|+++++.+..+..  +        ..+++|+.|++++| .
T Consensus       214 ~~~----~~~~~~L~~L~l~~n~l--~~~~~~~~l~~L~~L~l~~n~l~~~~~--~--------~~l~~L~~L~l~~n-~  276 (347)
T 4fmz_A          214 ITP----VANMTRLNSLKIGNNKI--TDLSPLANLSQLTWLEIGTNQISDINA--V--------KDLTKLKMLNVGSN-Q  276 (347)
T ss_dssp             CGG----GGGCTTCCEEECCSSCC--CCCGGGTTCTTCCEEECCSSCCCCCGG--G--------TTCTTCCEEECCSS-C
T ss_pred             Cch----hhcCCcCCEEEccCCcc--CCCcchhcCCCCCEEECCCCccCCChh--H--------hcCCCcCEEEccCC-c
Confidence            433    23456799999999887  333357889999999999988877532  2        47899999999999 7


Q ss_pred             CcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccC
Q 040318          237 VKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQ  316 (366)
Q Consensus       237 l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~  316 (366)
                      +++++.+..+++|++|++++|........            .+..+++|++|+++++. ++.+.. ...+++|+.|++++
T Consensus       277 l~~~~~~~~l~~L~~L~L~~n~l~~~~~~------------~l~~l~~L~~L~L~~n~-l~~~~~-~~~l~~L~~L~l~~  342 (347)
T 4fmz_A          277 ISDISVLNNLSQLNSLFLNNNQLGNEDME------------VIGGLTNLTTLFLSQNH-ITDIRP-LASLSKMDSADFAN  342 (347)
T ss_dssp             CCCCGGGGGCTTCSEEECCSSCCCGGGHH------------HHHTCTTCSEEECCSSS-CCCCGG-GGGCTTCSEESSSC
T ss_pred             cCCChhhcCCCCCCEEECcCCcCCCcChh------------HhhccccCCEEEccCCc-cccccC-hhhhhccceeehhh
Confidence            88888888999999999999976544432            56789999999999986 555443 56799999999999


Q ss_pred             CC
Q 040318          317 CP  318 (366)
Q Consensus       317 c~  318 (366)
                      |+
T Consensus       343 N~  344 (347)
T 4fmz_A          343 QV  344 (347)
T ss_dssp             C-
T ss_pred             hc
Confidence            85

>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=99.93  E-value=5.2e-25  Score=216.01  Aligned_cols=293  Identities=16%  Similarity=0.151  Sum_probs=184.9

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCc
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~   80 (366)
                      ..+++++.++++++.+..+|..++..+++|++|++++|    .++.++. .+..+++|++|++++|.++.+|. .+++++
T Consensus        48 l~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  123 (597)
T 3oja_B           48 ITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL----QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVP  123 (597)
T ss_dssp             GGGCCCSEEEESSCEESEECTHHHHHCCCCSEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             ccCCCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCC----CCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCC
Confidence            35678888999888888888887888899999999988    6777654 67888899999999988886654 468888


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      +|++|++++ +.+..+|..++.++++|++|++++|.+.             ...+..+..+++|+.|+++++.....+  
T Consensus       124 ~L~~L~L~~-n~l~~l~~~~~~~l~~L~~L~Ls~N~l~-------------~~~~~~~~~l~~L~~L~L~~N~l~~~~--  187 (597)
T 3oja_B          124 LLTVLVLER-NDLSSLPRGIFHNTPKLTTLSMSNNNLE-------------RIEDDTFQATTSLQNLQLSSNRLTHVD--  187 (597)
T ss_dssp             TCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCC-------------BCCTTTTTTCTTCCEEECTTSCCSBCC--
T ss_pred             CCCEEEeeC-CCCCCCCHHHhccCCCCCEEEeeCCcCC-------------CCChhhhhcCCcCcEEECcCCCCCCcC--
Confidence            999999988 6778888775688889999999888762             122345677788888888877665542  


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeecccc-----------CccccccccCCCCCcEE
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCT-----------GEVQKVLQCGFRSLHLA  229 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~-----------~~~~~~p~~~~~~L~~L  229 (366)
                         ...+++|+.|++.++..   .  .+...++|+.|+++++.+..+.....           ...+......+++|+.|
T Consensus       188 ---~~~l~~L~~L~l~~n~l---~--~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L  259 (597)
T 3oja_B          188 ---LSLIPSLFHANVSYNLL---S--TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEV  259 (597)
T ss_dssp             ---GGGCTTCSEEECCSSCC---S--EEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             ---hhhhhhhhhhhcccCcc---c--cccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEE
Confidence               12234466666655433   1  11222345555555544443332000           00000001345666666


Q ss_pred             eEecCCCCccc--ccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCC
Q 040318          230 SIAFCSRVKDL--TWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLP  307 (366)
Q Consensus       230 ~l~~~~~l~~l--~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  307 (366)
                      ++++| .++.+  ..++.+++|+.|+|++|.... +.            .....+++|+.|+++++ .+..++.....++
T Consensus       260 ~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~------------~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~l~  324 (597)
T 3oja_B          260 DLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVA-LN------------LYGQPIPTLKVLDLSHN-HLLHVERNQPQFD  324 (597)
T ss_dssp             ECCSS-CCCEEESGGGTTCSSCCEEECTTSCCCE-EE------------CSSSCCTTCCEEECCSS-CCCCCGGGHHHHT
T ss_pred             ECCCC-ccCCCCHHHhcCccCCCEEECCCCCCCC-CC------------cccccCCCCcEEECCCC-CCCccCcccccCC
Confidence            66666 34443  234556666666666554322 11            14455778888888776 3445555555678


Q ss_pred             CccEEeccCCCCCCCCCCCCCCCCcceeEEEcchh
Q 040318          308 QLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKD  342 (366)
Q Consensus       308 ~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~  342 (366)
                      +|+.|++++|+ ++.+|.  ..+ ..+..++...+
T Consensus       325 ~L~~L~L~~N~-l~~~~~--~~~-~~L~~L~l~~N  355 (597)
T 3oja_B          325 RLENLYLDHNS-IVTLKL--STH-HTLKNLTLSHN  355 (597)
T ss_dssp             TCSEEECCSSC-CCCCCC--CTT-CCCSEEECCSS
T ss_pred             CCCEEECCCCC-CCCcCh--hhc-CCCCEEEeeCC
Confidence            88888888874 665652  222 45555554444

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

Probab=99.92  E-value=4.3e-24  Score=198.74  Aligned_cols=278  Identities=16%  Similarity=0.146  Sum_probs=206.0

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchh-hhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHE-LTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~   81 (366)
                      .+++|++|++++|.+..++...+..+++|++|++++|    .++.++ ..+..+++|++|++++|.++.+|.. +..+++
T Consensus        67 ~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~  142 (390)
T 3o6n_A           67 SFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN----AIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPK  142 (390)
T ss_dssp             HCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             ccccCcEEECCCCcccccChhhccCCCCcCEEECCCC----CCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCC
Confidence            4789999999999999988766999999999999999    778775 4578899999999999999988876 488999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccc--cccc-cccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAE--QGSV-LSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~-~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      |++|++++ +.+..++...+..+++|++|++.+|.+.....  +... .-.........+...+.|+.|+++++.....+
T Consensus       143 L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~  221 (390)
T 3o6n_A          143 LTTLSMSN-NNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVR  221 (390)
T ss_dssp             CCEEECCS-SCCCBCCTTTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEE
T ss_pred             CcEEECCC-CccCccChhhccCCCCCCEEECCCCcCCccccccccccceeecccccccccCCCCcceEEECCCCeeeecc
Confidence            99999999 77777766558899999999999997732210  0000 00000000011122344555555544444332


Q ss_pred             cccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCc
Q 040318          159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK  238 (366)
Q Consensus       159 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~  238 (366)
                      .     ....+|+.|++.++..  .....+..+++|+.|+++++.+..+....+        ..+++|+.|++++| .++
T Consensus       222 ~-----~~~~~L~~L~l~~n~l--~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~--------~~l~~L~~L~L~~n-~l~  285 (390)
T 3o6n_A          222 G-----PVNVELTILKLQHNNL--TDTAWLLNYPGLVEVDLSYNELEKIMYHPF--------VKMQRLERLYISNN-RLV  285 (390)
T ss_dssp             C-----CCCSSCCEEECCSSCC--CCCGGGGGCTTCSEEECCSSCCCEEESGGG--------TTCSSCCEEECCSS-CCC
T ss_pred             c-----cccccccEEECCCCCC--cccHHHcCCCCccEEECCCCcCCCcChhHc--------cccccCCEEECCCC-cCc
Confidence            2     1235688999988877  333477889999999999999988765444        47899999999999 687


Q ss_pred             cccc-ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCC
Q 040318          239 DLTW-LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQC  317 (366)
Q Consensus       239 ~l~~-l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c  317 (366)
                      .++. ...+++|++|++++|... .+..            .+..+++|++|+++++. ++.+.  ...+++|+.|+++++
T Consensus       286 ~~~~~~~~l~~L~~L~L~~n~l~-~~~~------------~~~~l~~L~~L~L~~N~-i~~~~--~~~~~~L~~L~l~~N  349 (390)
T 3o6n_A          286 ALNLYGQPIPTLKVLDLSHNHLL-HVER------------NQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKNLTLSHN  349 (390)
T ss_dssp             EEECSSSCCTTCCEEECCSSCCC-CCGG------------GHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSEEECCSS
T ss_pred             ccCcccCCCCCCCEEECCCCcce-ecCc------------cccccCcCCEEECCCCc-cceeC--chhhccCCEEEcCCC
Confidence            7764 457899999999998643 3322            56678999999999874 44443  556899999999986


Q ss_pred             C
Q 040318          318 P  318 (366)
Q Consensus       318 ~  318 (366)
                      +
T Consensus       350 ~  350 (390)
T 3o6n_A          350 D  350 (390)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.92  E-value=4.4e-24  Score=203.95  Aligned_cols=272  Identities=18%  Similarity=0.184  Sum_probs=204.1

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccC-chhhhcCc
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGL-PHELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l-~~~i~~l~   80 (366)
                      .++++|++|++++|.+..+++..|.++++|++|++++|    .++.+|.. +..+++|++|++++|.+..+ +..+..++
T Consensus        53 ~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~  128 (477)
T 2id5_A           53 ASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN----RLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLY  128 (477)
T ss_dssp             TTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS----CCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCT
T ss_pred             cCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC----cCCccCcccccCCCCCCEEECCCCccccCChhHccccc
Confidence            36899999999999999886666999999999999999    78888764 67899999999999998854 56789999


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      +|++|++++ +.+..++...+.++++|++|++.+|.+..             .....+..+++|+.|+++++.....+..
T Consensus       129 ~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-------------~~~~~l~~l~~L~~L~l~~n~i~~~~~~  194 (477)
T 2id5_A          129 NLKSLEVGD-NDLVYISHRAFSGLNSLEQLTLEKCNLTS-------------IPTEALSHLHGLIVLRLRHLNINAIRDY  194 (477)
T ss_dssp             TCCEEEECC-TTCCEECTTSSTTCTTCCEEEEESCCCSS-------------CCHHHHTTCTTCCEEEEESCCCCEECTT
T ss_pred             cCCEEECCC-CccceeChhhccCCCCCCEEECCCCcCcc-------------cChhHhcccCCCcEEeCCCCcCcEeChh
Confidence            999999999 77777765558899999999999997732             2245577889999999998776654321


Q ss_pred             cccccccccccEEEEeccCCCCcCcc--chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCc
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVS--HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK  238 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~--~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~  238 (366)
                        ....+++|+.|+++++..  ....  ......+|+.|++.++.++.+....+        ..+++|+.|++++| .++
T Consensus       195 --~~~~l~~L~~L~l~~~~~--~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~Ls~n-~l~  261 (477)
T 2id5_A          195 --SFKRLYRLKVLEISHWPY--LDTMTPNCLYGLNLTSLSITHCNLTAVPYLAV--------RHLVYLRFLNLSYN-PIS  261 (477)
T ss_dssp             --CSCSCTTCCEEEEECCTT--CCEECTTTTTTCCCSEEEEESSCCCSCCHHHH--------TTCTTCCEEECCSS-CCC
T ss_pred             --hcccCcccceeeCCCCcc--ccccCcccccCccccEEECcCCcccccCHHHh--------cCccccCeeECCCC-cCC
Confidence              122345688999988776  3332  33344588888888888776654333        46788888888888 566


Q ss_pred             ccc--cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCC-CcCCCCccEEecc
Q 040318          239 DLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-ALPLPQLKEIRVT  315 (366)
Q Consensus       239 ~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~  315 (366)
                      .++  .+..+++|++|+|++|........            .+..+++|+.|+++++ .++.+... ...+++|+.|+++
T Consensus       262 ~~~~~~~~~l~~L~~L~L~~n~l~~~~~~------------~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~  328 (477)
T 2id5_A          262 TIEGSMLHELLRLQEIQLVGGQLAVVEPY------------AFRGLNYLRVLNVSGN-QLTTLEESVFHSVGNLETLILD  328 (477)
T ss_dssp             EECTTSCTTCTTCCEEECCSSCCSEECTT------------TBTTCTTCCEEECCSS-CCSCCCGGGBSCGGGCCEEECC
T ss_pred             ccChhhccccccCCEEECCCCccceECHH------------HhcCcccCCEEECCCC-cCceeCHhHcCCCcccCEEEcc
Confidence            654  366788888888888764443222            5667888888888876 44444432 3457788888887


Q ss_pred             CCC
Q 040318          316 QCP  318 (366)
Q Consensus       316 ~c~  318 (366)
                      +++
T Consensus       329 ~N~  331 (477)
T 2id5_A          329 SNP  331 (477)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            654

>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=2.4e-24  Score=204.51  Aligned_cols=296  Identities=16%  Similarity=0.141  Sum_probs=184.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcC-cc-CccccccccCCEEeccCCCCccC-chhhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLT-EL-PSGISSLVSLQHLDVSYTDIRGL-PHELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l-~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L   82 (366)
                      ++|++|++++|.+..+++..+..+++|++|++++|    .+. .+ +..+..+++|++|++++|.++.+ |..++++++|
T Consensus        30 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n----~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  105 (455)
T 3v47_A           30 AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQ----TPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANL  105 (455)
T ss_dssp             TTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCC----STTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTC
T ss_pred             CccCEEEecCCccCcCChhHhccCccccEEECcCC----cccceECcccccccccCCEEeCCCCccCccChhhccCcccC
Confidence            57888888888888775555888888888888888    443 44 34577788888888888887754 6678888888


Q ss_pred             CEeeccccccCCC-cC-hhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHH-hhcCCCCcceEEEEecccccccc
Q 040318           83 RYLNLERTYHLSR-FP-PELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMK-ELLCLKLLNLISFSLYSSRGVRN  159 (366)
Q Consensus        83 ~~L~L~~c~~~~~-l~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~~~~~~  159 (366)
                      ++|++++ +.+.. ++ ...+..+++|++|++.+|.+...             .+. .+..+++|+.|+++++.......
T Consensus       106 ~~L~L~~-n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~-------------~~~~~~~~l~~L~~L~L~~n~l~~~~~  171 (455)
T 3v47_A          106 EVLTLTQ-CNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKI-------------QPASFFLNMRRFHVLDLTFNKVKSICE  171 (455)
T ss_dssp             CEEECTT-SCCBTHHHHSSTTTTCTTCCEEECCSSBCCSC-------------CCCGGGGGCTTCCEEECTTCCBSCCCT
T ss_pred             CEEeCCC-CCCCccccCcccccCcccCCEEECCCCccCcc-------------CcccccCCCCcccEEeCCCCcccccCh
Confidence            8888888 45544 22 22367788888888888866222             111 25566777777776665443211


Q ss_pred             --ccccc------------------------------cccccccEEEEeccCCCCcCccc--------------------
Q 040318          160 --FLKFP------------------------------KLLRITQALSISDCEIPLLNVSH--------------------  187 (366)
Q Consensus       160 --~~~~~------------------------------~~~~~L~~L~l~~~~~~~~~~~~--------------------  187 (366)
                        +....                              ...++|++|+++++.........                    
T Consensus       172 ~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~  251 (455)
T 3v47_A          172 EDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYN  251 (455)
T ss_dssp             TTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTT
T ss_pred             hhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccc
Confidence              11100                              01123555555544331000000                    


Q ss_pred             -----------------hh--hhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCC
Q 040318          188 -----------------LA--YMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFA  246 (366)
Q Consensus       188 -----------------l~--~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l  246 (366)
                                       +.  ..++|+.|+++++.+..+....+        ..+++|+.|++++| .++.+.  .+..+
T Consensus       252 ~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~Ls~n-~l~~~~~~~~~~l  322 (455)
T 3v47_A          252 MGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVF--------SHFTDLEQLTLAQN-EINKIDDNAFWGL  322 (455)
T ss_dssp             TSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTT--------TTCTTCCEEECTTS-CCCEECTTTTTTC
T ss_pred             cccccchhhhccCcccccccccccCceEEEecCccccccchhhc--------ccCCCCCEEECCCC-cccccChhHhcCc
Confidence                             11  11355555555555554433333        46788888888888 566643  46678


Q ss_pred             CCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccc-cCCCcCCCCccEEeccCCCCCCCCCC
Q 040318          247 PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSI-YQGALPLPQLKEIRVTQCPKLKTLPL  325 (366)
Q Consensus       247 ~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~-~~~~~~~~~L~~L~l~~c~~l~~lp~  325 (366)
                      ++|++|++++|.......            ..+..+++|++|+++++. ++.+ +.....+++|+.|+++++ +++.+|.
T Consensus       323 ~~L~~L~Ls~N~l~~~~~------------~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~  388 (455)
T 3v47_A          323 THLLKLNLSQNFLGSIDS------------RMFENLDKLEVLDLSYNH-IRALGDQSFLGLPNLKELALDTN-QLKSVPD  388 (455)
T ss_dssp             TTCCEEECCSSCCCEECG------------GGGTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             ccCCEEECCCCccCCcCh------------hHhcCcccCCEEECCCCc-ccccChhhccccccccEEECCCC-ccccCCH
Confidence            888888888876533222            256678899999998874 4444 445667899999999986 6888876


Q ss_pred             CCCCCCcceeEEEcchh
Q 040318          326 NSSSTKLRNIVISGGKD  342 (366)
Q Consensus       326 ~~~~~~~~~~~~~~~~~  342 (366)
                      ........++.++....
T Consensus       389 ~~~~~l~~L~~L~l~~N  405 (455)
T 3v47_A          389 GIFDRLTSLQKIWLHTN  405 (455)
T ss_dssp             TTTTTCTTCCEEECCSS
T ss_pred             hHhccCCcccEEEccCC
Confidence            54322255666654443

>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=99.91  E-value=2.7e-23  Score=197.91  Aligned_cols=78  Identities=17%  Similarity=0.216  Sum_probs=41.8

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|++|++++|.+..+++  +..+++|++|++++|    .+..++. +..+++|++|++++|.++.++. +.++++|+
T Consensus        66 ~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~l~~n----~l~~~~~-~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~  137 (466)
T 1o6v_A           66 YLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNN----QIADITP-LANLTNLTGLTLFNNQITDIDP-LKNLTNLN  137 (466)
T ss_dssp             GCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCS
T ss_pred             hhcCCCEEECCCCccCCchh--hhccccCCEEECCCC----ccccChh-hcCCCCCCEEECCCCCCCCChH-HcCCCCCC
Confidence            34555555555555555444  455555555555555    4444444 5555555555555555554443 45555555


Q ss_pred             Eeeccc
Q 040318           84 YLNLER   89 (366)
Q Consensus        84 ~L~L~~   89 (366)
                      +|++++
T Consensus       138 ~L~l~~  143 (466)
T 1o6v_A          138 RLELSS  143 (466)
T ss_dssp             EEEEEE
T ss_pred             EEECCC
Confidence            555555

>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=99.91  E-value=2.2e-23  Score=189.57  Aligned_cols=216  Identities=15%  Similarity=0.200  Sum_probs=104.6

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccC-chhhhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGL-PHELTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~   84 (366)
                      +++.++++++.+..+|..+   .+.|++|++++|    .++.++. .+..+++|++|++++|.++.+ |..+..+++|++
T Consensus        32 ~l~~l~~~~~~l~~lp~~~---~~~l~~L~L~~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  104 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNN----KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLER  104 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCE
T ss_pred             CCeEEEecCCCccccCccC---CCCCeEEECCCC----cCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCE
Confidence            4555555555555555431   245555666655    4455433 355555566666655555544 445555555666


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..+|.. +.  ++|++|++.+|.+.             ......+..+++|+.|+++++............
T Consensus       105 L~Ls~-n~l~~l~~~-~~--~~L~~L~l~~n~l~-------------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  167 (330)
T 1xku_A          105 LYLSK-NQLKELPEK-MP--KTLQELRVHENEIT-------------KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAF  167 (330)
T ss_dssp             EECCS-SCCSBCCSS-CC--TTCCEEECCSSCCC-------------BBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGG
T ss_pred             EECCC-CcCCccChh-hc--ccccEEECCCCccc-------------ccCHhHhcCCccccEEECCCCcCCccCcChhhc
Confidence            66655 445555543 21  45555555555441             111233445555555555554443222222222


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--c
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--W  242 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~  242 (366)
                      ..+++|+.|+++++.......   ...++|++|+++++.++.+....+        ..+++|+.|++++| .++.++  .
T Consensus       168 ~~l~~L~~L~l~~n~l~~l~~---~~~~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~Ls~n-~l~~~~~~~  235 (330)
T 1xku_A          168 QGMKKLSYIRIADTNITTIPQ---GLPPSLTELHLDGNKITKVDAASL--------KGLNNLAKLGLSFN-SISAVDNGS  235 (330)
T ss_dssp             GGCTTCCEEECCSSCCCSCCS---SCCTTCSEEECTTSCCCEECTGGG--------TTCTTCCEEECCSS-CCCEECTTT
T ss_pred             cCCCCcCEEECCCCccccCCc---cccccCCEEECCCCcCCccCHHHh--------cCCCCCCEEECCCC-cCceeChhh
Confidence            233445555555554311111   111455555555555554433222        24555566666555 344432  2


Q ss_pred             ccCCCCccEEEEEccC
Q 040318          243 LAFAPNLKIIVIMHCD  258 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~  258 (366)
                      +..+++|++|++++|.
T Consensus       236 ~~~l~~L~~L~L~~N~  251 (330)
T 1xku_A          236 LANTPHLRELHLNNNK  251 (330)
T ss_dssp             GGGSTTCCEEECCSSC
T ss_pred             ccCCCCCCEEECCCCc
Confidence            4455556666665553

>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=1.1e-23  Score=207.99  Aligned_cols=320  Identities=14%  Similarity=0.119  Sum_probs=206.4

Q ss_pred             CCCCcCEEEccCCCCCc------------------cchhhhh--cCCcccEEECCCCCCCCCcCccCccccccccCCEEe
Q 040318            4 RYSNIPSILELSSNNKV------------------FEPSWFL--SRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLD   63 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~------------------l~~~~~~--~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~   63 (366)
                      ++++|++|++++|.+..                  +|.. +.  ++++|++|++++|.   ..+.+|..++++++|++|+
T Consensus       204 ~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~-l~~~~l~~L~~L~L~~n~---l~~~~p~~l~~l~~L~~L~  279 (636)
T 4eco_A          204 RLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTED-LKWDNLKDLTDVEVYNCP---NLTKLPTFLKALPEMQLIN  279 (636)
T ss_dssp             GCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSC-CCGGGCTTCCEEEEECCT---TCSSCCTTTTTCSSCCEEE
T ss_pred             cccCCCEEECcCCccccccccccccccccchhcccCchh-hhhcccCCCCEEEecCCc---CCccChHHHhcCCCCCEEE
Confidence            68899999999999888                  7877 66  89999999999994   3456788888899999999


Q ss_pred             ccCCC-Cc--cCchhhhcC------ccCCEeeccccccCCCcCh--hhhcCCCCCcEEEccCCCCC-Ccccccc------
Q 040318           64 VSYTD-IR--GLPHELTAL------LNLRYLNLERTYHLSRFPP--ELICSFSKLEVLRMLESGAD-STAEQGS------  125 (366)
Q Consensus        64 l~~~~-i~--~l~~~i~~l------~~L~~L~L~~c~~~~~l~~--~~l~~l~~L~~L~l~~~~~~-~~~~~~~------  125 (366)
                      +++|+ ++  .+|..++.+      ++|++|++++ +.+..+|.  . +.++++|++|++++|.+. ..+.++.      
T Consensus       280 Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~-n~l~~ip~~~~-l~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~  357 (636)
T 4eco_A          280 VACNRGISGEQLKDDWQALADAPVGEKIQIIYIGY-NNLKTFPVETS-LQKMKKLGMLECLYNQLEGKLPAFGSEIKLAS  357 (636)
T ss_dssp             CTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCS-SCCSSCCCHHH-HTTCTTCCEEECCSCCCEEECCCCEEEEEESE
T ss_pred             CcCCCCCccccchHHHHhhhccccCCCCCEEECCC-CcCCccCchhh-hccCCCCCEEeCcCCcCccchhhhCCCCCCCE
Confidence            99997 77  478888776      8999999998 66778887  5 888999999999988775 3321110      


Q ss_pred             -cccc-chHHHHHhhcCCCC-cceEEEEecccccccccccccc------------------------------ccccccE
Q 040318          126 -VLSE-DAEPLMKELLCLKL-LNLISFSLYSSRGVRNFLKFPK------------------------------LLRITQA  172 (366)
Q Consensus       126 -~~~~-~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~~~~------------------------------~~~~L~~  172 (366)
                       .... .....+..+..+++ |+.|+++++....++.......                              ...+|+.
T Consensus       358 L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~  437 (636)
T 4eco_A          358 LNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSS  437 (636)
T ss_dssp             EECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEE
T ss_pred             EECCCCccccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCE
Confidence             0000 00133344666677 8888887776655443211110                              1123444


Q ss_pred             EEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-cc--CCCCc
Q 040318          173 LSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-LA--FAPNL  249 (366)
Q Consensus       173 L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-l~--~l~~L  249 (366)
                      |+++++.........+..+++|+.|++++|.+..++...+.... .....+++|+.|++++| .++.++. +.  .+++|
T Consensus       438 L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~-~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~~~l~~L  515 (636)
T 4eco_A          438 INLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDEN-ENFKNTYLLTSIDLRFN-KLTKLSDDFRATTLPYL  515 (636)
T ss_dssp             EECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETT-EECTTGGGCCEEECCSS-CCCBCCGGGSTTTCTTC
T ss_pred             EECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhcccc-ccccccCCccEEECcCC-cCCccChhhhhccCCCc
Confidence            44444443111111233355566666655555544332221000 00012237888888888 5667653 33  78888


Q ss_pred             cEEEEEccCCcccccccccccccccccccccccccccccccccc------cccccccCCCcCCCCccEEeccCCCCCCCC
Q 040318          250 KIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA------ENLKSIYQGALPLPQLKEIRVTQCPKLKTL  323 (366)
Q Consensus       250 ~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~------~~l~~~~~~~~~~~~L~~L~l~~c~~l~~l  323 (366)
                      ++|+|++|.... +.            ..+..+++|+.|+++++      .-...++.....+++|+.|++++|. ++.+
T Consensus       516 ~~L~Ls~N~l~~-ip------------~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~-l~~i  581 (636)
T 4eco_A          516 VGIDLSYNSFSK-FP------------TQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSND-IRKV  581 (636)
T ss_dssp             CEEECCSSCCSS-CC------------CGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBC
T ss_pred             CEEECCCCCCCC-cC------------hhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCCc-CCcc
Confidence            888888876543 32            26667899999999653      3344555566679999999999985 5888


Q ss_pred             CCCCCCCCcceeEEEcchhhhcccc
Q 040318          324 PLNSSSTKLRNIVISGGKDWWEELQ  348 (366)
Q Consensus       324 p~~~~~~~~~~~~~~~~~~~~~~~~  348 (366)
                      |..+.   ..++.++...+.+..+.
T Consensus       582 p~~~~---~~L~~L~Ls~N~l~~~~  603 (636)
T 4eco_A          582 NEKIT---PNISVLDIKDNPNISID  603 (636)
T ss_dssp             CSCCC---TTCCEEECCSCTTCEEE
T ss_pred             CHhHh---CcCCEEECcCCCCcccc
Confidence            88754   46777776666555443

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

Probab=99.91  E-value=5.4e-24  Score=193.81  Aligned_cols=261  Identities=16%  Similarity=0.177  Sum_probs=135.2

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccC-chhhhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~   84 (366)
                      +++.++++++++..+|..+   .++|++|++++|    .++.++ ..+..+++|++|++++|.++.+ |..+..+++|++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~---~~~l~~L~l~~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  106 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI---SPDTTLLDLQNN----DISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQK  106 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC---CTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCE
T ss_pred             cCCEEECCCCCccccCCCC---CCCCeEEECCCC----cCCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCE
Confidence            4666666666666666542   356666666666    555553 3456666666666666666644 455666666666


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..+|.. +.  ++|++|++.+|.+...             ....+..+++|+.|+++++............
T Consensus       107 L~L~~-n~l~~l~~~-~~--~~L~~L~l~~n~i~~~-------------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  169 (332)
T 2ft3_A          107 LYISK-NHLVEIPPN-LP--SSLVELRIHDNRIRKV-------------PKGVFSGLRNMNCIEMGGNPLENSGFEPGAF  169 (332)
T ss_dssp             EECCS-SCCCSCCSS-CC--TTCCEEECCSSCCCCC-------------CSGGGSSCSSCCEEECCSCCCBGGGSCTTSS
T ss_pred             EECCC-CcCCccCcc-cc--ccCCEEECCCCccCcc-------------CHhHhCCCccCCEEECCCCccccCCCCcccc
Confidence            66666 555566554 22  5666666666655211             1223455666666666655543221111111


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--c
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--W  242 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~  242 (366)
                      ..+ +|+.|+++++.......   ...++|+.|+++++.++.+....+        ..+++|+.|++++| .++.++  .
T Consensus       170 ~~l-~L~~L~l~~n~l~~l~~---~~~~~L~~L~l~~n~i~~~~~~~l--------~~l~~L~~L~L~~N-~l~~~~~~~  236 (332)
T 2ft3_A          170 DGL-KLNYLRISEAKLTGIPK---DLPETLNELHLDHNKIQAIELEDL--------LRYSKLYRLGLGHN-QIRMIENGS  236 (332)
T ss_dssp             CSC-CCSCCBCCSSBCSSCCS---SSCSSCSCCBCCSSCCCCCCTTSS--------TTCTTCSCCBCCSS-CCCCCCTTG
T ss_pred             cCC-ccCEEECcCCCCCccCc---cccCCCCEEECCCCcCCccCHHHh--------cCCCCCCEEECCCC-cCCcCChhH
Confidence            111 35566655554411111   112456666666665555443322        24556666666666 454443  2


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCc-------CCCCccEEecc
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGAL-------PLPQLKEIRVT  315 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~-------~~~~L~~L~l~  315 (366)
                      +..+++|++|++++|... .+..            .+..+++|++|+++++ .++.+.....       ..++|+.|++.
T Consensus       237 ~~~l~~L~~L~L~~N~l~-~lp~------------~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~  302 (332)
T 2ft3_A          237 LSFLPTLRELHLDNNKLS-RVPA------------GLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLF  302 (332)
T ss_dssp             GGGCTTCCEEECCSSCCC-BCCT------------TGGGCTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECC
T ss_pred             hhCCCCCCEEECCCCcCe-ecCh------------hhhcCccCCEEECCCC-CCCccChhHccccccccccccccceEee
Confidence            455666666666655432 2211            3445566666666653 2333321110       13456666666


Q ss_pred             CCC
Q 040318          316 QCP  318 (366)
Q Consensus       316 ~c~  318 (366)
                      ++|
T Consensus       303 ~N~  305 (332)
T 2ft3_A          303 NNP  305 (332)
T ss_dssp             SSS
T ss_pred             cCc
Confidence            654

>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=99.91  E-value=2.4e-23  Score=204.20  Aligned_cols=278  Identities=16%  Similarity=0.143  Sum_probs=206.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchh-hhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHE-LTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~   81 (366)
                      .+++|++|++++|.+..+++..|..+++|++|++++|    .++.++. .++.+++|++|++++|.++.+|.. ++.+++
T Consensus        73 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~  148 (597)
T 3oja_B           73 SFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN----AIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPK  148 (597)
T ss_dssp             HCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTT
T ss_pred             cCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCC----cCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCC
Confidence            4789999999999999988766999999999999999    7787765 468899999999999999988876 489999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccc--cccc-cccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAE--QGSV-LSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~~-~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      |++|++++ +.+..++...+..+++|++|++++|.+.....  +... .-......+..+.....|+.|+++++....++
T Consensus       149 L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~  227 (597)
T 3oja_B          149 LTTLSMSN-NNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVR  227 (597)
T ss_dssp             CCEEECCS-SCCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEE
T ss_pred             CCEEEeeC-CcCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeeccCCcccccc
Confidence            99999999 67777776558999999999999997733210  0000 00000000111223344555555554444333


Q ss_pred             cccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCc
Q 040318          159 NFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK  238 (366)
Q Consensus       159 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~  238 (366)
                      ..     ...+|+.|+++++..  .....+..+++|+.|++++|.+..+....+        ..+++|+.|++++| .++
T Consensus       228 ~~-----~~~~L~~L~L~~n~l--~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~--------~~l~~L~~L~Ls~N-~l~  291 (597)
T 3oja_B          228 GP-----VNVELTILKLQHNNL--TDTAWLLNYPGLVEVDLSYNELEKIMYHPF--------VKMQRLERLYISNN-RLV  291 (597)
T ss_dssp             CS-----CCSCCCEEECCSSCC--CCCGGGGGCTTCSEEECCSSCCCEEESGGG--------TTCSSCCEEECTTS-CCC
T ss_pred             cc-----cCCCCCEEECCCCCC--CCChhhccCCCCCEEECCCCccCCCCHHHh--------cCccCCCEEECCCC-CCC
Confidence            21     224688999988877  444478889999999999999988765444        47899999999999 788


Q ss_pred             cccc-ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCC
Q 040318          239 DLTW-LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQC  317 (366)
Q Consensus       239 ~l~~-l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c  317 (366)
                      .++. ...+++|+.|+|++|... .+..            .+..+++|+.|+++++. +..+.  ...+++|+.|+++++
T Consensus       292 ~l~~~~~~l~~L~~L~Ls~N~l~-~i~~------------~~~~l~~L~~L~L~~N~-l~~~~--~~~~~~L~~L~l~~N  355 (597)
T 3oja_B          292 ALNLYGQPIPTLKVLDLSHNHLL-HVER------------NQPQFDRLENLYLDHNS-IVTLK--LSTHHTLKNLTLSHN  355 (597)
T ss_dssp             EEECSSSCCTTCCEEECCSSCCC-CCGG------------GHHHHTTCSEEECCSSC-CCCCC--CCTTCCCSEEECCSS
T ss_pred             CCCcccccCCCCcEEECCCCCCC-ccCc------------ccccCCCCCEEECCCCC-CCCcC--hhhcCCCCEEEeeCC
Confidence            7764 446999999999998754 3322            56789999999999874 44443  556899999999987


Q ss_pred             C
Q 040318          318 P  318 (366)
Q Consensus       318 ~  318 (366)
                      +
T Consensus       356 ~  356 (597)
T 3oja_B          356 D  356 (597)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.91  E-value=2.2e-23  Score=197.89  Aligned_cols=290  Identities=14%  Similarity=0.139  Sum_probs=209.2

Q ss_pred             CCCCCcCEEEccCCCCC-ccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCcc-Cchh--hh
Q 040318            3 IRYSNIPSILELSSNNK-VFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRG-LPHE--LT   77 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~-~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~-l~~~--i~   77 (366)
                      .++++|++|++++|.+. .+++..|..+++|++|++++|    .+..+ |..+..+++|++|++++|.++. .+..  +.
T Consensus        51 ~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~  126 (455)
T 3v47_A           51 SRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYN----QFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFK  126 (455)
T ss_dssp             SSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTC----TTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTT
T ss_pred             ccCccccEEECcCCcccceECcccccccccCCEEeCCCC----ccCccChhhccCcccCCEEeCCCCCCCccccCccccc
Confidence            37899999999999886 576666999999999999999    67765 6778899999999999998874 3443  88


Q ss_pred             cCccCCEeeccccccCCCc-ChhhhcCCCCCcEEEccCCCCCCccc--ccc--------------cccc-----chHHHH
Q 040318           78 ALLNLRYLNLERTYHLSRF-PPELICSFSKLEVLRMLESGADSTAE--QGS--------------VLSE-----DAEPLM  135 (366)
Q Consensus        78 ~l~~L~~L~L~~c~~~~~l-~~~~l~~l~~L~~L~l~~~~~~~~~~--~~~--------------~~~~-----~~~~~~  135 (366)
                      .+++|++|++++ +.+..+ |...+.++++|++|++.+|.+.....  +..              ....     ......
T Consensus       127 ~l~~L~~L~L~~-n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~  205 (455)
T 3v47_A          127 PLTSLEMLVLRD-NNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKC  205 (455)
T ss_dssp             TCTTCCEEECCS-SBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHH
T ss_pred             CcccCCEEECCC-CccCccCcccccCCCCcccEEeCCCCcccccChhhhhccccccccccccccCcccccchhhcccccc
Confidence            899999999999 667666 54447889999999999997643320  000              0000     000111


Q ss_pred             HhhcCCCCcceEEEEeccccccc--ccc-----------------------------------ccccccccccEEEEecc
Q 040318          136 KELLCLKLLNLISFSLYSSRGVR--NFL-----------------------------------KFPKLLRITQALSISDC  178 (366)
Q Consensus       136 ~~l~~l~~L~~L~l~~~~~~~~~--~~~-----------------------------------~~~~~~~~L~~L~l~~~  178 (366)
                      ..+..+++|+.|+++++......  .+.                                   ......++|+.|+++++
T Consensus       206 ~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n  285 (455)
T 3v47_A          206 GNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKS  285 (455)
T ss_dssp             CCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSS
T ss_pred             ccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCc
Confidence            12234467777777766443210  000                                   00001246889999888


Q ss_pred             CCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCCCCccEEEEEc
Q 040318          179 EIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIVIMH  256 (366)
Q Consensus       179 ~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~L~~  256 (366)
                      .........+..+++|+.|+++++.+..+....+        ..+++|+.|++++| .++.+.  .+..+++|++|++++
T Consensus       286 ~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~--------~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~Ls~  356 (455)
T 3v47_A          286 KIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAF--------WGLTHLLKLNLSQN-FLGSIDSRMFENLDKLEVLDLSY  356 (455)
T ss_dssp             CCCEECTTTTTTCTTCCEEECTTSCCCEECTTTT--------TTCTTCCEEECCSS-CCCEECGGGGTTCTTCCEEECCS
T ss_pred             cccccchhhcccCCCCCEEECCCCcccccChhHh--------cCcccCCEEECCCC-ccCCcChhHhcCcccCCEEECCC
Confidence            7733333368889999999999999988766544        47899999999999 677753  467899999999999


Q ss_pred             cCCcccccccccccccccccccccccccccccccccccccccccCC-CcCCCCccEEeccCCCC
Q 040318          257 CDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-ALPLPQLKEIRVTQCPK  319 (366)
Q Consensus       257 c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~c~~  319 (366)
                      |........            .+..+++|++|+++++ .++.++.. ...+++|+.|++++++-
T Consensus       357 N~l~~~~~~------------~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~l  407 (455)
T 3v47_A          357 NHIRALGDQ------------SFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPW  407 (455)
T ss_dssp             SCCCEECTT------------TTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CcccccChh------------hccccccccEEECCCC-ccccCCHhHhccCCcccEEEccCCCc
Confidence            975443222            6778999999999986 55566544 35789999999998753

>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=99.91  E-value=6.9e-23  Score=197.73  Aligned_cols=104  Identities=17%  Similarity=0.087  Sum_probs=78.2

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      ++|++|++++|.+..+++..|..+++|++|++++|    .++.+ |..+..+++|++|++++|.++.+|..  .+++|++
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~   94 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHN----RIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKH   94 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSS----CCCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSE
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCC----ccCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccE
Confidence            57888888888888777655788888888888888    66665 55677788888888888887777765  6788888


Q ss_pred             eeccccccCCC--cChhhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSR--FPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~--l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++++ +.+..  +|.. +.++++|++|++++|.+
T Consensus        95 L~L~~-N~l~~~~~p~~-~~~l~~L~~L~L~~n~l  127 (520)
T 2z7x_B           95 LDLSF-NAFDALPICKE-FGNMSQLKFLGLSTTHL  127 (520)
T ss_dssp             EECCS-SCCSSCCCCGG-GGGCTTCCEEEEEESSC
T ss_pred             EeccC-Cccccccchhh-hccCCcceEEEecCccc
Confidence            88887 55554  4444 77788888887777765

>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=1.4e-23  Score=211.80  Aligned_cols=304  Identities=11%  Similarity=0.120  Sum_probs=211.8

Q ss_pred             CCCCcCEEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCC-cCc--cCccccccc-------cCCEEeccCCCCccC
Q 040318            4 RYSNIPSILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNS-LTE--LPSGISSLV-------SLQHLDVSYTDIRGL   72 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~-~~~--l~~~~~~l~-------~L~~L~l~~~~i~~l   72 (366)
                      ++++|++|++++|.+.. +|.. +.++++|++|++++|    . ++.  +|..++.+.       +|++|++++|.++.+
T Consensus       489 ~L~~L~~L~Ls~N~l~~~iP~~-l~~L~~L~~L~Ls~N----~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~i  563 (876)
T 4ecn_A          489 NLKDLTDVELYNCPNMTQLPDF-LYDLPELQSLNIACN----RGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEF  563 (876)
T ss_dssp             GCTTCCEEEEESCTTCCSCCGG-GGGCSSCCEEECTTC----TTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBC
T ss_pred             cCCCCCEEECcCCCCCccChHH-HhCCCCCCEEECcCC----CCcccccchHHHHhhhhcccccCCccEEEeeCCcCCcc
Confidence            68999999999998664 6765 899999999999999    5 664  777666555       999999999999999


Q ss_pred             ch--hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCC-cceEEE
Q 040318           73 PH--ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKL-LNLISF  149 (366)
Q Consensus        73 ~~--~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~-L~~L~l  149 (366)
                      |.  .++++++|++|++++ +.+..+| . +..+++|++|++++|.+..              .+..+..+++ |+.|++
T Consensus       564 p~~~~l~~L~~L~~L~Ls~-N~l~~lp-~-~~~L~~L~~L~Ls~N~l~~--------------lp~~l~~l~~~L~~L~L  626 (876)
T 4ecn_A          564 PASASLQKMVKLGLLDCVH-NKVRHLE-A-FGTNVKLTDLKLDYNQIEE--------------IPEDFCAFTDQVEGLGF  626 (876)
T ss_dssp             CCHHHHTTCTTCCEEECTT-SCCCBCC-C-CCTTSEESEEECCSSCCSC--------------CCTTSCEECTTCCEEEC
T ss_pred             CChhhhhcCCCCCEEECCC-CCcccch-h-hcCCCcceEEECcCCcccc--------------chHHHhhccccCCEEEC
Confidence            98  899999999999999 6777888 4 8999999999999997732              2334555555 666666


Q ss_pred             Eeccccccccccccc--------------------------c--ccccccEEEEeccCCCCcCccchhhhcccCceEecc
Q 040318          150 SLYSSRGVRNFLKFP--------------------------K--LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDN  201 (366)
Q Consensus       150 ~~~~~~~~~~~~~~~--------------------------~--~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~  201 (366)
                      +++....++......                          .  ...+|+.|+++++.........+..+++|+.|++++
T Consensus       627 s~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~  706 (876)
T 4ecn_A          627 SHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSN  706 (876)
T ss_dssp             CSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCS
T ss_pred             cCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCC
Confidence            665554433221110                          0  112466666666655211111334667788888887


Q ss_pred             cccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-cc--CCCCccEEEEEccCCccccccccccccccccccc
Q 040318          202 SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-LA--FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGE  278 (366)
Q Consensus       202 ~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-l~--~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~  278 (366)
                      |.+..++........ .....+++|+.|++++| .++.++. +.  .+++|+.|+|++|.... +.            ..
T Consensus       707 N~L~~ip~~~~~~~~-~~l~nl~~L~~L~Ls~N-~L~~lp~~l~~~~l~~L~~L~Ls~N~L~~-lp------------~~  771 (876)
T 4ecn_A          707 NLMTSIPENSLKPKD-GNYKNTYLLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYNCFSS-FP------------TQ  771 (876)
T ss_dssp             CCCSCCCTTSSSCTT-SCCTTGGGCCEEECCSS-CCCCCCGGGSTTTCTTCCEEECCSSCCSS-CC------------CG
T ss_pred             CcCCccChHHhcccc-ccccccCCccEEECCCC-CCccchHHhhhccCCCcCEEEeCCCCCCc-cc------------hh
Confidence            777755543321000 00023448999999998 6777763 43  78999999999886543 32            25


Q ss_pred             cccccccccccccccc------ccccccCCCcCCCCccEEeccCCCCCCCCCCCCCCCCcceeEEEcchhhhcccc
Q 040318          279 LNFFAKLELLDLYHAE------NLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEELQ  348 (366)
Q Consensus       279 ~~~~~~L~~L~l~~~~------~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~~  348 (366)
                      +..+++|+.|+++++.      -...++.....+++|+.|++++|. ++.+|..+.   ..+..++...+.+..+.
T Consensus       772 l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N~-L~~Ip~~l~---~~L~~LdLs~N~l~~i~  843 (876)
T 4ecn_A          772 PLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSND-IRKVDEKLT---PQLYILDIADNPNISID  843 (876)
T ss_dssp             GGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSSC-CCBCCSCCC---SSSCEEECCSCTTCEEE
T ss_pred             hhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCCC-CCccCHhhc---CCCCEEECCCCCCCccC
Confidence            6689999999997633      344555566679999999999985 588988754   46777776666555443

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.91  E-value=3.7e-23  Score=203.30  Aligned_cols=109  Identities=16%  Similarity=0.212  Sum_probs=85.7

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCc-hhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLP-HELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~   81 (366)
                      ++++|++|++++|.+..+++..|.++++|++|++++|    .+..+ |..+.++++|++|++++|.++.++ ..++++++
T Consensus        54 ~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n----~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  129 (606)
T 3vq2_A           54 NFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGN----PIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLIT  129 (606)
T ss_dssp             TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC----CCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTT
T ss_pred             CCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCC----cccccChhhcCCcccCCEEEccCCccccccccccCCCCC
Confidence            6788888888888888876665788888888888888    66666 666788888888888888887665 56788888


Q ss_pred             CCEeeccccccCC--CcChhhhcCCCCCcEEEccCCCCC
Q 040318           82 LRYLNLERTYHLS--RFPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        82 L~~L~L~~c~~~~--~l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      |++|++++ +.+.  .+|.. +.++++|++|++++|.+.
T Consensus       130 L~~L~L~~-n~l~~~~lp~~-~~~l~~L~~L~Ls~n~l~  166 (606)
T 3vq2_A          130 LKKLNVAH-NFIHSCKLPAY-FSNLTNLVHVDLSYNYIQ  166 (606)
T ss_dssp             CCEEECCS-SCCCCCCCCGG-GGTCTTCCEEECCSSCCC
T ss_pred             CCEEeCCC-CcccceechHh-HhhcCCCCEEEccCCcce
Confidence            88888888 5555  35665 888888888888888654

>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=99.91  E-value=5.4e-23  Score=195.85  Aligned_cols=283  Identities=17%  Similarity=0.174  Sum_probs=181.6

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +++++.|++.++.+..++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.+..++. +.++++|++
T Consensus        45 l~~l~~L~l~~~~i~~l~~--~~~l~~L~~L~Ls~n----~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~  116 (466)
T 1o6v_A           45 LDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN----QLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNLTG  116 (466)
T ss_dssp             HHTCCEEECCSSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCE
T ss_pred             hccccEEecCCCCCccCcc--hhhhcCCCEEECCCC----ccCCchh-hhccccCCEEECCCCccccChh-hcCCCCCCE
Confidence            5789999999999998876  788999999999999    7888877 8899999999999999998876 899999999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++.  +..+++|++|++++|.+...               ..+..+++|+.|.+.. .......+    
T Consensus       117 L~L~~-n~l~~~~~--~~~l~~L~~L~l~~n~l~~~---------------~~~~~l~~L~~L~l~~-~~~~~~~~----  173 (466)
T 1o6v_A          117 LTLFN-NQITDIDP--LKNLTNLNRLELSSNTISDI---------------SALSGLTSLQQLSFGN-QVTDLKPL----  173 (466)
T ss_dssp             EECCS-SCCCCCGG--GTTCTTCSEEEEEEEEECCC---------------GGGTTCTTCSEEEEEE-SCCCCGGG----
T ss_pred             EECCC-CCCCCChH--HcCCCCCCEEECCCCccCCC---------------hhhccCCcccEeecCC-cccCchhh----
Confidence            99999 67888876  89999999999999976332               1245555555555542 22221111    


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccC--------------ccccccccCCCCCcEEe
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTG--------------EVQKVLQCGFRSLHLAS  230 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~--------------~~~~~p~~~~~~L~~L~  230 (366)
                      ..+++|+.|+++++..  .....+..+++|++|++.++.+..+..  .+              ....-....+++|+.|+
T Consensus       174 ~~l~~L~~L~l~~n~l--~~~~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~  249 (466)
T 1o6v_A          174 ANLTTLERLDISSNKV--SDISVLAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLKDIGTLASLTNLTDLD  249 (466)
T ss_dssp             TTCTTCCEEECCSSCC--CCCGGGGGCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEE
T ss_pred             ccCCCCCEEECcCCcC--CCChhhccCCCCCEEEecCCccccccc--ccccCCCCEEECCCCCcccchhhhcCCCCCEEE
Confidence            1223355555554443  111134444455555554444332211  00              00000002455666666


Q ss_pred             EecCCCCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCcc
Q 040318          231 IAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLK  310 (366)
Q Consensus       231 l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~  310 (366)
                      +++| .++.++.+..+++|++|++++|......              .+..+++|+.|+++++. ++.+.. ...+++|+
T Consensus       250 l~~n-~l~~~~~~~~l~~L~~L~l~~n~l~~~~--------------~~~~l~~L~~L~L~~n~-l~~~~~-~~~l~~L~  312 (466)
T 1o6v_A          250 LANN-QISNLAPLSGLTKLTELKLGANQISNIS--------------PLAGLTALTNLELNENQ-LEDISP-ISNLKNLT  312 (466)
T ss_dssp             CCSS-CCCCCGGGTTCTTCSEEECCSSCCCCCG--------------GGTTCTTCSEEECCSSC-CSCCGG-GGGCTTCS
T ss_pred             CCCC-ccccchhhhcCCCCCEEECCCCccCccc--------------cccCCCccCeEEcCCCc-ccCchh-hcCCCCCC
Confidence            6666 4555555556666666666655432211              35567888888888763 434332 45688999


Q ss_pred             EEeccCCCCCCCCCCCCCCCCcceeEEEcchh
Q 040318          311 EIRVTQCPKLKTLPLNSSSTKLRNIVISGGKD  342 (366)
Q Consensus       311 ~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~  342 (366)
                      .|++++| +++.++. +..+ ..++.++....
T Consensus       313 ~L~L~~n-~l~~~~~-~~~l-~~L~~L~l~~n  341 (466)
T 1o6v_A          313 YLTLYFN-NISDISP-VSSL-TKLQRLFFYNN  341 (466)
T ss_dssp             EEECCSS-CCSCCGG-GGGC-TTCCEEECCSS
T ss_pred             EEECcCC-cCCCchh-hccC-ccCCEeECCCC
Confidence            9999988 4665543 2233 55666655443

>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=99.90  E-value=6.1e-23  Score=201.79  Aligned_cols=302  Identities=15%  Similarity=0.074  Sum_probs=193.2

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccC-chhhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~   83 (366)
                      ++|++|++++|.+..+++..|.++++|++|++++|    .++.+ |..+.++++|++|++++|.++.+ |..++++++|+
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n----~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~  107 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC----EIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLE  107 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTC----CCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCC
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCC----cccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCC
Confidence            67999999999999988866999999999999999    77887 55688999999999999999876 77899999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccc--cc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRN--FL  161 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~--~~  161 (366)
                      +|++++ +.+..++...+.++++|++|++++|.+...            ..+..+..+++|+.|+++++.......  +.
T Consensus       108 ~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~------------~lp~~~~~l~~L~~L~Ls~n~l~~~~~~~~~  174 (606)
T 3vq2_A          108 NLVAVE-TKLASLESFPIGQLITLKKLNVAHNFIHSC------------KLPAYFSNLTNLVHVDLSYNYIQTITVNDLQ  174 (606)
T ss_dssp             EEECTT-SCCCCSSSSCCTTCTTCCEEECCSSCCCCC------------CCCGGGGTCTTCCEEECCSSCCCEECTTTTH
T ss_pred             EEEccC-CccccccccccCCCCCCCEEeCCCCcccce------------echHhHhhcCCCCEEEccCCcceecChhhhh
Confidence            999999 677777744489999999999999987321            335667788888888888776544321  11


Q ss_pred             cccc-----------------------ccccccEEEEeccCCCC------------------------------------
Q 040318          162 KFPK-----------------------LLRITQALSISDCEIPL------------------------------------  182 (366)
Q Consensus       162 ~~~~-----------------------~~~~L~~L~l~~~~~~~------------------------------------  182 (366)
                      ....                       ...+|+.|++.++....                                    
T Consensus       175 ~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~l~l~~~~~~~~~~l~~~~~~~  254 (606)
T 3vq2_A          175 FLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSI  254 (606)
T ss_dssp             HHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCHHHHHHHHHTTTTCEEEEEEEECCTTSCCCSCCCGGG
T ss_pred             hhhccccccceeeccCCCcceeCcccccCceeeeeeccCCccchhHHHHHhccccccccccccccccccCCcccccChHH
Confidence            0000                       01146666666654310                                    


Q ss_pred             -------------------cCc--cchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc
Q 040318          183 -------------------LNV--SHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT  241 (366)
Q Consensus       183 -------------------~~~--~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~  241 (366)
                                         ...  ..+..+++|+.+++.++.+..++  ..        ..+++|+.|++.+| .++.++
T Consensus       255 ~~~l~~l~l~~l~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l~--~l--------~~~~~L~~L~l~~n-~l~~lp  323 (606)
T 3vq2_A          255 MEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLE--DV--------PKHFKWQSLSIIRC-QLKQFP  323 (606)
T ss_dssp             GTTGGGSEEEEEEECCCTTCCGGGGSCGGGTTCSEEEEESCCCCCCC--CC--------CTTCCCSEEEEESC-CCSSCC
T ss_pred             hhhhhhccHhheeccccccccccccccccCCCCCEEEecCccchhhh--hc--------cccccCCEEEcccc-cCcccc
Confidence                               000  01334455555555554444333  11        34667777777777 446666


Q ss_pred             cccCCCCccEEEEEccCCcccccccccccc----------ccc---ccccccccccccccccccccccccccCCCcCCCC
Q 040318          242 WLAFAPNLKIIVIMHCDDLEEIISVEKLNQ----------LSD---IMGELNFFAKLELLDLYHAENLKSIYQGALPLPQ  308 (366)
Q Consensus       242 ~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~----------~~~---~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  308 (366)
                      .+ .+++|++|++++|........ .....          +..   ....+..+++|++|+++++. +..++.....+++
T Consensus       324 ~~-~l~~L~~L~l~~n~~~~~~~~-~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~l~~  400 (606)
T 3vq2_A          324 TL-DLPFLKSLTLTMNKGSISFKK-VALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-AIIMSANFMGLEE  400 (606)
T ss_dssp             CC-CCSSCCEEEEESCSSCEECCC-CCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEEECCSCS-EEEECCCCTTCTT
T ss_pred             cC-CCCccceeeccCCcCccchhh-ccCCCCCEEECcCCccCCCcchhhhhccCCcccEeECCCCc-cccchhhccCCCC
Confidence            55 667777777776644332210 00000          000   02234456667777776653 4444444556777


Q ss_pred             ccEEeccCCCCCCCC-C-CCCCCCCcceeEEEcc
Q 040318          309 LKEIRVTQCPKLKTL-P-LNSSSTKLRNIVISGG  340 (366)
Q Consensus       309 L~~L~l~~c~~l~~l-p-~~~~~~~~~~~~~~~~  340 (366)
                      |+.|++++|. ++.+ | ..+..+ ..++.++..
T Consensus       401 L~~L~l~~n~-l~~~~~~~~~~~l-~~L~~L~l~  432 (606)
T 3vq2_A          401 LQHLDFQHST-LKRVTEFSAFLSL-EKLLYLDIS  432 (606)
T ss_dssp             CCEEECTTSE-EESTTTTTTTTTC-TTCCEEECT
T ss_pred             CCeeECCCCc-cCCccChhhhhcc-ccCCEEECc
Confidence            7888877764 3333 3 233333 455555544

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

Probab=99.90  E-value=1.1e-22  Score=198.27  Aligned_cols=109  Identities=18%  Similarity=0.233  Sum_probs=80.9

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCch-hhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPH-ELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~   81 (366)
                      .+++|++|++++|.+..+++..|.++++|++|++++|    .++.++ ..+..+++|++|++++|+++.++. .++++++
T Consensus        50 ~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~  125 (570)
T 2z63_A           50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN----PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT  125 (570)
T ss_dssp             TCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC----CCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTT
T ss_pred             CCCCceEEECCCCcCCccCcccccCchhCCEEeCcCC----cCCccCHhhhcCccccccccccccccccCCCcccccccc
Confidence            5777888888888777776666777888888888888    666654 457777888888888887776654 4777888


Q ss_pred             CCEeeccccccCCC--cChhhhcCCCCCcEEEccCCCCC
Q 040318           82 LRYLNLERTYHLSR--FPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        82 L~~L~L~~c~~~~~--l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      |++|++++ +.+..  +|.. +.++++|++|++.+|.+.
T Consensus       126 L~~L~L~~-n~l~~~~lp~~-~~~l~~L~~L~l~~n~l~  162 (570)
T 2z63_A          126 LKELNVAH-NLIQSFKLPEY-FSNLTNLEHLDLSSNKIQ  162 (570)
T ss_dssp             CCEEECCS-SCCCCCCCCGG-GGGCTTCCEEECTTSCCC
T ss_pred             ccEEecCC-CccceecChhh-hcccCCCCEEeCcCCccc
Confidence            88888887 55554  5665 778888888888877653

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

Probab=99.90  E-value=4.1e-23  Score=195.77  Aligned_cols=285  Identities=16%  Similarity=0.102  Sum_probs=175.9

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++++|++|+++++.+..+| . +..+++|++|++++|    .++.+|  ++.+++|++|++++|.++.++  ++.+++|+
T Consensus        40 ~l~~L~~L~Ls~n~l~~~~-~-l~~l~~L~~L~Ls~n----~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~  109 (457)
T 3bz5_A           40 QLATLTSLDCHNSSITDMT-G-IEKLTGLTKLICTSN----NITTLD--LSQNTNLTYLACDSNKLTNLD--VTPLTKLT  109 (457)
T ss_dssp             HHTTCCEEECCSSCCCCCT-T-GGGCTTCSEEECCSS----CCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTCTTCC
T ss_pred             HcCCCCEEEccCCCcccCh-h-hcccCCCCEEEccCC----cCCeEc--cccCCCCCEEECcCCCCceee--cCCCCcCC
Confidence            4789999999999999887 3 889999999999999    777776  788999999999999988875  78899999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++   +..+++|++|++.+|.+...                .+..+++|+.|+++.+.....-.    
T Consensus       110 ~L~L~~-N~l~~l~---~~~l~~L~~L~l~~N~l~~l----------------~l~~l~~L~~L~l~~n~~~~~~~----  165 (457)
T 3bz5_A          110 YLNCDT-NKLTKLD---VSQNPLLTYLNCARNTLTEI----------------DVSHNTQLTELDCHLNKKITKLD----  165 (457)
T ss_dssp             EEECCS-SCCSCCC---CTTCTTCCEEECTTSCCSCC----------------CCTTCTTCCEEECTTCSCCCCCC----
T ss_pred             EEECCC-CcCCeec---CCCCCcCCEEECCCCcccee----------------ccccCCcCCEEECCCCCcccccc----
Confidence            999999 6777774   67899999999999877321                24556666666666553211111    


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccc
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWL  243 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l  243 (366)
                      ...+++|+.|+++++....   ..+..+++|+.|++.++.++.+..           ..+++|+.|++++| .++.++ +
T Consensus       166 ~~~l~~L~~L~ls~n~l~~---l~l~~l~~L~~L~l~~N~l~~~~l-----------~~l~~L~~L~Ls~N-~l~~ip-~  229 (457)
T 3bz5_A          166 VTPQTQLTTLDCSFNKITE---LDVSQNKLLNRLNCDTNNITKLDL-----------NQNIQLTFLDCSSN-KLTEID-V  229 (457)
T ss_dssp             CTTCTTCCEEECCSSCCCC---CCCTTCTTCCEEECCSSCCSCCCC-----------TTCTTCSEEECCSS-CCSCCC-C
T ss_pred             cccCCcCCEEECCCCccce---eccccCCCCCEEECcCCcCCeecc-----------ccCCCCCEEECcCC-cccccC-c
Confidence            1123446666666655421   234555666666666655554422           34555555555555 444444 4


Q ss_pred             cCCCCccEEEEEccCCcccccc-------------------cccccccccccccccccccccccccccccccccccCC--
Q 040318          244 AFAPNLKIIVIMHCDDLEEIIS-------------------VEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG--  302 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~--  302 (366)
                      +.+++|++|++++|........                   ...+.....+  ....+++|+.|+++++..++.++..  
T Consensus       230 ~~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~n~L~~L~l~~n~~~~~~--~~~~l~~L~~L~Ls~n~~l~~l~~~~~  307 (457)
T 3bz5_A          230 TPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYF--QAEGCRKIKELDVTHNTQLYLLDCQAA  307 (457)
T ss_dssp             TTCTTCSEEECCSSCCSCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEE--ECTTCTTCCCCCCTTCTTCCEEECTTC
T ss_pred             cccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccCCCCCEEECCCCccCCcc--cccccccCCEEECCCCcccceeccCCC
Confidence            4555555555555443221100                   0000000001  2345688888888887766555431  


Q ss_pred             ------CcCCCCccEEeccCCCCCCCCCCCCCCCCcceeEEEcchhhh
Q 040318          303 ------ALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWW  344 (366)
Q Consensus       303 ------~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~~~  344 (366)
                            ...+++|+.|+++++ +++.++  +... ..++.++......
T Consensus       308 ~L~~L~l~~~~~L~~L~L~~N-~l~~l~--l~~l-~~L~~L~l~~N~l  351 (457)
T 3bz5_A          308 GITELDLSQNPKLVYLYLNNT-ELTELD--VSHN-TKLKSLSCVNAHI  351 (457)
T ss_dssp             CCSCCCCTTCTTCCEEECTTC-CCSCCC--CTTC-TTCSEEECCSSCC
T ss_pred             cceEechhhcccCCEEECCCC-cccccc--cccC-CcCcEEECCCCCC
Confidence                  223455556665554 455543  2233 5566666554433

>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=99.90  E-value=1.7e-23  Score=205.66  Aligned_cols=279  Identities=16%  Similarity=0.152  Sum_probs=215.1

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccC-chhhhcCccCCEe
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYL   85 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L   85 (366)
                      +|+.|++++|.+..++...|..+++|++|++++|    .++.+|..+..+++|++|++++|.++.+ |..+..+++|++|
T Consensus       255 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n----~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  330 (606)
T 3t6q_A          255 SVESINLQKHYFFNISSNTFHCFSGLQELDLTAT----HLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHL  330 (606)
T ss_dssp             EEEEEECTTCCCSSCCTTTTTTCTTCSEEECTTS----CCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEE
T ss_pred             ceeEEEeecCccCccCHHHhccccCCCEEeccCC----ccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEE
Confidence            7889999999999988888999999999999999    7889999899999999999999998866 5688999999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++|.....++.+.+..+++|++|++++|.+...           ...+..+..+++|+.|+++++.......  ....
T Consensus       331 ~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~-----------~~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~~  397 (606)
T 3t6q_A          331 SIKGNTKRLELGTGCLENLENLRELDLSHDDIETS-----------DCCNLQLRNLSHLQSLNLSYNEPLSLKT--EAFK  397 (606)
T ss_dssp             ECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEE-----------EESTTTTTTCTTCCEEECCSCSCEEECT--TTTT
T ss_pred             ECCCCCcccccchhhhhccCcCCEEECCCCccccc-----------cCcchhcccCCCCCEEECCCCcCCcCCH--HHhc
Confidence            99995444467766588999999999999977221           1114467888999999999877654321  1223


Q ss_pred             ccccccEEEEeccCCCCcCcc-chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc--c--
Q 040318          166 LLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--L--  240 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--l--  240 (366)
                      .+++|+.|+++++........ .+..+++|+.|+++++.+.......+        ..+++|+.|++++| .++.  +  
T Consensus       398 ~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~L~~n-~l~~~~~~~  468 (606)
T 3t6q_A          398 ECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLF--------DGLPALQHLNLQGN-HFPKGNIQK  468 (606)
T ss_dssp             TCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTT--------TTCTTCCEEECTTC-BCGGGEECS
T ss_pred             CCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHH--------hCCCCCCEEECCCC-CCCcccccc
Confidence            356799999998876322222 47888999999999988876554444        46899999999999 4544  2  


Q ss_pred             -ccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCC
Q 040318          241 -TWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPK  319 (366)
Q Consensus       241 -~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~  319 (366)
                       ..+..+++|++|++++|........            .+..+++|++|+++++.-....+.....++.| .|+++++ +
T Consensus       469 ~~~~~~l~~L~~L~Ls~n~l~~~~~~------------~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N-~  534 (606)
T 3t6q_A          469 TNSLQTLGRLEILVLSFCDLSSIDQH------------AFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASN-H  534 (606)
T ss_dssp             SCGGGGCTTCCEEECTTSCCCEECTT------------TTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSS-C
T ss_pred             chhhccCCCccEEECCCCccCccChh------------hhccccCCCEEECCCCccCcCChhHhCccccc-EEECcCC-c
Confidence             2467899999999999875543322            66788999999999875444444455668889 9999987 5


Q ss_pred             CCCCCC
Q 040318          320 LKTLPL  325 (366)
Q Consensus       320 l~~lp~  325 (366)
                      ++.+|.
T Consensus       535 l~~~~~  540 (606)
T 3t6q_A          535 ISIILP  540 (606)
T ss_dssp             CCCCCG
T ss_pred             ccccCH
Confidence            665554

>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=2.4e-22  Score=195.86  Aligned_cols=105  Identities=14%  Similarity=0.095  Sum_probs=89.1

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      ++|+.|++++|.+..+++..|..+++|++|++++|    .++.+ |..+..+++|++|++++|.++.+|..  .+++|++
T Consensus        52 ~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~  125 (562)
T 3a79_B           52 PRTKALSLSQNSISELRMPDISFLSELRVLRLSHN----RIRSLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRH  125 (562)
T ss_dssp             TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSC----CCCEECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSE
T ss_pred             CCcCEEECCCCCccccChhhhccCCCccEEECCCC----CCCcCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCE
Confidence            68999999999999888766899999999999999    77776 56688899999999999999888876  7899999


Q ss_pred             eeccccccCCCcCh-hhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSRFPP-ELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++++ +.+..++. ..+.++++|++|++++|.+
T Consensus       126 L~Ls~-N~l~~l~~p~~~~~l~~L~~L~L~~n~l  158 (562)
T 3a79_B          126 LDLSF-NDFDVLPVCKEFGNLTKLTFLGLSAAKF  158 (562)
T ss_dssp             EECCS-SCCSBCCCCGGGGGCTTCCEEEEECSBC
T ss_pred             EECCC-CCccccCchHhhcccCcccEEecCCCcc
Confidence            99999 67776552 2388999999999999876

>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=99.90  E-value=1.5e-22  Score=198.88  Aligned_cols=106  Identities=13%  Similarity=0.008  Sum_probs=56.4

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccC-chhhhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~   84 (366)
                      ++++|++++|.+..+++..|.++++|++|++++|    .+..+ |..+.++++|++|++++|.++.+ |..++++++|++
T Consensus        34 ~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~  109 (606)
T 3t6q_A           34 STECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC----QIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKH  109 (606)
T ss_dssp             TCCEEECTTCCCSEECTTTSTTCTTCSEEECTTC----CCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCE
T ss_pred             cCcEEEccCCccCcCChhHhccCccceEEECCCC----ccceeChhhccCccccCeeeCCCCcccccChhhhcccccccE
Confidence            4555666666555554444555666666666665    44443 34455555666666665555433 445555555555


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++++ +.+..++...+.++++|++|++++|.+
T Consensus       110 L~L~~-n~i~~l~~~~~~~l~~L~~L~L~~n~l  141 (606)
T 3t6q_A          110 LFFIQ-TGISSIDFIPLHNQKTLESLYLGSNHI  141 (606)
T ss_dssp             EECTT-SCCSCGGGSCCTTCTTCCEEECCSSCC
T ss_pred             eeccc-cCcccCCcchhccCCcccEEECCCCcc
Confidence            55555 444444222245555555555555544

>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=99.90  E-value=2.2e-23  Score=210.26  Aligned_cols=273  Identities=16%  Similarity=0.140  Sum_probs=126.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCc-cCccccccccCCEEeccCCCCc-cCchhhhcC-c
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTE-LPSGISSLVSLQHLDVSYTDIR-GLPHELTAL-L   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l-~   80 (366)
                      ++++|++|++++|.+....+..+..+++|++|++++|    .+.. +|. . .+++|++|++++|.++ .+|..+... +
T Consensus       221 ~l~~L~~L~Ls~n~l~~~~~~~l~~l~~L~~L~Ls~n----~l~~~~~~-~-~l~~L~~L~L~~n~l~~~ip~~~~~~~~  294 (768)
T 3rgz_A          221 DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN----QFVGPIPP-L-PLKSLQYLSLAENKFTGEIPDFLSGACD  294 (768)
T ss_dssp             TCCSCCEEECCSSCCCSCHHHHTTTCSSCCEEECCSS----CCEESCCC-C-CCTTCCEEECCSSEEEESCCCCSCTTCT
T ss_pred             cCCCCCEEECcCCcCCCcccHHHhcCCCCCEEECCCC----cccCccCc-c-ccCCCCEEECcCCccCCccCHHHHhhcC
Confidence            3455555555555554322222555555555555555    3322 222 1 3444555555555444 455555443 7


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHH-HHhhcCCCCcceEEEEecccc-ccc
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPL-MKELLCLKLLNLISFSLYSSR-GVR  158 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~-~~~  158 (366)
                      +|++|++++|.....+|.. +.++++|++|++.+|.+.             ... ...+..+++|+.|+++++... ..+
T Consensus       295 ~L~~L~Ls~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~-------------~~ip~~~l~~l~~L~~L~Ls~n~l~~~~p  360 (768)
T 3rgz_A          295 TLTGLDLSGNHFYGAVPPF-FGSCSLLESLALSSNNFS-------------GELPMDTLLKMRGLKVLDLSFNEFSGELP  360 (768)
T ss_dssp             TCSEEECCSSEEEECCCGG-GGGCTTCCEEECCSSEEE-------------EECCHHHHTTCTTCCEEECCSSEEEECCC
T ss_pred             cCCEEECcCCcCCCccchH-HhcCCCccEEECCCCccc-------------CcCCHHHHhcCCCCCEEeCcCCccCcccc
Confidence            7777777773322245554 677777777777777541             011 122455556666655554332 111


Q ss_pred             cc-ccc-----------------------ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCc
Q 040318          159 NF-LKF-----------------------PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGE  214 (366)
Q Consensus       159 ~~-~~~-----------------------~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~  214 (366)
                      .. ...                       ...+++|+.|++.++...+..+..+..+++|+.|+++++.+.......+  
T Consensus       361 ~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l--  438 (768)
T 3rgz_A          361 ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSL--  438 (768)
T ss_dssp             TTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGG--
T ss_pred             HHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHH--
Confidence            10 000                       0002345555555554411111245556666666666655543222111  


Q ss_pred             cccccccCCCCCcEEeEecCCCCc-ccc-cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccc
Q 040318          215 VQKVLQCGFRSLHLASIAFCSRVK-DLT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYH  292 (366)
Q Consensus       215 ~~~~p~~~~~~L~~L~l~~~~~l~-~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  292 (366)
                            ..+++|+.|++++| .++ .++ .+..+++|++|++++|.....+..            .+..+++|++|++++
T Consensus       439 ------~~l~~L~~L~L~~n-~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~------------~l~~l~~L~~L~L~~  499 (768)
T 3rgz_A          439 ------GSLSKLRDLKLWLN-MLEGEIPQELMYVKTLETLILDFNDLTGEIPS------------GLSNCTNLNWISLSN  499 (768)
T ss_dssp             ------GGCTTCCEEECCSS-CCCSCCCGGGGGCTTCCEEECCSSCCCSCCCG------------GGGGCTTCCEEECCS
T ss_pred             ------hcCCCCCEEECCCC-cccCcCCHHHcCCCCceEEEecCCcccCcCCH------------HHhcCCCCCEEEccC
Confidence                  23455555555555 233 222 234455555555555543322211            334445555555554


Q ss_pred             ccccccccCCCcCCCCccEEeccCC
Q 040318          293 AENLKSIYQGALPLPQLKEIRVTQC  317 (366)
Q Consensus       293 ~~~l~~~~~~~~~~~~L~~L~l~~c  317 (366)
                      +.-...++.....+++|+.|++++|
T Consensus       500 N~l~~~~p~~~~~l~~L~~L~L~~N  524 (768)
T 3rgz_A          500 NRLTGEIPKWIGRLENLAILKLSNN  524 (768)
T ss_dssp             SCCCSCCCGGGGGCTTCCEEECCSS
T ss_pred             CccCCcCChHHhcCCCCCEEECCCC
Confidence            4333333333334455555555554

>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=99.90  E-value=3.7e-23  Score=187.81  Aligned_cols=88  Identities=19%  Similarity=0.289  Sum_probs=47.7

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      ++++.|+++++.+..+|.. +..+++|++|++++|    .+..+|..++.+++|++|++++|.++.+|..+..+++|++|
T Consensus        81 ~~l~~L~L~~n~l~~lp~~-l~~l~~L~~L~L~~n----~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L  155 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQ-AFRLSHLQHMTIDAA----GLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLREL  155 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSC-GGGGTTCSEEEEESS----CCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEE
T ss_pred             cceeEEEccCCCchhcChh-hhhCCCCCEEECCCC----CccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEE
Confidence            4555555555555555554 344555555555555    44455555555555555555555555555555555555555


Q ss_pred             eccccccCCCcCh
Q 040318           86 NLERTYHLSRFPP   98 (366)
Q Consensus        86 ~L~~c~~~~~l~~   98 (366)
                      ++++|+....+|.
T Consensus       156 ~L~~n~~~~~~p~  168 (328)
T 4fcg_A          156 SIRACPELTELPE  168 (328)
T ss_dssp             EEEEETTCCCCCS
T ss_pred             ECCCCCCccccCh
Confidence            5555444444444

>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=99.89  E-value=5.7e-23  Score=199.61  Aligned_cols=105  Identities=21%  Similarity=0.211  Sum_probs=66.4

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchh-hhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~   83 (366)
                      ++|++|++++|.+..+++..|..+++|++|++++|    .++.++ ..+..+++|++|++++|.++.++.. ++++++|+
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  101 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSS----RINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLK  101 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTS----CCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCC
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCC----CcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCc
Confidence            46777777777776654444667777777777777    555553 4466677777777777766655443 66677777


Q ss_pred             EeeccccccCCC--cChhhhcCCCCCcEEEccCCC
Q 040318           84 YLNLERTYHLSR--FPPELICSFSKLEVLRMLESG  116 (366)
Q Consensus        84 ~L~L~~c~~~~~--l~~~~l~~l~~L~~L~l~~~~  116 (366)
                      +|++++ +.+..  ++.. +.++++|++|++.+|.
T Consensus       102 ~L~Ls~-n~l~~~~~~~~-~~~l~~L~~L~L~~n~  134 (549)
T 2z81_A          102 YLNLMG-NPYQTLGVTSL-FPNLTNLQTLRIGNVE  134 (549)
T ss_dssp             EEECTT-CCCSSSCSSCS-CTTCTTCCEEEEEESS
T ss_pred             EEECCC-Ccccccchhhh-hhccCCccEEECCCCc
Confidence            777766 44443  2332 5666667777666664

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.89  E-value=2.8e-22  Score=195.34  Aligned_cols=105  Identities=19%  Similarity=0.258  Sum_probs=89.8

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccC--chhhhcCc
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGL--PHELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l--~~~i~~l~   80 (366)
                      ..+++|++|++++|.+..+++..|..+++|++|++++|    .++.+|..  .+++|++|++++|.++.+  |..+++++
T Consensus        73 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N----~l~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~  146 (562)
T 3a79_B           73 SFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHN----RLQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLT  146 (562)
T ss_dssp             TTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTS----CCCEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCT
T ss_pred             ccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCC----cCCccCcc--ccccCCEEECCCCCccccCchHhhcccC
Confidence            36899999999999999987766999999999999999    78889876  899999999999999865  47899999


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCC--cEEEccCCCC
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKL--EVLRMLESGA  117 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L--~~L~l~~~~~  117 (366)
                      +|++|++++ +.+....   +..+++|  ++|++.+|.+
T Consensus       147 ~L~~L~L~~-n~l~~~~---~~~l~~L~L~~L~L~~n~l  181 (562)
T 3a79_B          147 KLTFLGLSA-AKFRQLD---LLPVAHLHLSCILLDLVSY  181 (562)
T ss_dssp             TCCEEEEEC-SBCCTTT---TGGGTTSCEEEEEEEESSC
T ss_pred             cccEEecCC-CccccCc---hhhhhhceeeEEEeecccc
Confidence            999999999 6666532   4445555  9999988866

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

Probab=99.89  E-value=3.1e-23  Score=187.18  Aligned_cols=250  Identities=17%  Similarity=0.149  Sum_probs=164.2

Q ss_pred             CCcCEEEccCCCCCc---cchhhhhcCCcccEEECCC-CCCCCCcC-ccCccccccccCCEEeccCCCCc-cCchhhhcC
Q 040318            6 SNIPSILELSSNNKV---FEPSWFLSRASWTCLDNGP-SRIKNSLT-ELPSGISSLVSLQHLDVSYTDIR-GLPHELTAL   79 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~---l~~~~~~~~~~L~~L~l~~-~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l   79 (366)
                      .+++.|+++++++..   +|.. +..+++|++|++++ +    .+. .+|..+..+++|++|++++|.++ .+|..+.++
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~-l~~l~~L~~L~L~~~n----~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l  124 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGIN----NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQI  124 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEET----TEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGC
T ss_pred             ceEEEEECCCCCccCCcccChh-HhCCCCCCeeeCCCCC----cccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCC
Confidence            578888888888874   6665 78888888888884 6    444 57777888888888888888887 777788888


Q ss_pred             ccCCEeeccccccCC-CcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCC-CcceEEEEecccccc
Q 040318           80 LNLRYLNLERTYHLS-RFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLK-LLNLISFSLYSSRGV  157 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~-~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~~  157 (366)
                      ++|++|++++ +.+. .+|.. +..+++|++|++.+|.+             ....+..+..++ +|+.|+++++.....
T Consensus       125 ~~L~~L~Ls~-N~l~~~~p~~-~~~l~~L~~L~L~~N~l-------------~~~~p~~l~~l~~~L~~L~L~~N~l~~~  189 (313)
T 1ogq_A          125 KTLVTLDFSY-NALSGTLPPS-ISSLPNLVGITFDGNRI-------------SGAIPDSYGSFSKLFTSMTISRNRLTGK  189 (313)
T ss_dssp             TTCCEEECCS-SEEESCCCGG-GGGCTTCCEEECCSSCC-------------EEECCGGGGCCCTTCCEEECCSSEEEEE
T ss_pred             CCCCEEeCCC-CccCCcCChH-HhcCCCCCeEECcCCcc-------------cCcCCHHHhhhhhcCcEEECcCCeeecc
Confidence            8888888888 5555 56665 78888888888888866             123344556665 777777765543311


Q ss_pred             ccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCC
Q 040318          158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRV  237 (366)
Q Consensus       158 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l  237 (366)
                                                .+..+..++ |+.|+++++.+.......+        ..+++|+.|+++++ .+
T Consensus       190 --------------------------~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~--------~~l~~L~~L~L~~N-~l  233 (313)
T 1ogq_A          190 --------------------------IPPTFANLN-LAFVDLSRNMLEGDASVLF--------GSDKNTQKIHLAKN-SL  233 (313)
T ss_dssp             --------------------------CCGGGGGCC-CSEEECCSSEEEECCGGGC--------CTTSCCSEEECCSS-EE
T ss_pred             --------------------------CChHHhCCc-ccEEECcCCcccCcCCHHH--------hcCCCCCEEECCCC-ce
Confidence                                      111233333 6666666666654433322        35667777777776 34


Q ss_pred             c-ccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccC
Q 040318          238 K-DLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQ  316 (366)
Q Consensus       238 ~-~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~  316 (366)
                      + ..+.+..+++|++|++++|.....+..            .+..+++|++|+++++.--..++.. ..+++|+.+++.+
T Consensus       234 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~------------~l~~l~~L~~L~Ls~N~l~~~ip~~-~~l~~L~~l~l~~  300 (313)
T 1ogq_A          234 AFDLGKVGLSKNLNGLDLRNNRIYGTLPQ------------GLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYAN  300 (313)
T ss_dssp             CCBGGGCCCCTTCCEEECCSSCCEECCCG------------GGGGCTTCCEEECCSSEEEEECCCS-TTGGGSCGGGTCS
T ss_pred             eeecCcccccCCCCEEECcCCcccCcCCh------------HHhcCcCCCEEECcCCcccccCCCC-ccccccChHHhcC
Confidence            3 244455667777777777665433322            5566777777777766433344432 5577777777777


Q ss_pred             CCCCCCCC
Q 040318          317 CPKLKTLP  324 (366)
Q Consensus       317 c~~l~~lp  324 (366)
                      ++.+...|
T Consensus       301 N~~lc~~p  308 (313)
T 1ogq_A          301 NKCLCGSP  308 (313)
T ss_dssp             SSEEESTT
T ss_pred             CCCccCCC
Confidence            77666544

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

Probab=99.89  E-value=5.2e-23  Score=203.10  Aligned_cols=289  Identities=13%  Similarity=0.143  Sum_probs=169.5

Q ss_pred             CCCCcCEEEccCCC-CCc--cchhhhhcC------CcccEEECCCCCCCCCcCccCc--cccccccCCEEeccCCCCc-c
Q 040318            4 RYSNIPSILELSSN-NKV--FEPSWFLSR------ASWTCLDNGPSRIKNSLTELPS--GISSLVSLQHLDVSYTDIR-G   71 (366)
Q Consensus         4 ~~~~L~~L~l~~~~-~~~--l~~~~~~~~------~~L~~L~l~~~~~~~~~~~l~~--~~~~l~~L~~L~l~~~~i~-~   71 (366)
                      ++++|++|++++|. +..  +|.. +..+      ++|++|++++|    .++.+|.  .+..+++|++|++++|.++ .
T Consensus       271 ~l~~L~~L~Ls~n~~l~~~~lp~~-~~~L~~~~~l~~L~~L~L~~n----~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~  345 (636)
T 4eco_A          271 ALPEMQLINVACNRGISGEQLKDD-WQALADAPVGEKIQIIYIGYN----NLKTFPVETSLQKMKKLGMLECLYNQLEGK  345 (636)
T ss_dssp             TCSSCCEEECTTCTTSCHHHHHHH-HHHHHHSGGGGTCCEEECCSS----CCSSCCCHHHHTTCTTCCEEECCSCCCEEE
T ss_pred             cCCCCCEEECcCCCCCccccchHH-HHhhhccccCCCCCEEECCCC----cCCccCchhhhccCCCCCEEeCcCCcCccc
Confidence            45555555555554 442  4443 3333      55555555555    4445554  4555555555555555555 4


Q ss_pred             CchhhhcCccCCEeeccccccCCCcChhhhcCCCC-CcEEEccCCCCCCccccccc-----c-------ccchHHHHHhh
Q 040318           72 LPHELTALLNLRYLNLERTYHLSRFPPELICSFSK-LEVLRMLESGADSTAEQGSV-----L-------SEDAEPLMKEL  138 (366)
Q Consensus        72 l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~-L~~L~l~~~~~~~~~~~~~~-----~-------~~~~~~~~~~l  138 (366)
                      +| .++.+++|++|++++ +.+..+|.. +..+++ |++|++++|.+...+..-..     .       .......+..+
T Consensus       346 ip-~~~~l~~L~~L~L~~-N~l~~lp~~-l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l  422 (636)
T 4eco_A          346 LP-AFGSEIKLASLNLAY-NQITEIPAN-FCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNF  422 (636)
T ss_dssp             CC-CCEEEEEESEEECCS-SEEEECCTT-SEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSS
T ss_pred             hh-hhCCCCCCCEEECCC-CccccccHh-hhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhh
Confidence            54 445555555555555 334444443 444544 55555555544322210000     0       00011223334


Q ss_pred             c-------CCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchh-------hhcccCceEeccccc
Q 040318          139 L-------CLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLA-------YMEHLKDLVIDNSNL  204 (366)
Q Consensus       139 ~-------~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~-------~~~~L~~L~l~~~~l  204 (366)
                      .       .+++|+.|+++++....++...  ...+++|+.|+++++.........+.       .+++|+.|++++|.+
T Consensus       423 ~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~--~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l  500 (636)
T 4eco_A          423 DPLDPTPFKGINVSSINLSNNQISKFPKEL--FSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKL  500 (636)
T ss_dssp             CTTCSSCCCCCCEEEEECCSSCCCSCCTHH--HHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCC
T ss_pred             cccccccccCCCCCEEECcCCccCcCCHHH--HccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcC
Confidence            4       5668888888887776544311  12356799999999887422222222       334999999999999


Q ss_pred             ceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cccCCCCccEEEEEccCCcccccccccccccccccccccccc
Q 040318          205 EELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFA  283 (366)
Q Consensus       205 ~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~  283 (366)
                      +.++.....       ..+++|+.|++++| .++.++ .+..+++|+.|++++|+....-.      ....++..+..++
T Consensus       501 ~~lp~~~~~-------~~l~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~------l~~~~p~~l~~l~  566 (636)
T 4eco_A          501 TKLSDDFRA-------TTLPYLVGIDLSYN-SFSKFPTQPLNSSTLKGFGIRNQRDAQGNR------TLREWPEGITLCP  566 (636)
T ss_dssp             CBCCGGGST-------TTCTTCCEEECCSS-CCSSCCCGGGGCSSCCEEECCSCBCTTCCB------CCCCCCTTGGGCS
T ss_pred             CccChhhhh-------ccCCCcCEEECCCC-CCCCcChhhhcCCCCCEEECCCCcccccCc------ccccChHHHhcCC
Confidence            866543220       26899999999999 677775 56789999999997655221100      0002233677899


Q ss_pred             cccccccccccccccccCCCcCCCCccEEeccCCCC
Q 040318          284 KLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPK  319 (366)
Q Consensus       284 ~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~  319 (366)
                      +|++|+++++.- +.++...  +++|+.|++++|+-
T Consensus       567 ~L~~L~Ls~N~l-~~ip~~~--~~~L~~L~Ls~N~l  599 (636)
T 4eco_A          567 SLTQLQIGSNDI-RKVNEKI--TPNISVLDIKDNPN  599 (636)
T ss_dssp             SCCEEECCSSCC-CBCCSCC--CTTCCEEECCSCTT
T ss_pred             CCCEEECCCCcC-CccCHhH--hCcCCEEECcCCCC
Confidence            999999999754 6776543  38999999999863

>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=99.89  E-value=1.8e-22  Score=183.24  Aligned_cols=239  Identities=20%  Similarity=0.254  Sum_probs=159.2

Q ss_pred             CCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCc
Q 040318           29 RASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLE  108 (366)
Q Consensus        29 ~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~  108 (366)
                      .+++++|+++++    .++.+|..++.+++|++|++++|.++.+|..++.+++|++|++++ +.+..+|.. +.++++|+
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~  153 (328)
T 4fcg_A           80 QPGRVALELRSV----PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLAR-NPLRALPAS-IASLNRLR  153 (328)
T ss_dssp             STTCCEEEEESS----CCSSCCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEES-CCCCCCCGG-GGGCTTCC
T ss_pred             ccceeEEEccCC----CchhcChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCC-CccccCcHH-HhcCcCCC
Confidence            467778888887    667777777777888888888887777777777778888888877 566677765 77777777


Q ss_pred             EEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccch
Q 040318          109 VLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHL  188 (366)
Q Consensus       109 ~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l  188 (366)
                      +|++++|....             ..+..+.                                ...         ....+
T Consensus       154 ~L~L~~n~~~~-------------~~p~~~~--------------------------------~~~---------~~~~~  179 (328)
T 4fcg_A          154 ELSIRACPELT-------------ELPEPLA--------------------------------STD---------ASGEH  179 (328)
T ss_dssp             EEEEEEETTCC-------------CCCSCSE--------------------------------EEC----------CCCE
T ss_pred             EEECCCCCCcc-------------ccChhHh--------------------------------hcc---------chhhh
Confidence            77777764311             0000000                                000         00023


Q ss_pred             hhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cccCCCCccEEEEEccCCcccccccc
Q 040318          189 AYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIISVE  267 (366)
Q Consensus       189 ~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~  267 (366)
                      ..+++|++|++++++++.++.. +        ..+++|+.|++++| .++.++ .++.+++|++|++++|.....+..  
T Consensus       180 ~~l~~L~~L~L~~n~l~~lp~~-l--------~~l~~L~~L~L~~N-~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~--  247 (328)
T 4fcg_A          180 QGLVNLQSLRLEWTGIRSLPAS-I--------ANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPP--  247 (328)
T ss_dssp             EESTTCCEEEEEEECCCCCCGG-G--------GGCTTCCEEEEESS-CCCCCCGGGGGCTTCCEEECTTCTTCCBCCC--
T ss_pred             ccCCCCCEEECcCCCcCcchHh-h--------cCCCCCCEEEccCC-CCCcCchhhccCCCCCEEECcCCcchhhhHH--
Confidence            4456666666666666544321 1        35677777777777 455554 456777888888887776665433  


Q ss_pred             cccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCCCCCCCCCcceeEEEcchhhhccc
Q 040318          268 KLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVISGGKDWWEEL  347 (366)
Q Consensus       268 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~  347 (366)
                                .+..+++|++|++++|...+.++.....+++|+.|++++|+.+..+|..+..+ ..+..+..+..+...+
T Consensus       248 ----------~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L-~~L~~l~l~~~~~~~l  316 (328)
T 4fcg_A          248 ----------IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL-PANCIILVPPHLQAQL  316 (328)
T ss_dssp             ----------CTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGS-CTTCEEECCGGGSCC-
T ss_pred             ----------HhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhc-cCceEEeCCHHHHHHH
Confidence                      56677888888888887777777667778888888888888888888887777 6777777777666665


Q ss_pred             ccC
Q 040318          348 QWE  350 (366)
Q Consensus       348 ~~~  350 (366)
                      .+.
T Consensus       317 ~~~  319 (328)
T 4fcg_A          317 DQH  319 (328)
T ss_dssp             ---
T ss_pred             hhh
Confidence            543

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

Probab=99.89  E-value=1.6e-22  Score=197.15  Aligned_cols=323  Identities=15%  Similarity=0.128  Sum_probs=204.8

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCcc--CchhhhcCc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRG--LPHELTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~--l~~~i~~l~   80 (366)
                      ++++|++|++++|.+..+++..|..+++|++|++++|    .++.++. .++.+++|++|++++|.++.  +|..+++++
T Consensus        74 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n----~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~  149 (570)
T 2z63_A           74 SLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET----NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLT  149 (570)
T ss_dssp             TCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTS----CCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCT
T ss_pred             CchhCCEEeCcCCcCCccCHhhhcCcccccccccccc----ccccCCCccccccccccEEecCCCccceecChhhhcccC
Confidence            6899999999999999988766999999999999999    7788765 58899999999999998874  688999999


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCC----cEEEccCCCCCCcccc------------cccc-----------------
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKL----EVLRMLESGADSTAEQ------------GSVL-----------------  127 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L----~~L~l~~~~~~~~~~~------------~~~~-----------------  127 (366)
                      +|++|++++ +.+..++...+..+++|    ++|++.+|.+......            +.+.                 
T Consensus       150 ~L~~L~l~~-n~l~~~~~~~~~~l~~L~~~~~~L~l~~n~l~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~~l~~l~  228 (570)
T 2z63_A          150 NLEHLDLSS-NKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLE  228 (570)
T ss_dssp             TCCEEECTT-SCCCEECGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEESCCSCTTHHHHHHHTTTTCE
T ss_pred             CCCEEeCcC-CccceecHHHccchhccchhhhhcccCCCCceecCHHHhccCcceeEecccccccccchhhhhcCccccc
Confidence            999999999 67777655446667666    7777777755322100            0000                 


Q ss_pred             ---------------c------------------------cchHHHHHhhcCCCCcceEEEEecccccccccccc-----
Q 040318          128 ---------------S------------------------EDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF-----  163 (366)
Q Consensus       128 ---------------~------------------------~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-----  163 (366)
                                     .                        ......+..+..+++|+.|+++++....++.....     
T Consensus       229 ~~~l~~~~~~~~~~l~~~~~~~~~~l~~l~l~~l~l~~~~~~~~~~~~~~~~l~~L~~L~l~~~~l~~l~~~~~~~~L~~  308 (570)
T 2z63_A          229 VHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQH  308 (570)
T ss_dssp             EEEEEEEECCCCSSCEECCTTTTGGGGGSEEEEEEEEETTEEESCSTTTTGGGTTCSEEEEESCEECSCCBCCSCCCCSE
T ss_pred             eeeeccccccCchhhhhcchhhhccccccchhhhhhhcchhhhhhchhhhcCcCcccEEEecCccchhhhhhhccCCccE
Confidence                           0                        00011122344456666666665443332211100     


Q ss_pred             ----------------------------------ccccccccEEEEeccCCCCcC--ccchhhhcccCceEeccccccee
Q 040318          164 ----------------------------------PKLLRITQALSISDCEIPLLN--VSHLAYMEHLKDLVIDNSNLEEL  207 (366)
Q Consensus       164 ----------------------------------~~~~~~L~~L~l~~~~~~~~~--~~~l~~~~~L~~L~l~~~~l~~l  207 (366)
                                                        ...+++|+.|+++++......  ...+..+++|+.|++.++.+..+
T Consensus       309 L~l~~n~~~~l~~~~l~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~  388 (570)
T 2z63_A          309 LELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITM  388 (570)
T ss_dssp             EEEESCBCSSCCBCBCSSCCEEEEESCBSCCBCCCCBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEE
T ss_pred             EeeccCcccccCcccccccCEEeCcCCccccccccccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccc
Confidence                                              023456888888777652222  12566788899999988777665


Q ss_pred             eccccCc-------------ccccc---ccCCCCCcEEeEecCCCCccc-c-cccCCCCccEEEEEccCCcccccccccc
Q 040318          208 KTDCTGE-------------VQKVL---QCGFRSLHLASIAFCSRVKDL-T-WLAFAPNLKIIVIMHCDDLEEIISVEKL  269 (366)
Q Consensus       208 ~~~~~~~-------------~~~~p---~~~~~~L~~L~l~~~~~l~~l-~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~  269 (366)
                      .......             ....+   ...+++|+.|++++| .++.. + .+..+++|++|++++|...+..      
T Consensus       389 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~------  461 (570)
T 2z63_A          389 SSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAGNSFQENF------  461 (570)
T ss_dssp             EEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTS-CCEECCTTTTTTCTTCCEEECTTCEEGGGE------
T ss_pred             cccccccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCC-cccccchhhhhcCCcCcEEECcCCcCcccc------
Confidence            5321100             00001   134455666666555 33332 1 2445666666666665433111      


Q ss_pred             cccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCCCC-CCCCCcceeEEEcchhhhc
Q 040318          270 NQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLN-SSSTKLRNIVISGGKDWWE  345 (366)
Q Consensus       270 ~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~-~~~~~~~~~~~~~~~~~~~  345 (366)
                           ++..+..+++|++|+++++.--...+.....+++|+.|++++| +++.+|.. +..+ ..++.++.....|.
T Consensus       462 -----~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l-~~L~~L~l~~N~~~  531 (570)
T 2z63_A          462 -----LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRL-TSLQKIWLHTNPWD  531 (570)
T ss_dssp             -----ECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTC-TTCCEEECCSSCBC
T ss_pred             -----chhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCC-cCCCCCHHHhhcc-cCCcEEEecCCccc
Confidence                 1236678899999999987433333445667899999999998 67777654 3333 66666665554433

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

Probab=99.88  E-value=6e-22  Score=197.29  Aligned_cols=157  Identities=18%  Similarity=0.166  Sum_probs=108.9

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCch-hhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~   83 (366)
                      +++++|++++|.+..++...|.++++|++|++++|    .+..+ |..+.++++|++|++++|.++.+|. .++++++|+
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~  100 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN----TISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLT  100 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSS----CCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCS
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCC----ccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCC
Confidence            57888899888888887776888888899998888    66665 5557788888888888888887776 478888888


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++...+.++++|++|++++|.+...             .+..+..+++|+.|+++++...........
T Consensus       101 ~L~L~~-n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-------------~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~  166 (680)
T 1ziw_A          101 ELHLMS-NSIQKIKNNPFVKQKNLITLDLSHNGLSST-------------KLGTQVQLENLQELLLSNNKIQALKSEELD  166 (680)
T ss_dssp             EEECCS-SCCCCCCSCTTTTCTTCCEEECCSSCCSCC-------------CCCSSSCCTTCCEEECCSSCCCCBCHHHHG
T ss_pred             EEECCC-CccCccChhHccccCCCCEEECCCCccccc-------------CchhhcccccCCEEEccCCcccccCHHHhh
Confidence            888888 567777654478888888888888866221             223345666777777766554433211100


Q ss_pred             ccccccccEEEEeccCC
Q 040318          164 PKLLRITQALSISDCEI  180 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~  180 (366)
                      ...+.+|+.|+++++..
T Consensus       167 ~~~~~~L~~L~L~~n~l  183 (680)
T 1ziw_A          167 IFANSSLKKLELSSNQI  183 (680)
T ss_dssp             GGTTCEESEEECTTCCC
T ss_pred             ccccccccEEECCCCcc
Confidence            01123466666665543

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

Probab=99.88  E-value=3.6e-22  Score=201.47  Aligned_cols=279  Identities=14%  Similarity=0.111  Sum_probs=170.2

Q ss_pred             CCCCcCEEEccCCCCCccch--hhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEP--SWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~--~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~   81 (366)
                      .+++|+.|++++|.+..+|.  . +.++++|++|++++|    .+..+| .+..+++|++|++++|.+..+|..+..+++
T Consensus       546 ~l~~L~~L~Ls~N~L~~ip~~~~-l~~L~~L~~L~Ls~N----~l~~lp-~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~  619 (876)
T 4ecn_A          546 TGPKIQIFYMGYNNLEEFPASAS-LQKMVKLGLLDCVHN----KVRHLE-AFGTNVKLTDLKLDYNQIEEIPEDFCAFTD  619 (876)
T ss_dssp             TTTTCCEEECCSSCCCBCCCHHH-HTTCTTCCEEECTTS----CCCBCC-CCCTTSEESEEECCSSCCSCCCTTSCEECT
T ss_pred             ccCCccEEEeeCCcCCccCChhh-hhcCCCCCEEECCCC----Ccccch-hhcCCCcceEEECcCCccccchHHHhhccc
Confidence            34455555555555555554  3 555555555555555    444555 455555555555555555555555555555


Q ss_pred             -CCEeeccccccCCCcChhhhcCCC--CCcEEEccCCCCCCccccccccccchHHHHHhhc--CCCCcceEEEEeccccc
Q 040318           82 -LRYLNLERTYHLSRFPPELICSFS--KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELL--CLKLLNLISFSLYSSRG  156 (366)
Q Consensus        82 -L~~L~L~~c~~~~~l~~~~l~~l~--~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~--~l~~L~~L~l~~~~~~~  156 (366)
                       |++|++++ +.+..+|.. +..++  +|+.|++++|.+...          ....+..+.  .+++|+.|+++++....
T Consensus       620 ~L~~L~Ls~-N~L~~lp~~-~~~~~~~~L~~L~Ls~N~l~g~----------ip~l~~~l~~~~~~~L~~L~Ls~N~L~~  687 (876)
T 4ecn_A          620 QVEGLGFSH-NKLKYIPNI-FNAKSVYVMGSVDFSYNKIGSE----------GRNISCSMDDYKGINASTVTLSYNEIQK  687 (876)
T ss_dssp             TCCEEECCS-SCCCSCCSC-CCTTCSSCEEEEECCSSCTTTT----------SSSCSSCTTTCCCCCEEEEECCSSCCCS
T ss_pred             cCCEEECcC-CCCCcCchh-hhccccCCCCEEECcCCcCCCc----------cccchhhhccccCCCcCEEEccCCcCCc
Confidence             55555555 344455542 33332  255555555544110          000111122  23578889988877765


Q ss_pred             cccccccccccccccEEEEeccCCCCcCccc-------hhhhcccCceEecccccceeeccccCccccccccCCCCCcEE
Q 040318          157 VRNFLKFPKLLRITQALSISDCEIPLLNVSH-------LAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLA  229 (366)
Q Consensus       157 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~-------l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L  229 (366)
                      ++...  ...+++|+.|+++++.........       +..+++|+.|++++|++..++....       ...+++|+.|
T Consensus       688 lp~~~--~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~-------~~~l~~L~~L  758 (876)
T 4ecn_A          688 FPTEL--FATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFR-------ATTLPYLSNM  758 (876)
T ss_dssp             CCHHH--HHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGS-------TTTCTTCCEE
T ss_pred             cCHHH--HccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCCccchHHhh-------hccCCCcCEE
Confidence            44321  123567999999998763222222       2244599999999999886654222       1268999999


Q ss_pred             eEecCCCCcccc-cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCC
Q 040318          230 SIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQ  308 (366)
Q Consensus       230 ~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~  308 (366)
                      ++++| .++.++ .+..+++|+.|+|++|..+..-.      ....++..+..+++|+.|+++++.- +.++...  +++
T Consensus       759 ~Ls~N-~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~------l~~~ip~~l~~L~~L~~L~Ls~N~L-~~Ip~~l--~~~  828 (876)
T 4ecn_A          759 DVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNR------ILRQWPTGITTCPSLIQLQIGSNDI-RKVDEKL--TPQ  828 (876)
T ss_dssp             ECCSS-CCSSCCCGGGGCTTCCEEECCCCBCTTCCB------CCCCCCTTGGGCSSCCEEECCSSCC-CBCCSCC--CSS
T ss_pred             EeCCC-CCCccchhhhcCCCCCEEECCCCCCccccc------ccccChHHHhcCCCCCEEECCCCCC-CccCHhh--cCC
Confidence            99999 677776 57789999999998855221100      0012233677899999999999854 7776553  479


Q ss_pred             ccEEeccCCCC
Q 040318          309 LKEIRVTQCPK  319 (366)
Q Consensus       309 L~~L~l~~c~~  319 (366)
                      |+.|++++|+-
T Consensus       829 L~~LdLs~N~l  839 (876)
T 4ecn_A          829 LYILDIADNPN  839 (876)
T ss_dssp             SCEEECCSCTT
T ss_pred             CCEEECCCCCC
Confidence            99999999863

>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=2.7e-22  Score=190.11  Aligned_cols=274  Identities=15%  Similarity=0.174  Sum_probs=165.3

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|++|++++|.+..++   +..+++|++|++++|    .++.++  ++.+++|++|++++|.++.+|  ++.+++|+
T Consensus        62 ~l~~L~~L~Ls~n~l~~~~---~~~l~~L~~L~Ls~N----~l~~~~--~~~l~~L~~L~L~~N~l~~l~--~~~l~~L~  130 (457)
T 3bz5_A           62 KLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSN----KLTNLD--VTPLTKLTYLNCDTNKLTKLD--VSQNPLLT  130 (457)
T ss_dssp             GCTTCSEEECCSSCCSCCC---CTTCTTCSEEECCSS----CCSCCC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCC
T ss_pred             ccCCCCEEEccCCcCCeEc---cccCCCCCEEECcCC----CCceee--cCCCCcCCEEECCCCcCCeec--CCCCCcCC
Confidence            6788999999999888875   678899999999999    677775  778899999999999888775  78888999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++   +..+++|++|++.+|.....             .  .+..+++|+.|+++++....++ +   
T Consensus       131 ~L~l~~-N~l~~l~---l~~l~~L~~L~l~~n~~~~~-------------~--~~~~l~~L~~L~ls~n~l~~l~-l---  187 (457)
T 3bz5_A          131 YLNCAR-NTLTEID---VSHNTQLTELDCHLNKKITK-------------L--DVTPQTQLTTLDCSFNKITELD-V---  187 (457)
T ss_dssp             EEECTT-SCCSCCC---CTTCTTCCEEECTTCSCCCC-------------C--CCTTCTTCCEEECCSSCCCCCC-C---
T ss_pred             EEECCC-Cccceec---cccCCcCCEEECCCCCcccc-------------c--ccccCCcCCEEECCCCccceec-c---
Confidence            999988 6676663   66788888888888743111             0  2455666666666666555433 1   


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCc----------cccccccCCCCCcEEeEec
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGE----------VQKVLQCGFRSLHLASIAF  233 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~----------~~~~p~~~~~~L~~L~l~~  233 (366)
                       ..+++|+.|++.++....   ..+..+++|+.|++++++++.++......          -..+|...+++|+.|++++
T Consensus       188 -~~l~~L~~L~l~~N~l~~---~~l~~l~~L~~L~Ls~N~l~~ip~~~l~~L~~L~l~~N~l~~~~~~~l~~L~~L~l~~  263 (457)
T 3bz5_A          188 -SQNKLLNRLNCDTNNITK---LDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQ  263 (457)
T ss_dssp             -TTCTTCCEEECCSSCCSC---CCCTTCTTCSEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCCCTTCTTCCEEECTT
T ss_pred             -ccCCCCCEEECcCCcCCe---eccccCCCCCEEECcCCcccccCccccCCCCEEEeeCCcCCCcCHHHCCCCCEEeccC
Confidence             223345566655554411   13445555555555555554433100000          0001112344444333322


Q ss_pred             ----------CCCCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCC
Q 040318          234 ----------CSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGA  303 (366)
Q Consensus       234 ----------~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~  303 (366)
                                |.....++ .+.+++|+.|++++|.....+..  ....+..+  .+..+++|++|+++++ .++.+  ..
T Consensus       264 n~L~~L~l~~n~~~~~~~-~~~l~~L~~L~Ls~n~~l~~l~~--~~~~L~~L--~l~~~~~L~~L~L~~N-~l~~l--~l  335 (457)
T 3bz5_A          264 TDLLEIDLTHNTQLIYFQ-AEGCRKIKELDVTHNTQLYLLDC--QAAGITEL--DLSQNPKLVYLYLNNT-ELTEL--DV  335 (457)
T ss_dssp             CCCSCCCCTTCTTCCEEE-CTTCTTCCCCCCTTCTTCCEEEC--TTCCCSCC--CCTTCTTCCEEECTTC-CCSCC--CC
T ss_pred             CCCCEEECCCCccCCccc-ccccccCCEEECCCCcccceecc--CCCcceEe--chhhcccCCEEECCCC-ccccc--cc
Confidence                      22122222 34567777777777765554432  00111111  2455677777777764 34444  35


Q ss_pred             cCCCCccEEeccCCCCCCCCC
Q 040318          304 LPLPQLKEIRVTQCPKLKTLP  324 (366)
Q Consensus       304 ~~~~~L~~L~l~~c~~l~~lp  324 (366)
                      ..+++|+.|+++++ +++.+|
T Consensus       336 ~~l~~L~~L~l~~N-~l~~l~  355 (457)
T 3bz5_A          336 SHNTKLKSLSCVNA-HIQDFS  355 (457)
T ss_dssp             TTCTTCSEEECCSS-CCCBCT
T ss_pred             ccCCcCcEEECCCC-CCCCcc
Confidence            67899999999875 566554

>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=99.88  E-value=8.4e-22  Score=191.34  Aligned_cols=112  Identities=21%  Similarity=0.200  Sum_probs=93.7

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCcc--CchhhhcC
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRG--LPHELTAL   79 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~--l~~~i~~l   79 (366)
                      ..+++|++|++++|.+..+++..|..+++|++|++++|    .+..++.. +..+++|++|++++|.++.  .|..++++
T Consensus        47 ~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l  122 (549)
T 2z81_A           47 RACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN----HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNL  122 (549)
T ss_dssp             SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS----CCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTC
T ss_pred             hcCCcccEEECCCCCcCccChhhccccccCCEEECCCC----ccCccCHHHhccCCCCcEEECCCCcccccchhhhhhcc
Confidence            47899999999999999887666899999999999999    77877654 8889999999999998874  46678899


Q ss_pred             ccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCC
Q 040318           80 LNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      ++|++|++++|..+..++...+.++++|++|++.+|.+.
T Consensus       123 ~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~  161 (549)
T 2z81_A          123 TNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLR  161 (549)
T ss_dssp             TTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCC
T ss_pred             CCccEEECCCCccccccCHhhhhcccccCeeeccCCccc
Confidence            999999999855577777544888899999999888764

>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=99.88  E-value=2e-21  Score=176.61  Aligned_cols=273  Identities=11%  Similarity=0.094  Sum_probs=164.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      ++++.|++++|.+..++...+.++++|++|++++|    .++.+ |..+..+++|++|++++|.++.+|..+.  ++|++
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~  125 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN----KISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQE  125 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCE
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCC----cCCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccccE
Confidence            56777777777777776655777777777777777    55665 5567777777777777777777665543  67777


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++...+.++++|++|++.+|.+...           ...+..+..+++|+.|+++++....++...   
T Consensus       126 L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-----------~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~---  190 (330)
T 1xku_A          126 LRVHE-NEITKVRKSVFNGLNQMIVVELGTNPLKSS-----------GIENGAFQGMKKLSYIRIADTNITTIPQGL---  190 (330)
T ss_dssp             EECCS-SCCCBBCHHHHTTCTTCCEEECCSSCCCGG-----------GBCTTGGGGCTTCCEEECCSSCCCSCCSSC---
T ss_pred             EECCC-CcccccCHhHhcCCccccEEECCCCcCCcc-----------CcChhhccCCCCcCEEECCCCccccCCccc---
Confidence            77777 566666665577777777777777765211           122344566777777777776665544322   


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WL  243 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l  243 (366)
                        .++|++|+++++.........+..+++|+.|+++++.+..+....+        ..+++|+.|++++| .++.++ .+
T Consensus       191 --~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~lp~~l  259 (330)
T 1xku_A          191 --PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSL--------ANTPHLRELHLNNN-KLVKVPGGL  259 (330)
T ss_dssp             --CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTG--------GGSTTCCEEECCSS-CCSSCCTTT
T ss_pred             --cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhc--------cCCCCCCEEECCCC-cCccCChhh
Confidence              2457777777766522222356677777777777777766654333        35677777777777 566654 45


Q ss_pred             cCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccccc---CCCcCCCCccEEeccCC
Q 040318          244 AFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIY---QGALPLPQLKEIRVTQC  317 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~---~~~~~~~~L~~L~l~~c  317 (366)
                      ..+++|++|++++|.... +........     ......+.|+.|++++.+. ..+.   .....++.|+.++++++
T Consensus       260 ~~l~~L~~L~l~~N~i~~-~~~~~f~~~-----~~~~~~~~l~~l~l~~N~~-~~~~i~~~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          260 ADHKYIQVVYLHNNNISA-IGSNDFCPP-----GYNTKKASYSGVSLFSNPV-QYWEIQPSTFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             TTCSSCCEEECCSSCCCC-CCTTSSSCS-----SCCTTSCCCSEEECCSSSS-CGGGSCGGGGTTCCCGGGEEC---
T ss_pred             ccCCCcCEEECCCCcCCc-cChhhcCCc-----ccccccccccceEeecCcc-cccccCccccccccceeEEEeccc
Confidence            667777777777765332 211000000     0111245666666665432 1111   12233556666666554

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

Probab=99.88  E-value=1.3e-21  Score=199.21  Aligned_cols=136  Identities=20%  Similarity=0.132  Sum_probs=100.3

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccC-chhhhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGL-PHELTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L   82 (366)
                      .++|+.|+|++|.+..+++..|.++++|++|++++|.   ....+ |..+.++++|++|++++|.+..+ |..+.++++|
T Consensus        23 p~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~---~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L   99 (844)
T 3j0a_A           23 LNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQY---TPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHL   99 (844)
T ss_dssp             CTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTC---CCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSC
T ss_pred             CCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCC---CccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCccc
Confidence            4678888888888887665558888888888888885   45556 56678888888888888888755 6778888888


Q ss_pred             CEeeccccccCCC-cCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           83 RYLNLERTYHLSR-FPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        83 ~~L~L~~c~~~~~-l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      ++|++++ +.+.. ++. ..+.++++|++|++++|.+...            .....++.+++|+.|+++++....
T Consensus       100 ~~L~Ls~-n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~------------~~~~~~~~L~~L~~L~Ls~N~i~~  162 (844)
T 3j0a_A          100 FELRLYF-CGLSDAVLKDGYFRNLKALTRLDLSKNQIRSL------------YLHPSFGKLNSLKSIDFSSNQIFL  162 (844)
T ss_dssp             CCEECTT-CCCSSCCSTTCCCSSCSSCCEEEEESCCCCCC------------CCCGGGGTCSSCCEEEEESSCCCC
T ss_pred             CEeeCcC-CCCCcccccCccccccCCCCEEECCCCccccc------------ccchhHhhCCCCCEEECCCCcCCe
Confidence            8888888 45544 332 2367888888888888876322            122456778888888888766543

>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=99.88  E-value=5.3e-22  Score=200.13  Aligned_cols=91  Identities=21%  Similarity=0.191  Sum_probs=51.3

Q ss_pred             CCCCcEEeEecCCCCcc-cc-cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccccc
Q 040318          223 FRSLHLASIAFCSRVKD-LT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIY  300 (366)
Q Consensus       223 ~~~L~~L~l~~~~~l~~-l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  300 (366)
                      +++|+.|++++| .++. +| .++.+++|+.|+|++|.....+..            .++.+++|+.|+++++.--..++
T Consensus       631 l~~L~~LdLs~N-~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~------------~l~~L~~L~~LdLs~N~l~g~ip  697 (768)
T 3rgz_A          631 NGSMMFLDMSYN-MLSGYIPKEIGSMPYLFILNLGHNDISGSIPD------------EVGDLRGLNILDLSSNKLDGRIP  697 (768)
T ss_dssp             SBCCCEEECCSS-CCBSCCCGGGGGCTTCCEEECCSSCCCSCCCG------------GGGGCTTCCEEECCSSCCEECCC
T ss_pred             cccccEEECcCC-cccccCCHHHhccccCCEEeCcCCccCCCCCh------------HHhCCCCCCEEECCCCcccCcCC
Confidence            455666666666 3432 33 355666666666666654433332            55666667777776654444555


Q ss_pred             CCCcCCCCccEEeccCCCCCCCCCCC
Q 040318          301 QGALPLPQLKEIRVTQCPKLKTLPLN  326 (366)
Q Consensus       301 ~~~~~~~~L~~L~l~~c~~l~~lp~~  326 (366)
                      .....+++|+.|++++++--..+|..
T Consensus       698 ~~l~~l~~L~~L~ls~N~l~g~iP~~  723 (768)
T 3rgz_A          698 QAMSALTMLTEIDLSNNNLSGPIPEM  723 (768)
T ss_dssp             GGGGGCCCCSEEECCSSEEEEECCSS
T ss_pred             hHHhCCCCCCEEECcCCcccccCCCc
Confidence            55556666777777765433345543

>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=99.87  E-value=5.7e-21  Score=190.21  Aligned_cols=110  Identities=18%  Similarity=0.178  Sum_probs=93.4

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~   81 (366)
                      ++++|++|++++|.+..+++..+.++++|++|++++|    .++.+|. .+..+++|++|++++|.++.++ ..++++++
T Consensus        47 ~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n----~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  122 (680)
T 1ziw_A           47 RYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN----ELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKN  122 (680)
T ss_dssp             GGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSS----CCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTT
T ss_pred             CCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCC----ccCccChhhhccCCCCCEEECCCCccCccChhHccccCC
Confidence            5789999999999999887776899999999999999    7788876 4888999999999999988776 56889999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCC
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      |++|++++ +.+...+...+.++++|++|++.+|.+.
T Consensus       123 L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~  158 (680)
T 1ziw_A          123 LITLDLSH-NGLSSTKLGTQVQLENLQELLLSNNKIQ  158 (680)
T ss_dssp             CCEEECCS-SCCSCCCCCSSSCCTTCCEEECCSSCCC
T ss_pred             CCEEECCC-CcccccCchhhcccccCCEEEccCCccc
Confidence            99999999 5666654444788999999999998763

>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=99.87  E-value=2e-21  Score=178.34  Aligned_cols=275  Identities=16%  Similarity=0.135  Sum_probs=196.3

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccC-chhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGL-PHELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~   81 (366)
                      .|+.....+.++++++.+|..+   .++|++|++++|    .++.++. .+..+++|++|++++|.++.+ +..+.++++
T Consensus        29 ~C~~~~~c~~~~~~l~~iP~~~---~~~L~~L~l~~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~  101 (353)
T 2z80_A           29 SCDRNGICKGSSGSLNSIPSGL---TEAVKSLDLSNN----RITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGS  101 (353)
T ss_dssp             EECTTSEEECCSTTCSSCCTTC---CTTCCEEECTTS----CCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTT
T ss_pred             CCCCCeEeeCCCCCcccccccc---cccCcEEECCCC----cCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCC
Confidence            4666777888888899888763   358999999999    7788765 688899999999999988866 456888999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc-ccccccc
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS-SRGVRNF  160 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~  160 (366)
                      |++|++++ +.+..++.+.+.++++|++|++++|.+...+            ....+..+++|+.|+++++. ....+. 
T Consensus       102 L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~------------~~~~~~~l~~L~~L~l~~n~~~~~~~~-  167 (353)
T 2z80_A          102 LEHLDLSY-NYLSNLSSSWFKPLSSLTFLNLLGNPYKTLG------------ETSLFSHLTKLQILRVGNMDTFTKIQR-  167 (353)
T ss_dssp             CCEEECCS-SCCSSCCHHHHTTCTTCSEEECTTCCCSSSC------------SSCSCTTCTTCCEEEEEESSSCCEECT-
T ss_pred             CCEEECCC-CcCCcCCHhHhCCCccCCEEECCCCCCcccC------------chhhhccCCCCcEEECCCCccccccCH-
Confidence            99999999 7888888776888999999999998773221            01246778899999998873 333321 


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccc
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDL  240 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l  240 (366)
                       .....+++|++|+++++.........+..+++|++|+++++.+..+.....        ..+++|+.|++++| .++.+
T Consensus       168 -~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~--------~~~~~L~~L~L~~n-~l~~~  237 (353)
T 2z80_A          168 -KDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFV--------DVTSSVECLELRDT-DLDTF  237 (353)
T ss_dssp             -TTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHH--------HHTTTEEEEEEESC-BCTTC
T ss_pred             -HHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhh--------hhcccccEEECCCC-ccccc
Confidence             111234568888888887633333367788888999988887765543222        35788999999888 45553


Q ss_pred             c-----cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCC-cCCCCccEEec
Q 040318          241 T-----WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGA-LPLPQLKEIRV  314 (366)
Q Consensus       241 ~-----~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~~L~~L~l  314 (366)
                      +     .....+.++.+++.++........        .++..+..+++|++|+++++ .++.++... ..+++|++|++
T Consensus       238 ~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~--------~l~~~l~~l~~L~~L~Ls~N-~l~~i~~~~~~~l~~L~~L~L  308 (353)
T 2z80_A          238 HFSELSTGETNSLIKKFTFRNVKITDESLF--------QVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQKIWL  308 (353)
T ss_dssp             CCC------CCCCCCEEEEESCBCCHHHHH--------HHHHHHHTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEEC
T ss_pred             cccccccccccchhhccccccccccCcchh--------hhHHHHhcccCCCEEECCCC-CCCccCHHHHhcCCCCCEEEe
Confidence            3     223466788888887754332211        22235667889999999886 555666554 56889999999


Q ss_pred             cCCC
Q 040318          315 TQCP  318 (366)
Q Consensus       315 ~~c~  318 (366)
                      ++++
T Consensus       309 ~~N~  312 (353)
T 2z80_A          309 HTNP  312 (353)
T ss_dssp             CSSC
T ss_pred             eCCC
Confidence            8875

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

Probab=99.87  E-value=1.6e-21  Score=177.44  Aligned_cols=274  Identities=12%  Similarity=0.079  Sum_probs=176.9

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      ++|+.|++++|.+..+++..+..+++|++|++++|    .++.+ |..+..+++|++|++++|.++.+|..+.  ++|++
T Consensus        54 ~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~  127 (332)
T 2ft3_A           54 PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNN----KISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVE  127 (332)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS----CCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCE
T ss_pred             CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCC----ccCccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCE
Confidence            57888888888888776655788888888888888    66665 5567778888888888888877776554  77888


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++.+.+..+++|++|++.+|.+...           ...+..+..+ +|+.|+++++....++...   
T Consensus       128 L~l~~-n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~-----------~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~---  191 (332)
T 2ft3_A          128 LRIHD-NRIRKVPKGVFSGLRNMNCIEMGGNPLENS-----------GFEPGAFDGL-KLNYLRISEAKLTGIPKDL---  191 (332)
T ss_dssp             EECCS-SCCCCCCSGGGSSCSSCCEEECCSCCCBGG-----------GSCTTSSCSC-CCSCCBCCSSBCSSCCSSS---
T ss_pred             EECCC-CccCccCHhHhCCCccCCEEECCCCccccC-----------CCCcccccCC-ccCEEECcCCCCCccCccc---
Confidence            88888 677777765577788888888888766211           1223344455 7788888777666554322   


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WL  243 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l  243 (366)
                        .++|++|+++++.........+..+++|+.|++++|.+..+....+        ..+++|+.|++++| .++.++ .+
T Consensus       192 --~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~lp~~l  260 (332)
T 2ft3_A          192 --PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSL--------SFLPTLRELHLDNN-KLSRVPAGL  260 (332)
T ss_dssp             --CSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGG--------GGCTTCCEEECCSS-CCCBCCTTG
T ss_pred             --cCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHh--------hCCCCCCEEECCCC-cCeecChhh
Confidence              2457888887776633333366777888888888877776654333        36778888888888 666765 36


Q ss_pred             cCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccc--ccccCCCcCCCCccEEeccCCC
Q 040318          244 AFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENL--KSIYQGALPLPQLKEIRVTQCP  318 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l--~~~~~~~~~~~~L~~L~l~~c~  318 (366)
                      ..+++|++|++++|.... +........     .....++.|+.|++++++..  .........+++|+.+++++++
T Consensus       261 ~~l~~L~~L~l~~N~l~~-~~~~~~~~~-----~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~~L~~l~l~~n~  331 (332)
T 2ft3_A          261 PDLKLLQVVYLHTNNITK-VGVNDFCPV-----GFGVKRAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGNYK  331 (332)
T ss_dssp             GGCTTCCEEECCSSCCCB-CCTTSSSCS-----SCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBCCSTTEEC----
T ss_pred             hcCccCCEEECCCCCCCc-cChhHcccc-----ccccccccccceEeecCcccccccCcccccccchhhhhhccccc
Confidence            678888888888776432 211000000     00112567788888776432  1112223346677777777764

>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=9.6e-21  Score=192.87  Aligned_cols=111  Identities=14%  Similarity=0.162  Sum_probs=93.0

Q ss_pred             CCCCCcCEEEccCCC-CCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCcc-Cchh--hh
Q 040318            3 IRYSNIPSILELSSN-NKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRG-LPHE--LT   77 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~-~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~-l~~~--i~   77 (366)
                      .++++|++|++++|. +..+++..|.++++|++|++++|    .+..+ |..+..+++|++|++++|.++. .|..  ++
T Consensus        45 ~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N----~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~  120 (844)
T 3j0a_A           45 PFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS----KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFR  120 (844)
T ss_dssp             SSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC----CCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCS
T ss_pred             cccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC----cCcccCHhHccCCcccCEeeCcCCCCCcccccCcccc
Confidence            478999999999985 44676666999999999999999    77776 7789999999999999998874 4554  88


Q ss_pred             cCccCCEeeccccccCCCcC-hhhhcCCCCCcEEEccCCCCC
Q 040318           78 ALLNLRYLNLERTYHLSRFP-PELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        78 ~l~~L~~L~L~~c~~~~~l~-~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      ++++|++|++++ +.+..++ ...+.++++|++|++++|.+.
T Consensus       121 ~L~~L~~L~Ls~-N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A          121 NLKALTRLDLSK-NQIRSLYLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             SCSSCCEEEEES-CCCCCCCCCGGGGTCSSCCEEEEESSCCC
T ss_pred             ccCCCCEEECCC-CcccccccchhHhhCCCCCEEECCCCcCC
Confidence            999999999999 6666653 234899999999999999763

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

Probab=99.86  E-value=1.8e-22  Score=182.51  Aligned_cols=245  Identities=11%  Similarity=0.038  Sum_probs=129.7

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +++|++|++++|.+..+++..+..+++|++|++++|    .+..++. +..+++|++|++++|.++.++    ..++|++
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n----~l~~~~~-~~~l~~L~~L~Ls~n~l~~l~----~~~~L~~  103 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN----VLYETLD-LESLSTLRTLDLNNNYVQELL----VGPSIET  103 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTS----CCEEEEE-ETTCTTCCEEECCSSEEEEEE----ECTTCCE
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCC----cCCcchh-hhhcCCCCEEECcCCcccccc----CCCCcCE
Confidence            456666666666666665544666666666666666    4554443 556666666666666665443    2356666


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++..   .+++|++|++.+|.+..             ..+..+..+++|+.|+++++........ ...
T Consensus       104 L~l~~-n~l~~~~~~---~~~~L~~L~l~~N~l~~-------------~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~  165 (317)
T 3o53_A          104 LHAAN-NNISRVSCS---RGQGKKNIYLANNKITM-------------LRDLDEGCRSRVQYLDLKLNEIDTVNFA-ELA  165 (317)
T ss_dssp             EECCS-SCCSEEEEC---CCSSCEEEECCSSCCCS-------------GGGBCTGGGSSEEEEECTTSCCCEEEGG-GGG
T ss_pred             EECCC-CccCCcCcc---ccCCCCEEECCCCCCCC-------------ccchhhhccCCCCEEECCCCCCCcccHH-HHh
Confidence            66666 455554432   35666666666665521             1122344556666666665554433211 011


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WL  243 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l  243 (366)
                      ..+++|+.|+++++.....  .....+++|+.|++++|+++.+... +        ..+++|+.|++++| .++.++ .+
T Consensus       166 ~~l~~L~~L~L~~N~l~~~--~~~~~l~~L~~L~Ls~N~l~~l~~~-~--------~~l~~L~~L~L~~N-~l~~l~~~~  233 (317)
T 3o53_A          166 ASSDTLEHLNLQYNFIYDV--KGQVVFAKLKTLDLSSNKLAFMGPE-F--------QSAAGVTWISLRNN-KLVLIEKAL  233 (317)
T ss_dssp             GGTTTCCEEECTTSCCCEE--ECCCCCTTCCEEECCSSCCCEECGG-G--------GGGTTCSEEECTTS-CCCEECTTC
T ss_pred             hccCcCCEEECCCCcCccc--ccccccccCCEEECCCCcCCcchhh-h--------cccCcccEEECcCC-cccchhhHh
Confidence            1234466666665554111  1222355666666666666555432 1        24566666666666 455543 24


Q ss_pred             cCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccc
Q 040318          244 AFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSI  299 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  299 (366)
                      ..+++|+.|++++|....+..+           ..+..+++|+.|++.++..++..
T Consensus       234 ~~l~~L~~L~l~~N~~~~~~~~-----------~~~~~~~~L~~l~l~~~~~l~~~  278 (317)
T 3o53_A          234 RFSQNLEHFDLRGNGFHCGTLR-----------DFFSKNQRVQTVAKQTVKKLTGQ  278 (317)
T ss_dssp             CCCTTCCEEECTTCCCBHHHHH-----------HHHHTCHHHHHHHHHHHHHHHSS
T ss_pred             hcCCCCCEEEccCCCccCcCHH-----------HHHhccccceEEECCCchhccCC
Confidence            4556666666666554411111           13445566666666555554443

>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=99.86  E-value=1.4e-20  Score=181.52  Aligned_cols=124  Identities=21%  Similarity=0.157  Sum_probs=102.6

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccC-chhhhcCccCCEee
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLN   86 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L~   86 (366)
                      ++|++++++++.+|..+ .  ++|++|++++|    .+..++ ..+..+++|++|++++|.++.+ |..+.++++|++|+
T Consensus         3 ~~l~ls~n~l~~ip~~~-~--~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~   75 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDL-S--QKTTILNISQN----YISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLD   75 (520)
T ss_dssp             CEEECTTSCCSSCCCSC-C--TTCSEEECCSS----CCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEE
T ss_pred             ceEecCCCCcccccccc-c--ccccEEECCCC----cccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEe
Confidence            68999999999999863 2  89999999999    778876 5688999999999999999866 67899999999999


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      +++ +.+..+|..   .+++|++|++++|.+...            ..+..++.+++|+.|+++++...
T Consensus        76 Ls~-N~l~~lp~~---~l~~L~~L~L~~N~l~~~------------~~p~~~~~l~~L~~L~L~~n~l~  128 (520)
T 2z7x_B           76 LSH-NKLVKISCH---PTVNLKHLDLSFNAFDAL------------PICKEFGNMSQLKFLGLSTTHLE  128 (520)
T ss_dssp             CCS-SCCCEEECC---CCCCCSEEECCSSCCSSC------------CCCGGGGGCTTCCEEEEEESSCC
T ss_pred             cCC-CceeecCcc---ccCCccEEeccCCccccc------------cchhhhccCCcceEEEecCcccc
Confidence            999 788888873   899999999999987331            22355666777777777766544

>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=99.86  E-value=1e-21  Score=176.55  Aligned_cols=125  Identities=20%  Similarity=0.203  Sum_probs=78.8

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccC---chhhhcCccCCE
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGL---PHELTALLNLRY   84 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l---~~~i~~l~~L~~   84 (366)
                      +.++.++++++.+|..+   .++|++|++++|    .++.+|.. +..+++|++|++++|.++..   +..+..+++|++
T Consensus        10 ~~l~c~~~~l~~ip~~~---~~~l~~L~L~~n----~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~   82 (306)
T 2z66_A           10 TEIRCNSKGLTSVPTGI---PSSATRLELESN----KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKY   82 (306)
T ss_dssp             TEEECCSSCCSSCCSCC---CTTCCEEECCSS----CCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCE
T ss_pred             CEEEcCCCCcccCCCCC---CCCCCEEECCCC----ccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCE
Confidence            45666666677776642   356777777777    66666654 46677777777777766633   455566777777


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSS  154 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  154 (366)
                      |++++ +.+..++.. +..+++|++|++.+|.+...            .....+..+++|+.|+++++..
T Consensus        83 L~Ls~-n~i~~l~~~-~~~l~~L~~L~l~~n~l~~~------------~~~~~~~~l~~L~~L~l~~n~l  138 (306)
T 2z66_A           83 LDLSF-NGVITMSSN-FLGLEQLEHLDFQHSNLKQM------------SEFSVFLSLRNLIYLDISHTHT  138 (306)
T ss_dssp             EECCS-CSEEEEEEE-EETCTTCCEEECTTSEEESS------------TTTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCC-CccccChhh-cCCCCCCCEEECCCCccccc------------ccchhhhhccCCCEEECCCCcC
Confidence            77777 555566655 66777777777777755211            1113455666777776665443

>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=99.86  E-value=3.8e-21  Score=182.32  Aligned_cols=223  Identities=18%  Similarity=0.173  Sum_probs=158.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchh-hhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~   83 (366)
                      +++++|++++|++..+++..|.++++|++|++++|    .++.++ ..+..+++|++|++++|.++.+|.. +..+++|+
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  150 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN----SIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLR  150 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCC
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCC----ccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCC
Confidence            46888888888888776655788888888888888    666664 4577788888888888888766653 67788888


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++...+.++++|++|++.+|.....            .....+..+++|+.|+++++....++.+.  
T Consensus       151 ~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~------------i~~~~~~~l~~L~~L~L~~n~l~~~~~~~--  215 (452)
T 3zyi_A          151 ELWLRN-NPIESIPSYAFNRVPSLMRLDLGELKKLEY------------ISEGAFEGLFNLKYLNLGMCNIKDMPNLT--  215 (452)
T ss_dssp             EEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTCCE------------ECTTTTTTCTTCCEEECTTSCCSSCCCCT--
T ss_pred             EEECCC-CCcceeCHhHHhcCCcccEEeCCCCCCccc------------cChhhccCCCCCCEEECCCCccccccccc--
Confidence            888888 677777765577888888888887543111            11234667788888888877766655432  


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-  242 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-  242 (366)
                        .+++|+.|+++++.........+..+++|+.|++.++++..+....+        ..+++|+.|++++| .++.++. 
T Consensus       216 --~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~~~~~  284 (452)
T 3zyi_A          216 --PLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAF--------DGLASLVELNLAHN-NLSSLPHD  284 (452)
T ss_dssp             --TCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSCCCEECTTTT--------TTCTTCCEEECCSS-CCSCCCTT
T ss_pred             --ccccccEEECcCCcCcccCcccccCccCCCEEEeCCCcCceECHHHh--------cCCCCCCEEECCCC-cCCccChH
Confidence              33458888888777633333367777888888888887777665444        36778888888888 6666553 


Q ss_pred             -ccCCCCccEEEEEccC
Q 040318          243 -LAFAPNLKIIVIMHCD  258 (366)
Q Consensus       243 -l~~l~~L~~L~L~~c~  258 (366)
                       +..+++|+.|+|++|+
T Consensus       285 ~~~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          285 LFTPLRYLVELHLHHNP  301 (452)
T ss_dssp             SSTTCTTCCEEECCSSC
T ss_pred             HhccccCCCEEEccCCC
Confidence             4567888888887765

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

Probab=99.86  E-value=3.9e-21  Score=181.62  Aligned_cols=224  Identities=15%  Similarity=0.157  Sum_probs=149.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCch-hhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~   83 (366)
                      ++++.|++++|.+..++...|.++++|++|++++|    .++.++ ..+..+++|++|++++|.++.++. .+..+++|+
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n----~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  139 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN----HIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLK  139 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSS----CCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCC
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCC----cCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCc
Confidence            45777777777777766555777777888888777    666664 446667778888887777776654 467777788


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++...+.++++|++|++.+|.....            .....+..+++|+.|+++++....++.+.  
T Consensus       140 ~L~L~~-N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~------------i~~~~~~~l~~L~~L~L~~n~l~~~~~~~--  204 (440)
T 3zyj_A          140 ELWLRN-NPIESIPSYAFNRIPSLRRLDLGELKRLSY------------ISEGAFEGLSNLRYLNLAMCNLREIPNLT--  204 (440)
T ss_dssp             EEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTCCE------------ECTTTTTTCSSCCEEECTTSCCSSCCCCT--
T ss_pred             eeeCCC-CcccccCHHHhhhCcccCEeCCCCCCCcce------------eCcchhhcccccCeecCCCCcCccccccC--
Confidence            888777 666676665577777788887777533111            11234566777777777777666555432  


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-  242 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-  242 (366)
                        .+.+|+.|+++++.........+..+++|+.|++.++++..+....+        ..+++|+.|++++| .++.++. 
T Consensus       205 --~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~~~~~  273 (440)
T 3zyj_A          205 --PLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAF--------DNLQSLVEINLAHN-NLTLLPHD  273 (440)
T ss_dssp             --TCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSS--------TTCTTCCEEECTTS-CCCCCCTT
T ss_pred             --CCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEChhhh--------cCCCCCCEEECCCC-CCCccChh
Confidence              23457777777776533333366677777777777777776665444        35677777777777 5666542 


Q ss_pred             -ccCCCCccEEEEEccCC
Q 040318          243 -LAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       243 -l~~l~~L~~L~L~~c~~  259 (366)
                       +..+++|+.|+|++|+.
T Consensus       274 ~~~~l~~L~~L~L~~Np~  291 (440)
T 3zyj_A          274 LFTPLHHLERIHLHHNPW  291 (440)
T ss_dssp             TTSSCTTCCEEECCSSCE
T ss_pred             HhccccCCCEEEcCCCCc
Confidence             45677777777776653

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

Probab=99.85  E-value=4.8e-21  Score=175.77  Aligned_cols=253  Identities=16%  Similarity=0.141  Sum_probs=191.1

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      .++|++|++++|.+..++...+..+++|++|++++|    .++.++ ..+..+++|++|++++|.++.+|.. ++++++|
T Consensus        51 ~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  126 (353)
T 2z80_A           51 TEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN----GINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSL  126 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTC
T ss_pred             cccCcEEECCCCcCcccCHHHhccCCCCCEEECCCC----ccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccC
Confidence            358999999999999988866999999999999999    778774 5688999999999999999988876 8899999


Q ss_pred             CEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccc
Q 040318           83 RYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL  161 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  161 (366)
                      ++|++++ +.+..++. +.+..+++|++|++.+|...            ....+..+..+++|+.|+++++.......  
T Consensus       127 ~~L~L~~-n~l~~l~~~~~~~~l~~L~~L~l~~n~~~------------~~~~~~~~~~l~~L~~L~l~~n~l~~~~~--  191 (353)
T 2z80_A          127 TFLNLLG-NPYKTLGETSLFSHLTKLQILRVGNMDTF------------TKIQRKDFAGLTFLEELEIDASDLQSYEP--  191 (353)
T ss_dssp             SEEECTT-CCCSSSCSSCSCTTCTTCCEEEEEESSSC------------CEECTTTTTTCCEEEEEEEEETTCCEECT--
T ss_pred             CEEECCC-CCCcccCchhhhccCCCCcEEECCCCccc------------cccCHHHccCCCCCCEEECCCCCcCccCH--
Confidence            9999999 78888876 44889999999999998421            11224567788999999999987765421  


Q ss_pred             ccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc--
Q 040318          162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--  239 (366)
Q Consensus       162 ~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--  239 (366)
                      .....+++|++|+++++.........+..+++|+.|+++++.+..+......     .......++.+++.++ .+.+  
T Consensus       192 ~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~-----~~~~~~~l~~l~L~~~-~l~~~~  265 (353)
T 2z80_A          192 KSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELS-----TGETNSLIKKFTFRNV-KITDES  265 (353)
T ss_dssp             TTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC-----------CCCCCCEEEEESC-BCCHHH
T ss_pred             HHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccccc-----cccccchhhccccccc-cccCcc
Confidence            1122355799999999886222222556789999999999888766542221     1134677888888888 4544  


Q ss_pred             ---cc-cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccc
Q 040318          240 ---LT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAE  294 (366)
Q Consensus       240 ---l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  294 (366)
                         ++ .+..+++|++|++++|... .+..           ..+..+++|++|++++++
T Consensus       266 l~~l~~~l~~l~~L~~L~Ls~N~l~-~i~~-----------~~~~~l~~L~~L~L~~N~  312 (353)
T 2z80_A          266 LFQVMKLLNQISGLLELEFSRNQLK-SVPD-----------GIFDRLTSLQKIWLHTNP  312 (353)
T ss_dssp             HHHHHHHHHTCTTCCEEECCSSCCC-CCCT-----------TTTTTCTTCCEEECCSSC
T ss_pred             hhhhHHHHhcccCCCEEECCCCCCC-ccCH-----------HHHhcCCCCCEEEeeCCC
Confidence               22 3568899999999988654 3321           134678999999998763

>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=99.85  E-value=1.9e-20  Score=184.56  Aligned_cols=105  Identities=16%  Similarity=0.119  Sum_probs=71.6

Q ss_pred             cCCCCCcEEeEecCCCCcccc--cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccc
Q 040318          221 CGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKS  298 (366)
Q Consensus       221 ~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  298 (366)
                      ..++.|+.|++++|...+.+.  .+..+++|++|+|++|.......            ..+.++++|++|+|+++ .++.
T Consensus       466 ~~~~~L~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~------------~~f~~l~~L~~L~Ls~N-~l~~  532 (635)
T 4g8a_A          466 NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP------------TAFNSLSSLQVLNMSHN-NFFS  532 (635)
T ss_dssp             TTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECT------------TTTTTCTTCCEEECTTS-CCCB
T ss_pred             ccchhhhhhhhhhcccccccCchhhhhccccCEEECCCCccCCcCh------------HHHcCCCCCCEEECCCC-cCCC
Confidence            457788889888885444432  46678899999999886443322            26778999999999986 4555


Q ss_pred             ccC-CCcCCCCccEEeccCCCCCCCCC-CCCCCCCcceeEEEc
Q 040318          299 IYQ-GALPLPQLKEIRVTQCPKLKTLP-LNSSSTKLRNIVISG  339 (366)
Q Consensus       299 ~~~-~~~~~~~L~~L~l~~c~~l~~lp-~~~~~~~~~~~~~~~  339 (366)
                      +.. ....+++|+.|+++++ +++.++ ..+..+...+..++.
T Consensus       533 l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~l~~l~~~L~~L~L  574 (635)
T 4g8a_A          533 LDTFPYKCLNSLQVLDYSLN-HIMTSKKQELQHFPSSLAFLNL  574 (635)
T ss_dssp             CCCGGGTTCTTCCEEECTTS-CCCBCCSSCTTCCCTTCCEEEC
T ss_pred             CChhHHhCCCCCCEEECCCC-cCCCCCHHHHHhhhCcCCEEEe
Confidence            543 3456899999999997 566654 444444345555543

>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=99.84  E-value=1.2e-20  Score=167.96  Aligned_cols=222  Identities=12%  Similarity=0.056  Sum_probs=165.4

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccC-chhhhcCccCCEee
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLN   86 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L~   86 (366)
                      +.++.+++++..+|..   ..++|++|++++|    .++.++. .+..+++|++|++++|.++.+ |..+..+++|++|+
T Consensus        14 ~~~~c~~~~l~~ip~~---~~~~l~~L~l~~n----~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~   86 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVG---IPAASQRIFLHGN----RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLD   86 (285)
T ss_dssp             CEEECCSSCCSSCCTT---CCTTCSEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             eEEEcCcCCcccCCcC---CCCCceEEEeeCC----cCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEe
Confidence            5678888888888865   3578999999999    7777764 577889999999999988865 66788899999999


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++|..+..++...+..+++|++|++.+|.+..             ..+..+..+++|+.|+++++.....+.-  ....
T Consensus        87 l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~-------------~~~~~~~~l~~L~~L~l~~n~l~~~~~~--~~~~  151 (285)
T 1ozn_A           87 LSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQE-------------LGPGLFRGLAALQYLYLQDNALQALPDD--TFRD  151 (285)
T ss_dssp             CCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCC-------------CCTTTTTTCTTCCEEECCSSCCCCCCTT--TTTT
T ss_pred             CCCCCCccccCHHHhcCCcCCCEEECCCCcCCE-------------ECHhHhhCCcCCCEEECCCCcccccCHh--Hhcc
Confidence            998444777755448889999999999987622             2234567788999999988776554321  1123


Q ss_pred             cccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--ccc
Q 040318          167 LRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLA  244 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~  244 (366)
                      +++|+.|+++++.........+..+++|+.|++.++.+..+....+        ..+++|+.|++++| .++.++  .+.
T Consensus       152 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~l~~n-~l~~~~~~~~~  222 (285)
T 1ozn_A          152 LGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF--------RDLGRLMTLYLFAN-NLSALPTEALA  222 (285)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTT--------TTCTTCCEEECCSS-CCSCCCHHHHT
T ss_pred             CCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHc--------cCcccccEeeCCCC-cCCcCCHHHcc
Confidence            4568888888876532333357778899999998888877755444        46788999999998 677765  367


Q ss_pred             CCCCccEEEEEccCCcc
Q 040318          245 FAPNLKIIVIMHCDDLE  261 (366)
Q Consensus       245 ~l~~L~~L~L~~c~~~~  261 (366)
                      .+++|++|++++|+...
T Consensus       223 ~l~~L~~L~l~~N~~~c  239 (285)
T 1ozn_A          223 PLRALQYLRLNDNPWVC  239 (285)
T ss_dssp             TCTTCCEEECCSSCEEC
T ss_pred             cCcccCEEeccCCCccC
Confidence            88999999998876543

>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=99.84  E-value=1.6e-20  Score=168.80  Aligned_cols=202  Identities=15%  Similarity=0.124  Sum_probs=114.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc---CccccccccCCEEeccCCCCccCchhhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL---PSGISSLVSLQHLDVSYTDIRGLPHELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l---~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L   82 (366)
                      ++|++|++++|.+..++..+|..+++|++|++++|    .++.+   +..+..+++|++|++++|.+..+|..+..+++|
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L  103 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSN----GLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQL  103 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSS----CCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEETCTTC
T ss_pred             CCCCEEECCCCccCccCHhHhhccccCCEEECCCC----ccCcccCcccccccccccCEEECCCCccccChhhcCCCCCC
Confidence            46777777777777766665667777777777777    44433   344555677777777777766666666677777


Q ss_pred             CEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccc
Q 040318           83 RYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFL  161 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  161 (366)
                      ++|++++ +.+..++. ..+..+++|++|++.+|.+.             ...+..+..+++|+.|+++++.....    
T Consensus       104 ~~L~l~~-n~l~~~~~~~~~~~l~~L~~L~l~~n~l~-------------~~~~~~~~~l~~L~~L~l~~n~l~~~----  165 (306)
T 2z66_A          104 EHLDFQH-SNLKQMSEFSVFLSLRNLIYLDISHTHTR-------------VAFNGIFNGLSSLEVLKMAGNSFQEN----  165 (306)
T ss_dssp             CEEECTT-SEEESSTTTTTTTTCTTCCEEECTTSCCE-------------ECSTTTTTTCTTCCEEECTTCEEGGG----
T ss_pred             CEEECCC-CcccccccchhhhhccCCCEEECCCCcCC-------------ccchhhcccCcCCCEEECCCCccccc----
Confidence            7777776 55555543 23666777777777776541             11222344445555555543322110    


Q ss_pred             ccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc
Q 040318          162 KFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT  241 (366)
Q Consensus       162 ~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~  241 (366)
                                           .....+..+++|+.|+++++.+..+....+        ..+++|+.|++++| .++.++
T Consensus       166 ---------------------~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~~~  215 (306)
T 2z66_A          166 ---------------------FLPDIFTELRNLTFLDLSQCQLEQLSPTAF--------NSLSSLQVLNMSHN-NFFSLD  215 (306)
T ss_dssp             ---------------------EECSCCTTCTTCCEEECTTSCCCEECTTTT--------TTCTTCCEEECTTS-CCSBCC
T ss_pred             ---------------------cchhHHhhCcCCCEEECCCCCcCCcCHHHh--------cCCCCCCEEECCCC-ccCccC
Confidence                                 001133445566666666666655543333        24566666666666 444433


Q ss_pred             --cccCCCCccEEEEEccCC
Q 040318          242 --WLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       242 --~l~~l~~L~~L~L~~c~~  259 (366)
                        .+..+++|++|++++|..
T Consensus       216 ~~~~~~l~~L~~L~L~~N~l  235 (306)
T 2z66_A          216 TFPYKCLNSLQVLDYSLNHI  235 (306)
T ss_dssp             SGGGTTCTTCCEEECTTSCC
T ss_pred             hhhccCcccCCEeECCCCCC
Confidence              234555666666655543

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

Probab=99.83  E-value=1.6e-19  Score=176.39  Aligned_cols=254  Identities=19%  Similarity=0.090  Sum_probs=167.0

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      +++.|+++++++..+|..+ .  ++|++|++++|    .++.+|.   .+++|++|++++|.++.+|.   .+++|++|+
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~  107 (622)
T 3g06_A           41 GNAVLNVGESGLTTLPDCL-P--AHITTLVIPDN----NLTSLPA---LPPELRTLEVSGNQLTSLPV---LPPGLLELS  107 (622)
T ss_dssp             CCCEEECCSSCCSCCCSCC-C--TTCSEEEECSC----CCSCCCC---CCTTCCEEEECSCCCSCCCC---CCTTCCEEE
T ss_pred             CCcEEEecCCCcCccChhh-C--CCCcEEEecCC----CCCCCCC---cCCCCCEEEcCCCcCCcCCC---CCCCCCEEE
Confidence            5788899988888888763 2  78899999988    7777776   56888999999998888876   678889999


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..+|.    .+++|+.|++.+|.+...+                 ..+++|+.|+++++....++.      .
T Consensus       108 Ls~-N~l~~l~~----~l~~L~~L~L~~N~l~~lp-----------------~~l~~L~~L~Ls~N~l~~l~~------~  159 (622)
T 3g06_A          108 IFS-NPLTHLPA----LPSGLCKLWIFGNQLTSLP-----------------VLPPGLQELSVSDNQLASLPA------L  159 (622)
T ss_dssp             ECS-CCCCCCCC----CCTTCCEEECCSSCCSCCC-----------------CCCTTCCEEECCSSCCSCCCC------C
T ss_pred             CcC-CcCCCCCC----CCCCcCEEECCCCCCCcCC-----------------CCCCCCCEEECcCCcCCCcCC------c
Confidence            988 67777765    5678888888888763321                 123788888888776665443      2


Q ss_pred             cccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCC
Q 040318          167 LRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFA  246 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l  246 (366)
                      +.+|+.|++.++.....   . ..+++|+.|++++|.+..++.            .+++|+.|++.+| .++.++.  .+
T Consensus       160 ~~~L~~L~L~~N~l~~l---~-~~~~~L~~L~Ls~N~l~~l~~------------~~~~L~~L~L~~N-~l~~l~~--~~  220 (622)
T 3g06_A          160 PSELCKLWAYNNQLTSL---P-MLPSGLQELSVSDNQLASLPT------------LPSELYKLWAYNN-RLTSLPA--LP  220 (622)
T ss_dssp             CTTCCEEECCSSCCSCC---C-CCCTTCCEEECCSSCCSCCCC------------CCTTCCEEECCSS-CCSSCCC--CC
T ss_pred             cCCCCEEECCCCCCCCC---c-ccCCCCcEEECCCCCCCCCCC------------ccchhhEEECcCC-cccccCC--CC
Confidence            34577777777665222   1 445777888887777765432            3466777777766 5555543  24


Q ss_pred             CCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCCCC
Q 040318          247 PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLN  326 (366)
Q Consensus       247 ~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~  326 (366)
                      ++|+.|++++|.. ..+.               ..+++|+.|+++++ .++.++.   .+++|+.|++++| +++.+|..
T Consensus       221 ~~L~~L~Ls~N~L-~~lp---------------~~l~~L~~L~Ls~N-~L~~lp~---~~~~L~~L~Ls~N-~L~~lp~~  279 (622)
T 3g06_A          221 SGLKELIVSGNRL-TSLP---------------VLPSELKELMVSGN-RLTSLPM---LPSGLLSLSVYRN-QLTRLPES  279 (622)
T ss_dssp             TTCCEEECCSSCC-SCCC---------------CCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCCSCCGG
T ss_pred             CCCCEEEccCCcc-CcCC---------------CCCCcCcEEECCCC-CCCcCCc---ccccCcEEeCCCC-CCCcCCHH
Confidence            6677777766532 2110               23466666666664 3444433   3566666666665 56666655


Q ss_pred             CCCCCcceeEEEcchh
Q 040318          327 SSSTKLRNIVISGGKD  342 (366)
Q Consensus       327 ~~~~~~~~~~~~~~~~  342 (366)
                      +..+ ..+..++...+
T Consensus       280 l~~l-~~L~~L~L~~N  294 (622)
T 3g06_A          280 LIHL-SSETTVNLEGN  294 (622)
T ss_dssp             GGGS-CTTCEEECCSC
T ss_pred             Hhhc-cccCEEEecCC
Confidence            4444 45555554443

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

Probab=99.83  E-value=1.1e-20  Score=170.29  Aligned_cols=225  Identities=15%  Similarity=0.141  Sum_probs=173.0

Q ss_pred             CCCCcCEEEccC-CCCCc-cchhhhhcCCcccEEECCCCCCCCCcC-ccCccccccccCCEEeccCCCCc-cCchhhhcC
Q 040318            4 RYSNIPSILELS-SNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLT-ELPSGISSLVSLQHLDVSYTDIR-GLPHELTAL   79 (366)
Q Consensus         4 ~~~~L~~L~l~~-~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l   79 (366)
                      ++++|++|++++ +.+.. +|.. +..+++|++|++++|    .+. .+|..+..+++|++|++++|.++ .+|..+..+
T Consensus        74 ~l~~L~~L~L~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n----~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l  148 (313)
T 1ogq_A           74 NLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHT----NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             GCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEE----CCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             CCCCCCeeeCCCCCcccccCChh-HhcCCCCCEEECcCC----eeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcC
Confidence            689999999995 88874 6666 899999999999999    666 67888999999999999999988 788999999


Q ss_pred             ccCCEeeccccccCC-CcChhhhcCCC-CCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           80 LNLRYLNLERTYHLS-RFPPELICSFS-KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~-~l~~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      ++|++|++++ +.+. .+|.. +.+++ +|++|++.+|.+             ....+..+..+. |+.|+++++.....
T Consensus       149 ~~L~~L~L~~-N~l~~~~p~~-l~~l~~~L~~L~L~~N~l-------------~~~~~~~~~~l~-L~~L~Ls~N~l~~~  212 (313)
T 1ogq_A          149 PNLVGITFDG-NRISGAIPDS-YGSFSKLFTSMTISRNRL-------------TGKIPPTFANLN-LAFVDLSRNMLEGD  212 (313)
T ss_dssp             TTCCEEECCS-SCCEEECCGG-GGCCCTTCCEEECCSSEE-------------EEECCGGGGGCC-CSEEECCSSEEEEC
T ss_pred             CCCCeEECcC-CcccCcCCHH-HhhhhhcCcEEECcCCee-------------eccCChHHhCCc-ccEEECcCCcccCc
Confidence            9999999999 6665 67876 88887 999999999976             122334455554 77777765443221


Q ss_pred             ccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCC
Q 040318          158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRV  237 (366)
Q Consensus       158 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l  237 (366)
                                                ....+..+++|+.|+++++.+...... .        ..+++|++|++++| .+
T Consensus       213 --------------------------~~~~~~~l~~L~~L~L~~N~l~~~~~~-~--------~~l~~L~~L~Ls~N-~l  256 (313)
T 1ogq_A          213 --------------------------ASVLFGSDKNTQKIHLAKNSLAFDLGK-V--------GLSKNLNGLDLRNN-RI  256 (313)
T ss_dssp             --------------------------CGGGCCTTSCCSEEECCSSEECCBGGG-C--------CCCTTCCEEECCSS-CC
T ss_pred             --------------------------CCHHHhcCCCCCEEECCCCceeeecCc-c--------cccCCCCEEECcCC-cc
Confidence                                      112455678888899888777533221 1        36789999999999 56


Q ss_pred             c-ccc-cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccc
Q 040318          238 K-DLT-WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKS  298 (366)
Q Consensus       238 ~-~l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  298 (366)
                      + .++ .+..+++|++|++++|.....+.             ....+++|+.+++++.+.+..
T Consensus       257 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip-------------~~~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          257 YGTLPQGLTQLKFLHSLNVSFNNLCGEIP-------------QGGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             EECCCGGGGGCTTCCEEECCSSEEEEECC-------------CSTTGGGSCGGGTCSSSEEES
T ss_pred             cCcCChHHhcCcCCCEEECcCCcccccCC-------------CCccccccChHHhcCCCCccC
Confidence            6 344 57789999999999987554443             346789999999998775543

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

Probab=99.83  E-value=9.3e-20  Score=172.18  Aligned_cols=240  Identities=15%  Similarity=0.162  Sum_probs=187.1

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCc-hhhhcCccCCEe
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYL   85 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~L   85 (366)
                      .+.++..+.++..+|..+   .+++++|++++|    .++.++ ..+..+++|++|++++|.++.++ ..+.++++|++|
T Consensus        45 ~~~v~c~~~~l~~iP~~~---~~~l~~L~L~~n----~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L  117 (440)
T 3zyj_A           45 FSKVICVRKNLREVPDGI---STNTRLLNLHEN----QIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTL  117 (440)
T ss_dssp             SCEEECCSCCCSSCCSCC---CTTCSEEECCSC----CCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEE
T ss_pred             CCEEEeCCCCcCcCCCCC---CCCCcEEEccCC----cCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEE
Confidence            467777888888898863   378999999999    778775 56888999999999999998665 578899999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccc-cccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSS-RGVRNFLKFP  164 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~~~  164 (366)
                      ++++ +.+..++.+.+..+++|++|++++|.+..             .....+..+++|+.|+++.+.. ..++.  ...
T Consensus       118 ~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~i~~-------------~~~~~~~~l~~L~~L~l~~~~~l~~i~~--~~~  181 (440)
T 3zyj_A          118 ELFD-NRLTTIPNGAFVYLSKLKELWLRNNPIES-------------IPSYAFNRIPSLRRLDLGELKRLSYISE--GAF  181 (440)
T ss_dssp             ECCS-SCCSSCCTTTSCSCSSCCEEECCSCCCCE-------------ECTTTTTTCTTCCEEECCCCTTCCEECT--TTT
T ss_pred             ECCC-CcCCeeCHhHhhccccCceeeCCCCcccc-------------cCHHHhhhCcccCEeCCCCCCCcceeCc--chh
Confidence            9999 78888887668999999999999998722             2234577889999999987443 22221  112


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--c
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--W  242 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~  242 (366)
                      ..+++|+.|+++++..  .....+..+++|+.|++++|++..+....+        ..+++|+.|+++++ .++.+.  .
T Consensus       182 ~~l~~L~~L~L~~n~l--~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~--------~~l~~L~~L~L~~n-~l~~~~~~~  250 (440)
T 3zyj_A          182 EGLSNLRYLNLAMCNL--REIPNLTPLIKLDELDLSGNHLSAIRPGSF--------QGLMHLQKLWMIQS-QIQVIERNA  250 (440)
T ss_dssp             TTCSSCCEEECTTSCC--SSCCCCTTCSSCCEEECTTSCCCEECTTTT--------TTCTTCCEEECTTC-CCCEECTTS
T ss_pred             hcccccCeecCCCCcC--ccccccCCCcccCEEECCCCccCccChhhh--------ccCccCCEEECCCC-ceeEEChhh
Confidence            3356799999999877  333367888999999999999988866555        47899999999999 677754  4


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +..+++|++|+|++|........            .+..+++|+.|++++.
T Consensus       251 ~~~l~~L~~L~L~~N~l~~~~~~------------~~~~l~~L~~L~L~~N  289 (440)
T 3zyj_A          251 FDNLQSLVEINLAHNNLTLLPHD------------LFTPLHHLERIHLHHN  289 (440)
T ss_dssp             STTCTTCCEEECTTSCCCCCCTT------------TTSSCTTCCEEECCSS
T ss_pred             hcCCCCCCEEECCCCCCCccChh------------HhccccCCCEEEcCCC
Confidence            67899999999999865432221            4567899999999853

>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=99.82  E-value=1.1e-19  Score=172.16  Aligned_cols=240  Identities=15%  Similarity=0.119  Sum_probs=186.5

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCc-hhhhcCccCCEe
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYL   85 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~L   85 (366)
                      .+.++..+.++..+|..+   .+++++|++++|    .++.+ +..+.++++|++|++++|.++.++ ..+.++++|++|
T Consensus        56 ~~~v~c~~~~l~~iP~~~---~~~l~~L~L~~n----~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L  128 (452)
T 3zyi_A           56 FSKVVCTRRGLSEVPQGI---PSNTRYLNLMEN----NIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTL  128 (452)
T ss_dssp             SCEEECCSSCCSSCCSCC---CTTCSEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CcEEEECCCCcCccCCCC---CCCccEEECcCC----cCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEE
Confidence            467777888888888762   378999999999    77776 556889999999999999998664 678899999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccc-cccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSS-RGVRNFLKFP  164 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~~~  164 (366)
                      +|++ +.+..++.+.+..+++|++|++++|.+..             .....+..+++|+.|+++.+.. ..++.  ...
T Consensus       129 ~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~l~~-------------~~~~~~~~l~~L~~L~l~~~~~l~~i~~--~~~  192 (452)
T 3zyi_A          129 ELFD-NWLTVIPSGAFEYLSKLRELWLRNNPIES-------------IPSYAFNRVPSLMRLDLGELKKLEYISE--GAF  192 (452)
T ss_dssp             ECCS-SCCSBCCTTTSSSCTTCCEEECCSCCCCE-------------ECTTTTTTCTTCCEEECCCCTTCCEECT--TTT
T ss_pred             ECCC-CcCCccChhhhcccCCCCEEECCCCCcce-------------eCHhHHhcCCcccEEeCCCCCCccccCh--hhc
Confidence            9999 78888887768899999999999998722             2234577889999999987433 22221  112


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--c
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--W  242 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~  242 (366)
                      ..+++|+.|+++++..  .....+..+++|+.|++++|.+..+....+        ..+++|+.|++++| .++.+.  .
T Consensus       193 ~~l~~L~~L~L~~n~l--~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~--------~~l~~L~~L~L~~n-~l~~~~~~~  261 (452)
T 3zyi_A          193 EGLFNLKYLNLGMCNI--KDMPNLTPLVGLEELEMSGNHFPEIRPGSF--------HGLSSLKKLWVMNS-QVSLIERNA  261 (452)
T ss_dssp             TTCTTCCEEECTTSCC--SSCCCCTTCTTCCEEECTTSCCSEECGGGG--------TTCTTCCEEECTTS-CCCEECTTT
T ss_pred             cCCCCCCEEECCCCcc--cccccccccccccEEECcCCcCcccCcccc--------cCccCCCEEEeCCC-cCceECHHH
Confidence            3356799999999877  333367788999999999999988866555        47899999999999 677653  4


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +..+++|+.|+|++|.......            ..+..+++|+.|+++++
T Consensus       262 ~~~l~~L~~L~L~~N~l~~~~~------------~~~~~l~~L~~L~L~~N  300 (452)
T 3zyi_A          262 FDGLASLVELNLAHNNLSSLPH------------DLFTPLRYLVELHLHHN  300 (452)
T ss_dssp             TTTCTTCCEEECCSSCCSCCCT------------TSSTTCTTCCEEECCSS
T ss_pred             hcCCCCCCEEECCCCcCCccCh------------HHhccccCCCEEEccCC
Confidence            6789999999999986443221            14567889999999864

>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=99.82  E-value=4.4e-19  Score=173.37  Aligned_cols=235  Identities=18%  Similarity=0.135  Sum_probs=174.4

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      ++|+.|++++|.+..+|.    .+++|++|++++|    .++.+|.   .+++|++|++++|.++.+|.   .+.+|+.|
T Consensus        61 ~~L~~L~L~~N~l~~lp~----~l~~L~~L~Ls~N----~l~~lp~---~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L  126 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA----LPPELRTLEVSGN----QLTSLPV---LPPGLLELSIFSNPLTHLPA---LPSGLCKL  126 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC----CCTTCCEEEECSC----CCSCCCC---CCTTCCEEEECSCCCCCCCC---CCTTCCEE
T ss_pred             CCCcEEEecCCCCCCCCC----cCCCCCEEEcCCC----cCCcCCC---CCCCCCEEECcCCcCCCCCC---CCCCcCEE
Confidence            689999999999998887    4799999999999    7888887   67999999999999998876   67899999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..+|..    +++|++|++++|.+...+                 ..+.+|+.|.++++....++      .
T Consensus       127 ~L~~-N~l~~lp~~----l~~L~~L~Ls~N~l~~l~-----------------~~~~~L~~L~L~~N~l~~l~------~  178 (622)
T 3g06_A          127 WIFG-NQLTSLPVL----PPGLQELSVSDNQLASLP-----------------ALPSELCKLWAYNNQLTSLP------M  178 (622)
T ss_dssp             ECCS-SCCSCCCCC----CTTCCEEECCSSCCSCCC-----------------CCCTTCCEEECCSSCCSCCC------C
T ss_pred             ECCC-CCCCcCCCC----CCCCCEEECcCCcCCCcC-----------------CccCCCCEEECCCCCCCCCc------c
Confidence            9999 778888763    489999999999773321                 13467888888877766654      2


Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccC
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAF  245 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~  245 (366)
                      .+++|+.|+++++.......    .+++|+.|++.+|.+..+..            .+++|+.|++++| .++.++  ..
T Consensus       179 ~~~~L~~L~Ls~N~l~~l~~----~~~~L~~L~L~~N~l~~l~~------------~~~~L~~L~Ls~N-~L~~lp--~~  239 (622)
T 3g06_A          179 LPSGLQELSVSDNQLASLPT----LPSELYKLWAYNNRLTSLPA------------LPSGLKELIVSGN-RLTSLP--VL  239 (622)
T ss_dssp             CCTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSSCCC------------CCTTCCEEECCSS-CCSCCC--CC
T ss_pred             cCCCCcEEECCCCCCCCCCC----ccchhhEEECcCCcccccCC------------CCCCCCEEEccCC-ccCcCC--CC
Confidence            34568888888776522111    24678888888877765542            4577888888887 677666  45


Q ss_pred             CCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCC
Q 040318          246 APNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCP  318 (366)
Q Consensus       246 l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~  318 (366)
                      +++|++|++++|.. +.+.             .  .+++|+.|+++++ .++.++.....+++|+.|++++++
T Consensus       240 l~~L~~L~Ls~N~L-~~lp-------------~--~~~~L~~L~Ls~N-~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          240 PSELKELMVSGNRL-TSLP-------------M--LPSGLLSLSVYRN-QLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CTTCCEEECCSSCC-SCCC-------------C--CCTTCCEEECCSS-CCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             CCcCcEEECCCCCC-CcCC-------------c--ccccCcEEeCCCC-CCCcCCHHHhhccccCEEEecCCC
Confidence            67888888887743 3221             1  4677888888775 455665556667788888887764

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

Probab=99.81  E-value=2.1e-20  Score=178.57  Aligned_cols=240  Identities=12%  Similarity=0.045  Sum_probs=147.1

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|+.|++++|.+..+++..|..+++|++|++++|    .++..++ +..+++|++|++++|.++.+|.    .++|+
T Consensus        32 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N----~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~~----~~~L~  102 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSN----VLYETLD-LESLSTLRTLDLNNNYVQELLV----GPSIE  102 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTS----CCEEEEE-CTTCTTCCEEECCSSEEEEEEE----CTTCC
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCC----CCCCCcc-cccCCCCCEEEecCCcCCCCCC----CCCcC
Confidence            3457888888888887776555778888888888888    5665544 6777888888888887765543    37788


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++..   .+++|++|++++|.+.             ...+..+..+++|+.|+++++....... ...
T Consensus       103 ~L~L~~-N~l~~~~~~---~l~~L~~L~L~~N~l~-------------~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-~~l  164 (487)
T 3oja_A          103 TLHAAN-NNISRVSCS---RGQGKKNIYLANNKIT-------------MLRDLDEGCRSRVQYLDLKLNEIDTVNF-AEL  164 (487)
T ss_dssp             EEECCS-SCCCCEEEC---CCSSCEEEECCSSCCC-------------SGGGBCGGGGSSEEEEECTTSCCCEEEG-GGG
T ss_pred             EEECcC-CcCCCCCcc---ccCCCCEEECCCCCCC-------------CCCchhhcCCCCCCEEECCCCCCCCcCh-HHH
Confidence            888887 566665542   4677888888887662             1223345566777777777666554321 111


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-c
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-W  242 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~  242 (366)
                      ...+++|+.|+++++..  ........+++|+.|++++|.+..++.. +        ..+++|+.|++++| .++.++ .
T Consensus       165 ~~~l~~L~~L~Ls~N~l--~~~~~~~~l~~L~~L~Ls~N~l~~~~~~-~--------~~l~~L~~L~Ls~N-~l~~lp~~  232 (487)
T 3oja_A          165 AASSDTLEHLNLQYNFI--YDVKGQVVFAKLKTLDLSSNKLAFMGPE-F--------QSAAGVTWISLRNN-KLVLIEKA  232 (487)
T ss_dssp             GGGTTTCCEEECTTSCC--CEEECCCCCTTCCEEECCSSCCCEECGG-G--------GGGTTCSEEECTTS-CCCEECTT
T ss_pred             hhhCCcccEEecCCCcc--ccccccccCCCCCEEECCCCCCCCCCHh-H--------cCCCCccEEEecCC-cCcccchh
Confidence            11234577777776665  2222333466777777777666655432 1        24566777777776 455554 3


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +..+++|+.|++++|.......+           ..+..++.|+.+.+..+
T Consensus       233 l~~l~~L~~L~l~~N~l~c~~~~-----------~~~~~l~~L~~l~~~~~  272 (487)
T 3oja_A          233 LRFSQNLEHFDLRGNGFHCGTLR-----------DFFSKNQRVQTVAKQTV  272 (487)
T ss_dssp             CCCCTTCCEEECTTCCBCHHHHH-----------HHHTTCHHHHHHHHHHH
T ss_pred             hccCCCCCEEEcCCCCCcCcchH-----------HHHHhCCCCcEEecccc
Confidence            45566777777766654422111           13445566666666533

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

Probab=99.81  E-value=7.1e-19  Score=166.49  Aligned_cols=264  Identities=17%  Similarity=0.159  Sum_probs=149.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      ++|++|++++|.+..+| . +..+++|++|++++|    .++.+|..+   .+|++|++++|.++.+| .++.+++|++|
T Consensus       131 ~~L~~L~L~~n~l~~lp-~-~~~l~~L~~L~l~~N----~l~~lp~~~---~~L~~L~L~~n~l~~l~-~~~~l~~L~~L  200 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLP-E-LQNSSFLKIIDVDNN----SLKKLPDLP---PSLEFIAAGNNQLEELP-ELQNLPFLTAI  200 (454)
T ss_dssp             TTCCEEECCSSCCSSCC-C-CTTCTTCCEEECCSS----CCSCCCCCC---TTCCEEECCSSCCSSCC-CCTTCTTCCEE
T ss_pred             CCCCEEECcCCCCCCCc-c-cCCCCCCCEEECCCC----cCcccCCCc---ccccEEECcCCcCCcCc-cccCCCCCCEE
Confidence            68999999999999888 3 899999999999999    777777643   58999999999888887 58889999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..+|..    .++|++|++.+|.+...              + .+..+++|+.|+++++....++..     
T Consensus       201 ~l~~-N~l~~l~~~----~~~L~~L~l~~n~l~~l--------------p-~~~~l~~L~~L~l~~N~l~~l~~~-----  255 (454)
T 1jl5_A          201 YADN-NSLKKLPDL----PLSLESIVAGNNILEEL--------------P-ELQNLPFLTTIYADNNLLKTLPDL-----  255 (454)
T ss_dssp             ECCS-SCCSSCCCC----CTTCCEEECCSSCCSSC--------------C-CCTTCTTCCEEECCSSCCSSCCSC-----
T ss_pred             ECCC-CcCCcCCCC----cCcccEEECcCCcCCcc--------------c-ccCCCCCCCEEECCCCcCCccccc-----
Confidence            9988 667666652    25888888888876221              1 356778888888887766554432     


Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeecccc-------Cc--cccccccCCCCCcEEeEecCCC
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCT-------GE--VQKVLQCGFRSLHLASIAFCSR  236 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~-------~~--~~~~p~~~~~~L~~L~l~~~~~  236 (366)
                       ..+|+.|+++++.......    .+++|+.|++++|.++.++....       ..  -..++ ...++|+.|+++++ .
T Consensus       256 -~~~L~~L~l~~N~l~~l~~----~~~~L~~L~ls~N~l~~l~~~~~~L~~L~l~~N~l~~i~-~~~~~L~~L~Ls~N-~  328 (454)
T 1jl5_A          256 -PPSLEALNVRDNYLTDLPE----LPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLC-DLPPSLEELNVSNN-K  328 (454)
T ss_dssp             -CTTCCEEECCSSCCSCCCC----CCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEEC-CCCTTCCEEECCSS-C
T ss_pred             -ccccCEEECCCCcccccCc----ccCcCCEEECcCCccCcccCcCCcCCEEECcCCcCCccc-CCcCcCCEEECCCC-c
Confidence             2457777777766522111    12566777776666554321000       00  00000 11135666666655 3


Q ss_pred             CcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccc--cccCCCcCC--------
Q 040318          237 VKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLK--SIYQGALPL--------  306 (366)
Q Consensus       237 l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~--~~~~~~~~~--------  306 (366)
                      ++.++.  .+++|++|++++|... .+ +            .  .+++|++|+++++.-..  .++.....+        
T Consensus       329 l~~lp~--~~~~L~~L~L~~N~l~-~l-p------------~--~l~~L~~L~L~~N~l~~l~~ip~~l~~L~~n~~~~~  390 (454)
T 1jl5_A          329 LIELPA--LPPRLERLIASFNHLA-EV-P------------E--LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLAE  390 (454)
T ss_dssp             CSCCCC--CCTTCCEEECCSSCCS-CC-C------------C--CCTTCCEEECCSSCCSSCCCCCTTCCEEECCC----
T ss_pred             cccccc--cCCcCCEEECCCCccc-cc-c------------c--hhhhccEEECCCCCCCcCCCChHHHHhhhhcccccc
Confidence            444432  2456666666655422 21 1            1  35677777776643222  233222222        


Q ss_pred             -----CCccEEeccCCCCCC---CCCCCCCCC
Q 040318          307 -----PQLKEIRVTQCPKLK---TLPLNSSST  330 (366)
Q Consensus       307 -----~~L~~L~l~~c~~l~---~lp~~~~~~  330 (366)
                           ++|+.|++++++ ++   .+|..+..+
T Consensus       391 i~~~~~~L~~L~ls~N~-l~~~~~iP~sl~~L  421 (454)
T 1jl5_A          391 VPELPQNLKQLHVETNP-LREFPDIPESVEDL  421 (454)
T ss_dssp             --------------------------------
T ss_pred             cccccCcCCEEECCCCc-CCccccchhhHhhe
Confidence                 667777777754 33   455444444

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

Probab=99.81  E-value=7.1e-20  Score=165.43  Aligned_cols=263  Identities=16%  Similarity=0.090  Sum_probs=187.1

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      ++..++..+.+...+...+..+++|++|++++|    .++.++ ..+..+++|++|++++|.++..+. +..+++|++|+
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~   86 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGN----PLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLD   86 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTS----CCCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEE
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCC----ccCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEE
Confidence            445556666666666666788889999999999    778775 468889999999999999886654 88999999999


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..++     ..++|++|++.+|.+....                ...+++|+.|+++++.....+...  ...
T Consensus        87 Ls~-n~l~~l~-----~~~~L~~L~l~~n~l~~~~----------------~~~~~~L~~L~l~~N~l~~~~~~~--~~~  142 (317)
T 3o53_A           87 LNN-NYVQELL-----VGPSIETLHAANNNISRVS----------------CSRGQGKKNIYLANNKITMLRDLD--EGC  142 (317)
T ss_dssp             CCS-SEEEEEE-----ECTTCCEEECCSSCCSEEE----------------ECCCSSCEEEECCSSCCCSGGGBC--TGG
T ss_pred             CcC-Ccccccc-----CCCCcCEEECCCCccCCcC----------------ccccCCCCEEECCCCCCCCccchh--hhc
Confidence            999 5666544     3489999999999773221                123578899999887776653321  123


Q ss_pred             cccccEEEEeccCCCCcCccch-hhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-ccc
Q 040318          167 LRITQALSISDCEIPLLNVSHL-AYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WLA  244 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l-~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l~  244 (366)
                      +++|+.|+++++.........+ ..+++|+.|++++|.++.+...          ..+++|+.|++++| .++.++ .+.
T Consensus       143 l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~----------~~l~~L~~L~Ls~N-~l~~l~~~~~  211 (317)
T 3o53_A          143 RSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQ----------VVFAKLKTLDLSSN-KLAFMGPEFQ  211 (317)
T ss_dssp             GSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECC----------CCCTTCCEEECCSS-CCCEECGGGG
T ss_pred             cCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCcccccc----------cccccCCEEECCCC-cCCcchhhhc
Confidence            5668888888877632222233 4678888888888888776431          24788888888888 677654 466


Q ss_pred             CCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccc-ccccCCCcCCCCccEEeccCCCCCCCC
Q 040318          245 FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENL-KSIYQGALPLPQLKEIRVTQCPKLKTL  323 (366)
Q Consensus       245 ~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~L~~L~l~~c~~l~~l  323 (366)
                      .+++|++|++++|... .+..            .+..+++|+.|++++++-. ..+......+++|+.+++.+++.++..
T Consensus       212 ~l~~L~~L~L~~N~l~-~l~~------------~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~~~~l~~~  278 (317)
T 3o53_A          212 SAAGVTWISLRNNKLV-LIEK------------ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQ  278 (317)
T ss_dssp             GGTTCSEEECTTSCCC-EECT------------TCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHHHHHHHSS
T ss_pred             ccCcccEEECcCCccc-chhh------------HhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCCchhccCC
Confidence            7888888888887543 3322            5567788888888876433 233333445778888888877776654

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

Probab=99.81  E-value=3.8e-19  Score=158.15  Aligned_cols=196  Identities=17%  Similarity=0.156  Sum_probs=132.7

Q ss_pred             cEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCc-hhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEE
Q 040318           33 TCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLR  111 (366)
Q Consensus        33 ~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~  111 (366)
                      .+++.+++    .++.+|..+  .++|++|++++|.++.++ ..+..+++|++|++++ +.+..++...+.++++|++|+
T Consensus        14 ~~~~c~~~----~l~~ip~~~--~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~   86 (285)
T 1ozn_A           14 VTTSCPQQ----GLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHS-NVLARIDAAAFTGLALLEQLD   86 (285)
T ss_dssp             CEEECCSS----CCSSCCTTC--CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEE
T ss_pred             eEEEcCcC----CcccCCcCC--CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCC-CccceeCHhhcCCccCCCEEe
Confidence            67888888    788888654  479999999999999776 4689999999999999 678877544489999999999


Q ss_pred             ccCCC-CCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhh
Q 040318          112 MLESG-ADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAY  190 (366)
Q Consensus       112 l~~~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~  190 (366)
                      +++|. +..             ..+..+..+++|+.|+++++.......  .....+++|++|+++++.........+..
T Consensus        87 l~~n~~l~~-------------~~~~~~~~l~~L~~L~l~~n~l~~~~~--~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  151 (285)
T 1ozn_A           87 LSDNAQLRS-------------VDPATFHGLGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFRD  151 (285)
T ss_dssp             CCSCTTCCC-------------CCTTTTTTCTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTT
T ss_pred             CCCCCCccc-------------cCHHHhcCCcCCCEEECCCCcCCEECH--hHhhCCcCCCEEECCCCcccccCHhHhcc
Confidence            99996 421             224557788999999998776654321  11122345666666666552222224556


Q ss_pred             hcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccc--ccccCCCCccEEEEEccCC
Q 040318          191 MEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDL--TWLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       191 ~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l--~~l~~l~~L~~L~L~~c~~  259 (366)
                      +++|+.|++++++++.+....+        ..+++|+.|++++| .++.+  ..+..+++|+.|++++|..
T Consensus       152 l~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~l  213 (285)
T 1ozn_A          152 LGNLTHLFLHGNRISSVPERAF--------RGLHSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLFANNL  213 (285)
T ss_dssp             CTTCCEEECCSSCCCEECTTTT--------TTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCccEEECCCCcccccCHHHh--------cCccccCEEECCCC-cccccCHhHccCcccccEeeCCCCcC
Confidence            6666666666666665554333        24566666666666 44443  2344566666666666543

>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=99.80  E-value=1.8e-18  Score=163.79  Aligned_cols=256  Identities=16%  Similarity=0.167  Sum_probs=170.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      ++|+.|++++|.+..++..    .++|++|++++|    .++.+| .++.+++|++|++++|.++.+|..+   .+|++|
T Consensus       111 ~~L~~L~l~~n~l~~l~~~----~~~L~~L~L~~n----~l~~lp-~~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L  178 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL----PPLLEYLGVSNN----QLEKLP-ELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFI  178 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC----CTTCCEEECCSS----CCSSCC-CCTTCTTCCEEECCSSCCSCCCCCC---TTCCEE
T ss_pred             CCCcEEECCCCccCcccCC----CCCCCEEECcCC----CCCCCc-ccCCCCCCCEEECCCCcCcccCCCc---ccccEE
Confidence            5677777777777665542    279999999999    778888 4899999999999999998887644   599999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..+|.  +.++++|++|++.+|.+...+                 ....+|+.|+++++....++.+    .
T Consensus       179 ~L~~-n~l~~l~~--~~~l~~L~~L~l~~N~l~~l~-----------------~~~~~L~~L~l~~n~l~~lp~~----~  234 (454)
T 1jl5_A          179 AAGN-NQLEELPE--LQNLPFLTAIYADNNSLKKLP-----------------DLPLSLESIVAGNNILEELPEL----Q  234 (454)
T ss_dssp             ECCS-SCCSSCCC--CTTCTTCCEEECCSSCCSSCC-----------------CCCTTCCEEECCSSCCSSCCCC----T
T ss_pred             ECcC-CcCCcCcc--ccCCCCCCEEECCCCcCCcCC-----------------CCcCcccEEECcCCcCCccccc----C
Confidence            9999 68888884  899999999999999773221                 1125899999998877766543    3


Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccC
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAF  245 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~  245 (366)
                      .+++|+.|+++++...+...    .+++|+.|+++++.++.++.            .+++|+.|++++| .++.++.+  
T Consensus       235 ~l~~L~~L~l~~N~l~~l~~----~~~~L~~L~l~~N~l~~l~~------------~~~~L~~L~ls~N-~l~~l~~~--  295 (454)
T 1jl5_A          235 NLPFLTTIYADNNLLKTLPD----LPPSLEALNVRDNYLTDLPE------------LPQSLTFLDVSEN-IFSGLSEL--  295 (454)
T ss_dssp             TCTTCCEEECCSSCCSSCCS----CCTTCCEEECCSSCCSCCCC------------CCTTCCEEECCSS-CCSEESCC--
T ss_pred             CCCCCCEEECCCCcCCcccc----cccccCEEECCCCcccccCc------------ccCcCCEEECcCC-ccCcccCc--
Confidence            45679999999987632221    24789999999988876543            2456666666666 34443321  


Q ss_pred             CCCccEEEEEccCCccccccc-cccccc----ccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCC
Q 040318          246 APNLKIIVIMHCDDLEEIISV-EKLNQL----SDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKL  320 (366)
Q Consensus       246 l~~L~~L~L~~c~~~~~~~~~-~~~~~~----~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l  320 (366)
                      .++|++|++++|.... +... .....+    ..+...-..+++|++|+++++ .++.++.   .+++|+.|+++++ ++
T Consensus       296 ~~~L~~L~l~~N~l~~-i~~~~~~L~~L~Ls~N~l~~lp~~~~~L~~L~L~~N-~l~~lp~---~l~~L~~L~L~~N-~l  369 (454)
T 1jl5_A          296 PPNLYYLNASSNEIRS-LCDLPPSLEELNVSNNKLIELPALPPRLERLIASFN-HLAEVPE---LPQNLKQLHVEYN-PL  369 (454)
T ss_dssp             CTTCCEEECCSSCCSE-ECCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CC
T ss_pred             CCcCCEEECcCCcCCc-ccCCcCcCCEEECCCCccccccccCCcCCEEECCCC-ccccccc---hhhhccEEECCCC-CC
Confidence            1345555554443221 0000 000000    000001112578888888776 4444443   4678888888876 44


Q ss_pred             CC
Q 040318          321 KT  322 (366)
Q Consensus       321 ~~  322 (366)
                      +.
T Consensus       370 ~~  371 (454)
T 1jl5_A          370 RE  371 (454)
T ss_dssp             SS
T ss_pred             Cc
Confidence            44

>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=99.80  E-value=1.1e-18  Score=172.04  Aligned_cols=84  Identities=15%  Similarity=0.212  Sum_probs=63.3

Q ss_pred             cCCCCCcEEeEecCCCCcccc--cccCCCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccc
Q 040318          221 CGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKS  298 (366)
Q Consensus       221 ~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~  298 (366)
                      ..+++|+.|++++| .++.++  .+..+++|++|+|++|....-..            ..+..+++|++|+++++. +..
T Consensus       491 ~~l~~L~~L~Ls~N-~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~------------~~~~~l~~L~~L~Ls~N~-l~~  556 (635)
T 4g8a_A          491 TELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHNNFFSLDT------------FPYKCLNSLQVLDYSLNH-IMT  556 (635)
T ss_dssp             TTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSCCCBCCC------------GGGTTCTTCCEEECTTSC-CCB
T ss_pred             hhccccCEEECCCC-ccCCcChHHHcCCCCCCEEECCCCcCCCCCh------------hHHhCCCCCCEEECCCCc-CCC
Confidence            56789999999999 788864  46789999999999986433222            156788999999999864 444


Q ss_pred             cc-CCCcCC-CCccEEeccCCC
Q 040318          299 IY-QGALPL-PQLKEIRVTQCP  318 (366)
Q Consensus       299 ~~-~~~~~~-~~L~~L~l~~c~  318 (366)
                      +. .....+ ++|+.|+++++|
T Consensus       557 ~~~~~l~~l~~~L~~L~L~~Np  578 (635)
T 4g8a_A          557 SKKQELQHFPSSLAFLNLTQND  578 (635)
T ss_dssp             CCSSCTTCCCTTCCEEECTTCC
T ss_pred             CCHHHHHhhhCcCCEEEeeCCC
Confidence            43 334456 589999998754

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

Probab=99.79  E-value=6.2e-20  Score=165.44  Aligned_cols=240  Identities=14%  Similarity=0.119  Sum_probs=112.3

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCc--cCcccc-------ccccCCEEeccCCCCc-cCchhh
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTE--LPSGIS-------SLVSLQHLDVSYTDIR-GLPHEL   76 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~--l~~~~~-------~l~~L~~L~l~~~~i~-~l~~~i   76 (366)
                      +|+.|++++|.+ .+|..+...   |++|++++|    .+..  +|..+.       .+++|++|++++|+++ .+|..+
T Consensus        44 ~L~~l~l~~n~l-~~p~~~~~~---L~~L~L~~n----~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~  115 (312)
T 1wwl_A           44 SLEYLLKRVDTE-ADLGQFTDI---IKSLSLKRL----TVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPL  115 (312)
T ss_dssp             ECTTHHHHCCTT-CCCHHHHHH---HHHCCCCEE----EEEEEECBHHHHHHHHHHHTTSCCCEEEEEEEBCBSCCCCCS
T ss_pred             CceeEeeccccc-ccHHHHHHH---Hhhcccccc----cccCCCcCHHHHHHHHHhcCcCCccEEEccCCcccchhHHHH
Confidence            345555555555 445442221   455555555    3322  333222       3455555555555544 344433


Q ss_pred             --hcCccCCEeeccccccCCCcChhhhcCC-----CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEE
Q 040318           77 --TALLNLRYLNLERTYHLSRFPPELICSF-----SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISF  149 (366)
Q Consensus        77 --~~l~~L~~L~L~~c~~~~~l~~~~l~~l-----~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  149 (366)
                        ..+++|++|++++ +.+..+|.. +..+     ++|++|++++|.+..             ..+..+..+++|+.|++
T Consensus       116 ~~~~l~~L~~L~Ls~-N~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~-------------~~~~~~~~l~~L~~L~L  180 (312)
T 1wwl_A          116 LEATGPDLNILNLRN-VSWATRDAW-LAELQQWLKPGLKVLSIAQAHSLN-------------FSCEQVRVFPALSTLDL  180 (312)
T ss_dssp             SSCCSCCCSEEEEES-CBCSSSSSH-HHHHHTTCCTTCCEEEEESCSCCC-------------CCTTTCCCCSSCCEEEC
T ss_pred             HHhcCCCccEEEccC-CCCcchhHH-HHHHHHhhcCCCcEEEeeCCCCcc-------------chHHHhccCCCCCEEEC
Confidence              4555555555555 444444332 3333     555555555554411             11233444555555555


Q ss_pred             Eecccccccccc-c-cccccccccEEEEeccCCCCcCcc---chhhhcccCceEecccccceeec-cccCccccccccCC
Q 040318          150 SLYSSRGVRNFL-K-FPKLLRITQALSISDCEIPLLNVS---HLAYMEHLKDLVIDNSNLEELKT-DCTGEVQKVLQCGF  223 (366)
Q Consensus       150 ~~~~~~~~~~~~-~-~~~~~~~L~~L~l~~~~~~~~~~~---~l~~~~~L~~L~l~~~~l~~l~~-~~~~~~~~~p~~~~  223 (366)
                      +++.......+. . ....+++|++|+++++........   .+..+++|+.|++++|.+..... ...        ..+
T Consensus       181 s~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~--------~~l  252 (312)
T 1wwl_A          181 SDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC--------DWP  252 (312)
T ss_dssp             CSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCC--------CCC
T ss_pred             CCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhh--------hhc
Confidence            544432210000 0 002233455555555544111111   22345677777777666654331 111        235


Q ss_pred             CCCcEEeEecCCCCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          224 RSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       224 ~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      ++|+.|++++| .++.++.... ++|++|++++|.... . +            .+..+++|++|++++.
T Consensus       253 ~~L~~L~Ls~N-~l~~ip~~~~-~~L~~L~Ls~N~l~~-~-p------------~~~~l~~L~~L~L~~N  306 (312)
T 1wwl_A          253 SQLNSLNLSFT-GLKQVPKGLP-AKLSVLDLSYNRLDR-N-P------------SPDELPQVGNLSLKGN  306 (312)
T ss_dssp             TTCCEEECTTS-CCSSCCSSCC-SEEEEEECCSSCCCS-C-C------------CTTTSCEEEEEECTTC
T ss_pred             CCCCEEECCCC-ccChhhhhcc-CCceEEECCCCCCCC-C-h------------hHhhCCCCCEEeccCC
Confidence            66777777777 4555543222 667777777665322 2 1            3455677777777654

>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=99.79  E-value=1.1e-18  Score=156.83  Aligned_cols=192  Identities=19%  Similarity=0.256  Sum_probs=113.7

Q ss_pred             hcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCC
Q 040318           27 LSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSK  106 (366)
Q Consensus        27 ~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~  106 (366)
                      ..+++|++|++++|    .++.++ .+..+++|++|++++|.++.++. +..+++|++|++++ +.+..++.  +..+++
T Consensus        38 ~~l~~L~~L~l~~~----~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~-n~l~~~~~--~~~l~~  108 (308)
T 1h6u_A           38 ADLDGITTLSAFGT----GVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSG-NPLKNVSA--IAGLQS  108 (308)
T ss_dssp             HHHHTCCEEECTTS----CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCS-CCCSCCGG--GTTCTT
T ss_pred             HHcCCcCEEEeeCC----CccCch-hhhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccC-CcCCCchh--hcCCCC
Confidence            34555666666665    445554 25555666666666665555544 55556666666655 44555442  555666


Q ss_pred             CcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCcc
Q 040318          107 LEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVS  186 (366)
Q Consensus       107 L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~  186 (366)
                      |++|++++|.+...               ..+..+++|+.|+++++.....+.+    ..+++|+.|+++++..  ....
T Consensus       109 L~~L~l~~n~l~~~---------------~~l~~l~~L~~L~l~~n~l~~~~~l----~~l~~L~~L~l~~n~l--~~~~  167 (308)
T 1h6u_A          109 IKTLDLTSTQITDV---------------TPLAGLSNLQVLYLDLNQITNISPL----AGLTNLQYLSIGNAQV--SDLT  167 (308)
T ss_dssp             CCEEECTTSCCCCC---------------GGGTTCTTCCEEECCSSCCCCCGGG----GGCTTCCEEECCSSCC--CCCG
T ss_pred             CCEEECCCCCCCCc---------------hhhcCCCCCCEEECCCCccCcCccc----cCCCCccEEEccCCcC--CCCh
Confidence            66666665554111               1245555555555555544443331    1233466666665544  1111


Q ss_pred             chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccCC
Q 040318          187 HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       187 ~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~  259 (366)
                      .+..+++|+.|+++++.+..+..  .        ..+++|+.|++++| .+++++.+..+++|+.|++++|..
T Consensus       168 ~l~~l~~L~~L~l~~n~l~~~~~--l--------~~l~~L~~L~L~~N-~l~~~~~l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          168 PLANLSKLTTLKADDNKISDISP--L--------ASLPNLIEVHLKNN-QISDVSPLANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             GGTTCTTCCEEECCSSCCCCCGG--G--------GGCTTCCEEECTTS-CCCBCGGGTTCTTCCEEEEEEEEE
T ss_pred             hhcCCCCCCEEECCCCccCcChh--h--------cCCCCCCEEEccCC-ccCccccccCCCCCCEEEccCCee
Confidence            35667788888888877765543  1        46788888888888 677777778888888888888764

>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=99.78  E-value=1.8e-18  Score=152.95  Aligned_cols=201  Identities=17%  Similarity=0.133  Sum_probs=107.8

Q ss_pred             CcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCC
Q 040318           30 ASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKL  107 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L  107 (366)
                      ++|++|++++|    .++.++. .+..+++|++|++++|.++.++. .+..+++|++|++++ +.+..++.+.+.++++|
T Consensus        28 ~~l~~L~ls~n----~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L  102 (276)
T 2z62_A           28 FSTKNLDLSFN----PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSL  102 (276)
T ss_dssp             TTCCEEECTTC----CCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTT-CCCCEECTTTTTTCTTC
T ss_pred             CCccEEECCCC----cccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCC-CccCccChhhhcCCccc
Confidence            34555555555    4444433 34455555555555555554332 345555555555555 44444443335555555


Q ss_pred             cEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccc
Q 040318          108 EVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSH  187 (366)
Q Consensus       108 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~  187 (366)
                      ++|++.+|.+...             ....+..+++|+.|+++++...... +......+++|++|+++++.........
T Consensus       103 ~~L~l~~n~l~~~-------------~~~~~~~l~~L~~L~l~~n~l~~~~-l~~~~~~l~~L~~L~Ls~N~l~~~~~~~  168 (276)
T 2z62_A          103 QKLVAVETNLASL-------------ENFPIGHLKTLKELNVAHNLIQSFK-LPEYFSNLTNLEHLDLSSNKIQSIYCTD  168 (276)
T ss_dssp             CEEECTTSCCCCS-------------TTCCCTTCTTCCEEECCSSCCCCCC-CCGGGGGCTTCCEEECCSSCCCEECGGG
T ss_pred             cEEECCCCCcccc-------------CchhcccCCCCCEEECcCCccceec-CchhhccCCCCCEEECCCCCCCcCCHHH
Confidence            5555555544111             0112444555555555554433311 0111122334556666555542222224


Q ss_pred             hhhhcccC----ceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc--ccCCCCccEEEEEccCC
Q 040318          188 LAYMEHLK----DLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW--LAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       188 l~~~~~L~----~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~--l~~l~~L~~L~L~~c~~  259 (366)
                      +..+++|+    .++++++.+..+....+         ...+|+.|++++| .++.++.  +..+++|++|++++|+.
T Consensus       169 ~~~l~~L~~l~l~L~ls~n~l~~~~~~~~---------~~~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~N~~  236 (276)
T 2z62_A          169 LRVLHQMPLLNLSLDLSLNPMNFIQPGAF---------KEIRLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNPW  236 (276)
T ss_dssp             GHHHHTCTTCCEEEECCSSCCCEECTTSS---------CSCCEEEEECCSS-CCSCCCTTTTTTCCSCCEEECCSSCB
T ss_pred             hhhhhhccccceeeecCCCcccccCcccc---------CCCcccEEECCCC-ceeecCHhHhcccccccEEEccCCcc
Confidence            55556665    67778888877765433         2347899999988 5777653  46788899999887753

>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=99.78  E-value=2.1e-18  Score=155.10  Aligned_cols=195  Identities=15%  Similarity=0.262  Sum_probs=163.4

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++++|+.|+++++.+..++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.++.++ .+..+++|+
T Consensus        39 ~l~~L~~L~l~~~~i~~l~~--~~~l~~L~~L~L~~n----~i~~~~~-~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~  110 (308)
T 1h6u_A           39 DLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDN----QITDLAP-LKNLTKITELELSGNPLKNVS-AIAGLQSIK  110 (308)
T ss_dssp             HHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCCSCCEEECCSCCCSCCG-GGTTCTTCC
T ss_pred             HcCCcCEEEeeCCCccCchh--hhccCCCCEEEccCC----cCCCChh-HccCCCCCEEEccCCcCCCch-hhcCCCCCC
Confidence            46789999999999998874  889999999999999    7888877 889999999999999998876 688999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++.  +..+++|++|++.+|.+...               ..+..+++|+.|+++++.....+.+   
T Consensus       111 ~L~l~~-n~l~~~~~--l~~l~~L~~L~l~~n~l~~~---------------~~l~~l~~L~~L~l~~n~l~~~~~l---  169 (308)
T 1h6u_A          111 TLDLTS-TQITDVTP--LAGLSNLQVLYLDLNQITNI---------------SPLAGLTNLQYLSIGNAQVSDLTPL---  169 (308)
T ss_dssp             EEECTT-SCCCCCGG--GTTCTTCCEEECCSSCCCCC---------------GGGGGCTTCCEEECCSSCCCCCGGG---
T ss_pred             EEECCC-CCCCCchh--hcCCCCCCEEECCCCccCcC---------------ccccCCCCccEEEccCCcCCCChhh---
Confidence            999999 77888876  89999999999999987332               1277889999999999887776553   


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT  241 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~  241 (366)
                       ..+++|+.|+++++..  .....+..+++|+.|++++|.+..+..  +        ..+++|+.|++++| .++..+
T Consensus       170 -~~l~~L~~L~l~~n~l--~~~~~l~~l~~L~~L~L~~N~l~~~~~--l--------~~l~~L~~L~l~~N-~i~~~~  233 (308)
T 1h6u_A          170 -ANLSKLTTLKADDNKI--SDISPLASLPNLIEVHLKNNQISDVSP--L--------ANTSNLFIVTLTNQ-TITNQP  233 (308)
T ss_dssp             -TTCTTCCEEECCSSCC--CCCGGGGGCTTCCEEECTTSCCCBCGG--G--------TTCTTCCEEEEEEE-EEECCC
T ss_pred             -cCCCCCCEEECCCCcc--CcChhhcCCCCCCEEEccCCccCcccc--c--------cCCCCCCEEEccCC-eeecCC
Confidence             3456799999999887  333357889999999999998876652  2        57899999999999 455543

>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=99.78  E-value=2.9e-19  Score=174.95  Aligned_cols=287  Identities=14%  Similarity=0.089  Sum_probs=156.5

Q ss_pred             CCCCcCEEEccCCCCCcc----chhhhhcCCcccEEECCCCCCCCCcC-----ccCccccccccCCEEeccCCCCccCch
Q 040318            4 RYSNIPSILELSSNNKVF----EPSWFLSRASWTCLDNGPSRIKNSLT-----ELPSGISSLVSLQHLDVSYTDIRGLPH   74 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l----~~~~~~~~~~L~~L~l~~~~~~~~~~-----~l~~~~~~l~~L~~L~l~~~~i~~l~~   74 (366)
                      .|++|++|++++|.+.+.    ....+..+++|++|+++++    .++     .++..+..+++|+.|++++|.+..++.
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n----~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~  237 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMT----EFAKISPKDLETIARNCRSLVSVKVGDFEILELVG  237 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTC----CCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeecc----CCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHH
Confidence            467788888887765432    1223556777888888777    443     233334567888888888877766776


Q ss_pred             hhhcCccCCEeecccccc--------------------------CCCcChhhhcCCCCCcEEEccCCCCCCccccccccc
Q 040318           75 ELTALLNLRYLNLERTYH--------------------------LSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLS  128 (366)
Q Consensus        75 ~i~~l~~L~~L~L~~c~~--------------------------~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  128 (366)
                      .+..+++|++|+++.+..                          ...++.. +..+++|++|++.+|.+           
T Consensus       238 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~-~~~~~~L~~L~Ls~~~l-----------  305 (592)
T 3ogk_B          238 FFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPIL-FPFAAQIRKLDLLYALL-----------  305 (592)
T ss_dssp             HHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGG-GGGGGGCCEEEETTCCC-----------
T ss_pred             HHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHH-HhhcCCCcEEecCCCcC-----------
Confidence            677777777777753211                          1123332 55667777777777754           


Q ss_pred             cchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEec----------cCCCCcCcc--chhhhcccCc
Q 040318          129 EDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISD----------CEIPLLNVS--HLAYMEHLKD  196 (366)
Q Consensus       129 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~----------~~~~~~~~~--~l~~~~~L~~  196 (366)
                       ........+..+++|+.|.+.. ...+ ..+......+++|++|++.+          |...+....  ....+++|++
T Consensus       306 -~~~~~~~~~~~~~~L~~L~L~~-~~~~-~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~  382 (592)
T 3ogk_B          306 -ETEDHCTLIQKCPNLEVLETRN-VIGD-RGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEY  382 (592)
T ss_dssp             -CHHHHHHHHTTCTTCCEEEEEG-GGHH-HHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSE
T ss_pred             -CHHHHHHHHHhCcCCCEEeccC-ccCH-HHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeE
Confidence             1122334466778888887772 2111 12222223455677888874          544111111  2344677777


Q ss_pred             eEecccccceeeccccC-------------------ccc-----ccc--ccCCCCCcEEeEecCCC-Ccc--ccccc-CC
Q 040318          197 LVIDNSNLEELKTDCTG-------------------EVQ-----KVL--QCGFRSLHLASIAFCSR-VKD--LTWLA-FA  246 (366)
Q Consensus       197 L~l~~~~l~~l~~~~~~-------------------~~~-----~~p--~~~~~~L~~L~l~~~~~-l~~--l~~l~-~l  246 (366)
                      |++..+.+........+                   ...     .++  ...+++|+.|++++|.+ +++  +..++ .+
T Consensus       383 L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~  462 (592)
T 3ogk_B          383 MAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYS  462 (592)
T ss_dssp             EEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSC
T ss_pred             EEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhC
Confidence            77755444332211110                   000     000  02345555555544431 222  11111 35


Q ss_pred             CCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccc--cCCCcCCCCccEEeccCCCCCCC
Q 040318          247 PNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSI--YQGALPLPQLKEIRVTQCPKLKT  322 (366)
Q Consensus       247 ~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~--~~~~~~~~~L~~L~l~~c~~l~~  322 (366)
                      ++|++|+|++|......+           .....++++|++|++++|. ++..  ......+++|+.|++++|+ ++.
T Consensus       463 ~~L~~L~L~~n~l~~~~~-----------~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~-it~  527 (592)
T 3ogk_B          463 PNVRWMLLGYVGESDEGL-----------MEFSRGCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR-ASM  527 (592)
T ss_dssp             TTCCEEEECSCCSSHHHH-----------HHHHTCCTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB-CCT
T ss_pred             ccceEeeccCCCCCHHHH-----------HHHHhcCcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc-CCH
Confidence            556666665554222111           1134567899999999987 4332  2223358999999999997 664

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

Probab=99.78  E-value=3.7e-18  Score=150.51  Aligned_cols=197  Identities=19%  Similarity=0.191  Sum_probs=139.5

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchh-hhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~   84 (366)
                      +.+.+++++++++.+|.. +  .++|++|++++|    .++.++. .+..+++|++|++++|.++.++.. +..+++|++
T Consensus        17 ~~~~l~~~~~~l~~ip~~-~--~~~l~~L~l~~n----~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~   89 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSN-I--PADTKKLDLQSN----KLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLET   89 (270)
T ss_dssp             TTTEEECTTSCCSSCCSC-C--CTTCSEEECCSS----CCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCE
T ss_pred             CCCEEEccCCCCCccCCC-C--CCCCCEEECcCC----CCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCE
Confidence            467888888888888875 2  367889999998    7777764 577889999999999988877765 477889999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++.+.+.++++|++|++.+|.+...             .+..+..+++|+.|+++++.....       
T Consensus        90 L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~-------------~~~~~~~l~~L~~L~Ls~n~l~~~-------  148 (270)
T 2o6q_A           90 LWVTD-NKLQALPIGVFDQLVNLAELRLDRNQLKSL-------------PPRVFDSLTKLTYLSLGYNELQSL-------  148 (270)
T ss_dssp             EECCS-SCCCCCCTTTTTTCSSCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCCCC-------
T ss_pred             EECCC-CcCCcCCHhHcccccCCCEEECCCCccCee-------------CHHHhCcCcCCCEEECCCCcCCcc-------
Confidence            99988 777888766578888999999988876222             123345566666666665443322       


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc--
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW--  242 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~--  242 (366)
                                         ....+..+++|+.|++.++.+..+....+        ..+++|+.|++++| .++.++.  
T Consensus       149 -------------------~~~~~~~l~~L~~L~L~~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~~~~~~  200 (270)
T 2o6q_A          149 -------------------PKGVFDKLTSLKELRLYNNQLKRVPEGAF--------DKLTELKTLKLDNN-QLKRVPEGA  200 (270)
T ss_dssp             -------------------CTTTTTTCTTCCEEECCSSCCSCCCTTTT--------TTCTTCCEEECCSS-CCSCCCTTT
T ss_pred             -------------------CHhHccCCcccceeEecCCcCcEeChhHh--------ccCCCcCEEECCCC-cCCcCCHHH
Confidence                               11234566777777777777766654333        35677888888877 5666553  


Q ss_pred             ccCCCCccEEEEEccCC
Q 040318          243 LAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~  259 (366)
                      +..+++|+.|++++|+.
T Consensus       201 ~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          201 FDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             TTTCTTCCEEECCSSCB
T ss_pred             hccccCCCEEEecCCCe
Confidence            55677888888877653

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

Probab=99.76  E-value=4.2e-20  Score=166.54  Aligned_cols=246  Identities=17%  Similarity=0.184  Sum_probs=166.4

Q ss_pred             hhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCc--cCchhhh-------cCccCCEeeccccccCC-C
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIR--GLPHELT-------ALLNLRYLNLERTYHLS-R   95 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~--~l~~~i~-------~l~~L~~L~L~~c~~~~-~   95 (366)
                      +...++|++|++++|    .+ .+|..+...  |+.|++++|.+.  .+|..+.       ++++|++|++++ +.+. .
T Consensus        39 ~~~~~~L~~l~l~~n----~l-~~p~~~~~~--L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~-n~l~~~  110 (312)
T 1wwl_A           39 YGGGRSLEYLLKRVD----TE-ADLGQFTDI--IKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLEN-LEVTGT  110 (312)
T ss_dssp             EEEEEECTTHHHHCC----TT-CCCHHHHHH--HHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEEEE-EBCBSC
T ss_pred             EccCCCceeEeeccc----cc-ccHHHHHHH--HhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEccC-Ccccch
Confidence            456677888888888    66 777766544  888888888775  4565554       688999999998 5554 5


Q ss_pred             cChhhh-cCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcC--CCCcceEEEEeccccccccccccccccccccE
Q 040318           96 FPPELI-CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLC--LKLLNLISFSLYSSRGVRNFLKFPKLLRITQA  172 (366)
Q Consensus        96 l~~~~l-~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~--l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  172 (366)
                      +|..++ ..+++|++|++++|.+...           ......+..  +++|++|+++++.....+.  .....+++|++
T Consensus       111 ~~~~~~~~~l~~L~~L~Ls~N~l~~~-----------~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~--~~~~~l~~L~~  177 (312)
T 1wwl_A          111 APPPLLEATGPDLNILNLRNVSWATR-----------DAWLAELQQWLKPGLKVLSIAQAHSLNFSC--EQVRVFPALST  177 (312)
T ss_dssp             CCCCSSSCCSCCCSEEEEESCBCSSS-----------SSHHHHHHTTCCTTCCEEEEESCSCCCCCT--TTCCCCSSCCE
T ss_pred             hHHHHHHhcCCCccEEEccCCCCcch-----------hHHHHHHHHhhcCCCcEEEeeCCCCccchH--HHhccCCCCCE
Confidence            666522 7889999999999877322           112222222  2889999999887765431  11223566999


Q ss_pred             EEEeccCCCCcCcc----chhhhcccCceEecccccceeec---cccCccccccccCCCCCcEEeEecCCCCccc---cc
Q 040318          173 LSISDCEIPLLNVS----HLAYMEHLKDLVIDNSNLEELKT---DCTGEVQKVLQCGFRSLHLASIAFCSRVKDL---TW  242 (366)
Q Consensus       173 L~l~~~~~~~~~~~----~l~~~~~L~~L~l~~~~l~~l~~---~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l---~~  242 (366)
                      |+++++...+....    .+..+++|++|++++|+++.++.   ..+        ..+++|+.|++++| .++..   +.
T Consensus       178 L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~--------~~l~~L~~L~Ls~N-~l~~~~~~~~  248 (312)
T 1wwl_A          178 LDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALA--------AARVQLQGLDLSHN-SLRDAAGAPS  248 (312)
T ss_dssp             EECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHH--------HTTCCCSEEECTTS-CCCSSCCCSC
T ss_pred             EECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHH--------hcCCCCCEEECCCC-cCCcccchhh
Confidence            99988875111111    23678899999998888774321   111        35688999999998 56663   33


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCC
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCP  318 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~  318 (366)
                      +..+++|++|++++|... .+..            .+.  ++|++|+++++ .++.++. ...+++|+.|++++.+
T Consensus       249 ~~~l~~L~~L~Ls~N~l~-~ip~------------~~~--~~L~~L~Ls~N-~l~~~p~-~~~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          249 CDWPSQLNSLNLSFTGLK-QVPK------------GLP--AKLSVLDLSYN-RLDRNPS-PDELPQVGNLSLKGNP  307 (312)
T ss_dssp             CCCCTTCCEEECTTSCCS-SCCS------------SCC--SEEEEEECCSS-CCCSCCC-TTTSCEEEEEECTTCT
T ss_pred             hhhcCCCCEEECCCCccC-hhhh------------hcc--CCceEEECCCC-CCCCChh-HhhCCCCCEEeccCCC
Confidence            456789999999888644 3321            222  78999999875 5555544 6678899999998863

>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=99.76  E-value=1.2e-18  Score=158.39  Aligned_cols=223  Identities=17%  Similarity=0.095  Sum_probs=134.5

Q ss_pred             CcCEEEccCCCCCccchhhhhcC--CcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCcc--CchhhhcCccC
Q 040318            7 NIPSILELSSNNKVFEPSWFLSR--ASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRG--LPHELTALLNL   82 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~--~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~--l~~~i~~l~~L   82 (366)
                      .++.++++++.+.   +..+..+  ++++.|+++++    .++..+..+..+++|++|++++|.+..  ++..+..+++|
T Consensus        48 ~~~~l~l~~~~~~---~~~~~~~~~~~l~~L~l~~n----~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L  120 (336)
T 2ast_B           48 LWQTLDLTGKNLH---PDVTGRLLSQGVIAFRCPRS----FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKL  120 (336)
T ss_dssp             TSSEEECTTCBCC---HHHHHHHHHTTCSEEECTTC----EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCC
T ss_pred             hheeeccccccCC---HHHHHhhhhccceEEEcCCc----cccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCC
Confidence            4677888877665   2335556  78888888888    666665556678888888888887762  67777888888


Q ss_pred             CEeeccccccCCC-cChhhhcCCCCCcEEEccCC-CCCCccccccccccchHHHHHhhcCCCCcceEEEEec-ccccccc
Q 040318           83 RYLNLERTYHLSR-FPPELICSFSKLEVLRMLES-GADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLY-SSRGVRN  159 (366)
Q Consensus        83 ~~L~L~~c~~~~~-l~~~~l~~l~~L~~L~l~~~-~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~-~~~~~~~  159 (366)
                      ++|++++| .+.. .+.. +..+++|++|++.+| .+            ........+..+++|+.|+++++ ...+. .
T Consensus       121 ~~L~L~~~-~l~~~~~~~-l~~~~~L~~L~L~~~~~l------------~~~~l~~~~~~~~~L~~L~l~~~~~l~~~-~  185 (336)
T 2ast_B          121 QNLSLEGL-RLSDPIVNT-LAKNSNLVRLNLSGCSGF------------SEFALQTLLSSCSRLDELNLSWCFDFTEK-H  185 (336)
T ss_dssp             SEEECTTC-BCCHHHHHH-HTTCTTCSEEECTTCBSC------------CHHHHHHHHHHCTTCCEEECCCCTTCCHH-H
T ss_pred             CEEeCcCc-ccCHHHHHH-HhcCCCCCEEECCCCCCC------------CHHHHHHHHhcCCCCCEEcCCCCCCcChH-H
Confidence            88888884 4543 3333 777888888888888 33            11234455666777777777665 33221 0


Q ss_pred             ccccccccccccEEEEeccCCCCcCccchhhhc-ccCceEecccc--cceeeccccCccccccccCCCCCcEEeEecCCC
Q 040318          160 FLKFPKLLRITQALSISDCEIPLLNVSHLAYME-HLKDLVIDNSN--LEELKTDCTGEVQKVLQCGFRSLHLASIAFCSR  236 (366)
Q Consensus       160 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~-~L~~L~l~~~~--l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~  236 (366)
                      +..                        .+..++ +|++|+++++.  +.+-.....       ...+++|+.|++++|..
T Consensus       186 ~~~------------------------~~~~l~~~L~~L~l~~~~~~~~~~~l~~~-------~~~~~~L~~L~l~~~~~  234 (336)
T 2ast_B          186 VQV------------------------AVAHVSETITQLNLSGYRKNLQKSDLSTL-------VRRCPNLVHLDLSDSVM  234 (336)
T ss_dssp             HHH------------------------HHHHSCTTCCEEECCSCGGGSCHHHHHHH-------HHHCTTCSEEECTTCTT
T ss_pred             HHH------------------------HHHhcccCCCEEEeCCCcccCCHHHHHHH-------HhhCCCCCEEeCCCCCc
Confidence            111                        234455 55556555542  221100000       02466777777777643


Q ss_pred             Ccc--cccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          237 VKD--LTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       237 l~~--l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      +++  +..++.+++|++|++++|..+.+...           ..+..+++|++|++++|
T Consensus       235 l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-----------~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          235 LKNDCFQEFFQLNYLQHLSLSRCYDIIPETL-----------LELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             CCGGGGGGGGGCTTCCEEECTTCTTCCGGGG-----------GGGGGCTTCCEEECTTS
T ss_pred             CCHHHHHHHhCCCCCCEeeCCCCCCCCHHHH-----------HHHhcCCCCCEEeccCc
Confidence            443  34555667777777777753322110           13455777777777766

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

Probab=99.76  E-value=2.6e-18  Score=151.70  Aligned_cols=191  Identities=15%  Similarity=0.120  Sum_probs=114.7

Q ss_pred             EEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeecccc
Q 040318           11 ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERT   90 (366)
Q Consensus        11 L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c   90 (366)
                      +.+..+.+.+...  ...+++|+.|+++++    .++.++. +..+++|++|++++|.++.++ .+..+++|++|++++ 
T Consensus        24 l~l~~~~~~~~~~--~~~l~~L~~L~l~~~----~i~~~~~-l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~-   94 (272)
T 3rfs_A           24 ANLKKKSVTDAVT--QNELNSIDQIIANNS----DIKSVQG-IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTG-   94 (272)
T ss_dssp             HHHTCSCTTSEEC--HHHHTTCCEEECTTS----CCCCCTT-GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTT-
T ss_pred             HHhcCcccccccc--cccccceeeeeeCCC----Ccccccc-cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCC-
Confidence            3444444544333  456677777777777    5565554 666777777777777776654 566777777777777 


Q ss_pred             ccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccc
Q 040318           91 YHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRIT  170 (366)
Q Consensus        91 ~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L  170 (366)
                      +.+..++...+.++++|++|++.+|.+...             ....+..+++|+.|+++++.....             
T Consensus        95 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-------------~~~~~~~l~~L~~L~L~~n~l~~~-------------  148 (272)
T 3rfs_A           95 NQLQSLPNGVFDKLTNLKELVLVENQLQSL-------------PDGVFDKLTNLTYLNLAHNQLQSL-------------  148 (272)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECTTSCCCCC-------------CTTTTTTCTTCCEEECCSSCCCCC-------------
T ss_pred             CccCccChhHhcCCcCCCEEECCCCcCCcc-------------CHHHhccCCCCCEEECCCCccCcc-------------
Confidence            566666655466777777777777765211             112234445555555544332221             


Q ss_pred             cEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc--ccCCCC
Q 040318          171 QALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW--LAFAPN  248 (366)
Q Consensus       171 ~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~--l~~l~~  248 (366)
                                   ....+..+++|+.|++++|++..+....+        ..+++|+.|++++| .++.++.  +..+++
T Consensus       149 -------------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~  206 (272)
T 3rfs_A          149 -------------PKGVFDKLTNLTELDLSYNQLQSLPEGVF--------DKLTQLKDLRLYQN-QLKSVPDGVFDRLTS  206 (272)
T ss_dssp             -------------CTTTTTTCTTCCEEECCSSCCCCCCTTTT--------TTCTTCCEEECCSS-CCSCCCTTTTTTCTT
T ss_pred             -------------CHHHhccCccCCEEECCCCCcCccCHHHh--------cCCccCCEEECCCC-cCCccCHHHHhCCcC
Confidence                         11134455667777776666665544333        35677777777777 4555543  456777


Q ss_pred             ccEEEEEccC
Q 040318          249 LKIIVIMHCD  258 (366)
Q Consensus       249 L~~L~L~~c~  258 (366)
                      |++|++++|.
T Consensus       207 L~~L~l~~N~  216 (272)
T 3rfs_A          207 LQYIWLHDNP  216 (272)
T ss_dssp             CCEEECCSSC
T ss_pred             CCEEEccCCC
Confidence            7777777663

>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=7.6e-18  Score=150.05  Aligned_cols=198  Identities=16%  Similarity=0.107  Sum_probs=144.9

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNL   82 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L   82 (366)
                      ++++++.+++++++++.+|..+   .+++++|++++|    .++.+ +..+..+++|++|++++|.++.++.. +.+++|
T Consensus         8 ~l~~l~~l~~~~~~l~~ip~~~---~~~l~~L~L~~N----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L   79 (290)
T 1p9a_G            8 KVASHLEVNCDKRNLTALPPDL---PKDTTILHLSEN----LLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVL   79 (290)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCC---CTTCCEEECTTS----CCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTC
T ss_pred             ccCCccEEECCCCCCCcCCCCC---CCCCCEEEcCCC----cCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcC
Confidence            5788899999999998888763   368899999999    67776 45678899999999999988877654 788899


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK  162 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  162 (366)
                      ++|++++ +.+..+|.. +..+++|++|++++|.+...             .+..+..+++|+.|+++++.....     
T Consensus        80 ~~L~Ls~-N~l~~l~~~-~~~l~~L~~L~l~~N~l~~l-------------~~~~~~~l~~L~~L~L~~N~l~~~-----  139 (290)
T 1p9a_G           80 GTLDLSH-NQLQSLPLL-GQTLPALTVLDVSFNRLTSL-------------PLGALRGLGELQELYLKGNELKTL-----  139 (290)
T ss_dssp             CEEECCS-SCCSSCCCC-TTTCTTCCEEECCSSCCCCC-------------CSSTTTTCTTCCEEECTTSCCCCC-----
T ss_pred             CEEECCC-CcCCcCchh-hccCCCCCEEECCCCcCccc-------------CHHHHcCCCCCCEEECCCCCCCcc-----
Confidence            9999998 788888875 78889999999998876222             123355566666666655443322     


Q ss_pred             cccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-
Q 040318          163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-  241 (366)
Q Consensus       163 ~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-  241 (366)
                                           ....+..+++|+.|++++|+++.+....+        ..+++|+.|+++++ .++.++ 
T Consensus       140 ---------------------~~~~~~~l~~L~~L~L~~N~l~~l~~~~~--------~~l~~L~~L~L~~N-~l~~ip~  189 (290)
T 1p9a_G          140 ---------------------PPGLLTPTPKLEKLSLANNNLTELPAGLL--------NGLENLDTLLLQEN-SLYTIPK  189 (290)
T ss_dssp             ---------------------CTTTTTTCTTCCEEECTTSCCSCCCTTTT--------TTCTTCCEEECCSS-CCCCCCT
T ss_pred             ---------------------ChhhcccccCCCEEECCCCcCCccCHHHh--------cCcCCCCEEECCCC-cCCccCh
Confidence                                 22244567788888888887776665444        35778888888888 566665 


Q ss_pred             cccCCCCccEEEEEccCC
Q 040318          242 WLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       242 ~l~~l~~L~~L~L~~c~~  259 (366)
                      .+...++|+.|++++++.
T Consensus       190 ~~~~~~~L~~l~L~~Np~  207 (290)
T 1p9a_G          190 GFFGSHLLPFAFLHGNPW  207 (290)
T ss_dssp             TTTTTCCCSEEECCSCCB
T ss_pred             hhcccccCCeEEeCCCCc
Confidence            345667888888887654

>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=99.75  E-value=1.8e-19  Score=171.10  Aligned_cols=314  Identities=15%  Similarity=0.100  Sum_probs=168.6

Q ss_pred             CCCCcCEEEccCCCCCc-----cchhhhhcCCcccEEECCCCCCCCCcCcc-Cccc-cccc----cCCEEeccCCCCc--
Q 040318            4 RYSNIPSILELSSNNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGI-SSLV----SLQHLDVSYTDIR--   70 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~-~~l~----~L~~L~l~~~~i~--   70 (366)
                      .+++|++|++++|.+..     ++.. +..+++|++|++++|    .+++. +..+ ..++    +|++|++++|.++  
T Consensus        26 ~~~~L~~L~L~~~~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n----~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~  100 (461)
T 1z7x_W           26 LLQQCQVVRLDDCGLTEARCKDISSA-LRVNPALAELNLRSN----ELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGA  100 (461)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHH-HHTCTTCCEEECTTC----CCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGG
T ss_pred             hcCCccEEEccCCCCCHHHHHHHHHH-HHhCCCcCEEeCCCC----cCChHHHHHHHHHHhhCCCceeEEEccCCCCCHH
Confidence            35677777777777763     2333 666777777777777    44432 2222 2233    5777777777766  


Q ss_pred             ---cCchhhhcCccCCEeeccccccCCCcC-----hhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCC
Q 040318           71 ---GLPHELTALLNLRYLNLERTYHLSRFP-----PELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLK  142 (366)
Q Consensus        71 ---~l~~~i~~l~~L~~L~L~~c~~~~~l~-----~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  142 (366)
                         .++..+..+++|++|++++ +.+....     ..+....++|++|++.+|.+...         ........+..++
T Consensus       101 ~~~~l~~~l~~~~~L~~L~Ls~-n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~---------~~~~l~~~l~~~~  170 (461)
T 1z7x_W          101 GCGVLSSTLRTLPTLQELHLSD-NLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAA---------SCEPLASVLRAKP  170 (461)
T ss_dssp             GHHHHHHHTTSCTTCCEEECCS-SBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGG---------GHHHHHHHHHHCT
T ss_pred             HHHHHHHHHccCCceeEEECCC-CcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHH---------HHHHHHHHHhhCC
Confidence               3456667777777777777 4443321     11122345677777777765211         1123455666778


Q ss_pred             CcceEEEEeccccccc--ccccc-ccccccccEEEEeccCCCCcC----ccchhhhcccCceEecccccceeeccccCcc
Q 040318          143 LLNLISFSLYSSRGVR--NFLKF-PKLLRITQALSISDCEIPLLN----VSHLAYMEHLKDLVIDNSNLEELKTDCTGEV  215 (366)
Q Consensus       143 ~L~~L~l~~~~~~~~~--~~~~~-~~~~~~L~~L~l~~~~~~~~~----~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~  215 (366)
                      +|+.|+++++...+..  .+... ....++|++|++++|......    ...+..+++|++|+++++.+.+.+...... 
T Consensus       171 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~-  249 (461)
T 1z7x_W          171 DFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCP-  249 (461)
T ss_dssp             TCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHH-
T ss_pred             CCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHH-
Confidence            8888888876654321  11110 001236888888887652111    114556788888888887766543211100 


Q ss_pred             ccccccCCCCCcEEeEecCCCCcc-----cc-cccCCCCccEEEEEccCCccccccccccc-------c----------c
Q 040318          216 QKVLQCGFRSLHLASIAFCSRVKD-----LT-WLAFAPNLKIIVIMHCDDLEEIISVEKLN-------Q----------L  272 (366)
Q Consensus       216 ~~~p~~~~~~L~~L~l~~~~~l~~-----l~-~l~~l~~L~~L~L~~c~~~~~~~~~~~~~-------~----------~  272 (366)
                      .  ....+++|++|++++| .+++     ++ .+..+++|++|++++|........ ....       .          +
T Consensus       250 ~--~~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~-~l~~~l~~~~~~L~~L~L~~n~l  325 (461)
T 1z7x_W          250 G--LLHPSSRLRTLWIWEC-GITAKGCGDLCRVLRAKESLKELSLAGNELGDEGAR-LLCETLLEPGCQLESLWVKSCSF  325 (461)
T ss_dssp             H--HTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHH-HHHHHHTSTTCCCCEEECTTSCC
T ss_pred             H--HhcCCCCceEEECcCC-CCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHH-HHHHHhccCCccceeeEcCCCCC
Confidence            0  0024667777777777 5554     22 233466677777766653221110 0000       0          0


Q ss_pred             -----ccccccccccccccccccccccccccccCC-----C-cCCCCccEEeccCCCCCC-----CCCCCCCCCCcceeE
Q 040318          273 -----SDIMGELNFFAKLELLDLYHAENLKSIYQG-----A-LPLPQLKEIRVTQCPKLK-----TLPLNSSSTKLRNIV  336 (366)
Q Consensus       273 -----~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-----~-~~~~~L~~L~l~~c~~l~-----~lp~~~~~~~~~~~~  336 (366)
                           ..+...+..+++|++|+++++ .+++....     . ...++|++|++++| +++     .+|..+... +.++.
T Consensus       326 ~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~-~~L~~  402 (461)
T 1z7x_W          326 TAACCSHFSSVLAQNRFLLELQISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLAN-HSLRE  402 (461)
T ss_dssp             BGGGHHHHHHHHHHCSSCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHC-CCCCE
T ss_pred             chHHHHHHHHHHhhCCCccEEEccCC-ccccccHHHHHHHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhC-CCccE
Confidence                 011123445577888888776 33322111     1 12568888888887 455     344433332 44445


Q ss_pred             EEcc
Q 040318          337 ISGG  340 (366)
Q Consensus       337 ~~~~  340 (366)
                      ++..
T Consensus       403 L~l~  406 (461)
T 1z7x_W          403 LDLS  406 (461)
T ss_dssp             EECC
T ss_pred             EECC
Confidence            5443

>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=1.6e-19  Score=171.47  Aligned_cols=300  Identities=16%  Similarity=0.079  Sum_probs=160.5

Q ss_pred             CCCCcCEEEccCCCCCcc-chhhhhcCC----cccEEECCCCCCCCCcC-----ccCccccccccCCEEeccCCCCccC-
Q 040318            4 RYSNIPSILELSSNNKVF-EPSWFLSRA----SWTCLDNGPSRIKNSLT-----ELPSGISSLVSLQHLDVSYTDIRGL-   72 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l-~~~~~~~~~----~L~~L~l~~~~~~~~~~-----~l~~~~~~l~~L~~L~l~~~~i~~l-   72 (366)
                      .+++|++|++++|.+.+. +..++..++    +|++|++++|    .++     .++..+..+++|++|++++|.++.. 
T Consensus        54 ~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n----~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~  129 (461)
T 1z7x_W           54 VNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNC----CLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAG  129 (461)
T ss_dssp             TCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTS----CCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHH
T ss_pred             hCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCC----CCCHHHHHHHHHHHccCCceeEEECCCCcCchHH
Confidence            356777777777776652 223344455    5777777777    444     2455566677777777777765421 


Q ss_pred             chhh-----hcCccCCEeeccccccCCCcC----hhhhcCCCCCcEEEccCCCCCCcc--cc----------------c-
Q 040318           73 PHEL-----TALLNLRYLNLERTYHLSRFP----PELICSFSKLEVLRMLESGADSTA--EQ----------------G-  124 (366)
Q Consensus        73 ~~~i-----~~l~~L~~L~L~~c~~~~~l~----~~~l~~l~~L~~L~l~~~~~~~~~--~~----------------~-  124 (366)
                      +..+     ...++|++|++++| .+....    ...+..+++|++|++++|.+....  .+                + 
T Consensus       130 ~~~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~  208 (461)
T 1z7x_W          130 LQLLCEGLLDPQCRLEKLQLEYC-SLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLES  208 (461)
T ss_dssp             HHHHHHHHTSTTCCCCEEECTTS-CCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTT
T ss_pred             HHHHHHHHhcCCCcceEEECCCC-CCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccC
Confidence            1111     11345666666663 333211    112445566666666665431100  00                0 


Q ss_pred             ccccc-chHHHHHhhcCCCCcceEEEEeccccccc--cccc-cccccccccEEEEeccCCCCcCc--c--chhhhcccCc
Q 040318          125 SVLSE-DAEPLMKELLCLKLLNLISFSLYSSRGVR--NFLK-FPKLLRITQALSISDCEIPLLNV--S--HLAYMEHLKD  196 (366)
Q Consensus       125 ~~~~~-~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~~-~~~~~~~L~~L~l~~~~~~~~~~--~--~l~~~~~L~~  196 (366)
                      ..+.. .....+..+..+++|+.|+++++...+..  .+.. ....+++|++|++++|.......  +  .+..+++|++
T Consensus       209 n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~  288 (461)
T 1z7x_W          209 CGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKE  288 (461)
T ss_dssp             SCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCE
T ss_pred             CCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcce
Confidence            00000 01123444556667777777665543321  1110 01124557777777775411100  1  4455778888


Q ss_pred             eEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccc------ccccCCCCccEEEEEccCCccccccccccc
Q 040318          197 LVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDL------TWLAFAPNLKIIVIMHCDDLEEIISVEKLN  270 (366)
Q Consensus       197 L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l------~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~  270 (366)
                      |+++++.+.+.+......  .+ ....++|++|++++| .++..      ..+..+++|++|++++|...+....     
T Consensus       289 L~Ls~n~i~~~~~~~l~~--~l-~~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~-----  359 (461)
T 1z7x_W          289 LSLAGNELGDEGARLLCE--TL-LEPGCQLESLWVKSC-SFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVR-----  359 (461)
T ss_dssp             EECTTCCCHHHHHHHHHH--HH-TSTTCCCCEEECTTS-CCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHH-----
T ss_pred             EECCCCCCchHHHHHHHH--Hh-ccCCccceeeEcCCC-CCchHHHHHHHHHHhhCCCccEEEccCCccccccHH-----
Confidence            888777765443321110  00 023468999999988 46542      1345678999999998854333221     


Q ss_pred             cccccccccc-ccccccccccccccccc----cccCCCcCCCCccEEeccCCCCCC
Q 040318          271 QLSDIMGELN-FFAKLELLDLYHAENLK----SIYQGALPLPQLKEIRVTQCPKLK  321 (366)
Q Consensus       271 ~~~~~~~~~~-~~~~L~~L~l~~~~~l~----~~~~~~~~~~~L~~L~l~~c~~l~  321 (366)
                         .+...+. ..++|++|++++|.--.    .+......+++|++|++++|+ ++
T Consensus       360 ---~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~-i~  411 (461)
T 1z7x_W          360 ---ELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNC-LG  411 (461)
T ss_dssp             ---HHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSS-CC
T ss_pred             ---HHHHHHcCCCCceEEEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCC-CC
Confidence               0001121 26799999999984322    344444568999999999984 44

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

Probab=99.74  E-value=6.3e-18  Score=161.44  Aligned_cols=234  Identities=16%  Similarity=0.114  Sum_probs=153.4

Q ss_pred             CCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCC
Q 040318           29 RASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKL  107 (366)
Q Consensus        29 ~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L  107 (366)
                      +++|++|++++|    .++.++ ..+..+++|++|++++|.++..+. +..+++|++|++++ +.+..++.     .++|
T Consensus        33 ~~~L~~L~Ls~n----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~-N~l~~l~~-----~~~L  101 (487)
T 3oja_A           33 AWNVKELDLSGN----PLSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLNN-NYVQELLV-----GPSI  101 (487)
T ss_dssp             GGGCCEEECCSS----CCCCCCGGGGTTCTTCCEEECTTSCCEEEEE-CTTCTTCCEEECCS-SEEEEEEE-----CTTC
T ss_pred             CCCccEEEeeCC----cCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc-cccCCCCCEEEecC-CcCCCCCC-----CCCc
Confidence            348999999999    777775 568889999999999999886654 88999999999999 66666553     3899


Q ss_pred             cEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccc
Q 040318          108 EVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSH  187 (366)
Q Consensus       108 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~  187 (366)
                      ++|++++|.+....                ...+++|+.|+++++........  ....+++|+.|+++++...+.....
T Consensus       102 ~~L~L~~N~l~~~~----------------~~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~Ls~N~l~~~~~~~  163 (487)
T 3oja_A          102 ETLHAANNNISRVS----------------CSRGQGKKNIYLANNKITMLRDL--DEGCRSRVQYLDLKLNEIDTVNFAE  163 (487)
T ss_dssp             CEEECCSSCCCCEE----------------ECCCSSCEEEECCSSCCCSGGGB--CGGGGSSEEEEECTTSCCCEEEGGG
T ss_pred             CEEECcCCcCCCCC----------------ccccCCCCEEECCCCCCCCCCch--hhcCCCCCCEEECCCCCCCCcChHH
Confidence            99999999773321                12356788888877766554221  1123455777777776652222223


Q ss_pred             hh-hhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cccCCCCccEEEEEccCCcccccc
Q 040318          188 LA-YMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WLAFAPNLKIIVIMHCDDLEEIIS  265 (366)
Q Consensus       188 l~-~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l~~l~~L~~L~L~~c~~~~~~~~  265 (366)
                      +. .+++|+.|++++|.+..+...          ..+++|+.|++++| .++.++ .+..+++|+.|++++|.... +..
T Consensus       164 l~~~l~~L~~L~Ls~N~l~~~~~~----------~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~L~~L~Ls~N~l~~-lp~  231 (487)
T 3oja_A          164 LAASSDTLEHLNLQYNFIYDVKGQ----------VVFAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVL-IEK  231 (487)
T ss_dssp             GGGGTTTCCEEECTTSCCCEEECC----------CCCTTCCEEECCSS-CCCEECGGGGGGTTCSEEECTTSCCCE-ECT
T ss_pred             HhhhCCcccEEecCCCcccccccc----------ccCCCCCEEECCCC-CCCCCCHhHcCCCCccEEEecCCcCcc-cch
Confidence            33 567777777777777655321          24677777777777 566643 45567777777777765432 221


Q ss_pred             ccccccccccccccccccccccccccccccc-ccccCCCcCCCCccEEecc
Q 040318          266 VEKLNQLSDIMGELNFFAKLELLDLYHAENL-KSIYQGALPLPQLKEIRVT  315 (366)
Q Consensus       266 ~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~L~~L~l~  315 (366)
                                  .+..+++|+.|++++++-. ..++.....++.|+.+++.
T Consensus       232 ------------~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~~  270 (487)
T 3oja_A          232 ------------ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ  270 (487)
T ss_dssp             ------------TCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHHHHH
T ss_pred             ------------hhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEEecc
Confidence                        4556677777777765433 1222223345666666664

>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=3.6e-18  Score=147.76  Aligned_cols=196  Identities=15%  Similarity=0.148  Sum_probs=104.3

Q ss_pred             cccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCC-CccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCC
Q 040318           31 SWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTD-IRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKL  107 (366)
Q Consensus        31 ~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~-i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L  107 (366)
                      +|++|++++|    .++.++. .+..+++|++|++++|. ++.++. .+..+++|++|++++|+.+..++...+.++++|
T Consensus        32 ~l~~L~l~~n----~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L  107 (239)
T 2xwt_C           32 STQTLKLIET----HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLL  107 (239)
T ss_dssp             TCCEEEEESC----CCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTC
T ss_pred             cccEEEEeCC----cceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCC
Confidence            5555555555    4555543 34455555555555554 554443 345555555555555445555554335555555


Q ss_pred             cEEEccCCCCCCccccccccccchHHHHHhhcCCCCcc---eEEEEec-ccccccccccccccccccc-EEEEeccCCCC
Q 040318          108 EVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLN---LISFSLY-SSRGVRNFLKFPKLLRITQ-ALSISDCEIPL  182 (366)
Q Consensus       108 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~---~L~l~~~-~~~~~~~~~~~~~~~~~L~-~L~l~~~~~~~  182 (366)
                      ++|++.+|.+...              + .+..+++|+   .|+++++ ....++.-  ....+++|+ .|+++++....
T Consensus       108 ~~L~l~~n~l~~l--------------p-~~~~l~~L~~L~~L~l~~N~~l~~i~~~--~~~~l~~L~~~L~l~~n~l~~  170 (239)
T 2xwt_C          108 KFLGIFNTGLKMF--------------P-DLTKVYSTDIFFILEITDNPYMTSIPVN--AFQGLCNETLTLKLYNNGFTS  170 (239)
T ss_dssp             CEEEEEEECCCSC--------------C-CCTTCCBCCSEEEEEEESCTTCCEECTT--TTTTTBSSEEEEECCSCCCCE
T ss_pred             CEEeCCCCCCccc--------------c-ccccccccccccEEECCCCcchhhcCcc--cccchhcceeEEEcCCCCCcc
Confidence            5555555544211              1 133344444   5555554 33333211  011233456 66665554421


Q ss_pred             cCccchhhhcccCceEecccc-cceeeccccCccccccccCC-CCCcEEeEecCCCCcccccccCCCCccEEEEEccC
Q 040318          183 LNVSHLAYMEHLKDLVIDNSN-LEELKTDCTGEVQKVLQCGF-RSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCD  258 (366)
Q Consensus       183 ~~~~~l~~~~~L~~L~l~~~~-l~~l~~~~~~~~~~~p~~~~-~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~  258 (366)
                      .....+.. ++|+.|++.++. ++.+....+        ..+ ++|+.|+++++ .++.++.. .+++|+.|++.++.
T Consensus       171 i~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~--------~~l~~~L~~L~l~~N-~l~~l~~~-~~~~L~~L~l~~~~  237 (239)
T 2xwt_C          171 VQGYAFNG-TKLDAVYLNKNKYLTVIDKDAF--------GGVYSGPSLLDVSQT-SVTALPSK-GLEHLKELIARNTW  237 (239)
T ss_dssp             ECTTTTTT-CEEEEEECTTCTTCCEECTTTT--------TTCSBCCSEEECTTC-CCCCCCCT-TCTTCSEEECTTC-
T ss_pred             cCHhhcCC-CCCCEEEcCCCCCcccCCHHHh--------hccccCCcEEECCCC-ccccCChh-HhccCceeeccCcc
Confidence            22212333 677788887773 776665444        356 77888888877 56666543 67788888877664

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

Probab=99.74  E-value=7.2e-18  Score=148.85  Aligned_cols=195  Identities=17%  Similarity=0.218  Sum_probs=147.2

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      ++++|+.|++.++.+..++.  +..+++|++|++++|    .+..++ .+..+++|++|++++|.++.++.. +..+++|
T Consensus        39 ~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           39 ELNSIDQIIANNSDIKSVQG--IQYLPNVRYLALGGN----KLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNL  111 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCTT--GGGCTTCCEEECTTS----CCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTC
T ss_pred             cccceeeeeeCCCCcccccc--cccCCCCcEEECCCC----CCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCC
Confidence            46789999999999988765  789999999999999    777765 588899999999999999977654 6899999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK  162 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  162 (366)
                      ++|++++ +.+..++...+.++++|++|++.+|.+...             ....+..+++|+.|+++++.....+    
T Consensus       112 ~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~-------------~~~~~~~l~~L~~L~l~~n~l~~~~----  173 (272)
T 3rfs_A          112 KELVLVE-NQLQSLPDGVFDKLTNLTYLNLAHNQLQSL-------------PKGVFDKLTNLTELDLSYNQLQSLP----  173 (272)
T ss_dssp             CEEECTT-SCCCCCCTTTTTTCTTCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCCCCC----
T ss_pred             CEEECCC-CcCCccCHHHhccCCCCCEEECCCCccCcc-------------CHHHhccCccCCEEECCCCCcCccC----
Confidence            9999999 778888876688999999999999977322             1233566777777777765443221    


Q ss_pred             cccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc
Q 040318          163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW  242 (366)
Q Consensus       163 ~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~  242 (366)
                                            ...+..+++|+.|++.+|.+..+....+        ..+++|+.|++++|+      +
T Consensus       174 ----------------------~~~~~~l~~L~~L~L~~N~l~~~~~~~~--------~~l~~L~~L~l~~N~------~  217 (272)
T 3rfs_A          174 ----------------------EGVFDKLTQLKDLRLYQNQLKSVPDGVF--------DRLTSLQYIWLHDNP------W  217 (272)
T ss_dssp             ----------------------TTTTTTCTTCCEEECCSSCCSCCCTTTT--------TTCTTCCEEECCSSC------B
T ss_pred             ----------------------HHHhcCCccCCEEECCCCcCCccCHHHH--------hCCcCCCEEEccCCC------c
Confidence                                  1134567788888888877776654333        367888888888883      2


Q ss_pred             ccCCCCccEEEEEccCC
Q 040318          243 LAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~  259 (366)
                      .+.+|+|+.|++..+..
T Consensus       218 ~~~~~~l~~l~~~~n~~  234 (272)
T 3rfs_A          218 DCTCPGIRYLSEWINKH  234 (272)
T ss_dssp             CCCTTTTHHHHHHHHHT
T ss_pred             cccCcHHHHHHHHHHhC
Confidence            24466666666655543

>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=99.73  E-value=2.1e-18  Score=168.86  Aligned_cols=275  Identities=15%  Similarity=0.074  Sum_probs=150.9

Q ss_pred             CCCCcCEEEccCCCCCccc----hhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEecc--------------
Q 040318            4 RYSNIPSILELSSNNKVFE----PSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVS--------------   65 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~----~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~--------------   65 (366)
                      .+++|+.|+++++.+..+.    ..++.++++|++|++++|    .+..++..+..+++|++|+++              
T Consensus       190 ~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~----~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  265 (592)
T 3ogk_B          190 HNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF----EILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMN  265 (592)
T ss_dssp             HCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC----BGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSC
T ss_pred             cCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc----cHHHHHHHHhhhhHHHhhcccccccccchHHHHHH
Confidence            4678888888888776221    223567888888888887    555444444444444444443              


Q ss_pred             -------------CCCCccCchhhhcCccCCEeeccccccCCCcC-hhhhcCCCCCcEEEccCCCCCCccccccccccch
Q 040318           66 -------------YTDIRGLPHELTALLNLRYLNLERTYHLSRFP-PELICSFSKLEVLRMLESGADSTAEQGSVLSEDA  131 (366)
Q Consensus        66 -------------~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  131 (366)
                                   ++....+|..+..+++|++|++++|. +.... ..++..+++|++|++..+ +            ..
T Consensus       266 l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~-~------------~~  331 (592)
T 3ogk_B          266 LVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL-LETEDHCTLIQKCPNLEVLETRNV-I------------GD  331 (592)
T ss_dssp             CCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCC-CCHHHHHHHHTTCTTCCEEEEEGG-G------------HH
T ss_pred             hhccccccccCccccchhHHHHHHhhcCCCcEEecCCCc-CCHHHHHHHHHhCcCCCEEeccCc-c------------CH
Confidence                         33333556667778888888888854 43321 123567788888877633 2            01


Q ss_pred             HHHHHhhcCCCCcceEEEEe----------ccccccccccccccc-------------------------cccccEEEEe
Q 040318          132 EPLMKELLCLKLLNLISFSL----------YSSRGVRNFLKFPKL-------------------------LRITQALSIS  176 (366)
Q Consensus       132 ~~~~~~l~~l~~L~~L~l~~----------~~~~~~~~~~~~~~~-------------------------~~~L~~L~l~  176 (366)
                      .........+++|+.|+++.          +.......+......                         +++|++|++.
T Consensus       332 ~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~  411 (592)
T 3ogk_B          332 RGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLV  411 (592)
T ss_dssp             HHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEE
T ss_pred             HHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEe
Confidence            12222234455566666652          211111111111122                         3345555554


Q ss_pred             cc---CCCCcCc----c--chhhhcccCceEecc--cccceeeccccCccccccccCCCCCcEEeEecCCCCcc--cc-c
Q 040318          177 DC---EIPLLNV----S--HLAYMEHLKDLVIDN--SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--LT-W  242 (366)
Q Consensus       177 ~~---~~~~~~~----~--~l~~~~~L~~L~l~~--~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--l~-~  242 (366)
                      .+   ...+..+    .  .+..+++|++|+++.  +.+.+......+       ..+++|+.|++++| .+++  ++ .
T Consensus       412 ~~~~~n~l~~~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~-------~~~~~L~~L~L~~n-~l~~~~~~~~  483 (592)
T 3ogk_B          412 LLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIG-------QYSPNVRWMLLGYV-GESDEGLMEF  483 (592)
T ss_dssp             ECSCCSCCSSCCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHH-------HSCTTCCEEEECSC-CSSHHHHHHH
T ss_pred             ecCCCccccCchHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHH-------HhCccceEeeccCC-CCCHHHHHHH
Confidence            22   2211100    0  233455555555542  112221111111       35899999999999 5665  33 3


Q ss_pred             ccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCC--CcCCCCccEEeccC
Q 040318          243 LAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG--ALPLPQLKEIRVTQ  316 (366)
Q Consensus       243 l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~--~~~~~~L~~L~l~~  316 (366)
                      +..+++|++|+|++|........           .....+++|++|++++|. ++.....  ...+|.+....+..
T Consensus       484 ~~~~~~L~~L~l~~n~l~~~~~~-----------~~~~~l~~L~~L~ls~n~-it~~~~~~l~~~~p~l~~~~~~~  547 (592)
T 3ogk_B          484 SRGCPNLQKLEMRGCCFSERAIA-----------AAVTKLPSLRYLWVQGYR-ASMTGQDLMQMARPYWNIELIPS  547 (592)
T ss_dssp             HTCCTTCCEEEEESCCCBHHHHH-----------HHHHHCSSCCEEEEESCB-CCTTCTTGGGGCCTTEEEEEECC
T ss_pred             HhcCcccCeeeccCCCCcHHHHH-----------HHHHhcCccCeeECcCCc-CCHHHHHHHHHhCCCcEEEEecC
Confidence            46889999999999983222111           133568999999999997 5443322  33567666555543

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

Probab=99.73  E-value=3.8e-17  Score=144.00  Aligned_cols=178  Identities=21%  Similarity=0.240  Sum_probs=141.1

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCch-hhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~   83 (366)
                      ++++.|++++|.+..++...|..+++|++|++++|    .++.++.. +..+++|++|++++|.++.+|. .+..+++|+
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n----~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  112 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDN----KLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLA  112 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSS----CCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCC
T ss_pred             CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCC----ccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCC
Confidence            56999999999999988766999999999999999    78888765 4779999999999999998765 468899999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++...+..+++|++|++++|.+...             ....+..+++|+.|+++++.....      
T Consensus       113 ~L~l~~-n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-------------~~~~~~~l~~L~~L~L~~n~l~~~------  172 (270)
T 2o6q_A          113 ELRLDR-NQLKSLPPRVFDSLTKLTYLSLGYNELQSL-------------PKGVFDKLTSLKELRLYNNQLKRV------  172 (270)
T ss_dssp             EEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCSCC------
T ss_pred             EEECCC-CccCeeCHHHhCcCcCCCEEECCCCcCCcc-------------CHhHccCCcccceeEecCCcCcEe------
Confidence            999999 788888876688999999999999977322             123356677777777766543332      


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCC
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCS  235 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~  235 (366)
                                          ....+..+++|+.|++.+|.++.+....+        ..+++|+.|++++++
T Consensus       173 --------------------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~--------~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          173 --------------------PEGAFDKLTELKTLKLDNNQLKRVPEGAF--------DSLEKLKMLQLQENP  216 (270)
T ss_dssp             --------------------CTTTTTTCTTCCEEECCSSCCSCCCTTTT--------TTCTTCCEEECCSSC
T ss_pred             --------------------ChhHhccCCCcCEEECCCCcCCcCCHHHh--------ccccCCCEEEecCCC
Confidence                                11245567888888888888877665444        367889999998885

>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=3.1e-17  Score=145.06  Aligned_cols=153  Identities=16%  Similarity=0.229  Sum_probs=105.2

Q ss_pred             EEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEc
Q 040318           34 CLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM  112 (366)
Q Consensus        34 ~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l  112 (366)
                      ..+..+.    .+..+|..+.  ++|++|++++|+++.++. .+.++++|++|++++ +.+..++...+.++++|++|++
T Consensus        11 ~~~c~~~----~l~~ip~~l~--~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~L   83 (276)
T 2z62_A           11 TYQCMEL----NFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR-CEIQTIEDGAYQSLSHLSTLIL   83 (276)
T ss_dssp             EEECTTS----CCSSCCSSSC--TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTT-CCCCEECTTTTTTCTTCCEEEC
T ss_pred             eEEecCC----CccccCCCCC--CCccEEECCCCcccccCHhHhccccCCcEEECCC-CcCCccCHHHccCCcCCCEEEC
Confidence            3455555    6777887654  689999999999997765 788999999999999 6888887655899999999999


Q ss_pred             cCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcC-ccchhhh
Q 040318          113 LESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLN-VSHLAYM  191 (366)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~~l~~~  191 (366)
                      ++|.+.             ...+..+..+++|+.|+++++.....+...  ...+++|++|+++++...... ...+..+
T Consensus        84 ~~n~l~-------------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~--~~~l~~L~~L~l~~n~l~~~~l~~~~~~l  148 (276)
T 2z62_A           84 TGNPIQ-------------SLALGAFSGLSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNL  148 (276)
T ss_dssp             TTCCCC-------------EECTTTTTTCTTCCEEECTTSCCCCSTTCC--CTTCTTCCEEECCSSCCCCCCCCGGGGGC
T ss_pred             CCCccC-------------ccChhhhcCCccccEEECCCCCccccCchh--cccCCCCCEEECcCCccceecCchhhccC
Confidence            999772             222356778899999999877655443211  122344666666655542211 1245555


Q ss_pred             cccCceEecccccceee
Q 040318          192 EHLKDLVIDNSNLEELK  208 (366)
Q Consensus       192 ~~L~~L~l~~~~l~~l~  208 (366)
                      ++|+.|++++|+++.+.
T Consensus       149 ~~L~~L~Ls~N~l~~~~  165 (276)
T 2z62_A          149 TNLEHLDLSSNKIQSIY  165 (276)
T ss_dssp             TTCCEEECCSSCCCEEC
T ss_pred             CCCCEEECCCCCCCcCC
Confidence            56666666555555443

>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=99.72  E-value=9.4e-18  Score=145.15  Aligned_cols=207  Identities=14%  Similarity=0.137  Sum_probs=141.9

Q ss_pred             CcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccC-CCCCCccc
Q 040318           45 SLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLE-SGADSTAE  122 (366)
Q Consensus        45 ~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~-~~~~~~~~  122 (366)
                      .++.+|. +.  .+|++|++++|+++.+|. .+..+++|++|++++|..++.++...+.++++|++|++.+ +.+..   
T Consensus        22 ~l~~ip~-~~--~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~---   95 (239)
T 2xwt_C           22 DIQRIPS-LP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTY---   95 (239)
T ss_dssp             SCSSCCC-CC--TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCE---
T ss_pred             CccccCC-CC--CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeE---
Confidence            4566776 43  478888888888887765 6778888888888883347777765578888888888887 66521   


Q ss_pred             cccccccchHHHHHhhcCCCCcceEEEEecccccccccccccccccccc---EEEEecc-CCCCcCccchhhhcccC-ce
Q 040318          123 QGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQ---ALSISDC-EIPLLNVSHLAYMEHLK-DL  197 (366)
Q Consensus       123 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~---~L~l~~~-~~~~~~~~~l~~~~~L~-~L  197 (366)
                                .....+..+++|+.|+++++....++.+..    +.+|+   .|+++++ .........+..+++|+ .|
T Consensus        96 ----------i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~----l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L  161 (239)
T 2xwt_C           96 ----------IDPDALKELPLLKFLGIFNTGLKMFPDLTK----VYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTL  161 (239)
T ss_dssp             ----------ECTTSEECCTTCCEEEEEEECCCSCCCCTT----CCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEE
T ss_pred             ----------cCHHHhCCCCCCCEEeCCCCCCcccccccc----ccccccccEEECCCCcchhhcCcccccchhcceeEE
Confidence                      123456678888888888887776665333    23355   8888887 44222222577788888 88


Q ss_pred             EecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCC-CCccEEEEEccCCccccccccccccccc
Q 040318          198 VIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFA-PNLKIIVIMHCDDLEEIISVEKLNQLSD  274 (366)
Q Consensus       198 ~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l-~~L~~L~L~~c~~~~~~~~~~~~~~~~~  274 (366)
                      ++++++++.++...+        .. ++|+.|++++|+.++.++  .+..+ ++|++|+++++.. +.+.          
T Consensus       162 ~l~~n~l~~i~~~~~--------~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N~l-~~l~----------  221 (239)
T 2xwt_C          162 KLYNNGFTSVQGYAF--------NG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSV-TALP----------  221 (239)
T ss_dssp             ECCSCCCCEECTTTT--------TT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTCCC-CCCC----------
T ss_pred             EcCCCCCcccCHhhc--------CC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCCcc-ccCC----------
Confidence            888888877765433        12 678888888885577764  35567 8888888887654 3331          


Q ss_pred             ccccccccccccccccccccc
Q 040318          275 IMGELNFFAKLELLDLYHAEN  295 (366)
Q Consensus       275 ~~~~~~~~~~L~~L~l~~~~~  295 (366)
                          ...+++|+.|.++++..
T Consensus       222 ----~~~~~~L~~L~l~~~~~  238 (239)
T 2xwt_C          222 ----SKGLEHLKELIARNTWT  238 (239)
T ss_dssp             ----CTTCTTCSEEECTTC--
T ss_pred             ----hhHhccCceeeccCccC
Confidence                12678888888877653

>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=99.70  E-value=2.5e-18  Score=159.60  Aligned_cols=245  Identities=14%  Similarity=0.130  Sum_probs=135.6

Q ss_pred             cchhhhhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCc----cCchhh-------hcCccCCE
Q 040318           21 FEPSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIR----GLPHEL-------TALLNLRY   84 (366)
Q Consensus        21 l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~----~l~~~i-------~~l~~L~~   84 (366)
                      ++.. +..+++|++|++++|    .++.     ++..+..+++|++|++++|.+.    .+|..+       ..+++|++
T Consensus        24 l~~~-l~~~~~L~~L~L~~n----~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~   98 (386)
T 2ca6_A           24 VFAV-LLEDDSVKEIVLSGN----TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHT   98 (386)
T ss_dssp             TSHH-HHHCSCCCEEECTTS----EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCE
T ss_pred             HHHH-HhcCCCccEEECCCC----CCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccE
Confidence            4444 566777777777777    4443     2233556777777777776443    233333       56677777


Q ss_pred             eeccccccCCC-----cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCC---------CCcceEEEE
Q 040318           85 LNLERTYHLSR-----FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCL---------KLLNLISFS  150 (366)
Q Consensus        85 L~L~~c~~~~~-----l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l---------~~L~~L~l~  150 (366)
                      |++++ +.+..     ++.. +..+++|++|++++|.+...         ........+..+         ++|+.|+++
T Consensus        99 L~Ls~-n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~~~---------~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~  167 (386)
T 2ca6_A           99 VRLSD-NAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLGPQ---------AGAKIARALQELAVNKKAKNAPPLRSIICG  167 (386)
T ss_dssp             EECCS-CCCCTTTHHHHHHH-HHHCTTCCEEECCSSCCHHH---------HHHHHHHHHHHHHHHHHHHTCCCCCEEECC
T ss_pred             EECCC-CcCCHHHHHHHHHH-HHhCCCCCEEECcCCCCCHH---------HHHHHHHHHHHHhhhhhcccCCCCcEEECC
Confidence            77777 45544     3433 66677777777777765100         001122223333         677777777


Q ss_pred             ecccc--ccccccccccccccccEEEEeccCCCCcC----cc-chhhhcccCceEecccccceeeccccCccccccccCC
Q 040318          151 LYSSR--GVRNFLKFPKLLRITQALSISDCEIPLLN----VS-HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGF  223 (366)
Q Consensus       151 ~~~~~--~~~~~~~~~~~~~~L~~L~l~~~~~~~~~----~~-~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~  223 (366)
                      ++...  ..+.+......+++|++|++++|......    .. .+..+++|+.|++++|.+.+.+.....  ..  ...+
T Consensus       168 ~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~--~~--l~~~  243 (386)
T 2ca6_A          168 RNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA--IA--LKSW  243 (386)
T ss_dssp             SSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH--HH--GGGC
T ss_pred             CCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHH--HH--HccC
Confidence            66654  23332232333456777777777551100    11 455677788888877776432211110  00  0356


Q ss_pred             CCCcEEeEecCCCCccc------ccc--cCCCCccEEEEEccCCcccccccccccccccccccc-ccccccccccccccc
Q 040318          224 RSLHLASIAFCSRVKDL------TWL--AFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGEL-NFFAKLELLDLYHAE  294 (366)
Q Consensus       224 ~~L~~L~l~~~~~l~~l------~~l--~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~  294 (366)
                      ++|+.|++++| .+++.      ..+  +.+++|++|+|++|........        .+...+ ..+++|++|+++++.
T Consensus       244 ~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~--------~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          244 PNLRELGLNDC-LLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVR--------TLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             TTCCEEECTTC-CCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHH--------HHHHHHHHHCTTCCEEECTTSB
T ss_pred             CCcCEEECCCC-CCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHH--------HHHHHHHhcCCCceEEEccCCc
Confidence            77888888887 45543      123  3377888888887765442110        011133 346788888887764

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

Probab=99.70  E-value=3e-17  Score=147.67  Aligned_cols=136  Identities=12%  Similarity=0.057  Sum_probs=87.4

Q ss_pred             CCcCEEEccCCCCCc--cchh-hhhcCCcccEEECCCCCCCCCcCc-cCccc--cccccCCEEeccCCCCccC-c----h
Q 040318            6 SNIPSILELSSNNKV--FEPS-WFLSRASWTCLDNGPSRIKNSLTE-LPSGI--SSLVSLQHLDVSYTDIRGL-P----H   74 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~--l~~~-~~~~~~~L~~L~l~~~~~~~~~~~-l~~~~--~~l~~L~~L~l~~~~i~~l-~----~   74 (366)
                      ..++.+.+.+..+..  +... .+..+++|++|++++|    .+.. .|..+  ..+++|++|++++|.++.. +    .
T Consensus        64 ~~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n----~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~  139 (310)
T 4glp_A           64 LRVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDL----KITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAEL  139 (310)
T ss_dssp             CCCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESC----CCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHH
T ss_pred             cceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCC----EeccchhhhhhhccCCCCCEEEeecccccchhhhhHHH
Confidence            346677777666543  1110 0223466888888888    5553 45555  7788888889988877732 2    2


Q ss_pred             hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHH--HhhcCCCCcceEEEEec
Q 040318           75 ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLM--KELLCLKLLNLISFSLY  152 (366)
Q Consensus        75 ~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~--~~l~~l~~L~~L~l~~~  152 (366)
                      .+..+++|++|++++ +.+..++...+..+++|++|++++|.+..           .....  ..+..+++|++|+++++
T Consensus       140 ~~~~~~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-----------~~~~~~~~~~~~l~~L~~L~Ls~N  207 (310)
T 4glp_A          140 QQWLKPGLKVLSIAQ-AHSPAFSCEQVRAFPALTSLDLSDNPGLG-----------ERGLMAALCPHKFPAIQNLALRNT  207 (310)
T ss_dssp             HTTBCSCCCEEEEEC-CSSCCCCTTSCCCCTTCCEEECCSCTTCH-----------HHHHHTTSCTTSSCCCCSCBCCSS
T ss_pred             HhhhccCCCEEEeeC-CCcchhhHHHhccCCCCCEEECCCCCCcc-----------chhhhHHHhhhcCCCCCEEECCCC
Confidence            345688888888888 66777665557788888999988886511           01111  12356777888877776


Q ss_pred             ccccc
Q 040318          153 SSRGV  157 (366)
Q Consensus       153 ~~~~~  157 (366)
                      .....
T Consensus       208 ~l~~l  212 (310)
T 4glp_A          208 GMETP  212 (310)
T ss_dssp             CCCCH
T ss_pred             CCCch
Confidence            65443

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.70  E-value=4.4e-18  Score=154.73  Aligned_cols=202  Identities=17%  Similarity=0.112  Sum_probs=146.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCc--cCccccccccCCEEeccCCCCc-cCchhhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTE--LPSGISSLVSLQHLDVSYTDIR-GLPHELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~--l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~~L   82 (366)
                      ++++.|++.++.+...+.. +..+++|++|++++|    .++.  ++..+..+++|++|++++|.++ ..+..+..+++|
T Consensus        70 ~~l~~L~l~~n~l~~~~~~-~~~~~~L~~L~L~~~----~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L  144 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAE-HFSPFRVQHMDLSNS----VIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNL  144 (336)
T ss_dssp             TTCSEEECTTCEECSCCCS-CCCCBCCCEEECTTC----EECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTC
T ss_pred             ccceEEEcCCccccccchh-hccCCCCCEEEccCC----CcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCC
Confidence            7899999999998876666 567999999999999    5553  6777888999999999999887 567788899999


Q ss_pred             CEeeccccccCCC--cChhhhcCCCCCcEEEccCC-CCCCccccccccccchHHHHHhhcCCC-CcceEEEEeccc-ccc
Q 040318           83 RYLNLERTYHLSR--FPPELICSFSKLEVLRMLES-GADSTAEQGSVLSEDAEPLMKELLCLK-LLNLISFSLYSS-RGV  157 (366)
Q Consensus        83 ~~L~L~~c~~~~~--l~~~~l~~l~~L~~L~l~~~-~~~~~~~~~~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~-~~~  157 (366)
                      ++|++++|..++.  ++.. +.++++|++|++.+| .+            ........+..++ +|+.|+++++.. ...
T Consensus       145 ~~L~L~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~~~l------------~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~  211 (336)
T 2ast_B          145 VRLNLSGCSGFSEFALQTL-LSSCSRLDELNLSWCFDF------------TEKHVQVAVAHVSETITQLNLSGYRKNLQK  211 (336)
T ss_dssp             SEEECTTCBSCCHHHHHHH-HHHCTTCCEEECCCCTTC------------CHHHHHHHHHHSCTTCCEEECCSCGGGSCH
T ss_pred             CEEECCCCCCCCHHHHHHH-HhcCCCCCEEcCCCCCCc------------ChHHHHHHHHhcccCCCEEEeCCCcccCCH
Confidence            9999999756764  5543 788999999999999 66            1223566677788 888888876531 110


Q ss_pred             ccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccc-cceeeccccCccccccccCCCCCcEEeEecCCC
Q 040318          158 RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSN-LEELKTDCTGEVQKVLQCGFRSLHLASIAFCSR  236 (366)
Q Consensus       158 ~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~-l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~  236 (366)
                      ..+..                        .+..+++|+.|++.++. +++.....+        ..+++|+.|++++|..
T Consensus       212 ~~l~~------------------------~~~~~~~L~~L~l~~~~~l~~~~~~~l--------~~l~~L~~L~l~~~~~  259 (336)
T 2ast_B          212 SDLST------------------------LVRRCPNLVHLDLSDSVMLKNDCFQEF--------FQLNYLQHLSLSRCYD  259 (336)
T ss_dssp             HHHHH------------------------HHHHCTTCSEEECTTCTTCCGGGGGGG--------GGCTTCCEEECTTCTT
T ss_pred             HHHHH------------------------HHhhCCCCCEEeCCCCCcCCHHHHHHH--------hCCCCCCEeeCCCCCC
Confidence            11111                        33456667777776655 433222222        3568888888888864


Q ss_pred             Ccc--cccccCCCCccEEEEEcc
Q 040318          237 VKD--LTWLAFAPNLKIIVIMHC  257 (366)
Q Consensus       237 l~~--l~~l~~l~~L~~L~L~~c  257 (366)
                      ++.  +..++.+++|++|++++|
T Consensus       260 ~~~~~~~~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          260 IIPETLLELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             CCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CCHHHHHHHhcCCCCCEEeccCc
Confidence            443  334667888888888888

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

Probab=99.70  E-value=1.3e-16  Score=142.04  Aligned_cols=184  Identities=16%  Similarity=0.216  Sum_probs=125.1

Q ss_pred             ccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeecccccc
Q 040318           13 ELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYH   92 (366)
Q Consensus        13 l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~   92 (366)
                      +..+.+.++..  +..+++|++|++++|    .++.++. +..+++|++|++++|.++.++. +..+++|++|++++ +.
T Consensus        31 l~~~~~~~~~~--~~~l~~L~~L~l~~~----~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~-n~  101 (291)
T 1h6t_A           31 LKKKSVTDAVT--QNELNSIDQIIANNS----DIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDE-NK  101 (291)
T ss_dssp             TTCSCTTSEEC--HHHHHTCCEEECTTS----CCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCS-SC
T ss_pred             hcCCCcccccc--hhhcCcccEEEccCC----CcccChh-HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCC-Cc
Confidence            34444544433  456777888888887    6666654 6677888888888887777665 77778888888877 56


Q ss_pred             CCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccE
Q 040318           93 LSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQA  172 (366)
Q Consensus        93 ~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~  172 (366)
                      +..++.  +..+++|++|++++|.+..               ...+..+++|+.|+++++.....               
T Consensus       102 l~~~~~--l~~l~~L~~L~L~~n~i~~---------------~~~l~~l~~L~~L~l~~n~l~~~---------------  149 (291)
T 1h6t_A          102 VKDLSS--LKDLKKLKSLSLEHNGISD---------------INGLVHLPQLESLYLGNNKITDI---------------  149 (291)
T ss_dssp             CCCGGG--GTTCTTCCEEECTTSCCCC---------------CGGGGGCTTCCEEECCSSCCCCC---------------
T ss_pred             CCCChh--hccCCCCCEEECCCCcCCC---------------ChhhcCCCCCCEEEccCCcCCcc---------------
Confidence            666655  7778888888888776521               12345556666666654433222               


Q ss_pred             EEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEE
Q 040318          173 LSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKII  252 (366)
Q Consensus       173 L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L  252 (366)
                                   ..+..+++|+.|++++|.+..+..  +        ..+++|+.|++++| .+++++.+..+++|+.|
T Consensus       150 -------------~~l~~l~~L~~L~L~~N~l~~~~~--l--------~~l~~L~~L~L~~N-~i~~l~~l~~l~~L~~L  205 (291)
T 1h6t_A          150 -------------TVLSRLTKLDTLSLEDNQISDIVP--L--------AGLTKLQNLYLSKN-HISDLRALAGLKNLDVL  205 (291)
T ss_dssp             -------------GGGGGCTTCSEEECCSSCCCCCGG--G--------TTCTTCCEEECCSS-CCCBCGGGTTCTTCSEE
T ss_pred             -------------hhhccCCCCCEEEccCCccccchh--h--------cCCCccCEEECCCC-cCCCChhhccCCCCCEE
Confidence                         144566777888887777765543  1        46788888888888 68888778888888888


Q ss_pred             EEEccCCcc
Q 040318          253 VIMHCDDLE  261 (366)
Q Consensus       253 ~L~~c~~~~  261 (366)
                      ++++|....
T Consensus       206 ~l~~n~i~~  214 (291)
T 1h6t_A          206 ELFSQECLN  214 (291)
T ss_dssp             EEEEEEEEC
T ss_pred             ECcCCcccC
Confidence            888876444

>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=99.70  E-value=8.9e-17  Score=143.12  Aligned_cols=177  Identities=18%  Similarity=0.149  Sum_probs=141.8

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      .++++.|++++|.+..++...+..+++|++|++++|    .++.++.. ..+++|++|++++|.++.+|..+..+++|++
T Consensus        30 ~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~-~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~  104 (290)
T 1p9a_G           30 PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA----ELTKLQVD-GTLPVLGTLDLSHNQLQSLPLLGQTLPALTV  104 (290)
T ss_dssp             CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS----CCCEEECC-SCCTTCCEEECCSSCCSSCCCCTTTCTTCCE
T ss_pred             CCCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCC----ccCcccCC-CCCCcCCEEECCCCcCCcCchhhccCCCCCE
Confidence            368999999999999987777999999999999999    78887664 7899999999999999999998999999999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+..++.+.+.++++|++|++.+|.+...             ....+..+++|+.|+++++....+       
T Consensus       105 L~l~~-N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~l~~l-------  163 (290)
T 1p9a_G          105 LDVSF-NRLTSLPLGALRGLGELQELYLKGNELKTL-------------PPGLLTPTPKLEKLSLANNNLTEL-------  163 (290)
T ss_dssp             EECCS-SCCCCCCSSTTTTCTTCCEEECTTSCCCCC-------------CTTTTTTCTTCCEEECTTSCCSCC-------
T ss_pred             EECCC-CcCcccCHHHHcCCCCCCEEECCCCCCCcc-------------ChhhcccccCCCEEECCCCcCCcc-------
Confidence            99999 888888866689999999999999987322             123355667777777765543322       


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCC
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCS  235 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~  235 (366)
                                         ....+..+++|+.|++++|.++.++...+         ..++|+.|++.+++
T Consensus       164 -------------------~~~~~~~l~~L~~L~L~~N~l~~ip~~~~---------~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          164 -------------------PAGLLNGLENLDTLLLQENSLYTIPKGFF---------GSHLLPFAFLHGNP  206 (290)
T ss_dssp             -------------------CTTTTTTCTTCCEEECCSSCCCCCCTTTT---------TTCCCSEEECCSCC
T ss_pred             -------------------CHHHhcCcCCCCEEECCCCcCCccChhhc---------ccccCCeEEeCCCC
Confidence                               22244567888899998888887665333         45689999998885

>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=99.70  E-value=3.7e-18  Score=158.42  Aligned_cols=245  Identities=13%  Similarity=0.083  Sum_probs=159.4

Q ss_pred             CCCCcCEEEccCCCCCccchh----hhhcCCcccEEECCCCCCCCCcC-ccCccc-------cccccCCEEeccCCCCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPS----WFLSRASWTCLDNGPSRIKNSLT-ELPSGI-------SSLVSLQHLDVSYTDIRG   71 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~-------~~l~~L~~L~l~~~~i~~   71 (366)
                      .+++|+.|++++|.+......    .+..+++|++|++++|.+. .+. .+|..+       ..+++|++|++++|.++.
T Consensus        30 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~-~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~  108 (386)
T 2ca6_A           30 EDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTG-RVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  108 (386)
T ss_dssp             HCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTT-SCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             cCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccC-ccccchhHHHHHHHHHHhhCCcccEEECCCCcCCH
Confidence            467899999998887753222    2567889999999987211 111 234333       578899999999998875


Q ss_pred             -----CchhhhcCccCCEeeccccccCCCcChhh----hcCC---------CCCcEEEccCCCCCCccccccccccchHH
Q 040318           72 -----LPHELTALLNLRYLNLERTYHLSRFPPEL----ICSF---------SKLEVLRMLESGADSTAEQGSVLSEDAEP  133 (366)
Q Consensus        72 -----l~~~i~~l~~L~~L~L~~c~~~~~l~~~~----l~~l---------~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  133 (366)
                           +|..+..+++|++|++++ +.+.......    +..+         ++|++|++++|.+...         ....
T Consensus       109 ~~~~~l~~~l~~~~~L~~L~L~~-n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~---------~~~~  178 (386)
T 2ca6_A          109 TAQEPLIDFLSKHTPLEHLYLHN-NGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG---------SMKE  178 (386)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCS-SCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG---------GHHH
T ss_pred             HHHHHHHHHHHhCCCCCEEECcC-CCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcH---------HHHH
Confidence                 677788889999999988 4554322111    3334         8899999999876211         1122


Q ss_pred             HHHhhcCCCCcceEEEEecccccc--ccccc-cccccccccEEEEeccCCCCc--Ccc--chhhhcccCceEecccccce
Q 040318          134 LMKELLCLKLLNLISFSLYSSRGV--RNFLK-FPKLLRITQALSISDCEIPLL--NVS--HLAYMEHLKDLVIDNSNLEE  206 (366)
Q Consensus       134 ~~~~l~~l~~L~~L~l~~~~~~~~--~~~~~-~~~~~~~L~~L~l~~~~~~~~--~~~--~l~~~~~L~~L~l~~~~l~~  206 (366)
                      ....+..+++|+.|+++++.....  ..+.. ....+++|+.|+++++.....  ..+  .+..+++|+.|++++|.+..
T Consensus       179 l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~  258 (386)
T 2ca6_A          179 WAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSA  258 (386)
T ss_dssp             HHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCH
T ss_pred             HHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCch
Confidence            235677788999999988776521  12222 333456789999988875110  111  56778889999998888766


Q ss_pred             eeccccCccccccccCCCCCcEEeEecCCCCcc-----cc-cc-cCCCCccEEEEEccCCccc
Q 040318          207 LKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD-----LT-WL-AFAPNLKIIVIMHCDDLEE  262 (366)
Q Consensus       207 l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~-----l~-~l-~~l~~L~~L~L~~c~~~~~  262 (366)
                      .+.....  ..+....+++|+.|++++| .++.     ++ .+ .++++|++|++++|.....
T Consensus       259 ~~~~~l~--~~l~~~~~~~L~~L~L~~n-~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~  318 (386)
T 2ca6_A          259 RGAAAVV--DAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEE  318 (386)
T ss_dssp             HHHHHHH--HHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTT
T ss_pred             hhHHHHH--HHHhhccCCCeEEEECcCC-cCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcc
Confidence            5332110  0011124788999999998 5665     44 23 4579999999988875543

>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=99.69  E-value=1.4e-16  Score=141.93  Aligned_cols=169  Identities=21%  Similarity=0.207  Sum_probs=125.6

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++++|+.|+++++.+..++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.++.++. +..+++|+
T Consensus        44 ~l~~L~~L~l~~~~i~~~~~--~~~l~~L~~L~L~~n----~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~  115 (291)
T 1h6t_A           44 ELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGN----KLTDIKP-LANLKNLGWLFLDENKVKDLSS-LKDLKKLK  115 (291)
T ss_dssp             HHHTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCGGG-GTTCTTCC
T ss_pred             hcCcccEEEccCCCcccChh--HhcCCCCCEEEccCC----ccCCCcc-cccCCCCCEEECCCCcCCCChh-hccCCCCC
Confidence            46789999999999998865  789999999999999    7888877 8899999999999999988764 89999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|++++ +.+..++.  +..+++|++|++++|.+..               ...+..+++|+.|+++++.....+.+   
T Consensus       116 ~L~L~~-n~i~~~~~--l~~l~~L~~L~l~~n~l~~---------------~~~l~~l~~L~~L~L~~N~l~~~~~l---  174 (291)
T 1h6t_A          116 SLSLEH-NGISDING--LVHLPQLESLYLGNNKITD---------------ITVLSRLTKLDTLSLEDNQISDIVPL---  174 (291)
T ss_dssp             EEECTT-SCCCCCGG--GGGCTTCCEEECCSSCCCC---------------CGGGGGCTTCSEEECCSSCCCCCGGG---
T ss_pred             EEECCC-CcCCCChh--hcCCCCCCEEEccCCcCCc---------------chhhccCCCCCEEEccCCccccchhh---
Confidence            999999 77888764  8999999999999997721               14577788888888887766554331   


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEeccccc
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNL  204 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l  204 (366)
                       ..+++|+.|+++++..  .....+..+++|+.|++.+|.+
T Consensus       175 -~~l~~L~~L~L~~N~i--~~l~~l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          175 -AGLTKLQNLYLSKNHI--SDLRALAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             -TTCTTCCEEECCSSCC--CBCGGGTTCTTCSEEEEEEEEE
T ss_pred             -cCCCccCEEECCCCcC--CCChhhccCCCCCEEECcCCcc
Confidence             1223355555544443  1111333444444444444433

>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=99.69  E-value=5.3e-18  Score=166.06  Aligned_cols=276  Identities=12%  Similarity=0.086  Sum_probs=159.3

Q ss_pred             CCCCcCEEEccCCCCCccchh----hhhcCCcccEEECCCCCCCCC--cC--ccCccccccccCCEEeccCC-CCccCch
Q 040318            4 RYSNIPSILELSSNNKVFEPS----WFLSRASWTCLDNGPSRIKNS--LT--ELPSGISSLVSLQHLDVSYT-DIRGLPH   74 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~----~~~~~~~L~~L~l~~~~~~~~--~~--~l~~~~~~l~~L~~L~l~~~-~i~~l~~   74 (366)
                      .|++|++|++++|.+.+....    ....+++|++|++++|    .  ++  .++..+..+++|++|++++| .+..++.
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~----~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~  229 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCL----ASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLAT  229 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTC----CSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHH
T ss_pred             hCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEeccc----CCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHH
Confidence            588999999998876543222    2346779999999988    4  11  12222345789999999988 5556777


Q ss_pred             hhhcCccCCEeeccccc-------------------cCC-----------CcChhhhcCCCCCcEEEccCCCCCCccccc
Q 040318           75 ELTALLNLRYLNLERTY-------------------HLS-----------RFPPELICSFSKLEVLRMLESGADSTAEQG  124 (366)
Q Consensus        75 ~i~~l~~L~~L~L~~c~-------------------~~~-----------~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~  124 (366)
                      .+..+++|++|+++.|.                   .+.           .++. .+..+++|++|++.+|.+       
T Consensus       230 ~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~-~~~~~~~L~~L~L~~~~l-------  301 (594)
T 2p1m_B          230 LLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPA-VYSVCSRLTTLNLSYATV-------  301 (594)
T ss_dssp             HHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGG-GHHHHTTCCEEECTTCCC-------
T ss_pred             HHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHH-HHHhhCCCCEEEccCCCC-------
Confidence            77788888888755431                   111           1222 133567888888888864       


Q ss_pred             cccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEecc--------CCCCcCcc---ch-hhhc
Q 040318          125 SVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDC--------EIPLLNVS---HL-AYME  192 (366)
Q Consensus       125 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~--------~~~~~~~~---~l-~~~~  192 (366)
                           ........+..+++|+.|.+.++ .. ...+......+++|++|++.+|        ..  ....   .+ ..++
T Consensus       302 -----~~~~l~~~~~~~~~L~~L~l~~~-~~-~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~--l~~~~l~~l~~~~~  372 (594)
T 2p1m_B          302 -----QSYDLVKLLCQCPKLQRLWVLDY-IE-DAGLEVLASTCKDLRELRVFPSEPFVMEPNVA--LTEQGLVSVSMGCP  372 (594)
T ss_dssp             -----CHHHHHHHHTTCTTCCEEEEEGG-GH-HHHHHHHHHHCTTCCEEEEECSCTTCSSCSSC--CCHHHHHHHHHHCT
T ss_pred             -----CHHHHHHHHhcCCCcCEEeCcCc-cC-HHHHHHHHHhCCCCCEEEEecCcccccccCCC--CCHHHHHHHHHhch
Confidence                 12233444667788888888865 21 1122222233566778877543        22  1111   22 2366


Q ss_pred             ccCceEecccccceeeccccCccccccccCCCCCcEEeEe-----cCCCCc----------------------------c
Q 040318          193 HLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIA-----FCSRVK----------------------------D  239 (366)
Q Consensus       193 ~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~-----~~~~l~----------------------------~  239 (366)
                      +|+.|.+.++.+...+.....       ..+++|+.|++.     +|..++                            +
T Consensus       373 ~L~~L~~~~~~l~~~~~~~l~-------~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~l~~  445 (594)
T 2p1m_B          373 KLESVLYFCRQMTNAALITIA-------RNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTD  445 (594)
T ss_dssp             TCCEEEEEESCCCHHHHHHHH-------HHCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSSCCH
T ss_pred             hHHHHHHhcCCcCHHHHHHHH-------hhCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecCcccH
Confidence            777776655554432221110       134555555555     233333                            2


Q ss_pred             --cccccC-CCCccEEEEEccCCccccccccccccccccccccccccccccccccccccccccc--CCCcCCCCccEEec
Q 040318          240 --LTWLAF-APNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIY--QGALPLPQLKEIRV  314 (366)
Q Consensus       240 --l~~l~~-l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~--~~~~~~~~L~~L~l  314 (366)
                        +..++. +++|+.|+|++|......+.           ....++++|++|++++|.. +...  .....+++|+.|++
T Consensus       446 ~~~~~l~~~~~~L~~L~L~~~~i~~~~~~-----------~l~~~~~~L~~L~L~~n~~-~~~~~~~~~~~l~~L~~L~l  513 (594)
T 2p1m_B          446 KVFEYIGTYAKKMEMLSVAFAGDSDLGMH-----------HVLSGCDSLRKLEIRDCPF-GDKALLANASKLETMRSLWM  513 (594)
T ss_dssp             HHHHHHHHHCTTCCEEEEESCCSSHHHHH-----------HHHHHCTTCCEEEEESCSC-CHHHHHHTGGGGGGSSEEEE
T ss_pred             HHHHHHHHhchhccEeeccCCCCcHHHHH-----------HHHhcCCCcCEEECcCCCC-cHHHHHHHHHhCCCCCEEee
Confidence              111222 56666666666653222211           1225689999999998875 3222  12345889999999


Q ss_pred             cCCCC
Q 040318          315 TQCPK  319 (366)
Q Consensus       315 ~~c~~  319 (366)
                      ++|+.
T Consensus       514 ~~~~~  518 (594)
T 2p1m_B          514 SSCSV  518 (594)
T ss_dssp             ESSCC
T ss_pred             eCCCC
Confidence            99975

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.68  E-value=6.1e-17  Score=148.86  Aligned_cols=259  Identities=12%  Similarity=0.044  Sum_probs=150.0

Q ss_pred             EEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-----ccccccc-cCCEEeccCCCCccC-chhhhcC---
Q 040318           10 SILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-----SGISSLV-SLQHLDVSYTDIRGL-PHELTAL---   79 (366)
Q Consensus        10 ~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-----~~~~~l~-~L~~L~l~~~~i~~l-~~~i~~l---   79 (366)
                      ++.++.+++....+.++...++|++|++++|    .++..+     ..+..++ +|++|++++|.++.. +..+..+   
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n----~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~   77 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLN----NLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAA   77 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEECTTS----CGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHT
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEccCC----CCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhc
Confidence            3566777777655554555556888888888    666654     3455666 788888888877643 3444443   


Q ss_pred             --ccCCEeeccccccCCCcChh----hhcCC-CCCcEEEccCCCCCCccccccccccchHHHHHhhcCC-CCcceEEEEe
Q 040318           80 --LNLRYLNLERTYHLSRFPPE----LICSF-SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCL-KLLNLISFSL  151 (366)
Q Consensus        80 --~~L~~L~L~~c~~~~~l~~~----~l~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~  151 (366)
                        ++|++|++++ +.++..+..    .+..+ ++|++|++++|.+...         ........+..+ ++|++|++++
T Consensus        78 ~~~~L~~L~Ls~-n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~---------~~~~l~~~l~~~~~~L~~L~Ls~  147 (362)
T 3goz_A           78 IPANVTSLNLSG-NFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSK---------SSSEFKQAFSNLPASITSLNLRG  147 (362)
T ss_dssp             SCTTCCEEECCS-SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGS---------CHHHHHHHHTTSCTTCCEEECTT
T ss_pred             cCCCccEEECcC-CcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcH---------HHHHHHHHHHhCCCceeEEEccC
Confidence              7788888887 455544432    13344 7788888888766221         112233345553 5788888877


Q ss_pred             ccccccc--ccccccccc-ccccEEEEeccCCCCcCcc----chhhh-cccCceEecccccceeeccccCccccccccCC
Q 040318          152 YSSRGVR--NFLKFPKLL-RITQALSISDCEIPLLNVS----HLAYM-EHLKDLVIDNSNLEELKTDCTGEVQKVLQCGF  223 (366)
Q Consensus       152 ~~~~~~~--~~~~~~~~~-~~L~~L~l~~~~~~~~~~~----~l~~~-~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~  223 (366)
                      +...+..  .+....... .+|++|+++++........    .+..+ ++|++|++++|.+.+.+.....  ..+ ....
T Consensus       148 N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~--~~l-~~~~  224 (362)
T 3goz_A          148 NDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELA--YIF-SSIP  224 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHH--HHH-HHSC
T ss_pred             CcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHH--HHH-hcCC
Confidence            6654321  111111111 2578888877765222221    23334 4888888888877764332110  000 0124


Q ss_pred             CCCcEEeEecCCCCcccc------cccCCCCccEEEEEccCC---ccccccccccccccccccccccccccccccccccc
Q 040318          224 RSLHLASIAFCSRVKDLT------WLAFAPNLKIIVIMHCDD---LEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAE  294 (366)
Q Consensus       224 ~~L~~L~l~~~~~l~~l~------~l~~l~~L~~L~L~~c~~---~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  294 (366)
                      ++|+.|++++| .+++..      .+..+++|+.|++++|..   .....        ..+...+..+++|+.|++++..
T Consensus       225 ~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~--------~~l~~~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          225 NHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQC--------KALGAAFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             TTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHHHHTTCCHHHH--------HHHHTTSTTCCEEEEECTTSCB
T ss_pred             CCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccCCccccCHHHH--------HHHHHHhccCCceEEEecCCCc
Confidence            58888888888 565532      235678888888888761   11111        1222355677788888887653

>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=99.67  E-value=2.6e-17  Score=161.09  Aligned_cols=38  Identities=13%  Similarity=0.046  Sum_probs=21.0

Q ss_pred             ccccccccccccccccccccccCC--CcCCCCccEEeccCCC
Q 040318          279 LNFFAKLELLDLYHAENLKSIYQG--ALPLPQLKEIRVTQCP  318 (366)
Q Consensus       279 ~~~~~~L~~L~l~~~~~l~~~~~~--~~~~~~L~~L~l~~c~  318 (366)
                      +..+++|++|++++  .++.....  ...+++|+.|++++|.
T Consensus       428 ~~~~~~L~~L~L~~--~l~~~~~~~l~~~~~~L~~L~L~~~~  467 (594)
T 2p1m_B          428 VEHCKDLRRLSLSG--LLTDKVFEYIGTYAKKMEMLSVAFAG  467 (594)
T ss_dssp             HHHCTTCCEEECCS--SCCHHHHHHHHHHCTTCCEEEEESCC
T ss_pred             HhhCCCccEEeecC--cccHHHHHHHHHhchhccEeeccCCC
Confidence            34566777777755  22221111  1126788888887764

>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=99.67  E-value=2.1e-16  Score=144.58  Aligned_cols=223  Identities=14%  Similarity=0.090  Sum_probs=100.3

Q ss_pred             EEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCc-cCch-hhhcCccCCEee
Q 040318           10 SILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIR-GLPH-ELTALLNLRYLN   86 (366)
Q Consensus        10 ~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~-~l~~-~i~~l~~L~~L~   86 (366)
                      .++-++++++++|..+   .+++++|++++|    .++.+|. .+.++++|++|++++|.+. .+|. .+.++++++++.
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   85 (350)
T 4ay9_X           13 VFLCQESKVTEIPSDL---PRNAIELRFVLT----KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIR   85 (350)
T ss_dssp             EEEEESTTCCSCCTTC---CTTCSEEEEESC----CCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEE
T ss_pred             EEEecCCCCCccCcCc---CCCCCEEEccCC----cCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhh
Confidence            3444444555555431   234555555555    4455543 2444555555555555443 2332 234444544433


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCcccccccc------------ccchHHHHHhhcCC-CCcceEEEEecc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVL------------SEDAEPLMKELLCL-KLLNLISFSLYS  153 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~------------~~~~~~~~~~l~~l-~~L~~L~l~~~~  153 (366)
                      ...++.+..++.+.+..+++|++|++.+|.+...+......            .....-....+..+ ..++.|.++++.
T Consensus        86 ~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~  165 (350)
T 4ay9_X           86 IEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG  165 (350)
T ss_dssp             EEEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC
T ss_pred             cccCCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccc
Confidence            33334455554433455555555555555442221000000            00000001112222 345555555554


Q ss_pred             ccccccccccccccccccEEEEeccCCCCcCcc---chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEe
Q 040318          154 SRGVRNFLKFPKLLRITQALSISDCEIPLLNVS---HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLAS  230 (366)
Q Consensus       154 ~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~---~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~  230 (366)
                      ...++....   ...+++.+.+.+++.  ...+   .+..+++|+.|++++|+++.++.           ..+.+|++|.
T Consensus       166 i~~i~~~~f---~~~~L~~l~l~~~n~--l~~i~~~~f~~l~~L~~LdLs~N~l~~lp~-----------~~~~~L~~L~  229 (350)
T 4ay9_X          166 IQEIHNSAF---NGTQLDELNLSDNNN--LEELPNDVFHGASGPVILDISRTRIHSLPS-----------YGLENLKKLR  229 (350)
T ss_dssp             CCEECTTSS---TTEEEEEEECTTCTT--CCCCCTTTTTTEECCSEEECTTSCCCCCCS-----------SSCTTCCEEE
T ss_pred             ccCCChhhc---cccchhHHhhccCCc--ccCCCHHHhccCcccchhhcCCCCcCccCh-----------hhhccchHhh
Confidence            444332111   112355555554443  2222   44556666666666666554433           3455666666


Q ss_pred             EecCCCCcccccccCCCCccEEEEE
Q 040318          231 IAFCSRVKDLTWLAFAPNLKIIVIM  255 (366)
Q Consensus       231 l~~~~~l~~l~~l~~l~~L~~L~L~  255 (366)
                      +.++..++.+|.+..+++|+.+++.
T Consensus       230 ~l~~~~l~~lP~l~~l~~L~~l~l~  254 (350)
T 4ay9_X          230 ARSTYNLKKLPTLEKLVALMEASLT  254 (350)
T ss_dssp             CTTCTTCCCCCCTTTCCSCCEEECS
T ss_pred             hccCCCcCcCCCchhCcChhhCcCC
Confidence            6565556666655566666666654

>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=99.66  E-value=1.3e-16  Score=155.76  Aligned_cols=184  Identities=16%  Similarity=0.197  Sum_probs=112.1

Q ss_pred             EEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeecccc
Q 040318           11 ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERT   90 (366)
Q Consensus        11 L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c   90 (366)
                      +.+..+.+.++..  +..+++|+.|++++|    .+..++. +..+++|+.|+|++|.+..++. +..+++|+.|+|++ 
T Consensus        26 l~l~~~~i~~~~~--~~~L~~L~~L~l~~n----~i~~l~~-l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~-   96 (605)
T 1m9s_A           26 DNLKKKSVTDAVT--QNELNSIDQIIANNS----DIKSVQG-IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDE-   96 (605)
T ss_dssp             HHTTCSCTTSEEC--HHHHTTCCCCBCTTC----CCCCCTT-GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCS-
T ss_pred             HhccCCCcccccc--hhcCCCCCEEECcCC----CCCCChH-HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcC-
Confidence            3444555555444  456777888888877    6666664 6777888888888887777665 77778888888877 


Q ss_pred             ccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccc
Q 040318           91 YHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRIT  170 (366)
Q Consensus        91 ~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L  170 (366)
                      +.+..++.  +..+++|++|++++|.+..               +..+..+++|+.|+++.+.....+            
T Consensus        97 N~l~~l~~--l~~l~~L~~L~Ls~N~l~~---------------l~~l~~l~~L~~L~Ls~N~l~~l~------------  147 (605)
T 1m9s_A           97 NKIKDLSS--LKDLKKLKSLSLEHNGISD---------------INGLVHLPQLESLYLGNNKITDIT------------  147 (605)
T ss_dssp             SCCCCCTT--STTCTTCCEEECTTSCCCC---------------CGGGGGCTTCSEEECCSSCCCCCG------------
T ss_pred             CCCCCChh--hccCCCCCEEEecCCCCCC---------------CccccCCCccCEEECCCCccCCch------------
Confidence            56666664  7778888888888776621               133556666666666655444331            


Q ss_pred             cEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCcc
Q 040318          171 QALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLK  250 (366)
Q Consensus       171 ~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~  250 (366)
                                      .+..+++|+.|++++|.+..+..  +        ..+++|+.|+|++| .+++++.+..+++|+
T Consensus       148 ----------------~l~~l~~L~~L~Ls~N~l~~~~~--l--------~~l~~L~~L~Ls~N-~i~~l~~l~~l~~L~  200 (605)
T 1m9s_A          148 ----------------VLSRLTKLDTLSLEDNQISDIVP--L--------AGLTKLQNLYLSKN-HISDLRALAGLKNLD  200 (605)
T ss_dssp             ----------------GGGSCTTCSEEECCSSCCCCCGG--G--------TTCTTCCEEECCSS-CCCBCGGGTTCTTCS
T ss_pred             ----------------hhcccCCCCEEECcCCcCCCchh--h--------ccCCCCCEEECcCC-CCCCChHHccCCCCC
Confidence                            23334455555555544443321  1        24555555555555 455555555555555


Q ss_pred             EEEEEccCC
Q 040318          251 IIVIMHCDD  259 (366)
Q Consensus       251 ~L~L~~c~~  259 (366)
                      .|+|++|..
T Consensus       201 ~L~L~~N~l  209 (605)
T 1m9s_A          201 VLELFSQEC  209 (605)
T ss_dssp             EEECCSEEE
T ss_pred             EEEccCCcC
Confidence            555555543

>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=99.66  E-value=3.1e-16  Score=143.52  Aligned_cols=236  Identities=15%  Similarity=0.105  Sum_probs=173.3

Q ss_pred             cEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEE-
Q 040318           33 TCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVL-  110 (366)
Q Consensus        33 ~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L-  110 (366)
                      ++++.+++    .++++|..+.  +++++|++++|+++.+|. .+.++++|++|+|++|...+.++.+++.+++++.++ 
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   85 (350)
T 4ay9_X           12 RVFLCQES----KVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIR   85 (350)
T ss_dssp             TEEEEEST----TCCSCCTTCC--TTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEE
T ss_pred             CEEEecCC----CCCccCcCcC--CCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhh
Confidence            56777777    8899998763  689999999999999986 579999999999999444466777668899988764 


Q ss_pred             EccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCcc---c
Q 040318          111 RMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVS---H  187 (366)
Q Consensus       111 ~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~---~  187 (366)
                      .+..+.+.             .-.+..+..+++|+.|+++++.....+......  ..++..+.+.++..  ....   .
T Consensus        86 ~~~~N~l~-------------~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~--~~~l~~l~l~~~~~--i~~l~~~~  148 (350)
T 4ay9_X           86 IEKANNLL-------------YINPEAFQNLPNLQYLLISNTGIKHLPDVHKIH--SLQKVLLDIQDNIN--IHTIERNS  148 (350)
T ss_dssp             EEEETTCC-------------EECTTSBCCCTTCCEEEEEEECCSSCCCCTTCC--BSSCEEEEEESCTT--CCEECTTS
T ss_pred             cccCCccc-------------ccCchhhhhccccccccccccccccCCchhhcc--cchhhhhhhccccc--cccccccc
Confidence            44456552             122456788999999999999887765543322  23467788877665  3332   4


Q ss_pred             hhhh-cccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc--ccCCCCccEEEEEccCCccccc
Q 040318          188 LAYM-EHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW--LAFAPNLKIIVIMHCDDLEEII  264 (366)
Q Consensus       188 l~~~-~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~--l~~l~~L~~L~L~~c~~~~~~~  264 (366)
                      +..+ ..++.|++++|+++.+....+         ...+|+.|.+.++..++.++.  +..+++|++|++++|. ++.+.
T Consensus       149 f~~~~~~l~~L~L~~N~i~~i~~~~f---------~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N~-l~~lp  218 (350)
T 4ay9_X          149 FVGLSFESVILWLNKNGIQEIHNSAF---------NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLP  218 (350)
T ss_dssp             STTSBSSCEEEECCSSCCCEECTTSS---------TTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTSC-CCCCC
T ss_pred             hhhcchhhhhhccccccccCCChhhc---------cccchhHHhhccCCcccCCCHHHhccCcccchhhcCCCC-cCccC
Confidence            4444 468889999999998876444         346789999987768888874  6789999999999885 44332


Q ss_pred             ccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccC
Q 040318          265 SVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQ  316 (366)
Q Consensus       265 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~  316 (366)
                                    ...+.+|+.|.+.++..++.++ ....+++|+.+++.+
T Consensus       219 --------------~~~~~~L~~L~~l~~~~l~~lP-~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          219 --------------SYGLENLKKLRARSTYNLKKLP-TLEKLVALMEASLTY  255 (350)
T ss_dssp             --------------SSSCTTCCEEECTTCTTCCCCC-CTTTCCSCCEEECSC
T ss_pred             --------------hhhhccchHhhhccCCCcCcCC-CchhCcChhhCcCCC
Confidence                          1346667777776777777776 356788999999864

>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=99.64  E-value=7.7e-16  Score=150.22  Aligned_cols=174  Identities=21%  Similarity=0.186  Sum_probs=144.1

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|+.|+++++.+..++.  +..+++|+.|++++|    .+..++. +..+++|++|+|++|.+..+| .+..+++|+
T Consensus        41 ~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           41 ELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGN----KLTDIKP-LTNLKNLGWLFLDENKIKDLS-SLKDLKKLK  112 (605)
T ss_dssp             HHTTCCCCBCTTCCCCCCTT--GGGCTTCCEEECTTS----CCCCCGG-GGGCTTCCEEECCSSCCCCCT-TSTTCTTCC
T ss_pred             cCCCCCEEECcCCCCCCChH--HccCCCCCEEEeeCC----CCCCChh-hccCCCCCEEECcCCCCCCCh-hhccCCCCC
Confidence            46889999999999998875  889999999999999    7788876 889999999999999998876 688999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      +|+|++ +.+..++.  +..+++|+.|++++|.+.               ....+..+++|+.|+++.+.......+   
T Consensus       113 ~L~Ls~-N~l~~l~~--l~~l~~L~~L~Ls~N~l~---------------~l~~l~~l~~L~~L~Ls~N~l~~~~~l---  171 (605)
T 1m9s_A          113 SLSLEH-NGISDING--LVHLPQLESLYLGNNKIT---------------DITVLSRLTKLDTLSLEDNQISDIVPL---  171 (605)
T ss_dssp             EEECTT-SCCCCCGG--GGGCTTCSEEECCSSCCC---------------CCGGGGSCTTCSEEECCSSCCCCCGGG---
T ss_pred             EEEecC-CCCCCCcc--ccCCCccCEEECCCCccC---------------CchhhcccCCCCEEECcCCcCCCchhh---
Confidence            999999 67888765  899999999999999772               125678899999999998887766542   


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeec
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKT  209 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~  209 (366)
                       ..+++|+.|+++++..  .....+..+++|+.|++.+|.+...+.
T Consensus       172 -~~l~~L~~L~Ls~N~i--~~l~~l~~l~~L~~L~L~~N~l~~~p~  214 (605)
T 1m9s_A          172 -AGLTKLQNLYLSKNHI--SDLRALAGLKNLDVLELFSQECLNKPI  214 (605)
T ss_dssp             -TTCTTCCEEECCSSCC--CBCGGGTTCTTCSEEECCSEEEECCCC
T ss_pred             -ccCCCCCEEECcCCCC--CCChHHccCCCCCEEEccCCcCcCCcc
Confidence             3356699999998876  222367788899999998877765443

>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=99.63  E-value=2.4e-15  Score=130.97  Aligned_cols=103  Identities=17%  Similarity=0.213  Sum_probs=71.3

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~   84 (366)
                      ..+.++++++++..+|..+   .+.++.|++++|    .+..++. .+..+++|++|++++|.++.++. .+..+++|++
T Consensus        15 ~~~~l~~~~~~l~~~p~~~---~~~l~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~   87 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGI---PADTEKLDLQST----GLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGT   87 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCC---CTTCCEEECTTS----CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             CCeEEecCCCCccccCCCC---CCCCCEEEccCC----CcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCE
Confidence            4567777777777777652   257777777777    5566543 46677777777777777775543 4677777777


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++++ +.+..++...+..+++|++|++++|.+
T Consensus        88 L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N~l  119 (251)
T 3m19_A           88 LGLAN-NQLASLPLGVFDHLTQLDKLYLGGNQL  119 (251)
T ss_dssp             EECTT-SCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EECCC-CcccccChhHhcccCCCCEEEcCCCcC
Confidence            77777 666676655567777777777777755

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.61  E-value=2.7e-16  Score=144.55  Aligned_cols=258  Identities=9%  Similarity=0.047  Sum_probs=173.2

Q ss_pred             EEECCCCCCCCCcCc-cCccccccccCCEEeccCCCCccCc-----hhhhcCc-cCCEeeccccccCCCcChhhhcCC--
Q 040318           34 CLDNGPSRIKNSLTE-LPSGISSLVSLQHLDVSYTDIRGLP-----HELTALL-NLRYLNLERTYHLSRFPPELICSF--  104 (366)
Q Consensus        34 ~L~l~~~~~~~~~~~-l~~~~~~l~~L~~L~l~~~~i~~l~-----~~i~~l~-~L~~L~L~~c~~~~~l~~~~l~~l--  104 (366)
                      +++++++    .++. +|..+...++|++|++++|.++..+     ..+..++ +|++|++++ +.+.......+..+  
T Consensus         2 ~~~ls~n----~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-N~l~~~~~~~l~~~l~   76 (362)
T 3goz_A            2 NYKLTLH----PGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSG-NSLGFKNSDELVQILA   76 (362)
T ss_dssp             EEECCCC----TTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCS-SCGGGSCHHHHHHHHH
T ss_pred             ccccccc----cchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcC-CCCCHHHHHHHHHHHh
Confidence            4678888    5665 4554555667999999999998665     5677888 899999999 57766543334443  


Q ss_pred             ---CCCcEEEccCCCCCCccccccccccchHHHHHhhcCC-CCcceEEEEecccccccc--ccccccc-cccccEEEEec
Q 040318          105 ---SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCL-KLLNLISFSLYSSRGVRN--FLKFPKL-LRITQALSISD  177 (366)
Q Consensus       105 ---~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~~~~~~--~~~~~~~-~~~L~~L~l~~  177 (366)
                         ++|++|++++|.+...         ........+..+ ++|+.|+++++.......  +...... +.+|++|++++
T Consensus        77 ~~~~~L~~L~Ls~n~l~~~---------~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~  147 (362)
T 3goz_A           77 AIPANVTSLNLSGNFLSYK---------SSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRG  147 (362)
T ss_dssp             TSCTTCCEEECCSSCGGGS---------CHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTT
T ss_pred             ccCCCccEEECcCCcCChH---------HHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccC
Confidence               9999999999987221         122334456666 899999999888765432  2111111 35799999999


Q ss_pred             cCCCCcCcc----chhhhc-ccCceEecccccceeeccccCccccccccCC-CCCcEEeEecCCCCcc-----cc-cccC
Q 040318          178 CEIPLLNVS----HLAYME-HLKDLVIDNSNLEELKTDCTGEVQKVLQCGF-RSLHLASIAFCSRVKD-----LT-WLAF  245 (366)
Q Consensus       178 ~~~~~~~~~----~l~~~~-~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~-~~L~~L~l~~~~~l~~-----l~-~l~~  245 (366)
                      +...+....    .+..++ +|++|++++|.+.+.+...+.  ..+  ..+ ++|+.|++++| .+++     ++ .+..
T Consensus       148 N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~--~~l--~~~~~~L~~L~Ls~N-~i~~~~~~~l~~~l~~  222 (362)
T 3goz_A          148 NDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELA--KFL--ASIPASVTSLDLSAN-LLGLKSYAELAYIFSS  222 (362)
T ss_dssp             SCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHH--HHH--HTSCTTCCEEECTTS-CGGGSCHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHH--HHH--HhCCCCCCEEECCCC-CCChhHHHHHHHHHhc
Confidence            876221211    334444 999999999988766542221  000  234 59999999999 5766     22 2333


Q ss_pred             -CCCccEEEEEccCCccccccccccccccccccccccccccccccccccc-------ccccccCCCcCCCCccEEeccCC
Q 040318          246 -APNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAE-------NLKSIYQGALPLPQLKEIRVTQC  317 (366)
Q Consensus       246 -l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-------~l~~~~~~~~~~~~L~~L~l~~c  317 (366)
                       .++|++|+|++|........        .+......+++|++|+++++.       .+..+......+++|+.|+++++
T Consensus       223 ~~~~L~~L~Ls~N~l~~~~~~--------~l~~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~l~~L~~LdL~~N  294 (362)
T 3goz_A          223 IPNHVVSLNLCLNCLHGPSLE--------NLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNIQKIILVDKNGK  294 (362)
T ss_dssp             SCTTCCEEECCSSCCCCCCHH--------HHHHTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTTCCEEEEECTTSC
T ss_pred             CCCCceEEECcCCCCCcHHHH--------HHHHHHhcCCCccEEEeccCCccccCHHHHHHHHHHhccCCceEEEecCCC
Confidence             46999999999875443321        111245678999999999875       13333444556888999999987


Q ss_pred             C
Q 040318          318 P  318 (366)
Q Consensus       318 ~  318 (366)
                      +
T Consensus       295 ~  295 (362)
T 3goz_A          295 E  295 (362)
T ss_dssp             B
T ss_pred             c
Confidence            4

>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=2.4e-15  Score=135.20  Aligned_cols=203  Identities=12%  Similarity=0.040  Sum_probs=145.9

Q ss_pred             CCCcCEEEccCCCCCccchhhh--hcCCcccEEECCCCCCCCCcCcc-C----ccccccccCCEEeccCCCCccCc-hhh
Q 040318            5 YSNIPSILELSSNNKVFEPSWF--LSRASWTCLDNGPSRIKNSLTEL-P----SGISSLVSLQHLDVSYTDIRGLP-HEL   76 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~--~~~~~L~~L~l~~~~~~~~~~~l-~----~~~~~l~~L~~L~l~~~~i~~l~-~~i   76 (366)
                      +++|++|++++|.+....+..+  ..+++|++|++++|    .++.. +    ..+..+++|++|++++|.+..++ ..+
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n----~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~  165 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNV----SWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQV  165 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESC----CCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSC
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecc----cccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHh
Confidence            4679999999999986443325  88999999999999    55542 2    23457999999999999998665 578


Q ss_pred             hcCccCCEeeccccccCCC---cChh-hhcCCCCCcEEEccCCCCCCccccccccccchHHHHH-hhcCCCCcceEEEEe
Q 040318           77 TALLNLRYLNLERTYHLSR---FPPE-LICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMK-ELLCLKLLNLISFSL  151 (366)
Q Consensus        77 ~~l~~L~~L~L~~c~~~~~---l~~~-~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~  151 (366)
                      +.+++|++|++++ +.+..   ++.. .+..+++|++|++++|.+...           ..... .+..+++|++|++++
T Consensus       166 ~~l~~L~~L~Ls~-N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l-----------~~~~~~l~~~l~~L~~L~Ls~  233 (310)
T 4glp_A          166 RAFPALTSLDLSD-NPGLGERGLMAALCPHKFPAIQNLALRNTGMETP-----------TGVCAALAAAGVQPHSLDLSH  233 (310)
T ss_dssp             CCCTTCCEEECCS-CTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCH-----------HHHHHHHHHHTCCCSSEECTT
T ss_pred             ccCCCCCEEECCC-CCCccchhhhHHHhhhcCCCCCEEECCCCCCCch-----------HHHHHHHHhcCCCCCEEECCC
Confidence            8999999999999 54432   2221 146789999999999987322           12222 346778888888887


Q ss_pred             cccccc-ccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEe
Q 040318          152 YSSRGV-RNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLAS  230 (366)
Q Consensus       152 ~~~~~~-~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~  230 (366)
                      +..... +...                        ..+..+++|++|++++|+++.++.           ..+++|+.|+
T Consensus       234 N~l~~~~p~~~------------------------~~~~~~~~L~~L~Ls~N~l~~lp~-----------~~~~~L~~L~  278 (310)
T 4glp_A          234 NSLRATVNPSA------------------------PRCMWSSALNSLNLSFAGLEQVPK-----------GLPAKLRVLD  278 (310)
T ss_dssp             SCCCCCCCSCC------------------------SSCCCCTTCCCEECCSSCCCSCCS-----------CCCSCCSCEE
T ss_pred             CCCCccchhhH------------------------HhccCcCcCCEEECCCCCCCchhh-----------hhcCCCCEEE
Confidence            765443 1100                        011223678888888888775533           3347888999


Q ss_pred             EecCCCCcccccccCCCCccEEEEEccCC
Q 040318          231 IAFCSRVKDLTWLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       231 l~~~~~l~~l~~l~~l~~L~~L~L~~c~~  259 (366)
                      +++| .++.++.+..+++|+.|++++|..
T Consensus       279 Ls~N-~l~~~~~~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          279 LSSN-RLNRAPQPDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             CCSC-CCCSCCCTTSCCCCSCEECSSTTT
T ss_pred             CCCC-cCCCCchhhhCCCccEEECcCCCC
Confidence            9888 677777677888999999988764

>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=99.58  E-value=9.5e-15  Score=127.16  Aligned_cols=134  Identities=20%  Similarity=0.209  Sum_probs=111.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~   83 (366)
                      ++++.|++++|.+..+++..+..+++|++|++++|    .++.++. .+..+++|++|++++|.++.++. .+..+++|+
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n----~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  110 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYN----QLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLD  110 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS----CCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCC----cCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCC
Confidence            57999999999999988777999999999999999    7777654 47889999999999999997764 568899999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      +|++++ +.+..++...+..+++|++|++++|.+...             ....+..+++|+.|+++++.....
T Consensus       111 ~L~L~~-N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~l~~~  170 (251)
T 3m19_A          111 KLYLGG-NQLKSLPSGVFDRLTKLKELRLNTNQLQSI-------------PAGAFDKLTNLQTLSLSTNQLQSV  170 (251)
T ss_dssp             EEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCSCC
T ss_pred             EEEcCC-CcCCCcChhHhccCCcccEEECcCCcCCcc-------------CHHHcCcCcCCCEEECCCCcCCcc
Confidence            999999 788898887678999999999999987322             123466778888888887665543

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

Probab=99.57  E-value=1.8e-15  Score=132.72  Aligned_cols=125  Identities=19%  Similarity=0.195  Sum_probs=90.0

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      .++..+++.++.+.+++.  +..+++|++|++++|    .++.++ .+..+++|++|++++|.++.++. +..+++|++|
T Consensus        19 ~~l~~l~l~~~~i~~~~~--~~~l~~L~~L~l~~n----~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L   90 (263)
T 1xeu_A           19 ANAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNS----NIQSLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEEL   90 (263)
T ss_dssp             HHHHHHHHTCSCTTSEEC--HHHHTTCSEEECTTS----CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEE
T ss_pred             HHHHHHHhcCCCcccccc--hhhcCcCcEEECcCC----Ccccch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEE
Confidence            345556677777777763  677888888888888    677777 47778888888888888887766 7788888888


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      ++++ +.+..++.  +.. ++|++|++++|.+..               ...+..+++|+.|+++++...+.
T Consensus        91 ~L~~-N~l~~l~~--~~~-~~L~~L~L~~N~l~~---------------~~~l~~l~~L~~L~Ls~N~i~~~  143 (263)
T 1xeu_A           91 SVNR-NRLKNLNG--IPS-ACLSRLFLDNNELRD---------------TDSLIHLKNLEILSIRNNKLKSI  143 (263)
T ss_dssp             ECCS-SCCSCCTT--CCC-SSCCEEECCSSCCSB---------------SGGGTTCTTCCEEECTTSCCCBC
T ss_pred             ECCC-CccCCcCc--ccc-CcccEEEccCCccCC---------------ChhhcCcccccEEECCCCcCCCC
Confidence            8888 67777765  444 888888888886621               13466677777777766554443

>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=6e-15  Score=123.53  Aligned_cols=152  Identities=16%  Similarity=0.225  Sum_probs=89.2

Q ss_pred             hcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCC-cChhhhcCCC
Q 040318           27 LSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSR-FPPELICSFS  105 (366)
Q Consensus        27 ~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~-l~~~~l~~l~  105 (366)
                      ..+++|++|++++|    .++.+| .+..+++|++|++++|.++.++ .+..+++|++|++++ +.+.. .+.. +..++
T Consensus        41 ~~l~~L~~L~l~~n----~i~~l~-~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~-n~l~~~~~~~-l~~l~  112 (197)
T 4ezg_A           41 AQMNSLTYITLANI----NVTDLT-GIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMG-KDVTSDKIPN-LSGLT  112 (197)
T ss_dssp             HHHHTCCEEEEESS----CCSCCT-TGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEEC-TTCBGGGSCC-CTTCT
T ss_pred             hhcCCccEEeccCC----CccChH-HHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeEC-CccCcccChh-hcCCC
Confidence            44566666666666    555555 3566666666666666555443 556666666666666 44443 2332 56666


Q ss_pred             CCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc-ccccccccccccccccccEEEEeccCCCCcC
Q 040318          106 KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS-SRGVRNFLKFPKLLRITQALSISDCEIPLLN  184 (366)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~  184 (366)
                      +|++|++++|.+             ....+..+..+++|+.|+++++. ...++.+    ..+++|+.|+++++..  ..
T Consensus       113 ~L~~L~Ls~n~i-------------~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~l----~~l~~L~~L~l~~n~i--~~  173 (197)
T 4ezg_A          113 SLTLLDISHSAH-------------DDSILTKINTLPKVNSIDLSYNGAITDIMPL----KTLPELKSLNIQFDGV--HD  173 (197)
T ss_dssp             TCCEEECCSSBC-------------BGGGHHHHTTCSSCCEEECCSCTBCCCCGGG----GGCSSCCEEECTTBCC--CC
T ss_pred             CCCEEEecCCcc-------------CcHhHHHHhhCCCCCEEEccCCCCccccHhh----cCCCCCCEEECCCCCC--cC
Confidence            666666666655             22334555666666666666655 4444322    2234577777776665  22


Q ss_pred             ccchhhhcccCceEecccccc
Q 040318          185 VSHLAYMEHLKDLVIDNSNLE  205 (366)
Q Consensus       185 ~~~l~~~~~L~~L~l~~~~l~  205 (366)
                      ...+..+++|+.|++++|.+.
T Consensus       174 ~~~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          174 YRGIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             CTTGGGCSSCCEEEECBC---
T ss_pred             hHHhccCCCCCEEEeeCcccC
Confidence            226677788888888877664

>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=99.54  E-value=2.1e-14  Score=120.23  Aligned_cols=148  Identities=18%  Similarity=0.258  Sum_probs=98.7

Q ss_pred             cccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHH
Q 040318           54 SSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEP  133 (366)
Q Consensus        54 ~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  133 (366)
                      ..+++|++|++++|.++.+| .+..+++|++|++++| .+..++.  +..+++|++|++++|.+             ...
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L~l~~n~l-------------~~~  103 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNI-HATNYNP--ISGLSNLERLRIMGKDV-------------TSD  103 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESC-CCSCCGG--GTTCTTCCEEEEECTTC-------------BGG
T ss_pred             hhcCCccEEeccCCCccChH-HHhcCCCCCEEEccCC-CCCcchh--hhcCCCCCEEEeECCcc-------------Ccc
Confidence            55777888888888777776 6777778888888774 5555553  77778888888877765             222


Q ss_pred             HHHhhcCCCCcceEEEEeccccc--cccccccccccccccEEEEeccCCCCcCcc-chhhhcccCceEecccccceeecc
Q 040318          134 LMKELLCLKLLNLISFSLYSSRG--VRNFLKFPKLLRITQALSISDCEIPLLNVS-HLAYMEHLKDLVIDNSNLEELKTD  210 (366)
Q Consensus       134 ~~~~l~~l~~L~~L~l~~~~~~~--~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~l~~~~~L~~L~l~~~~l~~l~~~  210 (366)
                      .+..+..+++|+.|+++++....  ...+    ..+++|+.|+++++..  .... .+..+++|+.|+++++.+.++.  
T Consensus       104 ~~~~l~~l~~L~~L~Ls~n~i~~~~~~~l----~~l~~L~~L~L~~n~~--i~~~~~l~~l~~L~~L~l~~n~i~~~~--  175 (197)
T 4ezg_A          104 KIPNLSGLTSLTLLDISHSAHDDSILTKI----NTLPKVNSIDLSYNGA--ITDIMPLKTLPELKSLNIQFDGVHDYR--  175 (197)
T ss_dssp             GSCCCTTCTTCCEEECCSSBCBGGGHHHH----TTCSSCCEEECCSCTB--CCCCGGGGGCSSCCEEECTTBCCCCCT--
T ss_pred             cChhhcCCCCCCEEEecCCccCcHhHHHH----hhCCCCCEEEccCCCC--ccccHhhcCCCCCCEEECCCCCCcChH--
Confidence            34556677778888877766554  2222    2345577888877763  2222 5677777888888777776543  


Q ss_pred             ccCccccccccCCCCCcEEeEecC
Q 040318          211 CTGEVQKVLQCGFRSLHLASIAFC  234 (366)
Q Consensus       211 ~~~~~~~~p~~~~~~L~~L~l~~~  234 (366)
                      ..        ..+++|+.|+++++
T Consensus       176 ~l--------~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          176 GI--------EDFPKLNQLYAFSQ  191 (197)
T ss_dssp             TG--------GGCSSCCEEEECBC
T ss_pred             Hh--------ccCCCCCEEEeeCc
Confidence            11        46777888888776

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

Probab=99.53  E-value=3.5e-14  Score=124.43  Aligned_cols=127  Identities=17%  Similarity=0.180  Sum_probs=107.7

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|+.|++++|.+..++.  +..+++|++|++++|    .++.++. +..+++|++|++++|.++.+|....  .+|+
T Consensus        39 ~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~L~~N----~i~~~~~-l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~  109 (263)
T 1xeu_A           39 ELSGVQNFNGDNSNIQSLAG--MQFFTNLKELHLSHN----QISDLSP-LKDLTKLEELSVNRNRLKNLNGIPS--ACLS  109 (263)
T ss_dssp             HHTTCSEEECTTSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCSSCCEEECCSSCCSCCTTCCC--SSCC
T ss_pred             hcCcCcEEECcCCCcccchH--HhhCCCCCEEECCCC----ccCCChh-hccCCCCCEEECCCCccCCcCcccc--Cccc
Confidence            46899999999999999883  889999999999999    8888877 8899999999999999998875443  8999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGV  157 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  157 (366)
                      +|++++ +.+..++.  +..+++|++|++++|.+..               ...+..+++|+.|+++++...+.
T Consensus       110 ~L~L~~-N~l~~~~~--l~~l~~L~~L~Ls~N~i~~---------------~~~l~~l~~L~~L~L~~N~i~~~  165 (263)
T 1xeu_A          110 RLFLDN-NELRDTDS--LIHLKNLEILSIRNNKLKS---------------IVMLGFLSKLEVLDLHGNEITNT  165 (263)
T ss_dssp             EEECCS-SCCSBSGG--GTTCTTCCEEECTTSCCCB---------------CGGGGGCTTCCEEECTTSCCCBC
T ss_pred             EEEccC-CccCCChh--hcCcccccEEECCCCcCCC---------------ChHHccCCCCCEEECCCCcCcch
Confidence            999999 78888865  8999999999999998721               13577788888888887665544

>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=99.53  E-value=2.4e-14  Score=116.67  Aligned_cols=138  Identities=17%  Similarity=0.115  Sum_probs=110.6

Q ss_pred             CCCCcCEEEccCCCCC--ccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCcc-CchhhhcCc
Q 040318            4 RYSNIPSILELSSNNK--VFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRG-LPHELTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~-l~~~i~~l~   80 (366)
                      ..++|+.|++++|.+.  .+|.. +..+++|++|++++|    .++.+ ..+..+++|++|++++|.++. +|..+..++
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~n----~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~   95 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINV----GLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLP   95 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESS----CCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCT
T ss_pred             CcccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCC----CCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCC
Confidence            4578999999999998  67776 788999999999999    77777 568889999999999999886 777777899


Q ss_pred             cCCEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318           81 NLRYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      +|++|++++ +.+..++. ..+..+++|++|++.+|.+...          .......+..+++|+.|++..+.....+
T Consensus        96 ~L~~L~Ls~-N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~----------~~~~~~~~~~l~~L~~L~l~~n~~~~~~  163 (168)
T 2ell_A           96 NLTHLNLSG-NKLKDISTLEPLKKLECLKSLDLFNCEVTNL----------NDYRESVFKLLPQLTYLDGYDREDQEAP  163 (168)
T ss_dssp             TCCEEECBS-SSCCSSGGGGGGSSCSCCCEEECCSSGGGTS----------TTHHHHHHTTCSSCCEETTEETTSCBCC
T ss_pred             CCCEEeccC-CccCcchhHHHHhcCCCCCEEEeeCCcCcch----------HHHHHHHHHhCccCcEecCCCCChhhcc
Confidence            999999999 67888762 3388899999999999976322          1111246778899999999887765544

>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=99.53  E-value=2.8e-14  Score=121.63  Aligned_cols=149  Identities=17%  Similarity=0.188  Sum_probs=80.5

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccC-chhhhcCccCCEee
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLN   86 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L~   86 (366)
                      +.++.+++++..+|..+   .++|++|++++|    .++.++. .+..+++|++|++++|.++.+ |..+..+++|++|+
T Consensus        14 ~~v~c~~~~l~~iP~~l---~~~l~~L~l~~n----~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~   86 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNL---PETITEIRLEQN----TIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLV   86 (220)
T ss_dssp             TEEECTTSCCSSCCSSC---CTTCCEEECCSS----CCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEE
T ss_pred             CEEEcCCCCcCcCCCcc---CcCCCEEECCCC----cCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEE
Confidence            34555555666655541   245666666666    5555543 355566666666666666544 44556666666666


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      |++ +.+..+|.+.+..+++|++|++.+|.+...             .+..+..+++|+.|+++++....++.-  ....
T Consensus        87 Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~l~~~~~~--~~~~  150 (220)
T 2v9t_B           87 LYG-NKITELPKSLFEGLFSLQLLLLNANKINCL-------------RVDAFQDLHNLNLLSLYDNKLQTIAKG--TFSP  150 (220)
T ss_dssp             CCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCSCCCTT--TTTT
T ss_pred             CCC-CcCCccCHhHccCCCCCCEEECCCCCCCEe-------------CHHHcCCCCCCCEEECCCCcCCEECHH--HHhC
Confidence            666 555566555455566666666666655211             123455556666666666555444321  1112


Q ss_pred             cccccEEEEeccCC
Q 040318          167 LRITQALSISDCEI  180 (366)
Q Consensus       167 ~~~L~~L~l~~~~~  180 (366)
                      +++|+.|++.++..
T Consensus       151 l~~L~~L~L~~N~~  164 (220)
T 2v9t_B          151 LRAIQTMHLAQNPF  164 (220)
T ss_dssp             CTTCCEEECCSSCE
T ss_pred             CCCCCEEEeCCCCc
Confidence            33466666655543

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

Probab=99.52  E-value=4.5e-14  Score=136.45  Aligned_cols=86  Identities=15%  Similarity=0.111  Sum_probs=49.0

Q ss_pred             ccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccccc-ccCC
Q 040318          168 RITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTW-LAFA  246 (366)
Q Consensus       168 ~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~-l~~l  246 (366)
                      ++|+.|+++++.......  +.  ++|+.|++++|.++.++.  ++.  .+ ....+.|+.|++++| .++.++. +..+
T Consensus       160 ~~L~~L~Ls~N~L~~lp~--l~--~~L~~L~Ls~N~L~~lp~--~~~--~L-~~~~~~L~~L~Ls~N-~l~~lp~~l~~l  229 (571)
T 3cvr_A          160 TSLEVLSVRNNQLTFLPE--LP--ESLEALDVSTNLLESLPA--VPV--RN-HHSEETEIFFRCREN-RITHIPENILSL  229 (571)
T ss_dssp             TTCCEEECCSSCCSCCCC--CC--TTCCEEECCSSCCSSCCC--CC-----------CCEEEECCSS-CCCCCCGGGGGS
T ss_pred             CCcCEEECCCCCCCCcch--hh--CCCCEEECcCCCCCchhh--HHH--hh-hcccccceEEecCCC-cceecCHHHhcC
Confidence            345555555554422211  22  677777777777765543  110  00 011233388888888 6777763 6678


Q ss_pred             CCccEEEEEccCCcccc
Q 040318          247 PNLKIIVIMHCDDLEEI  263 (366)
Q Consensus       247 ~~L~~L~L~~c~~~~~~  263 (366)
                      ++|+.|+|++|......
T Consensus       230 ~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          230 DPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             CTTEEEECCSSSCCHHH
T ss_pred             CCCCEEEeeCCcCCCcC
Confidence            88999999888765543

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

Probab=99.50  E-value=1.1e-13  Score=116.87  Aligned_cols=167  Identities=20%  Similarity=0.189  Sum_probs=91.0

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCchh-hhcCccCCEee
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLN   86 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~L~   86 (366)
                      +.++..++++..+|..   ..++|++|++++|    .++.++.. +..+++|++|++++|.++.++.. +..+++|++|+
T Consensus        10 ~~v~c~~~~l~~~p~~---~~~~l~~L~l~~n----~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~   82 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTG---IPAQTTYLDLETN----SLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLN   82 (208)
T ss_dssp             TEEECCSSCCSSCCSC---CCTTCSEEECCSS----CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CEEEecCCCccCCCCC---CCCCCcEEEcCCC----ccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEE
Confidence            3455555555555543   2346666666666    45555432 45566666666666666655443 35566666666


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..++...+.++++|++|++++|.+...             ....+..+++|+.|+++++.....+.  .....
T Consensus        83 Ls~-n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~l~~N~l~~~~~--~~~~~  146 (208)
T 2o6s_A           83 LST-NQLQSLPNGVFDKLTQLKELALNTNQLQSL-------------PDGVFDKLTQLKDLRLYQNQLKSVPD--GVFDR  146 (208)
T ss_dssp             CCS-SCCCCCCTTTTTTCTTCCEEECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCCSCCCT--TTTTT
T ss_pred             CCC-CcCCccCHhHhcCccCCCEEEcCCCcCccc-------------CHhHhccCCcCCEEECCCCccceeCH--HHhcc
Confidence            666 455555554455666666666666655211             11234555666666666655544332  11122


Q ss_pred             cccccEEEEeccCCCCcCccchhhhcccCceEecccccc
Q 040318          167 LRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLE  205 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~  205 (366)
                      +++|+.|++.++..       ...+++|+.|+++.+++.
T Consensus       147 l~~L~~L~l~~N~~-------~~~~~~l~~L~~~~n~~~  178 (208)
T 2o6s_A          147 LTSLQYIWLHDNPW-------DCTCPGIRYLSEWINKHS  178 (208)
T ss_dssp             CTTCCEEECCSCCB-------CCCTTTTHHHHHHHHHCT
T ss_pred             CCCccEEEecCCCe-------ecCCCCHHHHHHHHHhCC
Confidence            34566776666543       123456777777665543

>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=99.49  E-value=8.3e-14  Score=119.43  Aligned_cols=148  Identities=16%  Similarity=0.157  Sum_probs=82.4

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchh-hhcCccCCEee
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYLN   86 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~L~   86 (366)
                      +.++.+++++..+|..+   .++|++|++++|    .+..+ |..+..+++|++|++++|.++.+|.. +..+++|++|+
T Consensus        22 ~~v~c~~~~l~~ip~~~---~~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~   94 (229)
T 3e6j_A           22 TTVDCRSKRHASVPAGI---PTNAQILYLHDN----QITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLD   94 (229)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CEeEccCCCcCccCCCC---CCCCCEEEcCCC----ccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEE
Confidence            34555556666666541   256666666666    45554 34455566666666666666655532 45666666666


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..++...+..+++|++|++.+|.+.              .++..+..+++|+.|+++++....++.  .....
T Consensus        95 Ls~-N~l~~l~~~~~~~l~~L~~L~Ls~N~l~--------------~lp~~~~~l~~L~~L~L~~N~l~~~~~--~~~~~  157 (229)
T 3e6j_A           95 LGT-NQLTVLPSAVFDRLVHLKELFMCCNKLT--------------ELPRGIERLTHLTHLALDQNQLKSIPH--GAFDR  157 (229)
T ss_dssp             CCS-SCCCCCCTTTTTTCTTCCEEECCSSCCC--------------SCCTTGGGCTTCSEEECCSSCCCCCCT--TTTTT
T ss_pred             CCC-CcCCccChhHhCcchhhCeEeccCCccc--------------ccCcccccCCCCCEEECCCCcCCccCH--HHHhC
Confidence            666 5566655544556666666666666552              222334555666666666655554432  11122


Q ss_pred             cccccEEEEeccCC
Q 040318          167 LRITQALSISDCEI  180 (366)
Q Consensus       167 ~~~L~~L~l~~~~~  180 (366)
                      +++|+.|++.++..
T Consensus       158 l~~L~~L~l~~N~~  171 (229)
T 3e6j_A          158 LSSLTHAYLFGNPW  171 (229)
T ss_dssp             CTTCCEEECTTSCB
T ss_pred             CCCCCEEEeeCCCc
Confidence            34466666665543

>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=99.47  E-value=1.1e-13  Score=117.94  Aligned_cols=149  Identities=11%  Similarity=0.064  Sum_probs=99.6

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc--cccccccCCEEeccCCCCccCch-hhhcCccCCEe
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS--GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYL   85 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~--~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L   85 (366)
                      +.++++++.+..+|..+   .+.+++|++++|    .++.++.  .+..+++|++|++++|.++.++. .+..+++|++|
T Consensus        14 ~~l~~s~n~l~~iP~~~---~~~~~~L~L~~N----~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L   86 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI---PQYTAELRLNNN----EFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEI   86 (220)
T ss_dssp             TEEECCSSCCSSCCSCC---CTTCSEEECCSS----CCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CEeEeCCCCcccCccCC---CCCCCEEEcCCC----cCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEE
Confidence            46777777777777652   345677888887    6666632  35677888888888887776554 57777888888


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..++.+.+..+++|++|++++|.+..             ..+..+..+++|+.|+++++.......  ....
T Consensus        87 ~Ls~-N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-------------~~~~~~~~l~~L~~L~L~~N~l~~~~~--~~~~  150 (220)
T 2v70_A           87 LLTS-NRLENVQHKMFKGLESLKTLMLRSNRITC-------------VGNDSFIGLSSVRLLSLYDNQITTVAP--GAFD  150 (220)
T ss_dssp             ECCS-SCCCCCCGGGGTTCSSCCEEECTTSCCCC-------------BCTTSSTTCTTCSEEECTTSCCCCBCT--TTTT
T ss_pred             ECCC-CccCccCHhHhcCCcCCCEEECCCCcCCe-------------ECHhHcCCCccCCEEECCCCcCCEECH--HHhc
Confidence            8877 67777766657778888888888776622             123456667778888887776655421  1112


Q ss_pred             ccccccEEEEeccCC
Q 040318          166 LLRITQALSISDCEI  180 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~  180 (366)
                      .+++|+.|++.++..
T Consensus       151 ~l~~L~~L~L~~N~l  165 (220)
T 2v70_A          151 TLHSLSTLNLLANPF  165 (220)
T ss_dssp             TCTTCCEEECCSCCE
T ss_pred             CCCCCCEEEecCcCC
Confidence            345577777776654

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

Probab=99.47  E-value=5.5e-14  Score=112.06  Aligned_cols=129  Identities=17%  Similarity=0.164  Sum_probs=98.9

Q ss_pred             CCCCcCEEEccCCCCC--ccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCcc-CchhhhcCc
Q 040318            4 RYSNIPSILELSSNNK--VFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRG-LPHELTALL   80 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~-l~~~i~~l~   80 (366)
                      ..++|+.|++++|.+.  .++.. +..+++|++|++++|    .++.+ ..+..+++|++|++++|.++. +|..+..++
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~-~~~l~~L~~L~l~~n----~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~   88 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGL-TDEFEELEFLSTINV----GLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCP   88 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSC-CTTCTTCCEEECTTS----CCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCT
T ss_pred             CCccCeEEEccCCcCChhHHHHH-HhhcCCCcEEECcCC----CCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCC
Confidence            4578899999999888  57765 788999999999999    66777 557889999999999998886 777777899


Q ss_pred             cCCEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEE
Q 040318           81 NLRYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISF  149 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  149 (366)
                      +|++|++++ +.+..++. ..+..+++|++|++++|.+...          .......+..+++|+.|++
T Consensus        89 ~L~~L~ls~-N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~----------~~~~~~~~~~l~~L~~L~l  147 (149)
T 2je0_A           89 NLTHLNLSG-NKIKDLSTIEPLKKLENLKSLDLFNCEVTNL----------NDYRENVFKLLPQLTYLDG  147 (149)
T ss_dssp             TCCEEECTT-SCCCSHHHHGGGGGCTTCCEEECTTCGGGGS----------TTHHHHHHHHCTTCCEETT
T ss_pred             CCCEEECCC-CcCCChHHHHHHhhCCCCCEEeCcCCcccch----------HHHHHHHHHHCCCcccccC
Confidence            999999998 67777641 3388899999999999876221          1111235666777777654

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

Probab=99.46  E-value=2.5e-13  Score=131.23  Aligned_cols=174  Identities=15%  Similarity=0.123  Sum_probs=86.6

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      +|+.|+++++++..+|..+   +++|++|++++|    .++.+|   ..+++|++|++++|.++.+|. +..  +|++|+
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l---~~~L~~L~Ls~N----~l~~ip---~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~  126 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL---PPQITVLEITQN----ALISLP---ELPASLEYLDACDNRLSTLPE-LPA--SLKHLD  126 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC---CTTCSEEECCSS----CCSCCC---CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEE
T ss_pred             CccEEEeCCCCCCccCHhH---cCCCCEEECcCC----CCcccc---cccCCCCEEEccCCCCCCcch-hhc--CCCEEE
Confidence            5556666666555555542   255666666666    445555   234556666666665555554 332  566666


Q ss_pred             ccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccc
Q 040318           87 LERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKL  166 (366)
Q Consensus        87 L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~  166 (366)
                      +++ +.+..+|.    .+++|+.|++++|.+...              +.   .+++|+.|+++++....++.+.     
T Consensus       127 Ls~-N~l~~lp~----~l~~L~~L~Ls~N~l~~l--------------p~---~l~~L~~L~Ls~N~L~~lp~l~-----  179 (571)
T 3cvr_A          127 VDN-NQLTMLPE----LPALLEYINADNNQLTML--------------PE---LPTSLEVLSVRNNQLTFLPELP-----  179 (571)
T ss_dssp             CCS-SCCSCCCC----CCTTCCEEECCSSCCSCC--------------CC---CCTTCCEEECCSSCCSCCCCCC-----
T ss_pred             CCC-CcCCCCCC----cCccccEEeCCCCccCcC--------------CC---cCCCcCEEECCCCCCCCcchhh-----
Confidence            655 45555544    455566666665554211              00   2355556666555554443311     


Q ss_pred             cccccEEEEeccCCCCcCccchhhhccc-------CceEecccccceeeccccCccccccccCCCCCcEEeEecC
Q 040318          167 LRITQALSISDCEIPLLNVSHLAYMEHL-------KDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFC  234 (366)
Q Consensus       167 ~~~L~~L~l~~~~~~~~~~~~l~~~~~L-------~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~  234 (366)
                       ++|+.|+++++.......  +..  +|       +.|++++|.++.++....         .+++|+.|++++|
T Consensus       180 -~~L~~L~Ls~N~L~~lp~--~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~---------~l~~L~~L~L~~N  240 (571)
T 3cvr_A          180 -ESLEALDVSTNLLESLPA--VPV--RNHHSEETEIFFRCRENRITHIPENIL---------SLDPTCTIILEDN  240 (571)
T ss_dssp             -TTCCEEECCSSCCSSCCC--CC----------CCEEEECCSSCCCCCCGGGG---------GSCTTEEEECCSS
T ss_pred             -CCCCEEECcCCCCCchhh--HHH--hhhcccccceEEecCCCcceecCHHHh---------cCCCCCEEEeeCC
Confidence             345566665554421111  111  33       555555555554433211         3555666666555

>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=99.46  E-value=2e-13  Score=116.34  Aligned_cols=132  Identities=18%  Similarity=0.251  Sum_probs=104.8

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchh-hhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~   83 (366)
                      ++|+.|++++|.+..++...|..+++|++|++++|    .+..+ |..+..+++|++|++++|.++.+|.. +..+++|+
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N----~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~  107 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNN----QISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQ  107 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSS----CCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCC----cCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCC
Confidence            57888999999888888766888899999999998    67776 56688889999999999988887765 57788999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      +|++++ +.+..++.+.+..+++|++|++.+|.+...             ....+..+++|+.|+++++...
T Consensus       108 ~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          108 LLLLNA-NKINCLRVDAFQDLHNLNLLSLYDNKLQTI-------------AKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             EEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSCC-------------CTTTTTTCTTCCEEECCSSCEE
T ss_pred             EEECCC-CCCCEeCHHHcCCCCCCCEEECCCCcCCEE-------------CHHHHhCCCCCCEEEeCCCCcC
Confidence            999988 778777655588889999999998877332             1234667888888888876653

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

Probab=99.45  E-value=2.2e-13  Score=125.04  Aligned_cols=175  Identities=19%  Similarity=0.153  Sum_probs=117.6

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-cc-ccccCCEEeccCCCCccCc-hhhhcCccCCEe
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-IS-SLVSLQHLDVSYTDIRGLP-HELTALLNLRYL   85 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~-~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~L   85 (366)
                      +.++++++++..+|..+   .+.+++|++++|    .++.++.. +. .+++|++|++++|.++.++ ..+..+++|++|
T Consensus        21 ~~l~c~~~~l~~iP~~~---~~~l~~L~Ls~N----~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L   93 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSL---PSYTALLDLSHN----NLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYL   93 (361)
T ss_dssp             TEEECCSSCCSSCCSSC---CTTCSEEECCSS----CCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEE
T ss_pred             CEEEeCCCCcCccCccC---CCCCCEEECCCC----CCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEE
Confidence            56788888888887652   346788888888    77777654 44 7888888888888888665 357788888888


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc-
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP-  164 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~-  164 (366)
                      +|++ +.+..++...+..+++|++|++.+|.+.             ...+..+..+++|+.|+++++....++...... 
T Consensus        94 ~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~i~-------------~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~  159 (361)
T 2xot_A           94 DLSS-NHLHTLDEFLFSDLQALEVLLLYNNHIV-------------VVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDG  159 (361)
T ss_dssp             ECCS-SCCCEECTTTTTTCTTCCEEECCSSCCC-------------EECTTTTTTCTTCCEEECCSSCCCSCCGGGTC--
T ss_pred             ECCC-CcCCcCCHHHhCCCcCCCEEECCCCccc-------------EECHHHhCCcccCCEEECCCCcCCeeCHHHhcCc
Confidence            8888 6777777665788888888888888762             122345677788888888877766654322110 


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcc--cCceEeccccc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEH--LKDLVIDNSNL  204 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~--L~~L~l~~~~l  204 (366)
                      ..+++|+.|+++++.........+..++.  ++.|++.+|.+
T Consensus       160 ~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          160 NKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             --CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCSSCE
T ss_pred             ccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecCCCc
Confidence            23455777777776652222224455554  36677766544

>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=99.44  E-value=2.8e-13  Score=111.18  Aligned_cols=136  Identities=16%  Similarity=0.144  Sum_probs=107.8

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhh-hcCccC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHEL-TALLNL   82 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i-~~l~~L   82 (366)
                      ++++|+.|++++|.+..++.. ....++|++|++++|    .++.+ ..+..+++|++|++++|.++.+|..+ ..+++|
T Consensus        17 ~~~~L~~L~l~~n~l~~i~~~-~~~~~~L~~L~Ls~N----~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   90 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVIENL-GATLDQFDAIDFSDN----EIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   90 (176)
T ss_dssp             CTTSCEEEECTTSCCCSCCCG-GGGTTCCSEEECCSS----CCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             CcCCceEEEeeCCCCchhHHh-hhcCCCCCEEECCCC----CCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCC
Confidence            678999999999999988652 444459999999999    77777 45888999999999999999887655 899999


Q ss_pred             CEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           83 RYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      ++|++++ +.+..+|. ..+..+++|++|++.+|.+...          .......+..+++|+.|+++.+....
T Consensus        91 ~~L~L~~-N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~----------~~~~~~~~~~l~~L~~Ld~~~n~~~~  154 (176)
T 1a9n_A           91 TELILTN-NSLVELGDLDPLASLKSLTYLCILRNPVTNK----------KHYRLYVIYKVPQVRVLDFQKVKLKE  154 (176)
T ss_dssp             CEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSSGGGGS----------TTHHHHHHHHCTTCSEETTEECCHHH
T ss_pred             CEEECCC-CcCCcchhhHhhhcCCCCCEEEecCCCCCCc----------HhHHHHHHHHCCccceeCCCcCCHHH
Confidence            9999999 78888875 2388899999999999977222          11112346778899999888766543

>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=99.44  E-value=6.3e-13  Score=113.94  Aligned_cols=133  Identities=22%  Similarity=0.202  Sum_probs=114.2

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      .++|++|++++|.+..+++..|..+++|++|++++|    .++.++.. +..+++|++|++++|.++.++.. +..+++|
T Consensus        39 ~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N----~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L  114 (229)
T 3e6j_A           39 PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSN----QLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHL  114 (229)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCC----CCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhh
Confidence            478999999999999987666999999999999999    78888754 67899999999999999988764 6889999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      ++|++++ +.+..+|.. +..+++|++|++++|.+...             ....+..+++|+.|.+.++....
T Consensus       115 ~~L~Ls~-N~l~~lp~~-~~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~l~~N~~~c  173 (229)
T 3e6j_A          115 KELFMCC-NKLTELPRG-IERLTHLTHLALDQNQLKSI-------------PHGAFDRLSSLTHAYLFGNPWDC  173 (229)
T ss_dssp             CEEECCS-SCCCSCCTT-GGGCTTCSEEECCSSCCCCC-------------CTTTTTTCTTCCEEECTTSCBCT
T ss_pred             CeEeccC-CcccccCcc-cccCCCCCEEECCCCcCCcc-------------CHHHHhCCCCCCEEEeeCCCccC
Confidence            9999999 888999987 89999999999999987332             12457788999999999887653

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

Probab=99.39  E-value=8.8e-13  Score=120.97  Aligned_cols=158  Identities=16%  Similarity=0.126  Sum_probs=120.2

Q ss_pred             CCcCEEEccCCCCCccchhhhh-cCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPSWFL-SRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~-~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L   82 (366)
                      +.++.|+|++|.+..++...+. .+++|++|++++|    .+..++. .+..+++|++|++++|.++.++. .+..+++|
T Consensus        39 ~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N----~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  114 (361)
T 2xot_A           39 SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHN----HLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQAL  114 (361)
T ss_dssp             TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTC
T ss_pred             CCCCEEECCCCCCCccChhhhhhcccccCEEECCCC----cCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCC
Confidence            4589999999999998887677 8999999999999    7888764 58889999999999999997765 57899999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK  162 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~  162 (366)
                      ++|+|++ +.+..++...+.++++|++|++++|.+...+          ......+..+++|+.|+++++....++.-. 
T Consensus       115 ~~L~L~~-N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~----------~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~-  182 (361)
T 2xot_A          115 EVLLLYN-NHIVVVDRNAFEDMAQLQKLYLSQNQISRFP----------VELIKDGNKLPKLMLLDLSSNKLKKLPLTD-  182 (361)
T ss_dssp             CEEECCS-SCCCEECTTTTTTCTTCCEEECCSSCCCSCC----------GGGTC----CTTCCEEECCSSCCCCCCHHH-
T ss_pred             CEEECCC-CcccEECHHHhCCcccCCEEECCCCcCCeeC----------HHHhcCcccCCcCCEEECCCCCCCccCHHH-
Confidence            9999999 7888876555899999999999999874331          112222367899999999988776654210 


Q ss_pred             ccccccc--ccEEEEeccCC
Q 040318          163 FPKLLRI--TQALSISDCEI  180 (366)
Q Consensus       163 ~~~~~~~--L~~L~l~~~~~  180 (366)
                       ...++.  ++.|++.++..
T Consensus       183 -~~~l~~~~l~~l~l~~N~~  201 (361)
T 2xot_A          183 -LQKLPAWVKNGLYLHNNPL  201 (361)
T ss_dssp             -HHHSCHHHHTTEECCSSCE
T ss_pred             -hhhccHhhcceEEecCCCc
Confidence             011111  46777776554

>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=99.38  E-value=1.7e-12  Score=110.46  Aligned_cols=133  Identities=9%  Similarity=0.128  Sum_probs=112.6

Q ss_pred             CCcCEEEccCCCCCcc-chhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccC
Q 040318            6 SNIPSILELSSNNKVF-EPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l-~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L   82 (366)
                      +.++.|++++|.+..+ +..+|..+++|++|++++|    .++.++. .+..+++|++|++++|.++.++. .+..+++|
T Consensus        32 ~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N----~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  107 (220)
T 2v70_A           32 QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNN----KITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESL  107 (220)
T ss_dssp             TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSS----CCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSC
T ss_pred             CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCC----cCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCC
Confidence            4688999999999987 4456889999999999999    7888765 68889999999999999997765 48899999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      ++|++++ +.+..++...+..+++|++|++.+|.+..             ..+..+..+++|+.|+++++....
T Consensus       108 ~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-------------~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A          108 KTLMLRS-NRITCVGNDSFIGLSSVRLLSLYDNQITT-------------VAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             CEEECTT-SCCCCBCTTSSTTCTTCSEEECTTSCCCC-------------BCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             CEEECCC-CcCCeECHhHcCCCccCCEEECCCCcCCE-------------ECHHHhcCCCCCCEEEecCcCCcC
Confidence            9999999 78888765558999999999999998732             224667889999999999887653

>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=99.37  E-value=7.8e-13  Score=110.13  Aligned_cols=126  Identities=13%  Similarity=0.169  Sum_probs=100.2

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc--ccccccCCEEeccCCCCccC-chhhhcCccCCEe
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG--ISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYL   85 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~--~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L   85 (366)
                      +.++++++++..+|..+   .++|++|++++|    .++.++..  +..+++|++|++++|.++.+ |..+..+++|++|
T Consensus        11 ~~l~~s~~~l~~ip~~~---~~~l~~L~l~~n----~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L   83 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI---PLHTTELLLNDN----ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQEL   83 (192)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSC----CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CEEEcCCCCcCcCccCC---CCCCCEEECCCC----cCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEE
Confidence            67899999998888763   338999999999    77887653  78899999999999998866 6678899999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      ++++ +.+..++...+..+++|++|++++|.+.             ...+..+..+++|+.|+++++...
T Consensus        84 ~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N~l~-------------~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           84 QLGE-NKIKEISNKMFLGLHQLKTLNLYDNQIS-------------CVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             ECCS-CCCCEECSSSSTTCTTCCEEECCSSCCC-------------EECTTSSTTCTTCCEEECTTCCBC
T ss_pred             ECCC-CcCCccCHHHhcCCCCCCEEECCCCcCC-------------eeCHHHhhcCCCCCEEEeCCCCcc
Confidence            9999 7888877665788999999999999772             222455667788888888766543

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

Probab=99.37  E-value=3.6e-12  Score=107.40  Aligned_cols=134  Identities=22%  Similarity=0.237  Sum_probs=114.1

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      .++|++|++++|.+..++...+..+++|++|++++|    .++.++.. +..+++|++|++++|.++.++.. +..+++|
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n----~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  102 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGN----KLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQL  102 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCC----ccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCC
Confidence            467999999999999988887899999999999999    77888654 57899999999999999987764 6889999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      ++|++++ +.+..++...+..+++|++|++.+|.+...             ....+..+++|+.|+++++....
T Consensus       103 ~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-------------~~~~~~~l~~L~~L~l~~N~~~~  162 (208)
T 2o6s_A          103 KELALNT-NQLQSLPDGVFDKLTQLKDLRLYQNQLKSV-------------PDGVFDRLTSLQYIWLHDNPWDC  162 (208)
T ss_dssp             CEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSCC-------------CTTTTTTCTTCCEEECCSCCBCC
T ss_pred             CEEEcCC-CcCcccCHhHhccCCcCCEEECCCCcccee-------------CHHHhccCCCccEEEecCCCeec
Confidence            9999999 788888876678999999999999987322             12446788999999999886653

>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=6.7e-15  Score=142.69  Aligned_cols=197  Identities=14%  Similarity=0.126  Sum_probs=111.3

Q ss_pred             CCCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCC----------CCcCccCccccccccCCEEe-ccCCCCc
Q 040318            2 NIRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIK----------NSLTELPSGISSLVSLQHLD-VSYTDIR   70 (366)
Q Consensus         2 ~~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~----------~~~~~l~~~~~~l~~L~~L~-l~~~~i~   70 (366)
                      ...+++|+.|+|++|.+..+|.. ++++++|+.|+++++...          +..+.+|..++.+.+|+.|+ ++.+.+.
T Consensus       345 ~~~~~~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          345 SATDEQLFRCELSVEKSTVLQSE-LESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  423 (567)
T ss_dssp             CSTTTTSSSCCCCHHHHHHHHHH-HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             cccCccceeccCChhhHHhhHHH-HHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccc
Confidence            34677888888888888778777 778888888888665200          00112344456666777766 4444333


Q ss_pred             cCch------hhhcC--ccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCC
Q 040318           71 GLPH------ELTAL--LNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLK  142 (366)
Q Consensus        71 ~l~~------~i~~l--~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  142 (366)
                      .++.      .+..+  ..|++|++++ +.+..+|.  +..+++|+.|++++|.+.              .++..++.++
T Consensus       424 ~L~~l~l~~n~i~~l~~~~L~~L~Ls~-n~l~~lp~--~~~l~~L~~L~Ls~N~l~--------------~lp~~~~~l~  486 (567)
T 1dce_A          424 DLRSKFLLENSVLKMEYADVRVLHLAH-KDLTVLCH--LEQLLLVTHLDLSHNRLR--------------ALPPALAALR  486 (567)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSEEECTT-SCCSSCCC--GGGGTTCCEEECCSSCCC--------------CCCGGGGGCT
T ss_pred             hhhhhhhhcccccccCccCceEEEecC-CCCCCCcC--ccccccCcEeecCccccc--------------ccchhhhcCC
Confidence            3221      11111  2467777777 56666665  677777777777777652              2234566666


Q ss_pred             CcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceee-ccccCcccccccc
Q 040318          143 LLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELK-TDCTGEVQKVLQC  221 (366)
Q Consensus       143 ~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~-~~~~~~~~~~p~~  221 (366)
                      +|+.|+++++....++                            .++.+++|+.|++++|.++.+. ...+        .
T Consensus       487 ~L~~L~Ls~N~l~~lp----------------------------~l~~l~~L~~L~Ls~N~l~~~~~p~~l--------~  530 (567)
T 1dce_A          487 CLEVLQASDNALENVD----------------------------GVANLPRLQELLLCNNRLQQSAAIQPL--------V  530 (567)
T ss_dssp             TCCEEECCSSCCCCCG----------------------------GGTTCSSCCEEECCSSCCCSSSTTGGG--------G
T ss_pred             CCCEEECCCCCCCCCc----------------------------ccCCCCCCcEEECCCCCCCCCCCcHHH--------h
Confidence            7777766665544432                            3344555555555555555442 2112        2


Q ss_pred             CCCCCcEEeEecCCCCccccc-----ccCCCCccEEE
Q 040318          222 GFRSLHLASIAFCSRVKDLTW-----LAFAPNLKIIV  253 (366)
Q Consensus       222 ~~~~L~~L~l~~~~~l~~l~~-----l~~l~~L~~L~  253 (366)
                      .+++|+.|++++| .++.+++     ...+|+|+.|+
T Consensus       531 ~l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          531 SCPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             GCTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             cCCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence            4566666666666 3444332     11356666654

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

Probab=99.36  E-value=2e-12  Score=107.77  Aligned_cols=125  Identities=18%  Similarity=0.164  Sum_probs=98.0

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeec
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNL   87 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L   87 (366)
                      +.++++++++..+|..+   .++|++|++++|    .++.+|..+..+++|++|++++|.++.++. .+..+++|++|++
T Consensus        13 ~~l~~~~~~l~~ip~~~---~~~l~~L~L~~n----~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~L   85 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI---PRDVTELYLDGN----QFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLIL   85 (193)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCCEEECCSS----CCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCCCCcCCCCC---CCCCCEEECCCC----cCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEEC
Confidence            57888888888888752   368899999999    778888878889999999999998887654 5788899999999


Q ss_pred             cccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccc
Q 040318           88 ERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSS  154 (366)
Q Consensus        88 ~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  154 (366)
                      ++ +.+..++.+.+..+++|++|++.+|.+...             ....+..+++|+.|+++++..
T Consensus        86 s~-N~l~~i~~~~f~~l~~L~~L~L~~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           86 SY-NRLRCIPPRTFDGLKSLRLLSLHGNDISVV-------------PEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CS-SCCCBCCTTTTTTCTTCCEEECCSSCCCBC-------------CTTTTTTCTTCCEEECCSSCE
T ss_pred             CC-CccCEeCHHHhCCCCCCCEEECCCCCCCee-------------ChhhhhcCccccEEEeCCCCe
Confidence            88 778888766688899999999998877322             123456677888888876554

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

Probab=99.35  E-value=5.2e-12  Score=105.15  Aligned_cols=107  Identities=19%  Similarity=0.259  Sum_probs=96.1

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L   82 (366)
                      .++|+.|++++|.+..+|.. |..+++|++|++++|    .++.++. .+..+++|++|++++|.++.++. .+..+++|
T Consensus        30 ~~~l~~L~L~~n~i~~ip~~-~~~l~~L~~L~Ls~N----~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L  104 (193)
T 2wfh_A           30 PRDVTELYLDGNQFTLVPKE-LSNYKHLTLIDLSNN----RISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSL  104 (193)
T ss_dssp             CTTCCEEECCSSCCCSCCGG-GGGCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTC
T ss_pred             CCCCCEEECCCCcCchhHHH-hhcccCCCEEECCCC----cCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCC
Confidence            35899999999999999865 899999999999999    7888764 58889999999999999997765 68899999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++|++++ +.+..++.+.+..+++|+.|++.+|.+
T Consensus       105 ~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A          105 RLLSLHG-NDISVVPEGAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             CEEECCS-SCCCBCCTTTTTTCTTCCEEECCSSCE
T ss_pred             CEEECCC-CCCCeeChhhhhcCccccEEEeCCCCe
Confidence            9999999 889999887688999999999999976

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

Probab=99.34  E-value=6.3e-12  Score=103.10  Aligned_cols=127  Identities=21%  Similarity=0.176  Sum_probs=78.5

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchh-hhcCccCCEe
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYL   85 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~L   85 (366)
                      .+.++++++++..+|..   ..++|++|++++|    .++.++. .+..+++|++|++++|.++.++.. +..+++|++|
T Consensus         9 ~~~l~~~~~~l~~~p~~---~~~~l~~L~l~~n----~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L   81 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTG---IPSSATRLELESN----KLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTIL   81 (177)
T ss_dssp             TTEEECCSSCCSSCCTT---CCTTCSEEECCSS----CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCEEEecCCCCccCCCC---CCCCCcEEEeCCC----cccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEE
Confidence            35566666666666654   2356777777777    5555544 345667777777777776665543 4667777777


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      ++++ +.+..++...+..+++|++|++.+|.+...             ....+..+++|+.|+++++...
T Consensus        82 ~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~-------------~~~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           82 YLHE-NKLQSLPNGVFDKLTQLKELALDTNQLKSV-------------PDGIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             ECCS-SCCCCCCTTTTTTCTTCCEEECCSSCCSCC-------------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             ECCC-CCccccCHHHhhCCcccCEEECcCCcceEe-------------CHHHhcCCcccCEEEecCCCee
Confidence            7777 566666655456677777777777665221             1123455667777777666544

>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=99.34  E-value=2.7e-12  Score=124.39  Aligned_cols=102  Identities=19%  Similarity=0.193  Sum_probs=64.3

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEee
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLN   86 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~   86 (366)
                      .|+.|++++|.+..+|.  +..+++|++|++++|    .++.+|..++.+++|++|++++|.++.+| .++.+++|++|+
T Consensus       442 ~L~~L~Ls~n~l~~lp~--~~~l~~L~~L~Ls~N----~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~  514 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSHN----RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELL  514 (567)
T ss_dssp             TCSEEECTTSCCSSCCC--GGGGTTCCEEECCSS----CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEE
T ss_pred             CceEEEecCCCCCCCcC--ccccccCcEeecCcc----cccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEE
Confidence            45666666666666654  566666666666666    55566666666666666666666666665 566666666666


Q ss_pred             ccccccCCCc--ChhhhcCCCCCcEEEccCCCC
Q 040318           87 LERTYHLSRF--PPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        87 L~~c~~~~~l--~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      +++ +.+..+  |.. +..+++|+.|++++|.+
T Consensus       515 Ls~-N~l~~~~~p~~-l~~l~~L~~L~L~~N~l  545 (567)
T 1dce_A          515 LCN-NRLQQSAAIQP-LVSCPRLVLLNLQGNSL  545 (567)
T ss_dssp             CCS-SCCCSSSTTGG-GGGCTTCCEEECTTSGG
T ss_pred             CCC-CCCCCCCCcHH-HhcCCCCCEEEecCCcC
Confidence            666 555555  443 66666666666666654

>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=99.34  E-value=6e-12  Score=113.87  Aligned_cols=260  Identities=12%  Similarity=0.034  Sum_probs=149.4

Q ss_pred             CCCcCEEEccCCCCC--ccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccc--------cccCCEEeccCCCCccCc
Q 040318            5 YSNIPSILELSSNNK--VFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISS--------LVSLQHLDVSYTDIRGLP   73 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~--------l~~L~~L~l~~~~i~~l~   73 (366)
                      +++|+.|+|++|.+.  .....   .++.++.+.+..+    .   +|. .+.+        |.+|+.|++.. +++.++
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~---~~~~~~~~~~~~~----~---I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~  116 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAG---TYPNGKFYIYMAN----F---VPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIE  116 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSS---SSGGGCCEEECTT----E---ECTTTTEEEETTEEEECTTCCC-CBCT-TCCEEC
T ss_pred             hccCeEEecCcceeEEecCccc---ccccccccccccc----c---cCHHHhcccccccccccCCCcEEECCc-cccchh
Confidence            678999999999887  33322   2333444554444    2   332 3455        88899999888 777665


Q ss_pred             h-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcc-eEEEEe
Q 040318           74 H-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLN-LISFSL  151 (366)
Q Consensus        74 ~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~-~L~l~~  151 (366)
                      . .+.+|++|+.+++.. +.+..++..++..+.++..+..........         ...-...++..+..|+ .+.+..
T Consensus       117 ~~aF~~~~~L~~l~l~~-n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~---------~~~i~~~~f~~~~~L~~~i~~~~  186 (329)
T 3sb4_A          117 DAAFKGCDNLKICQIRK-KTAPNLLPEALADSVTAIFIPLGSSDAYRF---------KNRWEHFAFIEGEPLETTIQVGA  186 (329)
T ss_dssp             TTTTTTCTTCCEEEBCC-SSCCEECTTSSCTTTCEEEECTTCTHHHHT---------STTTTTSCEEESCCCEEEEEECT
T ss_pred             HHHhhcCcccceEEcCC-CCccccchhhhcCCCceEEecCcchhhhhc---------cccccccccccccccceeEEecC
Confidence            4 578888999999988 677777776677777777776654210000         0000011122333343 222221


Q ss_pred             ccccccccc-cccccccccccEEEEeccCCCCcCcc-ch-hhhcccCceEecccccceeeccccCccccccccCCCCCcE
Q 040318          152 YSSRGVRNF-LKFPKLLRITQALSISDCEIPLLNVS-HL-AYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHL  228 (366)
Q Consensus       152 ~~~~~~~~~-~~~~~~~~~L~~L~l~~~~~~~~~~~-~l-~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~  228 (366)
                      .  ...+.. ........+++.+.+.+.-.  .... .+ ..+++|+.+++..++++.++..++        ..|.+|+.
T Consensus       187 ~--~~l~~~~~~~~~~~~~~~~l~~~~~l~--~~~~~~l~~~~~~L~~l~L~~n~i~~I~~~aF--------~~~~~L~~  254 (329)
T 3sb4_A          187 M--GKLEDEIMKAGLQPRDINFLTIEGKLD--NADFKLIRDYMPNLVSLDISKTNATTIPDFTF--------AQKKYLLK  254 (329)
T ss_dssp             T--CCHHHHHHHTTCCGGGCSEEEEEECCC--HHHHHHHHHHCTTCCEEECTTBCCCEECTTTT--------TTCTTCCE
T ss_pred             C--CcHHHHHhhcccCccccceEEEeeeec--HHHHHHHHHhcCCCeEEECCCCCcceecHhhh--------hCCCCCCE
Confidence            1  111110 00011233455666655432  2212 22 236788888888878888877666        47888888


Q ss_pred             EeEecCCCCcccc--cccCCCCcc-EEEEEccCCcccccccccccccccccccccccccccccccccccccccccCC-Cc
Q 040318          229 ASIAFCSRVKDLT--WLAFAPNLK-IIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-AL  304 (366)
Q Consensus       229 L~l~~~~~l~~l~--~l~~l~~L~-~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~  304 (366)
                      |++.++  ++.++  .+..+++|+ .+++.+  .++.+..           .++.++++|+.+++.+ ..++.+... ..
T Consensus       255 l~l~~n--i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~-----------~aF~~c~~L~~l~l~~-n~i~~I~~~aF~  318 (329)
T 3sb4_A          255 IKLPHN--LKTIGQRVFSNCGRLAGTLELPA--SVTAIEF-----------GAFMGCDNLRYVLATG-DKITTLGDELFG  318 (329)
T ss_dssp             EECCTT--CCEECTTTTTTCTTCCEEEEECT--TCCEECT-----------TTTTTCTTEEEEEECS-SCCCEECTTTTC
T ss_pred             EECCcc--cceehHHHhhCChhccEEEEEcc--cceEEch-----------hhhhCCccCCEEEeCC-CccCccchhhhc
Confidence            888774  66654  356788888 888876  3443321           2667788888888854 245555433 33


Q ss_pred             CCCCccEEe
Q 040318          305 PLPQLKEIR  313 (366)
Q Consensus       305 ~~~~L~~L~  313 (366)
                      .+++|+.+.
T Consensus       319 ~~~~L~~ly  327 (329)
T 3sb4_A          319 NGVPSKLIY  327 (329)
T ss_dssp             TTCCCCEEE
T ss_pred             CCcchhhhc
Confidence            466776664

>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=99.32  E-value=3.4e-12  Score=103.78  Aligned_cols=112  Identities=13%  Similarity=0.123  Sum_probs=91.4

Q ss_pred             cCCcccEEECCCCCCCCCcC--ccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCC-cChhhhcCC
Q 040318           28 SRASWTCLDNGPSRIKNSLT--ELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSR-FPPELICSF  104 (366)
Q Consensus        28 ~~~~L~~L~l~~~~~~~~~~--~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~-l~~~~l~~l  104 (366)
                      ..++|++|++++|    .+.  .+|..+..+++|++|++++|.++.+ ..+..+++|++|++++ +.+.. +|.. +..+
T Consensus        22 ~~~~L~~L~l~~n----~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~-N~l~~~~~~~-~~~l   94 (168)
T 2ell_A           22 TPAAVRELVLDNC----KSNDGKIEGLTAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSE-NRIFGGLDML-AEKL   94 (168)
T ss_dssp             CTTSCSEEECCSC----BCBTTBCSSCCGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEES-CCCCSCCCHH-HHHC
T ss_pred             CcccCCEEECCCC----CCChhhHHHHHHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcC-CcCchHHHHH-HhhC
Confidence            4588999999999    666  7888788999999999999999877 7788999999999999 67777 6653 7779


Q ss_pred             CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318          105 SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      ++|++|++++|.+...            ..+..+..+++|+.|+++++.....+
T Consensus        95 ~~L~~L~Ls~N~l~~~------------~~~~~l~~l~~L~~L~l~~N~l~~~~  136 (168)
T 2ell_A           95 PNLTHLNLSGNKLKDI------------STLEPLKKLECLKSLDLFNCEVTNLN  136 (168)
T ss_dssp             TTCCEEECBSSSCCSS------------GGGGGGSSCSCCCEEECCSSGGGTST
T ss_pred             CCCCEEeccCCccCcc------------hhHHHHhcCCCCCEEEeeCCcCcchH
Confidence            9999999999987322            22356778888999988877665443

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

Probab=99.30  E-value=2.8e-12  Score=102.10  Aligned_cols=104  Identities=15%  Similarity=0.188  Sum_probs=90.5

Q ss_pred             CCCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCc-cCccccccccCCEEeccCCCCccCc--hhhhcC
Q 040318            3 IRYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTE-LPSGISSLVSLQHLDVSYTDIRGLP--HELTAL   79 (366)
Q Consensus         3 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~~~~~l~~L~~L~l~~~~i~~l~--~~i~~l   79 (366)
                      ..+++|+.|++++|.+..+ .. +..+++|++|++++|    .++. +|..+..+++|++|++++|.++.++  ..++.+
T Consensus        39 ~~l~~L~~L~l~~n~l~~~-~~-~~~l~~L~~L~Ls~n----~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l  112 (149)
T 2je0_A           39 DEFEELEFLSTINVGLTSI-AN-LPKLNKLKKLELSDN----RVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKL  112 (149)
T ss_dssp             TTCTTCCEEECTTSCCCCC-TT-CCCCTTCCEEECCSS----CCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGC
T ss_pred             hhcCCCcEEECcCCCCCCc-hh-hhcCCCCCEEECCCC----cccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhC
Confidence            3689999999999999988 33 899999999999999    7777 6776777999999999999999765  788999


Q ss_pred             ccCCEeeccccccCCCcCh---hhhcCCCCCcEEEcc
Q 040318           80 LNLRYLNLERTYHLSRFPP---ELICSFSKLEVLRML  113 (366)
Q Consensus        80 ~~L~~L~L~~c~~~~~l~~---~~l~~l~~L~~L~l~  113 (366)
                      ++|++|++++ +.+..++.   ..+..+++|+.|+++
T Consensus       113 ~~L~~L~l~~-N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          113 ENLKSLDLFN-CEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             TTCCEEECTT-CGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CCCCEEeCcC-CcccchHHHHHHHHHHCCCcccccCC
Confidence            9999999999 67777765   458899999999875

>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=99.29  E-value=8.9e-12  Score=103.68  Aligned_cols=107  Identities=17%  Similarity=0.197  Sum_probs=93.6

Q ss_pred             CCcCEEEccCCCCCccchh-hhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCch-hhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPS-WFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~-~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L   82 (366)
                      ++|+.|++++|.+..++.. .+..+++|++|++++|    .++.+ |..+..+++|++|++++|.++.++. .+..+++|
T Consensus        29 ~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L  104 (192)
T 1w8a_A           29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRN----QLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQL  104 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTC
T ss_pred             CCCCEEECCCCcCCccCCccccccCCCCCEEECCCC----CCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCC
Confidence            4899999999999988763 5889999999999999    77777 6678899999999999999996654 48899999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++|++++ +.+..++.+.+..+++|++|++.+|.+
T Consensus       105 ~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~l  138 (192)
T 1w8a_A          105 KTLNLYD-NQISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CEEECCS-SCCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             CEEECCC-CcCCeeCHHHhhcCCCCCEEEeCCCCc
Confidence            9999999 788877554588999999999999977

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.29  E-value=6.5e-12  Score=125.37  Aligned_cols=108  Identities=22%  Similarity=0.240  Sum_probs=95.8

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .++.|+.|+|++|.+..++.. +..+++|++|+|++|    .++.+|..++.+++|++|+|++|.++.+|..++.+++|+
T Consensus       222 ~l~~L~~L~Ls~n~l~~l~~~-~~~l~~L~~L~Ls~N----~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~  296 (727)
T 4b8c_D          222 DDQLWHALDLSNLQIFNISAN-IFKYDFLTRLYLNGN----SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLK  296 (727)
T ss_dssp             CCCCCCEEECTTSCCSCCCGG-GGGCCSCSCCBCTTS----CCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCS
T ss_pred             cCCCCcEEECCCCCCCCCChh-hcCCCCCCEEEeeCC----cCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCC
Confidence            578899999999999888888 448999999999999    777888888899999999999999999999999999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCC
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      +|+|++ +.++.+|.+ +.++++|++|++++|.+.
T Consensus       297 ~L~L~~-N~l~~lp~~-~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          297 YFYFFD-NMVTTLPWE-FGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             EEECCS-SCCCCCCSS-TTSCTTCCCEECTTSCCC
T ss_pred             EEECCC-CCCCccChh-hhcCCCccEEeCCCCccC
Confidence            999999 688889887 899999999999999874

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

Probab=99.25  E-value=2.8e-11  Score=99.14  Aligned_cols=108  Identities=19%  Similarity=0.244  Sum_probs=91.4

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      .++|+.|++++|.+..++...+..+++|++|++++|    .++.++.. +..+++|++|++++|.++.+|.. +..+++|
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n----~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L  102 (177)
T 2o6r_A           27 PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQN----QIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQL  102 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCC----cceEeChhHccCCCccCEEECCCCCccccCHHHhhCCccc
Confidence            468899999999998888777888999999999999    77777654 57789999999999988877654 5788999


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++|++++ +.+..++.+.+..+++|++|++.+|.+
T Consensus       103 ~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A          103 KELALDT-NQLKSVPDGIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             CEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CEEECcC-CcceEeCHHHhcCCcccCEEEecCCCe
Confidence            9999998 788888877567899999999999876

>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=99.25  E-value=1.1e-11  Score=101.68  Aligned_cols=105  Identities=16%  Similarity=0.196  Sum_probs=92.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccc-cccccCCEEeccCCCCccCch--hhhcCccC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGI-SSLVSLQHLDVSYTDIRGLPH--ELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~-~~l~~L~~L~l~~~~i~~l~~--~i~~l~~L   82 (366)
                      ++|+.|++++|.+..++ . +..+++|++|++++|    .++.+|..+ ..+++|++|++++|.++.+|.  .+..+++|
T Consensus        42 ~~L~~L~Ls~N~l~~~~-~-l~~l~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L  115 (176)
T 1a9n_A           42 DQFDAIDFSDNEIRKLD-G-FPLLRRLKTLLVNNN----RICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSL  115 (176)
T ss_dssp             TCCSEEECCSSCCCEEC-C-CCCCSSCCEEECCSS----CCCEECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTC
T ss_pred             CCCCEEECCCCCCCccc-c-cccCCCCCEEECCCC----cccccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCC
Confidence            49999999999999883 3 899999999999999    788887655 789999999999999998887  78899999


Q ss_pred             CEeeccccccCCCcChh---hhcCCCCCcEEEccCCCC
Q 040318           83 RYLNLERTYHLSRFPPE---LICSFSKLEVLRMLESGA  117 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~---~l~~l~~L~~L~l~~~~~  117 (366)
                      ++|++++ +.+..+|..   ++..+++|+.|++.++..
T Consensus       116 ~~L~l~~-N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A          116 TYLCILR-NPVTNKKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             CEEECCS-SGGGGSTTHHHHHHHHCTTCSEETTEECCH
T ss_pred             CEEEecC-CCCCCcHhHHHHHHHHCCccceeCCCcCCH
Confidence            9999999 677777763   488899999999999865

>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=99.24  E-value=2.2e-11  Score=110.17  Aligned_cols=282  Identities=12%  Similarity=0.050  Sum_probs=161.2

Q ss_pred             CCcCEEEccCCCCCccchhhhhc-CCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhc------
Q 040318            6 SNIPSILELSSNNKVFEPSWFLS-RASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTA------   78 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~-~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~------   78 (366)
                      ++++.|.+.|+ +....-..+.. +++|++||+++|    .+......-+.++.++.+.+..+.+..  ..+.+      
T Consensus        25 ~~l~~L~l~g~-i~~~~~~~l~~~l~~L~~LdLs~n----~i~~~~~~~~~~~~~~~~~~~~~~I~~--~aF~~~~~~~~   97 (329)
T 3sb4_A           25 NSITHLTLTGK-LNAEDFRHLRDEFPSLKVLDISNA----EIKMYSGKAGTYPNGKFYIYMANFVPA--YAFSNVVNGVT   97 (329)
T ss_dssp             HHCSEEEEEEE-ECHHHHHHHHHSCTTCCEEEEEEE----EECCEEESSSSSGGGCCEEECTTEECT--TTTEEEETTEE
T ss_pred             CceeEEEEecc-ccHHHHHHHHHhhccCeEEecCcc----eeEEecCccccccccccccccccccCH--HHhcccccccc
Confidence            45777777764 22111111333 677888888888    555211111223334555555543321  24566      


Q ss_pred             --CccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc---
Q 040318           79 --LLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS---  153 (366)
Q Consensus        79 --l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~---  153 (366)
                        +.+|+.+++..  .+..++..++.+|++|+.|++..+.+.+.             ...++..+.++..+......   
T Consensus        98 ~g~~~L~~l~L~~--~i~~I~~~aF~~~~~L~~l~l~~n~i~~i-------------~~~aF~~~~~l~~l~~~~~~~~~  162 (329)
T 3sb4_A           98 KGKQTLEKVILSE--KIKNIEDAAFKGCDNLKICQIRKKTAPNL-------------LPEALADSVTAIFIPLGSSDAYR  162 (329)
T ss_dssp             EECTTCCC-CBCT--TCCEECTTTTTTCTTCCEEEBCCSSCCEE-------------CTTSSCTTTCEEEECTTCTHHHH
T ss_pred             cccCCCcEEECCc--cccchhHHHhhcCcccceEEcCCCCcccc-------------chhhhcCCCceEEecCcchhhhh
Confidence              99999999987  67788887799999999999999876322             12334444444433332210   


Q ss_pred             -cccccccccccccccccc-EEEEeccCCCCcCccchh---hhcccCceEecccccceeeccccCccccccccCCCCCcE
Q 040318          154 -SRGVRNFLKFPKLLRITQ-ALSISDCEIPLLNVSHLA---YMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHL  228 (366)
Q Consensus       154 -~~~~~~~~~~~~~~~~L~-~L~l~~~~~~~~~~~~l~---~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~  228 (366)
                       ...+....  ...+..|+ .+.+.....  .......   ...++..+.+.+. +.........       ..|++|+.
T Consensus       163 ~~~~i~~~~--f~~~~~L~~~i~~~~~~~--l~~~~~~~~~~~~~~~~l~~~~~-l~~~~~~~l~-------~~~~~L~~  230 (329)
T 3sb4_A          163 FKNRWEHFA--FIEGEPLETTIQVGAMGK--LEDEIMKAGLQPRDINFLTIEGK-LDNADFKLIR-------DYMPNLVS  230 (329)
T ss_dssp             TSTTTTTSC--EEESCCCEEEEEECTTCC--HHHHHHHTTCCGGGCSEEEEEEC-CCHHHHHHHH-------HHCTTCCE
T ss_pred             ccccccccc--cccccccceeEEecCCCc--HHHHHhhcccCccccceEEEeee-ecHHHHHHHH-------HhcCCCeE
Confidence             00111100  01122344 333333222  1111111   2345566666542 1111110000       24899999


Q ss_pred             EeEecCCCCcccc--cccCCCCccEEEEEccCCccccccccccccccccccccccccccc-ccccccccccccccCC-Cc
Q 040318          229 ASIAFCSRVKDLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLE-LLDLYHAENLKSIYQG-AL  304 (366)
Q Consensus       229 L~l~~~~~l~~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~-~L~l~~~~~l~~~~~~-~~  304 (366)
                      +++.++ .++.++  .+..+++|+.|++.++  ++.+..           .++.++++|+ .+.+.+  .++.+... ..
T Consensus       231 l~L~~n-~i~~I~~~aF~~~~~L~~l~l~~n--i~~I~~-----------~aF~~~~~L~~~l~l~~--~l~~I~~~aF~  294 (329)
T 3sb4_A          231 LDISKT-NATTIPDFTFAQKKYLLKIKLPHN--LKTIGQ-----------RVFSNCGRLAGTLELPA--SVTAIEFGAFM  294 (329)
T ss_dssp             EECTTB-CCCEECTTTTTTCTTCCEEECCTT--CCEECT-----------TTTTTCTTCCEEEEECT--TCCEECTTTTT
T ss_pred             EECCCC-CcceecHhhhhCCCCCCEEECCcc--cceehH-----------HHhhCChhccEEEEEcc--cceEEchhhhh
Confidence            999988 688876  4678999999999875  444432           2677899999 999977  66666533 44


Q ss_pred             CCCCccEEeccCCCCCCCCCCCCCCCCcceeEEE
Q 040318          305 PLPQLKEIRVTQCPKLKTLPLNSSSTKLRNIVIS  338 (366)
Q Consensus       305 ~~~~L~~L~l~~c~~l~~lp~~~~~~~~~~~~~~  338 (366)
                      .|++|+.+++.+ .+++.++.........++.+.
T Consensus       295 ~c~~L~~l~l~~-n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          295 GCDNLRYVLATG-DKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             TCTTEEEEEECS-SCCCEECTTTTCTTCCCCEEE
T ss_pred             CCccCCEEEeCC-CccCccchhhhcCCcchhhhc
Confidence            689999999976 478888876555435555553

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

Probab=99.24  E-value=3.5e-11  Score=98.36  Aligned_cols=103  Identities=18%  Similarity=0.204  Sum_probs=89.2

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchh-hhcCccCCEe
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRYL   85 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~L   85 (366)
                      -+.++++++.+..+|..+   .++|++|++++|    .+..+ |..+..+++|++|++++|+++.+|.. +..+++|++|
T Consensus        14 ~~~l~~~~n~l~~iP~~~---~~~L~~L~Ls~N----~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L   86 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI---PTDKQRLWLNNN----QITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQL   86 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC---CTTCSEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CcEEEeCCCCCCccCCCc---CCCCcEEEeCCC----CccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEE
Confidence            368899999999998863   389999999999    77887 55688899999999999999988775 5789999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCC
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGAD  118 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~  118 (366)
                      +|++ +.+..++.+.+..+++|++|++.+|.+.
T Consensus        87 ~L~~-N~l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           87 DLND-NHLKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             ECCS-SCCCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             ECCC-CccceeCHHHhccccCCCEEEeCCCCcc
Confidence            9999 8888888776889999999999999874

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.24  E-value=5.3e-12  Score=126.04  Aligned_cols=115  Identities=21%  Similarity=0.244  Sum_probs=97.4

Q ss_pred             chhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhh
Q 040318           22 EPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELI  101 (366)
Q Consensus        22 ~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l  101 (366)
                      ++..+..++.|++|++++|    .+..+|..++.+++|++|+|++|.++.+|..++.+++|++|+|++ +.+..+|.+ +
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n----~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~-N~l~~lp~~-~  289 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNL----QIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAE-L  289 (727)
T ss_dssp             ------CCCCCCEEECTTS----CCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTT-SCCSSCCSS-G
T ss_pred             ChhhhccCCCCcEEECCCC----CCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcC-CcCCccChh-h
Confidence            3445888999999999999    778999888899999999999999999999999999999999999 778899887 8


Q ss_pred             cCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318          102 CSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus       102 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      .++++|++|++++|.+.              .++..+..+++|+.|+++++....
T Consensus       290 ~~l~~L~~L~L~~N~l~--------------~lp~~~~~l~~L~~L~L~~N~l~~  330 (727)
T 4b8c_D          290 GSCFQLKYFYFFDNMVT--------------TLPWEFGNLCNLQFLGVEGNPLEK  330 (727)
T ss_dssp             GGGTTCSEEECCSSCCC--------------CCCSSTTSCTTCCCEECTTSCCCS
T ss_pred             cCCCCCCEEECCCCCCC--------------ccChhhhcCCCccEEeCCCCccCC
Confidence            99999999999999772              334558889999999999887653

>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=99.24  E-value=3.6e-11  Score=97.93  Aligned_cols=103  Identities=17%  Similarity=0.192  Sum_probs=89.1

Q ss_pred             CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchh-hhcCccCCE
Q 040318            7 NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNLRY   84 (366)
Q Consensus         7 ~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L~~   84 (366)
                      ..+.++++++.+..+|..+   .++|++|++++|    .++.+ |..+..+++|++|++++|+++.+|.. +..+++|++
T Consensus        10 ~~~~l~~s~n~l~~ip~~~---~~~l~~L~L~~N----~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~   82 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGI---PTTTQVLYLYDN----QITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQ   82 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCC---CTTCSEEECCSS----CCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCEEEeCCCCcCccCccC---CCCCcEEEcCCC----cCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCE
Confidence            3578999999999998763   488999999999    77887 55688899999999999999988765 588999999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |+|++ +.+..++.+.+..+++|++|++.+|.+
T Consensus        83 L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           83 LSLND-NQLKSIPRGAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             EECCS-SCCCCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             EECCC-CccCEeCHHHhcCCCCCCEEEeCCCCC
Confidence            99999 788888876688999999999999976

>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=99.24  E-value=4.8e-13  Score=111.98  Aligned_cols=148  Identities=12%  Similarity=0.107  Sum_probs=114.5

Q ss_pred             CCcCEEEccCC--CCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            6 SNIPSILELSS--NNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~--~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      -.++...+.+.  .++.+|.. +..+++|++|++++|    .++.+| .+..+++|++|++++|.++.+|..+..+++|+
T Consensus        23 l~l~~~~l~~~~~~l~~l~~~-~~~l~~L~~L~ls~n----~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~   96 (198)
T 1ds9_A           23 TEAEKVELHGMIPPIEKMDAT-LSTLKACKHLALSTN----NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLE   96 (198)
T ss_dssp             TTCSEEECCBCCTTCCCCHHH-HHHTTTCSEEECSEE----EESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCS
T ss_pred             cchheeEeccccCcHhhhhHH-HhcCCCCCEEECCCC----CCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCC
Confidence            34556666654  45566665 889999999999999    778888 68889999999999999999998888889999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccc----
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRN----  159 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~----  159 (366)
                      +|++++ +.+..+|.  +..+++|++|++.+|.+...            .....+..+++|+.|+++++.......    
T Consensus        97 ~L~L~~-N~l~~l~~--~~~l~~L~~L~l~~N~i~~~------------~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~  161 (198)
T 1ds9_A           97 ELWISY-NQIASLSG--IEKLVNLRVLYMSNNKITNW------------GEIDKLAALDKLEDLLLAGNPLYNDYKENNA  161 (198)
T ss_dssp             EEEEEE-EECCCHHH--HHHHHHSSEEEESEEECCCH------------HHHHHHTTTTTCSEEEECSCHHHHHHHTTTT
T ss_pred             EEECcC-CcCCcCCc--cccCCCCCEEECCCCcCCch------------hHHHHHhcCCCCCEEEecCCccccccccccc
Confidence            999999 78888874  88999999999999977221            233578889999999999887644311    


Q ss_pred             ---c-cccccccccccEEE
Q 040318          160 ---F-LKFPKLLRITQALS  174 (366)
Q Consensus       160 ---~-~~~~~~~~~L~~L~  174 (366)
                         + ......+++|+.|+
T Consensus       162 ~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          162 TSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHHHHHHHHCSSCSEEC
T ss_pred             hHHHHHHHHHhCCCcEEEC
Confidence               1 11123456688776

>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=99.22  E-value=2.9e-12  Score=107.20  Aligned_cols=114  Identities=20%  Similarity=0.219  Sum_probs=72.3

Q ss_pred             ccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCcccccccc
Q 040318           48 ELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVL  127 (366)
Q Consensus        48 ~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  127 (366)
                      .+|..+..+++|++|++++|.++.+| .+..+++|++|++++ +.+..+|.. +..+++|++|++++|.+..        
T Consensus        39 ~l~~~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~-n~l~~l~~~-~~~~~~L~~L~L~~N~l~~--------  107 (198)
T 1ds9_A           39 KMDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGR-NLIKKIENL-DAVADTLEELWISYNQIAS--------  107 (198)
T ss_dssp             CCHHHHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEE-EEECSCSSH-HHHHHHCSEEEEEEEECCC--------
T ss_pred             hhhHHHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCC-CCcccccch-hhcCCcCCEEECcCCcCCc--------
Confidence            33345667777777777777777776 677777777777777 566667653 5666777777777776511        


Q ss_pred             ccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCC
Q 040318          128 SEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEI  180 (366)
Q Consensus       128 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  180 (366)
                             ...+..+++|+.|+++++.....+.+... ..+++|+.|++.++..
T Consensus       108 -------l~~~~~l~~L~~L~l~~N~i~~~~~~~~l-~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          108 -------LSGIEKLVNLRVLYMSNNKITNWGEIDKL-AALDKLEDLLLAGNPL  152 (198)
T ss_dssp             -------HHHHHHHHHSSEEEESEEECCCHHHHHHH-TTTTTCSEEEECSCHH
T ss_pred             -------CCccccCCCCCEEECCCCcCCchhHHHHH-hcCCCCCEEEecCCcc
Confidence                   12455667777777777766654432111 2244577777776644

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.13  E-value=2.4e-09  Score=99.28  Aligned_cols=234  Identities=12%  Similarity=0.100  Sum_probs=128.2

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCccCC
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~   83 (366)
                      ..++.+.+.. +++.++...|.++ +|+.+.+..+     ++.++. .+.+ .+|+.+.+.. .++.++ ..+.+|.+|+
T Consensus       113 ~~l~~i~ip~-~i~~I~~~aF~~~-~L~~i~l~~~-----i~~I~~~aF~~-~~L~~i~lp~-~l~~I~~~aF~~c~~L~  183 (401)
T 4fdw_A          113 KGYNEIILPN-SVKSIPKDAFRNS-QIAKVVLNEG-----LKSIGDMAFFN-STVQEIVFPS-TLEQLKEDIFYYCYNLK  183 (401)
T ss_dssp             SSCSEEECCT-TCCEECTTTTTTC-CCSEEECCTT-----CCEECTTTTTT-CCCCEEECCT-TCCEECSSTTTTCTTCC
T ss_pred             CCccEEEECC-ccCEehHhhcccC-CccEEEeCCC-----ccEECHHhcCC-CCceEEEeCC-CccEehHHHhhCcccCC
Confidence            4455555553 3556666666664 5777766543     344443 2333 3566666654 344333 3456666777


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      .+++.. +.+..++..++. +.+|+.+.+..+ +.             .-...++..+.+|+.+.+... ...++.-...
T Consensus       184 ~l~l~~-n~l~~I~~~aF~-~~~L~~l~lp~~-l~-------------~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~  246 (401)
T 4fdw_A          184 KADLSK-TKITKLPASTFV-YAGIEEVLLPVT-LK-------------EIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFR  246 (401)
T ss_dssp             EEECTT-SCCSEECTTTTT-TCCCSEEECCTT-CC-------------EECTTTTTTCTTCCCEECCTT-CCEECTTTTT
T ss_pred             eeecCC-CcceEechhhEe-ecccCEEEeCCc-hh-------------eehhhHhhCCCCCCEEecCCC-ccCccccccc
Confidence            777766 566666655444 466777766543 21             112234555666666666431 1222111111


Q ss_pred             ccccccccEEEEeccCCCCcCccchhhhcccCceEecccccc-----eeeccccCccccccccCCCCCcEEeEecCCCCc
Q 040318          164 PKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLE-----ELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK  238 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~-----~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~  238 (366)
                      .   .+|+.+.+.+.-. ......+..|++|+.+.+.++.+.     .++..++        ..|++|+.+.+.+  .++
T Consensus       247 ~---~~L~~i~lp~~i~-~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF--------~~c~~L~~l~l~~--~i~  312 (401)
T 4fdw_A          247 E---SGITTVKLPNGVT-NIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCL--------EGCPKLARFEIPE--SIR  312 (401)
T ss_dssp             T---CCCSEEEEETTCC-EECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTT--------TTCTTCCEECCCT--TCC
T ss_pred             c---CCccEEEeCCCcc-EEChhHhhCCCCCCEEEeCCccccCCcccEECHHHh--------hCCccCCeEEeCC--ceE
Confidence            1   3466776643211 122236677778888887664443     4555444        4677888887774  455


Q ss_pred             ccc--cccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          239 DLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       239 ~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      .+.  .+..+++|+.+.|..+  ++.+..           .++.++ +|+.+.+.+.
T Consensus       313 ~I~~~aF~~c~~L~~l~lp~~--l~~I~~-----------~aF~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          313 ILGQGLLGGNRKVTQLTIPAN--VTQINF-----------SAFNNT-GIKEVKVEGT  355 (401)
T ss_dssp             EECTTTTTTCCSCCEEEECTT--CCEECT-----------TSSSSS-CCCEEEECCS
T ss_pred             EEhhhhhcCCCCccEEEECcc--ccEEcH-----------HhCCCC-CCCEEEEcCC
Confidence            544  3556788888888543  333321           255666 7888888764

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.04  E-value=1e-08  Score=95.06  Aligned_cols=265  Identities=8%  Similarity=0.033  Sum_probs=144.2

Q ss_pred             hhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcC
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICS  103 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~  103 (366)
                      +..+..++.+.+..     .++.++. .+.++ +|+.+.+..+ ++.++. .+.+ .+|+.+.+..  .+..++..++.+
T Consensus       109 ~~~~~~l~~i~ip~-----~i~~I~~~aF~~~-~L~~i~l~~~-i~~I~~~aF~~-~~L~~i~lp~--~l~~I~~~aF~~  178 (401)
T 4fdw_A          109 TEILKGYNEIILPN-----SVKSIPKDAFRNS-QIAKVVLNEG-LKSIGDMAFFN-STVQEIVFPS--TLEQLKEDIFYY  178 (401)
T ss_dssp             EEECSSCSEEECCT-----TCCEECTTTTTTC-CCSEEECCTT-CCEECTTTTTT-CCCCEEECCT--TCCEECSSTTTT
T ss_pred             EEecCCccEEEECC-----ccCEehHhhcccC-CccEEEeCCC-ccEECHHhcCC-CCceEEEeCC--CccEehHHHhhC
Confidence            34456667666654     3455544 34444 6787777655 554433 3344 3678777754  456666555777


Q ss_pred             CCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCc
Q 040318          104 FSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLL  183 (366)
Q Consensus       104 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~  183 (366)
                      |++|+.+++..+.+...+             ..++. ..+|+.+.+.. ....++.-  ....+.+|+.+.+...-. ..
T Consensus       179 c~~L~~l~l~~n~l~~I~-------------~~aF~-~~~L~~l~lp~-~l~~I~~~--aF~~~~~L~~l~l~~~l~-~I  240 (401)
T 4fdw_A          179 CYNLKKADLSKTKITKLP-------------ASTFV-YAGIEEVLLPV-TLKEIGSQ--AFLKTSQLKTIEIPENVS-TI  240 (401)
T ss_dssp             CTTCCEEECTTSCCSEEC-------------TTTTT-TCCCSEEECCT-TCCEECTT--TTTTCTTCCCEECCTTCC-EE
T ss_pred             cccCCeeecCCCcceEec-------------hhhEe-ecccCEEEeCC-chheehhh--HhhCCCCCCEEecCCCcc-Cc
Confidence            888888888776552221             11222 35677766652 22222211  112345577777754211 12


Q ss_pred             CccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCc-----ccc--cccCCCCccEEEEEc
Q 040318          184 NVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVK-----DLT--WLAFAPNLKIIVIMH  256 (366)
Q Consensus       184 ~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~-----~l~--~l~~l~~L~~L~L~~  256 (366)
                      ....+.. .+|+.+.+ .+.++.++..++        ..|++|+.+.+.++. ..     .++  .+..+++|+.+.|.+
T Consensus       241 ~~~aF~~-~~L~~i~l-p~~i~~I~~~aF--------~~c~~L~~l~l~~~~-~~~~~~~~I~~~aF~~c~~L~~l~l~~  309 (401)
T 4fdw_A          241 GQEAFRE-SGITTVKL-PNGVTNIASRAF--------YYCPELAEVTTYGST-FNDDPEAMIHPYCLEGCPKLARFEIPE  309 (401)
T ss_dssp             CTTTTTT-CCCSEEEE-ETTCCEECTTTT--------TTCTTCCEEEEESSC-CCCCTTCEECTTTTTTCTTCCEECCCT
T ss_pred             ccccccc-CCccEEEe-CCCccEEChhHh--------hCCCCCCEEEeCCcc-ccCCcccEECHHHhhCCccCCeEEeCC
Confidence            2224444 57777777 355666665555        467888888887652 21     222  355677788877763


Q ss_pred             cCCcccccccccccccccccccccccccccccccccccccccccCC-CcCCCCccEEeccCCCCCCCCCCCCCCCC-cce
Q 040318          257 CDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG-ALPLPQLKEIRVTQCPKLKTLPLNSSSTK-LRN  334 (366)
Q Consensus       257 c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~-~~~~~~L~~L~l~~c~~l~~lp~~~~~~~-~~~  334 (366)
                      .  ++.+..           .++.++++|+.+.|..  +++.+... ...+ +|+.+.+.+. .+..++....... ..+
T Consensus       310 ~--i~~I~~-----------~aF~~c~~L~~l~lp~--~l~~I~~~aF~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l  372 (401)
T 4fdw_A          310 S--IRILGQ-----------GLLGGNRKVTQLTIPA--NVTQINFSAFNNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDI  372 (401)
T ss_dssp             T--CCEECT-----------TTTTTCCSCCEEEECT--TCCEECTTSSSSS-CCCEEEECCS-SCCBCCCSSCCCSCTTC
T ss_pred             c--eEEEhh-----------hhhcCCCCccEEEECc--cccEEcHHhCCCC-CCCEEEEcCC-CCcccccccccCCCCCc
Confidence            2  333321           2556677788877743  35454433 2235 7888888764 4444544433322 345


Q ss_pred             eEEEcchhhhcc
Q 040318          335 IVISGGKDWWEE  346 (366)
Q Consensus       335 ~~~~~~~~~~~~  346 (366)
                      ..+..+....+.
T Consensus       373 ~~l~vp~~~~~~  384 (401)
T 4fdw_A          373 TVIRVPAESVEK  384 (401)
T ss_dssp             CEEEECGGGHHH
T ss_pred             cEEEeCHHHHHH
Confidence            556655554433

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

Probab=99.02  E-value=1.1e-09  Score=89.35  Aligned_cols=89  Identities=18%  Similarity=0.226  Sum_probs=78.2

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      .++|++|++++|.+..+++..|..+++|++|++++|    .++.+|.. +..+++|++|++++|.++.+|.. +..+++|
T Consensus        32 ~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N----~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L  107 (174)
T 2r9u_A           32 PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSN----KLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSL  107 (174)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS----CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCC----CCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCC
Confidence            378999999999999987776999999999999999    88888775 57899999999999999988875 8899999


Q ss_pred             CEeeccccccCCCcCh
Q 040318           83 RYLNLERTYHLSRFPP   98 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~   98 (366)
                      ++|++++ +.+...+.
T Consensus       108 ~~L~L~~-N~~~c~~~  122 (174)
T 2r9u_A          108 THIYLYN-NPWDCECR  122 (174)
T ss_dssp             SEEECCS-SCBCTTBG
T ss_pred             CEEEeCC-CCcccccc
Confidence            9999999 66665543

>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=6.4e-10  Score=90.43  Aligned_cols=105  Identities=25%  Similarity=0.264  Sum_probs=88.0

Q ss_pred             cccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccC-chhhhcCccCCEeeccccccCCCcChhhhcCCCCCcE
Q 040318           31 SWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEV  109 (366)
Q Consensus        31 ~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~  109 (366)
                      ..++++++++    .++.+|..+.  ++|++|++++|.++.+ |..+..+++|++|++++ +.+..++.+.+..+++|++
T Consensus        10 ~~~~l~~s~n----~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~   82 (170)
T 3g39_A           10 SGTTVDCSGK----SLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDN-NQLTVLPAGVFDKLTQLTQ   82 (170)
T ss_dssp             ETTEEECTTS----CCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCS-SCCCCCCTTTTTTCTTCCE
T ss_pred             CCCEEEeCCC----CcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCC-CCcCccChhhccCCCCCCE
Confidence            4688999999    8899997664  8999999999999977 56789999999999999 8899998876789999999


Q ss_pred             EEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318          110 LRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus       110 L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                      |++++|.+...             ....+..+++|+.|+++++...
T Consensus        83 L~L~~N~l~~~-------------~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           83 LSLNDNQLKSI-------------PRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             EECCSSCCCCC-------------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             EECCCCccCEe-------------CHHHhcCCCCCCEEEeCCCCCC
Confidence            99999987322             1234677889999999877654

>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=98.87  E-value=6.9e-09  Score=94.33  Aligned_cols=103  Identities=16%  Similarity=0.111  Sum_probs=88.1

Q ss_pred             CEEEccCC-CCCccchhhhhcCCcccEEECCC-CCCCCCcCccC-ccccccccCCEEeccCCCCccCch-hhhcCccCCE
Q 040318            9 PSILELSS-NNKVFEPSWFLSRASWTCLDNGP-SRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRY   84 (366)
Q Consensus         9 ~~L~l~~~-~~~~l~~~~~~~~~~L~~L~l~~-~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~   84 (366)
                      ..++.+++ ++..+|.  +..+++|++|+|++ |    .++.++ ..+..+++|++|+|++|+++.++. .+.++++|++
T Consensus        11 ~~v~~~~~n~l~~ip~--l~~~~~L~~L~l~~~n----~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~   84 (347)
T 2ifg_A           11 SGLRCTRDGALDSLHH--LPGAENLTELYIENQQ----HLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSR   84 (347)
T ss_dssp             SCEECCSSCCCTTTTT--SCSCSCCSEEECCSCS----SCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCE
T ss_pred             CEEEcCCCCCCCccCC--CCCCCCeeEEEccCCC----CCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCE
Confidence            35688887 8999988  88899999999996 8    888887 468889999999999999997654 6799999999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCC
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADS  119 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~  119 (366)
                      |+|++ +.+..+|.+.+..++ |+.|++.+|.+..
T Consensus        85 L~l~~-N~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           85 LNLSF-NALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             EECCS-SCCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             EeCCC-CccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            99999 889999887566565 9999999998743

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.79  E-value=1.5e-09  Score=99.62  Aligned_cols=22  Identities=14%  Similarity=-0.062  Sum_probs=15.9

Q ss_pred             hhhhcccCceEecccccceeec
Q 040318          188 LAYMEHLKDLVIDNSNLEELKT  209 (366)
Q Consensus       188 l~~~~~L~~L~l~~~~l~~l~~  209 (366)
                      +...++|++|++++|.+.+.+.
T Consensus       235 L~~~~~L~~L~Ls~N~i~~~g~  256 (372)
T 3un9_A          235 AREHPSLELLHLYFNELSSEGR  256 (372)
T ss_dssp             HHHCSSCCEEECTTSSCCHHHH
T ss_pred             HHhCCCCCEEeccCCCCCHHHH
Confidence            4456788888888887766554

>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=98.65  E-value=6.7e-08  Score=87.74  Aligned_cols=87  Identities=16%  Similarity=0.102  Sum_probs=74.2

Q ss_pred             CCCCcCEEEccC-CCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchhhhcCcc
Q 040318            4 RYSNIPSILELS-SNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~-~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~   81 (366)
                      .+++|+.|+|++ |.+..+++..|..+++|++|+|++|    .+..++. .|..+++|++|+|++|.++.+|..+.....
T Consensus        29 ~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N----~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~  104 (347)
T 2ifg_A           29 GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS----GLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLS  104 (347)
T ss_dssp             SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS----CCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCC
T ss_pred             CCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC----ccceeCHHHhcCCcCCCEEeCCCCccceeCHHHcccCC
Confidence            567899999996 9999999877999999999999999    7888754 578899999999999999988876544445


Q ss_pred             CCEeeccccccCCC
Q 040318           82 LRYLNLERTYHLSR   95 (366)
Q Consensus        82 L~~L~L~~c~~~~~   95 (366)
                      |+.|++.+ +.+..
T Consensus       105 L~~l~l~~-N~~~c  117 (347)
T 2ifg_A          105 LQELVLSG-NPLHC  117 (347)
T ss_dssp             CCEEECCS-SCCCC
T ss_pred             ceEEEeeC-CCccC
Confidence            99999998 66553

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.64  E-value=8.3e-09  Score=94.67  Aligned_cols=161  Identities=11%  Similarity=0.098  Sum_probs=111.8

Q ss_pred             CCCcCEEEccCCCCCccchhhhh-----cCCcccEEECCCCCCCCCcCc--cCccccccccCCEEeccCCCCccC-----
Q 040318            5 YSNIPSILELSSNNKVFEPSWFL-----SRASWTCLDNGPSRIKNSLTE--LPSGISSLVSLQHLDVSYTDIRGL-----   72 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~-----~~~~L~~L~l~~~~~~~~~~~--l~~~~~~l~~L~~L~l~~~~i~~l-----   72 (366)
                      .++|+.|++++|.+.......+.     ..++|++|++++|    .++.  +......+++|++|++++|.++..     
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n----~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L  146 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASC----QLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDL  146 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTC----CCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCC----CCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHH
Confidence            36799999999998864333233     3379999999999    5554  222234477899999999988732     


Q ss_pred             chhh-hcCccCCEeeccccccCCC-----cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcce
Q 040318           73 PHEL-TALLNLRYLNLERTYHLSR-----FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNL  146 (366)
Q Consensus        73 ~~~i-~~l~~L~~L~L~~c~~~~~-----l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  146 (366)
                      ...+ ...++|++|+|++ +.++.     ++.. +..+++|++|++++|.+...         ........+...++|+.
T Consensus       147 ~~~L~~~~~~L~~L~Ls~-n~l~~~~~~~l~~~-L~~~~~L~~L~Ls~N~l~~~---------g~~~L~~~L~~~~~L~~  215 (372)
T 3un9_A          147 RDLLLHDQCQITTLRLSN-NPLTAAGVAVLMEG-LAGNTSVTHLSLLHTGLGDE---------GLELLAAQLDRNRQLQE  215 (372)
T ss_dssp             HHHHHSTTCCCCEEECCS-SCCHHHHHHHHHHH-HHTCSSCCEEECTTSSCHHH---------HHHHHHHHGGGCSCCCE
T ss_pred             HHHHHhcCCccceeeCCC-CCCChHHHHHHHHH-HhcCCCcCEEeCCCCCCCcH---------HHHHHHHHHhcCCCcCe
Confidence            2222 2467899999999 45544     3332 57889999999999987110         01223566778889999


Q ss_pred             EEEEeccccccc--cccccccccccccEEEEeccCC
Q 040318          147 ISFSLYSSRGVR--NFLKFPKLLRITQALSISDCEI  180 (366)
Q Consensus       147 L~l~~~~~~~~~--~~~~~~~~~~~L~~L~l~~~~~  180 (366)
                      |+++++...+..  .+.......++|++|+++++..
T Consensus       216 L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i  251 (372)
T 3un9_A          216 LNVAYNGAGDTAALALARAAREHPSLELLHLYFNEL  251 (372)
T ss_dssp             EECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSC
T ss_pred             EECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCC
Confidence            999998876532  3333333346799999999876

>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=98.60  E-value=2.1e-08  Score=80.97  Aligned_cols=87  Identities=10%  Similarity=0.091  Sum_probs=57.6

Q ss_pred             CCCcEEeEecCCCCcc--cccccCCCCccEEEEEccCCcccccccccccccccccccccc----cccccccccccccccc
Q 040318          224 RSLHLASIAFCSRVKD--LTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNF----FAKLELLDLYHAENLK  297 (366)
Q Consensus       224 ~~L~~L~l~~~~~l~~--l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~----~~~L~~L~l~~~~~l~  297 (366)
                      .+|++|++++|. +++  +..+..+++|++|+|++|..+++...           ..+..    .++|++|++++|..++
T Consensus        61 ~~L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL-----------~~L~~~~~~~~~L~~L~Ls~C~~IT  128 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCL-----------ERLSQLENLQKSMLEMEIISCGNVT  128 (176)
T ss_dssp             CCEEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHH-----------HHHHTCHHHHHHCCEEEEESCTTCC
T ss_pred             ceEeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHH-----------HHHHhcccccCCCCEEEcCCCCcCC
Confidence            357788888874 665  44566778888888888877766421           02222    3578888888887776


Q ss_pred             cccCC-CcCCCCccEEeccCCCCCCC
Q 040318          298 SIYQG-ALPLPQLKEIRVTQCPKLKT  322 (366)
Q Consensus       298 ~~~~~-~~~~~~L~~L~l~~c~~l~~  322 (366)
                      +-... ...+++|++|++++|++++.
T Consensus       129 D~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          129 DKGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             HHHHHHHhcCCCCCEEECCCCCCCCc
Confidence            64322 23478888888888887775

>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=98.52  E-value=4e-08  Score=79.28  Aligned_cols=88  Identities=17%  Similarity=0.258  Sum_probs=48.4

Q ss_pred             ccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc--cccccCC----CCccEEEEEccCCccccccc
Q 040318          193 HLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--LTWLAFA----PNLKIIVIMHCDDLEEIISV  266 (366)
Q Consensus       193 ~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--l~~l~~l----~~L~~L~L~~c~~~~~~~~~  266 (366)
                      +|+.|+++++.+++.+....        ..|++|++|++++|..+++  +..++.+    ++|++|+|++|..+++... 
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L--------~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl-  132 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHM--------EGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI-  132 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGG--------TTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH-
T ss_pred             eEeEEeCcCCCccHHHHHHh--------cCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH-
Confidence            34555555544444333222        3566677777777766666  3334432    3567777777766655321 


Q ss_pred             ccccccccccccccccccccccccccccccccc
Q 040318          267 EKLNQLSDIMGELNFFAKLELLDLYHAENLKSI  299 (366)
Q Consensus       267 ~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  299 (366)
                                ..+..+++|++|++++|+.+++.
T Consensus       133 ----------~~L~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          133 ----------IALHHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             ----------HHGGGCTTCCEEEEESCTTCCCH
T ss_pred             ----------HHHhcCCCCCEEECCCCCCCCch
Confidence                      13345667777777777666543

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.50  E-value=3.4e-06  Score=77.86  Aligned_cols=56  Identities=11%  Similarity=0.041  Sum_probs=34.0

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEecc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVS   65 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~   65 (366)
                      .|.+|+.+.+.. +++.++..+|.+|.+|+.+++..+     ++.++. .+..+..|+.+.+.
T Consensus        69 ~c~~L~~i~lp~-~i~~I~~~aF~~c~~L~~i~lp~~-----l~~I~~~aF~~c~~L~~i~~p  125 (394)
T 4fs7_A           69 GCRKVTEIKIPS-TVREIGEFAFENCSKLEIINIPDS-----VKMIGRCTFSGCYALKSILLP  125 (394)
T ss_dssp             TCTTEEEEECCT-TCCEECTTTTTTCTTCCEECCCTT-----CCEECTTTTTTCTTCCCCCCC
T ss_pred             CCCCceEEEeCC-CccCcchhHhhCCCCCcEEEeCCC-----ceEccchhhcccccchhhccc
Confidence            567777777753 366677777777777777777543     344432 34556666555443

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.38  E-value=5.9e-07  Score=81.81  Aligned_cols=172  Identities=16%  Similarity=0.120  Sum_probs=84.8

Q ss_pred             hhcCCcccEEECCCCCCCC-Cc-----CccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChh
Q 040318           26 FLSRASWTCLDNGPSRIKN-SL-----TELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPE   99 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~-~~-----~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~   99 (366)
                      ...+++|+.|.+.+..... .+     ..+...+..+++|+.|+++++.-..++. + .+++|++|++..| .+..-...
T Consensus       135 ~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~-~l~~~~l~  211 (362)
T 2ra8_A          135 KEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISG-GLPDSVVE  211 (362)
T ss_dssp             HHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECS-BCCHHHHH
T ss_pred             hhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecC-CCChHHHH
Confidence            4456777777765441000 01     1122334456777777777762123333 3 2677777777663 33321111


Q ss_pred             hh--cCCCCCcEEEccCCC--CCCccccccccccchHHHHHhh--cCCCCcceEEEEecccccc--cccccccccccccc
Q 040318          100 LI--CSFSKLEVLRMLESG--ADSTAEQGSVLSEDAEPLMKEL--LCLKLLNLISFSLYSSRGV--RNFLKFPKLLRITQ  171 (366)
Q Consensus       100 ~l--~~l~~L~~L~l~~~~--~~~~~~~~~~~~~~~~~~~~~l--~~l~~L~~L~l~~~~~~~~--~~~~~~~~~~~~L~  171 (366)
                      .+  ..+++|++|++..+.  .....    .    .......+  ..+++|+.|.+..+...+.  ..+... ..+++|+
T Consensus       212 ~l~~~~lp~L~~L~L~~~~~~~~~~~----~----~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a-~~~~~L~  282 (362)
T 2ra8_A          212 DILGSDLPNLEKLVLYVGVEDYGFDG----D----MNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLES-DILPQLE  282 (362)
T ss_dssp             HHHHSBCTTCCEEEEECBCGGGTCCS----C----GGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHC-SSGGGCS
T ss_pred             HHHHccCCCCcEEEEeccccccccch----h----HHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhC-ccCCCCC
Confidence            12  257777777774321  00000    0    00001112  2457778887776554421  112111 2345688


Q ss_pred             EEEEeccCCCCcC--cc--chhhhcccCceEecccccceeec
Q 040318          172 ALSISDCEIPLLN--VS--HLAYMEHLKDLVIDNSNLEELKT  209 (366)
Q Consensus       172 ~L~l~~~~~~~~~--~~--~l~~~~~L~~L~l~~~~l~~l~~  209 (366)
                      +|+++.+...+..  .+  .+..+++|+.|+++.|.+.+-..
T Consensus       283 ~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~  324 (362)
T 2ra8_A          283 TMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMK  324 (362)
T ss_dssp             EEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHH
T ss_pred             EEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHHHH
Confidence            8888665431110  01  34567888888888777655433

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.38  E-value=6e-06  Score=76.21  Aligned_cols=107  Identities=7%  Similarity=0.105  Sum_probs=72.2

Q ss_pred             CCC-CcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCc
Q 040318            4 RYS-NIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALL   80 (366)
Q Consensus         4 ~~~-~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~   80 (366)
                      .|. .|+.+.+.. .++.+...+|.+|.+|+.+.+..+.- ..++.+.. .+..+.+|+.+.+..+ ++.++ ..+..+.
T Consensus        61 ~~~~~L~sI~iP~-svt~Ig~~AF~~C~~L~~i~~~~n~p-~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~  137 (394)
T 4gt6_A           61 NYKYVLTSVQIPD-TVTEIGSNAFYNCTSLKRVTIQDNKP-SCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCE  137 (394)
T ss_dssp             TCCSCCCEEEECT-TCCEECTTTTTTCTTCCEEEEGGGCC-CCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCT
T ss_pred             CCCCcCEEEEECC-CeeEEhHHHhhCCccCceEeecCCCC-CeeeEechhhchhcccceeeccCCc-cceehhhhhhhhc
Confidence            353 588999875 48889888899999999998876410 03566643 4667888887776554 44333 3456778


Q ss_pred             cCCEeeccccccCCCcChhhhcCCCCCcEEEccCC
Q 040318           81 NLRYLNLERTYHLSRFPPELICSFSKLEVLRMLES  115 (366)
Q Consensus        81 ~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~  115 (366)
                      +|+.+.+..  .+..++..++..+.+|+.+.+..+
T Consensus       138 ~L~~i~lp~--~~~~I~~~~F~~c~~L~~i~~~~~  170 (394)
T 4gt6_A          138 ELDTVTIPE--GVTSVADGMFSYCYSLHTVTLPDS  170 (394)
T ss_dssp             TCCEEECCT--TCCEECTTTTTTCTTCCEEECCTT
T ss_pred             ccccccccc--eeeeecccceecccccccccccce
Confidence            888888754  344555555677777777777653

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.36  E-value=4.3e-06  Score=77.17  Aligned_cols=240  Identities=12%  Similarity=0.025  Sum_probs=130.3

Q ss_pred             CCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCccCCEeeccccccCCC
Q 040318           18 NKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYLNLERTYHLSR   95 (366)
Q Consensus        18 ~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~L~~L~L~~c~~~~~   95 (366)
                      ...+....|.+|++|+.+.+..+     +..++. .+..+.+|+.+.+..+ ++.++ ..+.++..|+.+.+.. + ...
T Consensus       150 ~~~i~~~aF~~c~~L~~i~l~~~-----~~~I~~~~F~~c~~L~~i~l~~~-~~~I~~~~F~~~~~L~~i~~~~-~-~~~  221 (394)
T 4fs7_A          150 VTVIGDEAFATCESLEYVSLPDS-----METLHNGLFSGCGKLKSIKLPRN-LKIIRDYCFAECILLENMEFPN-S-LYY  221 (394)
T ss_dssp             CCEECTTTTTTCTTCCEEECCTT-----CCEECTTTTTTCTTCCBCCCCTT-CCEECTTTTTTCTTCCBCCCCT-T-CCE
T ss_pred             ccccchhhhcccCCCcEEecCCc-----cceeccccccCCCCceEEEcCCC-ceEeCchhhccccccceeecCC-C-ceE
Confidence            44466667888899999888754     344543 4667888888887665 44332 3456777787777654 1 222


Q ss_pred             cChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEE
Q 040318           96 FPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSI  175 (366)
Q Consensus        96 l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l  175 (366)
                      +... .....+|+.+.+.....              .-...++..+..|+.+.+..... .+..  .....+..++.+..
T Consensus       222 i~~~-~~~~~~l~~i~ip~~~~--------------~i~~~~f~~~~~l~~~~~~~~~~-~i~~--~~F~~~~~l~~~~~  283 (394)
T 4fs7_A          222 LGDF-ALSKTGVKNIIIPDSFT--------------ELGKSVFYGCTDLESISIQNNKL-RIGG--SLFYNCSGLKKVIY  283 (394)
T ss_dssp             ECTT-TTTTCCCCEEEECTTCC--------------EECSSTTTTCSSCCEEEECCTTC-EECS--CTTTTCTTCCEEEE
T ss_pred             eehh-hcccCCCceEEECCCce--------------ecccccccccccceeEEcCCCcc-eeec--cccccccccceecc
Confidence            2222 34456777777754321              11122344556666666643211 1110  01112233444443


Q ss_pred             eccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCCCCccEEE
Q 040318          176 SDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIV  253 (366)
Q Consensus       176 ~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~  253 (366)
                      ....   .....+..+.+|+.+.+.. .++.++..++        ..|.+|+.+.+.+  .++.+.  .+..+.+|+.+.
T Consensus       284 ~~~~---i~~~~F~~~~~L~~i~l~~-~i~~I~~~aF--------~~c~~L~~i~lp~--~v~~I~~~aF~~c~~L~~i~  349 (394)
T 4fs7_A          284 GSVI---VPEKTFYGCSSLTEVKLLD-SVKFIGEEAF--------ESCTSLVSIDLPY--LVEEIGKRSFRGCTSLSNIN  349 (394)
T ss_dssp             CSSE---ECTTTTTTCTTCCEEEECT-TCCEECTTTT--------TTCTTCCEECCCT--TCCEECTTTTTTCTTCCEEC
T ss_pred             Ccee---ecccccccccccccccccc-ccceechhhh--------cCCCCCCEEEeCC--cccEEhHHhccCCCCCCEEE
Confidence            3211   1222555667777777753 3556655544        4677788777754  355543  345677777777


Q ss_pred             EEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEE
Q 040318          254 IMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEI  312 (366)
Q Consensus       254 L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L  312 (366)
                      +...  ++.+..           .++.++++|+.+.+..  .++.+......+++|+.+
T Consensus       350 lp~~--l~~I~~-----------~aF~~C~~L~~i~lp~--~~~~~~~~F~~c~~L~~I  393 (394)
T 4fs7_A          350 FPLS--LRKIGA-----------NAFQGCINLKKVELPK--RLEQYRYDFEDTTKFKWI  393 (394)
T ss_dssp             CCTT--CCEECT-----------TTBTTCTTCCEEEEEG--GGGGGGGGBCTTCEEEEE
T ss_pred             ECcc--ccEehH-----------HHhhCCCCCCEEEECC--CCEEhhheecCCCCCcEE
Confidence            7543  333221           2566777888887753  233443344445555554

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.33  E-value=5.8e-07  Score=81.84  Aligned_cols=164  Identities=16%  Similarity=0.118  Sum_probs=89.9

Q ss_pred             ccccccCCEEeccCCCCc----------cCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccc
Q 040318           53 ISSLVSLQHLDVSYTDIR----------GLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAE  122 (366)
Q Consensus        53 ~~~l~~L~~L~l~~~~i~----------~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~  122 (366)
                      +.++++|+.|.+......          .+...+..+++|+.|++++|..+ .++.  +. +++|++|++..|.+     
T Consensus       135 ~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~--~~-~~~L~~L~L~~~~l-----  205 (362)
T 2ra8_A          135 KEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGK--KP-RPNLKSLEIISGGL-----  205 (362)
T ss_dssp             HHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCS--CB-CTTCSEEEEECSBC-----
T ss_pred             hhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eecc--cc-CCCCcEEEEecCCC-----
Confidence            556789999988654221          24455677788999998874322 3343  33 78889998887765     


Q ss_pred             cccccccchHHHHHhhc--CCCCcceEEEEecccc---c--cccccccccccccccEEEEeccCCCCcCccchhhhcccC
Q 040318          123 QGSVLSEDAEPLMKELL--CLKLLNLISFSLYSSR---G--VRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLK  195 (366)
Q Consensus       123 ~~~~~~~~~~~~~~~l~--~l~~L~~L~l~~~~~~---~--~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~  195 (366)
                              .......+.  .+++|+.|+++.....   .  ...+...                      .....+|+|+
T Consensus       206 --------~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~----------------------l~~~~~p~Lr  255 (362)
T 2ra8_A          206 --------PDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPL----------------------FSKDRFPNLK  255 (362)
T ss_dssp             --------CHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGG----------------------SCTTTCTTCC
T ss_pred             --------ChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHH----------------------HhcCCCCCcC
Confidence                    233444443  6788888888632110   0  1111100                      0112355666


Q ss_pred             ceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCccc------ccccCCCCccEEEEEccCCcc
Q 040318          196 DLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDL------TWLAFAPNLKIIVIMHCDDLE  261 (366)
Q Consensus       196 ~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l------~~l~~l~~L~~L~L~~c~~~~  261 (366)
                      .|.+.++.+.+......     .....+++|+.|+++.+ .+++.      ..+..+++|+.|+|++|...+
T Consensus       256 ~L~L~~~~i~~~~~~~l-----a~a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d  321 (362)
T 2ra8_A          256 WLGIVDAEEQNVVVEMF-----LESDILPQLETMDISAG-VLTDEGARLLLDHVDKIKHLKFINMKYNYLSD  321 (362)
T ss_dssp             EEEEESCTTHHHHHHHH-----HHCSSGGGCSEEECCSS-CCBHHHHHHHHTTHHHHTTCSEEECCSBBCCH
T ss_pred             EEeCCCCCCchHHHHHH-----HhCccCCCCCEEECCCC-CCChHHHHHHHhhcccCCcceEEECCCCcCCH
Confidence            66665544432111100     01124677777777666 45541      122356777777777775433

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.28  E-value=6.2e-07  Score=73.64  Aligned_cols=117  Identities=13%  Similarity=0.078  Sum_probs=62.1

Q ss_pred             hhcCCcccEEECCCC-CCCCCcC---ccCccccccccCCEEeccCCCCcc-----CchhhhcCccCCEeeccccccCCC-
Q 040318           26 FLSRASWTCLDNGPS-RIKNSLT---ELPSGISSLVSLQHLDVSYTDIRG-----LPHELTALLNLRYLNLERTYHLSR-   95 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~-~~~~~~~---~l~~~~~~l~~L~~L~l~~~~i~~-----l~~~i~~l~~L~~L~L~~c~~~~~-   95 (366)
                      +...+.|++|++++| .+  .-.   .+...+...++|++|++++|.+..     +...+...++|++|+|++ +.+++ 
T Consensus        32 l~~~~~L~~L~L~~n~~i--~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~-N~i~~~  108 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNI--PVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVES-NFISGS  108 (185)
T ss_dssp             HTTCTTCCEEECTTCTTC--CHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCS-SCCCHH
T ss_pred             HhcCCCCCEEEecCCCCC--CHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcC-CcCCHH
Confidence            455666777777666 32  100   122334445667777777766652     233444556677777766 44443 


Q ss_pred             ----cChhhhcCCCCCcEEEc--cCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccc
Q 040318           96 ----FPPELICSFSKLEVLRM--LESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSR  155 (366)
Q Consensus        96 ----l~~~~l~~l~~L~~L~l--~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  155 (366)
                          +... +...+.|++|++  .+|.+...         ........+...+.|+.|+++++...
T Consensus       109 g~~~l~~~-L~~n~~L~~L~L~~~~N~i~~~---------g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          109 GILALVEA-LQSNTSLIELRIDNQSQPLGNN---------VEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHHHHG-GGGCSSCCEEECCCCSSCCCHH---------HHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHH-HHhCCCceEEEecCCCCCCCHH---------HHHHHHHHHHhCCCcCEEeccCCCCC
Confidence                2222 455566777777  55654111         11224455666666777777665543

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.16  E-value=8.7e-05  Score=68.36  Aligned_cols=91  Identities=11%  Similarity=0.146  Sum_probs=63.7

Q ss_pred             CCccchhhhhcCC-cccEEECCCCCCCCCcCccC-ccccccccCCEEeccCC---CCccCc-hhhhcCccCCEeeccccc
Q 040318           18 NKVFEPSWFLSRA-SWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYT---DIRGLP-HELTALLNLRYLNLERTY   91 (366)
Q Consensus        18 ~~~l~~~~~~~~~-~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~---~i~~l~-~~i~~l~~L~~L~L~~c~   91 (366)
                      ++.++..+|.+++ .|+.+.+-.     .++.+. .+|.+|.+|+.+.+..+   .++.+. ..+.++.+|+.+.+..  
T Consensus        51 Vt~Ig~~aF~~~~~~L~sI~iP~-----svt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~--  123 (394)
T 4gt6_A           51 VSKIGDRVFCNYKYVLTSVQIPD-----TVTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILD--  123 (394)
T ss_dssp             EEEECTTTTTTCCSCCCEEEECT-----TCCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGT--
T ss_pred             eeEcCHhhccCCCCcCEEEEECC-----CeeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCC--
Confidence            4457777788875 588888864     456664 45777899999888765   255443 3566778888877754  


Q ss_pred             cCCCcChhhhcCCCCCcEEEccCC
Q 040318           92 HLSRFPPELICSFSKLEVLRMLES  115 (366)
Q Consensus        92 ~~~~l~~~~l~~l~~L~~L~l~~~  115 (366)
                      .+..++..++..+.+|+.+.+...
T Consensus       124 ~~~~I~~~aF~~c~~L~~i~lp~~  147 (394)
T 4gt6_A          124 SVTEIDSEAFHHCEELDTVTIPEG  147 (394)
T ss_dssp             TCSEECTTTTTTCTTCCEEECCTT
T ss_pred             ccceehhhhhhhhcccccccccce
Confidence            356666666788899999888654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=98.04  E-value=4e-06  Score=68.72  Aligned_cols=107  Identities=13%  Similarity=0.067  Sum_probs=64.4

Q ss_pred             CCCCcCEEEccCC-CCCc-----cchhhhhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCcc-
Q 040318            4 RYSNIPSILELSS-NNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIRG-   71 (366)
Q Consensus         4 ~~~~L~~L~l~~~-~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~~-   71 (366)
                      .++.|+.|+|++| .+.+     +... +...+.|++|++++|    .+++     +...+...+.|++|++++|.+.. 
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~-L~~~~~L~~L~Ls~n----~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~  108 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEA-LKTNTYVKKFSIVGT----RSNDPVAFALAEMLKVNNTLKSLNVESNFISGS  108 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHH-HTTCCSCCEEECTTS----CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHH-HHhCCCcCEEECcCC----CCChHHHHHHHHHHHhCCCcCEEECcCCcCCHH
Confidence            4567777777777 6653     2222 455677777777777    4443     22334445677777777777662 


Q ss_pred             ----CchhhhcCccCCEeec--cccccCCC-----cChhhhcCCCCCcEEEccCCCC
Q 040318           72 ----LPHELTALLNLRYLNL--ERTYHLSR-----FPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        72 ----l~~~i~~l~~L~~L~L--~~c~~~~~-----l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                          +...+...+.|++|+|  ++ +.++.     +.. .+...++|++|++.+|.+
T Consensus       109 g~~~l~~~L~~n~~L~~L~L~~~~-N~i~~~g~~~l~~-~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          109 GILALVEALQSNTSLIELRIDNQS-QPLGNNVEMEIAN-MLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCS-SCCCHHHHHHHHH-HHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHHHHhCCCceEEEecCCC-CCCCHHHHHHHHH-HHHhCCCcCEEeccCCCC
Confidence                3445566667777777  55 45543     222 245556777777777754

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.02  E-value=1.1e-05  Score=69.88  Aligned_cols=81  Identities=22%  Similarity=0.202  Sum_probs=56.9

Q ss_pred             hhcCCcccEEECCCCCCCCCcCcc---CccccccccCCEEeccCCCCccCchhhhcCc--cCCEeeccccccCC-CcC--
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTEL---PSGISSLVSLQHLDVSYTDIRGLPHELTALL--NLRYLNLERTYHLS-RFP--   97 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l---~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~--~L~~L~L~~c~~~~-~l~--   97 (366)
                      ..++++|++|++++|    .+..+   +..+..+++|+.|+|++|.+..+ ..+..+.  +|++|+|.+ +.+. .+|  
T Consensus       166 ~~~l~~L~~L~Ls~N----~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~-Npl~~~~~~~  239 (267)
T 3rw6_A          166 EENIPELLSLNLSNN----RLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDG-NSLCDTFRDQ  239 (267)
T ss_dssp             HHHCTTCCEEECTTS----CCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTT-STTGGGCSSH
T ss_pred             HhhCCCCCEEECCCC----CCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccC-CcCccccCcc
Confidence            456888999999998    55554   34456788999999999888765 3344444  888999888 4443 233  


Q ss_pred             ----hhhhcCCCCCcEEEc
Q 040318           98 ----PELICSFSKLEVLRM  112 (366)
Q Consensus        98 ----~~~l~~l~~L~~L~l  112 (366)
                          ..++..+++|+.|+=
T Consensus       240 ~~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          240 STYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHHHHHHHCTTCCEESS
T ss_pred             hhHHHHHHHHCcccCeECC
Confidence                234677888888874

>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=97.79  E-value=2.3e-05  Score=67.77  Aligned_cols=111  Identities=16%  Similarity=0.093  Sum_probs=75.1

Q ss_pred             hhcCCcccE--EECCCCCCCCCcCccCcc----ccccccCCEEeccCCCCccCc---hhhhcCccCCEeeccccccCCCc
Q 040318           26 FLSRASWTC--LDNGPSRIKNSLTELPSG----ISSLVSLQHLDVSYTDIRGLP---HELTALLNLRYLNLERTYHLSRF   96 (366)
Q Consensus        26 ~~~~~~L~~--L~l~~~~~~~~~~~l~~~----~~~l~~L~~L~l~~~~i~~l~---~~i~~l~~L~~L~L~~c~~~~~l   96 (366)
                      +...+.|..  ++++.|    ....++..    ..++++|+.|+|++|.++.++   ..+..+++|+.|+|++ +.+..+
T Consensus       137 l~~dp~L~~~~l~l~~N----~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~-N~i~~~  211 (267)
T 3rw6_A          137 LRSDPDLVAQNIDVVLN----RRSCMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG-NELKSE  211 (267)
T ss_dssp             GGGCHHHHHTTCCCCTT----SHHHHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTT-SCCCSG
T ss_pred             cCCCcchhhcCccccCC----HHHHHHHHHHHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCC-CccCCc
Confidence            455566666  667777    44444432    245889999999999888654   5667899999999999 888876


Q ss_pred             ChhhhcCCC--CCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEE
Q 040318           97 PPELICSFS--KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISF  149 (366)
Q Consensus        97 ~~~~l~~l~--~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l  149 (366)
                      ..  +..+.  +|++|++.+|.+...      .++........+..+++|+.|+-
T Consensus       212 ~~--l~~l~~l~L~~L~L~~Npl~~~------~~~~~~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          212 RE--LDKIKGLKLEELWLDGNSLCDT------FRDQSTYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             GG--GGGGTTSCCSEEECTTSTTGGG------CSSHHHHHHHHHHHCTTCCEESS
T ss_pred             hh--hhhcccCCcceEEccCCcCccc------cCcchhHHHHHHHHCcccCeECC
Confidence            33  44444  999999999987210      01111223345667788887754

>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=97.73  E-value=0.001  Score=60.66  Aligned_cols=77  Identities=12%  Similarity=0.042  Sum_probs=47.2

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ..+|+.+.+. .+++.++..+|.+|.+|+.+.+..     .++.+.. .+.++ .|+.+.+..+ ++.+....-...+|+
T Consensus        45 ~~~i~~v~ip-~~vt~Ig~~aF~~C~~L~~I~lp~-----~v~~Ig~~aF~~c-~l~~i~~~~~-l~~I~~~aF~~~~L~  116 (379)
T 4h09_A           45 RDRISEVRVN-SGITSIGEANFNSCYNMTKVTVAS-----TVTSIGDGAFADT-KLQSYTGMER-VKKFGDYVFQGTDLD  116 (379)
T ss_dssp             GGGCSEEEEC-TTEEEECTTTTTTCTTCCEEEECT-----TCCEECTTTTTTC-CCCEEEECTT-CCEECTTTTTTCCCS
T ss_pred             ccCCEEEEeC-CCccChHHHHhhCCCCCCEEEeCC-----cceEechhhhcCC-CCceEECCce-eeEeccceeccCCcc
Confidence            3467777776 347778888888888888888864     4556644 34445 5666655432 444433322334677


Q ss_pred             Eeeccc
Q 040318           84 YLNLER   89 (366)
Q Consensus        84 ~L~L~~   89 (366)
                      .+.+..
T Consensus       117 ~i~lp~  122 (379)
T 4h09_A          117 DFEFPG  122 (379)
T ss_dssp             EEECCT
T ss_pred             cccCCC
Confidence            777754

>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=96.98  E-value=0.0014  Score=59.68  Aligned_cols=125  Identities=14%  Similarity=0.142  Sum_probs=82.5

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCch-hhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPH-ELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~   81 (366)
                      .+.+|+.+.+..+ +..++...|.++..|+.+.+..+     ++.+. ..+..+.+|+.+.+..+ ++.++. .+.++.+
T Consensus       215 ~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-----v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~  287 (379)
T 4h09_A          215 YGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-----VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSN  287 (379)
T ss_dssp             TCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-----CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTT
T ss_pred             cccccceeeeccc-eeEEccccccCCccceEEEcCCC-----ccEeCccccceeehhcccccccc-ceeccccccccccc
Confidence            4567777777643 56667666788888888887653     34553 34566778888877543 444432 4677888


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEE
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFS  150 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  150 (366)
                      |+.+.+.. +.+..++..++.+|.+|+.+.+..+ +.             .-...++.++.+|+.+.+.
T Consensus       288 L~~i~l~~-~~i~~I~~~aF~~c~~L~~i~lp~~-l~-------------~I~~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          288 LTKVVMDN-SAIETLEPRVFMDCVKLSSVTLPTA-LK-------------TIQVYAFKNCKALSTISYP  341 (379)
T ss_dssp             CCEEEECC-TTCCEECTTTTTTCTTCCEEECCTT-CC-------------EECTTTTTTCTTCCCCCCC
T ss_pred             cccccccc-cccceehhhhhcCCCCCCEEEcCcc-cc-------------EEHHHHhhCCCCCCEEEEC
Confidence            88888876 6677777666788888888888654 21             1223456677777777664

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.70  E-value=0.016  Score=44.00  Aligned_cols=54  Identities=19%  Similarity=0.293  Sum_probs=31.1

Q ss_pred             EEeccCCCCc--cCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           61 HLDVSYTDIR--GLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        61 ~L~l~~~~i~--~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      .++-++++++  .+|..+  -.+|++|+|++ +.++.++.+++..+++|+.|++.+|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF--PVDTTELVLTG-NNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC--CTTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCC--CcCCCEEECCC-CcCCccChhhhhhccccCEEEecCCCe
Confidence            4445555555  555432  13466666666 566666655566666667777766655

>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=95.70  E-value=0.02  Score=46.76  Aligned_cols=118  Identities=13%  Similarity=0.076  Sum_probs=64.5

Q ss_pred             hhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCc-----cCchhhhcCccCCEeeccccccCCC
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIR-----GLPHELTALLNLRYLNLERTYHLSR   95 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~-----~l~~~i~~l~~L~~L~L~~c~~~~~   95 (366)
                      ..+-+.|+.|+++++.   .+++     +-..+..-..|+.|+|++|.+.     .+-..+..-..|++|+|+. +.++.
T Consensus        37 l~~n~~L~~L~L~~nn---~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~-N~Ig~  112 (197)
T 1pgv_A           37 REDDTDLKEVNINNMK---RVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVES-NFLTP  112 (197)
T ss_dssp             HTTCSSCCEEECTTCC---SSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCS-SBCCH
T ss_pred             HhcCCCccEEECCCCC---CCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCC-CcCCH
Confidence            3455677778877642   3332     2233445567788888877766     2333445556788888877 56654


Q ss_pred             cCh----hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecc
Q 040318           96 FPP----ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYS  153 (366)
Q Consensus        96 l~~----~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  153 (366)
                      -..    +.+..-+.|++|++.++......      ......+..++..-+.|+.|++..+.
T Consensus       113 ~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig------~~g~~~ia~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          113 ELLARLLRSTLVTQSIVEFKADNQRQSVLG------NQVEMDMMMAIEENESLLRVGISFAS  168 (197)
T ss_dssp             HHHHHHHHHTTTTCCCSEEECCCCSSCCCC------HHHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             HHHHHHHHHHhhCCceeEEECCCCcCcCcC------HHHHHHHHHHHHhCCCcCeEeccCCC
Confidence            211    11444455888888654210000      00112344566666777777776443

>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=95.31  E-value=0.025  Score=46.22  Aligned_cols=60  Identities=13%  Similarity=0.115  Sum_probs=29.5

Q ss_pred             cccCCEEeccCC-CCc-----cCchhhhcCccCCEeeccccccCCC-----cChhhhcCCCCCcEEEccCCCC
Q 040318           56 LVSLQHLDVSYT-DIR-----GLPHELTALLNLRYLNLERTYHLSR-----FPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        56 l~~L~~L~l~~~-~i~-----~l~~~i~~l~~L~~L~L~~c~~~~~-----l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      -..|++|+|+++ ++.     .+-..+..-..|+.|+|++ +.+.+     +... +..-+.|++|++..|.+
T Consensus        40 n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~-n~igd~ga~alA~a-L~~N~tL~~L~L~~N~I  110 (197)
T 1pgv_A           40 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLAN-TAISDSEARGLIEL-IETSPSLRVLNVESNFL  110 (197)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTT-SCCBHHHHTTHHHH-HHHCSSCCEEECCSSBC
T ss_pred             CCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccC-CCCChHHHHHHHHH-HhcCCccCeEecCCCcC
Confidence            445666666654 443     1223344445566666665 33332     2221 33345566666666654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.90  E-value=0.024  Score=43.01  Aligned_cols=55  Identities=18%  Similarity=0.114  Sum_probs=43.8

Q ss_pred             CEEEccCCCCC--ccchhhhhcCCcccEEECCCCCCCCCcCccCcc-ccccccCCEEeccCCCCc
Q 040318            9 PSILELSSNNK--VFEPSWFLSRASWTCLDNGPSRIKNSLTELPSG-ISSLVSLQHLDVSYTDIR   70 (366)
Q Consensus         9 ~~L~l~~~~~~--~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~-~~~l~~L~~L~l~~~~i~   70 (366)
                      +.++-++++++  .+|..   -.++|++|+|++|    .++.++.. +..+++|+.|+|++|.+.
T Consensus        11 ~~v~Cs~~~L~~~~vP~~---lp~~l~~L~Ls~N----~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTA---FPVDTTELVLTGN----NLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TEEECCSSCCCTTTSCSC---CCTTCSEEECTTS----CCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             CEEEeCCCCCccccCCCC---CCcCCCEEECCCC----cCCccChhhhhhccccCEEEecCCCee
Confidence            46777788887  78864   2347999999999    88998765 567899999999999665

---

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	366
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.001
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	0.002

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 39.7 bits (91), Expect = 4e-04
 Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 44  NSLT-ELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELIC 102
           N +   LP G++ L  L  L+VS+ ++ G   +   L             L   P    C
Sbjct: 254 NRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLP-AC 312

Query: 103 S 103
           +
Sbjct: 313 T 313

>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 = 38.1 bits (87), Expect = 0.001
 Identities = 43/293 (14%), Positives = 88/293 (30%), Gaps = 24/293 (8%)

Query: 44  NSLTELPSGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYLNLERTYHLSRFPPELIC 102
             L ++P  +        LD+    I  +   +   L NL  L L         P     
Sbjct: 20  LGLEKVPKDLPP--DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPG---- 73

Query: 103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLK 162
           +F+ L  L  L    +   E    + +  + L      +  +    F+  +   V     
Sbjct: 74  AFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGT 133

Query: 163 FPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCG 222
            P  L+ +   + +   +  L+   +A             +L EL  D     +      
Sbjct: 134 NP--LKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASL 191

Query: 223 FRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFF 282
               +LA +                N   +  +H ++          N+L  + G L   
Sbjct: 192 KGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNN----------NKLVKVPGGLADH 241

Query: 283 AKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSSTKLRNI 335
             ++++ L++  N+ +I       P       T+      + L S+  +   I
Sbjct: 242 KYIQVVYLHN-NNISAIGSNDFCPPGYN----TKKASYSGVSLFSNPVQYWEI 289

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 37.4 bits (85), Expect = 0.002
 Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 44 NSLTELPSGISSLVSLQHLDVSYTDIRGLP-HELTALLNLRYLNLERTYH 92
           +LT LP  +        L +S   +       L     L  LNL+R   
Sbjct: 20 RNLTALPPDLPK--DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAEL 67

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	366
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.86
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.85
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.82
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.77
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.76
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.73
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.71
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.7
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.7
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.69
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.67
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.66
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.65
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.65
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.65
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.64
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.63
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.63
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.63
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.56
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.53
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.5
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.49
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.45
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.44
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.37
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.31
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.28
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.23
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.23
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.2
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.07
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.01
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.0
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.91
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.83
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.95
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.84
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.56
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.44
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.12
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.01

>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=99.86  E-value=1.5e-20  Score=171.89  Aligned_cols=276  Identities=15%  Similarity=0.207  Sum_probs=159.9

Q ss_pred             CCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            5 YSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         5 ~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +.+|+.|++++++++++..  ++.+++|++|++++|    .+++++. +.++++|++|++++|.+..++ .++++++|+.
T Consensus        43 l~~l~~L~l~~~~I~~l~g--l~~L~nL~~L~Ls~N----~l~~l~~-l~~L~~L~~L~L~~n~i~~i~-~l~~l~~L~~  114 (384)
T d2omza2          43 LDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN----QLTDITP-LKNLTKLVDILMNNNQIADIT-PLANLTNLTG  114 (384)
T ss_dssp             HTTCCEEECCSSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCCE
T ss_pred             hCCCCEEECCCCCCCCccc--cccCCCCCEEeCcCC----cCCCCcc-ccCCccccccccccccccccc-cccccccccc
Confidence            5678899999988888754  778999999999999    7788875 888899999999999888775 4788899999


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccc---------------------cc-------cccccchHHHHH
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAE---------------------QG-------SVLSEDAEPLMK  136 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~---------------------~~-------~~~~~~~~~~~~  136 (366)
                      +++++ +.+..++.  ......+..+....+.+.....                     ..       ............
T Consensus       115 L~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (384)
T d2omza2         115 LTLFN-NQITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS  191 (384)
T ss_dssp             EECCS-SCCCCCGG--GTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCG
T ss_pred             ccccc-cccccccc--ccccccccccccccccccccccccccccccccccccccchhhhhcccccccccccccccccccc
Confidence            98877 55555444  3334444444333322111100                     00       000000011122


Q ss_pred             hhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccc
Q 040318          137 ELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQ  216 (366)
Q Consensus       137 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~  216 (366)
                      ....+++++.+.++.+........    ..+.+|++|++.++..  .....+..+++|+.+++.++.+..+..       
T Consensus       192 ~~~~l~~~~~l~l~~n~i~~~~~~----~~~~~L~~L~l~~n~l--~~~~~l~~l~~L~~L~l~~n~l~~~~~-------  258 (384)
T d2omza2         192 VLAKLTNLESLIATNNQISDITPL----GILTNLDELSLNGNQL--KDIGTLASLTNLTDLDLANNQISNLAP-------  258 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGGG----GGCTTCCEEECCSSCC--CCCGGGGGCTTCSEEECCSSCCCCCGG-------
T ss_pred             ccccccccceeeccCCccCCCCcc----cccCCCCEEECCCCCC--CCcchhhcccccchhccccCccCCCCc-------
Confidence            334556666666665554443322    2234466666666654  222245556666666666655544321       


Q ss_pred             cccccCCCCCcEEeEecCCCCccccccc----------------------CCCCccEEEEEccCCccccccccccccccc
Q 040318          217 KVLQCGFRSLHLASIAFCSRVKDLTWLA----------------------FAPNLKIIVIMHCDDLEEIISVEKLNQLSD  274 (366)
Q Consensus       217 ~~p~~~~~~L~~L~l~~~~~l~~l~~l~----------------------~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~  274 (366)
                         ...+++|+.|+++++ .++.++.+.                      .+++++.|++++|.. +++.          
T Consensus       259 ---~~~~~~L~~L~l~~~-~l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l-~~l~----------  323 (384)
T d2omza2         259 ---LSGLTKLTELKLGAN-QISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNI-SDIS----------  323 (384)
T ss_dssp             ---GTTCTTCSEEECCSS-CCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCC-SCCG----------
T ss_pred             ---ccccccCCEeeccCc-ccCCCCccccccccccccccccccccccccchhcccCeEECCCCCC-CCCc----------
Confidence               123455555555554 344443333                      444445555544422 2211          


Q ss_pred             ccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCCC
Q 040318          275 IMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLPL  325 (366)
Q Consensus       275 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~  325 (366)
                         .+..+++|++|++++| .++.+. ....+++|++|++++| ++++++.
T Consensus       324 ---~l~~l~~L~~L~L~~n-~l~~l~-~l~~l~~L~~L~l~~N-~l~~l~~  368 (384)
T d2omza2         324 ---PVSSLTKLQRLFFANN-KVSDVS-SLANLTNINWLSAGHN-QISDLTP  368 (384)
T ss_dssp             ---GGGGCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCBCGG
T ss_pred             ---ccccCCCCCEEECCCC-CCCCCh-hHcCCCCCCEEECCCC-cCCCChh
Confidence               3566778888888776 455544 3455788888888776 5776653

>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=99.85  E-value=3.4e-20  Score=169.45  Aligned_cols=266  Identities=13%  Similarity=0.184  Sum_probs=167.8

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|++|++++|.++++++  ++++++|++|++++|    .+..++. +..+++|+.|+++++.++.++... ....+.
T Consensus        64 ~L~nL~~L~Ls~N~l~~l~~--l~~L~~L~~L~L~~n----~i~~i~~-l~~l~~L~~L~~~~~~~~~~~~~~-~~~~~~  135 (384)
T d2omza2          64 YLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNN----QIADITP-LANLTNLTGLTLFNNQITDIDPLK-NLTNLN  135 (384)
T ss_dssp             GCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCGGGT-TCTTCS
T ss_pred             cCCCCCEEeCcCCcCCCCcc--ccCCccccccccccc----ccccccc-cccccccccccccccccccccccc-cccccc
Confidence            68999999999999999886  899999999999999    7777765 788999999999988776443221 111222


Q ss_pred             Eeecccc-----------------------------------------ccCCCcChhhhcCCCCCcEEEccCCCCCCccc
Q 040318           84 YLNLERT-----------------------------------------YHLSRFPPELICSFSKLEVLRMLESGADSTAE  122 (366)
Q Consensus        84 ~L~L~~c-----------------------------------------~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~  122 (366)
                      ......+                                         ........ ....+++++.+.+.++.+...  
T Consensus       136 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~l~l~~n~i~~~--  212 (384)
T d2omza2         136 RLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS-VLAKLTNLESLIATNNQISDI--  212 (384)
T ss_dssp             EEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCC--
T ss_pred             ccccccccccccccccccccccccccccccchhhhhcccccccccccccccccccc-ccccccccceeeccCCccCCC--
Confidence            2111100                                         00001111 145566666666666654211  


Q ss_pred             cccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhcccCceEeccc
Q 040318          123 QGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNS  202 (366)
Q Consensus       123 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~  202 (366)
                                   .....+++|+.|.++++.....+.+.    .+++|+.+++.++..  .....+..+++|+.++++++
T Consensus       213 -------------~~~~~~~~L~~L~l~~n~l~~~~~l~----~l~~L~~L~l~~n~l--~~~~~~~~~~~L~~L~l~~~  273 (384)
T d2omza2         213 -------------TPLGILTNLDELSLNGNQLKDIGTLA----SLTNLTDLDLANNQI--SNLAPLSGLTKLTELKLGAN  273 (384)
T ss_dssp             -------------GGGGGCTTCCEEECCSSCCCCCGGGG----GCTTCSEEECCSSCC--CCCGGGTTCTTCSEEECCSS
T ss_pred             -------------CcccccCCCCEEECCCCCCCCcchhh----cccccchhccccCcc--CCCCcccccccCCEeeccCc
Confidence                         11233455666666655544443222    223456666655544  22224455556666666554


Q ss_pred             ccceeeccc------------cCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccCCccccccccccc
Q 040318          203 NLEELKTDC------------TGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLN  270 (366)
Q Consensus       203 ~l~~l~~~~------------~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~  270 (366)
                      ++..+..-.            ...........+++++.|+++++ ++++++++..+++|++|++++|. ++++.      
T Consensus       274 ~l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n-~l~~l~~l~~l~~L~~L~L~~n~-l~~l~------  345 (384)
T d2omza2         274 QISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN-NISDISPVSSLTKLQRLFFANNK-VSDVS------  345 (384)
T ss_dssp             CCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS-CCSCCGGGGGCTTCCEEECCSSC-CCCCG------
T ss_pred             ccCCCCccccccccccccccccccccccccchhcccCeEECCCC-CCCCCcccccCCCCCEEECCCCC-CCCCh------
Confidence            443322100            00000011256889999999999 78888888999999999999995 44442      


Q ss_pred             ccccccccccccccccccccccccccccccCCCcCCCCccEEeccC
Q 040318          271 QLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQ  316 (366)
Q Consensus       271 ~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~  316 (366)
                             .+..+++|++|+++++ .++.+.. ...+++|+.|++++
T Consensus       346 -------~l~~l~~L~~L~l~~N-~l~~l~~-l~~l~~L~~L~L~~  382 (384)
T d2omza2         346 -------SLANLTNINWLSAGHN-QISDLTP-LANLTRITQLGLND  382 (384)
T ss_dssp             -------GGGGCTTCCEEECCSS-CCCBCGG-GTTCTTCSEEECCC
T ss_pred             -------hHcCCCCCCEEECCCC-cCCCChh-hccCCCCCEeeCCC
Confidence                   4678999999999886 5656543 56789999999976

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.82  E-value=3.5e-19  Score=157.80  Aligned_cols=221  Identities=12%  Similarity=0.145  Sum_probs=115.1

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCcc-CccccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTEL-PSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l-~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      +++++|++++|.++++++..|.++++|++|++++|    .+..+ |..+.++++|++|++++|+++.+|..  ....++.
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n----~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~--~~~~l~~  104 (305)
T d1xkua_          31 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN----KISKISPGAFAPLVKLERLYLSKNQLKELPEK--MPKTLQE  104 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSSCCSBCCSS--CCTTCCE
T ss_pred             CCCCEEECcCCcCCCcChhHhhccccccccccccc----cccccchhhhhCCCccCEecccCCccCcCccc--hhhhhhh
Confidence            44566666666666655544556666666666666    44444 33455566666666666665555533  2345555


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++.. +.+..++...+.....+..+....+....           .......+..+++|+.+.+..+....++.     
T Consensus       105 L~~~~-n~l~~l~~~~~~~~~~~~~l~~~~n~~~~-----------~~~~~~~~~~l~~L~~l~l~~n~l~~l~~-----  167 (305)
T d1xkua_         105 LRVHE-NEITKVRKSVFNGLNQMIVVELGTNPLKS-----------SGIENGAFQGMKKLSYIRIADTNITTIPQ-----  167 (305)
T ss_dssp             EECCS-SCCCBBCHHHHTTCTTCCEEECCSSCCCG-----------GGBCTTGGGGCTTCCEEECCSSCCCSCCS-----
T ss_pred             hhccc-cchhhhhhhhhhccccccccccccccccc-----------cCCCccccccccccCccccccCCccccCc-----
Confidence            55555 45555554434455555555555443211           11122334455666666665554433321     


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WL  243 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l  243 (366)
                      ..+++|++|++.++.........+..++.+++|+++++++..+...++        ..+++|++|++++| .++.++ .+
T Consensus       168 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~--------~~l~~L~~L~L~~N-~L~~lp~~l  238 (305)
T d1xkua_         168 GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSL--------ANTPHLRELHLNNN-KLVKVPGGL  238 (305)
T ss_dssp             SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTG--------GGSTTCCEEECCSS-CCSSCCTTT
T ss_pred             ccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccc--------cccccceeeecccc-ccccccccc
Confidence            123446666665555422222245555666666666666655544333        24566666666666 455553 34


Q ss_pred             cCCCCccEEEEEccC
Q 040318          244 AFAPNLKIIVIMHCD  258 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~  258 (366)
                      ..+++|++|++++|.
T Consensus       239 ~~l~~L~~L~Ls~N~  253 (305)
T d1xkua_         239 ADHKYIQVVYLHNNN  253 (305)
T ss_dssp             TTCSSCCEEECCSSC
T ss_pred             ccccCCCEEECCCCc
Confidence            456666666666553

>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=99.77  E-value=6.8e-19  Score=156.51  Aligned_cols=106  Identities=20%  Similarity=0.255  Sum_probs=72.8

Q ss_pred             CcCEEEccCCCCCc---cchhhhhcCCcccEEECCCCCCCCCcC-ccCccccccccCCEEeccCCCCcc-CchhhhcCcc
Q 040318            7 NIPSILELSSNNKV---FEPSWFLSRASWTCLDNGPSRIKNSLT-ELPSGISSLVSLQHLDVSYTDIRG-LPHELTALLN   81 (366)
Q Consensus         7 ~L~~L~l~~~~~~~---l~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~~~~~l~~L~~L~l~~~~i~~-l~~~i~~l~~   81 (366)
                      +++.|+|+++++..   +|.. +.++++|++|+++++.   .+. .+|..++++++|++|++++|++.. .+..+..+..
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~~~~~~~~~~~~~  126 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSS-LANLPYLNFLYIGGIN---NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKT  126 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGG-GGGCTTCSEEEEEEET---TEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTT
T ss_pred             EEEEEECCCCCCCCCCCCChH-HhcCcccccccccccc---ccccccccccccccccchhhhccccccccccccccchhh
Confidence            57777777777663   5565 6777778887777521   333 577777777778888877777663 3445667777


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++++++.+.....+|.. +.++++|+.+++.+|.+
T Consensus       127 L~~l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~n~l  161 (313)
T d1ogqa_         127 LVTLDFSYNALSGTLPPS-ISSLPNLVGITFDGNRI  161 (313)
T ss_dssp             CCEEECCSSEEESCCCGG-GGGCTTCCEEECCSSCC
T ss_pred             hcccccccccccccCchh-hccCcccceeecccccc
Confidence            777777775455556665 77777777777777755

>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=99.76  E-value=1.8e-17  Score=146.62  Aligned_cols=99  Identities=19%  Similarity=0.242  Sum_probs=71.2

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccC-chhhhcCccCCEe
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGL-PHELTALLNLRYL   85 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~L   85 (366)
                      .+.++=++.+++.+|..+   .+++++|++++|    .++.+|. .+.++++|++|++++|.+..+ |..+.++++|++|
T Consensus        12 ~~~~~C~~~~L~~lP~~l---~~~l~~L~Ls~N----~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L   84 (305)
T d1xkua_          12 LRVVQCSDLGLEKVPKDL---PPDTALLDLQNN----KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERL   84 (305)
T ss_dssp             TTEEECTTSCCCSCCCSC---CTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEE
T ss_pred             CCEEEecCCCCCccCCCC---CCCCCEEECcCC----cCCCcChhHhhccccccccccccccccccchhhhhCCCccCEe
Confidence            344555555677777752   357888888888    7788875 477788888888888877766 4467788888888


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++++ +.++.+|..   ....++.|....+.+
T Consensus        85 ~l~~-n~l~~l~~~---~~~~l~~L~~~~n~l  112 (305)
T d1xkua_          85 YLSK-NQLKELPEK---MPKTLQELRVHENEI  112 (305)
T ss_dssp             ECCS-SCCSBCCSS---CCTTCCEEECCSSCC
T ss_pred             cccC-CccCcCccc---hhhhhhhhhccccch
Confidence            8888 677777753   345677787777755

>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=99.73  E-value=2.2e-17  Score=139.60  Aligned_cols=94  Identities=19%  Similarity=0.193  Sum_probs=56.7

Q ss_pred             ccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeecccccc
Q 040318           13 ELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYH   92 (366)
Q Consensus        13 l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~   92 (366)
                      +..+.+.+...  .+.+.+|+.|++++|    .++.++ .+.++++|++|++++|.++.++ .+.++++|+++++++ +.
T Consensus        26 l~~~~~~d~~~--~~~l~~L~~L~l~~~----~i~~l~-~l~~l~~L~~L~ls~n~i~~~~-~l~~l~~l~~l~~~~-n~   96 (227)
T d1h6ua2          26 AGKSNVTDTVT--QADLDGITTLSAFGT----GVTTIE-GVQYLNNLIGLELKDNQITDLA-PLKNLTKITELELSG-NP   96 (227)
T ss_dssp             TTCSSTTSEEC--HHHHHTCCEEECTTS----CCCCCT-TGGGCTTCCEEECCSSCCCCCG-GGTTCCSCCEEECCS-CC
T ss_pred             hCCCCcCCcCC--HHHcCCcCEEECCCC----CCCcch-hHhcCCCCcEeecCCceeeccc-ccccccccccccccc-cc
Confidence            33444444322  345666777777776    556663 3666777777777777666554 356666777777766 45


Q ss_pred             CCCcChhhhcCCCCCcEEEccCCCC
Q 040318           93 LSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        93 ~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++.++.  +.++++|+.+.+.++..
T Consensus        97 ~~~i~~--l~~l~~L~~l~l~~~~~  119 (227)
T d1h6ua2          97 LKNVSA--IAGLQSIKTLDLTSTQI  119 (227)
T ss_dssp             CSCCGG--GTTCTTCCEEECTTSCC
T ss_pred             cccccc--ccccccccccccccccc
Confidence            555554  66667777777666644

>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=99.71  E-value=2.8e-16  Score=141.04  Aligned_cols=277  Identities=18%  Similarity=0.167  Sum_probs=160.3

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      .++++|++++++++.+|+.    .++|++|++++|    .++++|..+   .+|+.|++++|+++.++..   .++|++|
T Consensus        38 ~~l~~LdLs~~~L~~lp~~----~~~L~~L~Ls~N----~l~~lp~~~---~~L~~L~l~~n~l~~l~~l---p~~L~~L  103 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL----PPHLESLVASCN----SLTELPELP---QSLKSLLVDNNNLKALSDL---PPLLEYL  103 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC----CTTCSEEECCSS----CCSSCCCCC---TTCCEEECCSSCCSCCCSC---CTTCCEE
T ss_pred             cCCCEEEeCCCCCCCCCCC----CCCCCEEECCCC----CCcccccch---hhhhhhhhhhcccchhhhh---ccccccc
Confidence            4689999999999999863    679999999999    888998754   5789999999988876532   2469999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCcccccccc-----ccchHHHHHhhcCCCCcceEEEEeccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVL-----SEDAEPLMKELLCLKLLNLISFSLYSSRGVRNF  160 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~-----~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  160 (366)
                      ++++ +.+..+|.  +..+++|++|++.++............     ..........+..++.++.+.+..+.....+..
T Consensus       104 ~L~~-n~l~~lp~--~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~~~  180 (353)
T d1jl5a_         104 GVSN-NQLEKLPE--LQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDL  180 (353)
T ss_dssp             ECCS-SCCSSCCC--CTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCC
T ss_pred             cccc-cccccccc--hhhhccceeeccccccccccccccccccchhhccccccccccccccccceecccccccccccccc
Confidence            9999 78888886  688999999999988764433111000     000011112244456666666655443332211


Q ss_pred             cccccccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCc--------cccccccCCCCCcEEeEe
Q 040318          161 LKFPKLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGE--------VQKVLQCGFRSLHLASIA  232 (366)
Q Consensus       161 ~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~--------~~~~p~~~~~~L~~L~l~  232 (366)
                      ..      ..+.+.......  ........++.|+.+.+.++....+.......        ...-.....+.+....+.
T Consensus       181 ~~------~~~~l~~~~~~~--~~~~~~~~l~~L~~l~l~~n~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (353)
T d1jl5a_         181 PL------SLESIVAGNNIL--EELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVS  252 (353)
T ss_dssp             CT------TCCEEECCSSCC--SSCCCCTTCTTCCEEECCSSCCSSCCSCCTTCCEEECCSSCCSCCCCCCTTCCEEECC
T ss_pred             cc------cccccccccccc--cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            11      112222222211  11113344556666666553332221100000        000000112223333222


Q ss_pred             cCC-------------------CCcccccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccc
Q 040318          233 FCS-------------------RVKDLTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHA  293 (366)
Q Consensus       233 ~~~-------------------~l~~l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  293 (366)
                      .+.                   .+..+  ...+++|++|+|++|.. ..+.               ..+++|++|+++++
T Consensus       253 ~~~~~~l~~l~~~~~~~~~~~~~~~~~--~~~~~~L~~L~Ls~N~l-~~lp---------------~~~~~L~~L~L~~N  314 (353)
T d1jl5a_         253 ENIFSGLSELPPNLYYLNASSNEIRSL--CDLPPSLEELNVSNNKL-IELP---------------ALPPRLERLIASFN  314 (353)
T ss_dssp             SSCCSEESCCCTTCCEEECCSSCCSEE--CCCCTTCCEEECCSSCC-SCCC---------------CCCTTCCEEECCSS
T ss_pred             cccccccccccchhcccccccCccccc--cccCCCCCEEECCCCcc-Cccc---------------cccCCCCEEECCCC
Confidence            210                   11111  12367899999998853 3321               24788999999876


Q ss_pred             cccccccCCCcCCCCccEEeccCCCCCCCCCCCCCCC
Q 040318          294 ENLKSIYQGALPLPQLKEIRVTQCPKLKTLPLNSSST  330 (366)
Q Consensus       294 ~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp~~~~~~  330 (366)
                       .++.++.   .+++|++|++++|+ |+++|..+.++
T Consensus       315 -~L~~l~~---~~~~L~~L~L~~N~-L~~lp~~~~~L  346 (353)
T d1jl5a_         315 -HLAEVPE---LPQNLKQLHVEYNP-LREFPDIPESV  346 (353)
T ss_dssp             -CCSCCCC---CCTTCCEEECCSSC-CSSCCCCCTTC
T ss_pred             -cCCcccc---ccCCCCEEECcCCc-CCCCCcccccc
Confidence             4655543   35689999999986 99988765544

>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=99.70  E-value=3.4e-17  Score=138.43  Aligned_cols=184  Identities=20%  Similarity=0.235  Sum_probs=120.8

Q ss_pred             EEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEcc
Q 040318           34 CLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRML  113 (366)
Q Consensus        34 ~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~  113 (366)
                      .++++.+    .+.++. ....+.+|++|++.+|+++.++ .+.++++|++|++++ +.+..++.  +..+++|+.+++.
T Consensus        23 ~~~l~~~----~~~d~~-~~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~-n~i~~~~~--l~~l~~l~~l~~~   93 (227)
T d1h6ua2          23 KIAAGKS----NVTDTV-TQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKD-NQITDLAP--LKNLTKITELELS   93 (227)
T ss_dssp             HHHTTCS----STTSEE-CHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCS-SCCCCCGG--GTTCCSCCEEECC
T ss_pred             HHHhCCC----CcCCcC-CHHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCC-ceeecccc--ccccccccccccc
Confidence            3456666    555543 2566889999999999999884 689999999999999 67777766  8899999999999


Q ss_pred             CCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhcc
Q 040318          114 ESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYMEH  193 (366)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~~  193 (366)
                      +|...               ....+..+++|+.+.++.+.......+..    .+.+..+.+..+..  .....+..+++
T Consensus        94 ~n~~~---------------~i~~l~~l~~L~~l~l~~~~~~~~~~~~~----~~~~~~l~~~~~~~--~~~~~~~~~~~  152 (227)
T d1h6ua2          94 GNPLK---------------NVSAIAGLQSIKTLDLTSTQITDVTPLAG----LSNLQVLYLDLNQI--TNISPLAGLTN  152 (227)
T ss_dssp             SCCCS---------------CCGGGTTCTTCCEEECTTSCCCCCGGGTT----CTTCCEEECCSSCC--CCCGGGGGCTT
T ss_pred             ccccc---------------ccccccccccccccccccccccccchhcc----ccchhhhhchhhhh--chhhhhccccc
Confidence            88662               22346778888888887665544433222    22355666555544  22224555666


Q ss_pred             cCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccC
Q 040318          194 LKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCD  258 (366)
Q Consensus       194 L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~  258 (366)
                      |+.|++.++.+.+...          ...+++|+.|++++| .++++++++.+++|++|+|++|+
T Consensus       153 L~~L~l~~n~~~~~~~----------l~~l~~L~~L~Ls~n-~l~~l~~l~~l~~L~~L~Ls~N~  206 (227)
T d1h6ua2         153 LQYLSIGNAQVSDLTP----------LANLSKLTTLKADDN-KISDISPLASLPNLIEVHLKNNQ  206 (227)
T ss_dssp             CCEEECCSSCCCCCGG----------GTTCTTCCEEECCSS-CCCCCGGGGGCTTCCEEECTTSC
T ss_pred             cccccccccccccchh----------hcccccceecccCCC-ccCCChhhcCCCCCCEEECcCCc
Confidence            6666666655443221          134566666666666 56666656666666666666653

>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=99.70  E-value=4.4e-17  Score=141.16  Aligned_cols=195  Identities=17%  Similarity=0.126  Sum_probs=130.0

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCchhhhcCccCCE
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPHELTALLNLRY   84 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~   84 (366)
                      ..+...+-++++++.+|.. +  .+++++|++++|    .++.+|. .+.++++|++|++++|+++.++. ++.+++|++
T Consensus        10 ~~~~~v~C~~~~L~~iP~~-l--p~~l~~L~Ls~N----~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~   81 (266)
T d1p9ag_          10 ASHLEVNCDKRNLTALPPD-L--PKDTTILHLSEN----LLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGT   81 (266)
T ss_dssp             TTCCEEECTTSCCSSCCSC-C--CTTCCEEECTTS----CCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCE
T ss_pred             CCCeEEEccCCCCCeeCcC-c--CcCCCEEECcCC----cCCCcCHHHhhcccccccccccccccccccc-ccccccccc
Confidence            3445567777778888765 2  257888888888    7777763 46778888888888888877763 467888888


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      |++++ +.+...+.. +..+++|+.|+++++.....             ....+..+.+++.|.+.              
T Consensus        82 L~Ls~-N~l~~~~~~-~~~l~~L~~L~l~~~~~~~~-------------~~~~~~~l~~l~~L~l~--------------  132 (266)
T d1p9ag_          82 LDLSH-NQLQSLPLL-GQTLPALTVLDVSFNRLTSL-------------PLGALRGLGELQELYLK--------------  132 (266)
T ss_dssp             EECCS-SCCSSCCCC-TTTCTTCCEEECCSSCCCCC-------------CSSTTTTCTTCCEEECT--------------
T ss_pred             ccccc-ccccccccc-ccccccccccccccccccee-------------ecccccccccccccccc--------------
Confidence            88888 667766664 77788888888887765221             11222334444444444              


Q ss_pred             cccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc-cc
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT-WL  243 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~-~l  243 (366)
                                  ++.........+..+++|+.+++.+|+++.+..+.+        ..+++|++|+++++ .++.++ .+
T Consensus       133 ------------~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~--------~~l~~L~~L~Ls~N-~L~~lp~~~  191 (266)
T d1p9ag_         133 ------------GNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLL--------NGLENLDTLLLQEN-SLYTIPKGF  191 (266)
T ss_dssp             ------------TSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTT--------TTCTTCCEEECCSS-CCCCCCTTT
T ss_pred             ------------ccccceeccccccccccchhcccccccccccCcccc--------ccccccceeecccC-CCcccChhH
Confidence                        333211222244556778888888777777665444        36778888888888 577775 45


Q ss_pred             cCCCCccEEEEEccC
Q 040318          244 AFAPNLKIIVIMHCD  258 (366)
Q Consensus       244 ~~l~~L~~L~L~~c~  258 (366)
                      ..+++|+.|+|++++
T Consensus       192 ~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         192 FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTTCCCSEEECCSCC
T ss_pred             CCCCCCCEEEecCCC
Confidence            567788888887765

>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=99.69  E-value=4.7e-17  Score=140.97  Aligned_cols=176  Identities=18%  Similarity=0.152  Sum_probs=139.6

Q ss_pred             CCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEe
Q 040318            6 SNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYL   85 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L   85 (366)
                      +++++|+|++|.+..++...|.++++|++|++++|    .++.++. +..+++|++|++++|+++..+..+..+++|++|
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N----~l~~l~~-~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L  105 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA----ELTKLQV-DGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVL  105 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS----CCCEEEC-CSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEE
T ss_pred             cCCCEEECcCCcCCCcCHHHhhccccccccccccc----ccccccc-ccccccccccccccccccccccccccccccccc
Confidence            47999999999999998877999999999999999    7888875 567999999999999999888889999999999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPK  165 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~  165 (366)
                      ++++ +.+..++...+..+.++++|++.+|.+...             ....+..+++|+.++++++....         
T Consensus       106 ~l~~-~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l-------------~~~~~~~l~~l~~l~l~~N~l~~---------  162 (266)
T d1p9ag_         106 DVSF-NRLTSLPLGALRGLGELQELYLKGNELKTL-------------PPGLLTPTPKLEKLSLANNNLTE---------  162 (266)
T ss_dssp             ECCS-SCCCCCCSSTTTTCTTCCEEECTTSCCCCC-------------CTTTTTTCTTCCEEECTTSCCSC---------
T ss_pred             cccc-cccceeecccccccccccccccccccccee-------------ccccccccccchhcccccccccc---------
Confidence            9999 667777665578899999999999976322             12233445566666555443322         


Q ss_pred             ccccccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCC
Q 040318          166 LLRITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCS  235 (366)
Q Consensus       166 ~~~~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~  235 (366)
                                       .....+..+++|++|++++|+++.++...+         .+++|+.|++++++
T Consensus       163 -----------------~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~---------~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         163 -----------------LPAGLLNGLENLDTLLLQENSLYTIPKGFF---------GSHLLPFAFLHGNP  206 (266)
T ss_dssp             -----------------CCTTTTTTCTTCCEEECCSSCCCCCCTTTT---------TTCCCSEEECCSCC
T ss_pred             -----------------cCccccccccccceeecccCCCcccChhHC---------CCCCCCEEEecCCC
Confidence                             222256678899999999999988765433         57889999999885

>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=99.67  E-value=8.7e-18  Score=147.04  Aligned_cols=250  Identities=17%  Similarity=0.119  Sum_probs=139.9

Q ss_pred             CEEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCc--cCchhhhcCccCCEe
Q 040318            9 PSILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIR--GLPHELTALLNLRYL   85 (366)
Q Consensus         9 ~~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~--~l~~~i~~l~~L~~L   85 (366)
                      ++++++++.+.. .....+.  .....+.++..    ..............|++|++++|.+.  .+...+.++++|++|
T Consensus         3 ~~lDLs~~~l~~~~l~~l~~--~~~~~lrl~~~----~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L   76 (284)
T d2astb2           3 QTLDLTGKNLHPDVTGRLLS--QGVIAFRCPRS----FMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNL   76 (284)
T ss_dssp             SEEECTTCBCCHHHHHHHHH--TTCSEEECTTC----EECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEE
T ss_pred             CEEECCCCCCCchHHHHHHh--ccceEeecccc----ccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccc
Confidence            578888776642 2222222  23456666665    33333233445678899999888765  355567888899999


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHH-HhhcCCCCcceEEEEeccccccccccccc
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLM-KELLCLKLLNLISFSLYSSRGVRNFLKFP  164 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~  164 (366)
                      ++++| .+.+.....+..+++|++|++++|...            .+... .....+++|++|+++++.......+..  
T Consensus        77 ~L~~~-~l~~~~~~~l~~~~~L~~L~Ls~c~~i------------td~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~--  141 (284)
T d2astb2          77 SLEGL-RLSDPIVNTLAKNSNLVRLNLSGCSGF------------SEFALQTLLSSCSRLDELNLSWCFDFTEKHVQV--  141 (284)
T ss_dssp             ECTTC-BCCHHHHHHHTTCTTCSEEECTTCBSC------------CHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHH--
T ss_pred             ccccc-CCCcHHHHHHhcCCCCcCccccccccc------------cccccchhhHHHHhccccccccccccccccchh--
Confidence            99885 444322223778888999999887542            22222 223456777777776543221111110  


Q ss_pred             cccccccEEEEeccCCCCcCccchh-hhcccCceEecc--cccceeeccccCccccccccCCCCCcEEeEecCCCCcc--
Q 040318          165 KLLRITQALSISDCEIPLLNVSHLA-YMEHLKDLVIDN--SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--  239 (366)
Q Consensus       165 ~~~~~L~~L~l~~~~~~~~~~~~l~-~~~~L~~L~l~~--~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--  239 (366)
                                            .+. .+++|+.|++.+  ..+.+.+.....       ..+|+|++|++++|..+++  
T Consensus       142 ----------------------~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~-------~~~~~L~~L~L~~~~~itd~~  192 (284)
T d2astb2         142 ----------------------AVAHVSETITQLNLSGYRKNLQKSDLSTLV-------RRCPNLVHLDLSDSVMLKNDC  192 (284)
T ss_dssp             ----------------------HHHHSCTTCCEEECCSCGGGSCHHHHHHHH-------HHCTTCSEEECTTCTTCCGGG
T ss_pred             ----------------------hhcccccccchhhhcccccccccccccccc-------cccccccccccccccCCCchh
Confidence                                  111 123455555543  122221111110       3577788888888776764  


Q ss_pred             cccccCCCCccEEEEEccCCcccccccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCC
Q 040318          240 LTWLAFAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPK  319 (366)
Q Consensus       240 l~~l~~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~  319 (366)
                      +..++.+++|++|++++|..+++...           ..+..+|+|+.|++++|..-..+..-...+|+|+   + +|.+
T Consensus       193 ~~~l~~~~~L~~L~L~~C~~i~~~~l-----------~~L~~~~~L~~L~l~~~~~d~~l~~l~~~lp~L~---i-~~~~  257 (284)
T d2astb2         193 FQEFFQLNYLQHLSLSRCYDIIPETL-----------LELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQ---I-NCSH  257 (284)
T ss_dssp             GGGGGGCTTCCEEECTTCTTCCGGGG-----------GGGGGCTTCCEEECTTSSCTTCHHHHHHHSTTSE---E-SCCC
T ss_pred             hhhhcccCcCCEEECCCCCCCChHHH-----------HHHhcCCCCCEEeeeCCCCHHHHHHHHHhCcccc---c-cCcc
Confidence            44566778888888888876654321           1455678888888877722222222123466654   3 5666


Q ss_pred             CCCC
Q 040318          320 LKTL  323 (366)
Q Consensus       320 l~~l  323 (366)
                      ++.+
T Consensus       258 ls~~  261 (284)
T d2astb2         258 FTTI  261 (284)
T ss_dssp             SCCT
T ss_pred             CCCC
Confidence            6654

>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=6.3e-16  Score=135.09  Aligned_cols=218  Identities=12%  Similarity=0.059  Sum_probs=155.8

Q ss_pred             EEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCch-hhhcCccCCEeecc
Q 040318           11 ILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLE   88 (366)
Q Consensus        11 L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~   88 (366)
                      +..++++++.+|..+   .+.+++|++++|    .++.+|. .+..+++|++|+++++.+..++. ....+..++.+...
T Consensus        16 v~c~~~~L~~iP~~i---p~~~~~L~Ls~N----~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~   88 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI---PAASQRIFLHGN----RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLS   88 (284)
T ss_dssp             EECCSSCCSSCCTTC---CTTCSEEECTTS----CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             EEcCCCCCCccCCCC---CCCCCEEECcCC----cCCCCCHHHhhccccccccccccccccccccccccccccccccccc
Confidence            444566678888753   357899999999    7888875 47789999999999998885543 45667888888877


Q ss_pred             ccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccc
Q 040318           89 RTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLR  168 (366)
Q Consensus        89 ~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  168 (366)
                      ..+.+..++...+.++++|++|++.+|.....             ....+....+|+.+.+.++....++.-  .....+
T Consensus        89 ~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~-------------~~~~~~~~~~L~~l~l~~N~l~~i~~~--~f~~~~  153 (284)
T d1ozna_          89 DNAQLRSVDPATFHGLGRLHTLHLDRCGLQEL-------------GPGLFRGLAALQYLYLQDNALQALPDD--TFRDLG  153 (284)
T ss_dssp             SCTTCCCCCTTTTTTCTTCCEEECTTSCCCCC-------------CTTTTTTCTTCCEEECCSSCCCCCCTT--TTTTCT
T ss_pred             cccccccccchhhcccccCCEEecCCcccccc-------------cccccchhcccchhhhccccccccChh--Hhcccc
Confidence            66777787665588899999999998876221             234456678888888888776655321  112344


Q ss_pred             cccEEEEeccCCCCcCccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCC
Q 040318          169 ITQALSISDCEIPLLNVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFA  246 (366)
Q Consensus       169 ~L~~L~l~~~~~~~~~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l  246 (366)
                      +|++|++.++.........+..+++|+.+++.++++..+..+.+        ..+++|++|+++++ .++.++  .++.+
T Consensus       154 ~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f--------~~l~~L~~L~l~~N-~i~~~~~~~~~~~  224 (284)
T d1ozna_         154 NLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF--------RDLGRLMTLYLFAN-NLSALPTEALAPL  224 (284)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTT--------TTCTTCCEEECCSS-CCSCCCHHHHTTC
T ss_pred             chhhcccccCcccccchhhhccccccchhhhhhccccccChhHh--------hhhhhccccccccc-ccccccccccccc
Confidence            57788887776533333466778888888888888877765555        46788888888888 566654  45678


Q ss_pred             CCccEEEEEccCC
Q 040318          247 PNLKIIVIMHCDD  259 (366)
Q Consensus       247 ~~L~~L~L~~c~~  259 (366)
                      ++|++|++++++.
T Consensus       225 ~~L~~L~l~~N~l  237 (284)
T d1ozna_         225 RALQYLRLNDNPW  237 (284)
T ss_dssp             TTCCEEECCSSCE
T ss_pred             cccCEEEecCCCC
Confidence            8888888887653

>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=99.65  E-value=7.1e-16  Score=134.74  Aligned_cols=217  Identities=17%  Similarity=0.146  Sum_probs=151.4

Q ss_pred             EEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEc
Q 040318           34 CLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM  112 (366)
Q Consensus        34 ~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l  112 (366)
                      .++.+++    .++.+|..+.  .++++|+|++|+++.+|. .+.++++|++|++++ +.+..++...+..+..++++..
T Consensus        15 ~v~c~~~----~L~~iP~~ip--~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~-n~l~~i~~~~~~~~~~~~~l~~   87 (284)
T d1ozna_          15 TTSCPQQ----GLQAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHS-NVLARIDAAAFTGLALLEQLDL   87 (284)
T ss_dssp             EEECCSS----CCSSCCTTCC--TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEEC
T ss_pred             EEEcCCC----CCCccCCCCC--CCCCEEECcCCcCCCCCHHHhhcccccccccccc-cccccccccccccccccccccc
Confidence            4567776    7888987664  678999999999998875 589999999999999 7888887766788999999987


Q ss_pred             cCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchhhhc
Q 040318          113 LESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLAYME  192 (366)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~  192 (366)
                      ..+...            ....+..+..+++|+.|.++.+.......  .......+|+.+++.++...+.....+..++
T Consensus        88 ~~~~~~------------~~l~~~~~~~l~~L~~L~l~~n~~~~~~~--~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~  153 (284)
T d1ozna_          88 SDNAQL------------RSVDPATFHGLGRLHTLHLDRCGLQELGP--GLFRGLAALQYLYLQDNALQALPDDTFRDLG  153 (284)
T ss_dssp             CSCTTC------------CCCCTTTTTTCTTCCEEECTTSCCCCCCT--TTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             cccccc------------ccccchhhcccccCCEEecCCcccccccc--cccchhcccchhhhccccccccChhHhcccc
Confidence            654321            11224557888999999998766544322  1222344577777777665333333566677


Q ss_pred             ccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccc--cccCCCCccEEEEEccCCccccccccccc
Q 040318          193 HLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLT--WLAFAPNLKIIVIMHCDDLEEIISVEKLN  270 (366)
Q Consensus       193 ~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~--~l~~l~~L~~L~L~~c~~~~~~~~~~~~~  270 (366)
                      +|+.|++.+++++.+....+        ..+++|+.+++.++ .++.+.  .+..+++|++|++++|........     
T Consensus       154 ~L~~L~l~~N~l~~l~~~~f--------~~l~~L~~l~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~-----  219 (284)
T d1ozna_         154 NLTHLFLHGNRISSVPERAF--------RGLHSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLFANNLSALPTE-----  219 (284)
T ss_dssp             TCCEEECCSSCCCEECTTTT--------TTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSSCCSCCCHH-----
T ss_pred             chhhcccccCcccccchhhh--------ccccccchhhhhhc-cccccChhHhhhhhhccccccccccccccccc-----
Confidence            78888887777777665444        36777888888777 555543  456777888888877765443221     


Q ss_pred             cccccccccccccccccccccc
Q 040318          271 QLSDIMGELNFFAKLELLDLYH  292 (366)
Q Consensus       271 ~~~~~~~~~~~~~~L~~L~l~~  292 (366)
                             .+..+++|++|++++
T Consensus       220 -------~~~~~~~L~~L~l~~  234 (284)
T d1ozna_         220 -------ALAPLRALQYLRLND  234 (284)
T ss_dssp             -------HHTTCTTCCEEECCS
T ss_pred             -------ccccccccCEEEecC
Confidence                   455677777777765

>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=99.65  E-value=5.4e-16  Score=128.14  Aligned_cols=78  Identities=14%  Similarity=0.291  Sum_probs=34.1

Q ss_pred             CCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCc
Q 040318           29 RASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLE  108 (366)
Q Consensus        29 ~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~  108 (366)
                      ++++++|+++++    .+++++. +..+++|++|++++|+++.++. ++++++|++|++++ +.+..++.  +.++++|+
T Consensus        39 l~~l~~L~l~~~----~i~~l~~-l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~-n~~~~~~~--l~~l~~L~  109 (199)
T d2omxa2          39 LDQVTTLQADRL----GIKSIDG-VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNN-NQIADITP--LANLTNLT  109 (199)
T ss_dssp             HTTCCEEECTTS----CCCCCTT-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCS-SCCCCCGG--GTTCTTCS
T ss_pred             hcCCCEEECCCC----CCCCccc-cccCCCcCcCccccccccCccc-ccCCcccccccccc-cccccccc--cccccccc
Confidence            344444444444    3333322 3444444444444444444332 44444444444444 33333332  44444444


Q ss_pred             EEEccCC
Q 040318          109 VLRMLES  115 (366)
Q Consensus       109 ~L~l~~~  115 (366)
                      .|++.++
T Consensus       110 ~L~l~~~  116 (199)
T d2omxa2         110 GLTLFNN  116 (199)
T ss_dssp             EEECCSS
T ss_pred             ccccccc
Confidence            4444444

>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=99.65  E-value=6.6e-16  Score=128.74  Aligned_cols=59  Identities=19%  Similarity=0.332  Sum_probs=37.5

Q ss_pred             chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEc
Q 040318          187 HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMH  256 (366)
Q Consensus       187 ~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~  256 (366)
                      ....+++|+.+++.++++.++..  +        ..+++|+.|++++| .+++++.+..+++|++|+|++
T Consensus       151 ~~~~l~~L~~l~l~~n~l~~i~~--l--------~~l~~L~~L~Ls~N-~i~~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         151 VLSRLTKLDTLSLEDNQISDIVP--L--------AGLTKLQNLYLSKN-HISDLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGG--G--------TTCTTCCEEECCSS-CCCBCGGGTTCTTCSEEEEEE
T ss_pred             ccccccccccccccccccccccc--c--------cCCCCCCEEECCCC-CCCCChhhcCCCCCCEEEccC
Confidence            34455667777776666654421  1        35677777777777 566776667777777777763

>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=99.64  E-value=1.2e-15  Score=126.02  Aligned_cols=146  Identities=17%  Similarity=0.221  Sum_probs=113.0

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ++++++.|+++++++.+++.  ++.+++|++|++++|    .++.++. +..+++|++|++++|.+..++ .+.++++|+
T Consensus        38 ~l~~l~~L~l~~~~i~~l~~--l~~l~nL~~L~Ls~N----~l~~~~~-l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~  109 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN----QLTDITP-LKNLTKLVDILMNNNQIADIT-PLANLTNLT  109 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSS----CCCCCGG-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCS
T ss_pred             HhcCCCEEECCCCCCCCccc--cccCCCcCcCccccc----cccCccc-ccCCccccccccccccccccc-ccccccccc
Confidence            36789999999999998865  789999999999999    7788765 889999999999999988876 488999999


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEecccccccccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKF  163 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  163 (366)
                      .+++++ +....++.  +..+++|+.|++.+|.+.               ....+..+++|+.|.+.++...+++.+.  
T Consensus       110 ~L~l~~-~~~~~~~~--~~~l~~L~~L~l~~n~l~---------------~~~~l~~~~~L~~L~l~~n~l~~l~~l~--  169 (199)
T d2omxa2         110 GLTLFN-NQITDIDP--LKNLTNLNRLELSSNTIS---------------DISALSGLTSLQQLNFSSNQVTDLKPLA--  169 (199)
T ss_dssp             EEECCS-SCCCCCGG--GTTCTTCSEEECCSSCCC---------------CCGGGTTCTTCSEEECCSSCCCCCGGGT--
T ss_pred             cccccc-cccccccc--cchhhhhHHhhhhhhhhc---------------ccccccccccccccccccccccCCcccc--
Confidence            999998 55555554  788999999999999762               2234677788888888776655543322  


Q ss_pred             ccccccccEEEEeccC
Q 040318          164 PKLLRITQALSISDCE  179 (366)
Q Consensus       164 ~~~~~~L~~L~l~~~~  179 (366)
                        .+++|++|+++++.
T Consensus       170 --~l~~L~~L~ls~N~  183 (199)
T d2omxa2         170 --NLTTLERLDISSNK  183 (199)
T ss_dssp             --TCTTCCEEECCSSC
T ss_pred             --CCCCCCEEECCCCC
Confidence              12335555554443

>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=99.63  E-value=3.7e-16  Score=136.51  Aligned_cols=184  Identities=18%  Similarity=0.144  Sum_probs=123.1

Q ss_pred             hcCCcccEEECCCCCCCCCcCc--cCccccccccCCEEeccCCCCc-cCchhhhcCccCCEeeccccccCCCcCh-hhhc
Q 040318           27 LSRASWTCLDNGPSRIKNSLTE--LPSGISSLVSLQHLDVSYTDIR-GLPHELTALLNLRYLNLERTYHLSRFPP-ELIC  102 (366)
Q Consensus        27 ~~~~~L~~L~l~~~~~~~~~~~--l~~~~~~l~~L~~L~l~~~~i~-~l~~~i~~l~~L~~L~L~~c~~~~~l~~-~~l~  102 (366)
                      .....|++||+++|    .++.  ++..+.++++|++|++++|.+. ..+..+.++++|++|++++|+.+++... .++.
T Consensus        43 ~~~~~L~~LdLs~~----~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~  118 (284)
T d2astb2          43 FSPFRVQHMDLSNS----VIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLS  118 (284)
T ss_dssp             CCCBCCCEEECTTC----EECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHH
T ss_pred             ccCCCCCEEECCCC----ccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhH
Confidence            45678999999999    5443  4555778999999999999876 4556788899999999999988875322 2246


Q ss_pred             CCCCCcEEEccCCCCCCccccccccccchHHHHHhhcC-CCCcceEEEEeccc-cccccccccccccccccEEEEeccCC
Q 040318          103 SFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLC-LKLLNLISFSLYSS-RGVRNFLKFPKLLRITQALSISDCEI  180 (366)
Q Consensus       103 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~-l~~L~~L~l~~~~~-~~~~~~~~~~~~~~~L~~L~l~~~~~  180 (366)
                      ++++|++|++++|...+.           ......+.. .++|+.|.++++.. .....+..                  
T Consensus       119 ~~~~L~~L~ls~c~~~~~-----------~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~------------------  169 (284)
T d2astb2         119 SCSRLDELNLSWCFDFTE-----------KHVQVAVAHVSETITQLNLSGYRKNLQKSDLST------------------  169 (284)
T ss_dssp             HCTTCCEEECCCCTTCCH-----------HHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH------------------
T ss_pred             HHHhcccccccccccccc-----------ccchhhhcccccccchhhhcccccccccccccc------------------
Confidence            799999999999854211           222233333 35677777654321 11111111                  


Q ss_pred             CCcCccchhhhcccCceEecc-cccceeeccccCccccccccCCCCCcEEeEecCCCCcc--cccccCCCCccEEEEEcc
Q 040318          181 PLLNVSHLAYMEHLKDLVIDN-SNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD--LTWLAFAPNLKIIVIMHC  257 (366)
Q Consensus       181 ~~~~~~~l~~~~~L~~L~l~~-~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~--l~~l~~l~~L~~L~L~~c  257 (366)
                            ....+++|++|++++ ..+++-.....        ..+++|++|++++|..+++  +..++++|+|+.|++.+|
T Consensus       170 ------l~~~~~~L~~L~L~~~~~itd~~~~~l--------~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         170 ------LVRRCPNLVHLDLSDSVMLKNDCFQEF--------FQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             ------HHHHCTTCSEEECTTCTTCCGGGGGGG--------GGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             ------cccccccccccccccccCCCchhhhhh--------cccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence                  224456677777755 33443332222        3678899999998877766  345678899999999887

>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=99.63  E-value=1.1e-15  Score=127.31  Aligned_cols=166  Identities=18%  Similarity=0.276  Sum_probs=113.0

Q ss_pred             cCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCC
Q 040318           28 SRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKL  107 (366)
Q Consensus        28 ~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L  107 (366)
                      .+..|+.|++++|    .++.++. +..+++|++|++++|.++.++ .++.+++|++|++++ +.++.++.  +..+++|
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  114 (210)
T d1h6ta2          44 ELNSIDQIIANNS----DIKSVQG-IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDE-NKVKDLSS--LKDLKKL  114 (210)
T ss_dssp             HHHTCCEEECTTS----CCCCCTT-GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCS-SCCCCGGG--GTTCTTC
T ss_pred             HhcCccEEECcCC----CCCCchh-HhhCCCCCEEeCCCccccCcc-ccccCcccccccccc-cccccccc--ccccccc
Confidence            4567777777777    5666653 667777777777777777665 356777777777777 56677664  6777777


Q ss_pred             cEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccc
Q 040318          108 EVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSH  187 (366)
Q Consensus       108 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~  187 (366)
                      +.|++.+|...               .+..+..++.++.+.++.+...+.....    .+++|+.+.+.++..  .....
T Consensus       115 ~~L~l~~~~~~---------------~~~~l~~l~~l~~l~~~~n~l~~~~~~~----~l~~L~~l~l~~n~l--~~i~~  173 (210)
T d1h6ta2         115 KSLSLEHNGIS---------------DINGLVHLPQLESLYLGNNKITDITVLS----RLTKLDTLSLEDNQI--SDIVP  173 (210)
T ss_dssp             CEEECTTSCCC---------------CCGGGGGCTTCCEEECCSSCCCCCGGGG----GCTTCSEEECCSSCC--CCCGG
T ss_pred             ccccccccccc---------------cccccccccccccccccccccccccccc----ccccccccccccccc--ccccc
Confidence            77777777551               1234566677777777666554433222    234577888877765  22225


Q ss_pred             hhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEec
Q 040318          188 LAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAF  233 (366)
Q Consensus       188 l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~  233 (366)
                      +..+++|++|++++|.++++..  +        ..+++|+.|++++
T Consensus       174 l~~l~~L~~L~Ls~N~i~~l~~--l--------~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         174 LAGLTKLQNLYLSKNHISDLRA--L--------AGLKNLDVLELFS  209 (210)
T ss_dssp             GTTCTTCCEEECCSSCCCBCGG--G--------TTCTTCSEEEEEE
T ss_pred             ccCCCCCCEEECCCCCCCCChh--h--------cCCCCCCEEEccC
Confidence            7788899999999888876642  2        4688999998875

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.63  E-value=2.8e-16  Score=139.30  Aligned_cols=253  Identities=17%  Similarity=0.134  Sum_probs=175.8

Q ss_pred             CcccEEECCCCCCCCCcC---ccCccccccccCCEEeccC-CCCc-cCchhhhcCccCCEeeccccccCCCcChhhhcCC
Q 040318           30 ASWTCLDNGPSRIKNSLT---ELPSGISSLVSLQHLDVSY-TDIR-GLPHELTALLNLRYLNLERTYHLSRFPPELICSF  104 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~---~l~~~~~~l~~L~~L~l~~-~~i~-~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l  104 (366)
                      .+++.|+++++    .+.   .+|..++++++|++|++++ |++. .+|..++++++|++|++++ +.+..++...+..+
T Consensus        50 ~~v~~L~L~~~----~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~-N~l~~~~~~~~~~~  124 (313)
T d1ogqa_          50 YRVNNLDLSGL----NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH-TNVSGAIPDFLSQI  124 (313)
T ss_dssp             CCEEEEEEECC----CCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEE-ECCEEECCGGGGGC
T ss_pred             EEEEEEECCCC----CCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhcc-ccccccccccccch
Confidence            36899999999    444   4788999999999999997 5776 8999999999999999999 66666555458889


Q ss_pred             CCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc-cccccccccccccccEEEEeccCCCCc
Q 040318          105 SKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG-VRNFLKFPKLLRITQALSISDCEIPLL  183 (366)
Q Consensus       105 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-~~~~~~~~~~~~~L~~L~l~~~~~~~~  183 (366)
                      .+|+.+++..|..             ....+..+..++.++.++++++.... ++....  .....++.+.+..+.....
T Consensus       125 ~~L~~l~l~~N~~-------------~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~--~l~~l~~~l~~~~n~l~~~  189 (313)
T d1ogqa_         125 KTLVTLDFSYNAL-------------SGTLPPSISSLPNLVGITFDGNRISGAIPDSYG--SFSKLFTSMTISRNRLTGK  189 (313)
T ss_dssp             TTCCEEECCSSEE-------------ESCCCGGGGGCTTCCEEECCSSCCEEECCGGGG--CCCTTCCEEECCSSEEEEE
T ss_pred             hhhcccccccccc-------------cccCchhhccCcccceeeccccccccccccccc--ccccccccccccccccccc
Confidence            9999999999865             23445678889999999998776543 222111  1122235565555443111


Q ss_pred             CccchhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccCCcccc
Q 040318          184 NVSHLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDDLEEI  263 (366)
Q Consensus       184 ~~~~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~~~~~  263 (366)
                      ....+..+. ...+++..+..........        ..+++++.+++.++.....++.++.+++|++|++++|.....+
T Consensus       190 ~~~~~~~l~-~~~l~l~~~~~~~~~~~~~--------~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~i  260 (313)
T d1ogqa_         190 IPPTFANLN-LAFVDLSRNMLEGDASVLF--------GSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTL  260 (313)
T ss_dssp             CCGGGGGCC-CSEEECCSSEEEECCGGGC--------CTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECC
T ss_pred             ccccccccc-ccccccccccccccccccc--------cccccccccccccccccccccccccccccccccCccCeecccC
Confidence            111333332 2345555444332222111        4678999999999843334566778899999999998765444


Q ss_pred             cccccccccccccccccccccccccccccccccccccCCCcCCCCccEEeccCCCCCCCCC
Q 040318          264 ISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVTQCPKLKTLP  324 (366)
Q Consensus       264 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~lp  324 (366)
                      ..            .+..+++|++|+++++.--..++ ....+.+|+.+++.+.+.+...|
T Consensus       261 P~------------~l~~L~~L~~L~Ls~N~l~g~iP-~~~~L~~L~~l~l~~N~~l~g~p  308 (313)
T d1ogqa_         261 PQ------------GLTQLKFLHSLNVSFNNLCGEIP-QGGNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             CG------------GGGGCTTCCEEECCSSEEEEECC-CSTTGGGSCGGGTCSSSEEESTT
T ss_pred             Ch------------HHhCCCCCCEEECcCCcccccCC-CcccCCCCCHHHhCCCccccCCC
Confidence            33            67789999999999864323454 34567889999999988777655

>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=99.56  E-value=1.1e-14  Score=123.93  Aligned_cols=102  Identities=17%  Similarity=0.213  Sum_probs=73.5

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCcc-Cc-hhhhcCccCCEe
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRG-LP-HELTALLNLRYL   85 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~-l~-~~i~~l~~L~~L   85 (366)
                      +.++.++.+++.+|..+   .+++++|++++|    .++.+|. .+.++++|++|++++|.+.. ++ ..+..+++++++
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   83 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDL---PRNAIELRFVLT----KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEI   83 (242)
T ss_dssp             SEEEEESCSCSSCCSCS---CSCCSEEEEESC----CCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEE
T ss_pred             CEEEEeCCCCCCcCCCC---CCCCCEEECcCC----cCCccChhHhhccchhhhhhhccccccceeeccccccccccccc
Confidence            56677777777777653   257788888888    7777765 46778888888888886653 32 345677888888


Q ss_pred             eccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           86 NLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        86 ~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      .+..++.+..++.+.+.++++|++|++.++.+
T Consensus        84 ~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l  115 (242)
T d1xwdc1          84 RIEKANNLLYINPEAFQNLPNLQYLLISNTGI  115 (242)
T ss_dssp             EEECCTTCCEECTTSEECCTTCCEEEEESCCC
T ss_pred             cccccccccccccccccccccccccccchhhh
Confidence            87766667666655577888888888887765

>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=99.53  E-value=4e-14  Score=107.10  Aligned_cols=101  Identities=19%  Similarity=0.189  Sum_probs=89.1

Q ss_pred             CEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeecc
Q 040318            9 PSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLE   88 (366)
Q Consensus         9 ~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~   88 (366)
                      |+|++++|+++.++.  ++.+++|++|++++|    .++.+|..++.+++|+.|++++|.++.+| .+..+++|++|+++
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~   73 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH--LEQLLLVTHLDLSHN----RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLC   73 (124)
T ss_dssp             SEEECTTSCCSSCCC--GGGGTTCCEEECCSS----CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECC
T ss_pred             CEEEcCCCCCCCCcc--cccCCCCCEEECCCC----ccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECC
Confidence            689999999998875  789999999999999    88899888889999999999999999886 58899999999999


Q ss_pred             ccccCCCcCh-hhhcCCCCCcEEEccCCCC
Q 040318           89 RTYHLSRFPP-ELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        89 ~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~  117 (366)
                      + +.+..++. ..+..+++|+.|++.+|.+
T Consensus        74 ~-N~i~~~~~~~~l~~~~~L~~L~l~~N~i  102 (124)
T d1dcea3          74 N-NRLQQSAAIQPLVSCPRLVLLNLQGNSL  102 (124)
T ss_dssp             S-SCCCSSSTTGGGGGCTTCCEEECTTSGG
T ss_pred             C-CccCCCCCchhhcCCCCCCEEECCCCcC
Confidence            9 78887763 3378899999999999876

>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=99.50  E-value=3e-13  Score=120.84  Aligned_cols=255  Identities=16%  Similarity=0.134  Sum_probs=156.8

Q ss_pred             CcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcE
Q 040318           30 ASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEV  109 (366)
Q Consensus        30 ~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~  109 (366)
                      .++++||++++    .++.+|+.   .++|++|++++|+++.+|..   ..+|+.|++.+ +.+..++.  +  .+.|++
T Consensus        38 ~~l~~LdLs~~----~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~l~~-n~l~~l~~--l--p~~L~~  102 (353)
T d1jl5a_          38 RQAHELELNNL----GLSSLPEL---PPHLESLVASCNSLTELPEL---PQSLKSLLVDN-NNLKALSD--L--PPLLEY  102 (353)
T ss_dssp             HTCSEEECTTS----CCSCCCSC---CTTCSEEECCSSCCSSCCCC---CTTCCEEECCS-SCCSCCCS--C--CTTCCE
T ss_pred             cCCCEEEeCCC----CCCCCCCC---CCCCCEEECCCCCCcccccc---hhhhhhhhhhh-cccchhhh--h--cccccc
Confidence            46899999999    88889863   47899999999999999865   45899999998 66666553  2  246999


Q ss_pred             EEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccccccccccccccccEEEEeccCCCCcCccchh
Q 040318          110 LRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVRNFLKFPKLLRITQALSISDCEIPLLNVSHLA  189 (366)
Q Consensus       110 L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~  189 (366)
                      |++.+|.+...               .....+++|+.+++.++.....+..      ...+..+.+..+..  .....+.
T Consensus       103 L~L~~n~l~~l---------------p~~~~l~~L~~L~l~~~~~~~~~~~------~~~l~~l~~~~~~~--~~~~~l~  159 (353)
T d1jl5a_         103 LGVSNNQLEKL---------------PELQNSSFLKIIDVDNNSLKKLPDL------PPSLEFIAAGNNQL--EELPELQ  159 (353)
T ss_dssp             EECCSSCCSSC---------------CCCTTCTTCCEEECCSSCCSCCCCC------CTTCCEEECCSSCC--SSCCCCT
T ss_pred             ccccccccccc---------------cchhhhccceeeccccccccccccc------cccccchhhccccc--ccccccc
Confidence            99999977222               2356788999999987666544332      22356666665555  3333566


Q ss_pred             hhcccCceEecccccceeeccccCc---------ccccc-ccCCCCCcEEeEecCCCCcccccccCCCCccEEEEEccCC
Q 040318          190 YMEHLKDLVIDNSNLEELKTDCTGE---------VQKVL-QCGFRSLHLASIAFCSRVKDLTWLAFAPNLKIIVIMHCDD  259 (366)
Q Consensus       190 ~~~~L~~L~l~~~~l~~l~~~~~~~---------~~~~p-~~~~~~L~~L~l~~~~~l~~l~~l~~l~~L~~L~L~~c~~  259 (366)
                      .++.++.+.+..+....+.......         ...++ ...++.|+.+++.++. ...++.  ..+++..+.+..+..
T Consensus       160 ~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~L~~l~l~~n~-~~~~~~--~~~~l~~~~~~~~~~  236 (353)
T d1jl5a_         160 NLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNL-LKTLPD--LPPSLEALNVRDNYL  236 (353)
T ss_dssp             TCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSC-CSSCCS--CCTTCCEEECCSSCC
T ss_pred             ccccceeccccccccccccccccccccccccccccccccccccccccccccccccc-cccccc--ccccccccccccccc
Confidence            6778888888764443322111000         00111 1567889999988873 333321  123344444333322


Q ss_pred             cccc----------------------cccccccc--cccccccccccccccccccccccccccccCCCcCCCCccEEecc
Q 040318          260 LEEI----------------------ISVEKLNQ--LSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQLKEIRVT  315 (366)
Q Consensus       260 ~~~~----------------------~~~~~~~~--~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~  315 (366)
                      ....                      ........  ...+......+++|++|++++| .++.++.   .+++|+.|+++
T Consensus       237 ~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~N-~l~~lp~---~~~~L~~L~L~  312 (353)
T d1jl5a_         237 TDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNN-KLIELPA---LPPRLERLIAS  312 (353)
T ss_dssp             SCCCCCCTTCCEEECCSSCCSEESCCCTTCCEEECCSSCCSEECCCCTTCCEEECCSS-CCSCCCC---CCTTCCEEECC
T ss_pred             cccccccccccccccccccccccccccchhcccccccCccccccccCCCCCEEECCCC-ccCcccc---ccCCCCEEECC
Confidence            1110                      00000000  0011122344689999999987 4555542   47899999998


Q ss_pred             CCCCCCCCCCCCCCC
Q 040318          316 QCPKLKTLPLNSSST  330 (366)
Q Consensus       316 ~c~~l~~lp~~~~~~  330 (366)
                      +| +|+++|..+..+
T Consensus       313 ~N-~L~~l~~~~~~L  326 (353)
T d1jl5a_         313 FN-HLAEVPELPQNL  326 (353)
T ss_dssp             SS-CCSCCCCCCTTC
T ss_pred             CC-cCCccccccCCC
Confidence            87 699998754433

>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=99.49  E-value=4.7e-14  Score=112.03  Aligned_cols=130  Identities=15%  Similarity=0.120  Sum_probs=101.4

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchh-hhcCccC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHE-LTALLNL   82 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~-i~~l~~L   82 (366)
                      ++.+++.|+|++|.++.++.. +..+++|++|++++|    .+..++. +..+++|++|++++|.++.++.. +..+++|
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   89 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVIENL-GATLDQFDAIDFSDN----EIRKLDG-FPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             CTTSCEEEECTTSCCCSCCCG-GGGTTCCSEEECCSS----CCCEECC-CCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             CcCcCcEEECCCCCCCccCcc-ccccccCCEEECCCC----CCCccCC-cccCcchhhhhcccccccCCCcccccccccc
Confidence            567889999999999998754 678999999999999    7788854 78899999999999999887664 4678999


Q ss_pred             CEeeccccccCCCcCh-hhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEE
Q 040318           83 RYLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFS  150 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  150 (366)
                      ++|++++ +.+..++. ..+..+++|++|++.+|.+...          ...-...+..+++|+.|+..
T Consensus        90 ~~L~L~~-N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~----------~~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          90 TELILTN-NSLVELGDLDPLASLKSLTYLCILRNPVTNK----------KHYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             CEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSSGGGGS----------TTHHHHHHHHCTTCSEETTE
T ss_pred             ccceecc-ccccccccccccccccccchhhcCCCccccc----------cchHHHHHHHCCCcCeeCCC
Confidence            9999999 77777653 3378899999999999976222          11123446667788877644

>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=6e-13  Score=112.85  Aligned_cols=108  Identities=15%  Similarity=0.175  Sum_probs=78.9

Q ss_pred             cEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEE
Q 040318           33 TCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLR  111 (366)
Q Consensus        33 ~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~  111 (366)
                      ++++.++.    .++.+|..+.  .++++|++++|.++.+|. .+.++++|++|+++++.....++...+.++++++++.
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~   84 (242)
T d1xwdc1          11 RVFLCQES----KVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIR   84 (242)
T ss_dssp             SEEEEESC----SCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEE
T ss_pred             CEEEEeCC----CCCCcCCCCC--CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccc
Confidence            57777777    7788887664  589999999999998876 4788999999999984444446655578899999998


Q ss_pred             ccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318          112 MLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus       112 l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      +..+...            .......+..+++|+.+.+..+.....+
T Consensus        85 ~~~~n~l------------~~~~~~~~~~l~~L~~l~l~~~~l~~~~  119 (242)
T d1xwdc1          85 IEKANNL------------LYINPEAFQNLPNLQYLLISNTGIKHLP  119 (242)
T ss_dssp             EECCTTC------------CEECTTSEECCTTCCEEEEESCCCCSCC
T ss_pred             ccccccc------------cccccccccccccccccccchhhhcccc
Confidence            8764321            1223345677888888888876655443

>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=99.44  E-value=1.9e-13  Score=103.32  Aligned_cols=106  Identities=23%  Similarity=0.279  Sum_probs=91.0

Q ss_pred             cEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEc
Q 040318           33 TCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRM  112 (366)
Q Consensus        33 ~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l  112 (366)
                      |+|++++|    .++.++. +..+++|++|++++|.++.+|..++.+++|++|++++ +.++.++.  +.++++|++|++
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   72 (124)
T d1dcea3           1 RVLHLAHK----DLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD-NALENVDG--VANLPRLQELLL   72 (124)
T ss_dssp             SEEECTTS----CCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCS-SCCCCCGG--GTTCSSCCEEEC
T ss_pred             CEEEcCCC----CCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhccccccccc-ccccccCc--cccccccCeEEC
Confidence            68999999    7888875 8899999999999999999998899999999999999 88999875  899999999999


Q ss_pred             cCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318          113 LESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      .+|.+...            ..+..+..+++|+.++++++.....+
T Consensus        73 ~~N~i~~~------------~~~~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          73 CNNRLQQS------------AAIQPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             CSSCCCSS------------STTGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             CCCccCCC------------CCchhhcCCCCCCEEECCCCcCCcCc
Confidence            99987433            22355778899999999887765543

>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=2.9e-13  Score=107.38  Aligned_cols=115  Identities=17%  Similarity=0.140  Sum_probs=95.1

Q ss_pred             hhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCCEeeccccccCCCcChhhhcCCC
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLRYLNLERTYHLSRFPPELICSFS  105 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~  105 (366)
                      +.++..+++|++++|    .++.++..+..+++|++|++++|.++.++ .+..+++|++|++++ +.+..++..++..++
T Consensus        14 ~~n~~~lr~L~L~~n----~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~-N~i~~l~~~~~~~l~   87 (162)
T d1a9na_          14 YTNAVRDRELDLRGY----KIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNN-NRICRIGEGLDQALP   87 (162)
T ss_dssp             EECTTSCEEEECTTS----CCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCS-SCCCEECSCHHHHCT
T ss_pred             ccCcCcCcEEECCCC----CCCccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhccc-ccccCCCcccccccc
Confidence            668889999999999    88999876677999999999999999885 588899999999999 788888876567899


Q ss_pred             CCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc
Q 040318          106 KLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR  158 (366)
Q Consensus       106 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  158 (366)
                      +|++|++.+|.+...            .....+..+++|+.++++++.....+
T Consensus        88 ~L~~L~L~~N~i~~~------------~~l~~l~~l~~L~~L~l~~N~i~~~~  128 (162)
T d1a9na_          88 DLTELILTNNSLVEL------------GDLDPLASLKSLTYLCILRNPVTNKK  128 (162)
T ss_dssp             TCCEEECCSCCCCCG------------GGGGGGGGCTTCCEEECCSSGGGGST
T ss_pred             ccccceecccccccc------------ccccccccccccchhhcCCCcccccc
Confidence            999999999987332            22355778888999988887665543

>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=3.1e-12  Score=104.44  Aligned_cols=128  Identities=12%  Similarity=0.133  Sum_probs=90.9

Q ss_pred             cCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCc-cC-ccccccccCCEEeccCCCCccC-chhhhcCccCCE
Q 040318            8 IPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTE-LP-SGISSLVSLQHLDVSYTDIRGL-PHELTALLNLRY   84 (366)
Q Consensus         8 L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~-~~~~~l~~L~~L~l~~~~i~~l-~~~i~~l~~L~~   84 (366)
                      .+.++.++++++.+|..+   .+++++|++++|    .++. ++ ..+..+++|++|++++|.+..+ +..+..+++|++
T Consensus        10 ~~~v~Cs~~~L~~iP~~l---p~~l~~L~Ls~N----~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~   82 (192)
T d1w8aa_          10 GTTVDCTGRGLKEIPRDI---PLHTTELLLNDN----ELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQE   82 (192)
T ss_dssp             TTEEECTTSCCSSCCSCC---CTTCSEEECCSC----CCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCE
T ss_pred             CCEEEEeCCCcCccCCCC---CCCCCEEEeCCC----CCcccccccccCCCceEeeeeccccccccccccccccccccce
Confidence            456777777888887752   357888888888    6654 33 3456788888888888877754 345667788888


Q ss_pred             eeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           85 LNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        85 L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      |++++ +.+..++.+++.++++|++|++.+|.+...             .+.++..+++|+++.++++....
T Consensus        83 L~Ls~-N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i-------------~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_          83 LQLGE-NKIKEISNKMFLGLHQLKTLNLYDNQISCV-------------MPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             EECCS-CCCCEECSSSSTTCTTCCEEECCSSCCCEE-------------CTTSSTTCTTCCEEECTTCCBCC
T ss_pred             eeecc-ccccccCHHHHhCCCcccccccCCcccccc-------------CHHHhcCCccccccccccccccc
Confidence            88888 777777776677888888888888876322             23446677888888887766543

>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=99.28  E-value=2.7e-13  Score=111.37  Aligned_cols=130  Identities=12%  Similarity=0.103  Sum_probs=104.9

Q ss_pred             CCcCEEEccCC--CCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            6 SNIPSILELSS--NNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         6 ~~L~~L~l~~~--~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      ...+.+++.+.  .++.++.+ +..+++|++|++++|    .++.++. +..+++|++|++++|.++.+|.....+++|+
T Consensus        23 ~~~~~~~l~~~~~~i~~l~~s-l~~L~~L~~L~Ls~n----~I~~i~~-l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~   96 (198)
T d1m9la_          23 TEAEKVELHGMIPPIEKMDAT-LSTLKACKHLALSTN----NIEKISS-LSGMENLRILSLGRNLIKKIENLDAVADTLE   96 (198)
T ss_dssp             TTCSCEECCBCCTTCCCCHHH-HHHTTTCCEEECSEE----EESCCCC-HHHHTTCCEEECCEEEECSCSSHHHHHHHCC
T ss_pred             cccceeeeecccCchhhhhhH-HhcccccceeECccc----CCCCccc-ccCCccccChhhccccccccccccccccccc
Confidence            34566777754  35566666 889999999999999    7888864 8889999999999999998887777778899


Q ss_pred             EeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccchHHHHHhhcCCCCcceEEEEeccccc
Q 040318           84 YLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRG  156 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  156 (366)
                      +|++++ +.+..++.  +..+++|+.|++++|.+...            .....+..+++|+.|.++++....
T Consensus        97 ~L~l~~-N~i~~l~~--~~~l~~L~~L~L~~N~i~~~------------~~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_          97 ELWISY-NQIASLSG--IEKLVNLRVLYMSNNKITNW------------GEIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             EEECSE-EECCCHHH--HHHHHHSSEEEESEEECCCH------------HHHHHHTTTTTCSEEEECSSHHHH
T ss_pred             cccccc-cccccccc--ccccccccccccccchhccc------------cccccccCCCccceeecCCCcccc
Confidence            999999 78888765  88899999999999977322            334668889999999999876543

>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=99.23  E-value=9.4e-12  Score=101.52  Aligned_cols=107  Identities=16%  Similarity=0.157  Sum_probs=82.1

Q ss_pred             CCcCEEEccCCCCCc-cchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCch-hhhcCccC
Q 040318            6 SNIPSILELSSNNKV-FEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPH-ELTALLNL   82 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~-l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L   82 (366)
                      +++++|+|++|.+.. ++...|..+++|+.|++++|    .+..++ ..+..+++|++|++++|+++.+|. .+.++++|
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N----~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L  104 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRN----QLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQL  104 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSS----CCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTC
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeecccc----ccccccccccccccccceeeeccccccccCHHHHhCCCcc
Confidence            468888888888864 55556788888888888888    566654 456668888888888888887654 46778888


Q ss_pred             CEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           83 RYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        83 ~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      ++|+|++ +.++.++.+++..+++|++|++.+|.+
T Consensus       105 ~~L~L~~-N~l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_         105 KTLNLYD-NQISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CEEECCS-SCCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             cccccCC-ccccccCHHHhcCCccccccccccccc
Confidence            8888888 778888776677888888888888766

>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=99.23  E-value=3e-13  Score=111.06  Aligned_cols=106  Identities=17%  Similarity=0.230  Sum_probs=92.1

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCccccccccCCEEeccCCCCccCchhhhcCccCC
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPSGISSLVSLQHLDVSYTDIRGLPHELTALLNLR   83 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~~L~   83 (366)
                      .+++|+.|++++|.+.+++.  +..+++|++|++++|    .++.++.....+++|++|++++|.++.++ .+..+++|+
T Consensus        46 ~L~~L~~L~Ls~n~I~~i~~--l~~l~~L~~L~Ls~N----~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~  118 (198)
T d1m9la_          46 TLKACKHLALSTNNIEKISS--LSGMENLRILSLGRN----LIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLR  118 (198)
T ss_dssp             HTTTCCEEECSEEEESCCCC--HHHHTTCCEEECCEE----EECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSS
T ss_pred             cccccceeECcccCCCCccc--ccCCccccChhhccc----ccccccccccccccccccccccccccccc-ccccccccc
Confidence            47899999999999999865  889999999999999    88888875556778999999999998874 588899999


Q ss_pred             EeeccccccCCCcCh-hhhcCCCCCcEEEccCCCC
Q 040318           84 YLNLERTYHLSRFPP-ELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        84 ~L~L~~c~~~~~l~~-~~l~~l~~L~~L~l~~~~~  117 (366)
                      +|++++ +.+..++. ..+..+++|+.|++.+|.+
T Consensus       119 ~L~L~~-N~i~~~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         119 VLYMSN-NKITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             EEEESE-EECCCHHHHHHHTTTTTCSEEEECSSHH
T ss_pred             cccccc-chhccccccccccCCCccceeecCCCcc
Confidence            999999 78888763 3488999999999999865

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=5.4e-13  Score=123.39  Aligned_cols=107  Identities=13%  Similarity=0.116  Sum_probs=70.0

Q ss_pred             CCcCEEEccCCCCCccc-hhhhhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCcc-----Cch
Q 040318            6 SNIPSILELSSNNKVFE-PSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIRG-----LPH   74 (366)
Q Consensus         6 ~~L~~L~l~~~~~~~l~-~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~~-----l~~   74 (366)
                      ++|+.|+++++++++.. ..++..++++++|++++|    .++.     +...+..+++|++|++++|.++.     +..
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~----~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~   77 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDC----GLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQ   77 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESS----CCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHH
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCC----CCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHH
Confidence            46788888888887622 223667888888888888    4442     33445678888888888887752     111


Q ss_pred             hhh-cCccCCEeeccccccCCCcCh----hhhcCCCCCcEEEccCCCC
Q 040318           75 ELT-ALLNLRYLNLERTYHLSRFPP----ELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        75 ~i~-~l~~L~~L~L~~c~~~~~l~~----~~l~~l~~L~~L~l~~~~~  117 (366)
                      .+. ...+|++|++++| .+++...    ..+..+++|++|++.+|.+
T Consensus        78 ~l~~~~~~L~~L~L~~n-~it~~~~~~l~~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1          78 GLQTPSCKIQKLSLQNC-CLTGAGCGVLSSTLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             TTCSTTCCCCEEECTTS-CCBGGGHHHHHHHTTSCTTCCEEECCSSBC
T ss_pred             HHhcCCCCCCEEECCCC-Cccccccccccchhhccccccccccccccc
Confidence            222 2246888888884 4544221    2256778888888888764

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.07  E-value=4.5e-11  Score=106.59  Aligned_cols=250  Identities=14%  Similarity=0.111  Sum_probs=144.2

Q ss_pred             hhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCccC-----------chhhhcCccCCEeeccc
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIRGL-----------PHELTALLNLRYLNLER   89 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~~l-----------~~~i~~l~~L~~L~L~~   89 (366)
                      +.....|+.|++++|    .++.     +...+...++|+.|+++++.....           ...+..+++|++|++++
T Consensus        27 L~~~~~l~~L~Ls~n----~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~  102 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGN----TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSD  102 (344)
T ss_dssp             HHHCSCCCEEECTTS----EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCS
T ss_pred             HhhCCCCCEEECcCC----cCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccc
Confidence            566788888998888    4433     333456678888888887644321           12345577889999888


Q ss_pred             cccCCCcCh----hhhcCCCCCcEEEccCCCCCCccccccccccc-hHHHHHhhcCCCCcceEEEEeccccc--cccccc
Q 040318           90 TYHLSRFPP----ELICSFSKLEVLRMLESGADSTAEQGSVLSED-AEPLMKELLCLKLLNLISFSLYSSRG--VRNFLK  162 (366)
Q Consensus        90 c~~~~~l~~----~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~-~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~~  162 (366)
                       +.+.....    ..+..+++|++|++.+|.+.... ........ ...........+.|+.+.++.+....  ...+..
T Consensus       103 -n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~-~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~  180 (344)
T d2ca6a1         103 -NAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQA-GAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAK  180 (344)
T ss_dssp             -CCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHH-HHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHH
T ss_pred             -cccccccccchhhhhcccccchheecccccccccc-cccccccccccccccccccCcccceeecccccccccccccccc
Confidence             45444211    12556788999999888651100 00000000 00001112355778888887655432  222333


Q ss_pred             cccccccccEEEEeccCCCCcC--c-c--chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCC
Q 040318          163 FPKLLRITQALSISDCEIPLLN--V-S--HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRV  237 (366)
Q Consensus       163 ~~~~~~~L~~L~l~~~~~~~~~--~-~--~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l  237 (366)
                      .......++.|++..+...+..  . .  .+..+++|+.|++++|.+.+.+.....  .  ....+++|++|++++| .+
T Consensus       181 ~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         181 TFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA--I--ALKSWPNLRELGLNDC-LL  255 (344)
T ss_dssp             HHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH--H--HGGGCTTCCEEECTTC-CC
T ss_pred             hhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccccccccc--c--cccccccchhhhhhcC-cc
Confidence            3334456888888887652111  1 1  456778899999988877554322110  0  0046788999999999 56


Q ss_pred             ccc--c----ccc--CCCCccEEEEEccCCcccccccccccccccccccc-ccccccccccccccc
Q 040318          238 KDL--T----WLA--FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGEL-NFFAKLELLDLYHAE  294 (366)
Q Consensus       238 ~~l--~----~l~--~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~  294 (366)
                      ++-  .    .+.  ..+.|++|+|++|....+.+.        .+...+ ...++|++|++++..
T Consensus       256 ~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~--------~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         256 SARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVR--------TLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             CHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHH--------HHHHHHHHHCTTCCEEECTTSB
T ss_pred             CchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHH--------HHHHHHHccCCCCCEEECCCCc
Confidence            551  1    122  346799999998874333221        111233 257789999998743

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.01  E-value=1.2e-09  Score=85.39  Aligned_cols=108  Identities=14%  Similarity=0.022  Sum_probs=89.5

Q ss_pred             CCCCcCEEEccCCCCCccchhhhhcCCcccEEECCCCCCCCCcCccCc-cccccccCCEEeccCCCCccCc-hhhhcCcc
Q 040318            4 RYSNIPSILELSSNNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELPS-GISSLVSLQHLDVSYTDIRGLP-HELTALLN   81 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~-~~~~l~~L~~L~l~~~~i~~l~-~~i~~l~~   81 (366)
                      .|.....++..++++.+.|.. +..+++|++|+++++.   .++.++. .|..+++|+.|++++|+++.++ ..+..+++
T Consensus         6 ~c~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~---~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~   81 (156)
T d2ifga3           6 CPHGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQ---HLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPR   81 (156)
T ss_dssp             CCSSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCS---SCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSC
T ss_pred             CcCCCCeEEecCCCCccCccc-ccCccccCeeecCCCc---cccccCchhhccccccCcceeeccccCCccccccccccc
Confidence            455567788888888888877 7889999999998774   6888865 4788999999999999999774 46889999


Q ss_pred             CCEeeccccccCCCcChhhhcCCCCCcEEEccCCCC
Q 040318           82 LRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        82 L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~  117 (366)
                      |++|+|++ +.++.++.+++. ..+|++|++.+|.+
T Consensus        82 L~~L~Ls~-N~l~~l~~~~~~-~~~l~~L~L~~Np~  115 (156)
T d2ifga3          82 LSRLNLSF-NALESLSWKTVQ-GLSLQELVLSGNPL  115 (156)
T ss_dssp             CCEEECCS-SCCSCCCSTTTC-SCCCCEEECCSSCC
T ss_pred             ccceeccC-CCCcccChhhhc-cccccccccCCCcc
Confidence            99999999 889999987444 45799999999977

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.00  E-value=1.2e-10  Score=103.76  Aligned_cols=193  Identities=13%  Similarity=0.089  Sum_probs=83.6

Q ss_pred             ccccccCCEEeccCCCCc-----cCchhhhcCccCCEeeccccccCCCc----C------hhhhcCCCCCcEEEccCCCC
Q 040318           53 ISSLVSLQHLDVSYTDIR-----GLPHELTALLNLRYLNLERTYHLSRF----P------PELICSFSKLEVLRMLESGA  117 (366)
Q Consensus        53 ~~~l~~L~~L~l~~~~i~-----~l~~~i~~l~~L~~L~L~~c~~~~~l----~------~~~l~~l~~L~~L~l~~~~~  117 (366)
                      +.....|++|++++|.+.     .+...+...++|+.++++++ .....    +      ...+..+++|++|++++|.+
T Consensus        27 L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~-~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i  105 (344)
T d2ca6a1          27 LLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDI-FTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAF  105 (344)
T ss_dssp             HHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSC-CTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCC
T ss_pred             HhhCCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCC-cccccccccchHHHHHHHHHhhCCCccccccccccc
Confidence            444556666666666543     12223444556666666542 11110    0      01144456666666666644


Q ss_pred             CCccccccccccchHHHHHhhcCCCCcceEEEEeccccccc--cccc---------cccccccccEEEEeccCCCCcCcc
Q 040318          118 DSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSLYSSRGVR--NFLK---------FPKLLRITQALSISDCEIPLLNVS  186 (366)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~~---------~~~~~~~L~~L~l~~~~~~~~~~~  186 (366)
                      ...         ........+...++|+.|.++++......  .+..         .....+.|+.+.+.++........
T Consensus       106 ~~~---------~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~  176 (344)
T d2ca6a1         106 GPT---------AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMK  176 (344)
T ss_dssp             CTT---------THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHH
T ss_pred             ccc---------cccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccc
Confidence            211         12223344455566666666554432210  0000         001123455555554433111111


Q ss_pred             ----chhhhcccCceEecccccceeeccccCccccccccCCCCCcEEeEecCCCCcc-----c-ccccCCCCccEEEEEc
Q 040318          187 ----HLAYMEHLKDLVIDNSNLEELKTDCTGEVQKVLQCGFRSLHLASIAFCSRVKD-----L-TWLAFAPNLKIIVIMH  256 (366)
Q Consensus       187 ----~l~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p~~~~~~L~~L~l~~~~~l~~-----l-~~l~~l~~L~~L~L~~  256 (366)
                          .+..++.|+.|++..+++.+-+....- ..  ....+++|+.|++++| .+++     + ..+..+++|++|+|++
T Consensus       177 ~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l-~~--~l~~~~~L~~L~Ls~N-~i~~~g~~~L~~~l~~~~~L~~L~Ls~  252 (344)
T d2ca6a1         177 EWAKTFQSHRLLHTVKMVQNGIRPEGIEHLL-LE--GLAYCQELKVLDLQDN-TFTHLGSSALAIALKSWPNLRELGLND  252 (344)
T ss_dssp             HHHHHHHHCTTCCEEECCSSCCCHHHHHHHH-HT--TGGGCTTCCEEECCSS-CCHHHHHHHHHHHGGGCTTCCEEECTT
T ss_pred             cccchhhhhhhhcccccccccccccccccch-hh--hhcchhhhcccccccc-cccccccccccccccccccchhhhhhc
Confidence                234445666666655554332110000 00  0024556666666665 3332     1 1234556666666666


Q ss_pred             cCC
Q 040318          257 CDD  259 (366)
Q Consensus       257 c~~  259 (366)
                      |..
T Consensus       253 n~i  255 (344)
T d2ca6a1         253 CLL  255 (344)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            653

>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=98.91  E-value=1.2e-10  Score=107.28  Aligned_cols=296  Identities=16%  Similarity=0.114  Sum_probs=157.4

Q ss_pred             CCCCcCEEEccCCCCCccc----hhhhhcCCcccEEECCCCCCCCCcCc-----cCcccc-ccccCCEEeccCCCCcc--
Q 040318            4 RYSNIPSILELSSNNKVFE----PSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGIS-SLVSLQHLDVSYTDIRG--   71 (366)
Q Consensus         4 ~~~~L~~L~l~~~~~~~l~----~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~-~l~~L~~L~l~~~~i~~--   71 (366)
                      .++++++|+|++|++++..    ...+..+++|++||+++|    .++.     +...+. ...+|+.|++++|+++.  
T Consensus        25 ~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N----~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~  100 (460)
T d1z7xw1          25 LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN----ELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAG  100 (460)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC----CCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGG
T ss_pred             hCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC----cCChHHHHHHHHHHhcCCCCCCEEECCCCCccccc
Confidence            4678999999999887421    122678899999999998    5543     222222 23579999999998863  


Q ss_pred             ---CchhhhcCccCCEeeccccccCCCcC-----h----------------------------hhhcCCCCCcEEEccCC
Q 040318           72 ---LPHELTALLNLRYLNLERTYHLSRFP-----P----------------------------ELICSFSKLEVLRMLES  115 (366)
Q Consensus        72 ---l~~~i~~l~~L~~L~L~~c~~~~~l~-----~----------------------------~~l~~l~~L~~L~l~~~  115 (366)
                         ++..+..+++|++|++++| .+....     .                            ..+.....++.+.+..+
T Consensus       101 ~~~l~~~l~~~~~L~~L~L~~N-~i~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ls~~  179 (460)
T d1z7xw1         101 CGVLSSTLRTLPTLQELHLSDN-LLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNN  179 (460)
T ss_dssp             HHHHHHHTTSCTTCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSS
T ss_pred             cccccchhhccccccccccccc-cchhhhhhhhhhcccccccccccccccccccchhhhccccccccccccccccccccc
Confidence               3455677889999999873 332100     0                            00222344555555444


Q ss_pred             CCCCcc----------------cc------------------------------ccc-ccc--chHHHHHhhcCCCCcce
Q 040318          116 GADSTA----------------EQ------------------------------GSV-LSE--DAEPLMKELLCLKLLNL  146 (366)
Q Consensus       116 ~~~~~~----------------~~------------------------------~~~-~~~--~~~~~~~~l~~l~~L~~  146 (366)
                      ......                ..                              +.. ..+  ..............++.
T Consensus       180 ~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~n~~~~~~~~~~~~~~~~~~~~l~~  259 (460)
T d1z7xw1         180 DINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRT  259 (460)
T ss_dssp             BCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCE
T ss_pred             ccccccccccccccccccccccccccccccccchhhhcccccccccccccccchhhccccccccchhhcccccccccccc
Confidence            321000                00                              000 000  00112233445678999


Q ss_pred             EEEEeccccccc--cccccccccccccEEEEeccCCCCcCccch-----hhhcccCceEecccccceeeccccCcccccc
Q 040318          147 ISFSLYSSRGVR--NFLKFPKLLRITQALSISDCEIPLLNVSHL-----AYMEHLKDLVIDNSNLEELKTDCTGEVQKVL  219 (366)
Q Consensus       147 L~l~~~~~~~~~--~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l-----~~~~~L~~L~l~~~~l~~l~~~~~~~~~~~p  219 (366)
                      ++++++......  .........+.++.+++.++...+.....+     ...+.|+.+.+.++.+...+......    -
T Consensus       260 l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l~~~~l~~~~~~~l~~----~  335 (460)
T d1z7xw1         260 LWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSS----V  335 (460)
T ss_dssp             EECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHH----H
T ss_pred             cccccccccccccccccccccccccccccccccccccccccchhhccccccccccccccccccchhhhhhhhccc----c
Confidence            998876554321  111111223457777776655411000011     12346788888776554433221100    0


Q ss_pred             ccCCCCCcEEeEecCCCCcc-----cc-ccc-CCCCccEEEEEccCCccccccccccccccccccccccccccccccccc
Q 040318          220 QCGFRSLHLASIAFCSRVKD-----LT-WLA-FAPNLKIIVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYH  292 (366)
Q Consensus       220 ~~~~~~L~~L~l~~~~~l~~-----l~-~l~-~l~~L~~L~L~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  292 (366)
                      ....++|++|+++++ .+++     +. .+. ..+.|++|+|++|........        .+...+...++|++|++++
T Consensus       336 ~~~~~~L~~L~Ls~N-~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~--------~l~~~l~~~~~L~~L~Ls~  406 (460)
T d1z7xw1         336 LAQNRFLLELQISNN-RLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCS--------SLAATLLANHSLRELDLSN  406 (460)
T ss_dssp             HHHCSSCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHH--------HHHHHHHHCCCCCEEECCS
T ss_pred             cccccchhhhheeee-cccCcccchhhhhhhcccCCCCEEECCCCCCChHHHH--------HHHHHHhcCCCCCEEECCC
Confidence            024567888888888 4554     11 122 356788888888864332211        1112445668888888887


Q ss_pred             cccccc-----ccCCC-cCCCCccEEeccCCC
Q 040318          293 AENLKS-----IYQGA-LPLPQLKEIRVTQCP  318 (366)
Q Consensus       293 ~~~l~~-----~~~~~-~~~~~L~~L~l~~c~  318 (366)
                      .. +++     +.... ..-..|+.|++.++.
T Consensus       407 N~-i~~~g~~~l~~~l~~~~~~L~~l~l~~~~  437 (460)
T d1z7xw1         407 NC-LGDAGILQLVESVRQPGCLLEQLVLYDIY  437 (460)
T ss_dssp             SS-CCHHHHHHHHHHHTSTTCCCCEEECTTCC
T ss_pred             Cc-CCHHHHHHHHHHHHhCCCccCEEECCCCC
Confidence            53 322     11111 122368888887753

>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=98.83  E-value=6.7e-09  Score=81.06  Aligned_cols=86  Identities=16%  Similarity=0.103  Sum_probs=74.7

Q ss_pred             CCCCCcCEEEccCC-CCCccchhhhhcCCcccEEECCCCCCCCCcCccC-ccccccccCCEEeccCCCCccCchhhhcCc
Q 040318            3 IRYSNIPSILELSS-NNKVFEPSWFLSRASWTCLDNGPSRIKNSLTELP-SGISSLVSLQHLDVSYTDIRGLPHELTALL   80 (366)
Q Consensus         3 ~~~~~L~~L~l~~~-~~~~l~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~~~~~l~~L~~L~l~~~~i~~l~~~i~~l~   80 (366)
                      ..+++|+.|.+.++ .++.++...|.++++|+.|++++|    .++.++ ..+..+++|++|+|++|+++.+|..+....
T Consensus        28 ~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N----~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~  103 (156)
T d2ifga3          28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS----GLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGL  103 (156)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS----CCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSC
T ss_pred             cCccccCeeecCCCccccccCchhhccccccCcceeecc----ccCCcccccccccccccceeccCCCCcccChhhhccc
Confidence            36789999999876 488998888999999999999999    888885 457889999999999999999988776667


Q ss_pred             cCCEeeccccccC
Q 040318           81 NLRYLNLERTYHL   93 (366)
Q Consensus        81 ~L~~L~L~~c~~~   93 (366)
                      +|+.|+|++ +.+
T Consensus       104 ~l~~L~L~~-Np~  115 (156)
T d2ifga3         104 SLQELVLSG-NPL  115 (156)
T ss_dssp             CCCEEECCS-SCC
T ss_pred             cccccccCC-Ccc
Confidence            899999998 544

>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=97.95  E-value=1.7e-06  Score=67.46  Aligned_cols=84  Identities=20%  Similarity=0.108  Sum_probs=61.6

Q ss_pred             hhhhhcCCcccEEECCCCCCCCCcCccC---ccccccccCCEEeccCCCCccCch-hhhcCccCCEeeccccccCCCcC-
Q 040318           23 PSWFLSRASWTCLDNGPSRIKNSLTELP---SGISSLVSLQHLDVSYTDIRGLPH-ELTALLNLRYLNLERTYHLSRFP-   97 (366)
Q Consensus        23 ~~~~~~~~~L~~L~l~~~~~~~~~~~l~---~~~~~l~~L~~L~l~~~~i~~l~~-~i~~l~~L~~L~L~~c~~~~~l~-   97 (366)
                      ..++..+++|++|++++|    .++.++   ..+..+++|+.|++++|.++.++. ......+|+.+++++ +.+.... 
T Consensus        58 ~~~~~~~~~L~~L~Ls~N----~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~-Npl~~~~~  132 (162)
T d1koha1          58 RIIEENIPELLSLNLSNN----RLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDG-NSLSDTFR  132 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSS----CCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTT-STTSSSSS
T ss_pred             HHHHHhCCCCCEeeCCCc----cccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCC-CCcCcCcc
Confidence            334678999999999999    667654   335678999999999999987765 223345789999998 5554322 


Q ss_pred             ------hhhhcCCCCCcEEE
Q 040318           98 ------PELICSFSKLEVLR  111 (366)
Q Consensus        98 ------~~~l~~l~~L~~L~  111 (366)
                            ..++..+++|+.||
T Consensus       133 ~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         133 DQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             SHHHHHHHHHTTSTTCCEET
T ss_pred             cchhHHHHHHHHCCCCCEEC
Confidence                  13366789999887

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.84  E-value=7.7e-07  Score=69.46  Aligned_cols=88  Identities=18%  Similarity=0.068  Sum_probs=58.2

Q ss_pred             cccccCCEEeccCCCCccCc---hhhhcCccCCEeeccccccCCCcChhhhcCCCCCcEEEccCCCCCCccccccccccc
Q 040318           54 SSLVSLQHLDVSYTDIRGLP---HELTALLNLRYLNLERTYHLSRFPPELICSFSKLEVLRMLESGADSTAEQGSVLSED  130 (366)
Q Consensus        54 ~~l~~L~~L~l~~~~i~~l~---~~i~~l~~L~~L~L~~c~~~~~l~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  130 (366)
                      ..+++|++|++++|+++.++   ..+..+++|+.|++++ +.+.+++.-......+|+.|++.+|.+....      .+.
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~-N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~------~~~  134 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG-NELKSERELDKIKGLKLEELWLDGNSLSDTF------RDQ  134 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTT-SCCCCGGGHHHHTTCCCSSCCCTTSTTSSSS------SSH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCccccccccc-CccccchhhhhhhccccceeecCCCCcCcCc------ccc
Confidence            45788999999999887653   3467788899999988 7888776522344557888888888763210      011


Q ss_pred             hHHHHHhhcCCCCcceEE
Q 040318          131 AEPLMKELLCLKLLNLIS  148 (366)
Q Consensus       131 ~~~~~~~l~~l~~L~~L~  148 (366)
                      .......+..+++|+.|+
T Consensus       135 ~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         135 STYISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHHHHTTSTTCCEET
T ss_pred             hhHHHHHHHHCCCCCEEC
Confidence            122334455667777664

>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=97.56  E-value=6.4e-05  Score=58.42  Aligned_cols=60  Identities=17%  Similarity=0.179  Sum_probs=26.3

Q ss_pred             ccccCCEEeccCCCCc-----cCchhhhcCccCCEeeccccccCCC-----cChhhhcCCCCCcEEEccCCC
Q 040318           55 SLVSLQHLDVSYTDIR-----GLPHELTALLNLRYLNLERTYHLSR-----FPPELICSFSKLEVLRMLESG  116 (366)
Q Consensus        55 ~l~~L~~L~l~~~~i~-----~l~~~i~~l~~L~~L~L~~c~~~~~-----l~~~~l~~l~~L~~L~l~~~~  116 (366)
                      ..+.|+.|++++|.+.     .+...+...+.|++|++++ +.++.     +.. ++...+.|++|++.++.
T Consensus        42 ~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~-n~i~~~g~~~l~~-aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          42 NSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVES-NFLTPELLARLLR-STLVTQSIVEFKADNQR  111 (167)
T ss_dssp             TCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCS-SBCCHHHHHHHHH-HTTTTCCCSEEECCCCS
T ss_pred             hCCccceeeccccccchhHHHHHhhhhhhcccccceeeeh-hhcchHHHHHHHH-HHHhCCcCCEEECCCCc
Confidence            3444555555555443     1222333444555555555 23332     111 13444555555555543

>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=97.44  E-value=0.00011  Score=57.04  Aligned_cols=106  Identities=9%  Similarity=-0.017  Sum_probs=68.7

Q ss_pred             CCCCcCEEEccCC-CCCc-----cchhhhhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCcc-
Q 040318            4 RYSNIPSILELSS-NNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIRG-   71 (366)
Q Consensus         4 ~~~~L~~L~l~~~-~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~~-   71 (366)
                      +.++|+.|+|+++ .+..     +... +...+.|++|++++|    .++.     +...+...+.|++|++++|.++. 
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~-L~~n~~L~~L~Ls~n----~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~   87 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEA-ACNSKHIEKFSLANT----AISDSEARGLIELIETSPSLRVLNVESNFLTPE   87 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHH-HTTCSCCCEEECTTS----CCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHH-HhhCCccceeecccc----ccchhHHHHHhhhhhhcccccceeeehhhcchH
Confidence            4688899999864 4543     2222 556778999999988    4443     22234556789999999987762 


Q ss_pred             ----CchhhhcCccCCEeeccccccCCCcCh-------hhhcCCCCCcEEEccCC
Q 040318           72 ----LPHELTALLNLRYLNLERTYHLSRFPP-------ELICSFSKLEVLRMLES  115 (366)
Q Consensus        72 ----l~~~i~~l~~L~~L~L~~c~~~~~l~~-------~~l~~l~~L~~L~l~~~  115 (366)
                          +-..+...+.|++|++++ +....+..       .++...+.|++|++..+
T Consensus        88 g~~~l~~aL~~n~sL~~L~l~~-n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          88 LLARLLRSTLVTQSIVEFKADN-QRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHHHHHHTTTTCCCSEEECCC-CSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHHHhCCcCCEEECCC-CcCCCccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence                334566677899999877 44333321       12445677778877655

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.12  E-value=0.00019  Score=55.50  Aligned_cols=112  Identities=13%  Similarity=0.069  Sum_probs=56.6

Q ss_pred             hhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCc-----cCchhhhcCccCCEeeccccccCCC
Q 040318           26 FLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIR-----GLPHELTALLNLRYLNLERTYHLSR   95 (366)
Q Consensus        26 ~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~-----~l~~~i~~l~~L~~L~L~~c~~~~~   95 (366)
                      ..+.+.|++|+++++.   .++.     +...+...++|++|++++|.++     .+-..+.....++.+++++| .+..
T Consensus        13 ~~~~~~L~~L~L~~~~---~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~-~~~~   88 (166)
T d1io0a_          13 QNNDPDLEEVNLNNIM---NIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISG   88 (166)
T ss_dssp             HTTCTTCCEEECTTCT---TCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCH
T ss_pred             HhcCCCCcEEEcCCCC---CCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccc-cccc
Confidence            4556677777776642   3332     2223445666777777777655     22234455566777777663 3321


Q ss_pred             -----cChhhhcCCCCCcEEEccCC--CCCCccccccccccchHHHHHhhcCCCCcceEEEEe
Q 040318           96 -----FPPELICSFSKLEVLRMLES--GADSTAEQGSVLSEDAEPLMKELLCLKLLNLISFSL  151 (366)
Q Consensus        96 -----l~~~~l~~l~~L~~L~l~~~--~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~  151 (366)
                           +.. .+...++|+.+++..+  .+.         .+....+...+...+.|+.|++..
T Consensus        89 ~g~~~l~~-~l~~~~~L~~l~L~l~~n~i~---------~~~~~~La~~L~~n~~L~~L~l~~  141 (166)
T d1io0a_          89 SGILALVE-ALQSNTSLIELRIDNQSQPLG---------NNVEMEIANMLEKNTTLLKFGYHF  141 (166)
T ss_dssp             HHHHHHHH-GGGGCSSCCEEECCCCSSCCC---------HHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             hhHHHHHH-HHHhCccccEEeeccCCCcCc---------HHHHHHHHHHHHhCCCcCEEeCcC
Confidence                 112 2455566766555432  220         001122334455566666666643

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.01  E-value=0.00038  Score=53.68  Aligned_cols=107  Identities=12%  Similarity=0.055  Sum_probs=76.3

Q ss_pred             CCCCcCEEEccC-CCCCc-----cchhhhhcCCcccEEECCCCCCCCCcCc-----cCccccccccCCEEeccCCCCc--
Q 040318            4 RYSNIPSILELS-SNNKV-----FEPSWFLSRASWTCLDNGPSRIKNSLTE-----LPSGISSLVSLQHLDVSYTDIR--   70 (366)
Q Consensus         4 ~~~~L~~L~l~~-~~~~~-----l~~~~~~~~~~L~~L~l~~~~~~~~~~~-----l~~~~~~l~~L~~L~l~~~~i~--   70 (366)
                      +.+.|+.|++.+ +.+..     +... +...++|++|++++|    .++.     +-..+...+.++.+++++|.+.  
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~a-l~~n~~L~~L~Ls~n----~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~   89 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEA-LKTNTYVKKFSIVGT----RSNDPVAFALAEMLKVNNTLKSLNVESNFISGS   89 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHH-HTTCCSCCEEECTTS----CCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHH-HhcCCccCeeeccCC----cccHHHHHHHHHHHhhcccchhhhhccccccch
Confidence            578999999997 45653     2222 557899999999999    5543     2234566789999999999776  


Q ss_pred             ---cCchhhhcCccCCEeecccc-ccCCC-----cChhhhcCCCCCcEEEccCCC
Q 040318           71 ---GLPHELTALLNLRYLNLERT-YHLSR-----FPPELICSFSKLEVLRMLESG  116 (366)
Q Consensus        71 ---~l~~~i~~l~~L~~L~L~~c-~~~~~-----l~~~~l~~l~~L~~L~l~~~~  116 (366)
                         .+...+...++|+.++|..+ +.+.+     +.. ++...++|++|++..+.
T Consensus        90 g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~-~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          90 GILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIAN-MLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHH-HHHHCSSCCEEECCCSS
T ss_pred             hHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHH-HHHhCCCcCEEeCcCCC
Confidence               33456677889998777543 34443     333 36678999999997764