Citrus Sinensis ID: 044144

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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------
Protein Sequence
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQPPCRWK
Secondary Structure (PSIPRED)
ccccccEEEEccccccccccccccccccccccEEEEEcccccEEEccccccccccccccccEEEEEccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEcccccEEEEccccccccccHHccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccEEccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccEEcccccccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHEEHHHcccccHHHHHcccccccccEEEEEEcccccEEEEcccccccccccccHcEEEEcccHcHHHHcccccccccccccEEEEEEccccccEEEcHHHHccccEEEccHHHHHHHHHccccccccccEEEcccccEEEccccHHHHHHHHcccccccccEEEccccHHEEEccccccEEcccccccccccccccccEEEEcccccEEEEccccccccccccccccEEEEEEcccccHHEccHHHHHHHHHHcEEEEcccHHHHHEEccccccccccEEEcccccEEEEcccccccEcccccccccccccEEEEEEccccEEEEcccccccccccEEEEcccccccccc
Coil and Loop (DISEMBL)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWvqnnpdffcivdsramvacdaFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAyncdklsniFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLslgnlpevtsfcrevktpsaspnrpasqeestttyssseitldtstllfnekvalpnleaLEISAINVdkiwhynqipaavfprfqNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISenradevipyfvfpqLTTLILQYlpklrclypgmhtsewpaleifSVFRCDKLKIFAADLsqnnendqlgipaqqppcrwk
Flexible Loop (DISEMBL)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVktpsaspnrpasqeestttyssseiTLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLsqnnendqlgipaqqppcrwk
Low Complexity Region (SEG)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLstvvnhsstvvncsKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPAsqeestttyssseITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQPPCRWK
Disordered region (IsUnstruct)
***NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCR***************************TLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADL*********************
Disordered Region (DISOPRED)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQE**************VFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKI******************QQPPCRWK
Disordered Region (DISEMBL)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCRE*************************ITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPA********
Disordered Region (DISPRO)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQP***W*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
GINNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQPPCRWK
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	356	2.2.26 [Sep-21-2011]
O81825	919	Probable disease resistan	yes	no	0.348	0.134	0.328	9e-07
Q42484	909	Disease resistance protei	no	no	0.578	0.226	0.232	3e-05
O64973	889	Disease resistance protei	no	no	0.317	0.127	0.314	0.0001

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

 Score = 55.1 bits (131), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 43/131 (32%), Positives = 67/131 (51%), Gaps = 7/131 (5%)

Query: 201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMI-GSLKHL 259
           PNLE L +  +N++ I   N        R Q L  L V  C +LK +FS  ++ G+L +L
Sbjct: 768 PNLEELSLDNVNLESIGELNGFLGM---RLQKLKLLQVSGCRQLKRLFSDQILAGTLPNL 824

Query: 260 QHLEVRFCEDLQEIISENRAD-EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALE 318
           Q ++V  C  L+E+ + +    +     + P+LT + L+YLP+LR L       E  +LE
Sbjct: 825 QEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIKLKYLPQLRSLCNDRVVLE--SLE 882

Query: 319 IFSVFRCDKLK 329
              V  C+ LK
Sbjct: 883 HLEVESCESLK 893

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

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

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 54/232 (23%), Positives = 108/232 (46%), Gaps = 26/232 (11%)

Query: 99  SNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCR 158
           +++ +L  +     TV++   +K +F  G  +   I+ + + +   L   NLP +T+  R
Sbjct: 659 ADLEYLENLTTLGITVLSLETLKTLFEFGA-LHKHIQHLHVEECNELLYFNLPSLTNHGR 717

Query: 159 EVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAI-NVDKIW 217
            ++  S                S  ++    +   F E   LP+LE L + ++ N+ ++W
Sbjct: 718 NLRRLSIK--------------SCHDLEYLVTPADF-ENDWLPSLEVLTLHSLHNLTRVW 762

Query: 218 HYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN 277
             N +        +N+  + + HCNKLK +   S +  L  L+ +E+  C +++E+ISE+
Sbjct: 763 G-NSVSQDCL---RNIRCINISHCNKLKNV---SWVQKLPKLEVIELFDCREIEELISEH 815

Query: 278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLK 329
            +  V    +FP L TL  + LP+L  + P   +  +  +E   +  C ++K
Sbjct: 816 ESPSVEDPTLFPSLKTLRTRDLPELNSILPSRFS--FQKVETLVITNCPRVK 865

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 47.8 bits (112), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 65/121 (53%), Gaps = 8/121 (6%)

Query: 228 PRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFV 287
           P F NL+R+ +  C+ LK +   + +    +L  LEV F +++++IISE +A+E     V
Sbjct: 742 PCFSNLSRVFIAKCHGLKDL---TWLLFAPNLTFLEVGFSKEVEDIISEEKAEEHSATIV 798

Query: 288 -FPQLTTLILQYLPKLRCLYP-GMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLG 345
            F +L TL L  L  L+ +Y   +H   +P L++  V +C+KL+    D       ++L 
Sbjct: 799 PFRKLETLHLFELRGLKRIYAKALH---FPCLKVIHVEKCEKLRKLPLDSKSGIAGEELV 855

Query: 346 I 346
           I
Sbjct: 856 I 856

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)

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	356
224110992	2359	cc-nbs-lrr resistance protein [Populus t	0.943	0.142	0.377	7e-47
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.957	0.259	0.356	1e-41
255563252	1603	Disease resistance protein RPS5, putativ	0.918	0.203	0.360	2e-40
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.898	0.238	0.367	4e-40
296087872	1152	unnamed protein product [Vitis vinifera]	0.904	0.279	0.323	6e-40
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.929	0.247	0.353	1e-38
224083434	1144	cc-nbs-lrr resistance protein [Populus t	0.814	0.253	0.376	8e-38
353685492	2756	Rpp4C3 [Phaseolus vulgaris]	0.876	0.113	0.358	3e-37
357439641	1261	Cc-nbs resistance protein, partial [Medi	0.797	0.225	0.352	2e-34
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.910	0.131	0.355	2e-34

>gi|224110992|ref|XP_002332999.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834484|gb|EEE72961.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  194 bits (492), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 133/352 (37%), Positives = 204/352 (57%), Gaps = 16/352 (4%)

Query: 2    INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLE 61
            +N  E L+L +++G+ N++  LD EGF  LK L ++N+ +   I+ +  MV+ +AFP+LE
Sbjct: 730  LNRTEDLYLFEIEGV-NIIQELDREGFPHLKHLQLRNSFEIQYIISTMEMVSSNAFPILE 788

Query: 62   SLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSS----TVVNC 117
            SLIL++L ++++I    L+VESF +L+II   +C+KL+N+F        S      +  C
Sbjct: 789  SLILYDLSSLKKICHGALRVESFAKLRIIAVEHCNKLTNLFSFFVARGLSQLQKIKIAFC 848

Query: 118  SKMKEIFA-----IGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPA- 171
             KM+E+ A     +G++ +  ++ I+  QL  LSL  LP + +F  +VK  S S  +P  
Sbjct: 849  MKMEEVVAEESDELGDQ-NEVVDVIQFTQLYSLSLQYLPHLMNFYSKVKPSSLSRTQPKP 907

Query: 172  SQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQ 231
            S  E+ +    SE  L T T LFNEK+  PNLE L + AIN+DK+W+ +Q P ++    Q
Sbjct: 908  SITEARSEEIISEDELRTPTQLFNEKILFPNLEDLNLYAINIDKLWN-DQHP-SISVSIQ 965

Query: 232  NLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS-ENRADEVIPYFVFPQ 290
            NL RL+V  C  LKY+F +S++  L  L+HL +  C  ++EII+     +E     VFP+
Sbjct: 966  NLQRLVVNQCGSLKYLFPSSLVNILVQLKHLSITNCMSVEEIIAIGGLKEEETTSTVFPK 1025

Query: 291  LTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNEND 342
            L  + L  LPKLR    G  + E P L+   +  C + K FAAD S  N ND
Sbjct: 1026 LEFMELSDLPKLRRFCIG-SSIECPLLKRMRICACPEFKTFAADFSCANIND 1076

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111296|ref|XP_002332952.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834264|gb|EEE72741.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  176 bits (447), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 131/367 (35%), Positives = 198/367 (53%), Gaps = 26/367 (7%)

Query: 1    GINNV----ECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDA 56
            G+N +    E L L +L G++++L +LD EGF QL+ L VQN P    I++S  M    A
Sbjct: 732  GVNTLLKITEELHLQELNGVKSILNDLDGEGFPQLRHLHVQNCPGVQYIINSIRMGPRTA 791

Query: 57   FPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST----VVNHSS 112
            F  L+SL L NL N+E+I   QL  ES   L+I++  +C +L N+F +S     V     
Sbjct: 792  FLNLDSLFLENLDNLEKICHGQLMAESLGNLRILKVESCHRLKNLFSVSMARRLVRLEEI 851

Query: 113  TVVNCSKMKEIFAIGEEVDNSIEK--IELAQLRYLSLGNLPEVTSFCREVKTPSASPNRP 170
            T+++C  M+E+ A   E D +  +  IE  QLR L+L  LP+ TSF   V+  S S  R 
Sbjct: 852  TIIDCKIMEEVVAEESENDAADGEPIIEFTQLRRLTLQCLPQFTSFHSNVEESSDSQRRQ 911

Query: 171  ---ASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVF 227
               AS+  S    + +E  L TS  LFN K+  PNLE L++S+I V+KIWH    P+   
Sbjct: 912  KLLASEARSKEIVAGNE--LGTSMSLFNTKILFPNLEDLKLSSIKVEKIWHDQ--PSVQS 967

Query: 228  PRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE--VIPY 285
            P  +NL  + V +C  L Y+ ++SM+ SL  L+ LE+  C+ ++EI+      E  ++  
Sbjct: 968  PCVKNLASIAVENCRNLNYLLTSSMVESLAQLKKLEICNCKSMEEIVVPEDIGEGKMMSK 1027

Query: 286  FVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLG 345
             +FP+L  L L  LPKL   +   +  E  +L++ +V  C +LK F +  S  +      
Sbjct: 1028 MLFPKLLILSLIRLPKL-TRFCTSNLLECHSLKVLTVGNCPELKEFISIPSSAD------ 1080

Query: 346  IPAQQPP 352
            +PA   P
Sbjct: 1081 VPAMSKP 1087

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563252|ref|XP_002522629.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223538105|gb|EEF39716.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  172 bits (437), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 127/352 (36%), Positives = 194/352 (55%), Gaps = 25/352 (7%)

Query: 5    VECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLI 64
             E L+L +++GI++VL++LD++GF+QLK L VQN+P+   I+D      C+AFP+LESL 
Sbjct: 746  TEDLYLAEVKGIKSVLYDLDSQGFTQLKHLDVQNDPEIQYIIDPNRRSPCNAFPILESLY 805

Query: 65   LHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVN----HSSTVVNCSKM 120
            L NL+++E+I   +L   SF++L+ +    CD+L N+F  S +          VV+C+ +
Sbjct: 806  LDNLMSLEKICCGKLTTGSFSKLRSLTVVKCDRLKNLFSFSMMRCLLQLQQMKVVDCANL 865

Query: 121  KEIFAIG-EEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTT 179
            +EI A G E+ DN  E ++L QL  L+L  LP   SFC + K    SP     Q++ TT 
Sbjct: 866  EEIVACGSEDTDNDYEAVKLTQLCSLTLKRLPMFKSFCSKKKV---SPISLRVQKQLTTD 922

Query: 180  YSSSEIT----LDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTR 235
                EI     L     LFNE    PNLE LE+S+I  +KI   +Q+ A       NL  
Sbjct: 923  TGLKEIAPKGELGDPLPLFNEMFCFPNLENLELSSIACEKICD-DQLSAIS----SNLMS 977

Query: 236  LIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEII--SENRADEVIPYFVFPQLTT 293
            LIV  C  LKY+F++S++ +L  L+ LEV  C  ++ II   E   +E     +FP+L  
Sbjct: 978  LIVERCWNLKYLFTSSLVKNLLLLKRLEVFDCMSVEGIIVAEELVEEERNRKKLFPELDF 1037

Query: 294  LILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIF-----AADLSQNNE 340
            L L+ LP +     G +  E+ +L    +  C  L +F     +AD+ ++ E
Sbjct: 1038 LKLKNLPHITRFCDG-YPVEFSSLRKLLIENCPALNMFVSKSPSADMIESRE 1088

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111284|ref|XP_002332949.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834261|gb|EEE72738.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  171 bits (434), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 124/337 (36%), Positives = 186/337 (55%), Gaps = 17/337 (5%)

Query: 2    INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLE 61
            + + E L L +L+G++++L +LD E F +LK L VQN P    I++S  M    AF  L+
Sbjct: 737  LKSTEELHLQELKGVKSILNDLDGEDFPRLKHLHVQNCPGVQYIINSIRMGPRTAFLNLD 796

Query: 62   SLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST----VVNHSSTVVNC 117
            SL L NL N+E+I   QL  ES  +L+I++  +C +L N+F +S     V     T+++C
Sbjct: 797  SLFLENLDNLEKICHGQLMAESLGKLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDC 856

Query: 118  SKMKEIFAIGEEVDNS-IEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEES 176
              M+E+ A   E D +  E IE AQLR L+L  LP+ TSF       +      AS   S
Sbjct: 857  KIMEEVVAEESENDTADGEPIEFAQLRRLTLQCLPQFTSF-----HSNRRQKLLASDVRS 911

Query: 177  TTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRL 236
                + +E  L TS  LFN K+  PNLE L++S+I V+KIWH    PA   P  +NL  +
Sbjct: 912  KEIVAGNE--LGTSMSLFNTKILFPNLEDLKLSSIKVEKIWHDQ--PAVQPPCVKNLASM 967

Query: 237  IVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE--VIPYFVFPQLTTL 294
            +V  C+ L Y+ ++SM+ SL  L+ LE+  CE ++EI+      E  ++   +FP+L  L
Sbjct: 968  VVESCSNLNYLLTSSMVESLAQLERLEICNCESMEEIVVPEGIGEGKMMSKMLFPKLHLL 1027

Query: 295  ILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIF 331
             L  LPKL   +   +  E  +L++  V  C +LK F
Sbjct: 1028 ELSGLPKL-TRFCTSNLLECHSLKVLMVGNCPELKEF 1063

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087872|emb|CBI35155.3| unnamed protein product [Vitis vinifera]

 Score =  171 bits (433), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 121/374 (32%), Positives = 190/374 (50%), Gaps = 52/374 (13%)

Query: 8   LWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSR-AMVACDAFPLLESLILH 66
           L L +L G  NV   LD EGF QLK L V+ +P+   I++S   +++  AFP+LESL L+
Sbjct: 567 LHLRELSGAANVFPKLDREGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLN 626

Query: 67  NLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSS----TVVNCSKMKE 122
            LIN++ +   QL V SF+ L+I++   CD L  +F +S     S      +  C  M +
Sbjct: 627 QLINLQEVCHGQLLVGSFSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYK 686

Query: 123 IFAIG-EEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKT-PSASPNRPASQEESTTTY 180
           + A G E+ D++++ I  A+LRYL+L +LP++ +FC E KT PS +   P +        
Sbjct: 687 MVAQGKEDGDDAVDAILFAELRYLTLQHLPKLRNFCLEGKTMPSTTKRSPTTNVRFNGIC 746

Query: 181 SSSEITLDTSTLLFNEKVALPNL-------------------------EALEISAINVDK 215
           S  E  LD  T +FN+ V   ++                         E  ++  INV +
Sbjct: 747 SEGE--LDNQTSVFNQLVCHSSIILSNYMLKRLQSLQFLKAVDCSSLEEVFDMEGINVKE 804

Query: 216 IWHYNQIPAAVF-------------PR----FQNLTRLIVWHCNKLKYIFSASMIGSLKH 258
                Q+   +              PR    FQNL  +++  C  LK +F AS++  L  
Sbjct: 805 AVAVTQLSKLILQFLPKVKQIWNKEPRGILTFQNLKSVMIDQCQSLKNLFPASLVRDLVQ 864

Query: 259 LQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALE 318
           LQ L+V  C  ++ I++++   +    FVFP++T+L L +L +LR  YPG HTS+WP L+
Sbjct: 865 LQELQVWSC-GIEVIVAKDNGVKTAAKFVFPKVTSLRLSHLHQLRSFYPGAHTSQWPLLK 923

Query: 319 IFSVFRCDKLKIFA 332
              V  C ++ +FA
Sbjct: 924 ELKVHECPEVDLFA 937

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143316|ref|XP_002336027.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222838884|gb|EEE77235.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  166 bits (420), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 125/354 (35%), Positives = 188/354 (53%), Gaps = 23/354 (6%)

Query: 6    ECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLIL 65
            E L L +L G++++L +LD EGF QLK L VQN P    I++S  M    AF  L+SL L
Sbjct: 741  EELHLQELNGVKSILNDLDEEGFCQLKDLHVQNCPGVQYIINSMRMGPRTAFLNLDSLFL 800

Query: 66   HNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLS----TVVNHSSTVVNCSKMK 121
             NL N+E+I   QL  ES   L+I++  +C +L N+F +S     V     T+++C  M+
Sbjct: 801  ENLDNLEKICHGQLMAESLGNLRILKVESCHRLKNLFSVSIARRVVRLEEITIIDCKIME 860

Query: 122  EIFAIGEEVDNS-IEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTY 180
            E+ A   E D +  E IE  QLR L+L  LP+ TSF       +      AS   S    
Sbjct: 861  EVVAEESENDTADGEPIEFTQLRRLTLQCLPQFTSF-----HSNRRQKLLASDVRSKEIV 915

Query: 181  SSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWH 240
            + +E  L TS  LFN K+  P LE L +S+I V+KIWH     A   P  +NL  ++V  
Sbjct: 916  AGNE--LGTSMSLFNTKILFPKLEDLMLSSIKVEKIWHDQH--AVQPPCVKNLASIVVES 971

Query: 241  CNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE--VIPYFVFPQLTTLILQY 298
            C+ L Y+ ++SM+ SL  L+ LE+  C+ ++EI+      E  ++   +FP+L  L L  
Sbjct: 972  CSNLNYLLTSSMVESLAQLKSLEICNCKSMEEIVVPEGIGEGKMMSKMLFPKLHILSLIR 1031

Query: 299  LPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQPP 352
            LPKL   +   +  E  +L++ ++ +C +LK F +  S  +      +PA   P
Sbjct: 1032 LPKL-TRFCTSNLLECHSLKVLTLGKCPELKEFISIPSSAD------VPAMSKP 1078

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083434|ref|XP_002307025.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222856474|gb|EEE94021.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  164 bits (414), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 117/311 (37%), Positives = 173/311 (55%), Gaps = 21/311 (6%)

Query: 8    LWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHN 67
            L+L +L+G+ NV+  LDTEGF QL+ L + N+ D   I+++ +      FP+LESL L+N
Sbjct: 747  LYLLELKGVNNVVSELDTEGFLQLRHLHLHNSSDIQYIINTSSEFPSHVFPVLESLFLYN 806

Query: 68   LINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSS----TVVNCSKMKEI 123
            L+++E++    L  ESF +L II+  NC KL ++F  S     S      +  C  M+E+
Sbjct: 807  LVSLEKLCHGILTAESFRKLTIIEVGNCVKLKHLFPFSVARGLSQLQTINISFCLTMEEV 866

Query: 124  FA-IGEEVDNS---IEKIELAQLRYLSLGNLPEVTSFCREVKTP---SASPNRPASQEES 176
             A  G+E ++S   I+ +E  QL  LSL  LP + +FC   KT     A  N  A    +
Sbjct: 867  VAEEGDEFEDSCTEIDVMEFNQLSSLSLQCLPHLKNFCSREKTSRLCQAQLNPVA----T 922

Query: 177  TTTYSSSEITLDTST---LLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNL 233
            +    S EI+ D       LF EK+ +P L+ LE+ +INV+KIWH        FP  QNL
Sbjct: 923  SVGLQSKEISEDEPRNPLQLFCEKILIPKLKKLELVSINVEKIWHGQLHRENTFP-VQNL 981

Query: 234  TRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD--EVIPYFVFPQL 291
              L V  C+ LKY+FS SM+ SL  L++L VR C+ ++EIIS    +  E++    F +L
Sbjct: 982  QTLYVDDCHSLKYLFSPSMVKSLVQLKYLTVRNCKSMEEIISVEGVEEGEMMSEMCFDKL 1041

Query: 292  TTLILQYLPKL 302
              + L  LP+L
Sbjct: 1042 EDVELSDLPRL 1052

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|353685492|gb|AER13169.1| Rpp4C3 [Phaseolus vulgaris]

 Score =  162 bits (409), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 123/343 (35%), Positives = 183/343 (53%), Gaps = 31/343 (9%)

Query: 4    NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDF-FCIVDSRAMVACDAFPLLES 62
            NVE L L  L  +++VL+  + EGF+ LK ++V N+    F I          AFP LES
Sbjct: 808  NVEHLLLGDLNDVDDVLYEFNVEGFANLKHMYVVNSFGIQFIIKSVERFHPLLAFPKLES 867

Query: 63   LILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTV----VNHSSTVVNCS 118
            + L+ L N+E+I  ++L  +SF  LKII+   CD+L NIF  S +    +       +C+
Sbjct: 868  MCLYKLDNLEKICDNKLTKDSFRRLKIIKIKTCDQLKNIFSFSMIECFGMVERIEACDCN 927

Query: 119  KMKEIFAIGEEV--DNSIE--KIELAQLRYLSLGNLPEVTSFCREVKTPSAS-------P 167
             +KEI +I  E   DN+IE  K+E  QLR+L+L +LP         KTP  S       P
Sbjct: 928  SLKEIVSIEGESSNDNAIEADKVEFPQLRFLTLQSLPSFCCLYTNNKTPFISQSFEDQVP 987

Query: 168  NRPASQEESTTT-YSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAV 226
            N+   Q  + +  Y++  ++      LFNEKV++P LE LE+S+IN+ +IW+        
Sbjct: 988  NKELKQITTVSGQYNNGFLS------LFNEKVSIPKLEWLELSSINIRQIWN-----DQC 1036

Query: 227  FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYF 286
            F  FQNL +L V  C  LKY+ S    GSL +LQ L V  CE +++I S   A + I   
Sbjct: 1037 FHSFQNLLKLNVSDCENLKYLLSFPTAGSLVNLQSLFVSGCELMEDIFSTTDATQNID-- 1094

Query: 287  VFPQLTTLILQYLPKLRCLY-PGMHTSEWPALEIFSVFRCDKL 328
            +FP+L  + +  + KL  ++ P M  + +  L+   V  CDKL
Sbjct: 1095 IFPKLKEMEINCMKKLNTIWQPHMGFNSFHCLDSLIVRECDKL 1137

Source: Phaseolus vulgaris

Species: Phaseolus vulgaris

Genus: Phaseolus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357439641|ref|XP_003590098.1| Cc-nbs resistance protein, partial [Medicago truncatula] gi|355479146|gb|AES60349.1| Cc-nbs resistance protein, partial [Medicago truncatula]

 Score =  153 bits (386), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 111/315 (35%), Positives = 172/315 (54%), Gaps = 31/315 (9%)

Query: 2    INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACD-AFPLL 60
            +  VE L+LD++ GI+NVL+ L+  GF  LK L +QNN +   IVDS+       +FP+L
Sbjct: 725  VKGVENLYLDEVDGIQNVLYQLNGVGFPLLKHLHIQNNVNMKHIVDSKERNQFHVSFPIL 784

Query: 61   ESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIF--WLSTVVNHSST--VVN 116
            E+L+LHNL N+E I    L + SF  L  I+   C +L  +F   ++  ++H S   V +
Sbjct: 785  ETLVLHNLKNLEHICDGPLLITSFENLSAIKVKKCSQLKYLFSFTMAKGLSHLSNIEVCD 844

Query: 117  CSKMKEIFAIGEEVD-NSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEE 175
            C+ MKEI      +  N+ EKIE  QLR L+L +L  + +F     T S +  +    E 
Sbjct: 845  CNSMKEIVLKDNNLSANNDEKIEFLQLRSLTLEHLETLDNFFSYYLTHSGNMQKYQGLEP 904

Query: 176  STTTYSSSEITLDTSTLLFNEKVALPNLEALEISAI-NVDKIW---HYNQIPAAVFPRFQ 231
                          ST  F  +VA  NLE L++S++ N++KIW   HY+           
Sbjct: 905  YV------------STPFFGAQVAFCNLETLKLSSLRNLNKIWDDSHYS---------MY 943

Query: 232  NLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQL 291
            NLT LIV  C  LKY+FS++++GS K+LQHLE+  C  ++EII++    + +    F +L
Sbjct: 944  NLTTLIVEKCGALKYLFSSTVVGSFKNLQHLEISNCPLMEEIIAKEEISDALKEDNFFKL 1003

Query: 292  TTLILQYLPKLRCLY 306
              +IL+ +  L+ ++
Sbjct: 1004 EKIILKDMDNLKTIW 1018

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542484|ref|XP_002512305.1| phosphoprotein phosphatase, putative [Ricinus communis] gi|223548266|gb|EEF49757.1| phosphoprotein phosphatase, putative [Ricinus communis]

 Score =  152 bits (385), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 125/352 (35%), Positives = 193/352 (54%), Gaps = 28/352 (7%)

Query: 5    VECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMV-ACDAFPLLESL 63
             E L+LD+L+G+ NVL+ LD +GF QLK L +QN+ +   IVD  +M     AFP LESL
Sbjct: 694  TEDLYLDELEGVRNVLYELDGQGFPQLKHLHIQNSSEIQYIVDCLSMGNHYIAFPRLESL 753

Query: 64   ILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST----VVNHSSTVVNCSK 119
            ++ NL N+ +I   QL   SF++L+ ++  +C+ L N+F+ S     V      V +C+ 
Sbjct: 754  LVDNLNNLGQICYGQLMSGSFSKLRKLKVEHCNALKNLFYFSMFRGLVQLEEIDVSSCNI 813

Query: 120  MKEIFAIGEEVDNSIEKI-ELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTT 178
            M+EI     E D+  ++I +  +LR L+L  LP  TSFC +     A  +   +Q     
Sbjct: 814  MEEIVVEEIEDDSGRDEIIKPIRLRTLTLEYLPRFTSFCSQRMQKLAGLDAGCAQ----- 868

Query: 179  TYSSSEITLDTSTLLFNEKVALPNLEALEISAIN-VDKIWHYNQI---PAAVFPRFQNLT 234
                  I  +T ++LF +K+   NL  L++S+IN ++KIW  NQ+   P++V    QNLT
Sbjct: 869  ------IISETPSVLFGQKIEFSNLLNLKLSSINNMEKIWR-NQVKEPPSSV----QNLT 917

Query: 235  RLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTL 294
             LIV  C KL Y+F++SM+ +L  L++LE+  C  ++EII      +      FP L TL
Sbjct: 918  SLIVEGCGKLSYLFTSSMVENLSQLEYLEISDCSFMEEIIVAEGLTKHNSKLHFPILHTL 977

Query: 295  ILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK-LKIFAADLSQNNENDQLG 345
             L+ LP L     G +  E P+L    +  C + LK  ++  S N E ++ G
Sbjct: 978  KLKSLPNLIRFCFG-NLIECPSLNALRIENCPRLLKFISSSASTNMEANRGG 1028

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	356
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.348	0.134	0.328	2e-06
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.401	0.157	0.261	3.8e-06
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.334	0.133	0.310	0.00057
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.384	0.144	0.260	0.00071

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

 Score = 142 (55.0 bits), Expect = 2.0e-06, P = 2.0e-06
 Identities = 43/131 (32%), Positives = 67/131 (51%)

Query:   201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMI-GSLKHL 259
             PNLE L +  +N++ I   N        R Q L  L V  C +LK +FS  ++ G+L +L
Sbjct:   768 PNLEELSLDNVNLESIGELNGFLGM---RLQKLKLLQVSGCRQLKRLFSDQILAGTLPNL 824

Query:   260 QHLEVRFCEDLQEIISENRAD-EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALE 318
             Q ++V  C  L+E+ + +    +     + P+LT + L+YLP+LR L       E  +LE
Sbjct:   825 QEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVIKLKYLPQLRSLCNDRVVLE--SLE 882

Query:   319 IFSVFRCDKLK 329
                V  C+ LK
Sbjct:   883 HLEVESCESLK 893

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 143 (55.4 bits), Expect = 3.8e-06, Sum P(3) = 3.8e-06
 Identities = 41/157 (26%), Positives = 77/157 (49%)

Query:   200 LPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKH 258
             LP+LE L + ++ N+ ++W  N +        +N+  + + HCNKLK +   S +  L  
Sbjct:   744 LPSLEVLTLHSLHNLTRVWG-NSVSQDCL---RNIRCINISHCNKLKNV---SWVQKLPK 796

Query:   259 LQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALE 318
             L+ +E+  C +++E+ISE+ +  V    +FP L TL  + LP+L  + P   + +   +E
Sbjct:   797 LEVIELFDCREIEELISEHESPSVEDPTLFPSLKTLRTRDLPELNSILPSRFSFQ--KVE 854

Query:   319 IFSVFRCDKLKIFAADLSQNNENDQLGIPAQQPPCRW 355
                +  C ++K     L       Q+ +P      +W
Sbjct:   855 TLVITNCPRVK----KLPFQERRTQMNLPTVYCEEKW 887

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009617 "response to bacterium" evidence=RCA

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

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

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

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

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

GO:0010200 "response to chitin" evidence=RCA

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

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

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

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

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

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

GO:0045087 "innate immune response" evidence=RCA

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

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

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

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

 Score = 124 (48.7 bits), Expect = 0.00057, Sum P(2) = 0.00057
 Identities = 40/129 (31%), Positives = 68/129 (52%)

Query:   220 NQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA 279
             N+ P    P F NL+R+ +  C+ LK +   + +    +L  LEV F +++++IISE +A
Sbjct:   736 NKSPTT--PCFSNLSRVFIAKCHGLKDL---TWLLFAPNLTFLEVGFSKEVEDIISEEKA 790

Query:   280 DEVIPYFV-FPQLTTLILQYLPKLRCLYP-GMHTSEWPALEIFSVFRCDKLKIFAADLSQ 337
             +E     V F +L TL L  L  L+ +Y   +H   +P L++  V +C+KL+    D   
Sbjct:   791 EEHSATIVPFRKLETLHLFELRGLKRIYAKALH---FPCLKVIHVEKCEKLRKLPLDSKS 847

Query:   338 NNENDQLGI 346
                 ++L I
Sbjct:   848 GIAGEELVI 856

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:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 119 (46.9 bits), Expect = 0.00071, P = 0.00071
 Identities = 38/146 (26%), Positives = 66/146 (45%)

Query:   187 LDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKY 246
             +D   L  N   +L  L+ L  + + +   W    I   + P+FQN+  + +  C   +Y
Sbjct:   678 VDGGILSLNAIFSLCELDILGCNILEITIDWRCT-IQREIIPQFQNIRTMTIHRC---EY 733

Query:   247 IFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFV---FPQLTTLILQYLPKLR 303
             +   + +     L  L V  C  ++E+IS+++A   +       F  LT L+L  LPKL 
Sbjct:   734 LRDLTWLLLAPCLGELSVSECPQMEEVISKDKAMAKLGNTSEQPFQNLTKLVLDGLPKLE 793

Query:   304 CLYPGMHTSEWPALEIFSVFRCDKLK 329
              +Y       +P LE   + RC +L+
Sbjct:   794 SIY--WTPLPFPVLEYLVIRRCPELR 817


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.324   0.139   0.431    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      356       329   0.00089  116 3  11 22  0.48    33
                                                     33  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  619 (66 KB)
  Total size of DFA:  244 KB (2130 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  25.72u 0.11s 25.83t   Elapsed:  00:00:01
  Total cpu time:  25.72u 0.11s 25.83t   Elapsed:  00:00:01
  Start:  Sat May 11 10:06:55 2013   End:  Sat May 11 10:06:56 2013

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_scaffold_329000001 cc-nbs-lrr resistance protein (2359 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	356
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.78
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.74
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.56
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.52
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.21
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.19
KOG4341	483	consensus F-box protein containing LRR [General fu	99.16
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.07
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.02
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.98
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.92
KOG4341	483	consensus F-box protein containing LRR [General fu	98.85
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.84
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.79
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.73
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.51
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.36
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.3
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.2
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.19
PRK15386	426	type III secretion protein GogB; Provisional	98.13
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.1
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.06
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.06
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.05
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.04
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.04
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.03
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.01
PRK15386	426	type III secretion protein GogB; Provisional	98.0
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.98
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.9
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.86
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.82
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.68
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.64
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.56
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.45
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.97
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.96
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.83
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.69
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.07
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	95.87
PLN03150	623	hypothetical protein; Provisional	95.8
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	95.7
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.48
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	95.4
PLN03150	623	hypothetical protein; Provisional	95.39
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.38
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.31
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.15
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.09
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.99
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.51
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.49
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	94.41
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.87
KOG2123	388	consensus Uncharacterized conserved protein [Funct	92.7
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.6
KOG2982	418	consensus Uncharacterized conserved protein [Funct	92.31
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	91.54
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	91.0
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	89.64
KOG2123	388	consensus Uncharacterized conserved protein [Funct	87.46
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	86.69
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	85.48
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	85.27
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	82.6

>PLN03210 Resistant to P

Probab=99.78  E-value=1.7e-18  Score=183.77  Aligned_cols=47  Identities=19%  Similarity=0.166  Sum_probs=41.4

Q ss_pred             cCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccccc
Q 044144          287 VFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADL  335 (356)
Q Consensus       287 ~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~  335 (356)
                      .+++|+.|++.+|++|+.++...  ..+++|+.+++.+|++++.++...
T Consensus       867 ~l~~L~~L~L~~C~~L~~l~~~~--~~L~~L~~L~l~~C~~L~~~~l~~  913 (1153)
T PLN03210        867 KFSNLSFLDMNGCNNLQRVSLNI--SKLKHLETVDFSDCGALTEASWNG  913 (1153)
T ss_pred             cCCCCCEEECCCCCCcCccCccc--ccccCCCeeecCCCcccccccCCC
Confidence            48899999999999999998876  678999999999999999877644

syringae 6; Provisional

>PLN03210 Resistant to P

Probab=99.74  E-value=6.3e-17  Score=171.87  Aligned_cols=246  Identities=17%  Similarity=0.264  Sum_probs=126.6

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc-hhhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW-LSTV  107 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-l~~l  107 (356)
                      .+|+.|++.++ +++.+     |.....+++|+.|+++++.+++.+|.    ...+++|+.|++.+|..+..++. +..+
T Consensus       611 ~~L~~L~L~~s-~l~~L-----~~~~~~l~~Lk~L~Ls~~~~l~~ip~----ls~l~~Le~L~L~~c~~L~~lp~si~~L  680 (1153)
T PLN03210        611 ENLVKLQMQGS-KLEKL-----WDGVHSLTGLRNIDLRGSKNLKEIPD----LSMATNLETLKLSDCSSLVELPSSIQYL  680 (1153)
T ss_pred             cCCcEEECcCc-ccccc-----ccccccCCCCCEEECCCCCCcCcCCc----cccCCcccEEEecCCCCccccchhhhcc
Confidence            45555555554 34443     23345566777777776666665542    13466777777777776666543 2222


Q ss_pred             --hccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccccccccee
Q 044144          108 --VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEI  185 (356)
Q Consensus       108 --l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i  185 (356)
                        |+.| .+.+|..++.++.          ...+++|+.|.+++|..++.++..                 ...++.|.+
T Consensus       681 ~~L~~L-~L~~c~~L~~Lp~----------~i~l~sL~~L~Lsgc~~L~~~p~~-----------------~~nL~~L~L  732 (1153)
T PLN03210        681 NKLEDL-DMSRCENLEILPT----------GINLKSLYRLNLSGCSRLKSFPDI-----------------STNISWLDL  732 (1153)
T ss_pred             CCCCEE-eCCCCCCcCccCC----------cCCCCCCCEEeCCCCCCccccccc-----------------cCCcCeeec
Confidence              0334 6667776666664          224567777777777666554421                 112333333


Q ss_pred             ecCCccccccccccCCC-------------------------------cCeEEecce-eeeEEcccCCCCCCCCCCCcCc
Q 044144          186 TLDTSTLLFNEKVALPN-------------------------------LEALEISAI-NVDKIWHYNQIPAAVFPRFQNL  233 (356)
Q Consensus       186 ~~~~~~~l~~~~~~l~~-------------------------------L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L  233 (356)
                      +.+.-..++.. ..+++                               |+.|.+.+| .+..      +|. .+.++++|
T Consensus       733 ~~n~i~~lP~~-~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~------lP~-si~~L~~L  804 (1153)
T PLN03210        733 DETAIEEFPSN-LRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVE------LPS-SIQNLHKL  804 (1153)
T ss_pred             CCCcccccccc-ccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccc------cCh-hhhCCCCC
Confidence            33322222211 12344                               444444444 2222      221 13344445


Q ss_pred             cEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCC
Q 044144          234 TRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSE  313 (356)
Q Consensus       234 ~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~  313 (356)
                      +.|++.+|++++.+ |...  .+++|+.|++++|..+..+.   ..        .++|+.|++.+. .++.+|...  ..
T Consensus       805 ~~L~Ls~C~~L~~L-P~~~--~L~sL~~L~Ls~c~~L~~~p---~~--------~~nL~~L~Ls~n-~i~~iP~si--~~  867 (1153)
T PLN03210        805 EHLEIENCINLETL-PTGI--NLESLESLDLSGCSRLRTFP---DI--------STNISDLNLSRT-GIEEVPWWI--EK  867 (1153)
T ss_pred             CEEECCCCCCcCee-CCCC--CccccCEEECCCCCcccccc---cc--------ccccCEeECCCC-CCccChHHH--hc
Confidence            55555555444444 3222  34445555555554443221   00        224555555443 444444433  56


Q ss_pred             CCcccEEeeccCcCcccccccccC
Q 044144          314 WPALEIFSVFRCDKLKIFAADLSQ  337 (356)
Q Consensus       314 ~~~L~~L~i~~C~~l~~l~~~~~~  337 (356)
                      +++|+.|++.+|++++.+|.....
T Consensus       868 l~~L~~L~L~~C~~L~~l~~~~~~  891 (1153)
T PLN03210        868 FSNLSFLDMNGCNNLQRVSLNISK  891 (1153)
T ss_pred             CCCCCEEECCCCCCcCccCccccc
Confidence            889999999999999999876543

syringae 6; Provisional

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

Probab=99.56  E-value=1.8e-14  Score=151.85  Aligned_cols=37  Identities=14%  Similarity=0.106  Sum_probs=16.7

Q ss_pred             cccccceeecCCc-cccccccccCCCcCeEEecceeee
Q 044144          178 TTYSSSEITLDTS-TLLFNEKVALPNLEALEISAINVD  214 (356)
Q Consensus       178 ~~l~~l~i~~~~~-~~l~~~~~~l~~L~~L~l~~~~l~  214 (356)
                      ..++.|+++.+.. ...+..+..+++|+.|.+.+|+++
T Consensus       236 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~  273 (968)
T PLN00113        236 TSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLS  273 (968)
T ss_pred             CCCCEEECcCceeccccChhHhCCCCCCEEECcCCeee
Confidence            3344444444432 223334444555555555555443

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

Probab=99.52  E-value=5e-14  Score=148.57  Aligned_cols=236  Identities=16%  Similarity=0.096  Sum_probs=110.5

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|++|++.+...... .   ..+.+++|++|++++| .+...    .+..++.+++|++|+++++.-...+|...   
T Consensus       117 l~~L~~L~Ls~n~l~~~-~---p~~~l~~L~~L~Ls~n-~~~~~----~p~~~~~l~~L~~L~L~~n~l~~~~p~~~---  184 (968)
T PLN00113        117 SSSLRYLNLSNNNFTGS-I---PRGSIPNLETLDLSNN-MLSGE----IPNDIGSFSSLKVLDLGGNVLVGKIPNSL---  184 (968)
T ss_pred             CCCCCEEECcCCccccc-c---CccccCCCCEEECcCC-ccccc----CChHHhcCCCCCEEECccCcccccCChhh---
Confidence            56788888877543221 1   2246788888888877 33211    13345667788888887754333343322   


Q ss_pred             cCCCCccEEEEccCCCccccCc----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceee
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFC  157 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  157 (356)
                      ..+++|+.|++++|.-...++.    +..+ +.| .+.++.-...++.         .+..+++|++|+++++.-...++
T Consensus       185 ~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L-~~L-~L~~n~l~~~~p~---------~l~~l~~L~~L~L~~n~l~~~~p  253 (968)
T PLN00113        185 TNLTSLEFLTLASNQLVGQIPRELGQMKSL-KWI-YLGYNNLSGEIPY---------EIGGLTSLNHLDLVYNNLTGPIP  253 (968)
T ss_pred             hhCcCCCeeeccCCCCcCcCChHHcCcCCc-cEE-ECcCCccCCcCCh---------hHhcCCCCCEEECcCceeccccC
Confidence            4567777777777654333221    2222 333 4444432222221         23344555555554432111111


Q ss_pred             cCCCCCCC------CCCC----CCCccccccccccceeecCCc-cccccccccCCCcCeEEecceeeeEEcccCCCCCCC
Q 044144          158 REVKTPSA------SPNR----PASQEESTTTYSSSEITLDTS-TLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAV  226 (356)
Q Consensus       158 ~~~~~~~~------~~~~----~~~~~~~~~~l~~l~i~~~~~-~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~  226 (356)
                      ........      ..+.    .......+..++.++++.+.. ...+..+..+++|+.|++.+|.++..     .|. .
T Consensus       254 ~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~-----~~~-~  327 (968)
T PLN00113        254 SSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGK-----IPV-A  327 (968)
T ss_pred             hhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCc-----CCh-h
Confidence            00000000      0000    000011233455555554442 23344445556666666666544331     221 2


Q ss_pred             CCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +..+++|+.|++++|.-...+ | ..++.+++|+.|++++|.
T Consensus       328 ~~~l~~L~~L~L~~n~l~~~~-p-~~l~~~~~L~~L~Ls~n~  367 (968)
T PLN00113        328 LTSLPRLQVLQLWSNKFSGEI-P-KNLGKHNNLTVLDLSTNN  367 (968)
T ss_pred             HhcCCCCCEEECcCCCCcCcC-C-hHHhCCCCCcEEECCCCe
Confidence            445566666666654322222 3 334555666666666554

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

Probab=99.21  E-value=5.6e-13  Score=126.24  Aligned_cols=288  Identities=14%  Similarity=0.135  Sum_probs=152.3

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|++|.+.+.. +..+-..  ...+|.||++.+..+ +++   .++.+..+..+.-|..|++++ ..+++.|.+.   
T Consensus        54 lqkLEHLs~~HN~-L~~vhGE--Ls~Lp~LRsv~~R~N-~LK---nsGiP~diF~l~dLt~lDLSh-NqL~EvP~~L---  122 (1255)
T KOG0444|consen   54 LQKLEHLSMAHNQ-LISVHGE--LSDLPRLRSVIVRDN-NLK---NSGIPTDIFRLKDLTILDLSH-NQLREVPTNL---  122 (1255)
T ss_pred             Hhhhhhhhhhhhh-hHhhhhh--hccchhhHHHhhhcc-ccc---cCCCCchhcccccceeeecch-hhhhhcchhh---
Confidence            5678888886543 2233222  237888888888776 565   555566777778888888887 5566666443   


Q ss_pred             cCCCCccEEEEccCCCccccCc--hhhh------------hcccc-ccccccchhhhhcccccccC--cccccccccccE
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW--LSTV------------VNHSS-TVVNCSKMKEIFAIGEEVDN--SIEKIELAQLRY  144 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~--l~~l------------l~~L~-~i~~c~~L~~l~~~~~~~~~--~~~~~~~~~L~~  144 (356)
                      ..-.++-.|++++. ++..+|.  +.++            |+.|. ++.....|+.+...+.....  -.....+.+|..
T Consensus       123 E~AKn~iVLNLS~N-~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~v  201 (1255)
T KOG0444|consen  123 EYAKNSIVLNLSYN-NIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSV  201 (1255)
T ss_pred             hhhcCcEEEEcccC-ccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhh
Confidence            22345555555542 2222221  1111            01111 11122222222110000000  001112333444


Q ss_pred             EecCCCCCc-ceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCC
Q 044144          145 LSLGNLPEV-TSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIP  223 (356)
Q Consensus       145 L~l~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p  223 (356)
                      |.+++..+. .+++..              ...+.++..++++-..-..+++.+-.+++|++|++++++++.+-...   
T Consensus       202 Lhms~TqRTl~N~Pts--------------ld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~---  264 (1255)
T KOG0444|consen  202 LHMSNTQRTLDNIPTS--------------LDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTE---  264 (1255)
T ss_pred             hhcccccchhhcCCCc--------------hhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccH---
Confidence            444443221 111111              11344455666654444446777778899999999999887742111   


Q ss_pred             CCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc------------------------ccceeeccCCC
Q 044144          224 AAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE------------------------DLQEIISENRA  279 (356)
Q Consensus       224 ~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~------------------------~l~~i~~~~~~  279 (356)
                          .--.+|++|.+++ ++++.+ | +.+..+++|+.|++.++.                        .++.+  +++.
T Consensus       265 ----~~W~~lEtLNlSr-NQLt~L-P-~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElV--PEgl  335 (1255)
T KOG0444|consen  265 ----GEWENLETLNLSR-NQLTVL-P-DAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELV--PEGL  335 (1255)
T ss_pred             ----HHHhhhhhhcccc-chhccc-h-HHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccccC--chhh
Confidence                0123445555544 344444 4 223344444444444432                        13333  3444


Q ss_pred             CcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccccc
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLS  336 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~  336 (356)
                      ..      +++|+.|.+ +|..|..+|..+  +-++.|+.|+++..|++..-|-...
T Consensus       336 cR------C~kL~kL~L-~~NrLiTLPeaI--HlL~~l~vLDlreNpnLVMPPKP~d  383 (1255)
T KOG0444|consen  336 CR------CVKLQKLKL-DHNRLITLPEAI--HLLPDLKVLDLRENPNLVMPPKPND  383 (1255)
T ss_pred             hh------hHHHHHhcc-cccceeechhhh--hhcCCcceeeccCCcCccCCCCcch
Confidence            44      788888888 567888998887  6789999999999999988775543

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

Probab=99.19  E-value=4.5e-13  Score=126.88  Aligned_cols=300  Identities=18%  Similarity=0.200  Sum_probs=183.7

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccc--ccccccc
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERI--WIDQLKV   81 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l--~~~~~~~   81 (356)
                      +++-|.|.+- ++.-+  +...+.+.+|+.|.+..+ ++..+     .+.++.+|+|+++.+.+ .+++.-  |...   
T Consensus        33 ~~~WLkLnrt-~L~~v--PeEL~~lqkLEHLs~~HN-~L~~v-----hGELs~Lp~LRsv~~R~-N~LKnsGiP~di---   99 (1255)
T KOG0444|consen   33 QMTWLKLNRT-KLEQV--PEELSRLQKLEHLSMAHN-QLISV-----HGELSDLPRLRSVIVRD-NNLKNSGIPTDI---   99 (1255)
T ss_pred             heeEEEechh-hhhhC--hHHHHHHhhhhhhhhhhh-hhHhh-----hhhhccchhhHHHhhhc-cccccCCCCchh---
Confidence            4555666442 22222  234568999999999988 55544     34577789999999887 555543  2222   


Q ss_pred             cCCCCccEEEEccCCCccccCc-hhhhhccccccccc--cchhhhhccc----------cccc-----Cccccccccccc
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW-LSTVVNHSSTVVNC--SKMKEIFAIG----------EEVD-----NSIEKIELAQLR  143 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~-l~~ll~~L~~i~~c--~~L~~l~~~~----------~~~~-----~~~~~~~~~~L~  143 (356)
                      -.+..|..|++++. +++..|. +... +++ .+-+.  .+++.||...          +-.+     -...+..+..|+
T Consensus       100 F~l~dLt~lDLShN-qL~EvP~~LE~A-Kn~-iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~Lq  176 (1255)
T KOG0444|consen  100 FRLKDLTILDLSHN-QLREVPTNLEYA-KNS-IVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQ  176 (1255)
T ss_pred             cccccceeeecchh-hhhhcchhhhhh-cCc-EEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhh
Confidence            33678888888873 6666653 3333 222 11111  1233332210          0000     123455667888


Q ss_pred             EEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCC--ccccccccccCCCcCeEEecceeeeEEcccCC
Q 044144          144 YLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDT--STLLFNEKVALPNLEALEISAINVDKIWHYNQ  221 (356)
Q Consensus       144 ~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~--~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~  221 (356)
                      +|.+++-|- ..+.....|             .++.++.|.+++..  ...++.++..+.+|..++++.++++.      
T Consensus       177 tL~Ls~NPL-~hfQLrQLP-------------smtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~------  236 (1255)
T KOG0444|consen  177 TLKLSNNPL-NHFQLRQLP-------------SMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPI------  236 (1255)
T ss_pred             hhhcCCChh-hHHHHhcCc-------------cchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCCc------
Confidence            888887652 122111111             34457777776443  45588889999999999999988877      


Q ss_pred             CCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCc-------------------C
Q 044144          222 IPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE-------------------V  282 (356)
Q Consensus       222 ~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~-------------------~  282 (356)
                      .|.. +..+++|++|.+++ ++++.+ .... +.-.+|++|+++.+. +..+  ++....                   +
T Consensus       237 vPec-ly~l~~LrrLNLS~-N~iteL-~~~~-~~W~~lEtLNlSrNQ-Lt~L--P~avcKL~kL~kLy~n~NkL~FeGiP  309 (1255)
T KOG0444|consen  237 VPEC-LYKLRNLRRLNLSG-NKITEL-NMTE-GEWENLETLNLSRNQ-LTVL--PDAVCKLTKLTKLYANNNKLTFEGIP  309 (1255)
T ss_pred             chHH-HhhhhhhheeccCc-Cceeee-eccH-HHHhhhhhhccccch-hccc--hHHHhhhHHHHHHHhccCcccccCCc
Confidence            5553 34789999999987 688887 4332 334789999999865 5443  222222                   0


Q ss_pred             cccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccccccCCCCCCCCCCCCCC
Q 044144          283 IPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQ  350 (356)
Q Consensus       283 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~~~~~  350 (356)
                      ..+..+..|+.+...+. +|.-+|++.  ..|+.|++|.+. |..+..+|.........+.+.+..++
T Consensus       310 SGIGKL~~Levf~aanN-~LElVPEgl--cRC~kL~kL~L~-~NrLiTLPeaIHlL~~l~vLDlreNp  373 (1255)
T KOG0444|consen  310 SGIGKLIQLEVFHAANN-KLELVPEGL--CRCVKLQKLKLD-HNRLITLPEAIHLLPDLKVLDLRENP  373 (1255)
T ss_pred             cchhhhhhhHHHHhhcc-ccccCchhh--hhhHHHHHhccc-ccceeechhhhhhcCCcceeeccCCc
Confidence            11223445555555443 677777776  788889998765 67788899888776666666666544

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

Probab=99.16  E-value=4.2e-13  Score=121.53  Aligned_cols=297  Identities=15%  Similarity=0.092  Sum_probs=185.8

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      .++.|++++|..++..........+|+++.|.+.+|.+++.   .........+++|+.+.+..|.++++....... ..
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd---~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la-~g  214 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITD---SSLLSLARYCRKLRHLNLHSCSSITDVSLKYLA-EG  214 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccH---HHHHHHHHhcchhhhhhhcccchhHHHHHHHHH-Hh
Confidence            46788899988887766666667889999999999976652   222224456789999999999988876433222 34


Q ss_pred             CCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcc----cccccccccEEecCCCCCcceeecC
Q 044144           84 FNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSI----EKIELAQLRYLSLGNLPEVTSFCRE  159 (356)
Q Consensus        84 l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~----~~~~~~~L~~L~l~~~~~l~~~~~~  159 (356)
                      +++|++|+++.|+.+..-    .+ +.  ..++|..++.+...|....+..    .-...+-+.++++.+|..+++....
T Consensus       215 C~kL~~lNlSwc~qi~~~----gv-~~--~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~  287 (483)
T KOG4341|consen  215 CRKLKYLNLSWCPQISGN----GV-QA--LQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLW  287 (483)
T ss_pred             hhhHHHhhhccCchhhcC----cc-hH--HhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHH
Confidence            899999999999888751    11 11  1233333333321111110000    0112344555666666655543211


Q ss_pred             CCCCCCCCCCCCCccccccccccceeecCCccc---cccccccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccE
Q 044144          160 VKTPSASPNRPASQEESTTTYSSSEITLDTSTL---LFNEKVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTR  235 (356)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~---l~~~~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~  235 (356)
                      ...-            .-..++.+..++|++..   +-.-..+.++|+.+.+.+| ++++..... +    -.+.+.|+.
T Consensus       288 ~i~~------------~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~-l----~rn~~~Le~  350 (483)
T KOG4341|consen  288 LIAC------------GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTM-L----GRNCPHLER  350 (483)
T ss_pred             HHhh------------hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhh-h----hcCChhhhh
Confidence            0000            12336677777776522   2223456799999999999 777642221 1    226788999


Q ss_pred             EeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCc-CcccccCCccCeeeccccccceeecCCCCcCCC
Q 044144          236 LIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE-VIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEW  314 (356)
Q Consensus       236 L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~-~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~  314 (356)
                      +++.+|....+-.-.....+++.|+.|.++.|..+..    ++..+ .........|+.+++.+||.+++-..... ..+
T Consensus       351 l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD----~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l-~~c  425 (483)
T KOG4341|consen  351 LDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITD----EGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHL-SIC  425 (483)
T ss_pred             hcccccceehhhhHhhhccCCchhccCChhhhhhhhh----hhhhhhhhccccccccceeeecCCCCchHHHHHHH-hhC
Confidence            9999998877763335566899999999999875432    21111 00111255799999999999887655432 578


Q ss_pred             CcccEEeeccCcCcccccc
Q 044144          315 PALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       315 ~~L~~L~i~~C~~l~~l~~  333 (356)
                      ++|+.+++++|..+.+=+.
T Consensus       426 ~~Leri~l~~~q~vtk~~i  444 (483)
T KOG4341|consen  426 RNLERIELIDCQDVTKEAI  444 (483)
T ss_pred             cccceeeeechhhhhhhhh
Confidence            8999999999998866543

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

Probab=99.07  E-value=6.9e-11  Score=111.47  Aligned_cols=290  Identities=16%  Similarity=0.164  Sum_probs=161.6

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      +++.|.|.+-. +.++ .......++.|++|+++.+ .+.++...    ....-+++++|++.+ ..++.+..+.+  ..
T Consensus       126 hl~~L~L~~N~-I~sv-~se~L~~l~alrslDLSrN-~is~i~~~----sfp~~~ni~~L~La~-N~It~l~~~~F--~~  195 (873)
T KOG4194|consen  126 HLEKLDLRHNL-ISSV-TSEELSALPALRSLDLSRN-LISEIPKP----SFPAKVNIKKLNLAS-NRITTLETGHF--DS  195 (873)
T ss_pred             ceeEEeeeccc-cccc-cHHHHHhHhhhhhhhhhhc-hhhcccCC----CCCCCCCceEEeecc-ccccccccccc--cc
Confidence            47777775432 1222 2334456788888888887 66665221    222234678887777 45555533322  23


Q ss_pred             CCCccEEEEccCCCccccCc-----hhhhhcccc------------ccccccchhhhhcc--cccccCcccccccccccE
Q 044144           84 FNELKIIQAYNCDKLSNIFW-----LSTVVNHSS------------TVVNCSKMKEIFAI--GEEVDNSIEKIELAQLRY  144 (356)
Q Consensus        84 l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~------------~i~~c~~L~~l~~~--~~~~~~~~~~~~~~~L~~  144 (356)
                      |.+|-.|.+++. +++.++.     ++.+ +.|.            ...+.++|+.+.--  +...-....+..+.++++
T Consensus       196 lnsL~tlkLsrN-rittLp~r~Fk~L~~L-~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~  273 (873)
T KOG4194|consen  196 LNSLLTLKLSRN-RITTLPQRSFKRLPKL-ESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEH  273 (873)
T ss_pred             cchheeeecccC-cccccCHHHhhhcchh-hhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccce
Confidence            567777777653 3343332     2222 2221            11222222222100  000000112333344444


Q ss_pred             EecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccc-cccccccCCCcCeEEecceeeeEEcccCCCC
Q 044144          145 LSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTL-LFNEKVALPNLEALEISAINVDKIWHYNQIP  223 (356)
Q Consensus       145 L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~-l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p  223 (356)
                      |.++. .+++....+-             .+.++.+++|+++...-.. -......+++|+.|+++.++++.      ++
T Consensus       274 l~L~~-N~l~~vn~g~-------------lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~------l~  333 (873)
T KOG4194|consen  274 LNLET-NRLQAVNEGW-------------LFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITR------LD  333 (873)
T ss_pred             eeccc-chhhhhhccc-------------ccccchhhhhccchhhhheeecchhhhcccceeEecccccccc------CC
Confidence            44432 1111111110             1134556666666554211 22233456788889888888887      45


Q ss_pred             CCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccce
Q 044144          224 AAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLR  303 (356)
Q Consensus       224 ~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~  303 (356)
                      +..|..+..|++|.+++ +.+..+ -...+..+.+|+.|+++.+. +...+ +++.   +....+++|+.|.+.+. +++
T Consensus       334 ~~sf~~L~~Le~LnLs~-Nsi~~l-~e~af~~lssL~~LdLr~N~-ls~~I-EDaa---~~f~gl~~LrkL~l~gN-qlk  405 (873)
T KOG4194|consen  334 EGSFRVLSQLEELNLSH-NSIDHL-AEGAFVGLSSLHKLDLRSNE-LSWCI-EDAA---VAFNGLPSLRKLRLTGN-QLK  405 (873)
T ss_pred             hhHHHHHHHhhhhcccc-cchHHH-HhhHHHHhhhhhhhcCcCCe-EEEEE-ecch---hhhccchhhhheeecCc-eee
Confidence            44577788899998887 677777 66777888899999998865 54443 2322   12334889999999876 899


Q ss_pred             eecCCCCcCCCCcccEEeeccCcCcccccccc
Q 044144          304 CLYPGMHTSEWPALEIFSVFRCDKLKIFAADL  335 (356)
Q Consensus       304 ~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~  335 (356)
                      .++.... ..+++|++|++.+.+ +.++..+.
T Consensus       406 ~I~krAf-sgl~~LE~LdL~~Na-iaSIq~nA  435 (873)
T KOG4194|consen  406 SIPKRAF-SGLEALEHLDLGDNA-IASIQPNA  435 (873)
T ss_pred             ecchhhh-ccCcccceecCCCCc-ceeecccc
Confidence            9987653 578899999988865 55554443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.02  E-value=1.5e-10  Score=118.66  Aligned_cols=274  Identities=19%  Similarity=0.164  Sum_probs=169.7

Q ss_pred             ccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCch
Q 044144           25 TEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWL  104 (356)
Q Consensus        25 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l  104 (356)
                      +..+|.|+.|++++|..+..+     +..++.+-+|+.|++++ +.+..+|.+.   +.|..|.+|++.....+..++..
T Consensus       567 f~~m~~LrVLDLs~~~~l~~L-----P~~I~~Li~LryL~L~~-t~I~~LP~~l---~~Lk~L~~Lnl~~~~~l~~~~~i  637 (889)
T KOG4658|consen  567 FRSLPLLRVLDLSGNSSLSKL-----PSSIGELVHLRYLDLSD-TGISHLPSGL---GNLKKLIYLNLEVTGRLESIPGI  637 (889)
T ss_pred             HhhCcceEEEECCCCCccCcC-----ChHHhhhhhhhcccccC-CCccccchHH---HHHHhhheeccccccccccccch
Confidence            457899999999998888776     55688888999999988 6788887666   67888889988887766655322


Q ss_pred             hh-hhcccc--ccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccc--
Q 044144          105 ST-VVNHSS--TVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTT--  179 (356)
Q Consensus       105 ~~-ll~~L~--~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--  179 (356)
                      .. + ..|+  .+..-.    ..   ...........+..|+.+++..... . +.....              .+..  
T Consensus       638 ~~~L-~~Lr~L~l~~s~----~~---~~~~~l~el~~Le~L~~ls~~~~s~-~-~~e~l~--------------~~~~L~  693 (889)
T KOG4658|consen  638 LLEL-QSLRVLRLPRSA----LS---NDKLLLKELENLEHLENLSITISSV-L-LLEDLL--------------GMTRLR  693 (889)
T ss_pred             hhhc-ccccEEEeeccc----cc---cchhhHHhhhcccchhhheeecchh-H-hHhhhh--------------hhHHHH
Confidence            21 2 2221  111100    00   0000011123334444444433221 0 000000              0111  


Q ss_pred             --cccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCC-CCcCccEEeeccCcCccccchhhhhhhc
Q 044144          180 --YSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFP-RFQNLTRLIVWHCNKLKYIFSASMIGSL  256 (356)
Q Consensus       180 --l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~-~l~~L~~L~i~~c~~l~~l~~~~~~~~l  256 (356)
                        ...+.+..+.....+.....+++|+.|.|.+|...++-... ..+.... .|+++.++.+.+|..++++   .+....
T Consensus       694 ~~~~~l~~~~~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~-~~~~~~~~~f~~l~~~~~~~~~~~r~l---~~~~f~  769 (889)
T KOG4658|consen  694 SLLQSLSIEGCSKRTLISSLGSLGNLEELSILDCGISEIVIEW-EESLIVLLCFPNLSKVSILNCHMLRDL---TWLLFA  769 (889)
T ss_pred             HHhHhhhhcccccceeecccccccCcceEEEEcCCCchhhccc-ccccchhhhHHHHHHHHhhcccccccc---chhhcc
Confidence              11222223344556667788999999999999554321100 1111111 3778999999999999988   344556


Q ss_pred             CCCCeEEEecCcccceeeccCCCCcCc--ccccCCccCee-eccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          257 KHLQHLEVRFCEDLQEIISENRADEVI--PYFVFPQLTTL-ILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       257 ~~L~~L~i~~c~~l~~i~~~~~~~~~~--~~~~l~~L~~L-~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                      ++|+.|++..|..++++++........  .+..|..+..+ .+.+.+.++.+....  ..++.++.+.+..||++.++|.
T Consensus       770 ~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~--l~~~~l~~~~ve~~p~l~~~P~  847 (889)
T KOG4658|consen  770 PHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLP--LSFLKLEELIVEECPKLGKLPL  847 (889)
T ss_pred             CcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecc--cCccchhheehhcCcccccCcc
Confidence            999999999999998887655443311  24556777777 577777777776665  4566799999999999999998


Q ss_pred             cccC
Q 044144          334 DLSQ  337 (356)
Q Consensus       334 ~~~~  337 (356)
                      ....
T Consensus       848 ~~~~  851 (889)
T KOG4658|consen  848 LSTL  851 (889)
T ss_pred             cccc
Confidence            8653

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

Probab=98.98  E-value=2.4e-10  Score=107.89  Aligned_cols=110  Identities=19%  Similarity=0.271  Sum_probs=72.1

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++..+++..      +..+.|..+.+++.|++.. +++..+ ..+++.++++|++|+++++. ++.+- .
T Consensus       241 FqgL~Sl~nlklqrN~I~k------L~DG~Fy~l~kme~l~L~~-N~l~~v-n~g~lfgLt~L~~L~lS~Na-I~rih-~  310 (873)
T KOG4194|consen  241 FQGLPSLQNLKLQRNDISK------LDDGAFYGLEKMEHLNLET-NRLQAV-NEGWLFGLTSLEQLDLSYNA-IQRIH-I  310 (873)
T ss_pred             hcCchhhhhhhhhhcCccc------ccCcceeeecccceeeccc-chhhhh-hcccccccchhhhhccchhh-hheee-c
Confidence            4567888888888876665      3333477788888888865 677777 66788888888888888754 65552 3


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeecc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      +.+..      .++|++|++++. .++.+.++.. ..+..|++|.+.+
T Consensus       311 d~Wsf------tqkL~~LdLs~N-~i~~l~~~sf-~~L~~Le~LnLs~  350 (873)
T KOG4194|consen  311 DSWSF------TQKLKELDLSSN-RITRLDEGSF-RVLSQLEELNLSH  350 (873)
T ss_pred             chhhh------cccceeEecccc-ccccCChhHH-HHHHHhhhhcccc
Confidence            44554      677888877654 5666555432 2334445444443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.92  E-value=9.2e-09  Score=103.68  Aligned_cols=238  Identities=15%  Similarity=0.093  Sum_probs=120.8

Q ss_pred             eEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCC
Q 044144            6 ECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFN   85 (356)
Q Consensus         6 ~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~   85 (356)
                      ..|++.+. ++..+ +. ..  .++|+.|.+.++ +++.++        ...++|++|++++. +++.+|..      .+
T Consensus       204 ~~LdLs~~-~LtsL-P~-~l--~~~L~~L~L~~N-~Lt~LP--------~lp~~Lk~LdLs~N-~LtsLP~l------p~  262 (788)
T PRK15387        204 AVLNVGES-GLTTL-PD-CL--PAHITTLVIPDN-NLTSLP--------ALPPELRTLEVSGN-QLTSLPVL------PP  262 (788)
T ss_pred             cEEEcCCC-CCCcC-Cc-ch--hcCCCEEEccCC-cCCCCC--------CCCCCCcEEEecCC-ccCcccCc------cc
Confidence            45666555 34432 22 11  247888888876 666551        12478888988884 67766532      46


Q ss_pred             CccEEEEccCCCccccCchh-hhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCC
Q 044144           86 ELKIIQAYNCDKLSNIFWLS-TVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPS  164 (356)
Q Consensus        86 ~L~~L~l~~c~~l~~~~~l~-~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~  164 (356)
                      +|+.|++.++. +..++.++ .+ +.| .+.++ .++.++.            .+++|+.|++++. +++.++..  +  
T Consensus       263 sL~~L~Ls~N~-L~~Lp~lp~~L-~~L-~Ls~N-~Lt~LP~------------~p~~L~~LdLS~N-~L~~Lp~l--p--  321 (788)
T PRK15387        263 GLLELSIFSNP-LTHLPALPSGL-CKL-WIFGN-QLTSLPV------------LPPGLQELSVSDN-QLASLPAL--P--  321 (788)
T ss_pred             ccceeeccCCc-hhhhhhchhhc-CEE-ECcCC-ccccccc------------cccccceeECCCC-ccccCCCC--c--
Confidence            88888887763 55554322 23 555 55554 3444442            2367888888774 44443321  0  


Q ss_pred             CCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccC--------------CCCCCCCCCC
Q 044144          165 ASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYN--------------QIPAAVFPRF  230 (356)
Q Consensus       165 ~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~--------------~~p~~~~~~l  230 (356)
                                   ..+..|.++.+.-..++.   ..++|+.|++++|+++.+-...              .+|.    ..
T Consensus       322 -------------~~L~~L~Ls~N~L~~LP~---lp~~Lq~LdLS~N~Ls~LP~lp~~L~~L~Ls~N~L~~LP~----l~  381 (788)
T PRK15387        322 -------------SELCKLWAYNNQLTSLPT---LPSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPA----LP  381 (788)
T ss_pred             -------------ccccccccccCccccccc---cccccceEecCCCccCCCCCCCcccceehhhccccccCcc----cc
Confidence                         013333333332211111   0124555555555444310000              0221    11


Q ss_pred             cCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCC
Q 044144          231 QNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMH  310 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~  310 (356)
                      .+|+.|++++ +.+..+ |..    .++|+.|+++++. +..+.  . .        ..+|+.|++.++ +++.+|... 
T Consensus       382 ~~L~~LdLs~-N~Lt~L-P~l----~s~L~~LdLS~N~-LssIP--~-l--------~~~L~~L~Ls~N-qLt~LP~sl-  441 (788)
T PRK15387        382 SGLKELIVSG-NRLTSL-PVL----PSELKELMVSGNR-LTSLP--M-L--------PSGLLSLSVYRN-QLTRLPESL-  441 (788)
T ss_pred             cccceEEecC-CcccCC-CCc----ccCCCEEEccCCc-CCCCC--c-c--------hhhhhhhhhccC-cccccChHH-
Confidence            3455666654 244444 311    2456666666654 43331  1 1        235666777654 566666543 


Q ss_pred             cCCCCcccEEeeccCc
Q 044144          311 TSEWPALEIFSVFRCD  326 (356)
Q Consensus       311 ~~~~~~L~~L~i~~C~  326 (356)
                       ..+++|+.|++.+++
T Consensus       442 -~~L~~L~~LdLs~N~  456 (788)
T PRK15387        442 -IHLSSETTVNLEGNP  456 (788)
T ss_pred             -hhccCCCeEECCCCC
Confidence             567778888887766

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

Probab=98.85  E-value=5.3e-11  Score=108.10  Aligned_cols=281  Identities=14%  Similarity=0.081  Sum_probs=168.7

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCccc-ccccCcccceeecccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMV-ACDAFPLLESLILHNLINMERIWIDQLK   80 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~-~~~~~~~L~~L~l~~~~~l~~l~~~~~~   80 (356)
                      .+++++|++.+|..+.+.....-...++.|+.|++.+|..|+..    ... ....+++|++|.++.|+.+.+-....+.
T Consensus       163 CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~----~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~  238 (483)
T KOG4341|consen  163 CPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDV----SLKYLAEGCRKLKYLNLSWCPQISGNGVQALQ  238 (483)
T ss_pred             CCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHH----HHHHHHHhhhhHHHhhhccCchhhcCcchHHh
Confidence            36778888888887776644444567888888888888877643    111 3456888888888888877663222222


Q ss_pred             ccCCCCccEEEEccCCCccccCc------hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcc
Q 044144           81 VESFNELKIIQAYNCDKLSNIFW------LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVT  154 (356)
Q Consensus        81 ~~~l~~L~~L~l~~c~~l~~~~~------l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~  154 (356)
                       ....+++++..++|..+..-..      ...+ ..+ ++..|..+.+...+.       ....+.+|+.+..++|..+.
T Consensus       239 -rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i-~~l-nl~~c~~lTD~~~~~-------i~~~c~~lq~l~~s~~t~~~  308 (483)
T KOG4341|consen  239 -RGCKELEKLSLKGCLELELEALLKAAAYCLEI-LKL-NLQHCNQLTDEDLWL-------IACGCHALQVLCYSSCTDIT  308 (483)
T ss_pred             -ccchhhhhhhhcccccccHHHHHHHhccChHh-hcc-chhhhccccchHHHH-------HhhhhhHhhhhcccCCCCCc
Confidence             2245677777777776652110      0011 222 344554443332100       01234566667776666655


Q ss_pred             eeecCCCCCCCCCCCCCCccccccccccceeecCCccc--ccc-ccccCCCcCeEEecce-eeeEEcccCCCCCCCCCCC
Q 044144          155 SFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTL--LFN-EKVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRF  230 (356)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~--l~~-~~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l  230 (356)
                      .......-+.            -..++.+.+..|..++  .|. ...+.+.|+.+.+.+| ..++--..+ +    ..++
T Consensus       309 d~~l~aLg~~------------~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~s-l----s~~C  371 (483)
T KOG4341|consen  309 DEVLWALGQH------------CHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLAS-L----SRNC  371 (483)
T ss_pred             hHHHHHHhcC------------CCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhh-h----ccCC
Confidence            4433222111            1236666666665311  222 2346789999999999 555421111 1    2378


Q ss_pred             cCccEEeeccCcCccccch---hhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecC
Q 044144          231 QNLTRLIVWHCNKLKYIFS---ASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYP  307 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~---~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~  307 (356)
                      +.|+++.+++|..+++...   .........|+.+++.+|+.+.+..- +...      ..+.|+.+++.+|..++.-+.
T Consensus       372 ~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~L-e~l~------~c~~Leri~l~~~q~vtk~~i  444 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATL-EHLS------ICRNLERIELIDCQDVTKEAI  444 (483)
T ss_pred             chhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHH-HHHh------hCcccceeeeechhhhhhhhh
Confidence            9999999999998888611   11223456899999999998755421 2222      267899999999988877666


Q ss_pred             CCCcCCCCcccEE
Q 044144          308 GMHTSEWPALEIF  320 (356)
Q Consensus       308 ~~~~~~~~~L~~L  320 (356)
                      .....++|+++..
T Consensus       445 ~~~~~~lp~i~v~  457 (483)
T KOG4341|consen  445 SRFATHLPNIKVH  457 (483)
T ss_pred             HHHHhhCccceeh
Confidence            5544566665544

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

Probab=98.84  E-value=3.3e-11  Score=108.98  Aligned_cols=243  Identities=17%  Similarity=0.183  Sum_probs=160.0

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchh
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLS  105 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~  105 (356)
                      ..++.|.+|++... ++..+     +.+++.+..++.+..++ .++.++|...   .+.++|++++++.. .++.++.  
T Consensus        65 ~nL~~l~vl~~~~n-~l~~l-----p~aig~l~~l~~l~vs~-n~ls~lp~~i---~s~~~l~~l~~s~n-~~~el~~--  131 (565)
T KOG0472|consen   65 KNLACLTVLNVHDN-KLSQL-----PAAIGELEALKSLNVSH-NKLSELPEQI---GSLISLVKLDCSSN-ELKELPD--  131 (565)
T ss_pred             hcccceeEEEeccc-hhhhC-----CHHHHHHHHHHHhhccc-chHhhccHHH---hhhhhhhhhhcccc-ceeecCc--
Confidence            45666666666666 33322     45666777777777776 5566666555   55677777777653 2222221  


Q ss_pred             hhhccccccccccchhhhhccccc-ccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccce
Q 044144          106 TVVNHSSTVVNCSKMKEIFAIGEE-VDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSE  184 (356)
Q Consensus       106 ~ll~~L~~i~~c~~L~~l~~~~~~-~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  184 (356)
                             .|++|..++.+...... .....+++.+.+|..+.+.+ .+++.++....              ++..+++++
T Consensus       132 -------~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~-n~l~~l~~~~i--------------~m~~L~~ld  189 (565)
T KOG0472|consen  132 -------SIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEG-NKLKALPENHI--------------AMKRLKHLD  189 (565)
T ss_pred             -------hHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccc-cchhhCCHHHH--------------HHHHHHhcc
Confidence                   33444444433321100 01123455566677776665 33444433322              455577776


Q ss_pred             eecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEE
Q 044144          185 ITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEV  264 (356)
Q Consensus       185 i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i  264 (356)
                      .....-.++|+.++.+.+|..|+++.+++..      +|.  |+.+..|+.|++.. +.++.+ |.+..+.++++..|++
T Consensus       190 ~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~------lPe--f~gcs~L~Elh~g~-N~i~~l-pae~~~~L~~l~vLDL  259 (565)
T KOG0472|consen  190 CNSNLLETLPPELGGLESLELLYLRRNKIRF------LPE--FPGCSLLKELHVGE-NQIEML-PAEHLKHLNSLLVLDL  259 (565)
T ss_pred             cchhhhhcCChhhcchhhhHHHHhhhccccc------CCC--CCccHHHHHHHhcc-cHHHhh-HHHHhcccccceeeec
Confidence            5555567789999999999999999998887      664  77889999999964 788888 9999999999999999


Q ss_pred             ecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          265 RFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       265 ~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++.. ++++  ++++.-      +.+|+.|++++. .+.++|...  ..+ .|+.|.+.|.|
T Consensus       260 RdNk-lke~--Pde~cl------LrsL~rLDlSNN-~is~Lp~sL--gnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  260 RDNK-LKEV--PDEICL------LRSLERLDLSNN-DISSLPYSL--GNL-HLKFLALEGNP  308 (565)
T ss_pred             cccc-cccC--chHHHH------hhhhhhhcccCC-ccccCCccc--ccc-eeeehhhcCCc
Confidence            9976 8887  355544      778999999876 777777665  445 67777666665

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.79  E-value=2.9e-08  Score=100.13  Aligned_cols=219  Identities=16%  Similarity=0.080  Sum_probs=119.0

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccc-----
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQ-----   78 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~-----   78 (356)
                      +++.|.+.+. .+..+ +.    ..++|++|+++++ +++.+..        .+++|++|++.++ .+..++...     
T Consensus       223 ~L~~L~L~~N-~Lt~L-P~----lp~~Lk~LdLs~N-~LtsLP~--------lp~sL~~L~Ls~N-~L~~Lp~lp~~L~~  286 (788)
T PRK15387        223 HITTLVIPDN-NLTSL-PA----LPPELRTLEVSGN-QLTSLPV--------LPPGLLELSIFSN-PLTHLPALPSGLCK  286 (788)
T ss_pred             CCCEEEccCC-cCCCC-CC----CCCCCcEEEecCC-ccCcccC--------cccccceeeccCC-chhhhhhchhhcCE
Confidence            4566777553 33332 11    3578899999887 6765511        1345666665553 233332110     


Q ss_pred             ----------ccccCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecC
Q 044144           79 ----------LKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLG  148 (356)
Q Consensus        79 ----------~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~  148 (356)
                                ++ ..+++|+.|+++++ ++..++.++.-|+.| .+.++. +..++.            ...+|+.|+++
T Consensus       287 L~Ls~N~Lt~LP-~~p~~L~~LdLS~N-~L~~Lp~lp~~L~~L-~Ls~N~-L~~LP~------------lp~~Lq~LdLS  350 (788)
T PRK15387        287 LWIFGNQLTSLP-VLPPGLQELSVSDN-QLASLPALPSELCKL-WAYNNQ-LTSLPT------------LPSGLQELSVS  350 (788)
T ss_pred             EECcCCcccccc-ccccccceeECCCC-ccccCCCCccccccc-ccccCc-cccccc------------cccccceEecC
Confidence                      00 01245555555553 333333221111333 333321 222221            11367788887


Q ss_pred             CCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCC
Q 044144          149 NLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFP  228 (356)
Q Consensus       149 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~  228 (356)
                      +. +++.++..                 ...+..|.++.+.-..++.   ..++|+.|++.+|+++.      +|.    
T Consensus       351 ~N-~Ls~LP~l-----------------p~~L~~L~Ls~N~L~~LP~---l~~~L~~LdLs~N~Lt~------LP~----  399 (788)
T PRK15387        351 DN-QLASLPTL-----------------PSELYKLWAYNNRLTSLPA---LPSGLKELIVSGNRLTS------LPV----  399 (788)
T ss_pred             CC-ccCCCCCC-----------------CcccceehhhccccccCcc---cccccceEEecCCcccC------CCC----
Confidence            63 44444321                 1124455554443222332   23579999999998876      443    


Q ss_pred             CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          229 RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       229 ~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      ..++|+.|+++++ .+..+ |..    ..+|+.|+++++. +..+  ++....      +++|+.|++.+++
T Consensus       400 l~s~L~~LdLS~N-~LssI-P~l----~~~L~~L~Ls~Nq-Lt~L--P~sl~~------L~~L~~LdLs~N~  456 (788)
T PRK15387        400 LPSELKELMVSGN-RLTSL-PML----PSGLLSLSVYRNQ-LTRL--PESLIH------LSSETTVNLEGNP  456 (788)
T ss_pred             cccCCCEEEccCC-cCCCC-Ccc----hhhhhhhhhccCc-cccc--ChHHhh------ccCCCeEECCCCC
Confidence            2368999999884 67776 632    3578889999865 6655  344444      7899999998874

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.73  E-value=2.6e-08  Score=100.70  Aligned_cols=244  Identities=16%  Similarity=0.145  Sum_probs=148.5

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      +...|++.+. ++..+ +. .  -.+.|+.|+++++ +++.++.       ..+++|++|++.++ +++.+|...     
T Consensus       179 ~~~~L~L~~~-~LtsL-P~-~--Ip~~L~~L~Ls~N-~LtsLP~-------~l~~nL~~L~Ls~N-~LtsLP~~l-----  239 (754)
T PRK15370        179 NKTELRLKIL-GLTTI-PA-C--IPEQITTLILDNN-ELKSLPE-------NLQGNIKTLYANSN-QLTSIPATL-----  239 (754)
T ss_pred             CceEEEeCCC-CcCcC-Cc-c--cccCCcEEEecCC-CCCcCCh-------hhccCCCEEECCCC-ccccCChhh-----
Confidence            4556777654 33332 11 1  1257899999887 6776521       22468999999984 577765432     


Q ss_pred             CCCccEEEEccCCCccccCc-h-hhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCC
Q 044144           84 FNELKIIQAYNCDKLSNIFW-L-STVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVK  161 (356)
Q Consensus        84 l~~L~~L~l~~c~~l~~~~~-l-~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  161 (356)
                      .++|+.|++++|. +..++. + ..+ +.| .+++ .++..++.           ..+++|+.|+++++ +++.++... 
T Consensus       240 ~~~L~~L~Ls~N~-L~~LP~~l~s~L-~~L-~Ls~-N~L~~LP~-----------~l~~sL~~L~Ls~N-~Lt~LP~~l-  302 (754)
T PRK15370        240 PDTIQEMELSINR-ITELPERLPSAL-QSL-DLFH-NKISCLPE-----------NLPEELRYLSVYDN-SIRTLPAHL-  302 (754)
T ss_pred             hccccEEECcCCc-cCcCChhHhCCC-CEE-ECcC-CccCcccc-----------ccCCCCcEEECCCC-ccccCcccc-
Confidence            4589999999874 445542 1 233 555 6653 45666653           11257899999885 455444211 


Q ss_pred             CCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccC
Q 044144          162 TPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHC  241 (356)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c  241 (356)
                                     ...++.|.++.+.-..++..+  .++|+.|.+.+|.++.      +|.. +  .++|+.|+++++
T Consensus       303 ---------------p~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N~Lt~------LP~~-l--~~sL~~L~Ls~N  356 (754)
T PRK15370        303 ---------------PSGITHLNVQSNSLTALPETL--PPGLKTLEAGENALTS------LPAS-L--PPELQVLDVSKN  356 (754)
T ss_pred             ---------------hhhHHHHHhcCCccccCCccc--cccceeccccCCcccc------CChh-h--cCcccEEECCCC
Confidence                           112566666665543333322  3689999998887776      3321 2  268999999885


Q ss_pred             cCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCC--CcCCCCcccE
Q 044144          242 NKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM--HTSEWPALEI  319 (356)
Q Consensus       242 ~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~--~~~~~~~L~~  319 (356)
                       ++..+ |...   .++|+.|++++|. +..+.  ...        .+.|+.|++.++ +++.+|...  .....+.+..
T Consensus       357 -~L~~L-P~~l---p~~L~~LdLs~N~-Lt~LP--~~l--------~~sL~~LdLs~N-~L~~LP~sl~~~~~~~~~l~~  419 (754)
T PRK15370        357 -QITVL-PETL---PPTITTLDVSRNA-LTNLP--ENL--------PAALQIMQASRN-NLVRLPESLPHFRGEGPQPTR  419 (754)
T ss_pred             -CCCcC-Chhh---cCCcCEEECCCCc-CCCCC--HhH--------HHHHHHHhhccC-CcccCchhHHHHhhcCCCccE
Confidence             56665 5433   3689999999875 65542  222        236888888775 677766532  1123467788


Q ss_pred             EeeccCc
Q 044144          320 FSVFRCD  326 (356)
Q Consensus       320 L~i~~C~  326 (356)
                      +++.+.+
T Consensus       420 L~L~~Np  426 (754)
T PRK15370        420 IIVEYNP  426 (754)
T ss_pred             EEeeCCC
Confidence            8887766

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.51  E-value=3.7e-07  Score=92.49  Aligned_cols=227  Identities=17%  Similarity=0.142  Sum_probs=144.4

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc-h-hh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW-L-ST  106 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-l-~~  106 (356)
                      .+...|++.+. +++.++.     .+  .++|+.|++++. +++.+|...     +.+|+.|+++++ +++.++. + ..
T Consensus       178 ~~~~~L~L~~~-~LtsLP~-----~I--p~~L~~L~Ls~N-~LtsLP~~l-----~~nL~~L~Ls~N-~LtsLP~~l~~~  242 (754)
T PRK15370        178 NNKTELRLKIL-GLTTIPA-----CI--PEQITTLILDNN-ELKSLPENL-----QGNIKTLYANSN-QLTSIPATLPDT  242 (754)
T ss_pred             cCceEEEeCCC-CcCcCCc-----cc--ccCCcEEEecCC-CCCcCChhh-----ccCCCEEECCCC-ccccCChhhhcc
Confidence            35677888776 5665421     11  357999999884 677776433     469999999986 5666653 2 23


Q ss_pred             hhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceee
Q 044144          107 VVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEIT  186 (356)
Q Consensus       107 ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~  186 (356)
                      + +.| .++++. +..++.           ....+|+.|++++ .+++.++...                ...++.|.++
T Consensus       243 L-~~L-~Ls~N~-L~~LP~-----------~l~s~L~~L~Ls~-N~L~~LP~~l----------------~~sL~~L~Ls  291 (754)
T PRK15370        243 I-QEM-ELSINR-ITELPE-----------RLPSALQSLDLFH-NKISCLPENL----------------PEELRYLSVY  291 (754)
T ss_pred             c-cEE-ECcCCc-cCcCCh-----------hHhCCCCEEECcC-CccCcccccc----------------CCCCcEEECC
Confidence            4 666 777764 444543           1125789999875 4565554321                1237777777


Q ss_pred             cCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEec
Q 044144          187 LDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       187 ~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~  266 (356)
                      ++.-..++..+  .++|+.|++.+|+++.      +|..   ..++|+.|++.+| .++.+ |..+   .++|+.|++++
T Consensus       292 ~N~Lt~LP~~l--p~sL~~L~Ls~N~Lt~------LP~~---l~~sL~~L~Ls~N-~Lt~L-P~~l---~~sL~~L~Ls~  355 (754)
T PRK15370        292 DNSIRTLPAHL--PSGITHLNVQSNSLTA------LPET---LPPGLKTLEAGEN-ALTSL-PASL---PPELQVLDVSK  355 (754)
T ss_pred             CCccccCcccc--hhhHHHHHhcCCcccc------CCcc---ccccceeccccCC-ccccC-Chhh---cCcccEEECCC
Confidence            66543343322  2478888888887765      3321   2368899999875 56666 5433   37899999999


Q ss_pred             CcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc
Q 044144          267 CEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       267 c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                      |. +..+  +...        .++|++|++.+| +|+.+|...    .++|+.|++.++ +++.+|..
T Consensus       356 N~-L~~L--P~~l--------p~~L~~LdLs~N-~Lt~LP~~l----~~sL~~LdLs~N-~L~~LP~s  406 (754)
T PRK15370        356 NQ-ITVL--PETL--------PPTITTLDVSRN-ALTNLPENL----PAALQIMQASRN-NLVRLPES  406 (754)
T ss_pred             CC-CCcC--Chhh--------cCCcCEEECCCC-cCCCCCHhH----HHHHHHHhhccC-CcccCchh
Confidence            85 5443  1222        358999999887 677776543    236888888885 47777653

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

Probab=98.36  E-value=1e-07  Score=94.86  Aligned_cols=170  Identities=19%  Similarity=0.226  Sum_probs=99.8

Q ss_pred             ccccccccEEecCCCCCcceeecCCCCCCCC--------CCCCC---C-ccccccccccceeecCC-ccccccccccCCC
Q 044144          136 KIELAQLRYLSLGNLPEVTSFCREVKTPSAS--------PNRPA---S-QEESTTTYSSSEITLDT-STLLFNEKVALPN  202 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~--------~~~~~---~-~~~~~~~l~~l~i~~~~-~~~l~~~~~~l~~  202 (356)
                      ...+..|++|++.. .++.+++...+.....        .+...   . .+..+..++.|++.+.. +...++.+..++.
T Consensus       306 le~~~sL~tLdL~~-N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~h  384 (1081)
T KOG0618|consen  306 LEGLKSLRTLDLQS-NNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKH  384 (1081)
T ss_pred             ccccceeeeeeehh-ccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccc
Confidence            34478888998876 3455555422211110        00000   0 01133345555554433 3445556677777


Q ss_pred             cCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcC
Q 044144          203 LEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEV  282 (356)
Q Consensus       203 L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~  282 (356)
                      |+.|.++++.+..      +|+..+.+++.|+.|.+++ ++|+.+ | .....++.|++|....+. +..+  |+ ..  
T Consensus       385 LKVLhLsyNrL~~------fpas~~~kle~LeeL~LSG-NkL~~L-p-~tva~~~~L~tL~ahsN~-l~~f--Pe-~~--  449 (1081)
T KOG0618|consen  385 LKVLHLSYNRLNS------FPASKLRKLEELEELNLSG-NKLTTL-P-DTVANLGRLHTLRAHSNQ-LLSF--PE-LA--  449 (1081)
T ss_pred             eeeeeeccccccc------CCHHHHhchHHhHHHhccc-chhhhh-h-HHHHhhhhhHHHhhcCCc-eeec--hh-hh--
Confidence            8888888877776      6655566777777777776 677777 5 334456777777666543 3222  22 22  


Q ss_pred             cccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          283 IPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       283 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                          .++.|+.+++ .|.+|+.+..... ..+|+|++|++.+.+.
T Consensus       450 ----~l~qL~~lDl-S~N~L~~~~l~~~-~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  450 ----QLPQLKVLDL-SCNNLSEVTLPEA-LPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             ----hcCcceEEec-ccchhhhhhhhhh-CCCcccceeeccCCcc
Confidence                2778888888 4668877654431 3457899999888874

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

Probab=98.30  E-value=4e-08  Score=79.49  Aligned_cols=157  Identities=18%  Similarity=0.157  Sum_probs=92.4

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhh
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST  106 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~  106 (356)
                      .+.++..|.++.+ +++.+     ++.+..+.+|+.|.+.+ ..++++|...   .++++|+.|++. ..++..      
T Consensus        31 ~~s~ITrLtLSHN-Kl~~v-----ppnia~l~nlevln~~n-nqie~lp~~i---ssl~klr~lnvg-mnrl~~------   93 (264)
T KOG0617|consen   31 NMSNITRLTLSHN-KLTVV-----PPNIAELKNLEVLNLSN-NQIEELPTSI---SSLPKLRILNVG-MNRLNI------   93 (264)
T ss_pred             chhhhhhhhcccC-ceeec-----CCcHHHhhhhhhhhccc-chhhhcChhh---hhchhhhheecc-hhhhhc------
Confidence            4567778888877 56655     45566678888888888 6678887655   667888888765 111111      


Q ss_pred             hhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCc-ceeecCCCCCCCCCCCCCCcccccccccccee
Q 044144          107 VVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEV-TSFCREVKTPSASPNRPASQEESTTTYSSSEI  185 (356)
Q Consensus       107 ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i  185 (356)
                                      +|         .+++.||.|+.|++..-.-- .+++-..+              .++.+..+++
T Consensus        94 ----------------lp---------rgfgs~p~levldltynnl~e~~lpgnff--------------~m~tlralyl  134 (264)
T KOG0617|consen   94 ----------------LP---------RGFGSFPALEVLDLTYNNLNENSLPGNFF--------------YMTTLRALYL  134 (264)
T ss_pred             ----------------Cc---------cccCCCchhhhhhccccccccccCCcchh--------------HHHHHHHHHh
Confidence                            11         23566788888877653211 11111111              3445555666


Q ss_pred             ecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCcccc
Q 044144          186 TLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYI  247 (356)
Q Consensus       186 ~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l  247 (356)
                      ++.+...++..++.+++|+.|.++++++-+      +|. .++.+..|+.|+|.+ +.++.+
T Consensus       135 ~dndfe~lp~dvg~lt~lqil~lrdndll~------lpk-eig~lt~lrelhiqg-nrl~vl  188 (264)
T KOG0617|consen  135 GDNDFEILPPDVGKLTNLQILSLRDNDLLS------LPK-EIGDLTRLRELHIQG-NRLTVL  188 (264)
T ss_pred             cCCCcccCChhhhhhcceeEEeeccCchhh------CcH-HHHHHHHHHHHhccc-ceeeec
Confidence            666555566666666667766666664443      332 234556666666655 455555

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

Probab=98.20  E-value=2e-07  Score=84.91  Aligned_cols=111  Identities=19%  Similarity=0.204  Sum_probs=69.7

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|..|+++++-+.+      +|. .+..+..|+.|+++. +.++.+ | .....+..++.+-.++. ++.++. 
T Consensus       430 ~l~~l~kLt~L~L~NN~Ln~------LP~-e~~~lv~Lq~LnlS~-NrFr~l-P-~~~y~lq~lEtllas~n-qi~~vd-  497 (565)
T KOG0472|consen  430 ELSQLQKLTFLDLSNNLLND------LPE-EMGSLVRLQTLNLSF-NRFRML-P-ECLYELQTLETLLASNN-QIGSVD-  497 (565)
T ss_pred             HHHhhhcceeeecccchhhh------cch-hhhhhhhhheecccc-cccccc-h-HHHhhHHHHHHHHhccc-cccccC-
Confidence            45566777777777764444      332 133455577777765 355555 4 33333344444444443 354542 


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      +++...      +.+|.+|++.+. .+..+|...  ..+++|++|++.+.|-
T Consensus       498 ~~~l~n------m~nL~tLDL~nN-dlq~IPp~L--gnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  498 PSGLKN------MRNLTTLDLQNN-DLQQIPPIL--GNMTNLRHLELDGNPF  540 (565)
T ss_pred             hHHhhh------hhhcceeccCCC-chhhCChhh--ccccceeEEEecCCcc
Confidence            333333      788999999665 899999887  8899999999999873

>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=98.19  E-value=2.6e-06  Score=58.02  Aligned_cols=60  Identities=30%  Similarity=0.478  Sum_probs=44.0

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      |+|++|++.+|+++.      +|...|..+++|+.|++++ ++++.+ +...+..+++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l~~------i~~~~f~~l~~L~~L~l~~-N~l~~i-~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTE------IPPDSFSNLPNLETLDLSN-NNLTSI-PPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESE------ECTTTTTTGTTESEEEETS-SSESEE-ETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCc------cCHHHHcCCCCCCEeEccC-CccCcc-CHHHHcCCCCCCEEeCcCCc
Confidence            577888888887777      3434577778888888874 577777 66777788888888887764

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.13  E-value=1.1e-05  Score=75.38  Aligned_cols=11  Identities=27%  Similarity=0.495  Sum_probs=5.3

Q ss_pred             CccEEeeccCc
Q 044144          232 NLTRLIVWHCN  242 (356)
Q Consensus       232 ~L~~L~i~~c~  242 (356)
                      +|+.|.|.+|.
T Consensus       157 SLk~L~Is~c~  167 (426)
T PRK15386        157 SLKTLSLTGCS  167 (426)
T ss_pred             cccEEEecCCC
Confidence            44555554444

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

Probab=98.10  E-value=6.7e-07  Score=82.26  Aligned_cols=89  Identities=16%  Similarity=0.207  Sum_probs=47.0

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+...|.+++ +...........|++++.|+++.+ -+..+ .. ...-+.++|+|+.|.++.- .+...+ +....
T Consensus       120 ~kkL~~IsLdn~~-V~~~~~~~~~k~~~~v~~LdLS~N-L~~nw-~~-v~~i~eqLp~Le~LNls~N-rl~~~~-~s~~~  193 (505)
T KOG3207|consen  120 LKKLREISLDNYR-VEDAGIEEYSKILPNVRDLDLSRN-LFHNW-FP-VLKIAEQLPSLENLNLSSN-RLSNFI-SSNTT  193 (505)
T ss_pred             HHhhhheeecCcc-ccccchhhhhhhCCcceeecchhh-hHHhH-HH-HHHHHHhcccchhcccccc-cccCCc-cccch
Confidence            4566666776653 222111123446778888888766 22221 00 0113556788888887773 333222 22222


Q ss_pred             cCCCCccEEEEccCC
Q 044144           82 ESFNELKIIQAYNCD   96 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~   96 (356)
                      ..++.|+.|.++.|+
T Consensus       194 ~~l~~lK~L~l~~CG  208 (505)
T KOG3207|consen  194 LLLSHLKQLVLNSCG  208 (505)
T ss_pred             hhhhhhheEEeccCC
Confidence            456777777777774

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

Probab=98.06  E-value=2.8e-07  Score=89.65  Aligned_cols=92  Identities=22%  Similarity=0.245  Sum_probs=52.8

Q ss_pred             CccEEeeccCcCccccchhhhhhhcCCCC-eEEEecCccc-ceeeccCCCCcCcccccCCccCeeeccccccceeecCCC
Q 044144          232 NLTRLIVWHCNKLKYIFSASMIGSLKHLQ-HLEVRFCEDL-QEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM  309 (356)
Q Consensus       232 ~L~~L~i~~c~~l~~l~~~~~~~~l~~L~-~L~i~~c~~l-~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~  309 (356)
                      .+..+.+.+|++++++ ...... ..... .+.+.+|+.+ +.+.  ....      .+.+++.|.+..|...+......
T Consensus       352 ~~~~~~~~~~~~l~~~-~l~~~~-~~~~~~~~~l~gc~~l~~~l~--~~~~------~~~~l~~L~l~~~~~~t~~~l~~  421 (482)
T KOG1947|consen  352 DLAELILRSCPKLTDL-SLSYCG-ISDLGLELSLRGCPNLTESLE--LRLC------RSDSLRVLNLSDCRLVTDKGLRC  421 (482)
T ss_pred             hHhHHHHhcCCCcchh-hhhhhh-ccCcchHHHhcCCcccchHHH--HHhc------cCCccceEecccCccccccchHH
Confidence            4555555666666665 222222 22222 4666777766 2221  1111      13348899999998877765554


Q ss_pred             CcCCCCcccEEeeccCcCcccccc
Q 044144          310 HTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       310 ~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                      ....+..++.+++.+|+.+..-..
T Consensus       422 ~~~~~~~~~~l~~~~~~~~~~~~~  445 (482)
T KOG1947|consen  422 LADSCSNLKDLDLSGCRVITLKSL  445 (482)
T ss_pred             HhhhhhccccCCccCcccccchhh
Confidence            322366788888888888776554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.06  E-value=1.5e-06  Score=89.49  Aligned_cols=105  Identities=20%  Similarity=0.239  Sum_probs=69.2

Q ss_pred             ccCCCcEEEEecCCC-ceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc-h
Q 044144           27 GFSQLKLLWVQNNPD-FFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW-L  104 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~-l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-l  104 (356)
                      ..+.|++|-+.+... +..+    .......++.|+.|+++++..+.++|...   +.+-+||.|++++. .++.+|. +
T Consensus       543 ~~~~L~tLll~~n~~~l~~i----s~~ff~~m~~LrVLDLs~~~~l~~LP~~I---~~Li~LryL~L~~t-~I~~LP~~l  614 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLLEI----SGEFFRSLPLLRVLDLSGNSSLSKLPSSI---GELVHLRYLDLSDT-GISHLPSGL  614 (889)
T ss_pred             CCCccceEEEeecchhhhhc----CHHHHhhCcceEEEECCCCCccCcCChHH---hhhhhhhcccccCC-CccccchHH
Confidence            566899999988753 3332    12235678999999999999999998777   77999999999886 4555553 3


Q ss_pred             hhhhcccc--ccccccchhhhhcccccccCcccccccccccEEecCC
Q 044144          105 STVVNHSS--TVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGN  149 (356)
Q Consensus       105 ~~ll~~L~--~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~  149 (356)
                      ..+ +.|.  ++.....+..++.         ....+.+|+.|.+..
T Consensus       615 ~~L-k~L~~Lnl~~~~~l~~~~~---------i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  615 GNL-KKLIYLNLEVTGRLESIPG---------ILLELQSLRVLRLPR  651 (889)
T ss_pred             HHH-Hhhheeccccccccccccc---------hhhhcccccEEEeec
Confidence            333 3332  4444444444432         122367788877754

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

Probab=98.05  E-value=5.4e-07  Score=82.82  Aligned_cols=12  Identities=33%  Similarity=0.346  Sum_probs=9.2

Q ss_pred             ccccEEecCCCC
Q 044144          140 AQLRYLSLGNLP  151 (356)
Q Consensus       140 ~~L~~L~l~~~~  151 (356)
                      ++|+.|+++++.
T Consensus       137 ~~L~~L~L~~n~  148 (319)
T cd00116         137 PALEKLVLGRNR  148 (319)
T ss_pred             CCceEEEcCCCc
Confidence            678888888764

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).

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

Probab=98.04  E-value=6e-07  Score=82.57  Aligned_cols=93  Identities=20%  Similarity=0.192  Sum_probs=50.7

Q ss_pred             cccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          197 KVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      +..||+|+.|.+.++ .+..   .. .+   ...++.|+.|++++-+ +.+.--....+.+|.|+.|++..|. +.++-.
T Consensus       218 ~~~fPsl~~L~L~~N~~~~~---~~-~~---~~i~~~L~~LdLs~N~-li~~~~~~~~~~l~~L~~Lnls~tg-i~si~~  288 (505)
T KOG3207|consen  218 LLTFPSLEVLYLEANEIILI---KA-TS---TKILQTLQELDLSNNN-LIDFDQGYKVGTLPGLNQLNLSSTG-IASIAE  288 (505)
T ss_pred             HHhCCcHHHhhhhcccccce---ec-ch---hhhhhHHhhccccCCc-ccccccccccccccchhhhhccccC-cchhcC
Confidence            445778888888777 3222   01 11   2245677778887643 3333122344567777777777765 555543


Q ss_pred             cCCCCcCcccccCCccCeeecccc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      ++... ...-..|++|+.|.+...
T Consensus       289 ~d~~s-~~kt~~f~kL~~L~i~~N  311 (505)
T KOG3207|consen  289 PDVES-LDKTHTFPKLEYLNISEN  311 (505)
T ss_pred             CCccc-hhhhcccccceeeecccC
Confidence            33311 111223777777777554

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

Probab=98.04  E-value=1.4e-07  Score=76.33  Aligned_cols=34  Identities=18%  Similarity=0.172  Sum_probs=15.0

Q ss_pred             CCccCeeeccccccceeecCCCCcCCCCcccEEeecc
Q 044144          288 FPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       288 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      +++|+.|.+++. +|-++|...  ..++.|++|.|.+
T Consensus       149 lt~lqil~lrdn-dll~lpkei--g~lt~lrelhiqg  182 (264)
T KOG0617|consen  149 LTNLQILSLRDN-DLLSLPKEI--GDLTRLRELHIQG  182 (264)
T ss_pred             hcceeEEeeccC-chhhCcHHH--HHHHHHHHHhccc
Confidence            444555554443 333343333  3344444444444

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

Probab=98.03  E-value=3.1e-07  Score=80.63  Aligned_cols=119  Identities=18%  Similarity=0.107  Sum_probs=74.5

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccc-hhhhhhhcCCCCeEEEecCcccceeec
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIF-SASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~-~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      +..+..|..|+|+.|.+...-    ...++-.--++|++|++++|.+--... .......+|+|.+|+++||..++.-. 
T Consensus       256 ~~scs~L~~LNlsWc~l~~~~----Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~-  330 (419)
T KOG2120|consen  256 LSSCSRLDELNLSWCFLFTEK----VTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDC-  330 (419)
T ss_pred             HHhhhhHhhcCchHhhccchh----hhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchH-
Confidence            456788999999988433200    111111123788999999887522211 23556688999999999998664321 


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      ....      ..|+.|++|.++.|..+---- ..+....|+|.+|++++|-.
T Consensus       331 ~~~~------~kf~~L~~lSlsRCY~i~p~~-~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  331 FQEF------FKFNYLQHLSLSRCYDIIPET-LLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             HHHH------HhcchheeeehhhhcCCChHH-eeeeccCcceEEEEeccccC
Confidence            1222      237899999999986652211 11225678999999998864

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

Probab=98.01  E-value=4.8e-07  Score=83.18  Aligned_cols=252  Identities=15%  Similarity=0.033  Sum_probs=119.8

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccc----cccccCCCCccEEEEccCCCcccc
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWID----QLKVESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~----~~~~~~l~~L~~L~l~~c~~l~~~  101 (356)
                      ..+.+|+.|++.+| .++.-............++++++++.++. +...+.+    ......+++|++|++++|+.-.. 
T Consensus        20 ~~l~~L~~l~l~~~-~l~~~~~~~i~~~l~~~~~l~~l~l~~~~-~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~-   96 (319)
T cd00116          20 PKLLCLQVLRLEGN-TLGEEAAKALASALRPQPSLKELCLSLNE-TGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPD-   96 (319)
T ss_pred             HHHhhccEEeecCC-CCcHHHHHHHHHHHhhCCCceEEeccccc-cCCcchHHHHHHHHHHhcCceeEEEccCCCCChh-
Confidence            45667888888887 34211000001134455678888777643 2210000    00112356777777776533210 


Q ss_pred             CchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccc-ccc
Q 044144          102 FWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEEST-TTY  180 (356)
Q Consensus       102 ~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~l  180 (356)
                                    ....+..+.            .. ++|++|+++++.- ...........         .... ..+
T Consensus        97 --------------~~~~~~~l~------------~~-~~L~~L~ls~~~~-~~~~~~~l~~~---------l~~~~~~L  139 (319)
T cd00116          97 --------------GCGVLESLL------------RS-SSLQELKLNNNGL-GDRGLRLLAKG---------LKDLPPAL  139 (319)
T ss_pred             --------------HHHHHHHHh------------cc-CcccEEEeeCCcc-chHHHHHHHHH---------HHhCCCCc
Confidence                          000111111            12 4599999988642 21000000000         0011 346


Q ss_pred             ccceeecCCcc-----ccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccch---hhh
Q 044144          181 SSSEITLDTST-----LLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFS---ASM  252 (356)
Q Consensus       181 ~~l~i~~~~~~-----~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~---~~~  252 (356)
                      +.+.+++|.-.     .+...+..+++|+.|++.+|.++...... ++. .+..+++|+.|++++| .+.+...   ...
T Consensus       140 ~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~-l~~-~l~~~~~L~~L~L~~n-~i~~~~~~~l~~~  216 (319)
T cd00116         140 EKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRA-LAE-GLKANCNLEVLDLNNN-GLTDEGASALAET  216 (319)
T ss_pred             eEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHH-HHH-HHHhCCCCCEEeccCC-ccChHHHHHHHHH
Confidence            77777766522     23334455667888888887665311000 111 1223468888888776 3332211   123


Q ss_pred             hhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecccccccee-----ecCCCCcCCCCcccEEeeccCc
Q 044144          253 IGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRC-----LYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       253 ~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~-----~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      +..+++|++|++++|. +.......-...  .....+.|++|++.+| .+++     +....  ..+++|+.+++.++.
T Consensus       217 ~~~~~~L~~L~ls~n~-l~~~~~~~l~~~--~~~~~~~L~~L~l~~n-~i~~~~~~~l~~~~--~~~~~L~~l~l~~N~  289 (319)
T cd00116         217 LASLKSLEVLNLGDNN-LTDAGAAALASA--LLSPNISLLTLSLSCN-DITDDGAKDLAEVL--AEKESLLELDLRGNK  289 (319)
T ss_pred             hcccCCCCEEecCCCc-CchHHHHHHHHH--HhccCCCceEEEccCC-CCCcHHHHHHHHHH--hcCCCccEEECCCCC
Confidence            4456778888888875 332100000000  0001367888888777 4432     11111  344678888877754

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).

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.00  E-value=2.3e-05  Score=73.31  Aligned_cols=80  Identities=15%  Similarity=0.153  Sum_probs=43.4

Q ss_pred             cCccEEeeccCcCccccchhhhhhhc-CCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCC
Q 044144          231 QNLTRLIVWHCNKLKYIFSASMIGSL-KHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM  309 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~~~~~~~l-~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~  309 (356)
                      ++|+.|.+.+.......   ..-..+ ++|++|.+.+|..+.   .++....        +|+.|++..+. .+.+....
T Consensus       132 ssLk~L~I~~~n~~~~~---~lp~~LPsSLk~L~Is~c~~i~---LP~~LP~--------SLk~L~ls~n~-~~sLeI~~  196 (426)
T PRK15386        132 NGLTSLSINSYNPENQA---RIDNLISPSLKTLSLTGCSNII---LPEKLPE--------SLQSITLHIEQ-KTTWNISF  196 (426)
T ss_pred             chHhheecccccccccc---ccccccCCcccEEEecCCCccc---Ccccccc--------cCcEEEecccc-cccccCcc
Confidence            45778877543211111   000112 689999999998552   2333433        89999987642 22211111


Q ss_pred             CcCCC-CcccEEeeccCcCc
Q 044144          310 HTSEW-PALEIFSVFRCDKL  328 (356)
Q Consensus       310 ~~~~~-~~L~~L~i~~C~~l  328 (356)
                        ..+ +++ .|.+.+|-++
T Consensus       197 --~sLP~nl-~L~f~n~lkL  213 (426)
T PRK15386        197 --EGFPDGL-DIDLQNSVLL  213 (426)
T ss_pred             --ccccccc-Eechhhhccc
Confidence              223 345 8888888554

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

Probab=97.98  E-value=2e-06  Score=85.98  Aligned_cols=110  Identities=21%  Similarity=0.213  Sum_probs=72.8

Q ss_pred             CCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCC
Q 044144          200 LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA  279 (356)
Q Consensus       200 l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~  279 (356)
                      -++|+.|....|-++......        .-.+|++++|++ +++..+ | .|...+.+|+.+++.... +..+  +.. 
T Consensus       218 g~~l~~L~a~~n~l~~~~~~p--------~p~nl~~~dis~-n~l~~l-p-~wi~~~~nle~l~~n~N~-l~~l--p~r-  282 (1081)
T KOG0618|consen  218 GPSLTALYADHNPLTTLDVHP--------VPLNLQYLDISH-NNLSNL-P-EWIGACANLEALNANHNR-LVAL--PLR-  282 (1081)
T ss_pred             CcchheeeeccCcceeecccc--------ccccceeeecch-hhhhcc-h-HHHHhcccceEecccchh-HHhh--HHH-
Confidence            356666666666444322111        225788888877 677777 7 888889999998888765 4333  122 


Q ss_pred             CcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                           +...++|+.|.+.+| +++.++...  ..+++|+.|++.. .++.++|.
T Consensus       283 -----i~~~~~L~~l~~~~n-el~yip~~l--e~~~sL~tLdL~~-N~L~~lp~  327 (1081)
T KOG0618|consen  283 -----ISRITSLVSLSAAYN-ELEYIPPFL--EGLKSLRTLDLQS-NNLPSLPD  327 (1081)
T ss_pred             -----HhhhhhHHHHHhhhh-hhhhCCCcc--cccceeeeeeehh-ccccccch
Confidence                 223567777777766 777777765  4577888887776 45777775

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

Probab=97.90  E-value=1.5e-05  Score=66.34  Aligned_cols=109  Identities=22%  Similarity=0.296  Sum_probs=44.8

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENR  278 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~  278 (356)
                      .+.+|+.|++++|.++.+      +.  +..+++|+.|++++ +.++++ .......+|+|++|+++++. +.++.   .
T Consensus        40 ~l~~L~~L~Ls~N~I~~l------~~--l~~L~~L~~L~L~~-N~I~~i-~~~l~~~lp~L~~L~L~~N~-I~~l~---~  105 (175)
T PF14580_consen   40 TLDKLEVLDLSNNQITKL------EG--LPGLPRLKTLDLSN-NRISSI-SEGLDKNLPNLQELYLSNNK-ISDLN---E  105 (175)
T ss_dssp             T-TT--EEE-TTS--S--------TT------TT--EEE--S-S---S--CHHHHHH-TT--EEE-TTS----SCC---C
T ss_pred             hhcCCCEEECCCCCCccc------cC--ccChhhhhhcccCC-CCCCcc-ccchHHhCCcCCEEECcCCc-CCChH---H
Confidence            467999999999988873      22  55789999999976 788887 43444578999999998865 54442   1


Q ss_pred             CCcCcccccCCccCeeeccccccceeecC--CCCcCCCCcccEEeeccC
Q 044144          279 ADEVIPYFVFPQLTTLILQYLPKLRCLYP--GMHTSEWPALEIFSVFRC  325 (356)
Q Consensus       279 ~~~~~~~~~l~~L~~L~l~~c~~L~~~~~--~~~~~~~~~L~~L~i~~C  325 (356)
                      .   .....+++|+.|++.++|--.. ..  ..+...+|+|+.|+-...
T Consensus       106 l---~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~~~V  150 (175)
T PF14580_consen  106 L---EPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDGQDV  150 (175)
T ss_dssp             C---GGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETTEET
T ss_pred             h---HHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCCEEc
Confidence            1   1233488999999988874321 11  011134556666554433

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

Probab=97.86  E-value=2.9e-05  Score=52.77  Aligned_cols=59  Identities=25%  Similarity=0.275  Sum_probs=39.1

Q ss_pred             cCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          231 QNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      |+|++|+++++ +++.+ +.+.+..+++|++|+++++. ++.+. ++....      +++|++|++.++
T Consensus         1 p~L~~L~l~~n-~l~~i-~~~~f~~l~~L~~L~l~~N~-l~~i~-~~~f~~------l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEI-PPDSFSNLPNLETLDLSNNN-LTSIP-PDAFSN------LPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSS-TESEE-CTTTTTTGTTESEEEETSSS-ESEEE-TTTTTT------STTESEEEETSS
T ss_pred             CcCcEEECCCC-CCCcc-CHHHHcCCCCCCEeEccCCc-cCccC-HHHHcC------CCCCCEEeCcCC
Confidence            46777777775 77777 66777777777777777654 65552 333444      677777777665

...

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

Probab=97.82  E-value=3.4e-07  Score=80.42  Aligned_cols=40  Identities=30%  Similarity=0.260  Sum_probs=22.5

Q ss_pred             CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcc
Q 044144          229 RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCED  269 (356)
Q Consensus       229 ~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~  269 (356)
                      .+|+|..|++++|..+++- -...+-.++.|++|.+++|..
T Consensus       311 rcp~l~~LDLSD~v~l~~~-~~~~~~kf~~L~~lSlsRCY~  350 (419)
T KOG2120|consen  311 RCPNLVHLDLSDSVMLKND-CFQEFFKFNYLQHLSLSRCYD  350 (419)
T ss_pred             hCCceeeeccccccccCch-HHHHHHhcchheeeehhhhcC
Confidence            4566666666666655553 233444556666666666653

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

Probab=97.68  E-value=2.9e-05  Score=64.58  Aligned_cols=107  Identities=20%  Similarity=0.211  Sum_probs=36.8

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCC-CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFP-RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~-~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      +..++++|++.+++++.+.      .  ++ .+.+|+.|++++ +.++.+   ..+..++.|++|+++++. +..+.  +
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~--~   81 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIE------N--LGATLDKLEVLDLSN-NQITKL---EGLPGLPRLKTLDLSNNR-ISSIS--E   81 (175)
T ss_dssp             -------------------------S----TT-TT--EEE-TT-S--S-----TT----TT--EEE--SS----S-C--H
T ss_pred             ccccccccccccccccccc------c--hhhhhcCCCEEECCC-CCCccc---cCccChhhhhhcccCCCC-CCccc--c
Confidence            3457899999999888741      1  22 578999999987 577777   356678999999999976 65552  1


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      +..     ..+|+|++|++++. ++.++..-.....+|+|+.|++.++|
T Consensus        82 ~l~-----~~lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   82 GLD-----KNLPNLQELYLSNN-KISDLNELEPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             HHH-----HH-TT--EEE-TTS----SCCCCGGGGG-TT--EEE-TT-G
T ss_pred             chH-----HhCCcCCEEECcCC-cCCChHHhHHHHcCCCcceeeccCCc
Confidence            111     12889999999765 67666554444578999999888877

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

Probab=97.64  E-value=9.7e-06  Score=73.95  Aligned_cols=136  Identities=23%  Similarity=0.264  Sum_probs=80.7

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+|+|++|++++++++.+-..      .|.....++.|.+.+ +++..+ ...++..+..|+.|++.+.. ++-+. +
T Consensus       270 f~~L~~L~~lnlsnN~i~~i~~~------aFe~~a~l~eL~L~~-N~l~~v-~~~~f~~ls~L~tL~L~~N~-it~~~-~  339 (498)
T KOG4237|consen  270 FKKLPNLRKLNLSNNKITRIEDG------AFEGAAELQELYLTR-NKLEFV-SSGMFQGLSGLKTLSLYDNQ-ITTVA-P  339 (498)
T ss_pred             HhhcccceEeccCCCccchhhhh------hhcchhhhhhhhcCc-chHHHH-HHHhhhccccceeeeecCCe-eEEEe-c
Confidence            45577888888888877774333      255667788887755 677777 66788888888888888865 54442 2


Q ss_pred             CCCCcCcccccCCccCeeecccccc--------ceeec-----CCCCcCCCC---cccEEeeccCcCcccccccccCCCC
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPK--------LRCLY-----PGMHTSEWP---ALEIFSVFRCDKLKIFAADLSQNNE  340 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~--------L~~~~-----~~~~~~~~~---~L~~L~i~~C~~l~~l~~~~~~~~~  340 (356)
                      .....      +.+|.+|.+...|-        |.++-     .+.  ..|.   .++.+.|++-. +..+..++  ..+
T Consensus       340 ~aF~~------~~~l~~l~l~~Np~~CnC~l~wl~~Wlr~~~~~~~--~~Cq~p~~~~~~~~~dv~-~~~~~c~~--~ee  408 (498)
T KOG4237|consen  340 GAFQT------LFSLSTLNLLSNPFNCNCRLAWLGEWLRKKSVVGN--PRCQSPGFVRQIPISDVA-FGDFRCGG--PEE  408 (498)
T ss_pred             ccccc------cceeeeeehccCcccCccchHHHHHHHhhCCCCCC--CCCCCCchhccccchhcc-ccccccCC--ccc
Confidence            22222      55777777754432        11111     111  2232   36677777744 45555552  245


Q ss_pred             CCCCCCCCCCCCC
Q 044144          341 NDQLGIPAQQPPC  353 (356)
Q Consensus       341 ~~~~~~~~~~~~~  353 (356)
                      ..+..-+..+|.|
T Consensus       409 ~~~~~s~~cP~~c  421 (498)
T KOG4237|consen  409 LGCLTSSPCPPPC  421 (498)
T ss_pred             cCCCCCCCCCCCc
Confidence            5555555555544

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

Probab=97.56  E-value=3.2e-06  Score=82.14  Aligned_cols=39  Identities=23%  Similarity=0.332  Sum_probs=24.3

Q ss_pred             cCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           56 AFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        56 ~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      .+++|+.|.+.+|..+.+...... ....++|++|++++|
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~  224 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDAL-ALKCPNLEELDLSGC  224 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHH-HhhCchhheecccCc
Confidence            367777777777777665321111 134677888887773

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

Probab=97.45  E-value=1.9e-05  Score=72.09  Aligned_cols=57  Identities=19%  Similarity=0.107  Sum_probs=37.6

Q ss_pred             CceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccc
Q 044144           15 GIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWID   77 (356)
Q Consensus        15 ~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~   77 (356)
                      +++.+ ++..++.+++||+|+|+++ +|..|    .+.+...+++|-+|.+.+-.++++++.+
T Consensus        78 ~I~~i-P~~aF~~l~~LRrLdLS~N-~Is~I----~p~AF~GL~~l~~Lvlyg~NkI~~l~k~  134 (498)
T KOG4237|consen   78 QISSI-PPGAFKTLHRLRRLDLSKN-NISFI----APDAFKGLASLLSLVLYGNNKITDLPKG  134 (498)
T ss_pred             CcccC-Chhhccchhhhceeccccc-chhhc----ChHhhhhhHhhhHHHhhcCCchhhhhhh
Confidence            44443 5556778888999999887 77776    2334556666666766665666666543

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

Probab=96.97  E-value=0.00018  Score=63.71  Aligned_cols=86  Identities=24%  Similarity=0.336  Sum_probs=42.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|+++++.++.+....       ..+-+.++|.+.+ +.++++   +.++.+.+|..|++.++. ++..--.
T Consensus       325 La~L~~L~~LDLS~N~Ls~~~Gwh-------~KLGNIKtL~La~-N~iE~L---SGL~KLYSLvnLDl~~N~-Ie~ldeV  392 (490)
T KOG1259|consen  325 LAELPQLQLLDLSGNLLAECVGWH-------LKLGNIKTLKLAQ-NKIETL---SGLRKLYSLVNLDLSSNQ-IEELDEV  392 (490)
T ss_pred             hhhcccceEeecccchhHhhhhhH-------hhhcCEeeeehhh-hhHhhh---hhhHhhhhheeccccccc-hhhHHHh
Confidence            444566666666666444321000       1345556666654 445555   345566666666666643 4333111


Q ss_pred             CCCCcCcccccCCccCeeeccccc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      .+++.      +|.|+++.+.+.|
T Consensus       393 ~~IG~------LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  393 NHIGN------LPCLETLRLTGNP  410 (490)
T ss_pred             ccccc------ccHHHHHhhcCCC
Confidence            22232      6666666666554

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

Probab=96.96  E-value=0.00024  Score=62.95  Aligned_cols=124  Identities=15%  Similarity=0.128  Sum_probs=81.8

Q ss_pred             cceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCe
Q 044144          182 SSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQH  261 (356)
Q Consensus       182 ~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~  261 (356)
                      .++++...-..+-+++.-.|.++.|+++.+.+..+-      +  ++.+++|+.|++++ +.+..+  .+|-..+-+.++
T Consensus       288 elDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~------n--La~L~~L~~LDLS~-N~Ls~~--~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  288 ELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQ------N--LAELPQLQLLDLSG-NLLAEC--VGWHLKLGNIKT  356 (490)
T ss_pred             hccccccchhhhhhhhhhccceeEEeccccceeeeh------h--hhhcccceEeeccc-chhHhh--hhhHhhhcCEee
Confidence            333333333334445566799999999998777631      1  55788999999987 566665  266667788899


Q ss_pred             EEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          262 LEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       262 L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      |.+.++. ++.+   .+...      +-+|..|++++. ++..+-.-..-..+|+|+.+.+.+.|-
T Consensus       357 L~La~N~-iE~L---SGL~K------LYSLvnLDl~~N-~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  357 LKLAQNK-IETL---SGLRK------LYSLVNLDLSSN-QIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             eehhhhh-Hhhh---hhhHh------hhhheecccccc-chhhHHHhcccccccHHHHHhhcCCCc
Confidence            9998865 6555   33332      457888888765 444433222226789999999988773

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

Probab=96.83  E-value=0.00029  Score=71.15  Aligned_cols=105  Identities=16%  Similarity=0.171  Sum_probs=59.8

Q ss_pred             ccCCCcEEEEecCCCceEeecCCccccc-ccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchh
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVAC-DAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLS  105 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~-~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~  105 (356)
                      .-.+|+.|++++-..+    ..+++..+ ..||+|++|.+.+-.-..+. .. .-..+||||+.|+|+++ ++.++.-.+
T Consensus       120 sr~nL~~LdI~G~~~~----s~~W~~kig~~LPsL~sL~i~~~~~~~~d-F~-~lc~sFpNL~sLDIS~T-nI~nl~GIS  192 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELF----SNGWPKKIGTMLPSLRSLVISGRQFDNDD-FS-QLCASFPNLRSLDISGT-NISNLSGIS  192 (699)
T ss_pred             HHHhhhhcCccccchh----hccHHHHHhhhCcccceEEecCceecchh-HH-HHhhccCccceeecCCC-CccCcHHHh
Confidence            4578899999774322    22222233 36899999998884322221 11 12256899999999986 444443333


Q ss_pred             hhhcccc-------ccccccchhhhhcccccccCcccccccccccEEecCCCCC
Q 044144          106 TVVNHSS-------TVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPE  152 (356)
Q Consensus       106 ~ll~~L~-------~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  152 (356)
                      .+ ++|+       .+.....+.+             ...+.+|+.|+++.-..
T Consensus       193 ~L-knLq~L~mrnLe~e~~~~l~~-------------LF~L~~L~vLDIS~~~~  232 (699)
T KOG3665|consen  193 RL-KNLQVLSMRNLEFESYQDLID-------------LFNLKKLRVLDISRDKN  232 (699)
T ss_pred             cc-ccHHHHhccCCCCCchhhHHH-------------HhcccCCCeeecccccc
Confidence            33 3332       2222233333             44678888888876443

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

Probab=96.69  E-value=0.00036  Score=70.52  Aligned_cols=131  Identities=21%  Similarity=0.169  Sum_probs=82.2

Q ss_pred             cccccceeecCCcc--cccccc-ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhh
Q 044144          178 TTYSSSEITLDTST--LLFNEK-VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIG  254 (356)
Q Consensus       178 ~~l~~l~i~~~~~~--~l~~~~-~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~  254 (356)
                      ..+++|+|++....  .++..+ .-||+|+.|.+.+-.+..-+...     ...+||+|..|||+++ ++.++   .+.+
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~-----lc~sFpNL~sLDIS~T-nI~nl---~GIS  192 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQ-----LCASFPNLRSLDISGT-NISNL---SGIS  192 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHH-----HhhccCccceeecCCC-CccCc---HHHh
Confidence            45888888775532  122223 34799999999997443322111     2458899999999985 67777   5678


Q ss_pred             hcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceee--cCC--CCcCCCCcccEEeecc
Q 044144          255 SLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCL--YPG--MHTSEWPALEIFSVFR  324 (356)
Q Consensus       255 ~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~--~~~--~~~~~~~~L~~L~i~~  324 (356)
                      ++++|+.|.+.+-. ++.      .........+++|++|+++.=.+....  ...  .....+|.|+.|+.++
T Consensus       193 ~LknLq~L~mrnLe-~e~------~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  193 RLKNLQVLSMRNLE-FES------YQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             ccccHHHHhccCCC-CCc------hhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence            88999998888754 221      111112334889999999865443332  100  0013578888887774

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.07  E-value=0.0033  Score=55.87  Aligned_cols=38  Identities=11%  Similarity=-0.047  Sum_probs=21.3

Q ss_pred             cCcccceeeccccccccccccccccccCCCCccEEEEcc
Q 044144           56 AFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYN   94 (356)
Q Consensus        56 ~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~   94 (356)
                      ....++++++.+ ..+.+|.........+|.|+.|+++.
T Consensus        69 ~~~~v~elDL~~-N~iSdWseI~~ile~lP~l~~LNls~  106 (418)
T KOG2982|consen   69 SVTDVKELDLTG-NLISDWSEIGAILEQLPALTTLNLSC  106 (418)
T ss_pred             Hhhhhhhhhccc-chhccHHHHHHHHhcCccceEeeccC
Confidence            445667777666 44555532222234577777777754

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

Probab=95.87  E-value=0.0015  Score=62.70  Aligned_cols=107  Identities=21%  Similarity=0.276  Sum_probs=50.6

Q ss_pred             cCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcC
Q 044144          203 LEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEV  282 (356)
Q Consensus       203 L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~  282 (356)
                      |+.|.+.+++++.      +|. .++..+.|..|+++. +++..+ | ..++++.+|+.|.+...+ +..+.. +-..  
T Consensus       145 Lkvli~sNNkl~~------lp~-~ig~~~tl~~ld~s~-nei~sl-p-sql~~l~slr~l~vrRn~-l~~lp~-El~~--  210 (722)
T KOG0532|consen  145 LKVLIVSNNKLTS------LPE-EIGLLPTLAHLDVSK-NEIQSL-P-SQLGYLTSLRDLNVRRNH-LEDLPE-ELCS--  210 (722)
T ss_pred             ceeEEEecCcccc------CCc-ccccchhHHHhhhhh-hhhhhc-h-HHhhhHHHHHHHHHhhhh-hhhCCH-HHhC--
Confidence            5555555555555      222 122445555665543 344454 3 233445566666555544 333311 1111  


Q ss_pred             cccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          283 IPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       283 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                           + .|..|++ .|.++..+|...  ..++.|+.|.+.+.| |++-|.
T Consensus       211 -----L-pLi~lDf-ScNkis~iPv~f--r~m~~Lq~l~LenNP-LqSPPA  251 (722)
T KOG0532|consen  211 -----L-PLIRLDF-SCNKISYLPVDF--RKMRHLQVLQLENNP-LQSPPA  251 (722)
T ss_pred             -----C-ceeeeec-ccCceeecchhh--hhhhhheeeeeccCC-CCCChH
Confidence                 1 3444555 344666655554  455556666555444 555443

>PLN03150 hypothetical protein; Provisional

Probab=95.80  E-value=0.015  Score=58.77  Aligned_cols=110  Identities=13%  Similarity=0.176  Sum_probs=55.1

Q ss_pred             cCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcC
Q 044144          203 LEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEV  282 (356)
Q Consensus       203 L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~  282 (356)
                      ++.|.+.++.++..     +|. .+..+++|+.|+++++ ++....| ..++.+++|+.|+++++. +...+ ++.... 
T Consensus       420 v~~L~L~~n~L~g~-----ip~-~i~~L~~L~~L~Ls~N-~l~g~iP-~~~~~l~~L~~LdLs~N~-lsg~i-P~~l~~-  488 (623)
T PLN03150        420 IDGLGLDNQGLRGF-----IPN-DISKLRHLQSINLSGN-SIRGNIP-PSLGSITSLEVLDLSYNS-FNGSI-PESLGQ-  488 (623)
T ss_pred             EEEEECCCCCcccc-----CCH-HHhCCCCCCEEECCCC-cccCcCC-hHHhCCCCCCEEECCCCC-CCCCC-chHHhc-
Confidence            55666666655431     222 2446677777777664 3433324 334566777777777664 33221 222333 


Q ss_pred             cccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcc
Q 044144          283 IPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLK  329 (356)
Q Consensus       283 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~  329 (356)
                           +++|+.|++.++.--..+|... .....++..+++.+++.+.
T Consensus       489 -----L~~L~~L~Ls~N~l~g~iP~~l-~~~~~~~~~l~~~~N~~lc  529 (623)
T PLN03150        489 -----LTSLRILNLNGNSLSGRVPAAL-GGRLLHRASFNFTDNAGLC  529 (623)
T ss_pred             -----CCCCCEEECcCCcccccCChHH-hhccccCceEEecCCcccc
Confidence                 6677777776653222333321 1112344556666555443

>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=95.70  E-value=0.017  Score=36.14  Aligned_cols=33  Identities=21%  Similarity=0.194  Sum_probs=15.4

Q ss_pred             ccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           59 LLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        59 ~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      +|++|++.+ .++++++...   ..+++|+.|+++++
T Consensus         2 ~L~~L~l~~-N~i~~l~~~l---~~l~~L~~L~l~~N   34 (44)
T PF12799_consen    2 NLEELDLSN-NQITDLPPEL---SNLPNLETLNLSNN   34 (44)
T ss_dssp             T-SEEEETS-SS-SSHGGHG---TTCTTSSEEEETSS
T ss_pred             cceEEEccC-CCCcccCchH---hCCCCCCEEEecCC
Confidence            455555555 2444443212   34566666666655

...

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

Probab=95.48  E-value=0.017  Score=54.85  Aligned_cols=34  Identities=32%  Similarity=0.485  Sum_probs=14.9

Q ss_pred             CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEec
Q 044144          229 RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       229 ~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~  266 (356)
                      .+++++.|++.+ +.+.++ +.  +..+.+++.|++++
T Consensus       253 ~l~~l~~L~~s~-n~i~~i-~~--~~~~~~l~~L~~s~  286 (394)
T COG4886         253 NLSNLETLDLSN-NQISSI-SS--LGSLTNLRELDLSG  286 (394)
T ss_pred             cccccceecccc-cccccc-cc--ccccCccCEEeccC
Confidence            334455555543 344444 21  33444555555544

>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=95.40  E-value=0.015  Score=36.46  Aligned_cols=33  Identities=27%  Similarity=0.335  Sum_probs=13.1

Q ss_pred             ccCeeeccccccceeecCCCCcCCCCcccEEeeccC
Q 044144          290 QLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRC  325 (356)
Q Consensus       290 ~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C  325 (356)
                      +|++|+++++ ++++++...  ..+++|+.|++.++
T Consensus         2 ~L~~L~l~~N-~i~~l~~~l--~~l~~L~~L~l~~N   34 (44)
T PF12799_consen    2 NLEELDLSNN-QITDLPPEL--SNLPNLETLNLSNN   34 (44)
T ss_dssp             T-SEEEETSS-S-SSHGGHG--TTCTTSSEEEETSS
T ss_pred             cceEEEccCC-CCcccCchH--hCCCCCCEEEecCC
Confidence            3444444443 444443311  34444444444444

...

>PLN03150 hypothetical protein; Provisional

Probab=95.39  E-value=0.027  Score=56.83  Aligned_cols=37  Identities=16%  Similarity=0.114  Sum_probs=15.5

Q ss_pred             CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecC
Q 044144          229 RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       229 ~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  267 (356)
                      .+++|+.|+++++ ++....| ..++.+++|+.|+++++
T Consensus       464 ~l~~L~~LdLs~N-~lsg~iP-~~l~~L~~L~~L~Ls~N  500 (623)
T PLN03150        464 SITSLEVLDLSYN-SFNGSIP-ESLGQLTSLRILNLNGN  500 (623)
T ss_pred             CCCCCCEEECCCC-CCCCCCc-hHHhcCCCCCEEECcCC
Confidence            4444555554442 2322212 23334445555555444

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.38  E-value=0.0024  Score=53.54  Aligned_cols=71  Identities=15%  Similarity=0.241  Sum_probs=48.6

Q ss_pred             ccccccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCccc
Q 044144          194 FNEKVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDL  270 (356)
Q Consensus       194 ~~~~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l  270 (356)
                      +..+..+++++.|.+.+| .+.+ |.-..+..    -.++|+.|+|++|+++++- ..+.+..+++|+.|.+.+.+.+
T Consensus       118 le~L~~l~~i~~l~l~~ck~~dD-~~L~~l~~----~~~~L~~L~lsgC~rIT~~-GL~~L~~lknLr~L~l~~l~~v  189 (221)
T KOG3864|consen  118 LEHLRDLRSIKSLSLANCKYFDD-WCLERLGG----LAPSLQDLDLSGCPRITDG-GLACLLKLKNLRRLHLYDLPYV  189 (221)
T ss_pred             HHHHhccchhhhheeccccchhh-HHHHHhcc----cccchheeeccCCCeechh-HHHHHHHhhhhHHHHhcCchhh
Confidence            344556777888888888 6666 43331111    3477888888888888887 6677778888888888876544

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.31  E-value=0.0023  Score=53.63  Aligned_cols=71  Identities=15%  Similarity=0.134  Sum_probs=50.0

Q ss_pred             ccccCCCcEEEEecCCCceEeecCCccc-ccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCcccc
Q 044144           25 TEGFSQLKLLWVQNNPDFFCIVDSRAMV-ACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        25 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~-~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~  101 (356)
                      ..+++.++.|.+.+|..+...    ... ..+.+++|+.|++++|+++++-..  .....|+||+.|.+.+.+...+.
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~----~L~~l~~~~~~L~~L~lsgC~rIT~~GL--~~L~~lknLr~L~l~~l~~v~~~  192 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDW----CLERLGGLAPSLQDLDLSGCPRITDGGL--ACLLKLKNLRRLHLYDLPYVANL  192 (221)
T ss_pred             HhccchhhhheeccccchhhH----HHHHhcccccchheeeccCCCeechhHH--HHHHHhhhhHHHHhcCchhhhch
Confidence            346778888888888766532    111 233678999999999999887632  33356899999999887665543

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

Probab=95.15  E-value=0.028  Score=53.36  Aligned_cols=40  Identities=25%  Similarity=0.270  Sum_probs=30.9

Q ss_pred             ccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccC
Q 044144          194 FNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHC  241 (356)
Q Consensus       194 ~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c  241 (356)
                      +..+..+++++.|++.++.++++      +.  +..+.+++.|++++-
T Consensus       248 ~~~~~~l~~l~~L~~s~n~i~~i------~~--~~~~~~l~~L~~s~n  287 (394)
T COG4886         248 PESIGNLSNLETLDLSNNQISSI------SS--LGSLTNLRELDLSGN  287 (394)
T ss_pred             cchhccccccceecccccccccc------cc--ccccCccCEEeccCc
Confidence            45567788899999999988883      22  446789999999773

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

Probab=95.09  E-value=0.039  Score=46.51  Aligned_cols=38  Identities=21%  Similarity=0.186  Sum_probs=15.9

Q ss_pred             CcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          230 FQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       230 l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +|+|..|.+.+ ++++.+....-+..||+|+.|.+-+.+
T Consensus        87 ~p~l~~L~Ltn-Nsi~~l~dl~pLa~~p~L~~Ltll~Np  124 (233)
T KOG1644|consen   87 LPNLKTLILTN-NSIQELGDLDPLASCPKLEYLTLLGNP  124 (233)
T ss_pred             ccccceEEecC-cchhhhhhcchhccCCccceeeecCCc
Confidence            34455555443 233333222233344555555554443

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

Probab=94.99  E-value=0.00027  Score=69.51  Aligned_cols=17  Identities=24%  Similarity=0.645  Sum_probs=13.4

Q ss_pred             ccCCCCccEEEEccCCC
Q 044144           81 VESFNELKIIQAYNCDK   97 (356)
Q Consensus        81 ~~~l~~L~~L~l~~c~~   97 (356)
                      ...|.+||.|.+.+|+-
T Consensus       105 ifpF~sLr~LElrg~~L  121 (1096)
T KOG1859|consen  105 IFPFRSLRVLELRGCDL  121 (1096)
T ss_pred             eccccceeeEEecCcch
Confidence            34588999999999854

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

Probab=94.51  E-value=0.001  Score=65.61  Aligned_cols=18  Identities=22%  Similarity=0.137  Sum_probs=11.7

Q ss_pred             cccccCcccceeeccccc
Q 044144           52 VACDAFPLLESLILHNLI   69 (356)
Q Consensus        52 ~~~~~~~~L~~L~l~~~~   69 (356)
                      ..+..|.+|+.|.+.+|.
T Consensus       103 i~ifpF~sLr~LElrg~~  120 (1096)
T KOG1859|consen  103 ISIFPFRSLRVLELRGCD  120 (1096)
T ss_pred             ceeccccceeeEEecCcc
Confidence            355566677777777764

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

Probab=94.49  E-value=0.012  Score=51.28  Aligned_cols=118  Identities=14%  Similarity=0.160  Sum_probs=71.1

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCc-CccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCN-KLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~-~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      .+..|+.|.+.++.++++      .  .++.+|+|++|.++.-+ ....-++ -.+..+|+|++|+++++. ++.+-.-.
T Consensus        41 ~~~~le~ls~~n~gltt~------~--~~P~Lp~LkkL~lsdn~~~~~~~l~-vl~e~~P~l~~l~ls~Nk-i~~lstl~  110 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTL------T--NFPKLPKLKKLELSDNYRRVSGGLE-VLAEKAPNLKVLNLSGNK-IKDLSTLR  110 (260)
T ss_pred             cccchhhhhhhccceeec------c--cCCCcchhhhhcccCCcccccccce-ehhhhCCceeEEeecCCc-cccccccc
Confidence            456777777777766652      1  25567889999886421 2222112 233456999999999865 43332222


Q ss_pred             CCCcCcccccCCccCeeeccccccceee-cCCCCcCCCCcccEEeeccCcCccccc
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCL-YPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~-~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      ....      +.+|..|.+.+|+-...- ....++.-+|+|.+++-.++..-+.-+
T Consensus       111 pl~~------l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~~~Ea~~  160 (260)
T KOG2739|consen  111 PLKE------LENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVDGEEAPE  160 (260)
T ss_pred             hhhh------hcchhhhhcccCCccccccHHHHHHHHhhhhccccccccCCccccc
Confidence            2333      677888888888654411 122344567888888877777655443

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

Probab=94.41  E-value=0.0021  Score=61.74  Aligned_cols=144  Identities=20%  Similarity=0.218  Sum_probs=100.7

Q ss_pred             ccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCC
Q 044144          181 SSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQ  260 (356)
Q Consensus       181 ~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~  260 (356)
                      +.+.+.......++..+..+..|+.|+++.+++..      +|...  ++--|+.|.+++ ++++.+ |..+. ..++|.
T Consensus       101 e~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~------lp~~l--C~lpLkvli~sN-Nkl~~l-p~~ig-~~~tl~  169 (722)
T KOG0532|consen  101 ESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSH------LPDGL--CDLPLKVLIVSN-NKLTSL-PEEIG-LLPTLA  169 (722)
T ss_pred             HHHHHHhccceecchhhhhhhHHHHhhhccchhhc------CChhh--hcCcceeEEEec-CccccC-Ccccc-cchhHH
Confidence            33333333344466777888899999999987777      44322  445689998876 799998 76665 788999


Q ss_pred             eEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccccccCCCC
Q 044144          261 HLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNE  340 (356)
Q Consensus       261 ~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~~~~~  340 (356)
                      +|+.+.|. +..+.  ....+      +.+|+.|.++.. ++..++...  . .=.|..|+++ |.++..+|.+...+.-
T Consensus       170 ~ld~s~ne-i~slp--sql~~------l~slr~l~vrRn-~l~~lp~El--~-~LpLi~lDfS-cNkis~iPv~fr~m~~  235 (722)
T KOG0532|consen  170 HLDVSKNE-IQSLP--SQLGY------LTSLRDLNVRRN-HLEDLPEEL--C-SLPLIRLDFS-CNKISYLPVDFRKMRH  235 (722)
T ss_pred             Hhhhhhhh-hhhch--HHhhh------HHHHHHHHHhhh-hhhhCCHHH--h-CCceeeeecc-cCceeecchhhhhhhh
Confidence            99999886 54552  33333      778988888765 666776654  2 3357888876 8999999998876666


Q ss_pred             CCCCCCCCC
Q 044144          341 NDQLGIPAQ  349 (356)
Q Consensus       341 ~~~~~~~~~  349 (356)
                      .+.+.+-++
T Consensus       236 Lq~l~LenN  244 (722)
T KOG0532|consen  236 LQVLQLENN  244 (722)
T ss_pred             heeeeeccC
Confidence            666655543

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

Probab=93.87  E-value=0.32  Score=37.83  Aligned_cols=14  Identities=14%  Similarity=0.294  Sum_probs=5.0

Q ss_pred             hhhhhcCCCCeEEE
Q 044144          251 SMIGSLKHLQHLEV  264 (356)
Q Consensus       251 ~~~~~l~~L~~L~i  264 (356)
                      ..+..+++++.+.+
T Consensus        52 ~~F~~~~~l~~i~~   65 (129)
T PF13306_consen   52 NAFSNCKSLESITF   65 (129)
T ss_dssp             TTTTT-TT-EEEEE
T ss_pred             eeeecccccccccc
Confidence            33334444444444

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.70  E-value=0.0055  Score=53.97  Aligned_cols=64  Identities=19%  Similarity=0.228  Sum_probs=43.7

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCccc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDL  270 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l  270 (356)
                      ..+|.|+.|.++-++++++      ..  +..+++|+.|.+.. +.+.++-....+.++|+|+.|.|.+++.-
T Consensus        38 ~kMp~lEVLsLSvNkIssL------~p--l~rCtrLkElYLRk-N~I~sldEL~YLknlpsLr~LWL~ENPCc  101 (388)
T KOG2123|consen   38 EKMPLLEVLSLSVNKISSL------AP--LQRCTRLKELYLRK-NCIESLDELEYLKNLPSLRTLWLDENPCC  101 (388)
T ss_pred             HhcccceeEEeeccccccc------hh--HHHHHHHHHHHHHh-cccccHHHHHHHhcCchhhhHhhccCCcc
Confidence            4467777777777776662      21  45677788777764 45666545567778888888888877654

>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=92.60  E-value=0.094  Score=25.44  Aligned_cols=16  Identities=13%  Similarity=0.164  Sum_probs=6.6

Q ss_pred             cccEEeeccCcCccccc
Q 044144          316 ALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       316 ~L~~L~i~~C~~l~~l~  332 (356)
                      +|+.|++++|. ++.+|
T Consensus         2 ~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             T-SEEEETSS---SSE-
T ss_pred             ccCEEECCCCC-CCCCc
Confidence            45555555555 55544

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.31  E-value=0.05  Score=48.60  Aligned_cols=122  Identities=17%  Similarity=0.128  Sum_probs=68.7

Q ss_pred             cccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccce
Q 044144          193 LFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQE  272 (356)
Q Consensus       193 l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~  272 (356)
                      .+..+.++|.|+.|+|+.+.+... ... .|.    ...+|++|-+.+ ..+..--..+....+|.+++|.++++.--.-
T Consensus        89 I~~ile~lP~l~~LNls~N~L~s~-I~~-lp~----p~~nl~~lVLNg-T~L~w~~~~s~l~~lP~vtelHmS~N~~rq~  161 (418)
T KOG2982|consen   89 IGAILEQLPALTTLNLSCNSLSSD-IKS-LPL----PLKNLRVLVLNG-TGLSWTQSTSSLDDLPKVTELHMSDNSLRQL  161 (418)
T ss_pred             HHHHHhcCccceEeeccCCcCCCc-ccc-Ccc----cccceEEEEEcC-CCCChhhhhhhhhcchhhhhhhhccchhhhh
Confidence            344457789999999998866652 111 221    346788887755 4444432345566788888888887642222


Q ss_pred             eeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          273 IISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       273 i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ....+.+..     .-|.+++|.+..|+...-.........+|++..+-+..||
T Consensus       162 n~Dd~c~e~-----~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~P  210 (418)
T KOG2982|consen  162 NLDDNCIED-----WSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGP  210 (418)
T ss_pred             ccccccccc-----cchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCc
Confidence            211111111     1246666777666554333332223556777776666665

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

Probab=91.54  E-value=0.063  Score=51.41  Aligned_cols=60  Identities=27%  Similarity=0.312  Sum_probs=33.0

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +..+++|+.|+++++++++++.        +..++.|+.|++.+ +.+.++   ..+..++.|+.+++.++.
T Consensus       114 l~~~~~L~~L~ls~N~I~~i~~--------l~~l~~L~~L~l~~-N~i~~~---~~~~~l~~L~~l~l~~n~  173 (414)
T KOG0531|consen  114 LSSLVNLQVLDLSFNKITKLEG--------LSTLTLLKELNLSG-NLISDI---SGLESLKSLKLLDLSYNR  173 (414)
T ss_pred             hhhhhcchheeccccccccccc--------hhhccchhhheecc-Ccchhc---cCCccchhhhcccCCcch
Confidence            4556666666666666665321        22445566666655 344444   223335666666666654

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

Probab=91.00  E-value=2.2  Score=32.96  Aligned_cols=60  Identities=13%  Similarity=0.238  Sum_probs=29.2

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEec
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~  266 (356)
                      ...+++|+.+.+.+. ++.+      +...|..+++|+.+.+.+  .+..+ +...+..+++|+.+.+..
T Consensus        31 F~~~~~l~~i~~~~~-~~~i------~~~~F~~~~~l~~i~~~~--~~~~i-~~~~F~~~~~l~~i~~~~   90 (129)
T PF13306_consen   31 FSNCTSLKSINFPNN-LTSI------GDNAFSNCKSLESITFPN--NLKSI-GDNAFSNCTNLKNIDIPS   90 (129)
T ss_dssp             TTT-TT-SEEEESST-TSCE-------TTTTTT-TT-EEEEETS--TT-EE--TTTTTT-TTECEEEETT
T ss_pred             ccccccccccccccc-cccc------ceeeeecccccccccccc--ccccc-ccccccccccccccccCc
Confidence            344556777766653 3332      222355666677777743  44444 445555667777776643

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

Probab=89.64  E-value=0.73  Score=39.04  Aligned_cols=13  Identities=31%  Similarity=0.529  Sum_probs=7.5

Q ss_pred             ccccccEEecCCC
Q 044144          138 ELAQLRYLSLGNL  150 (356)
Q Consensus       138 ~~~~L~~L~l~~~  150 (356)
                      .+|+|+.|+.++.
T Consensus       138 klp~l~~LDF~kV  150 (233)
T KOG1644|consen  138 KLPSLRTLDFQKV  150 (233)
T ss_pred             ecCcceEeehhhh
Confidence            3466666666554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.46  E-value=0.04  Score=48.75  Aligned_cols=104  Identities=19%  Similarity=0.179  Sum_probs=68.1

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENR  278 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~  278 (356)
                      .+.+.++|+.+||.++++-...        .++.|+.|.++= +++..+   +-+..|++|++|++..+. ++.+   +.
T Consensus        17 dl~~vkKLNcwg~~L~DIsic~--------kMp~lEVLsLSv-NkIssL---~pl~rCtrLkElYLRkN~-I~sl---dE   80 (388)
T KOG2123|consen   17 DLENVKKLNCWGCGLDDISICE--------KMPLLEVLSLSV-NKISSL---APLQRCTRLKELYLRKNC-IESL---DE   80 (388)
T ss_pred             HHHHhhhhcccCCCccHHHHHH--------hcccceeEEeec-cccccc---hhHHHHHHHHHHHHHhcc-cccH---HH
Confidence            3678999999999998864333        678899998863 677777   456788999999998753 4333   11


Q ss_pred             CCcCcccccCCccCeeeccccccceeecCCC---CcCCCCcccEEe
Q 044144          279 ADEVIPYFVFPQLTTLILQYLPKLRCLYPGM---HTSEWPALEIFS  321 (356)
Q Consensus       279 ~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~---~~~~~~~L~~L~  321 (356)
                      ...   ...+|+|++|-|...|=-..-+...   ....+|+|++|+
T Consensus        81 L~Y---LknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   81 LEY---LKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HHH---HhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            111   1227788888777665443332221   113567777775

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

Probab=86.69  E-value=0.18  Score=48.37  Aligned_cols=106  Identities=16%  Similarity=0.164  Sum_probs=65.8

Q ss_pred             ccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeE
Q 044144          136 KIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDK  215 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~  215 (356)
                      ...+.+|+.+.+.+- +++.+...              ...+..+.++.++...-. -...+..++.|+.|++.+|.++.
T Consensus        91 l~~~~~l~~l~l~~n-~i~~i~~~--------------l~~~~~L~~L~ls~N~I~-~i~~l~~l~~L~~L~l~~N~i~~  154 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDN-KIEKIENL--------------LSSLVNLQVLDLSFNKIT-KLEGLSTLTLLKELNLSGNLISD  154 (414)
T ss_pred             cccccceeeeecccc-chhhcccc--------------hhhhhcchheeccccccc-cccchhhccchhhheeccCcchh
Confidence            456777777777662 33332220              124555777776655421 22334556779999999998877


Q ss_pred             EcccCCCCCCCCCCCcCccEEeeccCcCccccchh-hhhhhcCCCCeEEEecCc
Q 044144          216 IWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSA-SMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       216 ~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~-~~~~~l~~L~~L~i~~c~  268 (356)
                      +      +.  +..+++|+.+++.++ .+..+ .. . ...+.+++.+.+.+..
T Consensus       155 ~------~~--~~~l~~L~~l~l~~n-~i~~i-e~~~-~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  155 I------SG--LESLKSLKLLDLSYN-RIVDI-ENDE-LSELISLEELDLGGNS  197 (414)
T ss_pred             c------cC--CccchhhhcccCCcc-hhhhh-hhhh-hhhccchHHHhccCCc
Confidence            3      22  445788899988774 55555 22 1 4667888888888875

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

Probab=85.48  E-value=0.56  Score=41.15  Aligned_cols=68  Identities=18%  Similarity=0.263  Sum_probs=48.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCcc--ccchhhhhhhcCCCCeEEEecCccc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLK--YIFSASMIGSLKHLQHLEVRFCEDL  270 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~--~l~~~~~~~~l~~L~~L~i~~c~~l  270 (356)
                      +..+|+|+.+.++++++..+-  . ++.  +..+.+|..|++.+|+-..  +- -..++.-+++|+.|+-.++..-
T Consensus        87 ~e~~P~l~~l~ls~Nki~~ls--t-l~p--l~~l~nL~~Ldl~n~~~~~l~dy-re~vf~ll~~L~~LD~~dv~~~  156 (260)
T KOG2739|consen   87 AEKAPNLKVLNLSGNKIKDLS--T-LRP--LKELENLKSLDLFNCSVTNLDDY-REKVFLLLPSLKYLDGCDVDGE  156 (260)
T ss_pred             hhhCCceeEEeecCCcccccc--c-cch--hhhhcchhhhhcccCCccccccH-HHHHHHHhhhhccccccccCCc
Confidence            345699999999999665421  1 222  4577899999999987543  33 4566778899999988887654

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

Probab=85.27  E-value=0.52  Score=25.52  Aligned_cols=17  Identities=24%  Similarity=0.301  Sum_probs=12.2

Q ss_pred             cCccEEeeccCcCcccc
Q 044144          231 QNLTRLIVWHCNKLKYI  247 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l  247 (356)
                      ++|++|++++|+++++.
T Consensus         2 ~~L~~L~l~~C~~itD~   18 (26)
T smart00367        2 PNLRELDLSGCTNITDE   18 (26)
T ss_pred             CCCCEeCCCCCCCcCHH
Confidence            56777777777777665

>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=82.60  E-value=0.82  Score=23.64  Aligned_cols=18  Identities=17%  Similarity=0.211  Sum_probs=11.4

Q ss_pred             cccEEeeccCcCccccccc
Q 044144          316 ALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       316 ~L~~L~i~~C~~l~~l~~~  334 (356)
                      +|++|++++| +++.+|.+
T Consensus         1 ~L~~Ldls~n-~l~~ip~~   18 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSS   18 (22)
T ss_dssp             TESEEEETSS-EESEEGTT
T ss_pred             CccEEECCCC-cCEeCChh
Confidence            3666777776 66666654

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 ....

---

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	356
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06

>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 = 51.0 bits (121), Expect = 4e-07
 Identities = 50/279 (17%), Positives = 77/279 (27%), Gaps = 98/279 (35%)

Query: 11  DKLQGIENVLFNLD--TEGFSQ---LKLL--WVQNNPDFFCIVDSRAMVACDAFPLLESL 63
           D L        +LD  +   +      LL  ++       C             P   S+
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD------CRPQDLPREVLTTNPRRLSI 332

Query: 64  ILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEI 123
           I  ++ +    W D  K             NCDKL+ I                      
Sbjct: 333 IAESIRDGLATW-DNWK-----------HVNCDKLTTI---------------------- 358

Query: 124 FAIGEEVDNSIEKIELAQLR--YLSLGNLPEVTSFCREVKTPSA---------SPNRPAS 172
                 +++S+  +E A+ R  +  L   P           P+            +    
Sbjct: 359 ------IESSLNVLEPAEYRKMFDRLSVFPP------SAHIPTILLSLIWFDVIKSDVMV 406

Query: 173 QEESTTTYSSSEITLDTST-----LLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVF 227
                  YS  E     ST     +    KV L N  AL  S ++     HYN IP    
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD-----HYN-IPKTFD 460

Query: 228 PRFQNLTRLIVWHCNKL---KYIFSASMIGSLKHLQHLE 263
                               +Y +  S IG   HL+++E
Sbjct: 461 S----------DDLIPPYLDQYFY--SHIG--HHLKNIE 485

>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 = 48.7 bits (115), Expect = 2e-06
 Identities = 55/363 (15%), Positives = 106/363 (29%), Gaps = 104/363 (28%)

Query: 9   WL-DKLQGIENVLFNLDTEGF-SQLKLLWVQNNPDFFCIVD-SRAMVACDAFPLLESLI- 64
           +L   ++  E    ++ T  +  Q   L+  N+   F   + SR             L  
Sbjct: 93  FLMSPIK-TEQRQPSMMTRMYIEQRDRLY--NDNQVFAKYNVSRL-------QPYLKLRQ 142

Query: 65  -LHNLINMERIWID--------QLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVV 115
            L  L   + + ID         + ++     K+    +      IFWL         + 
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF----KIFWL--------NLK 190

Query: 116 NCSKMKEIFAI------------GEEVDNS------IEKIELAQLRYLSLGNLPE----- 152
           NC+  + +  +                D+S      I  I+    R L            
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250

Query: 153 --------VTSF---CREVKT---------PSASPNRPASQEESTTTYSSSEITLDTSTL 192
                     +F   C+ + T          SA+     S +  + T +  E        
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE-VKSLLLK 309

Query: 193 LFNEKVA-LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSAS 251
             + +   LP  E L  +   +  I    +   A +  ++++       C+KL  I  + 
Sbjct: 310 YLDCRPQDLPR-EVLTTNPRRLSIIAESIRDGLATWDNWKHVN------CDKLTTIIES- 361

Query: 252 MIGSLKHLQHLEVRFC-EDLQEIISENRADEVIPYFVFPQL--------TTLILQYLPKL 302
              SL  L+  E R   + L  +         IP  +   +          +++  L K 
Sbjct: 362 ---SLNVLEPAEYRKMFDRL-SVFPP---SAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414

Query: 303 RCL 305
             +
Sbjct: 415 SLV 417

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	356
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.75
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.73
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.7
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.7
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.68
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.66
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.66
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.66
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.65
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.65
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.65
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.65
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.64
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.64
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.64
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.63
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.63
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.63
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.62
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.62
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.62
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.61
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.61
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.6
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.59
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.58
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.58
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.58
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.58
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.57
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.56
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.56
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.56
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.55
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.55
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.55
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.55
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.55
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.54
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.54
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.54
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.53
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.51
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.49
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.49
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.49
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.48
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.48
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.48
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.47
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.47
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.46
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.46
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.46
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.44
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.43
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.43
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.42
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.42
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.41
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.41
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.41
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.39
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.39
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.39
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.38
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.38
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.35
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.35
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.35
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.34
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.33
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.33
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.32
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.32
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.32
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.31
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.29
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.28
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.27
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.26
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.21
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.2
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.19
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.17
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.14
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.12
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.11
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.06
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.01
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.01
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.0
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.99
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.98
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.94
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.93
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.92
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.92
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.9
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.89
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.87
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.87
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.86
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.82
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.81
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.8
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.78
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.78
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.75
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.75
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.74
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.72
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.72
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.66
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.65
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.65
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.62
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.6
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.6
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.59
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.59
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.57
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.53
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.47
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.44
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.44
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.44
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.4
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.37
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.32
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.29
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.2
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.19
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.12
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.1
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.03
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.99
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.9
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.85
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	97.85
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.8
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	97.8
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.71
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.68
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.38
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.35
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.29
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	97.15
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.12
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	97.07
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	96.28
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.46
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	94.47
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.76
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	92.96
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	92.48
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	85.18

>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=99.75  E-value=3.9e-17  Score=150.75  Aligned_cols=154  Identities=17%  Similarity=0.180  Sum_probs=87.0

Q ss_pred             ccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeE
Q 044144          136 KIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDK  215 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~  215 (356)
                      +..+++|++|+++++. ++.++.               ...+..++.+.++.+.-..... +..+++|+.|++.+|+++.
T Consensus       173 ~~~l~~L~~L~l~~n~-l~~~~~---------------~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~~n~l~~  235 (347)
T 4fmz_A          173 IANLTDLYSLSLNYNQ-IEDISP---------------LASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIGNNKITD  235 (347)
T ss_dssp             GGGCTTCSEEECTTSC-CCCCGG---------------GGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCC
T ss_pred             hccCCCCCEEEccCCc-cccccc---------------ccCCCccceeecccCCCCCCch-hhcCCcCCEEEccCCccCC
Confidence            4566778888877753 222221               1133345666665554322222 5567777777777776655


Q ss_pred             EcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeee
Q 044144          216 IWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLI  295 (356)
Q Consensus       216 ~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~  295 (356)
                            .+.  +..+++|+.|++++| .+..+   ..+..+++|+.|++++|. +..+   .....      +++|++|+
T Consensus       236 ------~~~--~~~l~~L~~L~l~~n-~l~~~---~~~~~l~~L~~L~l~~n~-l~~~---~~~~~------l~~L~~L~  293 (347)
T 4fmz_A          236 ------LSP--LANLSQLTWLEIGTN-QISDI---NAVKDLTKLKMLNVGSNQ-ISDI---SVLNN------LSQLNSLF  293 (347)
T ss_dssp             ------CGG--GTTCTTCCEEECCSS-CCCCC---GGGTTCTTCCEEECCSSC-CCCC---GGGGG------CTTCSEEE
T ss_pred             ------Ccc--hhcCCCCCEEECCCC-ccCCC---hhHhcCCCcCEEEccCCc-cCCC---hhhcC------CCCCCEEE
Confidence                  222  446677777777765 45554   235566777777777764 4443   12222      66777777


Q ss_pred             ccccccceeecCCCCcCCCCcccEEeeccCcCcccc
Q 044144          296 LQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIF  331 (356)
Q Consensus       296 l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l  331 (356)
                      +.+| .++...... ...+++|+.|++.+|+ ++.+
T Consensus       294 L~~n-~l~~~~~~~-l~~l~~L~~L~L~~n~-l~~~  326 (347)
T 4fmz_A          294 LNNN-QLGNEDMEV-IGGLTNLTTLFLSQNH-ITDI  326 (347)
T ss_dssp             CCSS-CCCGGGHHH-HHTCTTCSEEECCSSS-CCCC
T ss_pred             CcCC-cCCCcChhH-hhccccCCEEEccCCc-cccc
Confidence            7776 343332221 1456777777777776 4443

>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=99.73  E-value=8.1e-16  Score=147.12  Aligned_cols=136  Identities=16%  Similarity=0.191  Sum_probs=98.3

Q ss_pred             cccccceeecCCccc-cccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhc
Q 044144          178 TTYSSSEITLDTSTL-LFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSL  256 (356)
Q Consensus       178 ~~l~~l~i~~~~~~~-l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l  256 (356)
                      ..++.++++.+.-.. .+..+..+++|+.|++.+|+++.+     .| ..+..+++|+.|+++++ .+..+ +...+..+
T Consensus       275 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~-----~~-~~~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l  346 (455)
T 3v47_A          275 SGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKI-----DD-NAFWGLTHLLKLNLSQN-FLGSI-DSRMFENL  346 (455)
T ss_dssp             SCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEE-----CT-TTTTTCTTCCEEECCSS-CCCEE-CGGGGTTC
T ss_pred             cCceEEEecCccccccchhhcccCCCCCEEECCCCccccc-----Ch-hHhcCcccCCEEECCCC-ccCCc-ChhHhcCc
Confidence            357777777766433 455577789999999999988774     22 23667899999999885 66666 55677888


Q ss_pred             CCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccc
Q 044144          257 KHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIF  331 (356)
Q Consensus       257 ~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l  331 (356)
                      ++|++|++++|. +..+. +.....      +++|++|++.++ +++.++... +..+++|++|++.+++--...
T Consensus       347 ~~L~~L~Ls~N~-l~~~~-~~~~~~------l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~l~~N~l~~~~  411 (455)
T 3v47_A          347 DKLEVLDLSYNH-IRALG-DQSFLG------LPNLKELALDTN-QLKSVPDGI-FDRLTSLQKIWLHTNPWDCSC  411 (455)
T ss_dssp             TTCCEEECCSSC-CCEEC-TTTTTT------CTTCCEEECCSS-CCSCCCTTT-TTTCTTCCEEECCSSCBCCCT
T ss_pred             ccCCEEECCCCc-ccccC-hhhccc------cccccEEECCCC-ccccCCHhH-hccCCcccEEEccCCCcccCC
Confidence            999999999986 65553 334444      889999999886 788776653 257889999999876643333

>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=99.70  E-value=2.3e-16  Score=144.82  Aligned_cols=58  Identities=7%  Similarity=-0.031  Sum_probs=31.9

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      .++++.|+++++ +++.+     +..++.+++|++|+++++ .+..+|...   ..+++|++|+++++
T Consensus        80 ~~~l~~L~L~~n-~l~~l-----p~~l~~l~~L~~L~L~~n-~l~~lp~~~---~~l~~L~~L~Ls~n  137 (328)
T 4fcg_A           80 QPGRVALELRSV-PLPQF-----PDQAFRLSHLQHMTIDAA-GLMELPDTM---QQFAGLETLTLARN  137 (328)
T ss_dssp             STTCCEEEEESS-CCSSC-----CSCGGGGTTCSEEEEESS-CCCCCCSCG---GGGTTCSEEEEESC
T ss_pred             ccceeEEEccCC-Cchhc-----ChhhhhCCCCCEEECCCC-CccchhHHH---hccCCCCEEECCCC
Confidence            356666666665 44433     223445666666666663 344444322   44666666666665

>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=99.70  E-value=4.9e-16  Score=143.39  Aligned_cols=254  Identities=13%  Similarity=0.176  Sum_probs=173.8

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.|++.++. +..+ .  .+..+++|++|++++| .++.+      .....+++|++|+++++ .++.++    ..
T Consensus        43 l~~L~~L~l~~~~-i~~~-~--~~~~~~~L~~L~l~~n-~i~~~------~~~~~l~~L~~L~L~~n-~i~~~~----~~  106 (347)
T 4fmz_A           43 LESITKLVVAGEK-VASI-Q--GIEYLTNLEYLNLNGN-QITDI------SPLSNLVKLTNLYIGTN-KITDIS----AL  106 (347)
T ss_dssp             HTTCSEEECCSSC-CCCC-T--TGGGCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSS-CCCCCG----GG
T ss_pred             cccccEEEEeCCc-cccc-h--hhhhcCCccEEEccCC-ccccc------hhhhcCCcCCEEEccCC-cccCch----HH
Confidence            4577888887753 3332 1  3557889999999888 56544      22677888999998886 566553    13


Q ss_pred             cCCCCccEEEEccCCCccccCchhhh--hccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecC
Q 044144           82 ESFNELKIIQAYNCDKLSNIFWLSTV--VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCRE  159 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~l~~l--l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  159 (356)
                      ..+++|++|+++++. +..++.+..+  |+.| .+++|..+..++.          +..+++|++|.++++.- ..... 
T Consensus       107 ~~l~~L~~L~l~~n~-i~~~~~~~~l~~L~~L-~l~~n~~~~~~~~----------~~~l~~L~~L~l~~~~~-~~~~~-  172 (347)
T 4fmz_A          107 QNLTNLRELYLNEDN-ISDISPLANLTKMYSL-NLGANHNLSDLSP----------LSNMTGLNYLTVTESKV-KDVTP-  172 (347)
T ss_dssp             TTCTTCSEEECTTSC-CCCCGGGTTCTTCCEE-ECTTCTTCCCCGG----------GTTCTTCCEEECCSSCC-CCCGG-
T ss_pred             cCCCcCCEEECcCCc-ccCchhhccCCceeEE-ECCCCCCcccccc----------hhhCCCCcEEEecCCCc-CCchh-
Confidence            568899999998874 4444333333  1444 7777766555543          55678888888887642 22211 


Q ss_pred             CCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeec
Q 044144          160 VKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVW  239 (356)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~  239 (356)
                                    ...+..++.++++.+.-..... +..+++|+.|.+.++.++.+      +.  +..+++|++|+++
T Consensus       173 --------------~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~------~~--~~~~~~L~~L~l~  229 (347)
T 4fmz_A          173 --------------IANLTDLYSLSLNYNQIEDISP-LASLTSLHYFTAYVNQITDI------TP--VANMTRLNSLKIG  229 (347)
T ss_dssp             --------------GGGCTTCSEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCC------GG--GGGCTTCCEEECC
T ss_pred             --------------hccCCCCCEEEccCCccccccc-ccCCCccceeecccCCCCCC------ch--hhcCCcCCEEEcc
Confidence                          1144557888887776443333 67789999999999877662      22  4578999999998


Q ss_pred             cCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccE
Q 044144          240 HCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEI  319 (356)
Q Consensus       240 ~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~  319 (356)
                      +| .+..+ +.  +..+++|++|++++|. +..+   .....      +++|++|++.+| +++.++.   ...+++|+.
T Consensus       230 ~n-~l~~~-~~--~~~l~~L~~L~l~~n~-l~~~---~~~~~------l~~L~~L~l~~n-~l~~~~~---~~~l~~L~~  291 (347)
T 4fmz_A          230 NN-KITDL-SP--LANLSQLTWLEIGTNQ-ISDI---NAVKD------LTKLKMLNVGSN-QISDISV---LNNLSQLNS  291 (347)
T ss_dssp             SS-CCCCC-GG--GTTCTTCCEEECCSSC-CCCC---GGGTT------CTTCCEEECCSS-CCCCCGG---GGGCTTCSE
T ss_pred             CC-ccCCC-cc--hhcCCCCCEEECCCCc-cCCC---hhHhc------CCCcCEEEccCC-ccCCChh---hcCCCCCCE
Confidence            86 56666 42  6788999999999985 5554   22333      889999999988 6777643   267899999


Q ss_pred             EeeccCc
Q 044144          320 FSVFRCD  326 (356)
Q Consensus       320 L~i~~C~  326 (356)
                      |++.+|.
T Consensus       292 L~L~~n~  298 (347)
T 4fmz_A          292 LFLNNNQ  298 (347)
T ss_dssp             EECCSSC
T ss_pred             EECcCCc
Confidence            9999985

>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=99.68  E-value=8.1e-16  Score=141.15  Aligned_cols=230  Identities=20%  Similarity=0.220  Sum_probs=137.9

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      .+++.|++.+.. +..+  +..+..+++|++|+++++ .++.+     +..++.+++|++|+++++ .++.+|...   .
T Consensus        81 ~~l~~L~L~~n~-l~~l--p~~l~~l~~L~~L~L~~n-~l~~l-----p~~~~~l~~L~~L~Ls~n-~l~~lp~~l---~  147 (328)
T 4fcg_A           81 PGRVALELRSVP-LPQF--PDQAFRLSHLQHMTIDAA-GLMEL-----PDTMQQFAGLETLTLARN-PLRALPASI---A  147 (328)
T ss_dssp             TTCCEEEEESSC-CSSC--CSCGGGGTTCSEEEEESS-CCCCC-----CSCGGGGTTCSEEEEESC-CCCCCCGGG---G
T ss_pred             cceeEEEccCCC-chhc--ChhhhhCCCCCEEECCCC-Cccch-----hHHHhccCCCCEEECCCC-ccccCcHHH---h
Confidence            566777776643 3322  223456778888888777 45443     334566778888888774 455554433   4


Q ss_pred             CCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCC
Q 044144           83 SFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKT  162 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  162 (356)
                      .+++|+.|++++|..+..++.      .+   ...             .....+..+++|+.|+++++. ++.       
T Consensus       148 ~l~~L~~L~L~~n~~~~~~p~------~~---~~~-------------~~~~~~~~l~~L~~L~L~~n~-l~~-------  197 (328)
T 4fcg_A          148 SLNRLRELSIRACPELTELPE------PL---AST-------------DASGEHQGLVNLQSLRLEWTG-IRS-------  197 (328)
T ss_dssp             GCTTCCEEEEEEETTCCCCCS------CS---EEE-------------C-CCCEEESTTCCEEEEEEEC-CCC-------
T ss_pred             cCcCCCEEECCCCCCccccCh------hH---hhc-------------cchhhhccCCCCCEEECcCCC-cCc-------
Confidence            577788888877766554441      11   000             000012345666676666542 211       


Q ss_pred             CCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCc
Q 044144          163 PSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCN  242 (356)
Q Consensus       163 ~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~  242 (356)
                                                    ++..+..+++|+.|++.+|+++.      +|. .+..+++|+.|++++|+
T Consensus       198 ------------------------------lp~~l~~l~~L~~L~L~~N~l~~------l~~-~l~~l~~L~~L~Ls~n~  240 (328)
T 4fcg_A          198 ------------------------------LPASIANLQNLKSLKIRNSPLSA------LGP-AIHHLPKLEELDLRGCT  240 (328)
T ss_dssp             ------------------------------CCGGGGGCTTCCEEEEESSCCCC------CCG-GGGGCTTCCEEECTTCT
T ss_pred             ------------------------------chHhhcCCCCCCEEEccCCCCCc------Cch-hhccCCCCCEEECcCCc
Confidence                                          33345567778888887776665      332 25567778888887776


Q ss_pred             CccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEee
Q 044144          243 KLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSV  322 (356)
Q Consensus       243 ~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  322 (356)
                      ....+ | ..+..+++|+.|++++|.....+  +.....      +++|++|++.+|+.+..+|...  ..+++|+.+.+
T Consensus       241 ~~~~~-p-~~~~~l~~L~~L~L~~n~~~~~~--p~~~~~------l~~L~~L~L~~n~~~~~iP~~l--~~L~~L~~l~l  308 (328)
T 4fcg_A          241 ALRNY-P-PIFGGRAPLKRLILKDCSNLLTL--PLDIHR------LTQLEKLDLRGCVNLSRLPSLI--AQLPANCIILV  308 (328)
T ss_dssp             TCCBC-C-CCTTCCCCCCEEECTTCTTCCBC--CTTGGG------CTTCCEEECTTCTTCCCCCGGG--GGSCTTCEEEC
T ss_pred             chhhh-H-HHhcCCCCCCEEECCCCCchhhc--chhhhc------CCCCCEEeCCCCCchhhccHHH--hhccCceEEeC
Confidence            66555 4 34566777888888877755444  233333      6777888887777777777655  56677777665


Q ss_pred             cc
Q 044144          323 FR  324 (356)
Q Consensus       323 ~~  324 (356)
                      ..
T Consensus       309 ~~  310 (328)
T 4fcg_A          309 PP  310 (328)
T ss_dssp             CG
T ss_pred             CH
Confidence            53

>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=99.66  E-value=1.7e-15  Score=145.83  Aligned_cols=84  Identities=17%  Similarity=0.137  Sum_probs=55.7

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+.++++|++|+++++ .++.+    .+..+..+++|++|+++++ .++.++.+.+  .
T Consensus        32 ~~l~~L~L~~n~-l~~~-~~~~~~~l~~L~~L~L~~n-~i~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~--~  101 (477)
T 2id5_A           32 TETRLLDLGKNR-IKTL-NQDEFASFPHLEELELNEN-IVSAV----EPGAFNNLFNLRTLGLRSN-RLKLIPLGVF--T  101 (477)
T ss_dssp             TTCSEEECCSSC-CCEE-CTTTTTTCTTCCEEECTTS-CCCEE----CTTTTTTCTTCCEEECCSS-CCCSCCTTSS--T
T ss_pred             CCCcEEECCCCc-cceE-CHhHccCCCCCCEEECCCC-ccCEe----ChhhhhCCccCCEEECCCC-cCCccCcccc--c
Confidence            467788887754 3333 3335567888999999887 66655    2235667788888888884 4666643321  3


Q ss_pred             CCCCccEEEEccCC
Q 044144           83 SFNELKIIQAYNCD   96 (356)
Q Consensus        83 ~l~~L~~L~l~~c~   96 (356)
                      .+++|++|+++++.
T Consensus       102 ~l~~L~~L~Ls~n~  115 (477)
T 2id5_A          102 GLSNLTKLDISENK  115 (477)
T ss_dssp             TCTTCCEEECTTSC
T ss_pred             CCCCCCEEECCCCc
Confidence            46888888888764

>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=99.66  E-value=4.6e-15  Score=142.56  Aligned_cols=81  Identities=21%  Similarity=0.227  Sum_probs=44.9

Q ss_pred             CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCC
Q 044144          229 RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPG  308 (356)
Q Consensus       229 ~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~  308 (356)
                      .+++|+.|+++++ ++..+ +.  +..+++|+.|++++|. +..+..   .      ..+++|+.|++.+| +++.++. 
T Consensus       285 ~l~~L~~L~L~~n-~l~~~-~~--~~~l~~L~~L~L~~n~-l~~~~~---~------~~l~~L~~L~l~~n-~l~~~~~-  348 (466)
T 1o6v_A          285 GLTALTNLELNEN-QLEDI-SP--ISNLKNLTYLTLYFNN-ISDISP---V------SSLTKLQRLFFYNN-KVSDVSS-  348 (466)
T ss_dssp             TCTTCSEEECCSS-CCSCC-GG--GGGCTTCSEEECCSSC-CSCCGG---G------GGCTTCCEEECCSS-CCCCCGG-
T ss_pred             CCCccCeEEcCCC-cccCc-hh--hcCCCCCCEEECcCCc-CCCchh---h------ccCccCCEeECCCC-ccCCchh-
Confidence            4555666666553 34444 21  4455666666666654 333311   1      22667777777766 5555532 


Q ss_pred             CCcCCCCcccEEeeccCcC
Q 044144          309 MHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       309 ~~~~~~~~L~~L~i~~C~~  327 (356)
                        ...+++|+.|++.+|.-
T Consensus       349 --l~~l~~L~~L~l~~n~l  365 (466)
T 1o6v_A          349 --LANLTNINWLSAGHNQI  365 (466)
T ss_dssp             --GTTCTTCCEEECCSSCC
T ss_pred             --hccCCCCCEEeCCCCcc
Confidence              25677777777777654

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

Probab=99.66  E-value=3.8e-15  Score=139.77  Aligned_cols=123  Identities=19%  Similarity=0.219  Sum_probs=58.6

Q ss_pred             cccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCC
Q 044144          180 YSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHL  259 (356)
Q Consensus       180 l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L  259 (356)
                      ++.+.++.+.-.. ...+..+++|+.|++.++.++.+     .|. .+..+++|+.|+++++ ++..+ +. ....+++|
T Consensus       228 L~~L~l~~n~l~~-~~~l~~l~~L~~L~Ls~n~l~~~-----~~~-~~~~l~~L~~L~L~~n-~l~~~-~~-~~~~l~~L  297 (390)
T 3o6n_A          228 LTILKLQHNNLTD-TAWLLNYPGLVEVDLSYNELEKI-----MYH-PFVKMQRLERLYISNN-RLVAL-NL-YGQPIPTL  297 (390)
T ss_dssp             CCEEECCSSCCCC-CGGGGGCTTCSEEECCSSCCCEE-----ESG-GGTTCSSCCEEECCSS-CCCEE-EC-SSSCCTTC
T ss_pred             ccEEECCCCCCcc-cHHHcCCCCccEEECCCCcCCCc-----Chh-HccccccCCEEECCCC-cCccc-Cc-ccCCCCCC
Confidence            4444444443211 13344555666666666555442     111 2445556666666553 44444 31 22345566


Q ss_pred             CeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          260 QHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       260 ~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++|++++|. +..+.  .....      +++|++|++.++ .++.++.    ..+++|+.|++.+++
T Consensus       298 ~~L~L~~n~-l~~~~--~~~~~------l~~L~~L~L~~N-~i~~~~~----~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          298 KVLDLSHNH-LLHVE--RNQPQ------FDRLENLYLDHN-SIVTLKL----STHHTLKNLTLSHND  350 (390)
T ss_dssp             CEEECCSSC-CCCCG--GGHHH------HTTCSEEECCSS-CCCCCCC----CTTCCCSEEECCSSC
T ss_pred             CEEECCCCc-ceecC--ccccc------cCcCCEEECCCC-ccceeCc----hhhccCCEEEcCCCC
Confidence            666666653 43331  11122      556666666655 3444431    345666666666543

>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=99.65  E-value=1.1e-14  Score=144.26  Aligned_cols=83  Identities=19%  Similarity=0.220  Sum_probs=38.1

Q ss_pred             cccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcC
Q 044144          178 TTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLK  257 (356)
Q Consensus       178 ~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~  257 (356)
                      ..++.++++.+.-..++..+..+++|++|++.+|+++.+      +...+..+++|++|+++++.....+ +...+..++
T Consensus       278 ~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~------~~~~~~~l~~L~~L~l~~n~~~~~~-~~~~~~~l~  350 (606)
T 3t6q_A          278 SGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENL------CQISASNFPSLTHLSIKGNTKRLEL-GTGCLENLE  350 (606)
T ss_dssp             TTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBG------GGGCGGGCTTCSEEECCSCSSCCBC-CSSTTTTCT
T ss_pred             cCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcC------chhhhhccCcCCEEECCCCCccccc-chhhhhccC
Confidence            345555555554444555555556666666666544442      1111334444555555443322222 323334444


Q ss_pred             CCCeEEEecC
Q 044144          258 HLQHLEVRFC  267 (356)
Q Consensus       258 ~L~~L~i~~c  267 (356)
                      +|++|++++|
T Consensus       351 ~L~~L~l~~n  360 (606)
T 3t6q_A          351 NLRELDLSHD  360 (606)
T ss_dssp             TCCEEECCSS
T ss_pred             cCCEEECCCC
Confidence            4444444444

>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=99.65  E-value=6e-15  Score=146.22  Aligned_cols=262  Identities=14%  Similarity=0.085  Sum_probs=132.2

Q ss_pred             ccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccC--
Q 044144           25 TEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIF--  102 (356)
Q Consensus        25 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~--  102 (356)
                      ...+++|+.|++.++ .++.+      ..+..+++|++|++.++.- ..++ ..    .+++|++|+++++..+....  
T Consensus       281 ~~~l~~L~~L~l~~~-~~~~l------~~l~~~~~L~~L~l~~n~l-~~lp-~~----~l~~L~~L~l~~n~~~~~~~~~  347 (606)
T 3vq2_A          281 FHCLANVSAMSLAGV-SIKYL------EDVPKHFKWQSLSIIRCQL-KQFP-TL----DLPFLKSLTLTMNKGSISFKKV  347 (606)
T ss_dssp             CGGGTTCSEEEEESC-CCCCC------CCCCTTCCCSEEEEESCCC-SSCC-CC----CCSSCCEEEEESCSSCEECCCC
T ss_pred             cccCCCCCEEEecCc-cchhh------hhccccccCCEEEcccccC-cccc-cC----CCCccceeeccCCcCccchhhc
Confidence            456788888888877 44444      2455677888888888653 5554 11    46778888887775444331  


Q ss_pred             chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCC------CCC-----CC
Q 044144          103 WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSAS------PNR-----PA  171 (356)
Q Consensus       103 ~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~------~~~-----~~  171 (356)
                      .++.+ +.| .++++.- ..+..      ....+..+++|++|+++++. ++.++.........      .++     ..
T Consensus       348 ~l~~L-~~L-~ls~n~l-~~~~~------~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  417 (606)
T 3vq2_A          348 ALPSL-SYL-DLSRNAL-SFSGC------CSYSDLGTNSLRHLDLSFNG-AIIMSANFMGLEELQHLDFQHSTLKRVTEF  417 (606)
T ss_dssp             CCTTC-CEE-ECCSSCE-EEEEE------CCHHHHCCSCCCEEECCSCS-EEEECCCCTTCTTCCEEECTTSEEESTTTT
T ss_pred             cCCCC-CEE-ECcCCcc-CCCcc------hhhhhccCCcccEeECCCCc-cccchhhccCCCCCCeeECCCCccCCccCh
Confidence            12333 444 4444421 11100      00112345556666665543 33222111000000      000     00


Q ss_pred             CccccccccccceeecCCccc-cccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchh
Q 044144          172 SQEESTTTYSSSEITLDTSTL-LFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSA  250 (356)
Q Consensus       172 ~~~~~~~~l~~l~i~~~~~~~-l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~  250 (356)
                      .....+..++.++++.+.... .+..+..+++|+.|++.+|+++...    +|. .+..+++|+.|++++| ++... +.
T Consensus       418 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~----~~~-~~~~l~~L~~L~Ls~n-~l~~~-~~  490 (606)
T 3vq2_A          418 SAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNT----LSN-VFANTTNLTFLDLSKC-QLEQI-SW  490 (606)
T ss_dssp             TTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGE----ECS-CCTTCTTCCEEECTTS-CCCEE-CT
T ss_pred             hhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcc----hHH-hhccCCCCCEEECCCC-cCCcc-Ch
Confidence            011133445556665555322 3344555666666666666554300    111 2445666777776664 44444 33


Q ss_pred             hhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCC-cccEEeeccCcC
Q 044144          251 SMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWP-ALEIFSVFRCDK  327 (356)
Q Consensus       251 ~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~-~L~~L~i~~C~~  327 (356)
                      ..+..+++|++|++++|. +..+. +.....      +++|++|+++++ +++.++...  ..++ +|+.+++.+++-
T Consensus       491 ~~~~~l~~L~~L~Ls~N~-l~~~~-~~~~~~------l~~L~~L~l~~N-~l~~~p~~~--~~l~~~L~~l~l~~N~~  557 (606)
T 3vq2_A          491 GVFDTLHRLQLLNMSHNN-LLFLD-SSHYNQ------LYSLSTLDCSFN-RIETSKGIL--QHFPKSLAFFNLTNNSV  557 (606)
T ss_dssp             TTTTTCTTCCEEECCSSC-CSCEE-GGGTTT------CTTCCEEECTTS-CCCCEESCG--GGSCTTCCEEECCSCCC
T ss_pred             hhhcccccCCEEECCCCc-CCCcC-HHHccC------CCcCCEEECCCC-cCcccCHhH--hhhcccCcEEEccCCCc
Confidence            455566677777776664 44432 233333      566777777666 466666552  4554 477777766553

>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=99.65  E-value=9.2e-15  Score=140.78  Aligned_cols=59  Identities=17%  Similarity=0.191  Sum_probs=35.3

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      ++++.|+++++ +++.+    ....+..+++|++|+++++ .++.+....  ...+++|++|+++++
T Consensus        32 ~~l~~L~L~~n-~l~~~----~~~~~~~l~~L~~L~L~~n-~i~~~~~~~--~~~l~~L~~L~L~~n   90 (477)
T 2id5_A           32 TETRLLDLGKN-RIKTL----NQDEFASFPHLEELELNEN-IVSAVEPGA--FNNLFNLRTLGLRSN   90 (477)
T ss_dssp             TTCSEEECCSS-CCCEE----CTTTTTTCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECCSS
T ss_pred             CCCcEEECCCC-ccceE----CHhHccCCCCCCEEECCCC-ccCEeChhh--hhCCccCCEEECCCC
Confidence            56777777776 56555    1234556777777777774 444442211  134677777777765

>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=99.65  E-value=6.7e-15  Score=140.69  Aligned_cols=308  Identities=15%  Similarity=0.150  Sum_probs=175.1

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      +++++|++++.. +... .+..+.++++|++|+++++.-...+    ....+..+++|++|+++++. +..+...  ...
T Consensus        30 ~~l~~L~Ls~n~-i~~~-~~~~~~~l~~L~~L~L~~n~~~~~i----~~~~~~~l~~L~~L~Ls~n~-l~~~~~~--~~~  100 (455)
T 3v47_A           30 AHVNYVDLSLNS-IAEL-NETSFSRLQDLQFLKVEQQTPGLVI----RNNTFRGLSSLIILKLDYNQ-FLQLETG--AFN  100 (455)
T ss_dssp             TTCCEEECCSSC-CCEE-CTTTTSSCTTCCEEECCCCSTTCEE----CTTTTTTCTTCCEEECTTCT-TCEECTT--TTT
T ss_pred             CccCEEEecCCc-cCcC-ChhHhccCccccEEECcCCcccceE----CcccccccccCCEEeCCCCc-cCccChh--hcc
Confidence            467888887764 3343 3345567888999998888433233    12345677888888888854 4444221  124


Q ss_pred             CCCCccEEEEccCCCccccC------chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCccee
Q 044144           83 SFNELKIIQAYNCDKLSNIF------WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSF  156 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~------~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  156 (356)
                      .+++|++|++++|.--...+      .+..+ +.| .++++.--...+.        ..+..+++|++|+++++. ++..
T Consensus       101 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L-~~L-~L~~n~l~~~~~~--------~~~~~l~~L~~L~L~~n~-l~~~  169 (455)
T 3v47_A          101 GLANLEVLTLTQCNLDGAVLSGNFFKPLTSL-EML-VLRDNNIKKIQPA--------SFFLNMRRFHVLDLTFNK-VKSI  169 (455)
T ss_dssp             TCTTCCEEECTTSCCBTHHHHSSTTTTCTTC-CEE-ECCSSBCCSCCCC--------GGGGGCTTCCEEECTTCC-BSCC
T ss_pred             CcccCCEEeCCCCCCCccccCcccccCcccC-CEE-ECCCCccCccCcc--------cccCCCCcccEEeCCCCc-cccc
Confidence            57888888888874322111      12233 444 4554432111111        013456777777777643 2221


Q ss_pred             ecCCCCCCC---------CCCCCCCc------------cccccccccceeecCCccc-cccc------------------
Q 044144          157 CREVKTPSA---------SPNRPASQ------------EESTTTYSSSEITLDTSTL-LFNE------------------  196 (356)
Q Consensus       157 ~~~~~~~~~---------~~~~~~~~------------~~~~~~l~~l~i~~~~~~~-l~~~------------------  196 (356)
                      ....+....         ..+.....            ......++.++++.+.-.. .+..                  
T Consensus       170 ~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~  249 (455)
T 3v47_A          170 CEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNS  249 (455)
T ss_dssp             CTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTC
T ss_pred             ChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccc
Confidence            111100000         00000000            0011234445554442110 0000                  


Q ss_pred             -------------------c--ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhh
Q 044144          197 -------------------K--VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGS  255 (356)
Q Consensus       197 -------------------~--~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~  255 (356)
                                         .  ...++|+.|++.+++++.+     +|. .+..+++|+.|+++++ .+..+ +...+..
T Consensus       250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~-----~~~-~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~  321 (455)
T 3v47_A          250 YNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFAL-----LKS-VFSHFTDLEQLTLAQN-EINKI-DDNAFWG  321 (455)
T ss_dssp             TTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEE-----CTT-TTTTCTTCCEEECTTS-CCCEE-CTTTTTT
T ss_pred             cccccccchhhhccCcccccccccccCceEEEecCcccccc-----chh-hcccCCCCCEEECCCC-ccccc-ChhHhcC
Confidence                               0  1236788888888877763     222 3678899999999885 66666 5566788


Q ss_pred             cCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccccc
Q 044144          256 LKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADL  335 (356)
Q Consensus       256 l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~  335 (356)
                      +++|+.|++++|. +..+. +.....      +++|++|++.++ +++.+..... ..+++|++|++.++ +++.+|.+.
T Consensus       322 l~~L~~L~Ls~N~-l~~~~-~~~~~~------l~~L~~L~Ls~N-~l~~~~~~~~-~~l~~L~~L~L~~N-~l~~~~~~~  390 (455)
T 3v47_A          322 LTHLLKLNLSQNF-LGSID-SRMFEN------LDKLEVLDLSYN-HIRALGDQSF-LGLPNLKELALDTN-QLKSVPDGI  390 (455)
T ss_dssp             CTTCCEEECCSSC-CCEEC-GGGGTT------CTTCCEEECCSS-CCCEECTTTT-TTCTTCCEEECCSS-CCSCCCTTT
T ss_pred             cccCCEEECCCCc-cCCcC-hhHhcC------cccCCEEECCCC-cccccChhhc-cccccccEEECCCC-ccccCCHhH
Confidence            9999999999986 65553 233333      889999999988 6777744332 67899999999996 577777654


Q ss_pred             -cCCCCCCCCCCCCC
Q 044144          336 -SQNNENDQLGIPAQ  349 (356)
Q Consensus       336 -~~~~~~~~~~~~~~  349 (356)
                       ........+.+.++
T Consensus       391 ~~~l~~L~~L~l~~N  405 (455)
T 3v47_A          391 FDRLTSLQKIWLHTN  405 (455)
T ss_dssp             TTTCTTCCEEECCSS
T ss_pred             hccCCcccEEEccCC
Confidence             22233344445444

>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=99.64  E-value=1.3e-14  Score=143.70  Aligned_cols=164  Identities=12%  Similarity=0.103  Sum_probs=76.7

Q ss_pred             ccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCC
Q 044144          179 TYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKH  258 (356)
Q Consensus       179 ~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~  258 (356)
                      .++.+.++.+.-..++..+..+++|+.|++.+|+++.+     .|...+..+++|+.|++++|. +... ....+..+++
T Consensus       377 ~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~-----~~~~~~~~l~~L~~L~l~~n~-l~~~-~~~~~~~l~~  449 (606)
T 3vq2_A          377 SLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRV-----TEFSAFLSLEKLLYLDISYTN-TKID-FDGIFLGLTS  449 (606)
T ss_dssp             CCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEEST-----TTTTTTTTCTTCCEEECTTSC-CEEC-CTTTTTTCTT
T ss_pred             cccEeECCCCccccchhhccCCCCCCeeECCCCccCCc-----cChhhhhccccCCEEECcCCC-CCcc-chhhhcCCCC
Confidence            34445554444333334444555566666655544442     111224455555555555542 2222 1133344455


Q ss_pred             CCeEEEecCcccceeeccCCCCc------------------CcccccCCccCeeeccccccceeecCCCCcCCCCcccEE
Q 044144          259 LQHLEVRFCEDLQEIISENRADE------------------VIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIF  320 (356)
Q Consensus       259 L~~L~i~~c~~l~~i~~~~~~~~------------------~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L  320 (356)
                      |++|++++|. +.....+.....                  ......+++|++|++++| +++.+.... +..+++|+.|
T Consensus       450 L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~-~~~l~~L~~L  526 (606)
T 3vq2_A          450 LNTLKMAGNS-FKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSH-YNQLYSLSTL  526 (606)
T ss_dssp             CCEEECTTCE-EGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSCEEGGG-TTTCTTCCEE
T ss_pred             CCEEECCCCc-CCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCC-cCCCcCHHH-ccCCCcCCEE
Confidence            5555555443 211000111111                  001122567777777766 444442221 1567778888


Q ss_pred             eeccCcCcccccccccCCC-CCCCCCCCCCCCCC
Q 044144          321 SVFRCDKLKIFAADLSQNN-ENDQLGIPAQQPPC  353 (356)
Q Consensus       321 ~i~~C~~l~~l~~~~~~~~-~~~~~~~~~~~~~~  353 (356)
                      ++++|. ++.+|.+..... ....+.+.+++-.|
T Consensus       527 ~l~~N~-l~~~p~~~~~l~~~L~~l~l~~N~~~c  559 (606)
T 3vq2_A          527 DCSFNR-IETSKGILQHFPKSLAFFNLTNNSVAC  559 (606)
T ss_dssp             ECTTSC-CCCEESCGGGSCTTCCEEECCSCCCCC
T ss_pred             ECCCCc-CcccCHhHhhhcccCcEEEccCCCccc
Confidence            888775 777776543322 24455555554433

>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=99.64  E-value=9.4e-15  Score=140.43  Aligned_cols=131  Identities=15%  Similarity=0.188  Sum_probs=94.5

Q ss_pred             cccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhh
Q 044144          176 STTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGS  255 (356)
Q Consensus       176 ~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~  255 (356)
                      .+..++.+.++.+.-...+. +..+++|+.|++.+|+++.      .+.  +..+++|+.|++++| ++....+   +..
T Consensus       263 ~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~------~~~--~~~l~~L~~L~L~~n-~l~~~~~---~~~  329 (466)
T 1o6v_A          263 GLTKLTELKLGANQISNISP-LAGLTALTNLELNENQLED------ISP--ISNLKNLTYLTLYFN-NISDISP---VSS  329 (466)
T ss_dssp             TCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCSC------CGG--GGGCTTCSEEECCSS-CCSCCGG---GGG
T ss_pred             cCCCCCEEECCCCccCcccc-ccCCCccCeEEcCCCcccC------chh--hcCCCCCCEEECcCC-cCCCchh---hcc
Confidence            44557777777665433333 6678888888888887766      222  557899999999987 5666623   578


Q ss_pred             cCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc
Q 044144          256 LKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       256 l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                      +++|+.|++++|. +..+   .....      +++|+.|++.+| .+..+..   ...+++|+.|++.+|+ ++.+|..
T Consensus       330 l~~L~~L~l~~n~-l~~~---~~l~~------l~~L~~L~l~~n-~l~~~~~---~~~l~~L~~L~l~~n~-~~~~p~~  393 (466)
T 1o6v_A          330 LTKLQRLFFYNNK-VSDV---SSLAN------LTNINWLSAGHN-QISDLTP---LANLTRITQLGLNDQA-WTNAPVN  393 (466)
T ss_dssp             CTTCCEEECCSSC-CCCC---GGGTT------CTTCCEEECCSS-CCCBCGG---GTTCTTCCEEECCCEE-EECCCBC
T ss_pred             CccCCEeECCCCc-cCCc---hhhcc------CCCCCEEeCCCC-ccCccch---hhcCCCCCEEeccCCc-ccCCchh
Confidence            8999999999985 6554   23333      889999999988 5666554   2688999999999975 5555533

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

Probab=99.64  E-value=1.6e-14  Score=137.74  Aligned_cols=222  Identities=22%  Similarity=0.256  Sum_probs=119.1

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--h--
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--L--  104 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l--  104 (356)
                      ++++.|+++++ +++.+    ....+..+++|++|+++++ .++.++.+.  ...+++|++|+++++ +++.++.  +  
T Consensus        64 ~~l~~L~L~~n-~i~~~----~~~~~~~l~~L~~L~Ls~n-~i~~i~~~~--~~~l~~L~~L~L~~n-~l~~~~~~~~~~  134 (440)
T 3zyj_A           64 TNTRLLNLHEN-QIQII----KVNSFKHLRHLEILQLSRN-HIRTIEIGA--FNGLANLNTLELFDN-RLTTIPNGAFVY  134 (440)
T ss_dssp             TTCSEEECCSC-CCCEE----CTTTTSSCSSCCEEECCSS-CCCEECGGG--GTTCSSCCEEECCSS-CCSSCCTTTSCS
T ss_pred             CCCcEEEccCC-cCCee----CHHHhhCCCCCCEEECCCC-cCCccChhh--ccCCccCCEEECCCC-cCCeeCHhHhhc
Confidence            56777777776 56655    1234566777777777774 355543222  134677777777775 4443332  1  


Q ss_pred             -hhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccc
Q 044144          105 -STVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSS  183 (356)
Q Consensus       105 -~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l  183 (356)
                       ..+ +.| .++++. +..++        ...+..+++|++|++.++..+..++...                       
T Consensus       135 l~~L-~~L-~L~~N~-i~~~~--------~~~~~~l~~L~~L~l~~~~~l~~i~~~~-----------------------  180 (440)
T 3zyj_A          135 LSKL-KEL-WLRNNP-IESIP--------SYAFNRIPSLRRLDLGELKRLSYISEGA-----------------------  180 (440)
T ss_dssp             CSSC-CEE-ECCSCC-CCEEC--------TTTTTTCTTCCEEECCCCTTCCEECTTT-----------------------
T ss_pred             cccC-cee-eCCCCc-ccccC--------HHHhhhCcccCEeCCCCCCCcceeCcch-----------------------
Confidence             122 222 333332 11111        1123456777777777766665544322                       


Q ss_pred             eeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          184 EITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       184 ~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                                   +..+++|+.|++.+|+++.      +|.  +..+++|+.|+++++ .+..+ +...+..+++|+.|+
T Consensus       181 -------------~~~l~~L~~L~L~~n~l~~------~~~--~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~  237 (440)
T 3zyj_A          181 -------------FEGLSNLRYLNLAMCNLRE------IPN--LTPLIKLDELDLSGN-HLSAI-RPGSFQGLMHLQKLW  237 (440)
T ss_dssp             -------------TTTCSSCCEEECTTSCCSS------CCC--CTTCSSCCEEECTTS-CCCEE-CTTTTTTCTTCCEEE
T ss_pred             -------------hhcccccCeecCCCCcCcc------ccc--cCCCcccCEEECCCC-ccCcc-ChhhhccCccCCEEE
Confidence                         2345666666666665554      332  445566666666654 55555 335555666666666


Q ss_pred             EecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++++. +..+. +.....      +++|++|++.++ +++.++.... ..+++|+.|++.++|
T Consensus       238 L~~n~-l~~~~-~~~~~~------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          238 MIQSQ-IQVIE-RNAFDN------LQSLVEINLAHN-NLTLLPHDLF-TPLHHLERIHLHHNP  290 (440)
T ss_dssp             CTTCC-CCEEC-TTSSTT------CTTCCEEECTTS-CCCCCCTTTT-SSCTTCCEEECCSSC
T ss_pred             CCCCc-eeEEC-hhhhcC------CCCCCEEECCCC-CCCccChhHh-ccccCCCEEEcCCCC
Confidence            66654 44442 222222      566666666665 5555554331 345666666665554

>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=99.63  E-value=2e-14  Score=137.66  Aligned_cols=222  Identities=19%  Similarity=0.186  Sum_probs=122.6

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc-----
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW-----  103 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-----  103 (356)
                      +++++|+++++ +++.+    ....+..+++|++|+++++ .++.++...  ...+++|++|+++++. +..++.     
T Consensus        75 ~~l~~L~L~~n-~i~~~----~~~~~~~l~~L~~L~Ls~n-~i~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~~~~~~  145 (452)
T 3zyi_A           75 SNTRYLNLMEN-NIQMI----QADTFRHLHHLEVLQLGRN-SIRQIEVGA--FNGLASLNTLELFDNW-LTVIPSGAFEY  145 (452)
T ss_dssp             TTCSEEECCSS-CCCEE----CTTTTTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSSC-CSBCCTTTSSS
T ss_pred             CCccEEECcCC-cCceE----CHHHcCCCCCCCEEECCCC-ccCCcChhh--ccCcccCCEEECCCCc-CCccChhhhcc
Confidence            56788888777 56555    1234566777888887774 455553222  1346778888887753 443322     


Q ss_pred             hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccc
Q 044144          104 LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSS  183 (356)
Q Consensus       104 l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l  183 (356)
                      ++.+ +.| .++++. +..++.        ..+..+++|+.|+++++..++.++...                       
T Consensus       146 l~~L-~~L-~L~~N~-l~~~~~--------~~~~~l~~L~~L~l~~~~~l~~i~~~~-----------------------  191 (452)
T 3zyi_A          146 LSKL-REL-WLRNNP-IESIPS--------YAFNRVPSLMRLDLGELKKLEYISEGA-----------------------  191 (452)
T ss_dssp             CTTC-CEE-ECCSCC-CCEECT--------TTTTTCTTCCEEECCCCTTCCEECTTT-----------------------
T ss_pred             cCCC-CEE-ECCCCC-cceeCH--------hHHhcCCcccEEeCCCCCCccccChhh-----------------------
Confidence            1222 333 444332 222221        123456777777777776666554322                       


Q ss_pred             eeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          184 EITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       184 ~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                                   +..+++|+.|++.+|+++.      +|.  +..+++|+.|+++++ .+..+ +...+..+++|+.|+
T Consensus       192 -------------~~~l~~L~~L~L~~n~l~~------~~~--~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~  248 (452)
T 3zyi_A          192 -------------FEGLFNLKYLNLGMCNIKD------MPN--LTPLVGLEELEMSGN-HFPEI-RPGSFHGLSSLKKLW  248 (452)
T ss_dssp             -------------TTTCTTCCEEECTTSCCSS------CCC--CTTCTTCCEEECTTS-CCSEE-CGGGGTTCTTCCEEE
T ss_pred             -------------ccCCCCCCEEECCCCcccc------ccc--ccccccccEEECcCC-cCccc-CcccccCccCCCEEE
Confidence                         2345666666666665554      232  445666666666653 45555 335556666667776


Q ss_pred             EecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++++. +..+. +.....      +++|++|++.++ +++.++.... ..+++|+.|++.++|
T Consensus       249 L~~n~-l~~~~-~~~~~~------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~Np  301 (452)
T 3zyi_A          249 VMNSQ-VSLIE-RNAFDG------LASLVELNLAHN-NLSSLPHDLF-TPLRYLVELHLHHNP  301 (452)
T ss_dssp             CTTSC-CCEEC-TTTTTT------CTTCCEEECCSS-CCSCCCTTSS-TTCTTCCEEECCSSC
T ss_pred             eCCCc-CceEC-HHHhcC------CCCCCEEECCCC-cCCccChHHh-ccccCCCEEEccCCC
Confidence            66654 44442 222232      566666666665 5555554332 446666666666654

>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=99.63  E-value=7.5e-15  Score=149.67  Aligned_cols=173  Identities=13%  Similarity=0.008  Sum_probs=113.9

Q ss_pred             ccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCc-cccccccccCCCcCeEEecceeee
Q 044144          136 KIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTS-TLLFNEKVALPNLEALEISAINVD  214 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~-~~l~~~~~~l~~L~~L~l~~~~l~  214 (356)
                      +..+++|+.|+++++.-...++..              .+.+..++.|+++.+.- ...+..+..+++|+.|++.+|.++
T Consensus       486 l~~l~~L~~L~L~~N~l~~~~p~~--------------~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~  551 (768)
T 3rgz_A          486 LSNCTNLNWISLSNNRLTGEIPKW--------------IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN  551 (768)
T ss_dssp             GGGCTTCCEEECCSSCCCSCCCGG--------------GGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEE
T ss_pred             HhcCCCCCEEEccCCccCCcCChH--------------HhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccC
Confidence            445666777777665432222221              12455688888888874 357777888999999999988665


Q ss_pred             EEcccC-----------------------------------------------------------------CCCCCCCCC
Q 044144          215 KIWHYN-----------------------------------------------------------------QIPAAVFPR  229 (356)
Q Consensus       215 ~~~~~~-----------------------------------------------------------------~~p~~~~~~  229 (356)
                      ......                                                                 ..|. .+..
T Consensus       552 g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~-~~~~  630 (768)
T 3rgz_A          552 GTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSP-TFDN  630 (768)
T ss_dssp             SBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCC-SCSS
T ss_pred             CcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCch-hhhc
Confidence            210000                                                                 0011 2445


Q ss_pred             CcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCC
Q 044144          230 FQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM  309 (356)
Q Consensus       230 l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~  309 (356)
                      +++|+.|+++++ ++....| ..++.+++|+.|+++++. +...+ ++....      +++|+.|+++++.--..+|...
T Consensus       631 l~~L~~LdLs~N-~l~g~ip-~~l~~l~~L~~L~Ls~N~-l~g~i-p~~l~~------L~~L~~LdLs~N~l~g~ip~~l  700 (768)
T 3rgz_A          631 NGSMMFLDMSYN-MLSGYIP-KEIGSMPYLFILNLGHND-ISGSI-PDEVGD------LRGLNILDLSSNKLDGRIPQAM  700 (768)
T ss_dssp             SBCCCEEECCSS-CCBSCCC-GGGGGCTTCCEEECCSSC-CCSCC-CGGGGG------CTTCCEEECCSSCCEECCCGGG
T ss_pred             cccccEEECcCC-cccccCC-HHHhccccCCEEeCcCCc-cCCCC-ChHHhC------CCCCCEEECCCCcccCcCChHH
Confidence            788999999875 5655425 556889999999999987 54332 344444      8899999999884333555544


Q ss_pred             CcCCCCcccEEeeccCcCcccccccc
Q 044144          310 HTSEWPALEIFSVFRCDKLKIFAADL  335 (356)
Q Consensus       310 ~~~~~~~L~~L~i~~C~~l~~l~~~~  335 (356)
                        ..+++|+.|++++++--..+|.++
T Consensus       701 --~~l~~L~~L~ls~N~l~g~iP~~~  724 (768)
T 3rgz_A          701 --SALTMLTEIDLSNNNLSGPIPEMG  724 (768)
T ss_dssp             --GGCCCCSEEECCSSEEEEECCSSS
T ss_pred             --hCCCCCCEEECcCCcccccCCCch
Confidence              678999999999987666666554

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

Probab=99.63  E-value=3.6e-15  Score=148.88  Aligned_cols=131  Identities=11%  Similarity=0.037  Sum_probs=75.9

Q ss_pred             CCcceEEeeCcccCceee----------------ccccCcc--ccCCCcEEEEecCCCceEeecCCcccccccCccccee
Q 044144            2 INNVECLWLDKLQGIENV----------------LFNLDTE--GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESL   63 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~----------------~~~~~~~--~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L   63 (356)
                      +++|++|++.+.. +.+.                ..+..++  ++++|++|++++|.-...+     +..++.+++|++|
T Consensus       205 l~~L~~L~Ls~n~-l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~-----p~~l~~l~~L~~L  278 (636)
T 4eco_A          205 LTKLRQFYMGNSP-FVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKL-----PTFLKALPEMQLI  278 (636)
T ss_dssp             CTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSC-----CTTTTTCSSCCEE
T ss_pred             ccCCCEEECcCCc-cccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccC-----hHHHhcCCCCCEE
Confidence            5788999998765 3331                0123444  7999999999998433333     3467788899999


Q ss_pred             eccccccccc--ccccccc---ccCCCCccEEEEccCCCccccCc---hhhh--hccccccccccchhhhhcccccccCc
Q 044144           64 ILHNLINMER--IWIDQLK---VESFNELKIIQAYNCDKLSNIFW---LSTV--VNHSSTVVNCSKMKEIFAIGEEVDNS  133 (356)
Q Consensus        64 ~l~~~~~l~~--l~~~~~~---~~~l~~L~~L~l~~c~~l~~~~~---l~~l--l~~L~~i~~c~~L~~l~~~~~~~~~~  133 (356)
                      +++++..++.  +|.....   ...+++|++|+++++. +..++.   +..+  |+.| .++++.--..++         
T Consensus       279 ~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~-l~~ip~~~~l~~l~~L~~L-~L~~N~l~g~ip---------  347 (636)
T 4eco_A          279 NVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNN-LKTFPVETSLQKMKKLGML-ECLYNQLEGKLP---------  347 (636)
T ss_dssp             ECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSC-CSSCCCHHHHTTCTTCCEE-ECCSCCCEEECC---------
T ss_pred             ECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCc-CCccCchhhhccCCCCCEE-eCcCCcCccchh---------
Confidence            9998764553  4433211   0124788888888874 335543   2222  1333 454443221222         


Q ss_pred             ccccccccccEEecCCC
Q 044144          134 IEKIELAQLRYLSLGNL  150 (356)
Q Consensus       134 ~~~~~~~~L~~L~l~~~  150 (356)
                       .+..+++|+.|+++++
T Consensus       348 -~~~~l~~L~~L~L~~N  363 (636)
T 4eco_A          348 -AFGSEIKLASLNLAYN  363 (636)
T ss_dssp             -CCEEEEEESEEECCSS
T ss_pred             -hhCCCCCCCEEECCCC
Confidence             2345566666666654

>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=99.62  E-value=1.1e-14  Score=144.33  Aligned_cols=124  Identities=19%  Similarity=0.215  Sum_probs=75.1

Q ss_pred             ccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCC
Q 044144          179 TYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKH  258 (356)
Q Consensus       179 ~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~  258 (356)
                      .++.|.++++.-.. +..+..+++|+.|++++|.++.+     .|. .+..+++|+.|+++++ .+..+ + .....+++
T Consensus       233 ~L~~L~L~~n~l~~-~~~l~~l~~L~~L~Ls~N~l~~~-----~~~-~~~~l~~L~~L~Ls~N-~l~~l-~-~~~~~l~~  302 (597)
T 3oja_B          233 ELTILKLQHNNLTD-TAWLLNYPGLVEVDLSYNELEKI-----MYH-PFVKMQRLERLYISNN-RLVAL-N-LYGQPIPT  302 (597)
T ss_dssp             CCCEEECCSSCCCC-CGGGGGCTTCSEEECCSSCCCEE-----ESG-GGTTCSSCCEEECTTS-CCCEE-E-CSSSCCTT
T ss_pred             CCCEEECCCCCCCC-ChhhccCCCCCEEECCCCccCCC-----CHH-HhcCccCCCEEECCCC-CCCCC-C-cccccCCC
Confidence            35556655554222 34556677777777777766663     121 2556777777777763 55555 4 22345677


Q ss_pred             CCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          259 LQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       259 L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      |+.|++++|. +..+.  .....      +++|+.|++.+| .++.++.    ..+++|+.|++.+++
T Consensus       303 L~~L~Ls~N~-l~~i~--~~~~~------l~~L~~L~L~~N-~l~~~~~----~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          303 LKVLDLSHNH-LLHVE--RNQPQ------FDRLENLYLDHN-SIVTLKL----STHHTLKNLTLSHND  356 (597)
T ss_dssp             CCEEECCSSC-CCCCG--GGHHH------HTTCSEEECCSS-CCCCCCC----CTTCCCSEEECCSSC
T ss_pred             CcEEECCCCC-CCccC--ccccc------CCCCCEEECCCC-CCCCcCh----hhcCCCCEEEeeCCC
Confidence            7777777775 44431  22222      677888888776 4555542    456788888887765

>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=99.62  E-value=8.2e-15  Score=149.39  Aligned_cols=45  Identities=16%  Similarity=-0.019  Sum_probs=27.9

Q ss_pred             CCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc
Q 044144          288 FPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       288 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                      +++|++|++.+|.--..++...  ..+++|+.|++.+|.--..+|..
T Consensus       393 ~~~L~~L~L~~n~l~~~~p~~l--~~l~~L~~L~Ls~N~l~~~~p~~  437 (768)
T 3rgz_A          393 KNTLQELYLQNNGFTGKIPPTL--SNCSELVSLHLSFNYLSGTIPSS  437 (768)
T ss_dssp             TCCCCEEECCSSEEEEECCGGG--GGCTTCCEEECCSSEEESCCCGG
T ss_pred             cCCccEEECCCCccccccCHHH--hcCCCCCEEECcCCcccCcccHH
Confidence            5678888887773332333333  56788888888887543344443

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

Probab=99.62  E-value=8.8e-15  Score=140.26  Aligned_cols=81  Identities=15%  Similarity=0.166  Sum_probs=53.2

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+.|++.+. .+.++ +  .++.+++|++|+++++ +++.+       .++.+++|++|+++++. ++.++     .
T Consensus        41 l~~L~~L~Ls~n-~l~~~-~--~l~~l~~L~~L~Ls~n-~l~~~-------~~~~l~~L~~L~Ls~N~-l~~~~-----~  102 (457)
T 3bz5_A           41 LATLTSLDCHNS-SITDM-T--GIEKLTGLTKLICTSN-NITTL-------DLSQNTNLTYLACDSNK-LTNLD-----V  102 (457)
T ss_dssp             HTTCCEEECCSS-CCCCC-T--TGGGCTTCSEEECCSS-CCSCC-------CCTTCTTCSEEECCSSC-CSCCC-----C
T ss_pred             cCCCCEEEccCC-CcccC-h--hhcccCCCCEEEccCC-cCCeE-------ccccCCCCCEEECcCCC-Cceee-----c
Confidence            467888888776 33333 2  4567888888888887 45543       25667788888888743 55542     2


Q ss_pred             cCCCCccEEEEccCCCcccc
Q 044144           82 ESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~  101 (356)
                      +.+++|++|+++++ ++..+
T Consensus       103 ~~l~~L~~L~L~~N-~l~~l  121 (457)
T 3bz5_A          103 TPLTKLTYLNCDTN-KLTKL  121 (457)
T ss_dssp             TTCTTCCEEECCSS-CCSCC
T ss_pred             CCCCcCCEEECCCC-cCCee
Confidence            45778888888776 34433

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

Probab=99.61  E-value=2.1e-15  Score=150.54  Aligned_cols=303  Identities=12%  Similarity=0.122  Sum_probs=189.1

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceE--eecCCccccccc------Ccccceeeccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFC--IVDSRAMVACDA------FPLLESLILHNLINMER   73 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--l~~~~~~~~~~~------~~~L~~L~l~~~~~l~~   73 (356)
                      +++|++|++.++.....+  +..++++++|++|++++|..++.  +     +..++.      +++|++|+++++ .++.
T Consensus       248 l~~L~~L~L~~n~l~~~~--p~~l~~l~~L~~L~Ls~n~~l~~~~l-----p~~~~~L~~~~~l~~L~~L~L~~n-~l~~  319 (636)
T 4eco_A          248 LKDLTDVEVYNCPNLTKL--PTFLKALPEMQLINVACNRGISGEQL-----KDDWQALADAPVGEKIQIIYIGYN-NLKT  319 (636)
T ss_dssp             CTTCCEEEEECCTTCSSC--CTTTTTCSSCCEEECTTCTTSCHHHH-----HHHHHHHHHSGGGGTCCEEECCSS-CCSS
T ss_pred             cCCCCEEEecCCcCCccC--hHHHhcCCCCCEEECcCCCCCccccc-----hHHHHhhhccccCCCCCEEECCCC-cCCc
Confidence            678999999887644433  34566899999999999954542  2     223333      489999999995 4556


Q ss_pred             ccc--ccccccCCCCccEEEEccCCCccccCchhhh--hccccccccccchhhhhcccccccCccccccccc-ccEEecC
Q 044144           74 IWI--DQLKVESFNELKIIQAYNCDKLSNIFWLSTV--VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQ-LRYLSLG  148 (356)
Q Consensus        74 l~~--~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~l--l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~-L~~L~l~  148 (356)
                      +|.  ..   ..+++|+.|+++++.--..++.+..+  |+.| .++++. +..++.         .+..+++ |+.|+++
T Consensus       320 ip~~~~l---~~l~~L~~L~L~~N~l~g~ip~~~~l~~L~~L-~L~~N~-l~~lp~---------~l~~l~~~L~~L~Ls  385 (636)
T 4eco_A          320 FPVETSL---QKMKKLGMLECLYNQLEGKLPAFGSEIKLASL-NLAYNQ-ITEIPA---------NFCGFTEQVENLSFA  385 (636)
T ss_dssp             CCCHHHH---TTCTTCCEEECCSCCCEEECCCCEEEEEESEE-ECCSSE-EEECCT---------TSEEECTTCCEEECC
T ss_pred             cCchhhh---ccCCCCCEEeCcCCcCccchhhhCCCCCCCEE-ECCCCc-cccccH---------hhhhhcccCcEEEcc
Confidence            654  33   56899999999987543245433333  1444 565553 223332         2445666 7777777


Q ss_pred             CCCCcceeecCCCCCCC--------CCCCCCC----ccc-------cccccccceeecCCccccccccc-cCCCcCeEEe
Q 044144          149 NLPEVTSFCREVKTPSA--------SPNRPAS----QEE-------STTTYSSSEITLDTSTLLFNEKV-ALPNLEALEI  208 (356)
Q Consensus       149 ~~~~l~~~~~~~~~~~~--------~~~~~~~----~~~-------~~~~l~~l~i~~~~~~~l~~~~~-~l~~L~~L~l  208 (356)
                      ++. ++.++........        ..|+...    ...       ....++.|.++.+.-..++.... .+++|+.|++
T Consensus       386 ~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~L  464 (636)
T 4eco_A          386 HNK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINL  464 (636)
T ss_dssp             SSC-CSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEEC
T ss_pred             CCc-CcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEEC
Confidence            653 3333321110000        0010000    000       23357778887776555555443 4889999999


Q ss_pred             cceeeeEEcccCCCCCCCCC-------CCcCccEEeeccCcCccccchhhhh-hhcCCCCeEEEecCcccceeeccCCCC
Q 044144          209 SAINVDKIWHYNQIPAAVFP-------RFQNLTRLIVWHCNKLKYIFSASMI-GSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       209 ~~~~l~~~~~~~~~p~~~~~-------~l~~L~~L~i~~c~~l~~l~~~~~~-~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      .+|+++.      +|...+.       .+++|+.|+++++ ++..+ |.... ..+++|++|++++|. +..+  +....
T Consensus       465 s~N~l~~------i~~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~l-p~~~~~~~l~~L~~L~Ls~N~-l~~i--p~~~~  533 (636)
T 4eco_A          465 MGNMLTE------IPKNSLKDENENFKNTYLLTSIDLRFN-KLTKL-SDDFRATTLPYLVGIDLSYNS-FSKF--PTQPL  533 (636)
T ss_dssp             CSSCCSB------CCSSSSEETTEECTTGGGCCEEECCSS-CCCBC-CGGGSTTTCTTCCEEECCSSC-CSSC--CCGGG
T ss_pred             CCCCCCC------cCHHHhccccccccccCCccEEECcCC-cCCcc-ChhhhhccCCCcCEEECCCCC-CCCc--Chhhh
Confidence            9997775      3332232       2338999999885 67666 65544 488999999999986 5553  33343


Q ss_pred             cCcccccCCccCeeeccccc------cceeecCCCCcCCCCcccEEeeccCcCcccccccccCCCCCCCCCCCCC
Q 044144          281 EVIPYFVFPQLTTLILQYLP------KLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQ  349 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~------~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~~~~  349 (356)
                      .      +++|++|+++++.      -...++...  ..+++|++|++.+|. ++.+|....  .....+.+.++
T Consensus       534 ~------l~~L~~L~Ls~N~~ls~N~l~~~~p~~l--~~l~~L~~L~Ls~N~-l~~ip~~~~--~~L~~L~Ls~N  597 (636)
T 4eco_A          534 N------SSTLKGFGIRNQRDAQGNRTLREWPEGI--TLCPSLTQLQIGSND-IRKVNEKIT--PNISVLDIKDN  597 (636)
T ss_dssp             G------CSSCCEEECCSCBCTTCCBCCCCCCTTG--GGCSSCCEEECCSSC-CCBCCSCCC--TTCCEEECCSC
T ss_pred             c------CCCCCEEECCCCcccccCcccccChHHH--hcCCCCCEEECCCCc-CCccCHhHh--CcCCEEECcCC
Confidence            3      8999999996543      234455444  678999999999987 488887654  33445555544

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

Probab=99.61  E-value=3.3e-14  Score=133.38  Aligned_cols=284  Identities=13%  Similarity=0.059  Sum_probs=151.4

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. ++.+ +......+++|++|+++++ .++.+    ....+..+++|++|+++++ .+..++...  ..
T Consensus        45 ~~l~~l~l~~~~-l~~l-~~~~~~~l~~L~~L~L~~n-~i~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~  114 (390)
T 3o6n_A           45 NNQKIVTFKNST-MRKL-PAALLDSFRQVELLNLNDL-QIEEI----DTYAFAYAHTIQKLYMGFN-AIRYLPPHV--FQ  114 (390)
T ss_dssp             CCCSEEEEESCE-ESEE-CTHHHHHCCCCSEEECTTS-CCCEE----CTTTTTTCTTCCEEECCSS-CCCCCCTTT--TT
T ss_pred             CCceEEEecCCc-hhhC-ChhHhcccccCcEEECCCC-ccccc----ChhhccCCCCcCEEECCCC-CCCcCCHHH--hc
Confidence            556666665542 3332 2222346777777777776 45544    1124556677777777774 344443221  13


Q ss_pred             CCCCccEEEEccCCCccccCc-----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceee
Q 044144           83 SFNELKIIQAYNCDKLSNIFW-----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFC  157 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  157 (356)
                      .+++|++|+++++ ++..++.     ++.+ +.| .++++.- ..++        ...+..+++|++|+++++. ++.+.
T Consensus       115 ~l~~L~~L~L~~n-~l~~l~~~~~~~l~~L-~~L-~L~~n~l-~~~~--------~~~~~~l~~L~~L~l~~n~-l~~~~  181 (390)
T 3o6n_A          115 NVPLLTVLVLERN-DLSSLPRGIFHNTPKL-TTL-SMSNNNL-ERIE--------DDTFQATTSLQNLQLSSNR-LTHVD  181 (390)
T ss_dssp             TCTTCCEEECCSS-CCCCCCTTTTTTCTTC-CEE-ECCSSCC-CBCC--------TTTTSSCTTCCEEECCSSC-CSBCC
T ss_pred             CCCCCCEEECCCC-ccCcCCHHHhcCCCCC-cEE-ECCCCcc-CccC--------hhhccCCCCCCEEECCCCc-CCccc
Confidence            4677777777765 3333332     1222 333 4444321 1111        1123345666666665532 22221


Q ss_pred             cCCCCCCC----CCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCc
Q 044144          158 REVKTPSA----SPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNL  233 (356)
Q Consensus       158 ~~~~~~~~----~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L  233 (356)
                      ....+...    ..+.. ........++.+.++.+.-...+.  ..+++|+.|++.+++++.      .+.  +..+++|
T Consensus       182 ~~~l~~L~~L~l~~n~l-~~~~~~~~L~~L~l~~n~l~~~~~--~~~~~L~~L~l~~n~l~~------~~~--l~~l~~L  250 (390)
T 3o6n_A          182 LSLIPSLFHANVSYNLL-STLAIPIAVEELDASHNSINVVRG--PVNVELTILKLQHNNLTD------TAW--LLNYPGL  250 (390)
T ss_dssp             GGGCTTCSEEECCSSCC-SEEECCSSCSEEECCSSCCCEEEC--CCCSSCCEEECCSSCCCC------CGG--GGGCTTC
T ss_pred             cccccccceeecccccc-cccCCCCcceEEECCCCeeeeccc--cccccccEEECCCCCCcc------cHH--HcCCCCc
Confidence            11110000    00000 000011235555555554332322  234677777777776655      222  5567888


Q ss_pred             cEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCC
Q 044144          234 TRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSE  313 (356)
Q Consensus       234 ~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~  313 (356)
                      +.|+++++ .+... +...+..+++|++|+++++. +..+.  .....      +++|++|++.++ +++.++...  ..
T Consensus       251 ~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~L~~n~-l~~~~--~~~~~------l~~L~~L~L~~n-~l~~~~~~~--~~  316 (390)
T 3o6n_A          251 VEVDLSYN-ELEKI-MYHPFVKMQRLERLYISNNR-LVALN--LYGQP------IPTLKVLDLSHN-HLLHVERNQ--PQ  316 (390)
T ss_dssp             SEEECCSS-CCCEE-ESGGGTTCSSCCEEECCSSC-CCEEE--CSSSC------CTTCCEEECCSS-CCCCCGGGH--HH
T ss_pred             cEEECCCC-cCCCc-ChhHccccccCCEEECCCCc-CcccC--cccCC------CCCCCEEECCCC-cceecCccc--cc
Confidence            88888775 56665 44566778888888888875 65552  22223      778888888887 677666543  46


Q ss_pred             CCcccEEeeccCcCcccccccc
Q 044144          314 WPALEIFSVFRCDKLKIFAADL  335 (356)
Q Consensus       314 ~~~L~~L~i~~C~~l~~l~~~~  335 (356)
                      +++|+.|++.+|+ ++.+|...
T Consensus       317 l~~L~~L~L~~N~-i~~~~~~~  337 (390)
T 3o6n_A          317 FDRLENLYLDHNS-IVTLKLST  337 (390)
T ss_dssp             HTTCSEEECCSSC-CCCCCCCT
T ss_pred             cCcCCEEECCCCc-cceeCchh
Confidence            7888888888875 66666443

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

Probab=99.60  E-value=1.7e-14  Score=147.81  Aligned_cols=296  Identities=13%  Similarity=0.131  Sum_probs=164.8

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceE--eecCCc-c-cccccCcccceeecccccccccccc-
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFC--IVDSRA-M-VACDAFPLLESLILHNLINMERIWI-   76 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~--l~~~~~-~-~~~~~~~~L~~L~l~~~~~l~~l~~-   76 (356)
                      +++|+.|++.++.....+  +..++.+++|+.|+++++..++.  ++.... . .....+++|+.|+++++ .+..+|. 
T Consensus       490 L~~L~~L~Ls~N~l~~~i--P~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N-~L~~ip~~  566 (876)
T 4ecn_A          490 LKDLTDVELYNCPNMTQL--PDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYN-NLEEFPAS  566 (876)
T ss_dssp             CTTCCEEEEESCTTCCSC--CGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSS-CCCBCCCH
T ss_pred             CCCCCEEECcCCCCCccC--hHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCC-cCCccCCh
Confidence            577888888877544433  24456888999999988853542  211000 0 02234568888888884 4556654 


Q ss_pred             -ccccccCCCCccEEEEccCCCccccCchhhh--hccccccccccchhhhhcccccccCccccccccc-ccEEecCCCCC
Q 044144           77 -DQLKVESFNELKIIQAYNCDKLSNIFWLSTV--VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQ-LRYLSLGNLPE  152 (356)
Q Consensus        77 -~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~l--l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~  152 (356)
                       ..   ..+++|+.|+++++. +..++.+..+  |+.| .++++. +..++.         .+..+++ |+.|.++++. 
T Consensus       567 ~~l---~~L~~L~~L~Ls~N~-l~~lp~~~~L~~L~~L-~Ls~N~-l~~lp~---------~l~~l~~~L~~L~Ls~N~-  630 (876)
T 4ecn_A          567 ASL---QKMVKLGLLDCVHNK-VRHLEAFGTNVKLTDL-KLDYNQ-IEEIPE---------DFCAFTDQVEGLGFSHNK-  630 (876)
T ss_dssp             HHH---TTCTTCCEEECTTSC-CCBCCCCCTTSEESEE-ECCSSC-CSCCCT---------TSCEECTTCCEEECCSSC-
T ss_pred             hhh---hcCCCCCEEECCCCC-cccchhhcCCCcceEE-ECcCCc-cccchH---------HHhhccccCCEEECcCCC-
Confidence             22   457888888888764 3345433333  1333 555543 223332         2445566 7777777653 


Q ss_pred             cceeecCCCCCCC--------CCCCCCC-------ccc--cccccccceeecCCccccccccc-cCCCcCeEEecceeee
Q 044144          153 VTSFCREVKTPSA--------SPNRPAS-------QEE--STTTYSSSEITLDTSTLLFNEKV-ALPNLEALEISAINVD  214 (356)
Q Consensus       153 l~~~~~~~~~~~~--------~~~~~~~-------~~~--~~~~l~~l~i~~~~~~~l~~~~~-~l~~L~~L~l~~~~l~  214 (356)
                      ++.++........        ..|+...       ...  ....++.|.++.+.-..++.... .+++|+.|++.+|+++
T Consensus       631 L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L~  710 (876)
T 4ecn_A          631 LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT  710 (876)
T ss_dssp             CCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCCS
T ss_pred             CCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcCC
Confidence            3333321110000        0011000       000  12256677777776555555443 6788888888888766


Q ss_pred             EEcccCCCCCCCCC-------CCcCccEEeeccCcCccccchhhhh-hhcCCCCeEEEecCcccceeeccCCCCcCcccc
Q 044144          215 KIWHYNQIPAAVFP-------RFQNLTRLIVWHCNKLKYIFSASMI-GSLKHLQHLEVRFCEDLQEIISENRADEVIPYF  286 (356)
Q Consensus       215 ~~~~~~~~p~~~~~-------~l~~L~~L~i~~c~~l~~l~~~~~~-~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~  286 (356)
                      .      +|...+.       ++++|+.|++++| ++..+ |.... ..+++|+.|++++|. +..+  +.....     
T Consensus       711 ~------ip~~~~~~~~~~l~nl~~L~~L~Ls~N-~L~~l-p~~l~~~~l~~L~~L~Ls~N~-L~~l--p~~l~~-----  774 (876)
T 4ecn_A          711 S------IPENSLKPKDGNYKNTYLLTTIDLRFN-KLTSL-SDDFRATTLPYLSNMDVSYNC-FSSF--PTQPLN-----  774 (876)
T ss_dssp             C------CCTTSSSCTTSCCTTGGGCCEEECCSS-CCCCC-CGGGSTTTCTTCCEEECCSSC-CSSC--CCGGGG-----
T ss_pred             c------cChHHhccccccccccCCccEEECCCC-CCccc-hHHhhhccCCCcCEEEeCCCC-CCcc--chhhhc-----
Confidence            5      3322222       3348888888775 66665 54443 377888888888875 5443  233333     


Q ss_pred             cCCccCeeeccccc-----c-ceeecCCCCcCCCCcccEEeeccCcCccccccccc
Q 044144          287 VFPQLTTLILQYLP-----K-LRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLS  336 (356)
Q Consensus       287 ~l~~L~~L~l~~c~-----~-L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~  336 (356)
                       +++|+.|++++++     + ...++...  ..+++|+.|++++|. +..+|....
T Consensus       775 -L~~L~~L~Ls~N~~ls~N~l~~~ip~~l--~~L~~L~~L~Ls~N~-L~~Ip~~l~  826 (876)
T 4ecn_A          775 -SSQLKAFGIRHQRDAEGNRILRQWPTGI--TTCPSLIQLQIGSND-IRKVDEKLT  826 (876)
T ss_dssp             -CTTCCEEECCCCBCTTCCBCCCCCCTTG--GGCSSCCEEECCSSC-CCBCCSCCC
T ss_pred             -CCCCCEEECCCCCCcccccccccChHHH--hcCCCCCEEECCCCC-CCccCHhhc
Confidence             6777777776633     2 22333333  457777777777765 477776543

>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=99.59  E-value=1.3e-13  Score=136.71  Aligned_cols=272  Identities=15%  Similarity=0.104  Sum_probs=129.0

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      +++.|++.+.. +..+ ....+..+++|++|+++++ .++.+     +..+..+++|++|++.++. ++.++..  ....
T Consensus       255 ~L~~L~l~~n~-l~~~-~~~~~~~l~~L~~L~l~~n-~l~~l-----p~~l~~l~~L~~L~l~~n~-l~~~~~~--~~~~  323 (606)
T 3t6q_A          255 SVESINLQKHY-FFNI-SSNTFHCFSGLQELDLTAT-HLSEL-----PSGLVGLSTLKKLVLSANK-FENLCQI--SASN  323 (606)
T ss_dssp             EEEEEECTTCC-CSSC-CTTTTTTCTTCSEEECTTS-CCSCC-----CSSCCSCTTCCEEECTTCC-CSBGGGG--CGGG
T ss_pred             ceeEEEeecCc-cCcc-CHHHhccccCCCEEeccCC-ccCCC-----ChhhcccccCCEEECccCC-cCcCchh--hhhc
Confidence            44555555442 2222 2223445667777777666 44433     2234556677777776643 3333211  1134


Q ss_pred             CCCccEEEEccCCCccccCc-----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeec
Q 044144           84 FNELKIIQAYNCDKLSNIFW-----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCR  158 (356)
Q Consensus        84 l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~  158 (356)
                      +++|++|+++++.....++.     ++.+ +.| .++++.--. +.      .....+..+++|++|+++++. +.....
T Consensus       324 l~~L~~L~l~~n~~~~~~~~~~~~~l~~L-~~L-~l~~n~l~~-~~------~~~~~~~~l~~L~~L~l~~n~-l~~~~~  393 (606)
T 3t6q_A          324 FPSLTHLSIKGNTKRLELGTGCLENLENL-REL-DLSHDDIET-SD------CCNLQLRNLSHLQSLNLSYNE-PLSLKT  393 (606)
T ss_dssp             CTTCSEEECCSCSSCCBCCSSTTTTCTTC-CEE-ECCSSCCCE-EE------ESTTTTTTCTTCCEEECCSCS-CEEECT
T ss_pred             cCcCCEEECCCCCcccccchhhhhccCcC-CEE-ECCCCcccc-cc------CcchhcccCCCCCEEECCCCc-CCcCCH
Confidence            66777777766643322221     1222 333 333332111 00      001123455666666666643 222221


Q ss_pred             CCCCCCCCCCCCCCccccccccccceeecCCcccc--ccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEE
Q 044144          159 EVKTPSASPNRPASQEESTTTYSSSEITLDTSTLL--FNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRL  236 (356)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l--~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L  236 (356)
                      ..+             ..+..++.+.++.+.....  ...+..+++|+.|++.+|.++.      .+...+..+++|+.|
T Consensus       394 ~~~-------------~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~------~~~~~~~~l~~L~~L  454 (606)
T 3t6q_A          394 EAF-------------KECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDI------SSEQLFDGLPALQHL  454 (606)
T ss_dssp             TTT-------------TTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBT------TCTTTTTTCTTCCEE
T ss_pred             HHh-------------cCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCC------cCHHHHhCCCCCCEE
Confidence            111             0233455666655543221  1224556666777766665544      111134556667777


Q ss_pred             eeccCcCccccc-hhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCC
Q 044144          237 IVWHCNKLKYIF-SASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWP  315 (356)
Q Consensus       237 ~i~~c~~l~~l~-~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~  315 (356)
                      +++++.--...+ ....+..+++|+.|++++|. +..+. +.....      +++|++|+++++ +++....... ..++
T Consensus       455 ~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~-~~~~~~------l~~L~~L~Ls~N-~l~~~~~~~l-~~l~  524 (606)
T 3t6q_A          455 NLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCD-LSSID-QHAFTS------LKMMNHVDLSHN-RLTSSSIEAL-SHLK  524 (606)
T ss_dssp             ECTTCBCGGGEECSSCGGGGCTTCCEEECTTSC-CCEEC-TTTTTT------CTTCCEEECCSS-CCCGGGGGGG-TTCC
T ss_pred             ECCCCCCCccccccchhhccCCCccEEECCCCc-cCccC-hhhhcc------ccCCCEEECCCC-ccCcCChhHh-Cccc
Confidence            776653222111 11345566677777777664 44442 222333      666777777666 4444332221 4556


Q ss_pred             cccEEeeccCc
Q 044144          316 ALEIFSVFRCD  326 (356)
Q Consensus       316 ~L~~L~i~~C~  326 (356)
                      .| .|++.+|.
T Consensus       525 ~L-~L~L~~N~  534 (606)
T 3t6q_A          525 GI-YLNLASNH  534 (606)
T ss_dssp             SC-EEECCSSC
T ss_pred             cc-EEECcCCc
Confidence            66 66666654

>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=99.58  E-value=1.2e-13  Score=126.61  Aligned_cols=247  Identities=17%  Similarity=0.144  Sum_probs=139.2

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hh
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LS  105 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~  105 (356)
                      .+.++.|+++++ +++.+    ....+..+++|++|+++++ .++.+....  ...+++|++|+++++. ++.++.  ..
T Consensus        51 ~~~l~~L~L~~n-~i~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~Ls~n~-l~~l~~~~~~  121 (330)
T 1xku_A           51 PPDTALLDLQNN-KITEI----KDGDFKNLKNLHTLILINN-KISKISPGA--FAPLVKLERLYLSKNQ-LKELPEKMPK  121 (330)
T ss_dssp             CTTCCEEECCSS-CCCCB----CTTTTTTCTTCCEEECCSS-CCCCBCTTT--TTTCTTCCEEECCSSC-CSBCCSSCCT
T ss_pred             CCCCeEEECCCC-cCCEe----ChhhhccCCCCCEEECCCC-cCCeeCHHH--hcCCCCCCEEECCCCc-CCccChhhcc
Confidence            357777777777 45544    1124556777777777774 344442111  1346777777777653 343321  22


Q ss_pred             hhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccccccccee
Q 044144          106 TVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEI  185 (356)
Q Consensus       106 ~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i  185 (356)
                      .+ +.| .++++. +..++.        ..+..+++|+.|+++++.- +.....           ......+..++.+.+
T Consensus       122 ~L-~~L-~l~~n~-l~~~~~--------~~~~~l~~L~~L~l~~n~l-~~~~~~-----------~~~~~~l~~L~~L~l  178 (330)
T 1xku_A          122 TL-QEL-RVHENE-ITKVRK--------SVFNGLNQMIVVELGTNPL-KSSGIE-----------NGAFQGMKKLSYIRI  178 (330)
T ss_dssp             TC-CEE-ECCSSC-CCBBCH--------HHHTTCTTCCEEECCSSCC-CGGGBC-----------TTGGGGCTTCCEEEC
T ss_pred             cc-cEE-ECCCCc-ccccCH--------hHhcCCccccEEECCCCcC-CccCcC-----------hhhccCCCCcCEEEC
Confidence            33 444 454442 111110        1134566777777766432 110000           000113344666666


Q ss_pred             ecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEe
Q 044144          186 TLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVR  265 (356)
Q Consensus       186 ~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~  265 (356)
                      +.+.-..++...  +++|+.|++.+|+++.+      +...+..+++|+.|+++++ .+..+ +...+..+++|++|+++
T Consensus       179 ~~n~l~~l~~~~--~~~L~~L~l~~n~l~~~------~~~~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~L~  248 (330)
T 1xku_A          179 ADTNITTIPQGL--PPSLTELHLDGNKITKV------DAASLKGLNNLAKLGLSFN-SISAV-DNGSLANTPHLRELHLN  248 (330)
T ss_dssp             CSSCCCSCCSSC--CTTCSEEECTTSCCCEE------CTGGGTTCTTCCEEECCSS-CCCEE-CTTTGGGSTTCCEEECC
T ss_pred             CCCccccCCccc--cccCCEEECCCCcCCcc------CHHHhcCCCCCCEEECCCC-cCcee-ChhhccCCCCCCEEECC
Confidence            655543343332  27888888888877763      1123567788888888774 56666 44566778888888888


Q ss_pred             cCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCc-----CCCCcccEEeeccCc
Q 044144          266 FCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHT-----SEWPALEIFSVFRCD  326 (356)
Q Consensus       266 ~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~-----~~~~~L~~L~i~~C~  326 (356)
                      +|. +..+  +.....      +++|++|++.++ .++.++.....     ...+.++.+++.+.|
T Consensus       249 ~N~-l~~l--p~~l~~------l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~  304 (330)
T 1xku_A          249 NNK-LVKV--PGGLAD------HKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  304 (330)
T ss_dssp             SSC-CSSC--CTTTTT------CSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             CCc-CccC--Chhhcc------CCCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCc
Confidence            875 5544  233333      778888888776 57776554321     124677788887776

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

Probab=99.58  E-value=1e-14  Score=149.45  Aligned_cols=227  Identities=10%  Similarity=0.045  Sum_probs=126.7

Q ss_pred             CCcceEEeeCcccCceee----------------ccccCcc--ccCCCcEEEEecCCCceEeecCCcccccccCccccee
Q 044144            2 INNVECLWLDKLQGIENV----------------LFNLDTE--GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESL   63 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~----------------~~~~~~~--~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L   63 (356)
                      +++|+.|+|.+.. +.+.                ..+..++  ++++|++|++++|.-...+     +..++.+++|++|
T Consensus       447 L~~L~~L~Ls~N~-Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~i-----P~~l~~L~~L~~L  520 (876)
T 4ecn_A          447 LTKLQIIYFANSP-FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQL-----PDFLYDLPELQSL  520 (876)
T ss_dssp             CTTCCEEEEESCC-CCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSC-----CGGGGGCSSCCEE
T ss_pred             CCCCCEEECcCCc-CCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccC-----hHHHhCCCCCCEE
Confidence            5788999998765 3330                0122334  8999999999999544433     4567789999999


Q ss_pred             eccccccccc--cccccc----cccCCCCccEEEEccCCCccccCc---hhhhhcccc--ccccccchhhhhcccccccC
Q 044144           64 ILHNLINMER--IWIDQL----KVESFNELKIIQAYNCDKLSNIFW---LSTVVNHSS--TVVNCSKMKEIFAIGEEVDN  132 (356)
Q Consensus        64 ~l~~~~~l~~--l~~~~~----~~~~l~~L~~L~l~~c~~l~~~~~---l~~ll~~L~--~i~~c~~L~~l~~~~~~~~~  132 (356)
                      +++++..++.  +|....    ....+++|+.|+++++. +..++.   +..+ ..|+  .++++. +..++        
T Consensus       521 ~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~-L~~ip~~~~l~~L-~~L~~L~Ls~N~-l~~lp--------  589 (876)
T 4ecn_A          521 NIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKM-VKLGLLDCVHNK-VRHLE--------  589 (876)
T ss_dssp             ECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSC-CCBCCCHHHHTTC-TTCCEEECTTSC-CCBCC--------
T ss_pred             ECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCc-CCccCChhhhhcC-CCCCEEECCCCC-cccch--------
Confidence            9999764553  443221    12346799999999875 345554   3333 3332  555554 22343        


Q ss_pred             cccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccc-cccceeecCCccccccccccCC--CcCeEEec
Q 044144          133 SIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTT-YSSSEITLDTSTLLFNEKVALP--NLEALEIS  209 (356)
Q Consensus       133 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~l~i~~~~~~~l~~~~~~l~--~L~~L~l~  209 (356)
                        .+..+++|+.|.++++. +..++....              .+.. ++.|.++.+.-..++..+...+  +|+.|++.
T Consensus       590 --~~~~L~~L~~L~Ls~N~-l~~lp~~l~--------------~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls  652 (876)
T 4ecn_A          590 --AFGTNVKLTDLKLDYNQ-IEEIPEDFC--------------AFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFS  652 (876)
T ss_dssp             --CCCTTSEESEEECCSSC-CSCCCTTSC--------------EECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECC
T ss_pred             --hhcCCCcceEEECcCCc-cccchHHHh--------------hccccCCEEECcCCCCCcCchhhhccccCCCCEEECc
Confidence              25577899999998864 333332211              3344 5666666555334444433332  36666666


Q ss_pred             ceeeeEEcccCCCCCCCCC--CCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecC
Q 044144          210 AINVDKIWHYNQIPAAVFP--RFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       210 ~~~l~~~~~~~~~p~~~~~--~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  267 (356)
                      +|+++... .. ++. .+.  ..++|+.|+++++ .+..+ |...+..+++|+.|++++|
T Consensus       653 ~N~l~g~i-p~-l~~-~l~~~~~~~L~~L~Ls~N-~L~~l-p~~~~~~l~~L~~L~Ls~N  707 (876)
T 4ecn_A          653 YNKIGSEG-RN-ISC-SMDDYKGINASTVTLSYN-EIQKF-PTELFATGSPISTIILSNN  707 (876)
T ss_dssp             SSCTTTTS-SS-CSS-CTTTCCCCCEEEEECCSS-CCCSC-CHHHHHTTCCCSEEECCSC
T ss_pred             CCcCCCcc-cc-chh-hhccccCCCcCEEEccCC-cCCcc-CHHHHccCCCCCEEECCCC
Confidence            66443210 00 110 011  2235566666543 34444 4444445556666666555

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

Probab=99.58  E-value=2.1e-13  Score=125.08  Aligned_cols=245  Identities=16%  Similarity=0.141  Sum_probs=142.2

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hh
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LS  105 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~  105 (356)
                      .++|+.|+++++ .++.+    ....+..+++|++|+++++ .++.+....  ...+++|++|+++++ ++..++.  ..
T Consensus        53 ~~~l~~L~l~~n-~i~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~L~~n-~l~~l~~~~~~  123 (332)
T 2ft3_A           53 SPDTTLLDLQNN-DISEL----RKDDFKGLQHLYALVLVNN-KISKIHEKA--FSPLRKLQKLYISKN-HLVEIPPNLPS  123 (332)
T ss_dssp             CTTCCEEECCSS-CCCEE----CTTTTTTCTTCCEEECCSS-CCCEECGGG--STTCTTCCEEECCSS-CCCSCCSSCCT
T ss_pred             CCCCeEEECCCC-cCCcc----CHhHhhCCCCCcEEECCCC-ccCccCHhH--hhCcCCCCEEECCCC-cCCccCccccc
Confidence            468888888887 56655    1234667788888888885 355542221  245788888888876 3444432  23


Q ss_pred             hhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcce--eecCCCCCCCCCCCCCCccccccccccc
Q 044144          106 TVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTS--FCREVKTPSASPNRPASQEESTTTYSSS  183 (356)
Q Consensus       106 ~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~l~~l  183 (356)
                      .+ +.| .++++. +..++.        ..+..+++|++|+++++.- +.  .....+.             .+ .++.+
T Consensus       124 ~L-~~L-~l~~n~-i~~~~~--------~~~~~l~~L~~L~l~~n~l-~~~~~~~~~~~-------------~l-~L~~L  177 (332)
T 2ft3_A          124 SL-VEL-RIHDNR-IRKVPK--------GVFSGLRNMNCIEMGGNPL-ENSGFEPGAFD-------------GL-KLNYL  177 (332)
T ss_dssp             TC-CEE-ECCSSC-CCCCCS--------GGGSSCSSCCEEECCSCCC-BGGGSCTTSSC-------------SC-CCSCC
T ss_pred             cC-CEE-ECCCCc-cCccCH--------hHhCCCccCCEEECCCCcc-ccCCCCccccc-------------CC-ccCEE
Confidence            34 555 555543 222221        1244678888888877542 11  1111110             11 36666


Q ss_pred             eeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          184 EITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       184 ~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                      .++.+.-..++...  +++|+.|++.+++++.      .+...+..+++|++|+++++ .+..+ +...+..+++|+.|+
T Consensus       178 ~l~~n~l~~l~~~~--~~~L~~L~l~~n~i~~------~~~~~l~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~  247 (332)
T 2ft3_A          178 RISEAKLTGIPKDL--PETLNELHLDHNKIQA------IELEDLLRYSKLYRLGLGHN-QIRMI-ENGSLSFLPTLRELH  247 (332)
T ss_dssp             BCCSSBCSSCCSSS--CSSCSCCBCCSSCCCC------CCTTSSTTCTTCSCCBCCSS-CCCCC-CTTGGGGCTTCCEEE
T ss_pred             ECcCCCCCccCccc--cCCCCEEECCCCcCCc------cCHHHhcCCCCCCEEECCCC-cCCcC-ChhHhhCCCCCCEEE
Confidence            66655533333322  2678888887776665      22223556777888888764 56665 445566777888888


Q ss_pred             EecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcC-----CCCcccEEeeccCcC
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTS-----EWPALEIFSVFRCDK  327 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~-----~~~~L~~L~i~~C~~  327 (356)
                      +++|. +..+  +.....      +++|++|++.++ +++.++......     ..+.|+.+++.+++-
T Consensus       248 L~~N~-l~~l--p~~l~~------l~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~  306 (332)
T 2ft3_A          248 LDNNK-LSRV--PAGLPD------LKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPV  306 (332)
T ss_dssp             CCSSC-CCBC--CTTGGG------CTTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSSS
T ss_pred             CCCCc-Ceec--Chhhhc------CccCCEEECCCC-CCCccChhHccccccccccccccceEeecCcc
Confidence            88775 5444  233333      677888888775 566665543211     145677777777763

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

Probab=99.58  E-value=3.9e-14  Score=128.99  Aligned_cols=251  Identities=13%  Similarity=0.065  Sum_probs=132.0

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccc-ccccccccccCCCCccEEEEccCCCccccCc-h--
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINME-RIWIDQLKVESFNELKIIQAYNCDKLSNIFW-L--  104 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~-~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-l--  104 (356)
                      .+++.|+++++ ++....  ..+..+..+++|++|+++++.++. .+|...   ..+++|++|+++++.--..++. +  
T Consensus        50 ~~l~~L~L~~~-~l~~~~--~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~l---~~l~~L~~L~Ls~n~l~~~~p~~~~~  123 (313)
T 1ogq_A           50 YRVNNLDLSGL-NLPKPY--PIPSSLANLPYLNFLYIGGINNLVGPIPPAI---AKLTQLHYLYITHTNVSGAIPDFLSQ  123 (313)
T ss_dssp             CCEEEEEEECC-CCSSCE--ECCGGGGGCTTCSEEEEEEETTEESCCCGGG---GGCTTCSEEEEEEECCEEECCGGGGG
T ss_pred             ceEEEEECCCC-CccCCc--ccChhHhCCCCCCeeeCCCCCcccccCChhH---hcCCCCCEEECcCCeeCCcCCHHHhC
Confidence            45666666665 333100  012345566666666666433443 222222   3466666666666533222221 1  


Q ss_pred             -hhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccc-cccc
Q 044144          105 -STVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTT-TYSS  182 (356)
Q Consensus       105 -~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~  182 (356)
                       ..+ +.| .++++.--..++         ..+..+++|++|+++++.--..++....              .+. .++.
T Consensus       124 l~~L-~~L-~Ls~N~l~~~~p---------~~~~~l~~L~~L~L~~N~l~~~~p~~l~--------------~l~~~L~~  178 (313)
T 1ogq_A          124 IKTL-VTL-DFSYNALSGTLP---------PSISSLPNLVGITFDGNRISGAIPDSYG--------------SFSKLFTS  178 (313)
T ss_dssp             CTTC-CEE-ECCSSEEESCCC---------GGGGGCTTCCEEECCSSCCEEECCGGGG--------------CCCTTCCE
T ss_pred             CCCC-CEE-eCCCCccCCcCC---------hHHhcCCCCCeEECcCCcccCcCCHHHh--------------hhhhcCcE
Confidence             122 333 444433221222         1244567777777777542212222111              122 3555


Q ss_pred             ceeecCCcc-ccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCe
Q 044144          183 SEITLDTST-LLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQH  261 (356)
Q Consensus       183 l~i~~~~~~-~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~  261 (356)
                      +.++.+.-. ..+..+..++ |+.|++.+|+++..     .| ..+..+++|+.|+++++ .+....+ . +..+++|++
T Consensus       179 L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~-----~~-~~~~~l~~L~~L~L~~N-~l~~~~~-~-~~~l~~L~~  248 (313)
T 1ogq_A          179 MTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGD-----AS-VLFGSDKNTQKIHLAKN-SLAFDLG-K-VGLSKNLNG  248 (313)
T ss_dssp             EECCSSEEEEECCGGGGGCC-CSEEECCSSEEEEC-----CG-GGCCTTSCCSEEECCSS-EECCBGG-G-CCCCTTCCE
T ss_pred             EECcCCeeeccCChHHhCCc-ccEEECcCCcccCc-----CC-HHHhcCCCCCEEECCCC-ceeeecC-c-ccccCCCCE
Confidence            666555432 3444555555 88888888877662     22 23567788888888775 4443323 2 456778888


Q ss_pred             EEEecCcccceeeccCCCCcCcccccCCccCeeeccccccce-eecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          262 LEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLR-CLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       262 L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~-~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      |++++|. +...+ +.....      +++|++|++.++ +++ .++..   ..+++|+.+++.+++.+...|
T Consensus       249 L~Ls~N~-l~~~~-p~~l~~------l~~L~~L~Ls~N-~l~~~ip~~---~~l~~L~~l~l~~N~~lc~~p  308 (313)
T 1ogq_A          249 LDLRNNR-IYGTL-PQGLTQ------LKFLHSLNVSFN-NLCGEIPQG---GNLQRFDVSAYANNKCLCGSP  308 (313)
T ss_dssp             EECCSSC-CEECC-CGGGGG------CTTCCEEECCSS-EEEEECCCS---TTGGGSCGGGTCSSSEEESTT
T ss_pred             EECcCCc-ccCcC-ChHHhc------CcCCCEEECcCC-cccccCCCC---ccccccChHHhcCCCCccCCC
Confidence            8888876 43332 233333      778888888777 444 44443   567777777777777655433

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

Probab=99.57  E-value=2.5e-13  Score=139.85  Aligned_cols=39  Identities=23%  Similarity=0.310  Sum_probs=16.8

Q ss_pred             CCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecC
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  267 (356)
                      +..+++|+.|+++++ ++..+ +...+..+++|+.|++++|
T Consensus       286 ~~~l~~L~~L~L~~n-~i~~~-~~~~~~~l~~L~~L~Ls~N  324 (844)
T 3j0a_A          286 FETLKDLKVLNLAYN-KINKI-ADEAFYGLDNLQVLNLSYN  324 (844)
T ss_dssp             SSSCCCCCEEEEESC-CCCEE-CTTTTTTCSSCCEEEEESC
T ss_pred             hhcCCCCCEEECCCC-cCCCC-ChHHhcCCCCCCEEECCCC
Confidence            334444555554442 33333 2233344444555555444

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

Probab=99.56  E-value=1.4e-13  Score=135.13  Aligned_cols=140  Identities=19%  Similarity=0.244  Sum_probs=82.4

Q ss_pred             ccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhc
Q 044144          177 TTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSL  256 (356)
Q Consensus       177 ~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l  256 (356)
                      +..++.+.++.+.-...+..+..+++|+.|++.+|.++..     .|...+..+++|+.|++++| .+... +...+..+
T Consensus       372 ~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~-----~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~l  444 (570)
T 2z63_A          372 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQM-----SEFSVFLSLRNLIYLDISHT-HTRVA-FNGIFNGL  444 (570)
T ss_dssp             CSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESC-----TTSCTTTTCTTCCEEECTTS-CCEEC-CTTTTTTC
T ss_pred             cCccCEEECCCCccccccccccccCCCCEEEccCCccccc-----cchhhhhcCCCCCEEeCcCC-ccccc-chhhhhcC
Confidence            3446666766666444444466677777777777766552     22223556777888888776 34444 23455667


Q ss_pred             CCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          257 KHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       257 ~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                      ++|+.|++.+|.-....+ +.....      +++|++|++.+| +++.+..... ..+++|++|++.+| +++.+|.
T Consensus       445 ~~L~~L~l~~n~l~~~~~-p~~~~~------l~~L~~L~l~~n-~l~~~~~~~~-~~l~~L~~L~l~~n-~l~~~~~  511 (570)
T 2z63_A          445 SSLEVLKMAGNSFQENFL-PDIFTE------LRNLTFLDLSQC-QLEQLSPTAF-NSLSSLQVLNMASN-QLKSVPD  511 (570)
T ss_dssp             TTCCEEECTTCEEGGGEE-CSCCTT------CTTCCEEECTTS-CCCEECTTTT-TTCTTCCEEECCSS-CCSCCCT
T ss_pred             CcCcEEECcCCcCccccc-hhhhhc------ccCCCEEECCCC-ccccCChhhh-hcccCCCEEeCCCC-cCCCCCH
Confidence            777888777775221111 233333      667777777766 4555533221 45677777777776 3555543

>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=99.56  E-value=4.2e-14  Score=130.88  Aligned_cols=237  Identities=18%  Similarity=0.166  Sum_probs=136.8

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hh
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LS  105 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~  105 (356)
                      .++|++|+++++ +++.+.    ...+..+++|++|+++++ .++.++...  ...+++|++|+++++ ++..++.  +.
T Consensus        51 ~~~L~~L~l~~n-~i~~~~----~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~~l~~L~~L~Ls~n-~l~~~~~~~~~  121 (353)
T 2z80_A           51 TEAVKSLDLSNN-RITYIS----NSDLQRCVNLQALVLTSN-GINTIEEDS--FSSLGSLEHLDLSYN-YLSNLSSSWFK  121 (353)
T ss_dssp             CTTCCEEECTTS-CCCEEC----TTTTTTCTTCCEEECTTS-CCCEECTTT--TTTCTTCCEEECCSS-CCSSCCHHHHT
T ss_pred             cccCcEEECCCC-cCcccC----HHHhccCCCCCEEECCCC-ccCccCHhh--cCCCCCCCEEECCCC-cCCcCCHhHhC
Confidence            458899999888 576651    224667888999998885 566553321  245788999998876 3333321  11


Q ss_pred             hh--hccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccc
Q 044144          106 TV--VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSS  183 (356)
Q Consensus       106 ~l--l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l  183 (356)
                      .+  |+.| .++++. +..++.       ...+..+++|++|+++++..++.+.                          
T Consensus       122 ~l~~L~~L-~L~~n~-l~~l~~-------~~~~~~l~~L~~L~l~~n~~~~~~~--------------------------  166 (353)
T 2z80_A          122 PLSSLTFL-NLLGNP-YKTLGE-------TSLFSHLTKLQILRVGNMDTFTKIQ--------------------------  166 (353)
T ss_dssp             TCTTCSEE-ECTTCC-CSSSCS-------SCSCTTCTTCCEEEEEESSSCCEEC--------------------------
T ss_pred             CCccCCEE-ECCCCC-CcccCc-------hhhhccCCCCcEEECCCCccccccC--------------------------
Confidence            11  0222 222221 111110       0012234445555554443332221                          


Q ss_pred             eeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          184 EITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       184 ~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                                +..+..+++|+.|++.+|+++.+     .|. .+..+++|++|+++++ .+..+ +......+++|+.|+
T Consensus       167 ----------~~~~~~l~~L~~L~l~~n~l~~~-----~~~-~l~~l~~L~~L~l~~n-~l~~~-~~~~~~~~~~L~~L~  228 (353)
T 2z80_A          167 ----------RKDFAGLTFLEELEIDASDLQSY-----EPK-SLKSIQNVSHLILHMK-QHILL-LEIFVDVTSSVECLE  228 (353)
T ss_dssp             ----------TTTTTTCCEEEEEEEEETTCCEE-----CTT-TTTTCSEEEEEEEECS-CSTTH-HHHHHHHTTTEEEEE
T ss_pred             ----------HHHccCCCCCCEEECCCCCcCcc-----CHH-HHhccccCCeecCCCC-ccccc-hhhhhhhcccccEEE
Confidence                      23345678888888888877663     222 3667788888888775 45665 656666778888888


Q ss_pred             EecCcccceeeccCCCCc-------------------------CcccccCCccCeeeccccccceeecCCCCcCCCCccc
Q 044144          264 VRFCEDLQEIISENRADE-------------------------VIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALE  318 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~-------------------------~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~  318 (356)
                      ++++. +..+.. .....                         ......+++|++|+++++ +++.++... +..+++|+
T Consensus       229 L~~n~-l~~~~~-~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N-~l~~i~~~~-~~~l~~L~  304 (353)
T 2z80_A          229 LRDTD-LDTFHF-SELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGI-FDRLTSLQ  304 (353)
T ss_dssp             EESCB-CTTCCC-C------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSS-CCCCCCTTT-TTTCTTCC
T ss_pred             CCCCc-cccccc-cccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCC-CCCccCHHH-HhcCCCCC
Confidence            88875 433210 00000                         001234778999999887 777776643 25688999


Q ss_pred             EEeeccCcCccc
Q 044144          319 IFSVFRCDKLKI  330 (356)
Q Consensus       319 ~L~i~~C~~l~~  330 (356)
                      +|++.+++-...
T Consensus       305 ~L~L~~N~~~~~  316 (353)
T 2z80_A          305 KIWLHTNPWDCS  316 (353)
T ss_dssp             EEECCSSCBCCC
T ss_pred             EEEeeCCCccCc
Confidence            999988864433

>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=99.56  E-value=1.6e-13  Score=137.77  Aligned_cols=90  Identities=16%  Similarity=0.189  Sum_probs=49.2

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCC----cccccccCcccceeeccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSR----AMVACDAFPLLESLILHNLINMERIWID   77 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~----~~~~~~~~~~L~~L~l~~~~~l~~l~~~   77 (356)
                      +++|+.|++.+.. +... .+..+.++++|+.|++.++..-..+....    .......+++|++|+++++ .+..++..
T Consensus       271 l~~L~~L~L~~n~-l~~~-~~~~~~~l~~L~~L~L~~~~~~~~~~~~~lp~i~~~~~~~l~~L~~L~l~~n-~l~~~~~~  347 (680)
T 1ziw_A          271 LPQLEYFFLEYNN-IQHL-FSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKSN  347 (680)
T ss_dssp             CTTCCEEECCSCC-BSEE-CTTTTTTCTTCCEEECTTCBCCC------CCEECTTTTTTCTTCCEEECCSC-CBCCCCTT
T ss_pred             cccccEeeCCCCc-cCcc-ChhhhcCCCCccEEeccchhhhcccccccccccChhhcccCCCCCEEECCCC-ccCCCChh
Confidence            5678899998764 3333 23345678888888887652111110000    0113455677777777774 34443221


Q ss_pred             cccccCCCCccEEEEccCC
Q 044144           78 QLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        78 ~~~~~~l~~L~~L~l~~c~   96 (356)
                      .  ...+++|++|+++++.
T Consensus       348 ~--~~~l~~L~~L~Ls~n~  364 (680)
T 1ziw_A          348 M--FTGLINLKYLSLSNSF  364 (680)
T ss_dssp             T--TTTCTTCCEEECTTCB
T ss_pred             H--hccccCCcEEECCCCc
Confidence            1  1346777777777653

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

Probab=99.55  E-value=5.6e-14  Score=134.66  Aligned_cols=226  Identities=13%  Similarity=0.118  Sum_probs=118.3

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|++|++.++. +.++    ..+.+++|++|+++++ .++.+       .++.+++|++|+++++ .++.++     .
T Consensus        63 l~~L~~L~Ls~n~-l~~~----~~~~l~~L~~L~Ls~N-~l~~~-------~~~~l~~L~~L~L~~N-~l~~l~-----~  123 (457)
T 3bz5_A           63 LTGLTKLICTSNN-ITTL----DLSQNTNLTYLACDSN-KLTNL-------DVTPLTKLTYLNCDTN-KLTKLD-----V  123 (457)
T ss_dssp             CTTCSEEECCSSC-CSCC----CCTTCTTCSEEECCSS-CCSCC-------CCTTCTTCCEEECCSS-CCSCCC-----C
T ss_pred             cCCCCEEEccCCc-CCeE----ccccCCCCCEEECcCC-CCcee-------ecCCCCcCCEEECCCC-cCCeec-----C
Confidence            5788899998764 3332    2568899999999988 46543       2667889999998885 455553     3


Q ss_pred             cCCCCccEEEEccCCCccccC--chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecC
Q 044144           82 ESFNELKIIQAYNCDKLSNIF--WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCRE  159 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~--~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  159 (356)
                      ..+++|++|+++++. ++.++  .+..+ +.| .++++..+..++           +..+++|+.|+++++ +++.++..
T Consensus       124 ~~l~~L~~L~l~~N~-l~~l~l~~l~~L-~~L-~l~~n~~~~~~~-----------~~~l~~L~~L~ls~n-~l~~l~l~  188 (457)
T 3bz5_A          124 SQNPLLTYLNCARNT-LTEIDVSHNTQL-TEL-DCHLNKKITKLD-----------VTPQTQLTTLDCSFN-KITELDVS  188 (457)
T ss_dssp             TTCTTCCEEECTTSC-CSCCCCTTCTTC-CEE-ECTTCSCCCCCC-----------CTTCTTCCEEECCSS-CCCCCCCT
T ss_pred             CCCCcCCEEECCCCc-cceeccccCCcC-CEE-ECCCCCcccccc-----------cccCCcCCEEECCCC-ccceeccc
Confidence            457888888888763 44332  12223 334 555554433332           344566666666654 23332211


Q ss_pred             CCCCCC----CCCCCCC-ccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCc---
Q 044144          160 VKTPSA----SPNRPAS-QEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQ---  231 (356)
Q Consensus       160 ~~~~~~----~~~~~~~-~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~---  231 (356)
                      ..+.-.    ..|.... ....+..++.++++.+.-..++  +..+++|+.|++.+++++.+      |...+..+.   
T Consensus       189 ~l~~L~~L~l~~N~l~~~~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~~N~l~~~------~~~~l~~L~~L~  260 (457)
T 3bz5_A          189 QNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVNPLTEL------DVSTLSKLTTLH  260 (457)
T ss_dssp             TCTTCCEEECCSSCCSCCCCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCC------CCTTCTTCCEEE
T ss_pred             cCCCCCEEECcCCcCCeeccccCCCCCEEECcCCcccccC--ccccCCCCEEEeeCCcCCCc------CHHHCCCCCEEe
Confidence            000000    0000000 0113344555555555433322  45566666666666655542      111111111   


Q ss_pred             ----CccEEeeccCcCccccchhhhhhhcCCCCeEEEecCccccee
Q 044144          232 ----NLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEI  273 (356)
Q Consensus       232 ----~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i  273 (356)
                          +|+.|++++|..+..+ |   ...+++|+.|++++|..+..+
T Consensus       261 l~~n~L~~L~l~~n~~~~~~-~---~~~l~~L~~L~Ls~n~~l~~l  302 (457)
T 3bz5_A          261 CIQTDLLEIDLTHNTQLIYF-Q---AEGCRKIKELDVTHNTQLYLL  302 (457)
T ss_dssp             CTTCCCSCCCCTTCTTCCEE-E---CTTCTTCCCCCCTTCTTCCEE
T ss_pred             ccCCCCCEEECCCCccCCcc-c---ccccccCCEEECCCCccccee
Confidence                3344444444444333 3   234567777777777655554

>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=99.55  E-value=1.2e-13  Score=135.12  Aligned_cols=84  Identities=17%  Similarity=0.114  Sum_probs=49.0

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +... .+..+.++++|++|+++++ .++.+.    +..+..+++|++|+++++ .+..++...  .+
T Consensus        26 ~~L~~L~Ls~n~-l~~~-~~~~~~~l~~L~~L~Ls~n-~i~~~~----~~~~~~l~~L~~L~Ls~n-~l~~~~~~~--~~   95 (549)
T 2z81_A           26 AAMKSLDLSFNK-ITYI-GHGDLRACANLQVLILKSS-RINTIE----GDAFYSLGSLEHLDLSDN-HLSSLSSSW--FG   95 (549)
T ss_dssp             TTCCEEECCSSC-CCEE-CSSTTSSCTTCCEEECTTS-CCCEEC----TTTTTTCTTCCEEECTTS-CCCSCCHHH--HT
T ss_pred             CCccEEECcCCc-cCcc-ChhhhhcCCcccEEECCCC-CcCccC----hhhccccccCCEEECCCC-ccCccCHHH--hc
Confidence            467778887764 3333 2334567788888888777 555541    224556677777777764 344443221  13


Q ss_pred             CCCCccEEEEccCC
Q 044144           83 SFNELKIIQAYNCD   96 (356)
Q Consensus        83 ~l~~L~~L~l~~c~   96 (356)
                      .+++|++|+++++.
T Consensus        96 ~l~~L~~L~Ls~n~  109 (549)
T 2z81_A           96 PLSSLKYLNLMGNP  109 (549)
T ss_dssp             TCTTCCEEECTTCC
T ss_pred             cCCCCcEEECCCCc
Confidence            46666666666653

>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=99.55  E-value=2.2e-13  Score=133.88  Aligned_cols=58  Identities=14%  Similarity=0.179  Sum_probs=39.1

Q ss_pred             CccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc-ccCCCCCCCCCCCCCC
Q 044144          289 PQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD-LSQNNENDQLGIPAQQ  350 (356)
Q Consensus       289 ~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~-~~~~~~~~~~~~~~~~  350 (356)
                      ++|++|+++++ +++.++...  ..+++|+.|++.++ +++.+|.+ .........+.+.+++
T Consensus       450 ~~L~~L~L~~N-~l~~ip~~~--~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          450 PKVKVLDLHNN-RIMSIPKDV--THLQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             TTCSEEECCSS-CCCCCCTTT--TSSCCCSEEECCSS-CCCCCCTTSTTTCTTCCCEECCSCC
T ss_pred             CcCCEEECCCC-cCcccChhh--cCCCCCCEEECCCC-CCCCCCHHHHhcCCCCCEEEecCCC
Confidence            57888888777 777777665  47888888888886 47777765 3333334445555554

>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=99.55  E-value=1.4e-13  Score=136.40  Aligned_cols=262  Identities=14%  Similarity=0.128  Sum_probs=144.9

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+.|++.++. +..+ .+..+..+++|++|++++| .++.+    .+..++.+++|++|+++++ .+..++...+  
T Consensus        74 l~~L~~L~L~~n~-l~~~-~~~~~~~l~~L~~L~L~~n-~l~~~----~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~--  143 (597)
T 3oja_B           74 FRQVELLNLNDLQ-IEEI-DTYAFAYAHTIQKLYMGFN-AIRYL----PPHVFQNVPLLTVLVLERN-DLSSLPRGIF--  143 (597)
T ss_dssp             CCCCSEEECTTSC-CCEE-CTTTTTTCTTCCEEECCSS-CCCCC----CTTTTTTCTTCCEEECCSS-CCCCCCTTTT--
T ss_pred             CCCCcEEECCCCC-CCCC-ChHHhcCCCCCCEEECCCC-cCCCC----CHHHHcCCCCCCEEEeeCC-CCCCCCHHHh--
Confidence            5789999998874 4443 3335678999999999998 56544    2234578899999999995 5666654321  


Q ss_pred             cCCCCccEEEEccCCCccccCc--h---hhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCccee
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW--L---STVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSF  156 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~--l---~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  156 (356)
                      ..+++|+.|+++++. +..+++  +   ..+ +.| .++++. +..++           ...+++|+.|.++++ .+..+
T Consensus       144 ~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L-~~L-~L~~N~-l~~~~-----------~~~l~~L~~L~l~~n-~l~~l  207 (597)
T 3oja_B          144 HNTPKLTTLSMSNNN-LERIEDDTFQATTSL-QNL-QLSSNR-LTHVD-----------LSLIPSLFHANVSYN-LLSTL  207 (597)
T ss_dssp             TTCTTCCEEECCSSC-CCBCCTTTTTTCTTC-CEE-ECTTSC-CSBCC-----------GGGCTTCSEEECCSS-CCSEE
T ss_pred             ccCCCCCEEEeeCCc-CCCCChhhhhcCCcC-cEE-ECcCCC-CCCcC-----------hhhhhhhhhhhcccC-ccccc
Confidence            457999999999874 443332  2   223 444 555442 22111           334566777766653 23322


Q ss_pred             ecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEE
Q 044144          157 CREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRL  236 (356)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L  236 (356)
                      ..                  ...++.+.++.+.-..++..  ..++|+.|++.+|.++.      ++.  +..+++|+.|
T Consensus       208 ~~------------------~~~L~~L~ls~n~l~~~~~~--~~~~L~~L~L~~n~l~~------~~~--l~~l~~L~~L  259 (597)
T 3oja_B          208 AI------------------PIAVEELDASHNSINVVRGP--VNVELTILKLQHNNLTD------TAW--LLNYPGLVEV  259 (597)
T ss_dssp             EC------------------CTTCSEEECCSSCCCEEECS--CCSCCCEEECCSSCCCC------CGG--GGGCTTCSEE
T ss_pred             cC------------------CchhheeeccCCcccccccc--cCCCCCEEECCCCCCCC------Chh--hccCCCCCEE
Confidence            21                  11244455444432222211  12456666666665544      111  3455666666


Q ss_pred             eeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCc
Q 044144          237 IVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPA  316 (356)
Q Consensus       237 ~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~  316 (356)
                      +++++ .+... +...+..+++|+.|++++|. +..+.  .....      +++|+.|++++| .++.++...  ..+++
T Consensus       260 ~Ls~N-~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~l~--~~~~~------l~~L~~L~Ls~N-~l~~i~~~~--~~l~~  325 (597)
T 3oja_B          260 DLSYN-ELEKI-MYHPFVKMQRLERLYISNNR-LVALN--LYGQP------IPTLKVLDLSHN-HLLHVERNQ--PQFDR  325 (597)
T ss_dssp             ECCSS-CCCEE-ESGGGTTCSSCCEEECTTSC-CCEEE--CSSSC------CTTCCEEECCSS-CCCCCGGGH--HHHTT
T ss_pred             ECCCC-ccCCC-CHHHhcCccCCCEEECCCCC-CCCCC--ccccc------CCCCcEEECCCC-CCCccCccc--ccCCC
Confidence            66553 44444 23444556666666666654 44431  22222      556666666655 444444332  34556


Q ss_pred             ccEEeeccCcCccccc
Q 044144          317 LEIFSVFRCDKLKIFA  332 (356)
Q Consensus       317 L~~L~i~~C~~l~~l~  332 (356)
                      |+.|++.+|. +..+|
T Consensus       326 L~~L~L~~N~-l~~~~  340 (597)
T 3oja_B          326 LENLYLDHNS-IVTLK  340 (597)
T ss_dssp             CSEEECCSSC-CCCCC
T ss_pred             CCEEECCCCC-CCCcC
Confidence            6666666544 44443

>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=99.55  E-value=4.3e-13  Score=122.78  Aligned_cols=113  Identities=19%  Similarity=0.274  Sum_probs=50.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++.+++++.      +|..   .+++|++|+++++ .+..+ +...+..+++|+.|+++++. +..+. +
T Consensus       167 ~~~l~~L~~L~l~~n~l~~------l~~~---~~~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~Ls~n~-l~~~~-~  233 (330)
T 1xku_A          167 FQGMKKLSYIRIADTNITT------IPQG---LPPSLTELHLDGN-KITKV-DAASLKGLNNLAKLGLSFNS-ISAVD-N  233 (330)
T ss_dssp             GGGCTTCCEEECCSSCCCS------CCSS---CCTTCSEEECTTS-CCCEE-CTGGGTTCTTCCEEECCSSC-CCEEC-T
T ss_pred             ccCCCCcCEEECCCCcccc------CCcc---ccccCCEEECCCC-cCCcc-CHHHhcCCCCCCEEECCCCc-CceeC-h
Confidence            4445555555555554443      2221   1145555555543 34443 22344455555555555543 33331 1


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      .....      +++|++|++.++ +++.++...  ..+++|++|++.+++ ++.+|
T Consensus       234 ~~~~~------l~~L~~L~L~~N-~l~~lp~~l--~~l~~L~~L~l~~N~-i~~~~  279 (330)
T 1xku_A          234 GSLAN------TPHLRELHLNNN-KLVKVPGGL--ADHKYIQVVYLHNNN-ISAIG  279 (330)
T ss_dssp             TTGGG------STTCCEEECCSS-CCSSCCTTT--TTCSSCCEEECCSSC-CCCCC
T ss_pred             hhccC------CCCCCEEECCCC-cCccCChhh--ccCCCcCEEECCCCc-CCccC
Confidence            11222      455555555554 444444432  345555555555543 44443

>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=99.54  E-value=1.1e-13  Score=134.72  Aligned_cols=140  Identities=16%  Similarity=0.167  Sum_probs=67.9

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchh--hhhhhcCCCCeEEEecCcccceeec
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSA--SMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~--~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      ..+++|++|++++|+++..     .|. .+..+++|+.|+++++ ++..+ +.  ..+..+++|++|++++|. +...++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~-----~~~-~~~~l~~L~~L~L~~N-~l~~l-~~~~~~~~~l~~L~~L~Ls~N~-l~~~l~  391 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDT-----VFE-NCGHLTELETLILQMN-QLKEL-SKIAEMTTQMKSLQQLDISQNS-VSYDEK  391 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTT-----TTT-TCCCCSSCCEEECCSS-CCCBH-HHHHHHHTTCTTCCEEECCSSC-CBCCGG
T ss_pred             hhCCcccEEEeECCccChh-----hhh-hhccCCCCCEEEccCC-ccCcc-ccchHHHhhCCCCCEEECCCCc-CCcccc
Confidence            3456666666666655441     111 2445566666666553 33332 11  334455666666666554 322111


Q ss_pred             cCCCCc---------------CcccccC-CccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc-ccCC
Q 044144          276 ENRADE---------------VIPYFVF-PQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD-LSQN  338 (356)
Q Consensus       276 ~~~~~~---------------~~~~~~l-~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~-~~~~  338 (356)
                      ......               ......+ ++|++|++++| +++.++...  ..+++|++|++.+| +++.+|.+ ....
T Consensus       392 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N-~l~~ip~~~--~~l~~L~~L~L~~N-~l~~l~~~~~~~l  467 (520)
T 2z7x_B          392 KGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSN-KIKSIPKQV--VKLEALQELNVASN-QLKSVPDGIFDRL  467 (520)
T ss_dssp             GCSCCCCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSS-CCCCCCGGG--GGCTTCCEEECCSS-CCCCCCTTTTTTC
T ss_pred             cchhccCccCCEEECcCCCCCcchhhhhcccCCEEECCCC-cccccchhh--hcCCCCCEEECCCC-cCCccCHHHhccC
Confidence            111111               0000012 46777777666 566555544  46777888888776 46777765 2222


Q ss_pred             CCCCCCCCCCCC
Q 044144          339 NENDQLGIPAQQ  350 (356)
Q Consensus       339 ~~~~~~~~~~~~  350 (356)
                      .....+.+.+++
T Consensus       468 ~~L~~L~l~~N~  479 (520)
T 2z7x_B          468 TSLQKIWLHTNP  479 (520)
T ss_dssp             TTCCEEECCSSC
T ss_pred             CcccEEECcCCC
Confidence            233444444443

>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=99.54  E-value=2.4e-13  Score=132.25  Aligned_cols=82  Identities=17%  Similarity=0.150  Sum_probs=56.7

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      +++++|++.++. +... .+..+.++++|++|+++++ +++.+    .+..+..+++|++|+++++ .++.++..     
T Consensus        21 ~~L~~L~Ls~n~-i~~~-~~~~~~~l~~L~~L~Ls~n-~l~~~----~~~~~~~l~~L~~L~Ls~N-~l~~lp~~-----   87 (520)
T 2z7x_B           21 QKTTILNISQNY-ISEL-WTSDILSLSKLRILIISHN-RIQYL----DISVFKFNQELEYLDLSHN-KLVKISCH-----   87 (520)
T ss_dssp             TTCSEEECCSSC-CCCC-CHHHHTTCTTCCEEECCSS-CCCEE----EGGGGTTCTTCCEEECCSS-CCCEEECC-----
T ss_pred             ccccEEECCCCc-cccc-ChhhccccccccEEecCCC-ccCCc----ChHHhhcccCCCEEecCCC-ceeecCcc-----
Confidence            467888887764 3332 2224557888999999888 56654    2335677888999998884 56666543     


Q ss_pred             CCCCccEEEEccCCC
Q 044144           83 SFNELKIIQAYNCDK   97 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~   97 (356)
                      .+++|++|+++++.-
T Consensus        88 ~l~~L~~L~L~~N~l  102 (520)
T 2z7x_B           88 PTVNLKHLDLSFNAF  102 (520)
T ss_dssp             CCCCCSEEECCSSCC
T ss_pred             ccCCccEEeccCCcc
Confidence            478899999988753

>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=99.54  E-value=1.1e-13  Score=120.86  Aligned_cols=203  Identities=15%  Similarity=0.123  Sum_probs=126.5

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVV  108 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll  108 (356)
                      ++|++|+++++ +++.+.    ......+++|++|++.++..++.++...+  ..+++|++|++++|.+++.++.-    
T Consensus        31 ~~l~~L~l~~n-~l~~i~----~~~~~~l~~L~~L~l~~n~~l~~i~~~~f--~~l~~L~~L~l~~~n~l~~i~~~----   99 (239)
T 2xwt_C           31 PSTQTLKLIET-HLRTIP----SHAFSNLPNISRIYVSIDVTLQQLESHSF--YNLSKVTHIEIRNTRNLTYIDPD----   99 (239)
T ss_dssp             TTCCEEEEESC-CCSEEC----TTTTTTCTTCCEEEEECCSSCCEECTTTE--ESCTTCCEEEEEEETTCCEECTT----
T ss_pred             CcccEEEEeCC-cceEEC----HHHccCCCCCcEEeCCCCCCcceeCHhHc--CCCcCCcEEECCCCCCeeEcCHH----
Confidence            47999999998 677762    22466789999999999655777754322  45789999999987676654310    


Q ss_pred             ccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecC
Q 044144          109 NHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLD  188 (356)
Q Consensus       109 ~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~  188 (356)
                                                .+..+++|++|+++++. ++.++.                              
T Consensus       100 --------------------------~f~~l~~L~~L~l~~n~-l~~lp~------------------------------  122 (239)
T 2xwt_C          100 --------------------------ALKELPLLKFLGIFNTG-LKMFPD------------------------------  122 (239)
T ss_dssp             --------------------------SEECCTTCCEEEEEEEC-CCSCCC------------------------------
T ss_pred             --------------------------HhCCCCCCCEEeCCCCC-Cccccc------------------------------
Confidence                                      02234667777776642 222111                              


Q ss_pred             CccccccccccCCCcC---eEEecce-eeeEEcccCCCCCCCCCCCcCcc-EEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          189 TSTLLFNEKVALPNLE---ALEISAI-NVDKIWHYNQIPAAVFPRFQNLT-RLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       189 ~~~~l~~~~~~l~~L~---~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~-~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                              +..+++|+   .|++.++ +++.+      |...+..+++|+ .|+++++ .++.+ +...+.. ++|+.|+
T Consensus       123 --------~~~l~~L~~L~~L~l~~N~~l~~i------~~~~~~~l~~L~~~L~l~~n-~l~~i-~~~~~~~-~~L~~L~  185 (239)
T 2xwt_C          123 --------LTKVYSTDIFFILEITDNPYMTSI------PVNAFQGLCNETLTLKLYNN-GFTSV-QGYAFNG-TKLDAVY  185 (239)
T ss_dssp             --------CTTCCBCCSEEEEEEESCTTCCEE------CTTTTTTTBSSEEEEECCSC-CCCEE-CTTTTTT-CEEEEEE
T ss_pred             --------cccccccccccEEECCCCcchhhc------CcccccchhcceeEEEcCCC-CCccc-CHhhcCC-CCCCEEE
Confidence                    12334444   7777777 77763      322356677777 7777663 55555 5444444 6777777


Q ss_pred             EecCcccceeeccCCCCcCcccccC-CccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCc
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVF-PQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKL  328 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l-~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l  328 (356)
                      +.++..++.+. +.....      + ++|+.|++.++ +++.++..    .+++|+.|.+.++..+
T Consensus       186 L~~n~~l~~i~-~~~~~~------l~~~L~~L~l~~N-~l~~l~~~----~~~~L~~L~l~~~~~l  239 (239)
T 2xwt_C          186 LNKNKYLTVID-KDAFGG------VYSGPSLLDVSQT-SVTALPSK----GLEHLKELIARNTWTL  239 (239)
T ss_dssp             CTTCTTCCEEC-TTTTTT------CSBCCSEEECTTC-CCCCCCCT----TCTTCSEEECTTC---
T ss_pred             cCCCCCcccCC-HHHhhc------cccCCcEEECCCC-ccccCChh----HhccCceeeccCccCC
Confidence            77775565552 222333      5 67777887764 66666553    4677777777777643

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

Probab=99.53  E-value=1.8e-13  Score=134.35  Aligned_cols=251  Identities=13%  Similarity=0.086  Sum_probs=163.7

Q ss_pred             CccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccC-
Q 044144           24 DTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIF-  102 (356)
Q Consensus        24 ~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~-  102 (356)
                      ....+++|++|++.++ .++.+     +.....+ +|++|++.++. +..++.     ..+++|+.|++.++......+ 
T Consensus       277 ~~~~l~~L~~L~l~~~-~l~~l-----~~~~~~~-~L~~L~l~~n~-~~~l~~-----~~l~~L~~L~l~~n~~~~~~~~  343 (570)
T 2z63_A          277 LFNCLTNVSSFSLVSV-TIERV-----KDFSYNF-GWQHLELVNCK-FGQFPT-----LKLKSLKRLTFTSNKGGNAFSE  343 (570)
T ss_dssp             TTGGGTTCSEEEEESC-EECSC-----CBCCSCC-CCSEEEEESCB-CSSCCB-----CBCSSCCEEEEESCBSCCBCCC
T ss_pred             hhcCcCcccEEEecCc-cchhh-----hhhhccC-CccEEeeccCc-ccccCc-----ccccccCEEeCcCCcccccccc
Confidence            3456788899998887 44433     2334455 88888888864 444433     357889999988876443332 


Q ss_pred             -chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccc
Q 044144          103 -WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYS  181 (356)
Q Consensus       103 -~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~  181 (356)
                       .++.+ +.| .++++.-- .+.      .....+..+++|++|+++++. +..++....              .+..++
T Consensus       344 ~~~~~L-~~L-~l~~n~l~-~~~------~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~--------------~l~~L~  399 (570)
T 2z63_A          344 VDLPSL-EFL-DLSRNGLS-FKG------CCSQSDFGTTSLKYLDLSFNG-VITMSSNFL--------------GLEQLE  399 (570)
T ss_dssp             CBCTTC-CEE-ECCSSCCB-EEE------EEEHHHHTCSCCCEEECCSCS-EEEEEEEEE--------------TCTTCC
T ss_pred             ccCCCC-CEE-eCcCCccC-ccc------cccccccccCccCEEECCCCc-ccccccccc--------------ccCCCC
Confidence             23344 555 55555311 110      001124467889999998864 333332211              334577


Q ss_pred             cceeecCCccccc--cccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCC
Q 044144          182 SSEITLDTSTLLF--NEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHL  259 (356)
Q Consensus       182 ~l~i~~~~~~~l~--~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L  259 (356)
                      .+.++++.-....  ..+..+++|+.|++.+|.++..     .| ..+..+++|+.|++++|.-.....| ..+..+++|
T Consensus       400 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~-----~~-~~~~~l~~L~~L~l~~n~l~~~~~p-~~~~~l~~L  472 (570)
T 2z63_A          400 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA-----FN-GIFNGLSSLEVLKMAGNSFQENFLP-DIFTELRNL  472 (570)
T ss_dssp             EEECTTSEEESCTTSCTTTTCTTCCEEECTTSCCEEC-----CT-TTTTTCTTCCEEECTTCEEGGGEEC-SCCTTCTTC
T ss_pred             EEEccCCccccccchhhhhcCCCCCEEeCcCCccccc-----ch-hhhhcCCcCcEEECcCCcCccccch-hhhhcccCC
Confidence            7777766533222  3567889999999999977773     22 2467889999999998753322224 566788999


Q ss_pred             CeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCc
Q 044144          260 QHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKL  328 (356)
Q Consensus       260 ~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l  328 (356)
                      +.|++++|. +..+. +.....      +++|++|++.+| +++.++.... ..+++|+.|++.+++--
T Consensus       473 ~~L~l~~n~-l~~~~-~~~~~~------l~~L~~L~l~~n-~l~~~~~~~~-~~l~~L~~L~l~~N~~~  531 (570)
T 2z63_A          473 TFLDLSQCQ-LEQLS-PTAFNS------LSSLQVLNMASN-QLKSVPDGIF-DRLTSLQKIWLHTNPWD  531 (570)
T ss_dssp             CEEECTTSC-CCEEC-TTTTTT------CTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSCBC
T ss_pred             CEEECCCCc-cccCC-hhhhhc------ccCCCEEeCCCC-cCCCCCHHHh-hcccCCcEEEecCCccc
Confidence            999999986 65553 344444      889999999988 7887765432 67899999999987643

>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=99.51  E-value=1e-12  Score=132.02  Aligned_cols=303  Identities=17%  Similarity=0.158  Sum_probs=157.7

Q ss_pred             CcceEEeeCcccCceeeccccCccccC--CCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFS--QLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLK   80 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~--~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~   80 (356)
                      ++++.|++.++.. .+. .+..+.+++  +|+.|++++| .++.+    .+..+..+++|++|++.++. +..+....  
T Consensus       222 ~~L~~L~L~~n~l-~~~-~~~~~~~l~~~~L~~L~Ls~n-~l~~~----~~~~~~~l~~L~~L~L~~n~-l~~~~~~~--  291 (680)
T 1ziw_A          222 TSIRNLSLSNSQL-STT-SNTTFLGLKWTNLTMLDLSYN-NLNVV----GNDSFAWLPQLEYFFLEYNN-IQHLFSHS--  291 (680)
T ss_dssp             SCCCEEECTTSCC-CEE-CTTTTGGGGGSCCCEEECTTS-CCCEE----CTTTTTTCTTCCEEECCSCC-BSEECTTT--
T ss_pred             ccccEEEccCCcc-ccc-ChhHhhccCcCCCCEEECCCC-CcCcc----CcccccCcccccEeeCCCCc-cCccChhh--
Confidence            4566666665532 222 122233443  4888888887 45544    12345667888888888753 44332211  


Q ss_pred             ccCCCCccEEEEccCCCccccC--chhhhhccccccccccchhhhhccccc--ccCcccccccccccEEecCCCC-Ccce
Q 044144           81 VESFNELKIIQAYNCDKLSNIF--WLSTVVNHSSTVVNCSKMKEIFAIGEE--VDNSIEKIELAQLRYLSLGNLP-EVTS  155 (356)
Q Consensus        81 ~~~l~~L~~L~l~~c~~l~~~~--~l~~ll~~L~~i~~c~~L~~l~~~~~~--~~~~~~~~~~~~L~~L~l~~~~-~l~~  155 (356)
                      ...+++|+.|+++++..-..+.  .++.+ ... .+.+|++++.+......  ......+..+++|++|+++++. .+..
T Consensus       292 ~~~l~~L~~L~L~~~~~~~~~~~~~lp~i-~~~-~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~  369 (680)
T 1ziw_A          292 LHGLFNVRYLNLKRSFTKQSISLASLPKI-DDF-SFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRT  369 (680)
T ss_dssp             TTTCTTCCEEECTTCBCCC------CCEE-CTT-TTTTCTTCCEEECCSCCBCCCCTTTTTTCTTCCEEECTTCBSCCCE
T ss_pred             hcCCCCccEEeccchhhhccccccccccc-Chh-hcccCCCCCEEECCCCccCCCChhHhccccCCcEEECCCCchhhhh
Confidence            2446788888887642211100  01111 111 22222222222211000  0011224456677777776643 1222


Q ss_pred             eecCCCCCCC---------CCCCC----CCccccccccccceeecCCcc-ccc-cccccCCCcCeEEecceeeeEEcccC
Q 044144          156 FCREVKTPSA---------SPNRP----ASQEESTTTYSSSEITLDTST-LLF-NEKVALPNLEALEISAINVDKIWHYN  220 (356)
Q Consensus       156 ~~~~~~~~~~---------~~~~~----~~~~~~~~~l~~l~i~~~~~~-~l~-~~~~~l~~L~~L~l~~~~l~~~~~~~  220 (356)
                      ++...+....         ..++.    ......+..++.++++.+.-. .++ ..+..+++|++|++.+|+++.+    
T Consensus       370 l~~~~f~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~----  445 (680)
T 1ziw_A          370 LTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQL----  445 (680)
T ss_dssp             ECTTTTGGGTTSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEEC----
T ss_pred             cchhhhcccccCcCceEECCCCCCCeEChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCccee----
Confidence            2211110000         00000    001113445667777666532 222 3456677888888888776662    


Q ss_pred             CCCCCCCCCCcCccEEeeccCcCcccc-chhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          221 QIPAAVFPRFQNLTRLIVWHCNKLKYI-FSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       221 ~~p~~~~~~l~~L~~L~i~~c~~l~~l-~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                        +...+..+++|+.|++.++. +..+ .....+..+++|+.|++++|. +..+. +.....      +++|++|+++++
T Consensus       446 --~~~~~~~~~~L~~L~l~~n~-l~~~~~~p~~~~~l~~L~~L~Ls~N~-l~~i~-~~~~~~------l~~L~~L~Ls~N  514 (680)
T 1ziw_A          446 --TRNSFALVPSLQRLMLRRVA-LKNVDSSPSPFQPLRNLTILDLSNNN-IANIN-DDMLEG------LEKLEILDLQHN  514 (680)
T ss_dssp             --CTTTTTTCTTCCEEECTTSC-CBCTTCSSCTTTTCTTCCEEECCSSC-CCCCC-TTTTTT------CTTCCEEECCSS
T ss_pred             --ChhhhhcCcccccchhcccc-ccccccCCcccccCCCCCEEECCCCC-CCcCC-hhhhcc------ccccCEEeCCCC
Confidence              22246677888888887753 2211 122456778889999998875 65542 233333      789999999887


Q ss_pred             ccceeecCCC-------CcCCCCcccEEeeccCcCccccccc
Q 044144          300 PKLRCLYPGM-------HTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       300 ~~L~~~~~~~-------~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                       +++.++...       .+..+++|+.|++.++ +++.+|.+
T Consensus       515 -~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~~  554 (680)
T 1ziw_A          515 -NLARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVE  554 (680)
T ss_dssp             -CCGGGGSTTSTTSCCCTTTTCTTCCEEECCSS-CCCCCCTT
T ss_pred             -CccccchhhccCCcchhhcCCCCCCEEECCCC-CCCCCCHH
Confidence             566653321       1356789999999987 57777754

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

Probab=99.49  E-value=7.3e-13  Score=121.44  Aligned_cols=271  Identities=15%  Similarity=0.069  Sum_probs=173.5

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+.++++|++|+++++ +++.+    .+..+..+++|++|+++++ .++.++...    
T Consensus        54 ~~l~~L~l~~n~-i~~~-~~~~~~~l~~L~~L~L~~n-~l~~~----~~~~~~~l~~L~~L~L~~n-~l~~l~~~~----  121 (332)
T 2ft3_A           54 PDTTLLDLQNND-ISEL-RKDDFKGLQHLYALVLVNN-KISKI----HEKAFSPLRKLQKLYISKN-HLVEIPPNL----  121 (332)
T ss_dssp             TTCCEEECCSSC-CCEE-CTTTTTTCTTCCEEECCSS-CCCEE----CGGGSTTCTTCCEEECCSS-CCCSCCSSC----
T ss_pred             CCCeEEECCCCc-CCcc-CHhHhhCCCCCcEEECCCC-ccCcc----CHhHhhCcCCCCEEECCCC-cCCccCccc----
Confidence            578899998764 4443 3335678999999999998 67665    2345778899999999985 566665433    


Q ss_pred             CCCCccEEEEccCCCccccCc-----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceee
Q 044144           83 SFNELKIIQAYNCDKLSNIFW-----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFC  157 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  157 (356)
                       +++|++|+++++. +..++.     +..+ +.| .++++.-- ...      .....+..+ +|+.|+++++. ++.++
T Consensus       122 -~~~L~~L~l~~n~-i~~~~~~~~~~l~~L-~~L-~l~~n~l~-~~~------~~~~~~~~l-~L~~L~l~~n~-l~~l~  188 (332)
T 2ft3_A          122 -PSSLVELRIHDNR-IRKVPKGVFSGLRNM-NCI-EMGGNPLE-NSG------FEPGAFDGL-KLNYLRISEAK-LTGIP  188 (332)
T ss_dssp             -CTTCCEEECCSSC-CCCCCSGGGSSCSSC-CEE-ECCSCCCB-GGG------SCTTSSCSC-CCSCCBCCSSB-CSSCC
T ss_pred             -cccCCEEECCCCc-cCccCHhHhCCCccC-CEE-ECCCCccc-cCC------CCcccccCC-ccCEEECcCCC-CCccC
Confidence             4899999999874 343332     2223 334 55544321 000      001122333 78888888753 44333


Q ss_pred             cCCCCCCCCCCCCCCccccccccccceeecCCcccc-ccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEE
Q 044144          158 REVKTPSASPNRPASQEESTTTYSSSEITLDTSTLL-FNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRL  236 (356)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l-~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L  236 (356)
                      ...                ...++.+.++.+.-... +..+..+++|+.|++.+|+++.      .+...+..+++|+.|
T Consensus       189 ~~~----------------~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~------~~~~~~~~l~~L~~L  246 (332)
T 2ft3_A          189 KDL----------------PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRM------IENGSLSFLPTLREL  246 (332)
T ss_dssp             SSS----------------CSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCC------CCTTGGGGCTTCCEE
T ss_pred             ccc----------------cCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCc------CChhHhhCCCCCCEE
Confidence            221                13477788877764333 3567788999999999998877      333346788999999


Q ss_pred             eeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccce-eecCCCCcCCCC
Q 044144          237 IVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLR-CLYPGMHTSEWP  315 (356)
Q Consensus       237 ~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~-~~~~~~~~~~~~  315 (356)
                      +++++ ++..+ |.. +..+++|+.|+++++. +..+. ............+++|+.|.+.++|-.. .+.. ..+..++
T Consensus       247 ~L~~N-~l~~l-p~~-l~~l~~L~~L~l~~N~-l~~~~-~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~-~~~~~l~  320 (332)
T 2ft3_A          247 HLDNN-KLSRV-PAG-LPDLKLLQVVYLHTNN-ITKVG-VNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQP-ATFRCVT  320 (332)
T ss_dssp             ECCSS-CCCBC-CTT-GGGCTTCCEEECCSSC-CCBCC-TTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCG-GGGTTBC
T ss_pred             ECCCC-cCeec-Chh-hhcCccCCEEECCCCC-CCccC-hhHccccccccccccccceEeecCcccccccCc-ccccccc
Confidence            99885 67776 644 6789999999999986 66552 2222221112235789999999987432 2222 2235678


Q ss_pred             cccEEeeccCc
Q 044144          316 ALEIFSVFRCD  326 (356)
Q Consensus       316 ~L~~L~i~~C~  326 (356)
                      +|+.+++.++.
T Consensus       321 ~L~~l~l~~n~  331 (332)
T 2ft3_A          321 DRLAIQFGNYK  331 (332)
T ss_dssp             CSTTEEC----
T ss_pred             hhhhhhccccc
Confidence            88888888765

>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=99.49  E-value=7.8e-13  Score=118.51  Aligned_cols=67  Identities=15%  Similarity=0.131  Sum_probs=43.2

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCcccc
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~  101 (356)
                      -.++|++|+++++ .++.+.    ...+..+++|++|+++++ .++.+....  ...+++|++|+++++..+..+
T Consensus        30 ~~~~l~~L~l~~n-~i~~~~----~~~~~~~~~L~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n~~l~~~   96 (285)
T 1ozn_A           30 IPAASQRIFLHGN-RISHVP----AASFRACRNLTILWLHSN-VLARIDAAA--FTGLALLEQLDLSDNAQLRSV   96 (285)
T ss_dssp             CCTTCSEEECTTS-CCCEEC----TTTTTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSCTTCCCC
T ss_pred             CCCCceEEEeeCC-cCCccC----HHHcccCCCCCEEECCCC-ccceeCHhh--cCCccCCCEEeCCCCCCcccc
Confidence            3567888888887 566551    224567788888888874 455552211  245788888888887655543

>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=99.49  E-value=5.2e-13  Score=120.90  Aligned_cols=228  Identities=17%  Similarity=0.163  Sum_probs=109.0

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc----
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW----  103 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~----  103 (356)
                      .++|++|+++++ +++.+    .......+++|++|+++++ .++.+.........+++|++|+++++. +..++.    
T Consensus        27 ~~~l~~L~L~~n-~l~~i----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~~~~~~L~~L~Ls~n~-i~~l~~~~~~   99 (306)
T 2z66_A           27 PSSATRLELESN-KLQSL----PHGVFDKLTQLTKLSLSSN-GLSFKGCCSQSDFGTTSLKYLDLSFNG-VITMSSNFLG   99 (306)
T ss_dssp             CTTCCEEECCSS-CCCCC----CTTTTTTCTTCSEEECCSS-CCCEEEEEEHHHHSCSCCCEEECCSCS-EEEEEEEEET
T ss_pred             CCCCCEEECCCC-ccCcc----CHhHhhccccCCEEECCCC-ccCcccCcccccccccccCEEECCCCc-cccChhhcCC
Confidence            357778888777 45544    1123456777888877774 343331111111336778888777763 222221    


Q ss_pred             hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccc
Q 044144          104 LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSS  183 (356)
Q Consensus       104 l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l  183 (356)
                      +..+ +.| .++++. +..++.       ...+..+++|+.|+++++. +...                           
T Consensus       100 l~~L-~~L-~l~~n~-l~~~~~-------~~~~~~l~~L~~L~l~~n~-l~~~---------------------------  141 (306)
T 2z66_A          100 LEQL-EHL-DFQHSN-LKQMSE-------FSVFLSLRNLIYLDISHTH-TRVA---------------------------  141 (306)
T ss_dssp             CTTC-CEE-ECTTSE-EESSTT-------TTTTTTCTTCCEEECTTSC-CEEC---------------------------
T ss_pred             CCCC-CEE-ECCCCc-cccccc-------chhhhhccCCCEEECCCCc-CCcc---------------------------
Confidence            1122 222 333321 111100       0123345666666666543 1111                           


Q ss_pred             eeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          184 EITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       184 ~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                               .+..+..+++|+.|++.++.++...    .|. .+..+++|+.|+++++ .+..+ +...+..+++|++|+
T Consensus       142 ---------~~~~~~~l~~L~~L~l~~n~l~~~~----~~~-~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~  205 (306)
T 2z66_A          142 ---------FNGIFNGLSSLEVLKMAGNSFQENF----LPD-IFTELRNLTFLDLSQC-QLEQL-SPTAFNSLSSLQVLN  205 (306)
T ss_dssp             ---------STTTTTTCTTCCEEECTTCEEGGGE----ECS-CCTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEE
T ss_pred             ---------chhhcccCcCCCEEECCCCcccccc----chh-HHhhCcCCCEEECCCC-CcCCc-CHHHhcCCCCCCEEE
Confidence                     1222344566666666666554300    111 2445666666666654 44454 334455566666666


Q ss_pred             EecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCC-CcccEEeeccCc
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEW-PALEIFSVFRCD  326 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~-~~L~~L~i~~C~  326 (356)
                      ++++. +..+. ......      +++|++|+++++ .++....... ..+ ++|+.|++.+++
T Consensus       206 L~~N~-l~~~~-~~~~~~------l~~L~~L~L~~N-~l~~~~~~~~-~~~~~~L~~L~L~~N~  259 (306)
T 2z66_A          206 MSHNN-FFSLD-TFPYKC------LNSLQVLDYSLN-HIMTSKKQEL-QHFPSSLAFLNLTQND  259 (306)
T ss_dssp             CTTSC-CSBCC-SGGGTT------CTTCCEEECTTS-CCCBCSSSSC-CCCCTTCCEEECTTCC
T ss_pred             CCCCc-cCccC-hhhccC------cccCCEeECCCC-CCcccCHHHH-HhhhccCCEEEccCCC
Confidence            66654 33331 111222      566666666665 4444333221 334 366666666654

>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=99.48  E-value=6e-13  Score=116.15  Aligned_cols=188  Identities=13%  Similarity=0.097  Sum_probs=118.9

Q ss_pred             cccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCccccc
Q 044144           58 PLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKI  137 (356)
Q Consensus        58 ~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~  137 (356)
                      ++|++|++++. .++.++...+  ..+++|++|+++++..++.++..                              .+.
T Consensus        31 ~~l~~L~l~~n-~l~~i~~~~~--~~l~~L~~L~l~~n~~l~~i~~~------------------------------~f~   77 (239)
T 2xwt_C           31 PSTQTLKLIET-HLRTIPSHAF--SNLPNISRIYVSIDVTLQQLESH------------------------------SFY   77 (239)
T ss_dssp             TTCCEEEEESC-CCSEECTTTT--TTCTTCCEEEEECCSSCCEECTT------------------------------TEE
T ss_pred             CcccEEEEeCC-cceEECHHHc--cCCCCCcEEeCCCCCCcceeCHh------------------------------HcC
Confidence            47888888773 4666644221  34778888888876545433310                              022


Q ss_pred             ccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEc
Q 044144          138 ELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIW  217 (356)
Q Consensus       138 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~  217 (356)
                      .+++|++|++++|..++.++..                                    .+..+++|+.|++.+++++.  
T Consensus        78 ~l~~L~~L~l~~~n~l~~i~~~------------------------------------~f~~l~~L~~L~l~~n~l~~--  119 (239)
T 2xwt_C           78 NLSKVTHIEIRNTRNLTYIDPD------------------------------------ALKELPLLKFLGIFNTGLKM--  119 (239)
T ss_dssp             SCTTCCEEEEEEETTCCEECTT------------------------------------SEECCTTCCEEEEEEECCCS--
T ss_pred             CCcCCcEEECCCCCCeeEcCHH------------------------------------HhCCCCCCCEEeCCCCCCcc--
Confidence            4467777777765555544322                                    12456788888888876665  


Q ss_pred             ccCCCCCCCCCCCcCcc---EEeeccCcCccccchhhhhhhcCCCC-eEEEecCcccceeeccCCCCcCcccccCCccCe
Q 044144          218 HYNQIPAAVFPRFQNLT---RLIVWHCNKLKYIFSASMIGSLKHLQ-HLEVRFCEDLQEIISENRADEVIPYFVFPQLTT  293 (356)
Q Consensus       218 ~~~~~p~~~~~~l~~L~---~L~i~~c~~l~~l~~~~~~~~l~~L~-~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~  293 (356)
                          +|.  +..+++|+   .|++++++.+..+ +...+..+++|+ +|+++++. ++.+.  .....      .++|++
T Consensus       120 ----lp~--~~~l~~L~~L~~L~l~~N~~l~~i-~~~~~~~l~~L~~~L~l~~n~-l~~i~--~~~~~------~~~L~~  183 (239)
T 2xwt_C          120 ----FPD--LTKVYSTDIFFILEITDNPYMTSI-PVNAFQGLCNETLTLKLYNNG-FTSVQ--GYAFN------GTKLDA  183 (239)
T ss_dssp             ----CCC--CTTCCBCCSEEEEEEESCTTCCEE-CTTTTTTTBSSEEEEECCSCC-CCEEC--TTTTT------TCEEEE
T ss_pred             ----ccc--cccccccccccEEECCCCcchhhc-CcccccchhcceeEEEcCCCC-CcccC--HhhcC------CCCCCE
Confidence                333  44556666   8888876677777 656667778888 88887765 55542  22211      357888


Q ss_pred             eeccccccceeecCCCCcCCC-CcccEEeeccCcCccccccc
Q 044144          294 LILQYLPKLRCLYPGMHTSEW-PALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       294 L~l~~c~~L~~~~~~~~~~~~-~~L~~L~i~~C~~l~~l~~~  334 (356)
                      |++.++++++.++.... ..+ ++|+.|++.++ +++.+|..
T Consensus       184 L~L~~n~~l~~i~~~~~-~~l~~~L~~L~l~~N-~l~~l~~~  223 (239)
T 2xwt_C          184 VYLNKNKYLTVIDKDAF-GGVYSGPSLLDVSQT-SVTALPSK  223 (239)
T ss_dssp             EECTTCTTCCEECTTTT-TTCSBCCSEEECTTC-CCCCCCCT
T ss_pred             EEcCCCCCcccCCHHHh-hccccCCcEEECCCC-ccccCChh
Confidence            88888777777765532 456 78888888874 46777655

>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=99.48  E-value=1.7e-12  Score=128.65  Aligned_cols=250  Identities=13%  Similarity=0.035  Sum_probs=139.5

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      +++.|++.+.. +..+ +. .  -.++|+.|++++| +++.+..        .+++|++|+++++ .++.++.      .
T Consensus        41 ~l~~L~ls~n~-L~~l-p~-~--l~~~L~~L~L~~N-~l~~lp~--------~l~~L~~L~Ls~N-~l~~lp~------~   99 (622)
T 3g06_A           41 GNAVLNVGESG-LTTL-PD-C--LPAHITTLVIPDN-NLTSLPA--------LPPELRTLEVSGN-QLTSLPV------L   99 (622)
T ss_dssp             CCCEEECCSSC-CSCC-CS-C--CCTTCSEEEECSC-CCSCCCC--------CCTTCCEEEECSC-CCSCCCC------C
T ss_pred             CCcEEEecCCC-cCcc-Ch-h--hCCCCcEEEecCC-CCCCCCC--------cCCCCCEEEcCCC-cCCcCCC------C
Confidence            46677776653 3333 22 1  1378999999888 5665511        4688999999885 4665543      4


Q ss_pred             CCCccEEEEccCCCccccCc-hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCC
Q 044144           84 FNELKIIQAYNCDKLSNIFW-LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKT  162 (356)
Q Consensus        84 l~~L~~L~l~~c~~l~~~~~-l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  162 (356)
                      +++|++|+++++ ++..++. +..+ +.| .++++. +..++.            .+++|++|+++++ .++.++...  
T Consensus       100 l~~L~~L~Ls~N-~l~~l~~~l~~L-~~L-~L~~N~-l~~lp~------------~l~~L~~L~Ls~N-~l~~l~~~~--  160 (622)
T 3g06_A          100 PPGLLELSIFSN-PLTHLPALPSGL-CKL-WIFGNQ-LTSLPV------------LPPGLQELSVSDN-QLASLPALP--  160 (622)
T ss_dssp             CTTCCEEEECSC-CCCCCCCCCTTC-CEE-ECCSSC-CSCCCC------------CCTTCCEEECCSS-CCSCCCCCC--
T ss_pred             CCCCCEEECcCC-cCCCCCCCCCCc-CEE-ECCCCC-CCcCCC------------CCCCCCEEECcCC-cCCCcCCcc--
Confidence            688999999886 4454443 2334 555 666553 444442            2367788877775 333332110  


Q ss_pred             CCC-----CCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEe
Q 044144          163 PSA-----SPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLI  237 (356)
Q Consensus       163 ~~~-----~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~  237 (356)
                      ...     ..|...........++.|.++.+.-..++.   .+++|+.|.+.+|.++.      +|.    .+++|+.|+
T Consensus       161 ~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~l~~l~~---~~~~L~~L~L~~N~l~~------l~~----~~~~L~~L~  227 (622)
T 3g06_A          161 SELCKLWAYNNQLTSLPMLPSGLQELSVSDNQLASLPT---LPSELYKLWAYNNRLTS------LPA----LPSGLKELI  227 (622)
T ss_dssp             TTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSCCSS------CCC----CCTTCCEEE
T ss_pred             CCCCEEECCCCCCCCCcccCCCCcEEECCCCCCCCCCC---ccchhhEEECcCCcccc------cCC----CCCCCCEEE
Confidence            000     000000000122334455554443222221   23556666666555444      222    236677777


Q ss_pred             eccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcc
Q 044144          238 VWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPAL  317 (356)
Q Consensus       238 i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L  317 (356)
                      ++++ +++.+ |    ..+++|+.|++++|. +..+.  .   .      +++|+.|++.+| +++.++...  ..+++|
T Consensus       228 Ls~N-~L~~l-p----~~l~~L~~L~Ls~N~-L~~lp--~---~------~~~L~~L~Ls~N-~L~~lp~~l--~~l~~L  286 (622)
T 3g06_A          228 VSGN-RLTSL-P----VLPSELKELMVSGNR-LTSLP--M---L------PSGLLSLSVYRN-QLTRLPESL--IHLSSE  286 (622)
T ss_dssp             CCSS-CCSCC-C----CCCTTCCEEECCSSC-CSCCC--C---C------CTTCCEEECCSS-CCCSCCGGG--GGSCTT
T ss_pred             ccCC-ccCcC-C----CCCCcCcEEECCCCC-CCcCC--c---c------cccCcEEeCCCC-CCCcCCHHH--hhcccc
Confidence            7664 56555 4    345677777777764 54442  1   1      567888888776 677665443  567788


Q ss_pred             cEEeeccCcC
Q 044144          318 EIFSVFRCDK  327 (356)
Q Consensus       318 ~~L~i~~C~~  327 (356)
                      +.|++.+++-
T Consensus       287 ~~L~L~~N~l  296 (622)
T 3g06_A          287 TTVNLEGNPL  296 (622)
T ss_dssp             CEEECCSCCC
T ss_pred             CEEEecCCCC
Confidence            8888888763

>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=99.48  E-value=1.4e-12  Score=128.26  Aligned_cols=109  Identities=13%  Similarity=0.112  Sum_probs=63.9

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhc-CCCCeEEEecCcccceeecc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSL-KHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l-~~L~~L~i~~c~~l~~i~~~  276 (356)
                      ..+++|+.|++++|+++..     +|...+..+++|+.|+++++. +....+    ..+ ++|+.|++++|. ++.+  +
T Consensus       400 ~~l~~L~~L~l~~N~l~~~-----~~~~~~~~l~~L~~L~l~~n~-l~~~~~----~~l~~~L~~L~L~~N~-l~~i--p  466 (562)
T 3a79_B          400 KNMSSLETLDVSLNSLNSH-----AYDRTCAWAESILVLNLSSNM-LTGSVF----RCLPPKVKVLDLHNNR-IMSI--P  466 (562)
T ss_dssp             TTCTTCCEEECTTSCCBSC-----CSSCCCCCCTTCCEEECCSSC-CCGGGG----SSCCTTCSEEECCSSC-CCCC--C
T ss_pred             cCCCCCCEEECCCCcCCCc-----cChhhhcCcccCCEEECCCCC-CCcchh----hhhcCcCCEEECCCCc-Cccc--C
Confidence            3444455555544433321     222234455666666665542 322212    122 467777777663 5544  2


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      .....      +++|++|+++++ +++.++... +..+++|+.|++.+++=
T Consensus       467 ~~~~~------l~~L~~L~L~~N-~l~~l~~~~-~~~l~~L~~L~l~~N~~  509 (562)
T 3a79_B          467 KDVTH------LQALQELNVASN-QLKSVPDGV-FDRLTSLQYIWLHDNPW  509 (562)
T ss_dssp             TTTTS------SCCCSEEECCSS-CCCCCCTTS-TTTCTTCCCEECCSCCB
T ss_pred             hhhcC------CCCCCEEECCCC-CCCCCCHHH-HhcCCCCCEEEecCCCc
Confidence            22223      889999999887 788888762 36789999999998874

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

Probab=99.47  E-value=4.9e-13  Score=121.69  Aligned_cols=242  Identities=13%  Similarity=0.043  Sum_probs=159.8

Q ss_pred             cccceeecccccccc---ccccccccccCCCCccEEEEccCCCccc-cCc-h---hhhhccccccccccchhhhhccccc
Q 044144           58 PLLESLILHNLINME---RIWIDQLKVESFNELKIIQAYNCDKLSN-IFW-L---STVVNHSSTVVNCSKMKEIFAIGEE  129 (356)
Q Consensus        58 ~~L~~L~l~~~~~l~---~l~~~~~~~~~l~~L~~L~l~~c~~l~~-~~~-l---~~ll~~L~~i~~c~~L~~l~~~~~~  129 (356)
                      .++++|++.++. +.   .++...   ..+++|++|+++++.++.. ++. +   ..+ +.| .++++.--..++     
T Consensus        50 ~~l~~L~L~~~~-l~~~~~~~~~l---~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L-~~L-~Ls~n~l~~~~p-----  118 (313)
T 1ogq_A           50 YRVNNLDLSGLN-LPKPYPIPSSL---ANLPYLNFLYIGGINNLVGPIPPAIAKLTQL-HYL-YITHTNVSGAIP-----  118 (313)
T ss_dssp             CCEEEEEEECCC-CSSCEECCGGG---GGCTTCSEEEEEEETTEESCCCGGGGGCTTC-SEE-EEEEECCEEECC-----
T ss_pred             ceEEEEECCCCC-ccCCcccChhH---hCCCCCCeeeCCCCCcccccCChhHhcCCCC-CEE-ECcCCeeCCcCC-----
Confidence            589999999954 44   344332   5689999999997555553 221 2   233 444 555554322333     


Q ss_pred             ccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCcc-ccccccccCC-CcCeEE
Q 044144          130 VDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTST-LLFNEKVALP-NLEALE  207 (356)
Q Consensus       130 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~-~l~~~~~~l~-~L~~L~  207 (356)
                          ..+..+++|++|+++++.--..++..              ...+..++.|.++.+.-. ..+..+..++ +|+.|+
T Consensus       119 ----~~~~~l~~L~~L~Ls~N~l~~~~p~~--------------~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~  180 (313)
T 1ogq_A          119 ----DFLSQIKTLVTLDFSYNALSGTLPPS--------------ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMT  180 (313)
T ss_dssp             ----GGGGGCTTCCEEECCSSEEESCCCGG--------------GGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEE
T ss_pred             ----HHHhCCCCCCEEeCCCCccCCcCChH--------------HhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEE
Confidence                23567899999999886422122211              124566888888888754 5677788887 999999


Q ss_pred             ecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCccccc
Q 044144          208 ISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFV  287 (356)
Q Consensus       208 l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~  287 (356)
                      +.+++++..     .|. .+..++ |+.|+++++ .+... +...+..+++|+.|+++++. +....  .....      
T Consensus       181 L~~N~l~~~-----~~~-~~~~l~-L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~L~~N~-l~~~~--~~~~~------  242 (313)
T 1ogq_A          181 ISRNRLTGK-----IPP-TFANLN-LAFVDLSRN-MLEGD-ASVLFGSDKNTQKIHLAKNS-LAFDL--GKVGL------  242 (313)
T ss_dssp             CCSSEEEEE-----CCG-GGGGCC-CSEEECCSS-EEEEC-CGGGCCTTSCCSEEECCSSE-ECCBG--GGCCC------
T ss_pred             CcCCeeecc-----CCh-HHhCCc-ccEEECcCC-cccCc-CCHHHhcCCCCCEEECCCCc-eeeec--Ccccc------
Confidence            999988763     332 244555 999999885 56655 44667889999999999986 43332  11333      


Q ss_pred             CCccCeeeccccccce-eecCCCCcCCCCcccEEeeccCcCcccccccccCCCCCCCCCCCCCC
Q 044144          288 FPQLTTLILQYLPKLR-CLYPGMHTSEWPALEIFSVFRCDKLKIFAADLSQNNENDQLGIPAQQ  350 (356)
Q Consensus       288 l~~L~~L~l~~c~~L~-~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~~~~~  350 (356)
                      +++|++|++.++ +++ .++...  ..+++|+.|++.++.--..+|.... ......+.+.+++
T Consensus       243 l~~L~~L~Ls~N-~l~~~~p~~l--~~l~~L~~L~Ls~N~l~~~ip~~~~-l~~L~~l~l~~N~  302 (313)
T 1ogq_A          243 SKNLNGLDLRNN-RIYGTLPQGL--TQLKFLHSLNVSFNNLCGEIPQGGN-LQRFDVSAYANNK  302 (313)
T ss_dssp             CTTCCEEECCSS-CCEECCCGGG--GGCTTCCEEECCSSEEEEECCCSTT-GGGSCGGGTCSSS
T ss_pred             cCCCCEEECcCC-cccCcCChHH--hcCcCCCEEECcCCcccccCCCCcc-ccccChHHhcCCC
Confidence            789999999988 455 444433  6789999999999875447776532 2334445555554

>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=99.47  E-value=1.1e-12  Score=125.34  Aligned_cols=127  Identities=20%  Similarity=0.157  Sum_probs=90.3

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+.++++|++|+++++ .++.+    ....+..+++|++|+++++ .++.++.+.+  .
T Consensus        75 ~~l~~L~L~~n~-i~~~-~~~~~~~l~~L~~L~Ls~n-~i~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~--~  144 (452)
T 3zyi_A           75 SNTRYLNLMENN-IQMI-QADTFRHLHHLEVLQLGRN-SIRQI----EVGAFNGLASLNTLELFDN-WLTVIPSGAF--E  144 (452)
T ss_dssp             TTCSEEECCSSC-CCEE-CTTTTTTCTTCCEEECCSS-CCCEE----CTTTTTTCTTCCEEECCSS-CCSBCCTTTS--S
T ss_pred             CCccEEECcCCc-CceE-CHHHcCCCCCCCEEECCCC-ccCCc----ChhhccCcccCCEEECCCC-cCCccChhhh--c
Confidence            468899998764 4443 3445678999999999998 67766    2245677899999999995 5776654322  4


Q ss_pred             CCCCccEEEEccCCCccccCc-----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCC
Q 044144           83 SFNELKIIQAYNCDKLSNIFW-----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNL  150 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  150 (356)
                      .+++|++|+++++. +..++.     ++.+ +.| .+++|..+..++.        ..+..+++|+.|+++++
T Consensus       145 ~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L-~~L-~l~~~~~l~~i~~--------~~~~~l~~L~~L~L~~n  206 (452)
T 3zyi_A          145 YLSKLRELWLRNNP-IESIPSYAFNRVPSL-MRL-DLGELKKLEYISE--------GAFEGLFNLKYLNLGMC  206 (452)
T ss_dssp             SCTTCCEEECCSCC-CCEECTTTTTTCTTC-CEE-ECCCCTTCCEECT--------TTTTTCTTCCEEECTTS
T ss_pred             ccCCCCEEECCCCC-cceeCHhHHhcCCcc-cEE-eCCCCCCccccCh--------hhccCCCCCCEEECCCC
Confidence            58999999999874 444432     3344 555 7888777776653        12456789999999886

>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=99.46  E-value=4.1e-12  Score=124.24  Aligned_cols=87  Identities=15%  Similarity=0.137  Sum_probs=52.1

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|++|+++++. +... ....++++++|++|+++++ .++.+   ..+..++.+++|++|++.++..+..++...  .
T Consensus        73 l~~L~~L~Ls~n~-l~~~-~~~~~~~l~~L~~L~Ls~n-~l~~~---~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~--~  144 (549)
T 2z81_A           73 LGSLEHLDLSDNH-LSSL-SSSWFGPLSSLKYLNLMGN-PYQTL---GVTSLFPNLTNLQTLRIGNVETFSEIRRID--F  144 (549)
T ss_dssp             CTTCCEEECTTSC-CCSC-CHHHHTTCTTCCEEECTTC-CCSSS---CSSCSCTTCTTCCEEEEEESSSCCEECTTT--T
T ss_pred             cccCCEEECCCCc-cCcc-CHHHhccCCCCcEEECCCC-ccccc---chhhhhhccCCccEEECCCCccccccCHhh--h
Confidence            5678888887764 2222 2222457888888888877 44422   112345667788888887765555554221  1


Q ss_pred             cCCCCccEEEEccCC
Q 044144           82 ESFNELKIIQAYNCD   96 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~   96 (356)
                      ..+++|++|+++++.
T Consensus       145 ~~l~~L~~L~L~~n~  159 (549)
T 2z81_A          145 AGLTSLNELEIKALS  159 (549)
T ss_dssp             TTCCEEEEEEEEETT
T ss_pred             hcccccCeeeccCCc
Confidence            346777777777654

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

Probab=99.46  E-value=2.4e-13  Score=123.90  Aligned_cols=243  Identities=16%  Similarity=0.103  Sum_probs=129.3

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhh
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST  106 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~  106 (356)
                      .+++|++|+++++ +++.+    .+..+..+++|++|+++++. +...+.    ...+++|++|+++++ ++..++..+.
T Consensus        32 ~~~~L~~L~L~~n-~l~~~----~~~~~~~l~~L~~L~Ls~n~-l~~~~~----~~~l~~L~~L~Ls~n-~l~~l~~~~~  100 (317)
T 3o53_A           32 SAWNVKELDLSGN-PLSQI----SAADLAPFTKLELLNLSSNV-LYETLD----LESLSTLRTLDLNNN-YVQELLVGPS  100 (317)
T ss_dssp             TGGGCSEEECTTS-CCCCC----CHHHHTTCTTCCEEECTTSC-CEEEEE----ETTCTTCCEEECCSS-EEEEEEECTT
T ss_pred             cCCCCCEEECcCC-ccCcC----CHHHhhCCCcCCEEECCCCc-CCcchh----hhhcCCCCEEECcCC-ccccccCCCC
Confidence            4567777777776 45433    12345667777777777743 433321    345677777777775 3444444444


Q ss_pred             hhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceee
Q 044144          107 VVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEIT  186 (356)
Q Consensus       107 ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~  186 (356)
                      + +.| .++++. +..++           ...+++|++|.++++. ++.+....+             ..+..++.|.++
T Consensus       101 L-~~L-~l~~n~-l~~~~-----------~~~~~~L~~L~l~~N~-l~~~~~~~~-------------~~l~~L~~L~Ls  152 (317)
T 3o53_A          101 I-ETL-HAANNN-ISRVS-----------CSRGQGKKNIYLANNK-ITMLRDLDE-------------GCRSRVQYLDLK  152 (317)
T ss_dssp             C-CEE-ECCSSC-CSEEE-----------ECCCSSCEEEECCSSC-CCSGGGBCT-------------GGGSSEEEEECT
T ss_pred             c-CEE-ECCCCc-cCCcC-----------ccccCCCCEEECCCCC-CCCccchhh-------------hccCCCCEEECC
Confidence            4 555 554443 22222           1234667777776643 222211100             023335555555


Q ss_pred             cCCcccc-cccc-ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEE
Q 044144          187 LDTSTLL-FNEK-VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEV  264 (356)
Q Consensus       187 ~~~~~~l-~~~~-~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i  264 (356)
                      .+.-... +..+ ..+++|+.|++.+|.++.+      +.  ...+++|+.|+++++ ++..+ +.. +..+++|+.|++
T Consensus       153 ~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~------~~--~~~l~~L~~L~Ls~N-~l~~l-~~~-~~~l~~L~~L~L  221 (317)
T 3o53_A          153 LNEIDTVNFAELAASSDTLEHLNLQYNFIYDV------KG--QVVFAKLKTLDLSSN-KLAFM-GPE-FQSAAGVTWISL  221 (317)
T ss_dssp             TSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE------EC--CCCCTTCCEEECCSS-CCCEE-CGG-GGGGTTCSEEEC
T ss_pred             CCCCCcccHHHHhhccCcCCEEECCCCcCccc------cc--ccccccCCEEECCCC-cCCcc-hhh-hcccCcccEEEC
Confidence            4442222 2222 3467777777777766663      11  113577777777664 56665 433 556777777777


Q ss_pred             ecCcccceeeccCCCCcCcccccCCccCeeeccccccc-eeecCCCCcCCCCcccEEeeccCcCccc
Q 044144          265 RFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKL-RCLYPGMHTSEWPALEIFSVFRCDKLKI  330 (356)
Q Consensus       265 ~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L-~~~~~~~~~~~~~~L~~L~i~~C~~l~~  330 (356)
                      ++|. +..+  +.....      +++|+.|++.+++-- ..++...  ..++.|+.+++.++..++.
T Consensus       222 ~~N~-l~~l--~~~~~~------l~~L~~L~l~~N~~~~~~~~~~~--~~~~~L~~l~l~~~~~l~~  277 (317)
T 3o53_A          222 RNNK-LVLI--EKALRF------SQNLEHFDLRGNGFHCGTLRDFF--SKNQRVQTVAKQTVKKLTG  277 (317)
T ss_dssp             TTSC-CCEE--CTTCCC------CTTCCEEECTTCCCBHHHHHHHH--HTCHHHHHHHHHHHHHHHS
T ss_pred             cCCc-ccch--hhHhhc------CCCCCEEEccCCCccCcCHHHHH--hccccceEEECCCchhccC
Confidence            7764 5554  233333      667777777776433 1222211  4556677766665555443

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

Probab=99.46  E-value=7.9e-13  Score=126.03  Aligned_cols=221  Identities=17%  Similarity=0.184  Sum_probs=143.0

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+.++++|++|+++++ .++.+    ....+..+++|++|+++++ .++.++.+.  ..
T Consensus        64 ~~l~~L~L~~n~-i~~~-~~~~~~~l~~L~~L~Ls~n-~i~~i----~~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~  133 (440)
T 3zyj_A           64 TNTRLLNLHENQ-IQII-KVNSFKHLRHLEILQLSRN-HIRTI----EIGAFNGLANLNTLELFDN-RLTTIPNGA--FV  133 (440)
T ss_dssp             TTCSEEECCSCC-CCEE-CTTTTSSCSSCCEEECCSS-CCCEE----CGGGGTTCSSCCEEECCSS-CCSSCCTTT--SC
T ss_pred             CCCcEEEccCCc-CCee-CHHHhhCCCCCCEEECCCC-cCCcc----ChhhccCCccCCEEECCCC-cCCeeCHhH--hh
Confidence            467889998764 4443 3345678999999999998 67766    2245677899999999995 677765432  24


Q ss_pred             CCCCccEEEEccCCCccccCc-----hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceee
Q 044144           83 SFNELKIIQAYNCDKLSNIFW-----LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFC  157 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~-----l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  157 (356)
                      .+++|++|+++++. +..++.     ++.+ +.| .+.++..+..++.        ..+..+++|++|+++++ +++.++
T Consensus       134 ~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L-~~L-~l~~~~~l~~i~~--------~~~~~l~~L~~L~L~~n-~l~~~~  201 (440)
T 3zyj_A          134 YLSKLKELWLRNNP-IESIPSYAFNRIPSL-RRL-DLGELKRLSYISE--------GAFEGLSNLRYLNLAMC-NLREIP  201 (440)
T ss_dssp             SCSSCCEEECCSCC-CCEECTTTTTTCTTC-CEE-ECCCCTTCCEECT--------TTTTTCSSCCEEECTTS-CCSSCC
T ss_pred             ccccCceeeCCCCc-ccccCHHHhhhCccc-CEe-CCCCCCCcceeCc--------chhhcccccCeecCCCC-cCcccc
Confidence            58999999999874 444432     3344 555 7777776666553        12556789999999886 344333


Q ss_pred             cCCCCCCCCCCCCCCccccccccccceeecCCcccc-ccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEE
Q 044144          158 REVKTPSASPNRPASQEESTTTYSSSEITLDTSTLL-FNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRL  236 (356)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l-~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L  236 (356)
                      .               ...+..++.|+++.+.-... +..+..+++|+.|++.+++++.+      +...+..+++|+.|
T Consensus       202 ~---------------~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~------~~~~~~~l~~L~~L  260 (440)
T 3zyj_A          202 N---------------LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVI------ERNAFDNLQSLVEI  260 (440)
T ss_dssp             C---------------CTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEE------CTTSSTTCTTCCEE
T ss_pred             c---------------cCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEE------ChhhhcCCCCCCEE
Confidence            1               01334466666666553222 34556667777777777766663      11235566777777


Q ss_pred             eeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          237 IVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       237 ~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +++++ +++.+ +...+..+++|+.|++++++
T Consensus       261 ~L~~N-~l~~~-~~~~~~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          261 NLAHN-NLTLL-PHDLFTPLHHLERIHLHHNP  290 (440)
T ss_dssp             ECTTS-CCCCC-CTTTTSSCTTCCEEECCSSC
T ss_pred             ECCCC-CCCcc-ChhHhccccCCCEEEcCCCC
Confidence            77663 56666 55556666777777776544

>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=99.44  E-value=4.1e-12  Score=117.41  Aligned_cols=221  Identities=17%  Similarity=0.107  Sum_probs=138.8

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LST  106 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~~  106 (356)
                      +++++|+++++ +++.+.    ......+++|++|+++++.-++.++.+.+  ..+++++++.+.++.++..+++  +..
T Consensus        30 ~~l~~L~Ls~N-~i~~i~----~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f--~~L~~l~~~l~~~~N~l~~l~~~~f~~  102 (350)
T 4ay9_X           30 RNAIELRFVLT-KLRVIQ----KGAFSGFGDLEKIEISQNDVLEVIEADVF--SNLPKLHEIRIEKANNLLYINPEAFQN  102 (350)
T ss_dssp             TTCSEEEEESC-CCSEEC----TTSSTTCTTCCEEEEECCTTCCEECTTSB--CSCTTCCEEEEEEETTCCEECTTSBCC
T ss_pred             CCCCEEEccCC-cCCCcC----HHHHcCCCCCCEEECcCCCCCCccChhHh--hcchhhhhhhcccCCcccccCchhhhh
Confidence            57889999887 687771    12456788899999988665555543321  2467777777777777776542  122


Q ss_pred             h--hccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccce
Q 044144          107 V--VNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSE  184 (356)
Q Consensus       107 l--l~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  184 (356)
                      +  |+.| .++++. +..++.        .......++..+.+.+..++..++...+                       
T Consensus       103 l~~L~~L-~l~~n~-l~~~~~--------~~~~~~~~l~~l~l~~~~~i~~l~~~~f-----------------------  149 (350)
T 4ay9_X          103 LPNLQYL-LISNTG-IKHLPD--------VHKIHSLQKVLLDIQDNINIHTIERNSF-----------------------  149 (350)
T ss_dssp             CTTCCEE-EEEEEC-CSSCCC--------CTTCCBSSCEEEEEESCTTCCEECTTSS-----------------------
T ss_pred             ccccccc-cccccc-cccCCc--------hhhcccchhhhhhhccccccccccccch-----------------------
Confidence            2  0222 333321 222221        0111223455555555555554443221                       


Q ss_pred             eecCCccccccccccC-CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEE
Q 044144          185 ITLDTSTLLFNEKVAL-PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLE  263 (356)
Q Consensus       185 i~~~~~~~l~~~~~~l-~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~  263 (356)
                                   ..+ ..++.|++.+++++.+      |...+ ...+|++|.+.+++.++.+ |...++.+++|+.|+
T Consensus       150 -------------~~~~~~l~~L~L~~N~i~~i------~~~~f-~~~~L~~l~l~~~n~l~~i-~~~~f~~l~~L~~Ld  208 (350)
T 4ay9_X          150 -------------VGLSFESVILWLNKNGIQEI------HNSAF-NGTQLDELNLSDNNNLEEL-PNDVFHGASGPVILD  208 (350)
T ss_dssp             -------------TTSBSSCEEEECCSSCCCEE------CTTSS-TTEEEEEEECTTCTTCCCC-CTTTTTTEECCSEEE
T ss_pred             -------------hhcchhhhhhccccccccCC------Chhhc-cccchhHHhhccCCcccCC-CHHHhccCcccchhh
Confidence                         122 4678888888888874      22224 4567889988888888888 777788889999999


Q ss_pred             EecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeecc
Q 044144          264 VRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       264 i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      ++++. ++.+.  ...        +.+|+.|.+.++.+++.+|..   ..+++|+.+++.+
T Consensus       209 Ls~N~-l~~lp--~~~--------~~~L~~L~~l~~~~l~~lP~l---~~l~~L~~l~l~~  255 (350)
T 4ay9_X          209 ISRTR-IHSLP--SYG--------LENLKKLRARSTYNLKKLPTL---EKLVALMEASLTY  255 (350)
T ss_dssp             CTTSC-CCCCC--SSS--------CTTCCEEECTTCTTCCCCCCT---TTCCSCCEEECSC
T ss_pred             cCCCC-cCccC--hhh--------hccchHhhhccCCCcCcCCCc---hhCcChhhCcCCC
Confidence            99875 76662  222        568888888888888888753   5678888887754

>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=99.43  E-value=1.1e-12  Score=117.60  Aligned_cols=85  Identities=19%  Similarity=0.299  Sum_probs=62.3

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+..+++|++|+++++ .++.+    .+..+..+++|++|+++++..++.++...  ..
T Consensus        32 ~~l~~L~l~~n~-i~~~-~~~~~~~~~~L~~L~l~~n-~l~~~----~~~~~~~l~~L~~L~l~~n~~l~~~~~~~--~~  102 (285)
T 1ozn_A           32 AASQRIFLHGNR-ISHV-PAASFRACRNLTILWLHSN-VLARI----DAAAFTGLALLEQLDLSDNAQLRSVDPAT--FH  102 (285)
T ss_dssp             TTCSEEECTTSC-CCEE-CTTTTTTCTTCCEEECCSS-CCCEE----CTTTTTTCTTCCEEECCSCTTCCCCCTTT--TT
T ss_pred             CCceEEEeeCCc-CCcc-CHHHcccCCCCCEEECCCC-cccee----CHhhcCCccCCCEEeCCCCCCccccCHHH--hc
Confidence            478899998764 3443 3334568999999999998 67665    23456778999999999976677663322  24


Q ss_pred             CCCCccEEEEccCC
Q 044144           83 SFNELKIIQAYNCD   96 (356)
Q Consensus        83 ~l~~L~~L~l~~c~   96 (356)
                      .+++|++|+++++.
T Consensus       103 ~l~~L~~L~l~~n~  116 (285)
T 1ozn_A          103 GLGRLHTLHLDRCG  116 (285)
T ss_dssp             TCTTCCEEECTTSC
T ss_pred             CCcCCCEEECCCCc
Confidence            58999999999874

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

Probab=99.43  E-value=6e-13  Score=128.52  Aligned_cols=215  Identities=17%  Similarity=0.128  Sum_probs=101.1

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhh
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLST  106 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~  106 (356)
                      .+++|++|+++++ .+..+    .+..+..+++|++|+++++. +...+.    ...+++|+.|+++++ .+..++..+.
T Consensus        32 ~~~~L~~L~Ls~n-~l~~~----~~~~~~~l~~L~~L~Ls~N~-l~~~~~----l~~l~~L~~L~Ls~N-~l~~l~~~~~  100 (487)
T 3oja_A           32 SAWNVKELDLSGN-PLSQI----SAADLAPFTKLELLNLSSNV-LYETLD----LESLSTLRTLDLNNN-YVQELLVGPS  100 (487)
T ss_dssp             TGGGCCEEECCSS-CCCCC----CGGGGTTCTTCCEEECTTSC-CEEEEE----CTTCTTCCEEECCSS-EEEEEEECTT
T ss_pred             cCCCccEEEeeCC-cCCCC----CHHHHhCCCCCCEEEeeCCC-CCCCcc----cccCCCCCEEEecCC-cCCCCCCCCC
Confidence            3446777777776 45433    12345667777777777743 433321    345677777777766 4444444444


Q ss_pred             hhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceee
Q 044144          107 VVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEIT  186 (356)
Q Consensus       107 ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~  186 (356)
                      + +.| .++++. +..++.           ..+++|+.|+++++. ++.+....             .+.+..++.|+++
T Consensus       101 L-~~L-~L~~N~-l~~~~~-----------~~l~~L~~L~L~~N~-l~~~~~~~-------------~~~l~~L~~L~Ls  152 (487)
T 3oja_A          101 I-ETL-HAANNN-ISRVSC-----------SRGQGKKNIYLANNK-ITMLRDLD-------------EGCRSRVQYLDLK  152 (487)
T ss_dssp             C-CEE-ECCSSC-CCCEEE-----------CCCSSCEEEECCSSC-CCSGGGBC-------------GGGGSSEEEEECT
T ss_pred             c-CEE-ECcCCc-CCCCCc-----------cccCCCCEEECCCCC-CCCCCchh-------------hcCCCCCCEEECC
Confidence            4 555 454443 111111           134566666666543 22111100             0012223333333


Q ss_pred             cCCccc-cccccc-cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEE
Q 044144          187 LDTSTL-LFNEKV-ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEV  264 (356)
Q Consensus       187 ~~~~~~-l~~~~~-~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i  264 (356)
                      .+.-.. .+..+. .+++|+.|++++|.++.+      |.  ...+++|+.|+++++ .+..+ |.. +..+++|+.|++
T Consensus       153 ~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~------~~--~~~l~~L~~L~Ls~N-~l~~~-~~~-~~~l~~L~~L~L  221 (487)
T 3oja_A          153 LNEIDTVNFAELAASSDTLEHLNLQYNFIYDV------KG--QVVFAKLKTLDLSSN-KLAFM-GPE-FQSAAGVTWISL  221 (487)
T ss_dssp             TSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE------EC--CCCCTTCCEEECCSS-CCCEE-CGG-GGGGTTCSEEEC
T ss_pred             CCCCCCcChHHHhhhCCcccEEecCCCccccc------cc--cccCCCCCEEECCCC-CCCCC-CHh-HcCCCCccEEEe
Confidence            333111 222222 455566666666555542      11  113455666666543 44444 322 445556666666


Q ss_pred             ecCcccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          265 RFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       265 ~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      ++|. +..+  +.....      +++|+.|++.+++
T Consensus       222 s~N~-l~~l--p~~l~~------l~~L~~L~l~~N~  248 (487)
T 3oja_A          222 RNNK-LVLI--EKALRF------SQNLEHFDLRGNG  248 (487)
T ss_dssp             TTSC-CCEE--CTTCCC------CTTCCEEECTTCC
T ss_pred             cCCc-Cccc--chhhcc------CCCCCEEEcCCCC
Confidence            5544 4333  122222      4555556555543

>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=99.42  E-value=3e-12  Score=126.81  Aligned_cols=226  Identities=15%  Similarity=0.089  Sum_probs=135.4

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++|+.|++.++. ++.+ +.    .+++|++|++++| +++.+..        .+++|++|+++++ .++.++.      
T Consensus        61 ~~L~~L~L~~N~-l~~l-p~----~l~~L~~L~Ls~N-~l~~lp~--------~l~~L~~L~Ls~N-~l~~l~~------  118 (622)
T 3g06_A           61 AHITTLVIPDNN-LTSL-PA----LPPELRTLEVSGN-QLTSLPV--------LPPGLLELSIFSN-PLTHLPA------  118 (622)
T ss_dssp             TTCSEEEECSCC-CSCC-CC----CCTTCCEEEECSC-CCSCCCC--------CCTTCCEEEECSC-CCCCCCC------
T ss_pred             CCCcEEEecCCC-CCCC-CC----cCCCCCEEEcCCC-cCCcCCC--------CCCCCCEEECcCC-cCCCCCC------
Confidence            467888887763 3332 11    5788888888887 4654411        5677888877774 4554432      


Q ss_pred             CCCCccEEEEccCCCccccCc-hhhhhccccccccccchhhhhccccc-------cc-CcccccccccccEEecCCCCCc
Q 044144           83 SFNELKIIQAYNCDKLSNIFW-LSTVVNHSSTVVNCSKMKEIFAIGEE-------VD-NSIEKIELAQLRYLSLGNLPEV  153 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~-l~~ll~~L~~i~~c~~L~~l~~~~~~-------~~-~~~~~~~~~~L~~L~l~~~~~l  153 (356)
                      .+++|+.|+++++ ++..++. ++.+ +.| .++++ .+..++.....       .+ ...-...+++|+.|+++++. +
T Consensus       119 ~l~~L~~L~L~~N-~l~~lp~~l~~L-~~L-~Ls~N-~l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~-l  193 (622)
T 3g06_A          119 LPSGLCKLWIFGN-QLTSLPVLPPGL-QEL-SVSDN-QLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQ-L  193 (622)
T ss_dssp             CCTTCCEEECCSS-CCSCCCCCCTTC-CEE-ECCSS-CCSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSC-C
T ss_pred             CCCCcCEEECCCC-CCCcCCCCCCCC-CEE-ECcCC-cCCCcCCccCCCCEEECCCCCCCCCcccCCCCcEEECCCCC-C
Confidence            3466777777665 3444432 2333 444 44444 22222210000       00 00000123556666665532 3


Q ss_pred             ceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCc
Q 044144          154 TSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNL  233 (356)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L  233 (356)
                      +.++.                 ....++.|.++++.-..++.   .+++|+.|++++|+++.      +|.    .+++|
T Consensus       194 ~~l~~-----------------~~~~L~~L~L~~N~l~~l~~---~~~~L~~L~Ls~N~L~~------lp~----~l~~L  243 (622)
T 3g06_A          194 ASLPT-----------------LPSELYKLWAYNNRLTSLPA---LPSGLKELIVSGNRLTS------LPV----LPSEL  243 (622)
T ss_dssp             SCCCC-----------------CCTTCCEEECCSSCCSSCCC---CCTTCCEEECCSSCCSC------CCC----CCTTC
T ss_pred             CCCCC-----------------ccchhhEEECcCCcccccCC---CCCCCCEEEccCCccCc------CCC----CCCcC
Confidence            32221                 23447778877776444442   35899999999998877      342    56899


Q ss_pred             cEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          234 TRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       234 ~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      +.|+++++ +++.+ |.    .+++|+.|++++|. +..+  +.....      +++|+.|++.+++
T Consensus       244 ~~L~Ls~N-~L~~l-p~----~~~~L~~L~Ls~N~-L~~l--p~~l~~------l~~L~~L~L~~N~  295 (622)
T 3g06_A          244 KELMVSGN-RLTSL-PM----LPSGLLSLSVYRNQ-LTRL--PESLIH------LSSETTVNLEGNP  295 (622)
T ss_dssp             CEEECCSS-CCSCC-CC----CCTTCCEEECCSSC-CCSC--CGGGGG------SCTTCEEECCSCC
T ss_pred             cEEECCCC-CCCcC-Cc----ccccCcEEeCCCCC-CCcC--CHHHhh------ccccCEEEecCCC
Confidence            99999885 78777 64    56899999999985 6655  233444      8999999999885

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

Probab=99.42  E-value=8.7e-12  Score=128.36  Aligned_cols=277  Identities=17%  Similarity=0.151  Sum_probs=140.6

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++++.. +..+ .+..+.++++|++|++++|.....+    .+..+..+++|++|+++++. +..+....  ..
T Consensus        24 ~~l~~LdLs~N~-i~~i-~~~~~~~l~~L~~LdLs~n~~~~~i----~~~~f~~L~~L~~L~Ls~N~-l~~~~p~~--~~   94 (844)
T 3j0a_A           24 NTTERLLLSFNY-IRTV-TASSFPFLEQLQLLELGSQYTPLTI----DKEAFRNLPNLRILDLGSSK-IYFLHPDA--FQ   94 (844)
T ss_dssp             TTCCEEEEESCC-CCEE-CSSSCSSCCSCSEEEECTTCCCCEE----CTTTTSSCTTCCEEECTTCC-CCEECTTS--SC
T ss_pred             CCcCEEECCCCc-CCcc-ChhHCcccccCeEEeCCCCCCcccc----CHHHhcCCCCCCEEECCCCc-CcccCHhH--cc
Confidence            567788887653 3333 3345567888888888888555544    12356677888888888853 44442211  24


Q ss_pred             CCCCccEEEEccCCCccccC------chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCccee
Q 044144           83 SFNELKIIQAYNCDKLSNIF------WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSF  156 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~------~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  156 (356)
                      .+++|++|++++|.--...+      .+..+ +.| .++++.-....+        ...+..+++|++|+++++. ++..
T Consensus        95 ~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L-~~L-~Ls~N~l~~~~~--------~~~~~~L~~L~~L~Ls~N~-i~~~  163 (844)
T 3j0a_A           95 GLFHLFELRLYFCGLSDAVLKDGYFRNLKAL-TRL-DLSKNQIRSLYL--------HPSFGKLNSLKSIDFSSNQ-IFLV  163 (844)
T ss_dssp             SCSSCCCEECTTCCCSSCCSTTCCCSSCSSC-CEE-EEESCCCCCCCC--------CGGGGTCSSCCEEEEESSC-CCCC
T ss_pred             CCcccCEeeCcCCCCCcccccCccccccCCC-CEE-ECCCCccccccc--------chhHhhCCCCCEEECCCCc-CCee
Confidence            57888888888874322222      12222 333 444443211110        1134567778888777642 2211


Q ss_pred             ecCCCCCCCCCCCCCCccccc--cccccceeecCCc-cccccccccCC------CcCeEEecceeeeEE-----------
Q 044144          157 CREVKTPSASPNRPASQEEST--TTYSSSEITLDTS-TLLFNEKVALP------NLEALEISAINVDKI-----------  216 (356)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~~--~~l~~l~i~~~~~-~~l~~~~~~l~------~L~~L~l~~~~l~~~-----------  216 (356)
                      ....+             ..+  ..++.+.++.+.- ...+..+..++      +|+.|++.+|.++..           
T Consensus       164 ~~~~l-------------~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~  230 (844)
T 3j0a_A          164 CEHEL-------------EPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISK  230 (844)
T ss_dssp             CSGGG-------------HHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCS
T ss_pred             CHHHc-------------ccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCc
Confidence            11000             011  2344444444431 11122222222      256666655532210           


Q ss_pred             ----------------cccCC---CCCCCCCC--CcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          217 ----------------WHYNQ---IPAAVFPR--FQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       217 ----------------~~~~~---~p~~~~~~--l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                                      +....   .....+..  .++|+.|+++++ .+..+ +...+..+++|+.|++.++. +..+. 
T Consensus       231 ~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~L~~n~-i~~~~-  306 (844)
T 3j0a_A          231 SQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHG-FVFSL-NSRVFETLKDLKVLNLAYNK-INKIA-  306 (844)
T ss_dssp             CCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTC-CCCEE-CSCCSSSCCCCCEEEEESCC-CCEEC-
T ss_pred             ccccceecccccccccccccccCCCChhhhhccccCCccEEECCCC-ccccc-ChhhhhcCCCCCEEECCCCc-CCCCC-
Confidence                            00000   00011222  378999999885 56666 45667889999999999986 65553 


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeecc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      +.....      +++|++|++.++ +++.+.... +..+++|+.|++.+
T Consensus       307 ~~~~~~------l~~L~~L~Ls~N-~l~~~~~~~-~~~l~~L~~L~L~~  347 (844)
T 3j0a_A          307 DEAFYG------LDNLQVLNLSYN-LLGELYSSN-FYGLPKVAYIDLQK  347 (844)
T ss_dssp             TTTTTT------CSSCCEEEEESC-CCSCCCSCS-CSSCTTCCEEECCS
T ss_pred             hHHhcC------CCCCCEEECCCC-CCCccCHHH-hcCCCCCCEEECCC
Confidence            222332      556666666554 333332211 13344455544444

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

Probab=99.41  E-value=1.8e-13  Score=124.80  Aligned_cols=266  Identities=16%  Similarity=0.171  Sum_probs=173.3

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+.|++.++. +... .+..+..+++|++|+++++ .++.+      ..+..+++|++|+++++ .++.++      
T Consensus        33 ~~~L~~L~L~~n~-l~~~-~~~~~~~l~~L~~L~Ls~n-~l~~~------~~~~~l~~L~~L~Ls~n-~l~~l~------   96 (317)
T 3o53_A           33 AWNVKELDLSGNP-LSQI-SAADLAPFTKLELLNLSSN-VLYET------LDLESLSTLRTLDLNNN-YVQELL------   96 (317)
T ss_dssp             GGGCSEEECTTSC-CCCC-CHHHHTTCTTCCEEECTTS-CCEEE------EEETTCTTCCEEECCSS-EEEEEE------
T ss_pred             CCCCCEEECcCCc-cCcC-CHHHhhCCCcCCEEECCCC-cCCcc------hhhhhcCCCCEEECcCC-cccccc------
Confidence            4578999998864 3333 2234568999999999998 56654      23677899999999995 465553      


Q ss_pred             cCCCCccEEEEccCCCccccC--chhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecC
Q 044144           82 ESFNELKIIQAYNCDKLSNIF--WLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCRE  159 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~--~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  159 (356)
                       ..++|++|+++++. +..++  .++.+ +.| .++++.- ..++.        ..+..+++|+.|+++++. ++.....
T Consensus        97 -~~~~L~~L~l~~n~-l~~~~~~~~~~L-~~L-~l~~N~l-~~~~~--------~~~~~l~~L~~L~Ls~N~-l~~~~~~  162 (317)
T 3o53_A           97 -VGPSIETLHAANNN-ISRVSCSRGQGK-KNI-YLANNKI-TMLRD--------LDEGCRSRVQYLDLKLNE-IDTVNFA  162 (317)
T ss_dssp             -ECTTCCEEECCSSC-CSEEEECCCSSC-EEE-ECCSSCC-CSGGG--------BCTGGGSSEEEEECTTSC-CCEEEGG
T ss_pred             -CCCCcCEEECCCCc-cCCcCccccCCC-CEE-ECCCCCC-CCccc--------hhhhccCCCCEEECCCCC-CCcccHH
Confidence             24789999998864 33332  13344 555 6665532 22221        124467889999998853 4443322


Q ss_pred             CCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeec
Q 044144          160 VKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVW  239 (356)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~  239 (356)
                      .+.            ..+..++.|.++.+.-..++ ....+++|+.|++++|+++.+      |.. +..+++|+.|+++
T Consensus       163 ~~~------------~~l~~L~~L~L~~N~l~~~~-~~~~l~~L~~L~Ls~N~l~~l------~~~-~~~l~~L~~L~L~  222 (317)
T 3o53_A          163 ELA------------ASSDTLEHLNLQYNFIYDVK-GQVVFAKLKTLDLSSNKLAFM------GPE-FQSAAGVTWISLR  222 (317)
T ss_dssp             GGG------------GGTTTCCEEECTTSCCCEEE-CCCCCTTCCEEECCSSCCCEE------CGG-GGGGTTCSEEECT
T ss_pred             HHh------------hccCcCCEEECCCCcCcccc-cccccccCCEEECCCCcCCcc------hhh-hcccCcccEEECc
Confidence            111            02345788888777644443 333589999999999988873      321 6678999999998


Q ss_pred             cCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccE
Q 044144          240 HCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEI  319 (356)
Q Consensus       240 ~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~  319 (356)
                      ++ .++.+ |. .+..+++|+.|++++++-.... .+.....      +++|+.|.+.+++.++......  ...+....
T Consensus       223 ~N-~l~~l-~~-~~~~l~~L~~L~l~~N~~~~~~-~~~~~~~------~~~L~~l~l~~~~~l~~~~~~~--~~~~~~~~  290 (317)
T 3o53_A          223 NN-KLVLI-EK-ALRFSQNLEHFDLRGNGFHCGT-LRDFFSK------NQRVQTVAKQTVKKLTGQNEEE--CTVPTLGH  290 (317)
T ss_dssp             TS-CCCEE-CT-TCCCCTTCCEEECTTCCCBHHH-HHHHHHT------CHHHHHHHHHHHHHHHSSSSCC--CSSTTCEE
T ss_pred             CC-cccch-hh-HhhcCCCCCEEEccCCCccCcC-HHHHHhc------cccceEEECCCchhccCCchhc--cCCCceec
Confidence            85 77776 64 4577899999999998732111 1222223      7889999999888888765543  33444555


Q ss_pred             EeeccCcCcc
Q 044144          320 FSVFRCDKLK  329 (356)
Q Consensus       320 L~i~~C~~l~  329 (356)
                      .....|..+.
T Consensus       291 ~~~~cc~~l~  300 (317)
T 3o53_A          291 YGAYCCEDLP  300 (317)
T ss_dssp             ETTEEEBCCT
T ss_pred             ccceeeccCC
Confidence            4455566654

>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=99.41  E-value=7e-12  Score=112.77  Aligned_cols=200  Identities=16%  Similarity=0.145  Sum_probs=111.6

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchh
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLS  105 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~  105 (356)
                      ..+++++++++.++ +++.++       .+.+++++.|++++. .+..++...  ...+++|+.|+++++. +..++.  
T Consensus         7 ~~l~~l~~l~~~~~-~l~~ip-------~~~~~~l~~L~L~~N-~l~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~--   72 (290)
T 1p9a_G            7 SKVASHLEVNCDKR-NLTALP-------PDLPKDTTILHLSEN-LLYTFSLAT--LMPYTRLTQLNLDRAE-LTKLQV--   72 (290)
T ss_dssp             ECSTTCCEEECTTS-CCSSCC-------SCCCTTCCEEECTTS-CCSEEEGGG--GTTCTTCCEEECTTSC-CCEEEC--
T ss_pred             cccCCccEEECCCC-CCCcCC-------CCCCCCCCEEEcCCC-cCCccCHHH--hhcCCCCCEEECCCCc-cCcccC--
Confidence            46777788877765 555441       122367788888774 355443221  2346777777777642 221110  


Q ss_pred             hhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccccccccee
Q 044144          106 TVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEI  185 (356)
Q Consensus       106 ~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i  185 (356)
                                                    ...+++|++|++++. .++.+                             
T Consensus        73 ------------------------------~~~l~~L~~L~Ls~N-~l~~l-----------------------------   92 (290)
T 1p9a_G           73 ------------------------------DGTLPVLGTLDLSHN-QLQSL-----------------------------   92 (290)
T ss_dssp             ------------------------------CSCCTTCCEEECCSS-CCSSC-----------------------------
T ss_pred             ------------------------------CCCCCcCCEEECCCC-cCCcC-----------------------------
Confidence                                          123577888888774 23322                             


Q ss_pred             ecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEe
Q 044144          186 TLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVR  265 (356)
Q Consensus       186 ~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~  265 (356)
                              +..+..+++|+.|++.+++++.      +|...|..+++|+.|+++++ ++..+ +...+..+++|+.|+++
T Consensus        93 --------~~~~~~l~~L~~L~l~~N~l~~------l~~~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~L~  156 (290)
T 1p9a_G           93 --------PLLGQTLPALTVLDVSFNRLTS------LPLGALRGLGELQELYLKGN-ELKTL-PPGLLTPTPKLEKLSLA  156 (290)
T ss_dssp             --------CCCTTTCTTCCEEECCSSCCCC------CCSSTTTTCTTCCEEECTTS-CCCCC-CTTTTTTCTTCCEEECT
T ss_pred             --------chhhccCCCCCEEECCCCcCcc------cCHHHHcCCCCCCEEECCCC-CCCcc-ChhhcccccCCCEEECC
Confidence                    2223445666777776666655      33334556666777776653 55555 54555566667777776


Q ss_pred             cCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          266 FCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       266 ~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++. ++.+. +.....      +++|++|++.++ +++.++...  ...++|+.+++.++|
T Consensus       157 ~N~-l~~l~-~~~~~~------l~~L~~L~L~~N-~l~~ip~~~--~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          157 NNN-LTELP-AGLLNG------LENLDTLLLQEN-SLYTIPKGF--FGSHLLPFAFLHGNP  206 (290)
T ss_dssp             TSC-CSCCC-TTTTTT------CTTCCEEECCSS-CCCCCCTTT--TTTCCCSEEECCSCC
T ss_pred             CCc-CCccC-HHHhcC------cCCCCEEECCCC-cCCccChhh--cccccCCeEEeCCCC
Confidence            654 44442 111222      566666776655 566665554  445566666666443

>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=99.41  E-value=2e-12  Score=117.01  Aligned_cols=112  Identities=16%  Similarity=0.196  Sum_probs=58.3

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccc-cchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKY-IFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~-l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      +..+++|+.|++.++.++..      +...+..+++|+.|+++++ .+.. ..+ ..+..+++|++|++++|. +..+. 
T Consensus       122 ~~~l~~L~~L~l~~n~l~~~------~~~~~~~l~~L~~L~l~~n-~l~~~~~~-~~~~~l~~L~~L~Ls~n~-l~~~~-  191 (306)
T 2z66_A          122 FLSLRNLIYLDISHTHTRVA------FNGIFNGLSSLEVLKMAGN-SFQENFLP-DIFTELRNLTFLDLSQCQ-LEQLS-  191 (306)
T ss_dssp             TTTCTTCCEEECTTSCCEEC------STTTTTTCTTCCEEECTTC-EEGGGEEC-SCCTTCTTCCEEECTTSC-CCEEC-
T ss_pred             hhhccCCCEEECCCCcCCcc------chhhcccCcCCCEEECCCC-ccccccch-hHHhhCcCCCEEECCCCC-cCCcC-
Confidence            34456666666666655542      1112445666666666654 3332 212 344556666666666664 44432 


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      +.....      +++|++|++.++ .++.++... +..+++|+.|++.+|.
T Consensus       192 ~~~~~~------l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~L~~N~  234 (306)
T 2z66_A          192 PTAFNS------LSSLQVLNMSHN-NFFSLDTFP-YKCLNSLQVLDYSLNH  234 (306)
T ss_dssp             TTTTTT------CTTCCEEECTTS-CCSBCCSGG-GTTCTTCCEEECTTSC
T ss_pred             HHHhcC------CCCCCEEECCCC-ccCccChhh-ccCcccCCEeECCCCC
Confidence            222222      566666666665 444443322 1445666666666654

>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=99.39  E-value=2.5e-12  Score=116.76  Aligned_cols=59  Identities=8%  Similarity=0.073  Sum_probs=41.2

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCC
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      ..+++|++|++.++ +++.+      ..+..+++|++|+++++ .+..++.    ...+++|++|+++++.
T Consensus        38 ~~l~~L~~L~l~~~-~i~~l------~~~~~l~~L~~L~L~~n-~i~~~~~----~~~l~~L~~L~L~~n~   96 (308)
T 1h6u_A           38 ADLDGITTLSAFGT-GVTTI------EGVQYLNNLIGLELKDN-QITDLAP----LKNLTKITELELSGNP   96 (308)
T ss_dssp             HHHHTCCEEECTTS-CCCCC------TTGGGCTTCCEEECCSS-CCCCCGG----GTTCCSCCEEECCSCC
T ss_pred             HHcCCcCEEEeeCC-CccCc------hhhhccCCCCEEEccCC-cCCCChh----HccCCCCCEEEccCCc
Confidence            35788888888887 55544      24566788888888885 4555543    3567888888888764

>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=99.39  E-value=8.1e-14  Score=127.77  Aligned_cols=88  Identities=13%  Similarity=0.104  Sum_probs=58.5

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +.....  ....+++|++|++++|. +..   .........+++|++|+++++. +.......  ..
T Consensus        70 ~~l~~L~l~~n~-l~~~~~--~~~~~~~L~~L~L~~~~-l~~---~~~~~~~~~~~~L~~L~L~~~~-l~~~~~~~--l~  139 (336)
T 2ast_B           70 QGVIAFRCPRSF-MDQPLA--EHFSPFRVQHMDLSNSV-IEV---STLHGILSQCSKLQNLSLEGLR-LSDPIVNT--LA  139 (336)
T ss_dssp             TTCSEEECTTCE-ECSCCC--SCCCCBCCCEEECTTCE-ECH---HHHHHHHTTBCCCSEEECTTCB-CCHHHHHH--HT
T ss_pred             ccceEEEcCCcc-ccccch--hhccCCCCCEEEccCCC-cCH---HHHHHHHhhCCCCCEEeCcCcc-cCHHHHHH--Hh
Confidence            567888887653 233222  24478999999999983 431   1112356778999999999974 44321111  14


Q ss_pred             CCCCccEEEEccCCCccc
Q 044144           83 SFNELKIIQAYNCDKLSN  100 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~  100 (356)
                      .+++|++|++++|..+..
T Consensus       140 ~~~~L~~L~L~~~~~l~~  157 (336)
T 2ast_B          140 KNSNLVRLNLSGCSGFSE  157 (336)
T ss_dssp             TCTTCSEEECTTCBSCCH
T ss_pred             cCCCCCEEECCCCCCCCH
Confidence            589999999999976663

>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=99.39  E-value=1.9e-14  Score=142.13  Aligned_cols=89  Identities=10%  Similarity=0.090  Sum_probs=50.8

Q ss_pred             CCcceEEeeCcccCceeeccc-------------cCccccCCCcEEEEecCCCceEeecCCcccccc-cCcccceeeccc
Q 044144            2 INNVECLWLDKLQGIENVLFN-------------LDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACD-AFPLLESLILHN   67 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~-------------~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~-~~~~L~~L~l~~   67 (356)
                      +++++.|++.++..+.+....             .....+++|++|++++|. +...    ....+. .+++|++|++.+
T Consensus        65 ~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~-~~~~----~~~~l~~~~~~L~~L~L~~  139 (594)
T 2p1m_B           65 FPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV-VTDD----CLELIAKSFKNFKVLVLSS  139 (594)
T ss_dssp             CTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCB-CCHH----HHHHHHHHCTTCCEEEEES
T ss_pred             CCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEeeCcE-EcHH----HHHHHHHhCCCCcEEeCCC
Confidence            678888888887655433211             012357788888888773 3211    111222 467888888887


Q ss_pred             cccccccccccccccCCCCccEEEEccCC
Q 044144           68 LINMERIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        68 ~~~l~~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      |..+........ ...+++|++|++++|.
T Consensus       140 ~~~~~~~~l~~~-~~~~~~L~~L~L~~~~  167 (594)
T 2p1m_B          140 CEGFSTDGLAAI-AATCRNLKELDLRESD  167 (594)
T ss_dssp             CEEEEHHHHHHH-HHHCTTCCEEECTTCE
T ss_pred             cCCCCHHHHHHH-HHhCCCCCEEeCcCCc
Confidence            765544211111 1246777777777765

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

Probab=99.38  E-value=1.7e-11  Score=108.94  Aligned_cols=35  Identities=9%  Similarity=0.115  Sum_probs=17.2

Q ss_pred             cccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           58 PLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        58 ~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      +++++|+++++ +++.++...  ...+++|++|+++++
T Consensus        37 ~~l~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~n   71 (270)
T 2o6q_A           37 ADTKKLDLQSN-KLSSLPSKA--FHRLTKLRLLYLNDN   71 (270)
T ss_dssp             TTCSEEECCSS-CCSCCCTTS--SSSCTTCCEEECCSS
T ss_pred             CCCCEEECcCC-CCCeeCHHH--hcCCCCCCEEECCCC
Confidence            45666666653 344443211  133566666666554

>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=99.38  E-value=4e-14  Score=139.78  Aligned_cols=89  Identities=13%  Similarity=0.038  Sum_probs=51.2

Q ss_pred             CCcceEEeeCcccCceeecc-ccCc------------cccCCCcEEEEecCCCceEeecCCccccccc-Ccc-cceeecc
Q 044144            2 INNVECLWLDKLQGIENVLF-NLDT------------EGFSQLKLLWVQNNPDFFCIVDSRAMVACDA-FPL-LESLILH   66 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~-~~~~------------~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~-~~~-L~~L~l~   66 (356)
                      +++++.|++.+++.+.+... +..+            ..+++|++|++++| .+...    ....+.. +++ |++|++.
T Consensus        72 ~~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~-~i~~~----~~~~l~~~~~~~L~~L~L~  146 (592)
T 3ogk_B           72 FPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRM-IVSDL----DLDRLAKARADDLETLKLD  146 (592)
T ss_dssp             CTTCSEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESC-BCCHH----HHHHHHHHHGGGCCEEEEE
T ss_pred             CCCCeEEEecCCcchhhcccccccccccchHHHHHHHhhCCCCCeEEeecc-EecHH----HHHHHHHhccccCcEEECc
Confidence            67899999988765432200 0111            16889999999888 34311    1112222 444 8888888


Q ss_pred             ccccccccccccccccCCCCccEEEEccCC
Q 044144           67 NLINMERIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        67 ~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      +|..+........ ...+++|++|++++|.
T Consensus       147 ~~~~~~~~~l~~~-~~~~~~L~~L~L~~~~  175 (592)
T 3ogk_B          147 KCSGFTTDGLLSI-VTHCRKIKTLLMEESS  175 (592)
T ss_dssp             SCEEEEHHHHHHH-HHHCTTCSEEECTTCE
T ss_pred             CCCCcCHHHHHHH-HhhCCCCCEEECcccc
Confidence            8775432211111 1246888888888874

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

Probab=99.35  E-value=6e-12  Score=112.08  Aligned_cols=179  Identities=18%  Similarity=0.223  Sum_probs=100.9

Q ss_pred             ccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCch
Q 044144           25 TEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWL  104 (356)
Q Consensus        25 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l  104 (356)
                      ...+++|+.|++.++ .++.+      ..+..+++|++|+++++. ++.++    ....+++|++|+++++ ++..++. 
T Consensus        37 ~~~l~~L~~L~l~~~-~i~~~------~~l~~l~~L~~L~l~~n~-l~~~~----~l~~l~~L~~L~L~~n-~l~~~~~-  102 (272)
T 3rfs_A           37 QNELNSIDQIIANNS-DIKSV------QGIQYLPNVRYLALGGNK-LHDIS----ALKELTNLTYLILTGN-QLQSLPN-  102 (272)
T ss_dssp             HHHHTTCCEEECTTS-CCCCC------TTGGGCTTCCEEECTTSC-CCCCG----GGTTCTTCCEEECTTS-CCCCCCT-
T ss_pred             cccccceeeeeeCCC-Ccccc------cccccCCCCcEEECCCCC-CCCch----hhcCCCCCCEEECCCC-ccCccCh-
Confidence            346778888888777 45433      345667888888888753 54442    2245778888888776 2332221 


Q ss_pred             hhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccce
Q 044144          105 STVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSE  184 (356)
Q Consensus       105 ~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  184 (356)
                      .                             .+..+++|++|+++++. ++.++.                          
T Consensus       103 ~-----------------------------~~~~l~~L~~L~L~~n~-l~~~~~--------------------------  126 (272)
T 3rfs_A          103 G-----------------------------VFDKLTNLKELVLVENQ-LQSLPD--------------------------  126 (272)
T ss_dssp             T-----------------------------TTTTCTTCCEEECTTSC-CCCCCT--------------------------
T ss_pred             h-----------------------------HhcCCcCCCEEECCCCc-CCccCH--------------------------
Confidence            0                             01234667777776642 221111                          


Q ss_pred             eecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEE
Q 044144          185 ITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEV  264 (356)
Q Consensus       185 i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i  264 (356)
                                ..+..+++|+.|++.+|+++.      +|...+..+++|+.|+++++ ++..+ +...+..+++|++|++
T Consensus       127 ----------~~~~~l~~L~~L~L~~n~l~~------~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~L  188 (272)
T 3rfs_A          127 ----------GVFDKLTNLTYLNLAHNQLQS------LPKGVFDKLTNLTELDLSYN-QLQSL-PEGVFDKLTQLKDLRL  188 (272)
T ss_dssp             ----------TTTTTCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEEC
T ss_pred             ----------HHhccCCCCCEEECCCCccCc------cCHHHhccCccCCEEECCCC-CcCcc-CHHHhcCCccCCEEEC
Confidence                      112445667777777766554      33323456667777777664 45555 4455566677777777


Q ss_pred             ecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          265 RFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       265 ~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      ++|. +..+. +.....      +++|++|++.++
T Consensus       189 ~~N~-l~~~~-~~~~~~------l~~L~~L~l~~N  215 (272)
T 3rfs_A          189 YQNQ-LKSVP-DGVFDR------LTSLQYIWLHDN  215 (272)
T ss_dssp             CSSC-CSCCC-TTTTTT------CTTCCEEECCSS
T ss_pred             CCCc-CCccC-HHHHhC------CcCCCEEEccCC
Confidence            7664 44432 122222      566777777665

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

Probab=99.35  E-value=1.7e-11  Score=118.33  Aligned_cols=241  Identities=17%  Similarity=0.149  Sum_probs=157.9

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+.|++.++. +... .+..+..+++|++|++++| .++.+      ..+..+++|++|+++++ .+..++      
T Consensus        33 ~~~L~~L~Ls~n~-l~~~-~~~~~~~l~~L~~L~Ls~N-~l~~~------~~l~~l~~L~~L~Ls~N-~l~~l~------   96 (487)
T 3oja_A           33 AWNVKELDLSGNP-LSQI-SAADLAPFTKLELLNLSSN-VLYET------LDLESLSTLRTLDLNNN-YVQELL------   96 (487)
T ss_dssp             GGGCCEEECCSSC-CCCC-CGGGGTTCTTCCEEECTTS-CCEEE------EECTTCTTCCEEECCSS-EEEEEE------
T ss_pred             CCCccEEEeeCCc-CCCC-CHHHHhCCCCCCEEEeeCC-CCCCC------cccccCCCCCEEEecCC-cCCCCC------
Confidence            3489999998864 3333 3335578999999999998 56654      23778899999999996 466553      


Q ss_pred             cCCCCccEEEEccCCCccccCc--hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecC
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW--LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCRE  159 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~--l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~  159 (356)
                       ..++|+.|+++++. +..++.  ++.+ +.| .++++.--...+         ..+..+++|+.|+++++. ++.....
T Consensus        97 -~~~~L~~L~L~~N~-l~~~~~~~l~~L-~~L-~L~~N~l~~~~~---------~~~~~l~~L~~L~Ls~N~-l~~~~~~  162 (487)
T 3oja_A           97 -VGPSIETLHAANNN-ISRVSCSRGQGK-KNI-YLANNKITMLRD---------LDEGCRSRVQYLDLKLNE-IDTVNFA  162 (487)
T ss_dssp             -ECTTCCEEECCSSC-CCCEEECCCSSC-EEE-ECCSSCCCSGGG---------BCGGGGSSEEEEECTTSC-CCEEEGG
T ss_pred             -CCCCcCEEECcCCc-CCCCCccccCCC-CEE-ECCCCCCCCCCc---------hhhcCCCCCCEEECCCCC-CCCcChH
Confidence             23799999999874 333321  3444 555 666654222222         134567889999998863 4443322


Q ss_pred             CCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeec
Q 044144          160 VKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVW  239 (356)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~  239 (356)
                      .+.            ..+..++.|+++.+.-...+ ....+++|+.|++++|+++.+     +|.  +..+++|+.|+++
T Consensus       163 ~l~------------~~l~~L~~L~Ls~N~l~~~~-~~~~l~~L~~L~Ls~N~l~~~-----~~~--~~~l~~L~~L~Ls  222 (487)
T 3oja_A          163 ELA------------ASSDTLEHLNLQYNFIYDVK-GQVVFAKLKTLDLSSNKLAFM-----GPE--FQSAAGVTWISLR  222 (487)
T ss_dssp             GGG------------GGTTTCCEEECTTSCCCEEE-CCCCCTTCCEEECCSSCCCEE-----CGG--GGGGTTCSEEECT
T ss_pred             HHh------------hhCCcccEEecCCCcccccc-ccccCCCCCEEECCCCCCCCC-----CHh--HcCCCCccEEEec
Confidence            110            02345788888877643333 334589999999999988873     233  6688999999998


Q ss_pred             cCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccc
Q 044144          240 HCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKL  302 (356)
Q Consensus       240 ~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L  302 (356)
                      ++ .+..+ |. .+..+++|+.|++++++-.-.. .+.....      ++.|+.+.+..+..+
T Consensus       223 ~N-~l~~l-p~-~l~~l~~L~~L~l~~N~l~c~~-~~~~~~~------l~~L~~l~~~~~~~~  275 (487)
T 3oja_A          223 NN-KLVLI-EK-ALRFSQNLEHFDLRGNGFHCGT-LRDFFSK------NQRVQTVAKQTVKKL  275 (487)
T ss_dssp             TS-CCCEE-CT-TCCCCTTCCEEECTTCCBCHHH-HHHHHTT------CHHHHHHHHHHHHHH
T ss_pred             CC-cCccc-ch-hhccCCCCCEEEcCCCCCcCcc-hHHHHHh------CCCCcEEeccccccc
Confidence            84 67776 63 3677899999999998732111 1122222      667777777544333

>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=99.35  E-value=3.8e-14  Score=139.96  Aligned_cols=39  Identities=13%  Similarity=0.031  Sum_probs=23.2

Q ss_pred             CCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          288 FPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       288 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      +++|++|.+.+|. +++.........+++|++|++.+|+-
T Consensus       455 ~~~L~~L~L~~~~-i~~~~~~~l~~~~~~L~~L~L~~n~~  493 (594)
T 2p1m_B          455 AKKMEMLSVAFAG-DSDLGMHHVLSGCDSLRKLEIRDCPF  493 (594)
T ss_dssp             CTTCCEEEEESCC-SSHHHHHHHHHHCTTCCEEEEESCSC
T ss_pred             chhccEeeccCCC-CcHHHHHHHHhcCCCcCEEECcCCCC
Confidence            5566666666653 33322211113478899999998874

>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=99.34  E-value=2.1e-13  Score=124.94  Aligned_cols=196  Identities=17%  Similarity=0.060  Sum_probs=105.7

Q ss_pred             ceEEeeCcccCceeeccccCcccc--CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccc--ccccccc
Q 044144            5 VECLWLDKLQGIENVLFNLDTEGF--SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMER--IWIDQLK   80 (356)
Q Consensus         5 l~~L~l~~~~~~~~~~~~~~~~~l--~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~--l~~~~~~   80 (356)
                      .+.+++.+..-.     +.....+  ++++.|++.++ .+...     ......+++|++|+++++. +..  ++..   
T Consensus        49 ~~~l~l~~~~~~-----~~~~~~~~~~~l~~L~l~~n-~l~~~-----~~~~~~~~~L~~L~L~~~~-l~~~~~~~~---  113 (336)
T 2ast_B           49 WQTLDLTGKNLH-----PDVTGRLLSQGVIAFRCPRS-FMDQP-----LAEHFSPFRVQHMDLSNSV-IEVSTLHGI---  113 (336)
T ss_dssp             SSEEECTTCBCC-----HHHHHHHHHTTCSEEECTTC-EECSC-----CCSCCCCBCCCEEECTTCE-ECHHHHHHH---
T ss_pred             heeeccccccCC-----HHHHHhhhhccceEEEcCCc-ccccc-----chhhccCCCCCEEEccCCC-cCHHHHHHH---
Confidence            456666553211     1123345  89999999887 34322     2335578999999999975 433  3222   


Q ss_pred             ccCCCCccEEEEccCCCcccc-----Cchhhhhccccccccccchhh--hhcccccccCcccccccccccEEecCCCCCc
Q 044144           81 VESFNELKIIQAYNCDKLSNI-----FWLSTVVNHSSTVVNCSKMKE--IFAIGEEVDNSIEKIELAQLRYLSLGNLPEV  153 (356)
Q Consensus        81 ~~~l~~L~~L~l~~c~~l~~~-----~~l~~ll~~L~~i~~c~~L~~--l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l  153 (356)
                      ...+++|++|++++|. +...     ..++.+ +.| .+++|..+..  ++.         .+..+++|++|++++|+.+
T Consensus       114 ~~~~~~L~~L~L~~~~-l~~~~~~~l~~~~~L-~~L-~L~~~~~l~~~~l~~---------~~~~~~~L~~L~l~~~~~l  181 (336)
T 2ast_B          114 LSQCSKLQNLSLEGLR-LSDPIVNTLAKNSNL-VRL-NLSGCSGFSEFALQT---------LLSSCSRLDELNLSWCFDF  181 (336)
T ss_dssp             HTTBCCCSEEECTTCB-CCHHHHHHHTTCTTC-SEE-ECTTCBSCCHHHHHH---------HHHHCTTCCEEECCCCTTC
T ss_pred             HhhCCCCCEEeCcCcc-cCHHHHHHHhcCCCC-CEE-ECCCCCCCCHHHHHH---------HHhcCCCCCEEcCCCCCCc
Confidence            2558999999999984 3321     112333 444 6666644432  221         1234567777777766444


Q ss_pred             ceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCC-CcCeEEecce--eeeEEcccCCCCCCCCCCC
Q 044144          154 TSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALP-NLEALEISAI--NVDKIWHYNQIPAAVFPRF  230 (356)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~-~L~~L~l~~~--~l~~~~~~~~~p~~~~~~l  230 (356)
                      +...                                   ++..+..++ +|++|++.+|  .+++..    +|. .+..+
T Consensus       182 ~~~~-----------------------------------~~~~~~~l~~~L~~L~l~~~~~~~~~~~----l~~-~~~~~  221 (336)
T 2ast_B          182 TEKH-----------------------------------VQVAVAHVSETITQLNLSGYRKNLQKSD----LST-LVRRC  221 (336)
T ss_dssp             CHHH-----------------------------------HHHHHHHSCTTCCEEECCSCGGGSCHHH----HHH-HHHHC
T ss_pred             ChHH-----------------------------------HHHHHHhcccCCCEEEeCCCcccCCHHH----HHH-HHhhC
Confidence            3210                                   222234455 6666666665  232100    111 12345


Q ss_pred             cCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          231 QNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      ++|+.|++++|..+.+..+ ..+..+++|++|++++|.
T Consensus       222 ~~L~~L~l~~~~~l~~~~~-~~l~~l~~L~~L~l~~~~  258 (336)
T 2ast_B          222 PNLVHLDLSDSVMLKNDCF-QEFFQLNYLQHLSLSRCY  258 (336)
T ss_dssp             TTCSEEECTTCTTCCGGGG-GGGGGCTTCCEEECTTCT
T ss_pred             CCCCEEeCCCCCcCCHHHH-HHHhCCCCCCEeeCCCCC
Confidence            6666666666654444312 334555666666666665

>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=99.33  E-value=4.9e-11  Score=107.22  Aligned_cols=198  Identities=16%  Similarity=0.181  Sum_probs=124.7

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.+++.+. ++..+..    .-.++++.|+++++ .++.+    ....+..+++|++|++++. .++.++..    
T Consensus         9 l~~l~~l~~~~~-~l~~ip~----~~~~~l~~L~L~~N-~l~~~----~~~~~~~l~~L~~L~L~~n-~l~~~~~~----   73 (290)
T 1p9a_G            9 VASHLEVNCDKR-NLTALPP----DLPKDTTILHLSEN-LLYTF----SLATLMPYTRLTQLNLDRA-ELTKLQVD----   73 (290)
T ss_dssp             STTCCEEECTTS-CCSSCCS----CCCTTCCEEECTTS-CCSEE----EGGGGTTCTTCCEEECTTS-CCCEEECC----
T ss_pred             cCCccEEECCCC-CCCcCCC----CCCCCCCEEEcCCC-cCCcc----CHHHhhcCCCCCEEECCCC-ccCcccCC----
Confidence            566777877653 3443321    12478999999998 56655    2245678899999999994 57666432    


Q ss_pred             cCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCC
Q 044144           82 ESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVK  161 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  161 (356)
                      ..+++|+.|+++++ ++..++.                               .+..+++|+.|.+++. .++.++.   
T Consensus        74 ~~l~~L~~L~Ls~N-~l~~l~~-------------------------------~~~~l~~L~~L~l~~N-~l~~l~~---  117 (290)
T 1p9a_G           74 GTLPVLGTLDLSHN-QLQSLPL-------------------------------LGQTLPALTVLDVSFN-RLTSLPL---  117 (290)
T ss_dssp             SCCTTCCEEECCSS-CCSSCCC-------------------------------CTTTCTTCCEEECCSS-CCCCCCS---
T ss_pred             CCCCcCCEEECCCC-cCCcCch-------------------------------hhccCCCCCEEECCCC-cCcccCH---
Confidence            46899999999986 3332221                               0224577788888764 2332221   


Q ss_pred             CCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccC
Q 044144          162 TPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHC  241 (356)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c  241 (356)
                                                       ..+..+++|+.|.+.+|+++.      +|...+..+++|+.|++++ 
T Consensus       118 ---------------------------------~~~~~l~~L~~L~L~~N~l~~------~~~~~~~~l~~L~~L~L~~-  157 (290)
T 1p9a_G          118 ---------------------------------GALRGLGELQELYLKGNELKT------LPPGLLTPTPKLEKLSLAN-  157 (290)
T ss_dssp             ---------------------------------STTTTCTTCCEEECTTSCCCC------CCTTTTTTCTTCCEEECTT-
T ss_pred             ---------------------------------HHHcCCCCCCEEECCCCCCCc------cChhhcccccCCCEEECCC-
Confidence                                             123456777777777776665      4443456677777777766 


Q ss_pred             cCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          242 NKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       242 ~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      ++++.+ +...+..+++|+.|+++++. ++.+  +.....      .++|+.|.+.+.|
T Consensus       158 N~l~~l-~~~~~~~l~~L~~L~L~~N~-l~~i--p~~~~~------~~~L~~l~L~~Np  206 (290)
T 1p9a_G          158 NNLTEL-PAGLLNGLENLDTLLLQENS-LYTI--PKGFFG------SHLLPFAFLHGNP  206 (290)
T ss_dssp             SCCSCC-CTTTTTTCTTCCEEECCSSC-CCCC--CTTTTT------TCCCSEEECCSCC
T ss_pred             CcCCcc-CHHHhcCcCCCCEEECCCCc-CCcc--Chhhcc------cccCCeEEeCCCC
Confidence            366666 65666667777777777765 5444  233332      5567777776543

>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=99.33  E-value=3.4e-11  Score=107.25  Aligned_cols=209  Identities=17%  Similarity=0.163  Sum_probs=130.2

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVV  108 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll  108 (356)
                      ++|++|+++++ +++.+.    ...+..+++|++|+++++ .++.++...  ...+++|++|+++++. +..++.     
T Consensus        28 ~~l~~L~ls~n-~l~~~~----~~~~~~l~~L~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~L~~n~-l~~~~~-----   93 (276)
T 2z62_A           28 FSTKNLDLSFN-PLRHLG----SYSFFSFPELQVLDLSRC-EIQTIEDGA--YQSLSHLSTLILTGNP-IQSLAL-----   93 (276)
T ss_dssp             TTCCEEECTTC-CCCEEC----TTTTTTCTTCSEEECTTC-CCCEECTTT--TTTCTTCCEEECTTCC-CCEECT-----
T ss_pred             CCccEEECCCC-cccccC----HhHhccccCCcEEECCCC-cCCccCHHH--ccCCcCCCEEECCCCc-cCccCh-----
Confidence            46888888887 676651    124567788888888885 455554322  2457888888888763 222110     


Q ss_pred             ccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecC
Q 044144          109 NHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLD  188 (356)
Q Consensus       109 ~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~  188 (356)
                                               ..+..+++|++|.+.++. +..+.                               
T Consensus        94 -------------------------~~~~~l~~L~~L~l~~n~-l~~~~-------------------------------  116 (276)
T 2z62_A           94 -------------------------GAFSGLSSLQKLVAVETN-LASLE-------------------------------  116 (276)
T ss_dssp             -------------------------TTTTTCTTCCEEECTTSC-CCCST-------------------------------
T ss_pred             -------------------------hhhcCCccccEEECCCCC-ccccC-------------------------------
Confidence                                     012345778888877653 22111                               


Q ss_pred             CccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCC----eEEE
Q 044144          189 TSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQ----HLEV  264 (356)
Q Consensus       189 ~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~----~L~i  264 (356)
                           ...+..+++|+.|++.+++++.+.    +|. .+..+++|+.|+++++ ++..+ +...+..+++|+    .|++
T Consensus       117 -----~~~~~~l~~L~~L~l~~n~l~~~~----l~~-~~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~l~l~L~l  184 (276)
T 2z62_A          117 -----NFPIGHLKTLKELNVAHNLIQSFK----LPE-YFSNLTNLEHLDLSSN-KIQSI-YCTDLRVLHQMPLLNLSLDL  184 (276)
T ss_dssp             -----TCCCTTCTTCCEEECCSSCCCCCC----CCG-GGGGCTTCCEEECCSS-CCCEE-CGGGGHHHHTCTTCCEEEEC
T ss_pred             -----chhcccCCCCCEEECcCCccceec----Cch-hhccCCCCCEEECCCC-CCCcC-CHHHhhhhhhccccceeeec
Confidence                 112355788888888888666521    222 3567788888888775 56666 445556666666    7888


Q ss_pred             ecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeec------cCcCcccc
Q 044144          265 RFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVF------RCDKLKIF  331 (356)
Q Consensus       265 ~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~------~C~~l~~l  331 (356)
                      +++. +..+.  .....      ..+|++|++.++ +++.++... +..+++|+.|++.      +|+.++.+
T Consensus       185 s~n~-l~~~~--~~~~~------~~~L~~L~L~~n-~l~~~~~~~-~~~l~~L~~L~l~~N~~~c~c~~l~~l  246 (276)
T 2z62_A          185 SLNP-MNFIQ--PGAFK------EIRLKELALDTN-QLKSVPDGI-FDRLTSLQKIWLHTNPWDCSCPRIDYL  246 (276)
T ss_dssp             CSSC-CCEEC--TTSSC------SCCEEEEECCSS-CCSCCCTTT-TTTCCSCCEEECCSSCBCCCTTTTHHH
T ss_pred             CCCc-ccccC--ccccC------CCcccEEECCCC-ceeecCHhH-hcccccccEEEccCCcccccCCchHHH
Confidence            8765 55552  22222      347888888877 577776543 2568888888888      56655544

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

Probab=99.32  E-value=2.8e-11  Score=107.67  Aligned_cols=112  Identities=24%  Similarity=0.354  Sum_probs=87.1

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|++|++.+|+++.      .+...+..+++|+.|+++++ ++..+ +...+..+++|+.|++++|. +..+. +
T Consensus       105 ~~~l~~L~~L~L~~n~l~~------~~~~~~~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~l~~n~-l~~~~-~  174 (272)
T 3rfs_A          105 FDKLTNLKELVLVENQLQS------LPDGVFDKLTNLTYLNLAHN-QLQSL-PKGVFDKLTNLTELDLSYNQ-LQSLP-E  174 (272)
T ss_dssp             TTTCTTCCEEECTTSCCCC------CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-T
T ss_pred             hcCCcCCCEEECCCCcCCc------cCHHHhccCCCCCEEECCCC-ccCcc-CHHHhccCccCCEEECCCCC-cCccC-H
Confidence            3567999999999998876      44434778899999999886 77777 66777889999999999986 65552 2


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .....      +++|++|++.++ +++.++... +..+++|+.|++.+++
T Consensus       175 ~~~~~------l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~l~~N~  216 (272)
T 3rfs_A          175 GVFDK------LTQLKDLRLYQN-QLKSVPDGV-FDRLTSLQYIWLHDNP  216 (272)
T ss_dssp             TTTTT------CTTCCEEECCSS-CCSCCCTTT-TTTCTTCCEEECCSSC
T ss_pred             HHhcC------CccCCEEECCCC-cCCccCHHH-HhCCcCCCEEEccCCC
Confidence            22333      789999999987 677776543 2678999999998754

>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=99.32  E-value=7.2e-11  Score=112.93  Aligned_cols=50  Identities=28%  Similarity=0.265  Sum_probs=25.5

Q ss_pred             CccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          232 NLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       232 ~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      +|+.|+++++ ++..+ |..    +++|+.|++++|. ++.+.  .   .      +++|++|+++++
T Consensus       318 ~L~~L~Ls~N-~l~~l-p~~----~~~L~~L~L~~N~-l~~lp--~---~------l~~L~~L~L~~N  367 (454)
T 1jl5_A          318 SLEELNVSNN-KLIEL-PAL----PPRLERLIASFNH-LAEVP--E---L------PQNLKQLHVEYN  367 (454)
T ss_dssp             TCCEEECCSS-CCSCC-CCC----CTTCCEEECCSSC-CSCCC--C---C------CTTCCEEECCSS
T ss_pred             cCCEEECCCC-ccccc-ccc----CCcCCEEECCCCc-ccccc--c---h------hhhccEEECCCC
Confidence            5666666552 44443 321    3566666666653 43331  1   1      456666666655

>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=99.32  E-value=5.3e-12  Score=120.79  Aligned_cols=15  Identities=13%  Similarity=0.120  Sum_probs=9.3

Q ss_pred             ccccccccEEecCCC
Q 044144          136 KIELAQLRYLSLGNL  150 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~  150 (356)
                      +..+++|++|+++++
T Consensus       149 ~~~l~~L~~L~l~~N  163 (454)
T 1jl5_A          149 LQNSSFLKIIDVDNN  163 (454)
T ss_dssp             CTTCTTCCEEECCSS
T ss_pred             cCCCCCCCEEECCCC
Confidence            445566677766664

>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=99.31  E-value=2.2e-11  Score=112.47  Aligned_cols=249  Identities=16%  Similarity=0.163  Sum_probs=161.6

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +..+ ....+.++++|++|+++++ +++.+    ....+..+++|++|+++++ .++.++...  ..
T Consensus        52 ~~L~~L~l~~n~-i~~~-~~~~~~~l~~L~~L~L~~n-~l~~~----~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~--~~  121 (353)
T 2z80_A           52 EAVKSLDLSNNR-ITYI-SNSDLQRCVNLQALVLTSN-GINTI----EEDSFSSLGSLEHLDLSYN-YLSNLSSSW--FK  121 (353)
T ss_dssp             TTCCEEECTTSC-CCEE-CTTTTTTCTTCCEEECTTS-CCCEE----CTTTTTTCTTCCEEECCSS-CCSSCCHHH--HT
T ss_pred             ccCcEEECCCCc-Cccc-CHHHhccCCCCCEEECCCC-ccCcc----CHhhcCCCCCCCEEECCCC-cCCcCCHhH--hC
Confidence            478999998764 4444 3334678999999999998 67765    1234677899999999995 566664431  24


Q ss_pred             CCCCccEEEEccCCCccccCc------hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCccee
Q 044144           83 SFNELKIIQAYNCDKLSNIFW------LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSF  156 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~------l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~  156 (356)
                      .+++|++|+++++ ++..++.      +..+ +.| .++++..+..++.        ..+..+++|++|+++++. ++..
T Consensus       122 ~l~~L~~L~L~~n-~l~~l~~~~~~~~l~~L-~~L-~l~~n~~~~~~~~--------~~~~~l~~L~~L~l~~n~-l~~~  189 (353)
T 2z80_A          122 PLSSLTFLNLLGN-PYKTLGETSLFSHLTKL-QIL-RVGNMDTFTKIQR--------KDFAGLTFLEELEIDASD-LQSY  189 (353)
T ss_dssp             TCTTCSEEECTTC-CCSSSCSSCSCTTCTTC-CEE-EEEESSSCCEECT--------TTTTTCCEEEEEEEEETT-CCEE
T ss_pred             CCccCCEEECCCC-CCcccCchhhhccCCCC-cEE-ECCCCccccccCH--------HHccCCCCCCEEECCCCC-cCcc
Confidence            5899999999987 3444432      2333 455 7777654544432        234567899999998864 3333


Q ss_pred             ecCCCCCCCCCCCCCCccccccccccceeecCCccccccc-cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccE
Q 044144          157 CREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNE-KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTR  235 (356)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~-~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~  235 (356)
                      ....+             ..+..++.+.++.+....++.. ...+++|+.|++.+++++.+.... ++.  ....+.++.
T Consensus       190 ~~~~l-------------~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~-l~~--~~~~~~l~~  253 (353)
T 2z80_A          190 EPKSL-------------KSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSE-LST--GETNSLIKK  253 (353)
T ss_dssp             CTTTT-------------TTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC---------CCCCCCE
T ss_pred             CHHHH-------------hccccCCeecCCCCccccchhhhhhhcccccEEECCCCccccccccc-ccc--ccccchhhc
Confidence            22111             1445688888887765444433 345899999999999777631111 221  223566788


Q ss_pred             EeeccCcCcccc----chhhhhhhcCCCCeEEEecCcccceeeccCC-CCcCcccccCCccCeeeccccc
Q 044144          236 LIVWHCNKLKYI----FSASMIGSLKHLQHLEVRFCEDLQEIISENR-ADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       236 L~i~~c~~l~~l----~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~-~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      +++.++ .+.+.    +| ..+..+++|++|++++|. +..+.  .. ...      +++|++|++.+++
T Consensus       254 l~L~~~-~l~~~~l~~l~-~~l~~l~~L~~L~Ls~N~-l~~i~--~~~~~~------l~~L~~L~L~~N~  312 (353)
T 2z80_A          254 FTFRNV-KITDESLFQVM-KLLNQISGLLELEFSRNQ-LKSVP--DGIFDR------LTSLQKIWLHTNP  312 (353)
T ss_dssp             EEEESC-BCCHHHHHHHH-HHHHTCTTCCEEECCSSC-CCCCC--TTTTTT------CTTCCEEECCSSC
T ss_pred             cccccc-cccCcchhhhH-HHHhcccCCCEEECCCCC-CCccC--HHHHhc------CCCCCEEEeeCCC
Confidence            888765 33332    13 456788999999999986 66552  32 233      8899999999874

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

Probab=99.29  E-value=3.9e-11  Score=108.85  Aligned_cols=79  Identities=9%  Similarity=0.123  Sum_probs=59.6

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.|++.++. +..+ .  .+..+++|++|++++| .++.+      ..+..+++|++|+++++. ++.++    ..
T Consensus        40 l~~L~~L~l~~~~-i~~l-~--~~~~l~~L~~L~L~~n-~i~~~------~~~~~l~~L~~L~L~~n~-l~~~~----~~  103 (308)
T 1h6u_A           40 LDGITTLSAFGTG-VTTI-E--GVQYLNNLIGLELKDN-QITDL------APLKNLTKITELELSGNP-LKNVS----AI  103 (308)
T ss_dssp             HHTCCEEECTTSC-CCCC-T--TGGGCTTCCEEECCSS-CCCCC------GGGTTCCSCCEEECCSCC-CSCCG----GG
T ss_pred             cCCcCEEEeeCCC-ccCc-h--hhhccCCCCEEEccCC-cCCCC------hhHccCCCCCEEEccCCc-CCCch----hh
Confidence            4678999998873 4433 2  4568999999999998 66654      227788999999999964 66663    23


Q ss_pred             cCCCCccEEEEccCC
Q 044144           82 ESFNELKIIQAYNCD   96 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~   96 (356)
                      ..+++|++|+++++.
T Consensus       104 ~~l~~L~~L~l~~n~  118 (308)
T 1h6u_A          104 AGLQSIKTLDLTSTQ  118 (308)
T ss_dssp             TTCTTCCEEECTTSC
T ss_pred             cCCCCCCEEECCCCC
Confidence            568999999999874

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

Probab=99.28  E-value=6.7e-11  Score=105.08  Aligned_cols=180  Identities=20%  Similarity=0.254  Sum_probs=112.3

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVV  108 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll  108 (356)
                      ++++.|+++++ +++.+    ....+..+++|++|+++++ .++.++.+.+  ..+++|++|+++++. +..++. .   
T Consensus        37 ~~l~~L~l~~n-~l~~~----~~~~~~~l~~L~~L~l~~n-~l~~i~~~~~--~~l~~L~~L~l~~n~-l~~~~~-~---  103 (270)
T 2o6q_A           37 ADTKKLDLQSN-KLSSL----PSKAFHRLTKLRLLYLNDN-KLQTLPAGIF--KELKNLETLWVTDNK-LQALPI-G---  103 (270)
T ss_dssp             TTCSEEECCSS-CCSCC----CTTSSSSCTTCCEEECCSS-CCSCCCTTTT--SSCTTCCEEECCSSC-CCCCCT-T---
T ss_pred             CCCCEEECcCC-CCCee----CHHHhcCCCCCCEEECCCC-ccCeeChhhh--cCCCCCCEEECCCCc-CCcCCH-h---
Confidence            57999999998 56654    1235678899999999984 5666654321  347899999998863 332221 0   


Q ss_pred             ccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecC
Q 044144          109 NHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLD  188 (356)
Q Consensus       109 ~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~  188 (356)
                                                .+..+++|++|.+++.. ++.++.                              
T Consensus       104 --------------------------~~~~l~~L~~L~l~~n~-l~~~~~------------------------------  126 (270)
T 2o6q_A          104 --------------------------VFDQLVNLAELRLDRNQ-LKSLPP------------------------------  126 (270)
T ss_dssp             --------------------------TTTTCSSCCEEECCSSC-CCCCCT------------------------------
T ss_pred             --------------------------HcccccCCCEEECCCCc-cCeeCH------------------------------
Confidence                                      02245678888887642 222211                              


Q ss_pred             CccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          189 TSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       189 ~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                            ..+..+++|+.|++.+++++.      +|...+..+++|+.|+++++ .+..+ +...+..+++|++|+++++.
T Consensus       127 ------~~~~~l~~L~~L~Ls~n~l~~------~~~~~~~~l~~L~~L~L~~n-~l~~~-~~~~~~~l~~L~~L~L~~N~  192 (270)
T 2o6q_A          127 ------RVFDSLTKLTYLSLGYNELQS------LPKGVFDKLTSLKELRLYNN-QLKRV-PEGAFDKLTELKTLKLDNNQ  192 (270)
T ss_dssp             ------TTTTTCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             ------HHhCcCcCCCEEECCCCcCCc------cCHhHccCCcccceeEecCC-cCcEe-ChhHhccCCCcCEEECCCCc
Confidence                  112456777777777776665      33334566777788877764 56665 54556667777888877764


Q ss_pred             ccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          269 DLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       269 ~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                       +..+. +.....      +++|+.|++.++|
T Consensus       193 -l~~~~-~~~~~~------l~~L~~L~l~~N~  216 (270)
T 2o6q_A          193 -LKRVP-EGAFDS------LEKLKMLQLQENP  216 (270)
T ss_dssp             -CSCCC-TTTTTT------CTTCCEEECCSSC
T ss_pred             -CCcCC-HHHhcc------ccCCCEEEecCCC
Confidence             54442 122222      6677777777654

>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=99.27  E-value=1.1e-12  Score=129.57  Aligned_cols=118  Identities=11%  Similarity=0.045  Sum_probs=60.4

Q ss_pred             CCCcCeEEecc---e-eeeEEcccCCCCCCCCCCCcCccEEeeccCcC-ccccchhhhhhhcCCCCeEEEecCcccceee
Q 044144          200 LPNLEALEISA---I-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNK-LKYIFSASMIGSLKHLQHLEVRFCEDLQEII  274 (356)
Q Consensus       200 l~~L~~L~l~~---~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~-l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~  274 (356)
                      +++|+.|++.+   + .+++.....+++. .+..+++|++|++++|.. +.+.........+++|+.|++++|. +....
T Consensus       402 ~~~L~~L~l~~~~~~n~l~~~p~~~~~~~-~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~  479 (592)
T 3ogk_B          402 LKNLCDFRLVLLDREERITDLPLDNGVRS-LLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEG  479 (592)
T ss_dssp             CCSCCEEEEEECSCCSCCSSCCCHHHHHH-HHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHH
T ss_pred             CCCCcEEEEeecCCCccccCchHHHHHHH-HHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHH
Confidence            67777777763   2 3433100000000 123467777777766653 3443233344456777777777665 32211


Q ss_pred             ccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          275 SENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       275 ~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .+....      .+++|++|++++|+ ++..........+++|++|++++|.
T Consensus       480 ~~~~~~------~~~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          480 LMEFSR------GCPNLQKLEMRGCC-FSERAIAAAVTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             HHHHHT------CCTTCCEEEEESCC-CBHHHHHHHHHHCSSCCEEEEESCB
T ss_pred             HHHHHh------cCcccCeeeccCCC-CcHHHHHHHHHhcCccCeeECcCCc
Confidence            111112      25677777777776 4432222112356777777777776

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

Probab=99.26  E-value=3.8e-12  Score=115.68  Aligned_cols=109  Identities=19%  Similarity=0.208  Sum_probs=51.2

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|++|++.+|+++.+..   .+...+..+++|+.|+++++ ++....+......+++|+.|++++|. ++.+  +.
T Consensus       198 ~~l~~L~~L~L~~N~l~~~~~---~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~~l~~L~~L~Ls~N~-l~~i--p~  270 (312)
T 1wwl_A          198 LKFPTLQVLALRNAGMETPSG---VCSALAAARVQLQGLDLSHN-SLRDAAGAPSCDWPSQLNSLNLSFTG-LKQV--PK  270 (312)
T ss_dssp             TSCTTCCEEECTTSCCCCHHH---HHHHHHHTTCCCSEEECTTS-CCCSSCCCSCCCCCTTCCEEECTTSC-CSSC--CS
T ss_pred             ccCCCCCEEECCCCcCcchHH---HHHHHHhcCCCCCEEECCCC-cCCcccchhhhhhcCCCCEEECCCCc-cChh--hh
Confidence            345566666666665542100   01101223456666666553 34443222333445566666666654 3332  11


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccC
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRC  325 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C  325 (356)
                      ..        +++|++|+++++ +++.++.   ...+++|++|++.+.
T Consensus       271 ~~--------~~~L~~L~Ls~N-~l~~~p~---~~~l~~L~~L~L~~N  306 (312)
T 1wwl_A          271 GL--------PAKLSVLDLSYN-RLDRNPS---PDELPQVGNLSLKGN  306 (312)
T ss_dssp             SC--------CSEEEEEECCSS-CCCSCCC---TTTSCEEEEEECTTC
T ss_pred             hc--------cCCceEEECCCC-CCCCChh---HhhCCCCCEEeccCC
Confidence            11        145666666554 5555533   145566666666554

>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=99.21  E-value=2.4e-10  Score=105.42  Aligned_cols=207  Identities=16%  Similarity=0.120  Sum_probs=136.1

Q ss_pred             CcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hhhhhcccc--ccccccchhhhhcccccccC
Q 044144           57 FPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LSTVVNHSS--TVVNCSKMKEIFAIGEEVDN  132 (356)
Q Consensus        57 ~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~~ll~~L~--~i~~c~~L~~l~~~~~~~~~  132 (356)
                      ++++++|++++ .+++.++.+.+  ..+++|++|+++++..+..++.  +..+ ..+.  .+.++.++..++.       
T Consensus        29 ~~~l~~L~Ls~-N~i~~i~~~~f--~~l~~L~~L~Ls~N~i~~~i~~~~f~~L-~~l~~~l~~~~N~l~~l~~-------   97 (350)
T 4ay9_X           29 PRNAIELRFVL-TKLRVIQKGAF--SGFGDLEKIEISQNDVLEVIEADVFSNL-PKLHEIRIEKANNLLYINP-------   97 (350)
T ss_dssp             CTTCSEEEEES-CCCSEECTTSS--TTCTTCCEEEEECCTTCCEECTTSBCSC-TTCCEEEEEEETTCCEECT-------
T ss_pred             CCCCCEEEccC-CcCCCcCHHHH--cCCCCCCEEECcCCCCCCccChhHhhcc-hhhhhhhcccCCcccccCc-------
Confidence            46899999999 56888865432  3589999999999876665432  2222 2221  2333444444432       


Q ss_pred             cccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecce-
Q 044144          133 SIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAI-  211 (356)
Q Consensus       133 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~-  211 (356)
                       ..+..+++|+.|.++++. ++.++..                                    ......++..|.+.++ 
T Consensus        98 -~~f~~l~~L~~L~l~~n~-l~~~~~~------------------------------------~~~~~~~l~~l~l~~~~  139 (350)
T 4ay9_X           98 -EAFQNLPNLQYLLISNTG-IKHLPDV------------------------------------HKIHSLQKVLLDIQDNI  139 (350)
T ss_dssp             -TSBCCCTTCCEEEEEEEC-CSSCCCC------------------------------------TTCCBSSCEEEEEESCT
T ss_pred             -hhhhhccccccccccccc-cccCCch------------------------------------hhcccchhhhhhhcccc
Confidence             123455667777666532 2221111                                    1123456778888776 


Q ss_pred             eeeEEcccCCCCCCCCCCC-cCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCc
Q 044144          212 NVDKIWHYNQIPAAVFPRF-QNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQ  290 (356)
Q Consensus       212 ~l~~~~~~~~~p~~~~~~l-~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~  290 (356)
                      +++.+      +...+..+ ..++.|++++ ++++.+ +...+ ..++|++|.+.+++.++.+. ++....      +++
T Consensus       140 ~i~~l------~~~~f~~~~~~l~~L~L~~-N~i~~i-~~~~f-~~~~L~~l~l~~~n~l~~i~-~~~f~~------l~~  203 (350)
T 4ay9_X          140 NIHTI------ERNSFVGLSFESVILWLNK-NGIQEI-HNSAF-NGTQLDELNLSDNNNLEELP-NDVFHG------ASG  203 (350)
T ss_dssp             TCCEE------CTTSSTTSBSSCEEEECCS-SCCCEE-CTTSS-TTEEEEEEECTTCTTCCCCC-TTTTTT------EEC
T ss_pred             ccccc------cccchhhcchhhhhhcccc-ccccCC-Chhhc-cccchhHHhhccCCcccCCC-HHHhcc------Ccc
Confidence            77774      22234444 4688899976 678887 54444 45789999999988887773 233344      889


Q ss_pred             cCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          291 LTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       291 L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                      |++|+++++ +++.++..    .+.+|++|.+.+|.+++.+|.
T Consensus       204 L~~LdLs~N-~l~~lp~~----~~~~L~~L~~l~~~~l~~lP~  241 (350)
T 4ay9_X          204 PVILDISRT-RIHSLPSY----GLENLKKLRARSTYNLKKLPT  241 (350)
T ss_dssp             CSEEECTTS-CCCCCCSS----SCTTCCEEECTTCTTCCCCCC
T ss_pred             cchhhcCCC-CcCccChh----hhccchHhhhccCCCcCcCCC
Confidence            999999987 79988764    467899999999999999984

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

Probab=99.20  E-value=3.1e-11  Score=109.62  Aligned_cols=202  Identities=18%  Similarity=0.146  Sum_probs=119.9

Q ss_pred             ccCCCcEEEEecCCCceEeecCCccccc--ccCcccceeecccccccccccccccc--ccCCCCccEEEEccCCCccccC
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVAC--DAFPLLESLILHNLINMERIWIDQLK--VESFNELKIIQAYNCDKLSNIF  102 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~--~~~~~L~~L~l~~~~~l~~l~~~~~~--~~~l~~L~~L~l~~c~~l~~~~  102 (356)
                      ++++|++|+++++ +++..    .+..+  ..+++|++|++++. .++.++.....  ...+++|++|+++++. +..++
T Consensus        93 ~l~~L~~L~L~~n-~l~~~----~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~l~~~~~~~L~~L~L~~N~-l~~~~  165 (312)
T 1wwl_A           93 GISGLQELTLENL-EVTGT----APPPLLEATGPDLNILNLRNV-SWATRDAWLAELQQWLKPGLKVLSIAQAH-SLNFS  165 (312)
T ss_dssp             TTSCCCEEEEEEE-BCBSC----CCCCSSSCCSCCCSEEEEESC-BCSSSSSHHHHHHTTCCTTCCEEEEESCS-CCCCC
T ss_pred             CcCCccEEEccCC-cccch----hHHHHHHhcCCCccEEEccCC-CCcchhHHHHHHHHhhcCCCcEEEeeCCC-Cccch
Confidence            5889999999888 45421    12222  67889999999884 45555322100  0113889999998874 33332


Q ss_pred             -----chhhhhccccccccccchhhh--hcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccc
Q 044144          103 -----WLSTVVNHSSTVVNCSKMKEI--FAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEE  175 (356)
Q Consensus       103 -----~l~~ll~~L~~i~~c~~L~~l--~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~  175 (356)
                           .+..+ +.| .++++.-...+  +.       ......+++|++|+++++. ++.++                  
T Consensus       166 ~~~~~~l~~L-~~L-~Ls~N~l~~~~~~~~-------~~~~~~l~~L~~L~L~~N~-l~~~~------------------  217 (312)
T 1wwl_A          166 CEQVRVFPAL-STL-DLSDNPELGERGLIS-------ALCPLKFPTLQVLALRNAG-METPS------------------  217 (312)
T ss_dssp             TTTCCCCSSC-CEE-ECCSCTTCHHHHHHH-------HSCTTSCTTCCEEECTTSC-CCCHH------------------
T ss_pred             HHHhccCCCC-CEE-ECCCCCcCcchHHHH-------HHHhccCCCCCEEECCCCc-CcchH------------------
Confidence                 12222 333 55554422211  10       0001345667777776642 22110                  


Q ss_pred             cccccccceeecCCccccc-cccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhh
Q 044144          176 STTTYSSSEITLDTSTLLF-NEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIG  254 (356)
Q Consensus       176 ~~~~l~~l~i~~~~~~~l~-~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~  254 (356)
                                      ..+ .....+++|+.|++++|+++..     .|...+..+++|+.|+++++ +++.+ |.... 
T Consensus       218 ----------------~~~~~~~~~l~~L~~L~Ls~N~l~~~-----~~~~~~~~l~~L~~L~Ls~N-~l~~i-p~~~~-  273 (312)
T 1wwl_A          218 ----------------GVCSALAAARVQLQGLDLSHNSLRDA-----AGAPSCDWPSQLNSLNLSFT-GLKQV-PKGLP-  273 (312)
T ss_dssp             ----------------HHHHHHHHTTCCCSEEECTTSCCCSS-----CCCSCCCCCTTCCEEECTTS-CCSSC-CSSCC-
T ss_pred             ----------------HHHHHHHhcCCCCCEEECCCCcCCcc-----cchhhhhhcCCCCEEECCCC-ccChh-hhhcc-
Confidence                            011 1224568999999999987763     22223556789999999885 67766 64443 


Q ss_pred             hcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          255 SLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       255 ~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                        ++|++|+++++. ++.+  +. ...      +++|++|++.+.
T Consensus       274 --~~L~~L~Ls~N~-l~~~--p~-~~~------l~~L~~L~L~~N  306 (312)
T 1wwl_A          274 --AKLSVLDLSYNR-LDRN--PS-PDE------LPQVGNLSLKGN  306 (312)
T ss_dssp             --SEEEEEECCSSC-CCSC--CC-TTT------SCEEEEEECTTC
T ss_pred             --CCceEEECCCCC-CCCC--hh-Hhh------CCCCCEEeccCC
Confidence              799999999975 6555  22 333      889999999876

>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=99.19  E-value=2.7e-10  Score=101.35  Aligned_cols=83  Identities=16%  Similarity=0.173  Sum_probs=59.9

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccC
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVES   83 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~   83 (356)
                      +++.|++.+.. +..+ ....+.++++|++|+++++ .++.+.    ...+..+++|++|+++++ .++.++...  ...
T Consensus        29 ~l~~L~ls~n~-l~~~-~~~~~~~l~~L~~L~l~~n-~l~~~~----~~~~~~l~~L~~L~L~~n-~l~~~~~~~--~~~   98 (276)
T 2z62_A           29 STKNLDLSFNP-LRHL-GSYSFFSFPELQVLDLSRC-EIQTIE----DGAYQSLSHLSTLILTGN-PIQSLALGA--FSG   98 (276)
T ss_dssp             TCCEEECTTCC-CCEE-CTTTTTTCTTCSEEECTTC-CCCEEC----TTTTTTCTTCCEEECTTC-CCCEECTTT--TTT
T ss_pred             CccEEECCCCc-cccc-CHhHhccccCCcEEECCCC-cCCccC----HHHccCCcCCCEEECCCC-ccCccChhh--hcC
Confidence            58899998764 4444 3335568999999999998 677661    234677899999999995 455554322  245


Q ss_pred             CCCccEEEEccCC
Q 044144           84 FNELKIIQAYNCD   96 (356)
Q Consensus        84 l~~L~~L~l~~c~   96 (356)
                      +++|++|+++++.
T Consensus        99 l~~L~~L~l~~n~  111 (276)
T 2z62_A           99 LSSLQKLVAVETN  111 (276)
T ss_dssp             CTTCCEEECTTSC
T ss_pred             CccccEEECCCCC
Confidence            7999999998863

>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=99.17  E-value=6.2e-10  Score=97.67  Aligned_cols=86  Identities=26%  Similarity=0.341  Sum_probs=51.8

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|+.|++.+++++.      +|...+..+++|+.|+++++ +++.+ +...+..+++|++|+++++. +..+. +.
T Consensus       104 ~~l~~L~~L~L~~N~l~~------~~~~~~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~L~~N~-l~~~~-~~  173 (251)
T 3m19_A          104 DHLTQLDKLYLGGNQLKS------LPSGVFDRLTKLKELRLNTN-QLQSI-PAGAFDKLTNLQTLSLSTNQ-LQSVP-HG  173 (251)
T ss_dssp             TTCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CSCCC-TT
T ss_pred             cccCCCCEEEcCCCcCCC------cChhHhccCCcccEEECcCC-cCCcc-CHHHcCcCcCCCEEECCCCc-CCccC-HH
Confidence            345677777777776665      33333556677777777663 56666 54556666777777777764 44442 12


Q ss_pred             CCCcCcccccCCccCeeecccc
Q 044144          278 RADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      ....      +++|++|++.++
T Consensus       174 ~~~~------l~~L~~L~l~~N  189 (251)
T 3m19_A          174 AFDR------LGKLQTITLFGN  189 (251)
T ss_dssp             TTTT------CTTCCEEECCSC
T ss_pred             HHhC------CCCCCEEEeeCC
Confidence            2222      567777777665

>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=99.14  E-value=2.6e-10  Score=102.51  Aligned_cols=58  Identities=12%  Similarity=0.194  Sum_probs=40.4

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      ..+++|+.|++++| .++.+      ..+..+++|++|+++++ .++.++.    ...+++|+.|+++++
T Consensus        43 ~~l~~L~~L~l~~~-~i~~~------~~~~~l~~L~~L~L~~n-~l~~~~~----l~~l~~L~~L~l~~n  100 (291)
T 1h6t_A           43 NELNSIDQIIANNS-DIKSV------QGIQYLPNVTKLFLNGN-KLTDIKP----LANLKNLGWLFLDEN  100 (291)
T ss_dssp             HHHHTCCEEECTTS-CCCCC------TTGGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSS
T ss_pred             hhcCcccEEEccCC-CcccC------hhHhcCCCCCEEEccCC-ccCCCcc----cccCCCCCEEECCCC
Confidence            46788888888887 55544      23566788888888884 4555532    356788888888876

>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=99.12  E-value=9.4e-10  Score=108.92  Aligned_cols=111  Identities=19%  Similarity=0.262  Sum_probs=65.8

Q ss_pred             cccCCCcCeEEeccee-eeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          197 KVALPNLEALEISAIN-VDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~-l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      ...+++|+.|++.+|+ ...+     .|. .+..+++|+.|++++| +++.+ +...+..+++|++|+++++. +..+. 
T Consensus       465 ~~~~~~L~~L~Ls~N~~~~~~-----~~~-~~~~l~~L~~L~Ls~N-~L~~l-~~~~f~~l~~L~~L~Ls~N~-l~~l~-  534 (635)
T 4g8a_A          465 FNGLSSLEVLKMAGNSFQENF-----LPD-IFTELRNLTFLDLSQC-QLEQL-SPTAFNSLSSLQVLNMSHNN-FFSLD-  534 (635)
T ss_dssp             TTTCTTCCEEECTTCEEGGGE-----ECS-CCTTCTTCCEEECTTS-CCCEE-CTTTTTTCTTCCEEECTTSC-CCBCC-
T ss_pred             cccchhhhhhhhhhccccccc-----Cch-hhhhccccCEEECCCC-ccCCc-ChHHHcCCCCCCEEECCCCc-CCCCC-
Confidence            4456777777777763 3321     121 3556677777777764 56666 44566677777777777764 54442 


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCC-CcccEEeeccC
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEW-PALEIFSVFRC  325 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~-~~L~~L~i~~C  325 (356)
                      +.....      +++|++|+++++ +++.++.... ..+ ++|+.|++.++
T Consensus       535 ~~~~~~------l~~L~~L~Ls~N-~l~~~~~~~l-~~l~~~L~~L~L~~N  577 (635)
T 4g8a_A          535 TFPYKC------LNSLQVLDYSLN-HIMTSKKQEL-QHFPSSLAFLNLTQN  577 (635)
T ss_dssp             CGGGTT------CTTCCEEECTTS-CCCBCCSSCT-TCCCTTCCEEECTTC
T ss_pred             hhHHhC------CCCCCEEECCCC-cCCCCCHHHH-HhhhCcCCEEEeeCC
Confidence            122232      667777777665 5666555432 233 56777777543

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

Probab=99.11  E-value=6.8e-11  Score=107.20  Aligned_cols=39  Identities=15%  Similarity=0.091  Sum_probs=21.2

Q ss_pred             CcccceeeccccccccccccccccccCCCCccEEEEccCC
Q 044144           57 FPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        57 ~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      +++|++|+++++. +.......+....+++|++|+++++.
T Consensus        90 ~~~L~~L~l~~n~-l~~~~~~~~~~~~~~~L~~L~Ls~n~  128 (310)
T 4glp_A           90 YSRLKELTLEDLK-ITGTMPPLPLEATGLALSSLRLRNVS  128 (310)
T ss_dssp             HSCCCEEEEESCC-CBSCCCCCSSSCCCBCCSSCEEESCC
T ss_pred             cCceeEEEeeCCE-eccchhhhhhhccCCCCCEEEeeccc
Confidence            3567777777754 33221111100346777777777764

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

Probab=99.08  E-value=2.3e-10  Score=103.65  Aligned_cols=87  Identities=20%  Similarity=0.063  Sum_probs=50.9

Q ss_pred             ceEEeeCcccCceeecc-ccCccccCCCcEEEEecCCCceEeecCCccccc--ccCcccceeecccccccccccc--ccc
Q 044144            5 VECLWLDKLQGIENVLF-NLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVAC--DAFPLLESLILHNLINMERIWI--DQL   79 (356)
Q Consensus         5 l~~L~l~~~~~~~~~~~-~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~--~~~~~L~~L~l~~~~~l~~l~~--~~~   79 (356)
                      ++.+.+.++.-...... ......+++|++|++++| ++...    .+...  ..+++|++|+++++. +.....  ...
T Consensus        66 l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~----~~~~~~~~~~~~L~~L~Ls~n~-i~~~~~~~~~~  139 (310)
T 4glp_A           66 VRRLTVGAAQVPAQLLVGALRVLAYSRLKELTLEDL-KITGT----MPPLPLEATGLALSSLRLRNVS-WATGRSWLAEL  139 (310)
T ss_dssp             CCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEEESC-CCBSC----CCCCSSSCCCBCCSSCEEESCC-CSSTTSSHHHH
T ss_pred             eeEEEEeCCcCCHHHHHHHHHhcccCceeEEEeeCC-Eeccc----hhhhhhhccCCCCCEEEeeccc-ccchhhhhHHH
Confidence            46666666542211111 112234678999999998 45422    12233  778999999999964 333111  001


Q ss_pred             cccCCCCccEEEEccCCC
Q 044144           80 KVESFNELKIIQAYNCDK   97 (356)
Q Consensus        80 ~~~~l~~L~~L~l~~c~~   97 (356)
                      ....+++|++|+++++.-
T Consensus       140 ~~~~~~~L~~L~Ls~n~l  157 (310)
T 4glp_A          140 QQWLKPGLKVLSIAQAHS  157 (310)
T ss_dssp             HTTBCSCCCEEEEECCSS
T ss_pred             HhhhccCCCEEEeeCCCc
Confidence            113588999999998753

>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=99.07  E-value=4.6e-10  Score=94.78  Aligned_cols=84  Identities=18%  Similarity=0.322  Sum_probs=40.0

Q ss_pred             CCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeec
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLY  306 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~  306 (356)
                      +..+++|+.|+++++ .+... ....+..+++|++|++++|..+..+   .....      +++|++|++.+| .+++++
T Consensus       108 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          108 LSGLTSLTLLDISHS-AHDDS-ILTKINTLPKVNSIDLSYNGAITDI---MPLKT------LPELKSLNIQFD-GVHDYR  175 (197)
T ss_dssp             CTTCTTCCEEECCSS-BCBGG-GHHHHTTCSSCCEEECCSCTBCCCC---GGGGG------CSSCCEEECTTB-CCCCCT
T ss_pred             hcCCCCCCEEEecCC-ccCcH-hHHHHhhCCCCCEEEccCCCCcccc---HhhcC------CCCCCEEECCCC-CCcChH
Confidence            334555555555553 33332 1233445555666666555433333   11222      555666666554 344443


Q ss_pred             CCCCcCCCCcccEEeeccC
Q 044144          307 PGMHTSEWPALEIFSVFRC  325 (356)
Q Consensus       307 ~~~~~~~~~~L~~L~i~~C  325 (356)
                       .  ...+++|+.|++.+.
T Consensus       176 -~--l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          176 -G--IEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             -T--GGGCSSCCEEEECBC
T ss_pred             -H--hccCCCCCEEEeeCc
Confidence             1  144556666665553

>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=99.06  E-value=7.9e-10  Score=93.32  Aligned_cols=114  Identities=16%  Similarity=0.252  Sum_probs=73.4

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++.+|.++.      ++.  +..+++|++|+++++ .+... ....+..+++|++|++++|. +.... +
T Consensus        62 l~~l~~L~~L~l~~n~~~~------~~~--l~~l~~L~~L~l~~n-~l~~~-~~~~l~~l~~L~~L~Ls~n~-i~~~~-~  129 (197)
T 4ezg_A           62 IEYAHNIKDLTINNIHATN------YNP--ISGLSNLERLRIMGK-DVTSD-KIPNLSGLTSLTLLDISHSA-HDDSI-L  129 (197)
T ss_dssp             GGGCTTCSEEEEESCCCSC------CGG--GTTCTTCCEEEEECT-TCBGG-GSCCCTTCTTCCEEECCSSB-CBGGG-H
T ss_pred             HhcCCCCCEEEccCCCCCc------chh--hhcCCCCCEEEeECC-ccCcc-cChhhcCCCCCCEEEecCCc-cCcHh-H
Confidence            4566788888888875544      222  556788888888774 55543 22445667888888888875 33311 1


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      .....      +++|++|++.+|..++.++.   ...+++|+.|++.+|. ++.++
T Consensus       130 ~~l~~------l~~L~~L~L~~n~~i~~~~~---l~~l~~L~~L~l~~n~-i~~~~  175 (197)
T 4ezg_A          130 TKINT------LPKVNSIDLSYNGAITDIMP---LKTLPELKSLNIQFDG-VHDYR  175 (197)
T ss_dssp             HHHTT------CSSCCEEECCSCTBCCCCGG---GGGCSSCCEEECTTBC-CCCCT
T ss_pred             HHHhh------CCCCCEEEccCCCCccccHh---hcCCCCCCEEECCCCC-CcChH
Confidence            22233      77888888888766777652   2567888888888764 55554

>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=99.06  E-value=6.1e-10  Score=110.02  Aligned_cols=58  Identities=12%  Similarity=0.194  Sum_probs=38.6

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      ..+++|+.|++.++ .+..+      ..+..+++|+.|+++++ .+..++.    ...+++|+.|+++++
T Consensus        40 ~~L~~L~~L~l~~n-~i~~l------~~l~~l~~L~~L~Ls~N-~l~~~~~----l~~l~~L~~L~Ls~N   97 (605)
T 1m9s_A           40 NELNSIDQIIANNS-DIKSV------QGIQYLPNVTKLFLNGN-KLTDIKP----LTNLKNLGWLFLDEN   97 (605)
T ss_dssp             HHHTTCCCCBCTTC-CCCCC------TTGGGCTTCCEEECTTS-CCCCCGG----GGGCTTCCEEECCSS
T ss_pred             hcCCCCCEEECcCC-CCCCC------hHHccCCCCCEEEeeCC-CCCCChh----hccCCCCCEEECcCC
Confidence            46777888888777 45543      24566778888888775 3555432    345778888888776

>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=99.01  E-value=6.7e-09  Score=102.74  Aligned_cols=226  Identities=14%  Similarity=0.096  Sum_probs=134.3

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      ++.++.+.+.......    ......+++|+.|+++++ .+.....  .........+|+.+++..... ...+..   .
T Consensus       348 l~~L~~l~l~~n~~~~----~~~~~~l~~L~~L~ls~n-~l~~~~~--~~~~~~~~~~L~~L~~~~~~~-~~~~~~---~  416 (635)
T 4g8a_A          348 LKSLKRLTFTSNKGGN----AFSEVDLPSLEFLDLSRN-GLSFKGC--CSQSDFGTISLKYLDLSFNGV-ITMSSN---F  416 (635)
T ss_dssp             CTTCCEEEEESCCSCC----BCCCCBCTTCCEEECCSS-CCBEEEE--CCHHHHSCSCCCEEECCSCSE-EEECSC---C
T ss_pred             chhhhhcccccccCCC----Ccccccccccccchhhcc-ccccccc--cccchhhhhhhhhhhcccccc-cccccc---c
Confidence            3456666665543221    122346899999999887 4443311  112344567899998877542 223222   2


Q ss_pred             cCCCCccEEEEccCCCccccCc--hhhhhcccc--ccccccchhhhhcccccccCcccccccccccEEecCCCCCcceee
Q 044144           82 ESFNELKIIQAYNCDKLSNIFW--LSTVVNHSS--TVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFC  157 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~--l~~ll~~L~--~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~  157 (356)
                      ..+++|+.+++.++........  +..+ ..+.  .++.+. +..+.        ...+..++.|+.|.++++.....+ 
T Consensus       417 ~~l~~L~~l~l~~~~~~~~~~~~~~~~l-~~l~~l~ls~n~-l~~~~--------~~~~~~~~~L~~L~Ls~N~~~~~~-  485 (635)
T 4g8a_A          417 LGLEQLEHLDFQHSNLKQMSEFSVFLSL-RNLIYLDISHTH-TRVAF--------NGIFNGLSSLEVLKMAGNSFQENF-  485 (635)
T ss_dssp             TTCTTCCEEECTTSEEESTTSSCTTTTC-TTCCEEECTTSC-CEECC--------TTTTTTCTTCCEEECTTCEEGGGE-
T ss_pred             cccccccchhhhhccccccccccccccc-cccccccccccc-ccccc--------ccccccchhhhhhhhhhccccccc-
Confidence            4578899998877644332211  1111 2111  222111 11010        112334566666666665433222 


Q ss_pred             cCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEe
Q 044144          158 REVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLI  237 (356)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~  237 (356)
                                                         .+..+..+++|+.|++++|+++.+      +...|..+++|+.|+
T Consensus       486 -----------------------------------~~~~~~~l~~L~~L~Ls~N~L~~l------~~~~f~~l~~L~~L~  524 (635)
T 4g8a_A          486 -----------------------------------LPDIFTELRNLTFLDLSQCQLEQL------SPTAFNSLSSLQVLN  524 (635)
T ss_dssp             -----------------------------------ECSCCTTCTTCCEEECTTSCCCEE------CTTTTTTCTTCCEEE
T ss_pred             -----------------------------------CchhhhhccccCEEECCCCccCCc------ChHHHcCCCCCCEEE
Confidence                                               223346678999999999988884      223477899999999


Q ss_pred             eccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccC-CccCeeeccccc
Q 044144          238 VWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVF-PQLTTLILQYLP  300 (356)
Q Consensus       238 i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l-~~L~~L~l~~c~  300 (356)
                      ++++ +++.+ +...+..+++|+.|+++++. +..+. ++....      + ++|++|++.++|
T Consensus       525 Ls~N-~l~~l-~~~~~~~l~~L~~L~Ls~N~-l~~~~-~~~l~~------l~~~L~~L~L~~Np  578 (635)
T 4g8a_A          525 MSHN-NFFSL-DTFPYKCLNSLQVLDYSLNH-IMTSK-KQELQH------FPSSLAFLNLTQND  578 (635)
T ss_dssp             CTTS-CCCBC-CCGGGTTCTTCCEEECTTSC-CCBCC-SSCTTC------CCTTCCEEECTTCC
T ss_pred             CCCC-cCCCC-ChhHHhCCCCCCEEECCCCc-CCCCC-HHHHHh------hhCcCCEEEeeCCC
Confidence            9884 78887 66777889999999999976 65553 233333      4 589999998754

>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=99.01  E-value=3.7e-09  Score=94.90  Aligned_cols=167  Identities=20%  Similarity=0.277  Sum_probs=117.2

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.|++.++. +.++   ..+..+++|++|+++++ +++.+      ..+..+++|++|+++++ .++.++.    .
T Consensus        45 l~~L~~L~l~~~~-i~~~---~~~~~l~~L~~L~L~~n-~l~~~------~~l~~l~~L~~L~l~~n-~l~~~~~----l  108 (291)
T 1h6t_A           45 LNSIDQIIANNSD-IKSV---QGIQYLPNVTKLFLNGN-KLTDI------KPLANLKNLGWLFLDEN-KVKDLSS----L  108 (291)
T ss_dssp             HHTCCEEECTTSC-CCCC---TTGGGCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSS-CCCCGGG----G
T ss_pred             cCcccEEEccCCC-cccC---hhHhcCCCCCEEEccCC-ccCCC------cccccCCCCCEEECCCC-cCCCChh----h
Confidence            4578889998763 4433   23568999999999998 56644      23778999999999995 4666532    3


Q ss_pred             cCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCC
Q 044144           82 ESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVK  161 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  161 (356)
                      ..+++|++|+++++. +..+.   .                             +..+++|+.|+++++. ++.+     
T Consensus       109 ~~l~~L~~L~L~~n~-i~~~~---~-----------------------------l~~l~~L~~L~l~~n~-l~~~-----  149 (291)
T 1h6t_A          109 KDLKKLKSLSLEHNG-ISDIN---G-----------------------------LVHLPQLESLYLGNNK-ITDI-----  149 (291)
T ss_dssp             TTCTTCCEEECTTSC-CCCCG---G-----------------------------GGGCTTCCEEECCSSC-CCCC-----
T ss_pred             ccCCCCCEEECCCCc-CCCCh---h-----------------------------hcCCCCCCEEEccCCc-CCcc-----
Confidence            568999999998873 33221   1                             2244788888888753 2211     


Q ss_pred             CCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccC
Q 044144          162 TPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHC  241 (356)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c  241 (356)
                                                       ..+..+++|+.|++++|+++++      +.  +..+++|+.|+++++
T Consensus       150 ---------------------------------~~l~~l~~L~~L~L~~N~l~~~------~~--l~~l~~L~~L~L~~N  188 (291)
T 1h6t_A          150 ---------------------------------TVLSRLTKLDTLSLEDNQISDI------VP--LAGLTKLQNLYLSKN  188 (291)
T ss_dssp             ---------------------------------GGGGGCTTCSEEECCSSCCCCC------GG--GTTCTTCCEEECCSS
T ss_pred             ---------------------------------hhhccCCCCCEEEccCCccccc------hh--hcCCCccCEEECCCC
Confidence                                             2345678899999988877762      22  557788999999875


Q ss_pred             cCccccchhhhhhhcCCCCeEEEecCc
Q 044144          242 NKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       242 ~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                       .+.++ +  .+..+++|+.|++++++
T Consensus       189 -~i~~l-~--~l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          189 -HISDL-R--ALAGLKNLDVLELFSQE  211 (291)
T ss_dssp             -CCCBC-G--GGTTCTTCSEEEEEEEE
T ss_pred             -cCCCC-h--hhccCCCCCEEECcCCc
Confidence             67776 4  36778899999998875

>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=99.00  E-value=1.6e-09  Score=107.04  Aligned_cols=167  Identities=19%  Similarity=0.256  Sum_probs=98.7

Q ss_pred             cccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhh--hccccccccccchhhhhccccccc
Q 044144           54 CDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTV--VNHSSTVVNCSKMKEIFAIGEEVD  131 (356)
Q Consensus        54 ~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~l--l~~L~~i~~c~~L~~l~~~~~~~~  131 (356)
                      ...+++|+.|.+.++ .+..++    ....+++|+.|+++++. +..++++..+  |+.| .++++. +..++       
T Consensus        39 ~~~L~~L~~L~l~~n-~i~~l~----~l~~l~~L~~L~Ls~N~-l~~~~~l~~l~~L~~L-~Ls~N~-l~~l~-------  103 (605)
T 1m9s_A           39 QNELNSIDQIIANNS-DIKSVQ----GIQYLPNVTKLFLNGNK-LTDIKPLTNLKNLGWL-FLDENK-IKDLS-------  103 (605)
T ss_dssp             HHHHTTCCCCBCTTC-CCCCCT----TGGGCTTCCEEECTTSC-CCCCGGGGGCTTCCEE-ECCSSC-CCCCT-------
T ss_pred             hhcCCCCCEEECcCC-CCCCCh----HHccCCCCCEEEeeCCC-CCCChhhccCCCCCEE-ECcCCC-CCCCh-------
Confidence            456788999998885 465553    22568999999998873 4433332222  0222 333321 11111       


Q ss_pred             CcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecce
Q 044144          132 NSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAI  211 (356)
Q Consensus       132 ~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~  211 (356)
                         .+..+++|+.|.++++                                      .-.. +..+..+++|+.|++.+|
T Consensus       104 ---~l~~l~~L~~L~Ls~N--------------------------------------~l~~-l~~l~~l~~L~~L~Ls~N  141 (605)
T 1m9s_A          104 ---SLKDLKKLKSLSLEHN--------------------------------------GISD-INGLVHLPQLESLYLGNN  141 (605)
T ss_dssp             ---TSTTCTTCCEEECTTS--------------------------------------CCCC-CGGGGGCTTCSEEECCSS
T ss_pred             ---hhccCCCCCEEEecCC--------------------------------------CCCC-CccccCCCccCEEECCCC
Confidence               1233444444444443                                      2111 123566788888888888


Q ss_pred             eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCcc
Q 044144          212 NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQL  291 (356)
Q Consensus       212 ~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L  291 (356)
                      +++.+      +  .+..+++|+.|++++| .+..+.+   +..+++|+.|++++|. +..+   .....      +++|
T Consensus       142 ~l~~l------~--~l~~l~~L~~L~Ls~N-~l~~~~~---l~~l~~L~~L~Ls~N~-i~~l---~~l~~------l~~L  199 (605)
T 1m9s_A          142 KITDI------T--VLSRLTKLDTLSLEDN-QISDIVP---LAGLTKLQNLYLSKNH-ISDL---RALAG------LKNL  199 (605)
T ss_dssp             CCCCC------G--GGGSCTTCSEEECCSS-CCCCCGG---GTTCTTCCEEECCSSC-CCBC---GGGTT------CTTC
T ss_pred             ccCCc------h--hhcccCCCCEEECcCC-cCCCchh---hccCCCCCEEECcCCC-CCCC---hHHcc------CCCC
Confidence            77662      1  2557788888888775 5666623   6677888888888875 5444   22333      7788


Q ss_pred             Ceeecccc
Q 044144          292 TTLILQYL  299 (356)
Q Consensus       292 ~~L~l~~c  299 (356)
                      +.|++.+|
T Consensus       200 ~~L~L~~N  207 (605)
T 1m9s_A          200 DVLELFSQ  207 (605)
T ss_dssp             SEEECCSE
T ss_pred             CEEEccCC
Confidence            88888776

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.99  E-value=6e-12  Score=120.30  Aligned_cols=141  Identities=13%  Similarity=-0.006  Sum_probs=72.8

Q ss_pred             cccccceeecCCccc-----cccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccc---h
Q 044144          178 TTYSSSEITLDTSTL-----LFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIF---S  249 (356)
Q Consensus       178 ~~l~~l~i~~~~~~~-----l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~---~  249 (356)
                      ..++.|+++.|.-..     ++..+..+++|+.|++.+|.+++..... +........++|++|++++|. +....   -
T Consensus       256 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~-l~~~l~~~~~~L~~L~L~~n~-l~~~~~~~l  333 (461)
T 1z7x_W          256 SRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARL-LCETLLEPGCQLESLWVKSCS-FTAACCSHF  333 (461)
T ss_dssp             CCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHH-HHHHHTSTTCCCCEEECTTSC-CBGGGHHHH
T ss_pred             CCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHH-HHHHhccCCccceeeEcCCCC-CchHHHHHH
Confidence            346666666664322     3444555677777777777554310000 110001123577788877764 43321   1


Q ss_pred             hhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccce-----eecCCCCcCCCCcccEEeecc
Q 044144          250 ASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLR-----CLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       250 ~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~-----~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      ...+..+++|++|++++|. +...... .... ......++|++|++.+| +++     .++...  ..+++|++|++++
T Consensus       334 ~~~l~~~~~L~~L~Ls~n~-i~~~~~~-~l~~-~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l--~~~~~L~~L~l~~  407 (461)
T 1z7x_W          334 SSVLAQNRFLLELQISNNR-LEDAGVR-ELCQ-GLGQPGSVLRVLWLADC-DVSDSSCSSLAATL--LANHSLRELDLSN  407 (461)
T ss_dssp             HHHHHHCSSCCEEECCSSB-CHHHHHH-HHHH-HHTSTTCCCCEEECTTS-CCCHHHHHHHHHHH--HHCCCCCEEECCS
T ss_pred             HHHHhhCCCccEEEccCCc-cccccHH-HHHH-HHcCCCCceEEEECCCC-CCChhhHHHHHHHH--HhCCCccEEECCC
Confidence            1344566788888888774 4332100 0000 00001457888888887 455     233322  3467888888888


Q ss_pred             Cc
Q 044144          325 CD  326 (356)
Q Consensus       325 C~  326 (356)
                      |+
T Consensus       408 N~  409 (461)
T 1z7x_W          408 NC  409 (461)
T ss_dssp             SS
T ss_pred             CC
Confidence            74

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=98.98  E-value=4.8e-11  Score=111.60  Aligned_cols=70  Identities=9%  Similarity=-0.058  Sum_probs=36.6

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccc--cccc-cccccc----cccCCCCccEEEEccCC
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLI--NMER-IWIDQL----KVESFNELKIIQAYNCD   96 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~--~l~~-l~~~~~----~~~~l~~L~~L~l~~c~   96 (356)
                      ..+++|++|++++| .+...........+..+++|++|+++++.  .+.. +|.+..    ....+++|++|+++++.
T Consensus        29 ~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~  105 (386)
T 2ca6_A           29 LEDDSVKEIVLSGN-TIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNA  105 (386)
T ss_dssp             HHCSCCCEEECTTS-EECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCC
T ss_pred             hcCCCccEEECCCC-CCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCc
Confidence            35677888888877 34321000001124567788888887752  2211 111100    01346788888887764

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.94  E-value=9.5e-12  Score=118.88  Aligned_cols=291  Identities=13%  Similarity=0.042  Sum_probs=149.9

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.+.. +...........+++|++|++++| ++...........+..+++|++|+++++. +.+.....+. .
T Consensus         3 ~~l~~L~Ls~~~-l~~~~~~~~~~~~~~L~~L~L~~~-~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l~~~~~~~l~-~   78 (461)
T 1z7x_W            3 LDIQSLDIQCEE-LSDARWAELLPLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSNE-LGDVGVHCVL-Q   78 (461)
T ss_dssp             EEEEEEEEESCC-CCHHHHHHHHHHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTCC-CHHHHHHHHH-H
T ss_pred             ccceehhhhhcc-cCchhHHHHHhhcCCccEEEccCC-CCCHHHHHHHHHHHHhCCCcCEEeCCCCc-CChHHHHHHH-H
Confidence            578899997654 333222222457899999999999 45421000012245567999999999954 4432111111 1


Q ss_pred             CCC----CccEEEEccCCCcccc---------Cchhhhhccccccccccchhhhh-cccccccCcccccccccccEEecC
Q 044144           83 SFN----ELKIIQAYNCDKLSNI---------FWLSTVVNHSSTVVNCSKMKEIF-AIGEEVDNSIEKIELAQLRYLSLG  148 (356)
Q Consensus        83 ~l~----~L~~L~l~~c~~l~~~---------~~l~~ll~~L~~i~~c~~L~~l~-~~~~~~~~~~~~~~~~~L~~L~l~  148 (356)
                      .++    +|++|++++|. +...         ..++.+ +.| .++++. +.... ....    ..-....++|++|+++
T Consensus        79 ~l~~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L-~~L-~Ls~n~-i~~~~~~~l~----~~l~~~~~~L~~L~L~  150 (461)
T 1z7x_W           79 GLQTPSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTL-QEL-HLSDNL-LGDAGLQLLC----EGLLDPQCRLEKLQLE  150 (461)
T ss_dssp             TTCSTTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTC-CEE-ECCSSB-CHHHHHHHHH----HHHTSTTCCCCEEECT
T ss_pred             HHhhCCCceeEEEccCCC-CCHHHHHHHHHHHccCCce-eEE-ECCCCc-CchHHHHHHH----HHHhcCCCcceEEECC
Confidence            233    79999999985 3321         112233 444 566554 22110 0000    0001123468888888


Q ss_pred             CCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccc-cccccc-----cCCCcCeEEecceeeeEEcccCCC
Q 044144          149 NLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTL-LFNEKV-----ALPNLEALEISAINVDKIWHYNQI  222 (356)
Q Consensus       149 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~-l~~~~~-----~l~~L~~L~l~~~~l~~~~~~~~~  222 (356)
                      ++. ++.......+         ........++.|+++++.-.. .+..+.     ..++|+.|++.+|+++...... +
T Consensus       151 ~n~-l~~~~~~~l~---------~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~-l  219 (461)
T 1z7x_W          151 YCS-LSAASCEPLA---------SVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRD-L  219 (461)
T ss_dssp             TSC-CBGGGHHHHH---------HHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHH-H
T ss_pred             CCC-CCHHHHHHHH---------HHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHH-H
Confidence            873 2221100000         000022347777777665211 111111     2458888888887665410000 1


Q ss_pred             CCCCCCCCcCccEEeeccCcCccccc----hhhhhhhcCCCCeEEEecCcccceee---ccCCCCcCcccccCCccCeee
Q 044144          223 PAAVFPRFQNLTRLIVWHCNKLKYIF----SASMIGSLKHLQHLEVRFCEDLQEII---SENRADEVIPYFVFPQLTTLI  295 (356)
Q Consensus       223 p~~~~~~l~~L~~L~i~~c~~l~~l~----~~~~~~~l~~L~~L~i~~c~~l~~i~---~~~~~~~~~~~~~l~~L~~L~  295 (356)
                      +. .+..+++|++|+++++ .+.+..    .......+++|++|++++|. +....   ......      .+++|++|+
T Consensus       220 ~~-~l~~~~~L~~L~Ls~n-~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~------~~~~L~~L~  290 (461)
T 1z7x_W          220 CG-IVASKASLRELALGSN-KLGDVGMAELCPGLLHPSSRLRTLWIWECG-ITAKGCGDLCRVLR------AKESLKELS  290 (461)
T ss_dssp             HH-HHHHCTTCCEEECCSS-BCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHHHHHHHHHH------HCTTCCEEE
T ss_pred             HH-HHHhCCCccEEeccCC-cCChHHHHHHHHHHhcCCCCceEEECcCCC-CCHHHHHHHHHHHh------hCCCcceEE
Confidence            11 1335678888888876 454431    12233356788888888874 43310   011111      267888888


Q ss_pred             ccccccceeecCCCC----cCCCCcccEEeeccCc
Q 044144          296 LQYLPKLRCLYPGMH----TSEWPALEIFSVFRCD  326 (356)
Q Consensus       296 l~~c~~L~~~~~~~~----~~~~~~L~~L~i~~C~  326 (356)
                      +.++ .++.......    ....++|++|++.+|.
T Consensus       291 Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~  324 (461)
T 1z7x_W          291 LAGN-ELGDEGARLLCETLLEPGCQLESLWVKSCS  324 (461)
T ss_dssp             CTTC-CCHHHHHHHHHHHHTSTTCCCCEEECTTSC
T ss_pred             CCCC-CCchHHHHHHHHHhccCCccceeeEcCCCC
Confidence            8877 4443211110    1233689999999886

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=98.93  E-value=4.8e-10  Score=104.71  Aligned_cols=89  Identities=12%  Similarity=-0.042  Sum_probs=55.6

Q ss_pred             CCcceEEeeCcccCceeecc---ccCccccCCCcEEEEecCCCceEeecCCccc-------ccccCcccceeeccccccc
Q 044144            2 INNVECLWLDKLQGIENVLF---NLDTEGFSQLKLLWVQNNPDFFCIVDSRAMV-------ACDAFPLLESLILHNLINM   71 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~---~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~-------~~~~~~~L~~L~l~~~~~l   71 (356)
                      +++|+.|++.++. +.....   ......+++|++|++++|. +..+.+. .+.       .+..+++|++|+++++. +
T Consensus        31 ~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~Ls~~~-~~~l~~~-~~~~~~~l~~~l~~~~~L~~L~Ls~n~-l  106 (386)
T 2ca6_A           31 DDSVKEIVLSGNT-IGTEAARWLSENIASKKDLEIAEFSDIF-TGRVKDE-IPEALRLLLQALLKCPKLHTVRLSDNA-F  106 (386)
T ss_dssp             CSCCCEEECTTSE-ECHHHHHHHHHTTTTCTTCCEEECCSCC-TTSCGGG-SHHHHHHHHHHHTTCTTCCEEECCSCC-C
T ss_pred             CCCccEEECCCCC-CCHHHHHHHHHHHHhCCCccEEeCcccc-cCccccc-hhHHHHHHHHHHhhCCcccEEECCCCc-C
Confidence            4678999998873 222111   1124478999999999982 2222111 111       23578999999999964 4


Q ss_pred             cc-----cccccccccCCCCccEEEEccCCC
Q 044144           72 ER-----IWIDQLKVESFNELKIIQAYNCDK   97 (356)
Q Consensus        72 ~~-----l~~~~~~~~~l~~L~~L~l~~c~~   97 (356)
                      ..     ++...   ..+++|++|++++|.-
T Consensus       107 ~~~~~~~l~~~l---~~~~~L~~L~L~~n~l  134 (386)
T 2ca6_A          107 GPTAQEPLIDFL---SKHTPLEHLYLHNNGL  134 (386)
T ss_dssp             CTTTHHHHHHHH---HHCTTCCEEECCSSCC
T ss_pred             CHHHHHHHHHHH---HhCCCCCEEECcCCCC
Confidence            43     22111   4579999999999853

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=98.92  E-value=1.8e-08  Score=88.29  Aligned_cols=155  Identities=19%  Similarity=0.258  Sum_probs=105.4

Q ss_pred             ccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccc-cccccCCCcCeEEecceeeeEEcc
Q 044144          140 AQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLF-NEKVALPNLEALEISAINVDKIWH  218 (356)
Q Consensus       140 ~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~-~~~~~l~~L~~L~l~~~~l~~~~~  218 (356)
                      +.++.|+++++. ++.+....+             ..+..++.|.++.+.-.... ..+..+++|+.|++.+++++.   
T Consensus        35 ~~l~~L~L~~n~-l~~~~~~~~-------------~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~---   97 (251)
T 3m19_A           35 ADTEKLDLQSTG-LATLSDATF-------------RGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLAS---   97 (251)
T ss_dssp             TTCCEEECTTSC-CCCCCTTTT-------------TTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCC---
T ss_pred             CCCCEEEccCCC-cCccCHhHh-------------cCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccc---
Confidence            678888887753 333322111             13455777888776643333 345678889999998887776   


Q ss_pred             cCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccc
Q 044144          219 YNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQY  298 (356)
Q Consensus       219 ~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~  298 (356)
                         +|...+..+++|+.|+++++ +++.+ +...+..+++|++|+++++. +..+. +.....      +++|++|++.+
T Consensus        98 ---~~~~~~~~l~~L~~L~L~~N-~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~-~~~~~~------l~~L~~L~L~~  164 (251)
T 3m19_A           98 ---LPLGVFDHLTQLDKLYLGGN-QLKSL-PSGVFDRLTKLKELRLNTNQ-LQSIP-AGAFDK------LTNLQTLSLST  164 (251)
T ss_dssp             ---CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTTTT------CTTCCEEECCS
T ss_pred             ---cChhHhcccCCCCEEEcCCC-cCCCc-ChhHhccCCcccEEECcCCc-CCccC-HHHcCc------CcCCCEEECCC
Confidence               44334667888999999774 77777 65667778899999998875 65553 222333      78899999987


Q ss_pred             cccceeecCCCCcCCCCcccEEeeccCc
Q 044144          299 LPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       299 c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      + +++.++.... ..+++|+.|++.+++
T Consensus       165 N-~l~~~~~~~~-~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          165 N-QLQSVPHGAF-DRLGKLQTITLFGNQ  190 (251)
T ss_dssp             S-CCSCCCTTTT-TTCTTCCEEECCSCC
T ss_pred             C-cCCccCHHHH-hCCCCCCEEEeeCCc
Confidence            7 6777665432 567888888888865

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

Probab=98.92  E-value=1.2e-08  Score=86.70  Aligned_cols=62  Identities=21%  Similarity=0.380  Sum_probs=32.4

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      .+++|+.|++.+++++.      ++...+..+++|+.|+++++ .+..+ +...+..+++|+.|++.+++
T Consensus        98 ~l~~L~~L~L~~N~l~~------~~~~~~~~l~~L~~L~l~~N-~l~~~-~~~~~~~l~~L~~L~l~~N~  159 (208)
T 2o6s_A           98 KLTQLKELALNTNQLQS------LPDGVFDKLTQLKDLRLYQN-QLKSV-PDGVFDRLTSLQYIWLHDNP  159 (208)
T ss_dssp             TCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCSCC-CTTTTTTCTTCCEEECCSCC
T ss_pred             CccCCCEEEcCCCcCcc------cCHhHhccCCcCCEEECCCC-cccee-CHHHhccCCCccEEEecCCC
Confidence            44566666666655544      22223445566666666553 44444 43444555566666666553

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

Probab=98.90  E-value=3.5e-09  Score=86.81  Aligned_cols=118  Identities=16%  Similarity=0.151  Sum_probs=86.5

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|+.|++.+|.++.+  .      .+..+++|+.|+++++ .+... ....+..+++|+.|++++|. +..+..
T Consensus        44 ~~~~l~~L~~L~l~~n~l~~~--~------~~~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~~  112 (168)
T 2ell_A           44 LTAEFVNLEFLSLINVGLISV--S------NLPKLPKLKKLELSEN-RIFGG-LDMLAEKLPNLTHLNLSGNK-LKDIST  112 (168)
T ss_dssp             CCGGGGGCCEEEEESSCCCCC--S------SCCCCSSCCEEEEESC-CCCSC-CCHHHHHCTTCCEEECBSSS-CCSSGG
T ss_pred             HHHhCCCCCEEeCcCCCCCCh--h------hhccCCCCCEEECcCC-cCchH-HHHHHhhCCCCCEEeccCCc-cCcchh
Confidence            346789999999999988773  1      2668899999999886 56664 33666779999999999985 655522


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecC--CCCcCCCCcccEEeeccCcCccccc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYP--GMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~--~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      ......      +++|++|++.++ .++.++.  ...+..+++|+.|++.+|. ++.+|
T Consensus       113 ~~~l~~------l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~~n~-~~~~~  163 (168)
T 2ell_A          113 LEPLKK------LECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGYDRE-DQEAP  163 (168)
T ss_dssp             GGGGSS------CSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTEETT-SCBCC
T ss_pred             HHHHhc------CCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCCCCC-hhhcc
Confidence            233333      889999999988 5666654  1123678999999999986 44444

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.89  E-value=5.4e-10  Score=103.54  Aligned_cols=116  Identities=12%  Similarity=0.085  Sum_probs=51.2

Q ss_pred             CcCeEEecceeeeEEcccCCCCCCCCCCC-cCccEEeeccCcCcccc----chhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          202 NLEALEISAINVDKIWHYNQIPAAVFPRF-QNLTRLIVWHCNKLKYI----FSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       202 ~L~~L~l~~~~l~~~~~~~~~p~~~~~~l-~~L~~L~i~~c~~l~~l----~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +|+.|++++|++++..... +.. .+..+ ++|+.|+++++ .+.+.    ++.......++|++|++++|. +..... 
T Consensus       168 ~L~~L~Ls~n~l~~~~~~~-l~~-~l~~~~~~L~~L~Ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~-  242 (362)
T 3goz_A          168 NVNSLNLRGNNLASKNCAE-LAK-FLASIPASVTSLDLSAN-LLGLKSYAELAYIFSSIPNHVVSLNLCLNC-LHGPSL-  242 (362)
T ss_dssp             TCCEEECTTSCGGGSCHHH-HHH-HHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHHSCTTCCEEECCSSC-CCCCCH-
T ss_pred             cccEeeecCCCCchhhHHH-HHH-HHHhCCCCCCEEECCCC-CCChhHHHHHHHHHhcCCCCceEEECcCCC-CCcHHH-
Confidence            6777777766555411000 000 12223 36777777664 34441    022222223467777777664 332210 


Q ss_pred             CCCCcCcccccCCccCeeeccccc-------cceeecCCCCcCCCCcccEEeeccCc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLP-------KLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~-------~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ....  .....+++|++|++.+|.       .+..+....  ..+++|+.|++++++
T Consensus       243 ~~l~--~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~--~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          243 ENLK--LLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAF--PNIQKIILVDKNGKE  295 (362)
T ss_dssp             HHHH--HTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTS--TTCCEEEEECTTSCB
T ss_pred             HHHH--HHHhcCCCccEEEeccCCccccCHHHHHHHHHHh--ccCCceEEEecCCCc
Confidence            0000  001124567777776663       122222222  345566666666554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.87  E-value=1e-08  Score=88.63  Aligned_cols=112  Identities=22%  Similarity=0.288  Sum_probs=79.7

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|+.|++.+++++.      +|...+..+++|+.|+++++ +++.+ +...+..+++|+.|+++++. +..+  
T Consensus        59 ~~~~l~~L~~L~L~~N~l~~------i~~~~~~~l~~L~~L~Ls~N-~l~~l-~~~~~~~l~~L~~L~Ls~N~-l~~l--  127 (229)
T 3e6j_A           59 VFDSLINLKELYLGSNQLGA------LPVGVFDSLTQLTVLDLGTN-QLTVL-PSAVFDRLVHLKELFMCCNK-LTEL--  127 (229)
T ss_dssp             TTTTCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCSC--
T ss_pred             HhhCccCCcEEECCCCCCCC------cChhhcccCCCcCEEECCCC-cCCcc-ChhHhCcchhhCeEeccCCc-cccc--
Confidence            34567888888888887766      44434667888888888774 77777 65666778888888888875 5544  


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      +.....      +++|++|++.++ +++.++... +..+++|+.|++.+++
T Consensus       128 p~~~~~------l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          128 PRGIER------LTHLTHLALDQN-QLKSIPHGA-FDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             CTTGGG------CTTCSEEECCSS-CCCCCCTTT-TTTCTTCCEEECTTSC
T ss_pred             Cccccc------CCCCCEEECCCC-cCCccCHHH-HhCCCCCCEEEeeCCC
Confidence            233333      788888888776 777776532 2567888888887765

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

Probab=98.87  E-value=1.2e-08  Score=86.55  Aligned_cols=109  Identities=21%  Similarity=0.318  Sum_probs=53.6

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|+.|++.+++++.      +|...+..+++|++|+++++ ++..+ +...+..+++|++|+++++. +..+. +.
T Consensus        49 ~~l~~L~~L~l~~n~l~~------~~~~~~~~l~~L~~L~Ls~n-~l~~~-~~~~~~~l~~L~~L~L~~N~-l~~~~-~~  118 (208)
T 2o6s_A           49 DELTSLTQLYLGGNKLQS------LPNGVFNKLTSLTYLNLSTN-QLQSL-PNGVFDKLTQLKELALNTNQ-LQSLP-DG  118 (208)
T ss_dssp             TTCTTCSEEECCSSCCCC------CCTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TT
T ss_pred             cccccCcEEECCCCccCc------cChhhcCCCCCcCEEECCCC-cCCcc-CHhHhcCccCCCEEEcCCCc-CcccC-Hh
Confidence            345566666666655544      22223445566666666553 44444 43444555666666665553 43331 11


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeecc
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~  324 (356)
                      ....      +++|++|++.++ +++.++... +..+++|+.|++.+
T Consensus       119 ~~~~------l~~L~~L~l~~N-~l~~~~~~~-~~~l~~L~~L~l~~  157 (208)
T 2o6s_A          119 VFDK------LTQLKDLRLYQN-QLKSVPDGV-FDRLTSLQYIWLHD  157 (208)
T ss_dssp             TTTT------CTTCCEEECCSS-CCSCCCTTT-TTTCTTCCEEECCS
T ss_pred             Hhcc------CCcCCEEECCCC-ccceeCHHH-hccCCCccEEEecC
Confidence            1222      555666666554 444444322 13455566665555

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.86  E-value=1.3e-08  Score=87.34  Aligned_cols=112  Identities=19%  Similarity=0.286  Sum_probs=77.3

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++.+++++.+     .| ..|..+++|+.|++++ +.++.+ +...+..+++|+.|+++++. +..+. +
T Consensus        52 ~~~l~~L~~L~Ls~N~i~~~-----~~-~~~~~l~~L~~L~Ls~-N~l~~l-~~~~f~~l~~L~~L~L~~N~-l~~~~-~  121 (220)
T 2v9t_B           52 FSPYKKLRRIDLSNNQISEL-----AP-DAFQGLRSLNSLVLYG-NKITEL-PKSLFEGLFSLQLLLLNANK-INCLR-V  121 (220)
T ss_dssp             STTCTTCCEEECCSSCCCEE-----CT-TTTTTCSSCCEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-T
T ss_pred             hhCCCCCCEEECCCCcCCCc-----CH-HHhhCCcCCCEEECCC-CcCCcc-CHhHccCCCCCCEEECCCCC-CCEeC-H
Confidence            35567888888888877764     12 2366778888888876 467776 66667778888888888875 55542 2


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .....      +++|++|++.++ +++.++.... ..+++|+.|++.+++
T Consensus       122 ~~~~~------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          122 DAFQD------LHNLNLLSLYDN-KLQTIAKGTF-SPLRAIQTMHLAQNP  163 (220)
T ss_dssp             TTTTT------CTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSC
T ss_pred             HHcCC------CCCCCEEECCCC-cCCEECHHHH-hCCCCCCEEEeCCCC
Confidence            33333      778888888776 6776665432 567788888887765

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.82  E-value=4.8e-08  Score=89.12  Aligned_cols=103  Identities=21%  Similarity=0.227  Sum_probs=79.5

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCC-eEEEecCcccceeeccC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQ-HLEVRFCEDLQEIISEN  277 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~-~L~i~~c~~l~~i~~~~  277 (356)
                      .+++|+.+++.+++++.      +|...|..+++|+.+++.+  +++.+ +...+.++++|+ .+++.+  .++.+. +.
T Consensus       224 ~~~~L~~l~L~~n~i~~------I~~~aF~~~~~L~~l~l~~--ni~~I-~~~aF~~~~~L~~~l~l~~--~l~~I~-~~  291 (329)
T 3sb4_A          224 YMPNLVSLDISKTNATT------IPDFTFAQKKYLLKIKLPH--NLKTI-GQRVFSNCGRLAGTLELPA--SVTAIE-FG  291 (329)
T ss_dssp             HCTTCCEEECTTBCCCE------ECTTTTTTCTTCCEEECCT--TCCEE-CTTTTTTCTTCCEEEEECT--TCCEEC-TT
T ss_pred             hcCCCeEEECCCCCcce------ecHhhhhCCCCCCEEECCc--cccee-hHHHhhCChhccEEEEEcc--cceEEc-hh
Confidence            37899999999988888      4444588899999999976  48888 778899999999 999988  576762 34


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEe
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFS  321 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~  321 (356)
                      ....      +++|+.+.+.+. +++.++.... ..+++|+.++
T Consensus       292 aF~~------c~~L~~l~l~~n-~i~~I~~~aF-~~~~~L~~ly  327 (329)
T 3sb4_A          292 AFMG------CDNLRYVLATGD-KITTLGDELF-GNGVPSKLIY  327 (329)
T ss_dssp             TTTT------CTTEEEEEECSS-CCCEECTTTT-CTTCCCCEEE
T ss_pred             hhhC------CccCCEEEeCCC-ccCccchhhh-cCCcchhhhc
Confidence            4444      788999988543 7888877652 5667777665

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.81  E-value=3.3e-08  Score=84.88  Aligned_cols=112  Identities=16%  Similarity=0.254  Sum_probs=85.6

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++.+++++.+      +...+..+++|+.|++++ +.+..+ +...+..+++|++|+++++. +..+. +
T Consensus        53 ~~~l~~L~~L~L~~N~i~~i------~~~~~~~l~~L~~L~Ls~-N~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~-~  122 (220)
T 2v70_A           53 FKKLPQLRKINFSNNKITDI------EEGAFEGASGVNEILLTS-NRLENV-QHKMFKGLESLKTLMLRSNR-ITCVG-N  122 (220)
T ss_dssp             GGGCTTCCEEECCSSCCCEE------CTTTTTTCTTCCEEECCS-SCCCCC-CGGGGTTCSSCCEEECTTSC-CCCBC-T
T ss_pred             hccCCCCCEEECCCCcCCEE------CHHHhCCCCCCCEEECCC-CccCcc-CHhHhcCCcCCCEEECCCCc-CCeEC-H
Confidence            46788999999999988874      333477889999999987 467777 66777889999999999976 65553 2


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .....      +++|++|++.++ +++.+..... ..+++|+.|++.+++
T Consensus       123 ~~~~~------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          123 DSFIG------LSSVRLLSLYDN-QITTVAPGAF-DTLHSLSTLNLLANP  164 (220)
T ss_dssp             TSSTT------CTTCSEEECTTS-CCCCBCTTTT-TTCTTCCEEECCSCC
T ss_pred             hHcCC------CccCCEEECCCC-cCCEECHHHh-cCCCCCCEEEecCcC
Confidence            33443      789999999886 7777754432 578899999988876

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

Probab=98.80  E-value=5.3e-09  Score=92.46  Aligned_cols=60  Identities=18%  Similarity=0.194  Sum_probs=41.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +..+++|+.|++.+|+++++      +.  +..+++|+.|+++++ .+..+   ..+..+++|+.|++++++
T Consensus       124 l~~l~~L~~L~Ls~N~i~~~------~~--l~~l~~L~~L~L~~N-~i~~~---~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          124 LIHLKNLEILSIRNNKLKSI------VM--LGFLSKLEVLDLHGN-EITNT---GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             GTTCTTCCEEECTTSCCCBC------GG--GGGCTTCCEEECTTS-CCCBC---TTSTTCCCCCEEEEEEEE
T ss_pred             hcCcccccEEECCCCcCCCC------hH--HccCCCCCEEECCCC-cCcch---HHhccCCCCCEEeCCCCc
Confidence            35567888888888877762      22  556788888888774 55555   345667888888888765

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.78  E-value=5.7e-08  Score=83.37  Aligned_cols=63  Identities=14%  Similarity=0.256  Sum_probs=39.8

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      ..+++|++|++.+++++.+      +...+..+++|+.|++++ ++++.+ +...+..+++|+.|++.+++
T Consensus       102 ~~l~~L~~L~Ls~N~l~~~------~~~~~~~l~~L~~L~L~~-N~l~~~-~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          102 KGLESLKTLMLRSNRITCV------GNDSFIGLSSVRLLSLYD-NQITTV-APGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             TTCSSCCEEECTTSCCCCB------CTTSSTTCTTCSEEECTT-SCCCCB-CTTTTTTCTTCCEEECCSCC
T ss_pred             cCCcCCCEEECCCCcCCeE------CHhHcCCCccCCEEECCC-CcCCEE-CHHHhcCCCCCCEEEecCcC
Confidence            4567777777777766652      222355667777777766 356665 34555667777777777654

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

Probab=98.78  E-value=3.3e-08  Score=87.29  Aligned_cols=120  Identities=18%  Similarity=0.193  Sum_probs=70.9

Q ss_pred             ccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCC
Q 044144          179 TYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKH  258 (356)
Q Consensus       179 ~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~  258 (356)
                      .++.|.++.+.-..++. +..+++|+.|++.+|+++.      +|.  +.. ++|+.|+++++ ++..+ +  .+..+++
T Consensus        64 ~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N~l~~------l~~--~~~-~~L~~L~L~~N-~l~~~-~--~l~~l~~  129 (263)
T 1xeu_A           64 NLKELHLSHNQISDLSP-LKDLTKLEELSVNRNRLKN------LNG--IPS-ACLSRLFLDNN-ELRDT-D--SLIHLKN  129 (263)
T ss_dssp             TCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSCCSC------CTT--CCC-SSCCEEECCSS-CCSBS-G--GGTTCTT
T ss_pred             CCCEEECCCCccCCChh-hccCCCCCEEECCCCccCC------cCc--ccc-CcccEEEccCC-ccCCC-h--hhcCccc
Confidence            34455554443222332 5667777777777776665      232  212 67777777764 55555 3  3566777


Q ss_pred             CCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          259 LQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       259 L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      |+.|+++++. ++.+   .....      +++|++|+++++ .++.+ ..  ...+++|+.|++.+++
T Consensus       130 L~~L~Ls~N~-i~~~---~~l~~------l~~L~~L~L~~N-~i~~~-~~--l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          130 LEILSIRNNK-LKSI---VMLGF------LSKLEVLDLHGN-EITNT-GG--LTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             CCEEECTTSC-CCBC---GGGGG------CTTCCEEECTTS-CCCBC-TT--STTCCCCCEEEEEEEE
T ss_pred             ccEEECCCCc-CCCC---hHHcc------CCCCCEEECCCC-cCcch-HH--hccCCCCCEEeCCCCc
Confidence            7777777765 5444   12222      677777777765 55555 11  2566777777777654

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.75  E-value=5.1e-08  Score=84.23  Aligned_cols=130  Identities=18%  Similarity=0.203  Sum_probs=97.4

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ++|+.|++.+++++.+      +...+..+++|+.|+++++ ++..+ +...+..+++|+.|+++++. +..+. +....
T Consensus        40 ~~L~~L~Ls~n~i~~~------~~~~~~~l~~L~~L~L~~N-~l~~i-~~~~~~~l~~L~~L~Ls~N~-l~~l~-~~~~~  109 (229)
T 3e6j_A           40 TNAQILYLHDNQITKL------EPGVFDSLINLKELYLGSN-QLGAL-PVGVFDSLTQLTVLDLGTNQ-LTVLP-SAVFD  109 (229)
T ss_dssp             TTCSEEECCSSCCCCC------CTTTTTTCTTCCEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTTT
T ss_pred             CCCCEEEcCCCccCcc------CHHHhhCccCCcEEECCCC-CCCCc-ChhhcccCCCcCEEECCCCc-CCccC-hhHhC
Confidence            8999999999988873      2234778999999999884 67777 76777889999999999985 76653 22233


Q ss_pred             cCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccccc-cCCCCCCCCCCCCCC
Q 044144          281 EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADL-SQNNENDQLGIPAQQ  350 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~-~~~~~~~~~~~~~~~  350 (356)
                      .      +++|++|.+.++ +++.++...  ..+++|+.|++.++ +++.+|.+. ........+.+.+++
T Consensus       110 ~------l~~L~~L~Ls~N-~l~~lp~~~--~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          110 R------LVHLKELFMCCN-KLTELPRGI--ERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             T------CTTCCEEECCSS-CCCSCCTTG--GGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             c------chhhCeEeccCC-cccccCccc--ccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEeeCCC
Confidence            3      889999999887 788887665  78899999999986 688877542 222334445555444

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

Probab=98.75  E-value=7e-09  Score=83.16  Aligned_cols=111  Identities=14%  Similarity=0.169  Sum_probs=79.6

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|+.|++.+|+++.+  .      .+..+++|+.|+++++ .+....| ..+..+++|++|++++|. +..+..
T Consensus        37 ~~~~l~~L~~L~l~~n~l~~~--~------~~~~l~~L~~L~Ls~n-~i~~~~~-~~~~~l~~L~~L~ls~N~-i~~~~~  105 (149)
T 2je0_A           37 LTDEFEELEFLSTINVGLTSI--A------NLPKLNKLKKLELSDN-RVSGGLE-VLAEKCPNLTHLNLSGNK-IKDLST  105 (149)
T ss_dssp             CCTTCTTCCEEECTTSCCCCC--T------TCCCCTTCCEEECCSS-CCCSCTH-HHHHHCTTCCEEECTTSC-CCSHHH
T ss_pred             HHhhcCCCcEEECcCCCCCCc--h------hhhcCCCCCEEECCCC-cccchHH-HHhhhCCCCCEEECCCCc-CCChHH
Confidence            346689999999999988773  1      2667899999999885 5666424 566778999999999986 555422


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCC--CCcCCCCcccEEeecc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPG--MHTSEWPALEIFSVFR  324 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~--~~~~~~~~L~~L~i~~  324 (356)
                      ......      +++|++|+++++ .++.++..  .....+++|+.|++++
T Consensus       106 ~~~~~~------l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A          106 IEPLKK------LENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             HGGGGG------CTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             HHHHhh------CCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCCC
Confidence            233333      889999999988 67766551  1225678888887653

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

Probab=98.74  E-value=6.9e-08  Score=94.51  Aligned_cols=106  Identities=10%  Similarity=0.020  Sum_probs=55.5

Q ss_pred             CCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCC
Q 044144          200 LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA  279 (356)
Q Consensus       200 l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~  279 (356)
                      +++|+.|++.+|+++.      +|.    .+++|+.|+++++ .+..+ |.  +.  ++|+.|+++++. ++.+.  . .
T Consensus       139 l~~L~~L~Ls~N~l~~------lp~----~l~~L~~L~Ls~N-~L~~l-p~--l~--~~L~~L~Ls~N~-L~~lp--~-~  198 (571)
T 3cvr_A          139 PALLEYINADNNQLTM------LPE----LPTSLEVLSVRNN-QLTFL-PE--LP--ESLEALDVSTNL-LESLP--A-V  198 (571)
T ss_dssp             CTTCCEEECCSSCCSC------CCC----CCTTCCEEECCSS-CCSCC-CC--CC--TTCCEEECCSSC-CSSCC--C-C
T ss_pred             CccccEEeCCCCccCc------CCC----cCCCcCEEECCCC-CCCCc-ch--hh--CCCCEEECcCCC-CCchh--h-H
Confidence            4667777777766554      332    3466777777654 45554 43  22  667777777664 44331  1 2


Q ss_pred             CcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcc
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLK  329 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~  329 (356)
                      .. ......+.|+.|++.++ +++.++...  ..+++|+.|++.+++--.
T Consensus       199 ~~-~L~~~~~~L~~L~Ls~N-~l~~lp~~l--~~l~~L~~L~L~~N~l~~  244 (571)
T 3cvr_A          199 PV-RNHHSEETEIFFRCREN-RITHIPENI--LSLDPTCTIILEDNPLSS  244 (571)
T ss_dssp             C---------CCEEEECCSS-CCCCCCGGG--GGSCTTEEEECCSSSCCH
T ss_pred             HH-hhhcccccceEEecCCC-cceecCHHH--hcCCCCCEEEeeCCcCCC
Confidence            11 00000112267777665 566665543  346677777777765433

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.72  E-value=3e-10  Score=111.49  Aligned_cols=106  Identities=20%  Similarity=0.135  Sum_probs=67.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++++|+++.      +|. .+..+++|+.|++++ +.++.+ |  .++.+++|+.|+++++. +..+..+
T Consensus       459 ~~~l~~L~~L~Ls~N~l~~------lp~-~~~~l~~L~~L~Ls~-N~l~~l-p--~l~~l~~L~~L~Ls~N~-l~~~~~p  526 (567)
T 1dce_A          459 LEQLLLVTHLDLSHNRLRA------LPP-ALAALRCLEVLQASD-NALENV-D--GVANLPRLQELLLCNNR-LQQSAAI  526 (567)
T ss_dssp             GGGGTTCCEEECCSSCCCC------CCG-GGGGCTTCCEEECCS-SCCCCC-G--GGTTCSSCCEEECCSSC-CCSSSTT
T ss_pred             ccccccCcEeecCcccccc------cch-hhhcCCCCCEEECCC-CCCCCC-c--ccCCCCCCcEEECCCCC-CCCCCCc
Confidence            4567788888888887765      443 356778888888876 466666 5  46677888888888765 5444212


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCC--CcCCCCcccEEe
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM--HTSEWPALEIFS  321 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~--~~~~~~~L~~L~  321 (356)
                      .....      +++|+.|++.++ .++..+...  ....+|+|+.|+
T Consensus       527 ~~l~~------l~~L~~L~L~~N-~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          527 QPLVS------CPRLVLLNLQGN-SLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             GGGGG------CTTCCEEECTTS-GGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             HHHhc------CCCCCEEEecCC-cCCCCccHHHHHHHHCcccCccC
Confidence            33333      778888888776 465554432  112356666664

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

Probab=98.72  E-value=4.1e-08  Score=90.81  Aligned_cols=158  Identities=18%  Similarity=0.213  Sum_probs=96.5

Q ss_pred             CcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccc
Q 044144           57 FPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEK  136 (356)
Q Consensus        57 ~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~  136 (356)
                      .+.++.|++++ .+++.++...+. ..+++|+.|+++++ ++..++.                              ..+
T Consensus        38 ~~~l~~L~Ls~-N~l~~l~~~~~~-~~l~~L~~L~L~~N-~i~~i~~------------------------------~~~   84 (361)
T 2xot_A           38 PSYTALLDLSH-NNLSRLRAEWTP-TRLTNLHSLLLSHN-HLNFISS------------------------------EAF   84 (361)
T ss_dssp             CTTCSEEECCS-SCCCEECTTSSS-SCCTTCCEEECCSS-CCCEECT------------------------------TTT
T ss_pred             CCCCCEEECCC-CCCCccChhhhh-hcccccCEEECCCC-cCCccCh------------------------------hhc
Confidence            35677888887 456666443321 14677888887765 2222210                              012


Q ss_pred             cccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEE
Q 044144          137 IELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKI  216 (356)
Q Consensus       137 ~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~  216 (356)
                      ..+++|+.|++++.. ++.++..                                    .+..+++|+.|++.+|+++.+
T Consensus        85 ~~l~~L~~L~Ls~N~-l~~~~~~------------------------------------~~~~l~~L~~L~L~~N~i~~~  127 (361)
T 2xot_A           85 VPVPNLRYLDLSSNH-LHTLDEF------------------------------------LFSDLQALEVLLLYNNHIVVV  127 (361)
T ss_dssp             TTCTTCCEEECCSSC-CCEECTT------------------------------------TTTTCTTCCEEECCSSCCCEE
T ss_pred             cCCCCCCEEECCCCc-CCcCCHH------------------------------------HhCCCcCCCEEECCCCcccEE
Confidence            345778888887743 4433321                                    234578999999999988874


Q ss_pred             cccCCCCCCCCCCCcCccEEeeccCcCccccchhhhh---hhcCCCCeEEEecCcccceeeccCCCCcCcccccCCc--c
Q 044144          217 WHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMI---GSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQ--L  291 (356)
Q Consensus       217 ~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~---~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~--L  291 (356)
                            +...+..+++|+.|++++ +++..+ +...+   ..+++|+.|+++++. ++.+. .+....      ++.  +
T Consensus       128 ------~~~~~~~l~~L~~L~L~~-N~l~~l-~~~~~~~~~~l~~L~~L~L~~N~-l~~l~-~~~~~~------l~~~~l  191 (361)
T 2xot_A          128 ------DRNAFEDMAQLQKLYLSQ-NQISRF-PVELIKDGNKLPKLMLLDLSSNK-LKKLP-LTDLQK------LPAWVK  191 (361)
T ss_dssp             ------CTTTTTTCTTCCEEECCS-SCCCSC-CGGGTC----CTTCCEEECCSSC-CCCCC-HHHHHH------SCHHHH
T ss_pred             ------CHHHhCCcccCCEEECCC-CcCCee-CHHHhcCcccCCcCCEEECCCCC-CCccC-HHHhhh------ccHhhc
Confidence                  222467889999999987 477777 65555   568899999999875 55442 111221      444  4


Q ss_pred             Ceeeccccc
Q 044144          292 TTLILQYLP  300 (356)
Q Consensus       292 ~~L~l~~c~  300 (356)
                      +.|++.++|
T Consensus       192 ~~l~l~~N~  200 (361)
T 2xot_A          192 NGLYLHNNP  200 (361)
T ss_dssp             TTEECCSSC
T ss_pred             ceEEecCCC
Confidence            778887753

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

Probab=98.66  E-value=1e-07  Score=88.14  Aligned_cols=116  Identities=22%  Similarity=0.255  Sum_probs=68.7

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCC
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENR  278 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~  278 (356)
                      .+++|+.|++.+++++.+      +...|..+++|+.|++++ ++++.+ +...+..+++|+.|+++++. +..+. +..
T Consensus        62 ~l~~L~~L~L~~N~i~~i------~~~~~~~l~~L~~L~Ls~-N~l~~~-~~~~~~~l~~L~~L~L~~N~-i~~~~-~~~  131 (361)
T 2xot_A           62 RLTNLHSLLLSHNHLNFI------SSEAFVPVPNLRYLDLSS-NHLHTL-DEFLFSDLQALEVLLLYNNH-IVVVD-RNA  131 (361)
T ss_dssp             CCTTCCEEECCSSCCCEE------CTTTTTTCTTCCEEECCS-SCCCEE-CTTTTTTCTTCCEEECCSSC-CCEEC-TTT
T ss_pred             cccccCEEECCCCcCCcc------ChhhccCCCCCCEEECCC-CcCCcC-CHHHhCCCcCCCEEECCCCc-ccEEC-HHH
Confidence            456777777777766663      222355667777777766 356666 54556667777777777765 54442 223


Q ss_pred             CCcCcccccCCccCeeeccccccceeecCCCCc--CCCCcccEEeeccCcCccccc
Q 044144          279 ADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHT--SEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       279 ~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~--~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      ...      +++|++|++.++ +++.++.....  ..+++|+.|++.++ +++.+|
T Consensus       132 ~~~------l~~L~~L~L~~N-~l~~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~  179 (361)
T 2xot_A          132 FED------MAQLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSSN-KLKKLP  179 (361)
T ss_dssp             TTT------CTTCCEEECCSS-CCCSCCGGGTC----CTTCCEEECCSS-CCCCCC
T ss_pred             hCC------cccCCEEECCCC-cCCeeCHHHhcCcccCCcCCEEECCCC-CCCccC
Confidence            333      667777777665 56665543211  24667777777764 355555

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

Probab=98.65  E-value=3.9e-08  Score=81.20  Aligned_cols=110  Identities=18%  Similarity=0.217  Sum_probs=79.2

Q ss_pred             CCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCC
Q 044144          200 LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA  279 (356)
Q Consensus       200 l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~  279 (356)
                      .++|+.|++++|+++.+  .      .+..+++|+.|+++++ .+..+ +...+..+++|+.|+++++. +..+......
T Consensus        41 ~~~L~~L~Ls~N~l~~~--~------~l~~l~~L~~L~Ls~N-~l~~~-~~~~~~~l~~L~~L~L~~N~-i~~~~~~~~l  109 (176)
T 1a9n_A           41 LDQFDAIDFSDNEIRKL--D------GFPLLRRLKTLLVNNN-RICRI-GEGLDQALPDLTELILTNNS-LVELGDLDPL  109 (176)
T ss_dssp             TTCCSEEECCSSCCCEE--C------CCCCCSSCCEEECCSS-CCCEE-CSCHHHHCTTCCEEECCSCC-CCCGGGGGGG
T ss_pred             CCCCCEEECCCCCCCcc--c------ccccCCCCCEEECCCC-ccccc-CcchhhcCCCCCEEECCCCc-CCcchhhHhh
Confidence            35999999999988874  1      2667899999999874 67777 66667889999999999986 5554211123


Q ss_pred             CcCcccccCCccCeeeccccccceeecCC--CCcCCCCcccEEeeccCcC
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPG--MHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~--~~~~~~~~L~~L~i~~C~~  327 (356)
                      ..      +++|++|++.+++ +..++..  .....+++|+.|++.+++.
T Consensus       110 ~~------l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A          110 AS------LKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             GG------CTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEECCH
T ss_pred             hc------CCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcCCH
Confidence            33      8899999998874 5555442  0125678889888887764

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

Probab=98.65  E-value=1.4e-07  Score=92.26  Aligned_cols=57  Identities=16%  Similarity=0.122  Sum_probs=34.0

Q ss_pred             CCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccC
Q 044144           30 QLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIF  102 (356)
Q Consensus        30 ~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~  102 (356)
                      +|+.|+++++ +++.+.     ..  .+++|++|+++++ .++.+|      ..+++|+.|+++++ ++..++
T Consensus        60 ~L~~L~Ls~n-~L~~lp-----~~--l~~~L~~L~Ls~N-~l~~ip------~~l~~L~~L~Ls~N-~l~~ip  116 (571)
T 3cvr_A           60 QFSELQLNRL-NLSSLP-----DN--LPPQITVLEITQN-ALISLP------ELPASLEYLDACDN-RLSTLP  116 (571)
T ss_dssp             TCSEEECCSS-CCSCCC-----SC--CCTTCSEEECCSS-CCSCCC------CCCTTCCEEECCSS-CCSCCC
T ss_pred             CccEEEeCCC-CCCccC-----Hh--HcCCCCEEECcCC-CCcccc------cccCCCCEEEccCC-CCCCcc
Confidence            7777777776 455431     11  1367777777774 455554      23677777777776 444444

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.62  E-value=3.4e-07  Score=78.46  Aligned_cols=130  Identities=15%  Similarity=0.270  Sum_probs=94.6

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ++|+.|++.+++++.+      +...+..+++|+.|+++++ ++..+ ....+..+++|+.|+++++. ++.+. +....
T Consensus        32 ~~l~~L~l~~n~i~~i------~~~~~~~l~~L~~L~Ls~N-~i~~~-~~~~~~~l~~L~~L~Ls~N~-l~~l~-~~~f~  101 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVI------PPGAFSPYKKLRRIDLSNN-QISEL-APDAFQGLRSLNSLVLYGNK-ITELP-KSLFE  101 (220)
T ss_dssp             TTCCEEECCSSCCCEE------CTTSSTTCTTCCEEECCSS-CCCEE-CTTTTTTCSSCCEEECCSSC-CCCCC-TTTTT
T ss_pred             cCCCEEECCCCcCCCc------CHhHhhCCCCCCEEECCCC-cCCCc-CHHHhhCCcCCCEEECCCCc-CCccC-HhHcc
Confidence            6899999999988884      3334778999999999884 67777 55677889999999999986 66552 22233


Q ss_pred             cCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccccc-CCCCCCCCCCCCC
Q 044144          281 EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAADLS-QNNENDQLGIPAQ  349 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~~~-~~~~~~~~~~~~~  349 (356)
                      .      +++|++|++.++ +++.++... +..+++|+.|++.++. ++.++.+.. .......+.+.++
T Consensus       102 ~------l~~L~~L~L~~N-~l~~~~~~~-~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N  162 (220)
T 2v9t_B          102 G------LFSLQLLLLNAN-KINCLRVDA-FQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQN  162 (220)
T ss_dssp             T------CTTCCEEECCSS-CCCCCCTTT-TTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             C------CCCCCEEECCCC-CCCEeCHHH-cCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCC
Confidence            3      889999999887 777776543 2678999999999864 777765422 2222334444444

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.60  E-value=6.5e-07  Score=81.51  Aligned_cols=81  Identities=10%  Similarity=0.000  Sum_probs=59.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCcc-EEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLT-RLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~-~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      ...+++|+.+.+.++ ++.+      +...|..+++|+ .+.+.+  +++.+ +...+.+|++|+.+++.+.. ++.+. 
T Consensus       246 F~~~~~L~~l~l~~n-i~~I------~~~aF~~~~~L~~~l~l~~--~l~~I-~~~aF~~c~~L~~l~l~~n~-i~~I~-  313 (329)
T 3sb4_A          246 FAQKKYLLKIKLPHN-LKTI------GQRVFSNCGRLAGTLELPA--SVTAI-EFGAFMGCDNLRYVLATGDK-ITTLG-  313 (329)
T ss_dssp             TTTCTTCCEEECCTT-CCEE------CTTTTTTCTTCCEEEEECT--TCCEE-CTTTTTTCTTEEEEEECSSC-CCEEC-
T ss_pred             hhCCCCCCEEECCcc-ccee------hHHHhhCChhccEEEEEcc--cceEE-chhhhhCCccCCEEEeCCCc-cCccc-
Confidence            356789999999886 6663      333588899999 999976  78888 77888999999999987654 66662 


Q ss_pred             cCCCCcCcccccCCccCeee
Q 044144          276 ENRADEVIPYFVFPQLTTLI  295 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~  295 (356)
                      .....+      +++|+.++
T Consensus       314 ~~aF~~------~~~L~~ly  327 (329)
T 3sb4_A          314 DELFGN------GVPSKLIY  327 (329)
T ss_dssp             TTTTCT------TCCCCEEE
T ss_pred             hhhhcC------Ccchhhhc
Confidence            233333      56666665

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.60  E-value=1.6e-09  Score=100.41  Aligned_cols=229  Identities=13%  Similarity=0.006  Sum_probs=127.1

Q ss_pred             cCCCcEEEEecCCCceEeecCCcccccccCc-ccceeeccccccccccccccccc---cCCCCccEEEEccCCCccccCc
Q 044144           28 FSQLKLLWVQNNPDFFCIVDSRAMVACDAFP-LLESLILHNLINMERIWIDQLKV---ESFNELKIIQAYNCDKLSNIFW  103 (356)
Q Consensus        28 l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~-~L~~L~l~~~~~l~~l~~~~~~~---~~l~~L~~L~l~~c~~l~~~~~  103 (356)
                      .++|++|++++| .++..........+..++ +|++|+++++ .+.......+..   ..+++|++|++++|. +.....
T Consensus        21 ~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~   97 (362)
T 3goz_A           21 PHGVTSLDLSLN-NLYSISTVELIQAFANTPASVTSLNLSGN-SLGFKNSDELVQILAAIPANVTSLNLSGNF-LSYKSS   97 (362)
T ss_dssp             CTTCCEEECTTS-CGGGSCHHHHHHHHHTCCTTCCEEECCSS-CGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCH
T ss_pred             CCCceEEEccCC-CCChHHHHHHHHHHHhCCCceeEEECcCC-CCCHHHHHHHHHHHhccCCCccEEECcCCc-CChHHH
Confidence            445999999988 465331000002345566 8999999886 454432211110   113889999998874 332221


Q ss_pred             hhhhhccccccccccchhhhhcccccccCccccccc-ccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccccccc
Q 044144          104 LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIEL-AQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSS  182 (356)
Q Consensus       104 l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  182 (356)
                      -... +.                         +..+ ++|++|+++++. ++....                        
T Consensus        98 ~~l~-~~-------------------------l~~~~~~L~~L~Ls~N~-l~~~~~------------------------  126 (362)
T 3goz_A           98 DELV-KT-------------------------LAAIPFTITVLDLGWND-FSSKSS------------------------  126 (362)
T ss_dssp             HHHH-HH-------------------------HHTSCTTCCEEECCSSC-GGGSCH------------------------
T ss_pred             HHHH-HH-------------------------HHhCCCCccEEECcCCc-CCcHHH------------------------
Confidence            1100 00                         1123 688999998864 322111                        


Q ss_pred             ceeecCCcccccccccc-CCCcCeEEecceeeeEEcccCCCCCCCCCCCc-CccEEeeccCcCccccchh---hhhhhc-
Q 044144          183 SEITLDTSTLLFNEKVA-LPNLEALEISAINVDKIWHYNQIPAAVFPRFQ-NLTRLIVWHCNKLKYIFSA---SMIGSL-  256 (356)
Q Consensus       183 l~i~~~~~~~l~~~~~~-l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~-~L~~L~i~~c~~l~~l~~~---~~~~~l-  256 (356)
                              ..+...+.. .++|++|++.+|++++..... ++. .+..++ +|++|++++| .+....+.   ..+..+ 
T Consensus       127 --------~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~-l~~-~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~  195 (362)
T 3goz_A          127 --------SEFKQAFSNLPASITSLNLRGNDLGIKSSDE-LIQ-ILAAIPANVNSLNLRGN-NLASKNCAELAKFLASIP  195 (362)
T ss_dssp             --------HHHHHHHTTSCTTCCEEECTTSCGGGSCHHH-HHH-HHHTSCTTCCEEECTTS-CGGGSCHHHHHHHHHTSC
T ss_pred             --------HHHHHHHHhCCCceeEEEccCCcCCHHHHHH-HHH-HHhcCCccccEeeecCC-CCchhhHHHHHHHHHhCC
Confidence                    001222233 359999999999777421111 111 122334 8999999986 56665232   233345 


Q ss_pred             CCCCeEEEecCcccceeeccCCCCcCccccc-CCccCeeeccccccceeecCC---CCcCCCCcccEEeeccCc
Q 044144          257 KHLQHLEVRFCEDLQEIISENRADEVIPYFV-FPQLTTLILQYLPKLRCLYPG---MHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       257 ~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~-l~~L~~L~l~~c~~L~~~~~~---~~~~~~~~L~~L~i~~C~  326 (356)
                      ++|++|++++|. +..... ....  ..... .++|++|++.++ .++..+..   .....+++|+.|++.+|.
T Consensus       196 ~~L~~L~Ls~N~-i~~~~~-~~l~--~~l~~~~~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n~  264 (362)
T 3goz_A          196 ASVTSLDLSANL-LGLKSY-AELA--YIFSSIPNHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYDI  264 (362)
T ss_dssp             TTCCEEECTTSC-GGGSCH-HHHH--HHHHHSCTTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHHH
T ss_pred             CCCCEEECCCCC-CChhHH-HHHH--HHHhcCCCCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccCC
Confidence            599999999987 433100 0000  00111 258999999987 56654331   112567899999999986

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

Probab=98.59  E-value=2.9e-07  Score=75.85  Aligned_cols=110  Identities=19%  Similarity=0.284  Sum_probs=78.7

Q ss_pred             CCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCC
Q 044144          200 LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA  279 (356)
Q Consensus       200 l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~  279 (356)
                      +++|+.|.+.+++++.      ++...+..+++|++|+++++ ++..+ +...+..+++|+.|+++++. +..+. +...
T Consensus        27 ~~~l~~L~l~~n~l~~------~~~~~~~~l~~L~~L~l~~n-~l~~~-~~~~~~~l~~L~~L~l~~N~-l~~~~-~~~~   96 (177)
T 2o6r_A           27 PSSATRLELESNKLQS------LPHGVFDKLTQLTKLSLSQN-QIQSL-PDGVFDKLTKLTILYLHENK-LQSLP-NGVF   96 (177)
T ss_dssp             CTTCSEEECCSSCCCC------CCTTTTTTCTTCSEEECCSS-CCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTT
T ss_pred             CCCCcEEEeCCCcccE------eCHHHhcCcccccEEECCCC-cceEe-ChhHccCCCccCEEECCCCC-ccccC-HHHh
Confidence            3688889998887766      33334667888999998774 67776 65666788899999998875 65542 2222


Q ss_pred             CcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                      ..      +++|++|++.++ +++.++... +..+++|++|++.+++-
T Consensus        97 ~~------l~~L~~L~l~~N-~l~~~~~~~-~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           97 DK------LTQLKELALDTN-QLKSVPDGI-FDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             TT------CTTCCEEECCSS-CCSCCCTTT-TTTCTTCCEEECCSSCB
T ss_pred             hC------CcccCEEECcCC-cceEeCHHH-hcCCcccCEEEecCCCe
Confidence            33      778999999877 777776643 25678889998888763

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

Probab=98.59  E-value=2.9e-07  Score=77.07  Aligned_cols=87  Identities=24%  Similarity=0.334  Sum_probs=37.1

Q ss_pred             CCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeec
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLY  306 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~  306 (356)
                      +..+++|++|++++ ++++.+ +...+..+++|++|+++++. +..+. +.....      +++|++|+++++ +++.+.
T Consensus        50 ~~~l~~L~~L~Ls~-N~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~~~-~~~~~~------l~~L~~L~L~~N-~l~~~~  118 (192)
T 1w8a_A           50 FGRLPHLVKLELKR-NQLTGI-EPNAFEGASHIQELQLGENK-IKEIS-NKMFLG------LHQLKTLNLYDN-QISCVM  118 (192)
T ss_dssp             GGGCTTCCEEECCS-SCCCCB-CTTTTTTCTTCCEEECCSCC-CCEEC-SSSSTT------CTTCCEEECCSS-CCCEEC
T ss_pred             cccCCCCCEEECCC-CCCCCc-CHhHcCCcccCCEEECCCCc-CCccC-HHHhcC------CCCCCEEECCCC-cCCeeC
Confidence            33445555555544 234444 22334444555555555543 33332 111222      445555555444 344332


Q ss_pred             CCCCcCCCCcccEEeeccC
Q 044144          307 PGMHTSEWPALEIFSVFRC  325 (356)
Q Consensus       307 ~~~~~~~~~~L~~L~i~~C  325 (356)
                      .... ..+++|+.|++.++
T Consensus       119 ~~~~-~~l~~L~~L~L~~N  136 (192)
T 1w8a_A          119 PGSF-EHLNSLTSLNLASN  136 (192)
T ss_dssp             TTSS-TTCTTCCEEECTTC
T ss_pred             HHHh-hcCCCCCEEEeCCC
Confidence            2211 34445555555444

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

Probab=98.57  E-value=1.1e-07  Score=77.81  Aligned_cols=117  Identities=21%  Similarity=0.157  Sum_probs=79.8

Q ss_pred             cccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhh
Q 044144          176 STTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGS  255 (356)
Q Consensus       176 ~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~  255 (356)
                      .+..++.|.++.+.-... ..+..+++|+.|++.+|+++..     +|. .+..+++|+.|+++++ .++.+.....+..
T Consensus        47 ~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~-----~~~-~~~~l~~L~~L~Ls~N-~l~~~~~~~~l~~  118 (168)
T 2ell_A           47 EFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGG-----LDM-LAEKLPNLTHLNLSGN-KLKDISTLEPLKK  118 (168)
T ss_dssp             GGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSC-----CCH-HHHHCTTCCEEECBSS-SCCSSGGGGGGSS
T ss_pred             hCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchH-----HHH-HHhhCCCCCEEeccCC-ccCcchhHHHHhc
Confidence            445577777776664333 5667789999999999977762     222 2445899999999886 6777622256778


Q ss_pred             cCCCCeEEEecCcccceeec--cCCCCcCcccccCCccCeeeccccccceeecCC
Q 044144          256 LKHLQHLEVRFCEDLQEIIS--ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPG  308 (356)
Q Consensus       256 l~~L~~L~i~~c~~l~~i~~--~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~  308 (356)
                      +++|+.|++++|+ +..+..  .....      .+++|++|++.+| .++.++..
T Consensus       119 l~~L~~L~l~~N~-l~~~~~~~~~~~~------~l~~L~~L~l~~n-~~~~~~~~  165 (168)
T 2ell_A          119 LECLKSLDLFNCE-VTNLNDYRESVFK------LLPQLTYLDGYDR-EDQEAPDS  165 (168)
T ss_dssp             CSCCCEEECCSSG-GGTSTTHHHHHHT------TCSSCCEETTEET-TSCBCCSS
T ss_pred             CCCCCEEEeeCCc-CcchHHHHHHHHH------hCccCcEecCCCC-Chhhcccc
Confidence            8999999999986 544421  01222      3889999999888 45555443

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

Probab=98.53  E-value=3.8e-07  Score=76.53  Aligned_cols=80  Identities=20%  Similarity=0.254  Sum_probs=34.2

Q ss_pred             cccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCC
Q 044144          180 YSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHL  259 (356)
Q Consensus       180 l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L  259 (356)
                      ++.|.++++.-..++..+..+++|+.|++++++++.      ++...|..+++|++|++++ ++++.+ +...+..+++|
T Consensus        33 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           33 VTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRIST------LSNQSFSNMTQLLTLILSY-NRLRCI-PPRTFDGLKSL  104 (193)
T ss_dssp             CCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCC------CCTTTTTTCTTCCEEECCS-SCCCBC-CTTTTTTCTTC
T ss_pred             CCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCE------eCHhHccCCCCCCEEECCC-CccCEe-CHHHhCCCCCC
Confidence            444444443333333344444445555554444443      2222234444455555444 234444 33334444445


Q ss_pred             CeEEEecC
Q 044144          260 QHLEVRFC  267 (356)
Q Consensus       260 ~~L~i~~c  267 (356)
                      +.|+++++
T Consensus       105 ~~L~L~~N  112 (193)
T 2wfh_A          105 RLLSLHGN  112 (193)
T ss_dssp             CEEECCSS
T ss_pred             CEEECCCC
Confidence            55555443

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

Probab=98.47  E-value=2.4e-07  Score=74.09  Aligned_cols=37  Identities=19%  Similarity=0.426  Sum_probs=18.1

Q ss_pred             CCCCcCccEEeeccCcCccccchh---hhhhhcCCCCeEEEe
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSA---SMIGSLKHLQHLEVR  265 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~---~~~~~l~~L~~L~i~  265 (356)
                      +..+++|+.|+++++ .+... +.   ..+..+++|+.|+++
T Consensus       109 ~~~l~~L~~L~l~~N-~l~~~-~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A          109 LKKLENLKSLDLFNC-EVTNL-NDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             GGGCTTCCEEECTTC-GGGGS-TTHHHHHHHHCTTCCEETTB
T ss_pred             HhhCCCCCEEeCcCC-cccch-HHHHHHHHHHCCCcccccCC
Confidence            334555555555553 34443 22   344555555555543

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

Probab=98.44  E-value=6.3e-07  Score=75.18  Aligned_cols=107  Identities=16%  Similarity=0.233  Sum_probs=71.7

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ++|+.|++.+++++.      +|. .+..+++|+.|++++ +.++.+ +...+..+++|++|+++++. +..+. +....
T Consensus        31 ~~l~~L~L~~n~i~~------ip~-~~~~l~~L~~L~Ls~-N~i~~i-~~~~f~~l~~L~~L~Ls~N~-l~~i~-~~~f~   99 (193)
T 2wfh_A           31 RDVTELYLDGNQFTL------VPK-ELSNYKHLTLIDLSN-NRISTL-SNQSFSNMTQLLTLILSYNR-LRCIP-PRTFD   99 (193)
T ss_dssp             TTCCEEECCSSCCCS------CCG-GGGGCTTCCEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CCBCC-TTTTT
T ss_pred             CCCCEEECCCCcCch------hHH-HhhcccCCCEEECCC-CcCCEe-CHhHccCCCCCCEEECCCCc-cCEeC-HHHhC
Confidence            578888888876665      332 366778888888876 466666 55666777888888888765 55552 22333


Q ss_pred             cCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          281 EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .      +++|++|+++++ +++.++.... ..+++|+.|++.+.+
T Consensus       100 ~------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A          100 G------LKSLRLLSLHGN-DISVVPEGAF-NDLSALSHLAIGANP  137 (193)
T ss_dssp             T------CTTCCEEECCSS-CCCBCCTTTT-TTCTTCCEEECCSSC
T ss_pred             C------CCCCCEEECCCC-CCCeeChhhh-hcCccccEEEeCCCC
Confidence            3      678888888775 6666665432 467778888777654

>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=98.44  E-value=9.3e-08  Score=78.50  Aligned_cols=89  Identities=15%  Similarity=0.240  Sum_probs=43.4

Q ss_pred             CcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhh----cCCCCeEEEecCcccceeeccC
Q 044144          202 NLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGS----LKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       202 ~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~----l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      .|+.|++++|.+++.....      +..+++|++|++++|..+++. ....+..    +++|++|++++|++++.-.. .
T Consensus        62 ~L~~LDLs~~~Itd~GL~~------L~~~~~L~~L~L~~C~~ItD~-gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl-~  133 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDH------MEGLQYVEKIRLCKCHYIEDG-CLERLSQLENLQKSMLEMEIISCGNVTDKGI-I  133 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGG------GTTCSCCCEEEEESCTTCCHH-HHHHHHTCHHHHHHCCEEEEESCTTCCHHHH-H
T ss_pred             eEeEEeCcCCCccHHHHHH------hcCCCCCCEEEeCCCCccCHH-HHHHHHhcccccCCCCEEEcCCCCcCCHHHH-H
Confidence            4666666665544421111      335566666666666666655 2222222    23566666666665533210 1


Q ss_pred             CCCcCcccccCCccCeeecccccccee
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRC  304 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~  304 (356)
                      ...      .+++|++|++++|+++++
T Consensus       134 ~L~------~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          134 ALH------HFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HGG------GCTTCCEEEEESCTTCCC
T ss_pred             HHh------cCCCCCEEECCCCCCCCc
Confidence            111      155666666666665555

>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=98.44  E-value=4.5e-08  Score=80.35  Aligned_cols=94  Identities=6%  Similarity=-0.005  Sum_probs=70.7

Q ss_pred             cCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCccc-ccCCccCeeeccccccceeecCCC
Q 044144          231 QNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPY-FVFPQLTTLILQYLPKLRCLYPGM  309 (356)
Q Consensus       231 ~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~-~~l~~L~~L~l~~c~~L~~~~~~~  309 (356)
                      .+|+.|++++|. +++. ....+..+++|++|++++|..++.-.. .....   . ...++|++|+|++|+++++-....
T Consensus        61 ~~L~~LDLs~~~-Itd~-GL~~L~~~~~L~~L~L~~C~~ItD~gL-~~L~~---~~~~~~~L~~L~Ls~C~~ITD~Gl~~  134 (176)
T 3e4g_A           61 YKIQAIDATDSC-IMSI-GFDHMEGLQYVEKIRLCKCHYIEDGCL-ERLSQ---LENLQKSMLEMEIISCGNVTDKGIIA  134 (176)
T ss_dssp             CCEEEEEEESCC-CCGG-GGGGGTTCSCCCEEEEESCTTCCHHHH-HHHHT---CHHHHHHCCEEEEESCTTCCHHHHHH
T ss_pred             ceEeEEeCcCCC-ccHH-HHHHhcCCCCCCEEEeCCCCccCHHHH-HHHHh---cccccCCCCEEEcCCCCcCCHHHHHH
Confidence            479999999997 8777 445567899999999999997743210 00111   0 012479999999999999976654


Q ss_pred             CcCCCCcccEEeeccCcCcccc
Q 044144          310 HTSEWPALEIFSVFRCDKLKIF  331 (356)
Q Consensus       310 ~~~~~~~L~~L~i~~C~~l~~l  331 (356)
                      . ..+++|++|++++|++++..
T Consensus       135 L-~~~~~L~~L~L~~c~~Itd~  155 (176)
T 3e4g_A          135 L-HHFRNLKYLFLSDLPGVKEK  155 (176)
T ss_dssp             G-GGCTTCCEEEEESCTTCCCH
T ss_pred             H-hcCCCCCEEECCCCCCCCch
Confidence            4 46899999999999998763

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.40  E-value=5.1e-05  Score=70.95  Aligned_cols=220  Identities=11%  Similarity=0.139  Sum_probs=104.3

Q ss_pred             ccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc-
Q 044144           25 TEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW-  103 (356)
Q Consensus        25 ~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~-  103 (356)
                      +.++ +|+.+.+...  ++.+...    +... .+|+++.+.+  +++.++.+.+  ..+++|+.+++.+. +++.++. 
T Consensus       132 F~~~-~L~~i~l~~~--i~~I~~~----aF~~-~~L~~i~lp~--~l~~I~~~aF--~~c~~L~~l~l~~n-~l~~I~~~  198 (401)
T 4fdw_A          132 FRNS-QIAKVVLNEG--LKSIGDM----AFFN-STVQEIVFPS--TLEQLKEDIF--YYCYNLKKADLSKT-KITKLPAS  198 (401)
T ss_dssp             TTTC-CCSEEECCTT--CCEECTT----TTTT-CCCCEEECCT--TCCEECSSTT--TTCTTCCEEECTTS-CCSEECTT
T ss_pred             cccC-CccEEEeCCC--ccEECHH----hcCC-CCceEEEeCC--CccEehHHHh--hCcccCCeeecCCC-cceEechh
Confidence            3344 6888888653  7777222    1122 4688888875  5666644332  34678888888653 3343321 


Q ss_pred             ---hhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCcccccccc
Q 044144          104 ---LSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTY  180 (356)
Q Consensus       104 ---l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l  180 (356)
                         ...+ +.+ .+.  .+++.+.        ...+..+++|+++.+.+  +++.+....+..              ..+
T Consensus       199 aF~~~~L-~~l-~lp--~~l~~I~--------~~aF~~~~~L~~l~l~~--~l~~I~~~aF~~--------------~~L  250 (401)
T 4fdw_A          199 TFVYAGI-EEV-LLP--VTLKEIG--------SQAFLKTSQLKTIEIPE--NVSTIGQEAFRE--------------SGI  250 (401)
T ss_dssp             TTTTCCC-SEE-ECC--TTCCEEC--------TTTTTTCTTCCCEECCT--TCCEECTTTTTT--------------CCC
T ss_pred             hEeeccc-CEE-EeC--Cchheeh--------hhHhhCCCCCCEEecCC--CccCcccccccc--------------CCc
Confidence               1111 211 111  1122222        12344566777777754  455554444322              124


Q ss_pred             ccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCC
Q 044144          181 SSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQ  260 (356)
Q Consensus       181 ~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~  260 (356)
                      +.+.+...-..........+++|+.+.+.++.+..-.. ..++...|..+++|+.+.+.  ++++.+ +...+.+|++|+
T Consensus       251 ~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~-~~I~~~aF~~c~~L~~l~l~--~~i~~I-~~~aF~~c~~L~  326 (401)
T 4fdw_A          251 TTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDDPE-AMIHPYCLEGCPKLARFEIP--ESIRIL-GQGLLGGNRKVT  326 (401)
T ss_dssp             SEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCCTT-CEECTTTTTTCTTCCEECCC--TTCCEE-CTTTTTTCCSCC
T ss_pred             cEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCCcc-cEECHHHhhCCccCCeEEeC--CceEEE-hhhhhcCCCCcc
Confidence            44444222111112233455666666665542220000 00222235566666666664  245555 555566666666


Q ss_pred             eEEEecCcccceeeccCCCCcCcccccCCccCeeecccc
Q 044144          261 HLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       261 ~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      .+.+.+.  ++.+ .......      + +|+.+.+.+.
T Consensus       327 ~l~lp~~--l~~I-~~~aF~~------~-~L~~l~l~~n  355 (401)
T 4fdw_A          327 QLTIPAN--VTQI-NFSAFNN------T-GIKEVKVEGT  355 (401)
T ss_dssp             EEEECTT--CCEE-CTTSSSS------S-CCCEEEECCS
T ss_pred             EEEECcc--ccEE-cHHhCCC------C-CCCEEEEcCC
Confidence            6666432  4444 1222232      4 5666666543

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

Probab=98.37  E-value=5.6e-07  Score=74.15  Aligned_cols=108  Identities=18%  Similarity=0.190  Sum_probs=74.9

Q ss_pred             ccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchh-hhhhhcC
Q 044144          179 TYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSA-SMIGSLK  257 (356)
Q Consensus       179 ~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~-~~~~~l~  257 (356)
                      .++.++++.+.-..+ ..+..+++|+.|++.+|+++.+      |...+..+++|+.|+++++ .+..+ +. ..+..++
T Consensus        43 ~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~------~~~~~~~l~~L~~L~L~~N-~i~~~-~~~~~l~~l~  113 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRI------GEGLDQALPDLTELILTNN-SLVEL-GDLDPLASLK  113 (176)
T ss_dssp             CCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEE------CSCHHHHCTTCCEEECCSC-CCCCG-GGGGGGGGCT
T ss_pred             CCCEEECCCCCCCcc-cccccCCCCCEEECCCCccccc------CcchhhcCCCCCEEECCCC-cCCcc-hhhHhhhcCC
Confidence            466666666653333 5667789999999999988873      3323467899999999875 66776 53 4677899


Q ss_pred             CCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          258 HLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       258 ~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      +|+.|++++++ +..+.  ..  .......+++|+.|++.++.
T Consensus       114 ~L~~L~l~~N~-i~~~~--~~--~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A          114 SLTYLCILRNP-VTNKK--HY--RLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             TCCEEECCSSG-GGGST--TH--HHHHHHHCTTCSEETTEECC
T ss_pred             CCCEEEecCCC-CCCcH--hH--HHHHHHHCCccceeCCCcCC
Confidence            99999999987 44331  11  00012237899999998764

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

Probab=98.32  E-value=1.6e-06  Score=72.55  Aligned_cols=88  Identities=25%  Similarity=0.303  Sum_probs=62.9

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      +..+++|+.|++.+++++.+      +...+..+++|+.|++++ ++++.+ +...+..+++|++|+++++. +..+. +
T Consensus        50 ~~~l~~L~~L~Ls~N~l~~~------~~~~~~~l~~L~~L~Ls~-N~l~~~-~~~~~~~l~~L~~L~L~~N~-l~~~~-~  119 (192)
T 1w8a_A           50 FGRLPHLVKLELKRNQLTGI------EPNAFEGASHIQELQLGE-NKIKEI-SNKMFLGLHQLKTLNLYDNQ-ISCVM-P  119 (192)
T ss_dssp             GGGCTTCCEEECCSSCCCCB------CTTTTTTCTTCCEEECCS-CCCCEE-CSSSSTTCTTCCEEECCSSC-CCEEC-T
T ss_pred             cccCCCCCEEECCCCCCCCc------CHhHcCCcccCCEEECCC-CcCCcc-CHHHhcCCCCCCEEECCCCc-CCeeC-H
Confidence            46678888888888877763      222366788888888877 467777 55666778888888888875 65553 3


Q ss_pred             CCCCcCcccccCCccCeeeccccc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      .....      +++|++|++.+++
T Consensus       120 ~~~~~------l~~L~~L~L~~N~  137 (192)
T 1w8a_A          120 GSFEH------LNSLTSLNLASNP  137 (192)
T ss_dssp             TSSTT------CTTCCEEECTTCC
T ss_pred             HHhhc------CCCCCEEEeCCCC
Confidence            33443      7788888887763

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

Probab=98.29  E-value=2.3e-06  Score=70.42  Aligned_cols=87  Identities=24%  Similarity=0.410  Sum_probs=63.1

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|++|++.+++++.      +|...+..+++|+.|++++ ++++.+ +...+..+++|+.|+++++. +..+. +.
T Consensus        49 ~~l~~L~~L~l~~n~l~~------~~~~~~~~l~~L~~L~l~~-N~l~~~-~~~~~~~l~~L~~L~l~~N~-l~~~~-~~  118 (177)
T 2o6r_A           49 DKLTQLTKLSLSQNQIQS------LPDGVFDKLTKLTILYLHE-NKLQSL-PNGVFDKLTQLKELALDTNQ-LKSVP-DG  118 (177)
T ss_dssp             TTCTTCSEEECCSSCCCC------CCTTTTTTCTTCCEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CSCCC-TT
T ss_pred             cCcccccEEECCCCcceE------eChhHccCCCccCEEECCC-CCcccc-CHHHhhCCcccCEEECcCCc-ceEeC-HH
Confidence            567889999999887776      4443466788999999977 467777 65667778899999998875 65542 22


Q ss_pred             CCCcCcccccCCccCeeeccccc
Q 044144          278 RADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      ....      +++|++|++.+++
T Consensus       119 ~~~~------l~~L~~L~l~~N~  135 (177)
T 2o6r_A          119 IFDR------LTSLQKIWLHTNP  135 (177)
T ss_dssp             TTTT------CTTCCEEECCSSC
T ss_pred             HhcC------CcccCEEEecCCC
Confidence            2233      7788888888764

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

Probab=98.20  E-value=4.1e-06  Score=68.92  Aligned_cols=83  Identities=24%  Similarity=0.324  Sum_probs=56.2

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ++|+.|++.+++++.      ++...+..+++|+.|++++ ++++.+ +...+..+++|+.|+++++. +..+. +....
T Consensus        33 ~~L~~L~Ls~N~l~~------~~~~~~~~l~~L~~L~Ls~-N~l~~i-~~~~~~~l~~L~~L~L~~N~-l~~l~-~~~~~  102 (174)
T 2r9u_A           33 TDKQRLWLNNNQITK------LEPGVFDHLVNLQQLYFNS-NKLTAI-PTGVFDKLTQLTQLDLNDNH-LKSIP-RGAFD  102 (174)
T ss_dssp             TTCSEEECCSSCCCC------CCTTTTTTCTTCCEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTTT
T ss_pred             CCCcEEEeCCCCccc------cCHHHhcCCcCCCEEECCC-CCCCcc-ChhHhCCcchhhEEECCCCc-cceeC-HHHhc
Confidence            678888888887766      3333466778888888876 467776 65666777888888888764 55542 22233


Q ss_pred             cCcccccCCccCeeecccc
Q 044144          281 EVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c  299 (356)
                      .      +++|++|++.++
T Consensus       103 ~------l~~L~~L~L~~N  115 (174)
T 2r9u_A          103 N------LKSLTHIYLYNN  115 (174)
T ss_dssp             T------CTTCSEEECCSS
T ss_pred             c------ccCCCEEEeCCC
Confidence            3      677888888765

>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=98.19  E-value=4.1e-06  Score=68.55  Aligned_cols=83  Identities=25%  Similarity=0.336  Sum_probs=54.8

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ++|+.|++.+++++.      ++...+..+++|+.|++++ ++++.+ +...+..+++|++|+++++. ++.+. +....
T Consensus        30 ~~l~~L~L~~N~i~~------~~~~~~~~l~~L~~L~Ls~-N~l~~l-~~~~f~~l~~L~~L~L~~N~-l~~~~-~~~~~   99 (170)
T 3g39_A           30 TTTQVLYLYDNQITK------LEPGVFDRLTQLTRLDLDN-NQLTVL-PAGVFDKLTQLTQLSLNDNQ-LKSIP-RGAFD   99 (170)
T ss_dssp             TTCSEEECCSSCCCC------CCTTTTTTCTTCSEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTTT
T ss_pred             CCCcEEEcCCCcCCc------cChhhhcCcccCCEEECCC-CCcCcc-ChhhccCCCCCCEEECCCCc-cCEeC-HHHhc
Confidence            677888888777766      3332466777888888876 467766 55666777788888887764 55542 22233


Q ss_pred             cCcccccCCccCeeecccc
Q 044144          281 EVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c  299 (356)
                      .      +++|++|++.+.
T Consensus       100 ~------l~~L~~L~L~~N  112 (170)
T 3g39_A          100 N------LKSLTHIWLLNN  112 (170)
T ss_dssp             T------CTTCCEEECCSS
T ss_pred             C------CCCCCEEEeCCC
Confidence            3      677777777765

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.12  E-value=3.2e-06  Score=85.39  Aligned_cols=111  Identities=20%  Similarity=0.199  Sum_probs=74.2

Q ss_pred             cccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceee
Q 044144          195 NEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEII  274 (356)
Q Consensus       195 ~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~  274 (356)
                      ..+..+++|+.|++.+|++..      +|...+ .+++|+.|+++++ .+..+ | ..+..+++|+.|+++++. +..+ 
T Consensus       218 ~~~~~l~~L~~L~Ls~n~l~~------l~~~~~-~l~~L~~L~Ls~N-~l~~l-p-~~~~~l~~L~~L~Ls~N~-l~~l-  285 (727)
T 4b8c_D          218 DSKYDDQLWHALDLSNLQIFN------ISANIF-KYDFLTRLYLNGN-SLTEL-P-AEIKNLSNLRVLDLSHNR-LTSL-  285 (727)
T ss_dssp             ----CCCCCCEEECTTSCCSC------CCGGGG-GCCSCSCCBCTTS-CCSCC-C-GGGGGGTTCCEEECTTSC-CSSC-
T ss_pred             hhhccCCCCcEEECCCCCCCC------CChhhc-CCCCCCEEEeeCC-cCccc-C-hhhhCCCCCCEEeCcCCc-CCcc-
Confidence            345567788888888886665      333223 6788888888764 66655 5 345778888888888876 5544 


Q ss_pred             ccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcC
Q 044144          275 SENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDK  327 (356)
Q Consensus       275 ~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~  327 (356)
                       +.....      +++|++|.|.++ .++.++...  ..+++|+.|++.+++-
T Consensus       286 -p~~~~~------l~~L~~L~L~~N-~l~~lp~~~--~~l~~L~~L~L~~N~l  328 (727)
T 4b8c_D          286 -PAELGS------CFQLKYFYFFDN-MVTTLPWEF--GNLCNLQFLGVEGNPL  328 (727)
T ss_dssp             -CSSGGG------GTTCSEEECCSS-CCCCCCSST--TSCTTCCCEECTTSCC
T ss_pred             -ChhhcC------CCCCCEEECCCC-CCCccChhh--hcCCCccEEeCCCCcc
Confidence             344443      778888888776 677776653  6778888888887763

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.10  E-value=1.9e-07  Score=78.54  Aligned_cols=60  Identities=22%  Similarity=0.266  Sum_probs=27.4

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecC
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c  267 (356)
                      +..+++|+.|++.+|+++.      +|  .+..+++|+.|+++++ .+..+ | .....+++|+.|++++|
T Consensus        44 ~~~l~~L~~L~ls~n~l~~------l~--~~~~l~~L~~L~l~~n-~l~~l-~-~~~~~~~~L~~L~L~~N  103 (198)
T 1ds9_A           44 LSTLKACKHLALSTNNIEK------IS--SLSGMENLRILSLGRN-LIKKI-E-NLDAVADTLEELWISYN  103 (198)
T ss_dssp             HHHTTTCSEEECSEEEESC------CC--CHHHHTTCCEEEEEEE-EECSC-S-SHHHHHHHCSEEEEEEE
T ss_pred             HhcCCCCCEEECCCCCCcc------cc--ccccCCCCCEEECCCC-Ccccc-c-chhhcCCcCCEEECcCC
Confidence            3444555555555554444      22  1334455555555443 33333 3 23333455555555554

>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=98.05  E-value=1.5e-05  Score=65.14  Aligned_cols=104  Identities=16%  Similarity=0.259  Sum_probs=79.8

Q ss_pred             CcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCc
Q 044144          202 NLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE  281 (356)
Q Consensus       202 ~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~  281 (356)
                      +.+.+++++++++.      +|...   .++|+.|++++ ++++.+ +...+..+++|+.|+++++. ++.+. +.....
T Consensus        10 ~~~~l~~s~n~l~~------ip~~~---~~~l~~L~L~~-N~i~~~-~~~~~~~l~~L~~L~Ls~N~-l~~l~-~~~f~~   76 (170)
T 3g39_A           10 SGTTVDCSGKSLAS------VPTGI---PTTTQVLYLYD-NQITKL-EPGVFDRLTQLTRLDLDNNQ-LTVLP-AGVFDK   76 (170)
T ss_dssp             ETTEEECTTSCCSS------CCSCC---CTTCSEEECCS-SCCCCC-CTTTTTTCTTCSEEECCSSC-CCCCC-TTTTTT
T ss_pred             CCCEEEeCCCCcCc------cCccC---CCCCcEEEcCC-CcCCcc-ChhhhcCcccCCEEECCCCC-cCccC-hhhccC
Confidence            45788888887776      44322   37899999987 578887 55777889999999999986 76663 222334


Q ss_pred             CcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          282 VIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       282 ~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                            +++|++|+++++ +++.++.... ..+++|+.|++.+.+
T Consensus        77 ------l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           77 ------LTQLTQLSLNDN-QLKSIPRGAF-DNLKSLTHIWLLNNP  113 (170)
T ss_dssp             ------CTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEECCSSC
T ss_pred             ------CCCCCEEECCCC-ccCEeCHHHh-cCCCCCCEEEeCCCC
Confidence                  889999999887 7888876532 678999999998865

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

Probab=98.03  E-value=1.9e-05  Score=64.89  Aligned_cols=103  Identities=20%  Similarity=0.254  Sum_probs=78.6

Q ss_pred             cCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcC
Q 044144          203 LEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEV  282 (356)
Q Consensus       203 L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~  282 (356)
                      -+.+++.+++++.      +|.. +  .++|+.|++++ ++++.+ +...+..+++|+.|+++++. +..+. +..... 
T Consensus        14 ~~~l~~~~n~l~~------iP~~-~--~~~L~~L~Ls~-N~l~~~-~~~~~~~l~~L~~L~Ls~N~-l~~i~-~~~~~~-   79 (174)
T 2r9u_A           14 QTLVNCQNIRLAS------VPAG-I--PTDKQRLWLNN-NQITKL-EPGVFDHLVNLQQLYFNSNK-LTAIP-TGVFDK-   79 (174)
T ss_dssp             SSEEECCSSCCSS------CCSC-C--CTTCSEEECCS-SCCCCC-CTTTTTTCTTCCEEECCSSC-CCCCC-TTTTTT-
T ss_pred             CcEEEeCCCCCCc------cCCC-c--CCCCcEEEeCC-CCcccc-CHHHhcCCcCCCEEECCCCC-CCccC-hhHhCC-
Confidence            3678888877766      4542 2  38899999987 578887 55778889999999999985 76663 222333 


Q ss_pred             cccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          283 IPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       283 ~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                           +++|++|+++++ +++.++... +..+++|+.|++.+++
T Consensus        80 -----l~~L~~L~L~~N-~l~~l~~~~-~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           80 -----LTQLTQLDLNDN-HLKSIPRGA-FDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             -----CTTCCEEECCSS-CCCCCCTTT-TTTCTTCSEEECCSSC
T ss_pred             -----cchhhEEECCCC-ccceeCHHH-hccccCCCEEEeCCCC
Confidence                 889999999886 788887653 2678999999999876

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.99  E-value=0.0009  Score=62.45  Aligned_cols=110  Identities=9%  Similarity=0.085  Sum_probs=60.4

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcC----ccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNK----LKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~----l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      .+|+.+.+.+ .++.      ++...|..+++|+.+.+.+...    ...+ +...+..|++|+.+++.+  .++.+. .
T Consensus       248 ~~L~~i~lp~-~i~~------I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I-~~~aF~~c~~L~~l~l~~--~i~~I~-~  316 (401)
T 4fdw_A          248 SGITTVKLPN-GVTN------IASRAFYYCPELAEVTTYGSTFNDDPEAMI-HPYCLEGCPKLARFEIPE--SIRILG-Q  316 (401)
T ss_dssp             CCCSEEEEET-TCCE------ECTTTTTTCTTCCEEEEESSCCCCCTTCEE-CTTTTTTCTTCCEECCCT--TCCEEC-T
T ss_pred             CCccEEEeCC-CccE------EChhHhhCCCCCCEEEeCCccccCCcccEE-CHHHhhCCccCCeEEeCC--ceEEEh-h
Confidence            4566666633 3443      2222366677777777754211    1124 556666777777777763  354442 2


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      .....      +++|+.+.|.+  +++.+..... ..+ +|+.+.+.+. .+..++
T Consensus       317 ~aF~~------c~~L~~l~lp~--~l~~I~~~aF-~~~-~L~~l~l~~n-~~~~l~  361 (401)
T 4fdw_A          317 GLLGG------NRKVTQLTIPA--NVTQINFSAF-NNT-GIKEVKVEGT-TPPQVF  361 (401)
T ss_dssp             TTTTT------CCSCCEEEECT--TCCEECTTSS-SSS-CCCEEEECCS-SCCBCC
T ss_pred             hhhcC------CCCccEEEECc--cccEEcHHhC-CCC-CCCEEEEcCC-CCcccc
Confidence            33333      56777777743  4667665542 445 7777777764 334443

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.90  E-value=0.0015  Score=60.56  Aligned_cols=83  Identities=16%  Similarity=0.211  Sum_probs=50.7

Q ss_pred             CCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceee
Q 044144          226 VFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCL  305 (356)
Q Consensus       226 ~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~  305 (356)
                      .+..+.+|+.+.+.+  .++.+ +...+.++++|+.+++.+  .++.+ ......+      +++|+.+.+..  +++.+
T Consensus       292 ~F~~~~~L~~i~l~~--~i~~I-~~~aF~~c~~L~~i~lp~--~v~~I-~~~aF~~------c~~L~~i~lp~--~l~~I  357 (394)
T 4fs7_A          292 TFYGCSSLTEVKLLD--SVKFI-GEEAFESCTSLVSIDLPY--LVEEI-GKRSFRG------CTSLSNINFPL--SLRKI  357 (394)
T ss_dssp             TTTTCTTCCEEEECT--TCCEE-CTTTTTTCTTCCEECCCT--TCCEE-CTTTTTT------CTTCCEECCCT--TCCEE
T ss_pred             ccccccccccccccc--cccee-chhhhcCCCCCCEEEeCC--cccEE-hHHhccC------CCCCCEEEECc--cccEe
Confidence            355667777777743  46666 556677778888877753  25454 2233333      66777777743  36666


Q ss_pred             cCCCCcCCCCcccEEeec
Q 044144          306 YPGMHTSEWPALEIFSVF  323 (356)
Q Consensus       306 ~~~~~~~~~~~L~~L~i~  323 (356)
                      .... +..|++|+++++.
T Consensus       358 ~~~a-F~~C~~L~~i~lp  374 (394)
T 4fs7_A          358 GANA-FQGCINLKKVELP  374 (394)
T ss_dssp             CTTT-BTTCTTCCEEEEE
T ss_pred             hHHH-hhCCCCCCEEEEC
Confidence            5554 2566777777664

>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=97.85  E-value=2.2e-05  Score=76.90  Aligned_cols=107  Identities=16%  Similarity=0.255  Sum_probs=84.8

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      ..|+.|++++|+++.      +|.  +..+++|+.|+++++ +++.+ |. .++.+++|+.|+++++. +..+  + ...
T Consensus       441 ~~L~~L~Ls~n~l~~------lp~--~~~l~~L~~L~Ls~N-~l~~l-p~-~~~~l~~L~~L~Ls~N~-l~~l--p-~l~  505 (567)
T 1dce_A          441 ADVRVLHLAHKDLTV------LCH--LEQLLLVTHLDLSHN-RLRAL-PP-ALAALRCLEVLQASDNA-LENV--D-GVA  505 (567)
T ss_dssp             TTCSEEECTTSCCSS------CCC--GGGGTTCCEEECCSS-CCCCC-CG-GGGGCTTCCEEECCSSC-CCCC--G-GGT
T ss_pred             cCceEEEecCCCCCC------CcC--ccccccCcEeecCcc-ccccc-ch-hhhcCCCCCEEECCCCC-CCCC--c-ccC
Confidence            469999999998877      554  678999999999884 77776 64 66889999999999986 6654  2 344


Q ss_pred             cCcccccCCccCeeeccccccceeec--CCCCcCCCCcccEEeeccCcCccccc
Q 044144          281 EVIPYFVFPQLTTLILQYLPKLRCLY--PGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~~L~~~~--~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      .      +++|++|+++++ +++.+.  ...  ..+++|+.|++.+++ ++.+|
T Consensus       506 ~------l~~L~~L~Ls~N-~l~~~~~p~~l--~~l~~L~~L~L~~N~-l~~~~  549 (567)
T 1dce_A          506 N------LPRLQELLLCNN-RLQQSAAIQPL--VSCPRLVLLNLQGNS-LCQEE  549 (567)
T ss_dssp             T------CSSCCEEECCSS-CCCSSSTTGGG--GGCTTCCEEECTTSG-GGGSS
T ss_pred             C------CCCCcEEECCCC-CCCCCCCcHHH--hcCCCCCEEEecCCc-CCCCc
Confidence            4      899999999887 788774  333  679999999999976 65554

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=97.85  E-value=7e-07  Score=75.05  Aligned_cols=87  Identities=18%  Similarity=0.172  Sum_probs=63.0

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|+.|++.+|+++.      +|. .+..+++|+.|+++++ ++..+ +  .+..+++|+.|+++++. +..+..
T Consensus        65 ~~~~l~~L~~L~l~~n~l~~------l~~-~~~~~~~L~~L~L~~N-~l~~l-~--~~~~l~~L~~L~l~~N~-i~~~~~  132 (198)
T 1ds9_A           65 SLSGMENLRILSLGRNLIKK------IEN-LDAVADTLEELWISYN-QIASL-S--GIEKLVNLRVLYMSNNK-ITNWGE  132 (198)
T ss_dssp             CHHHHTTCCEEEEEEEEECS------CSS-HHHHHHHCSEEEEEEE-ECCCH-H--HHHHHHHSSEEEESEEE-CCCHHH
T ss_pred             ccccCCCCCEEECCCCCccc------ccc-hhhcCCcCCEEECcCC-cCCcC-C--ccccCCCCCEEECCCCc-CCchhH
Confidence            44667899999999998875      443 2445689999999885 67776 5  46778999999999975 544321


Q ss_pred             cCCCCcCcccccCCccCeeeccccc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                      ......      +++|++|++.+++
T Consensus       133 ~~~l~~------l~~L~~L~l~~N~  151 (198)
T 1ds9_A          133 IDKLAA------LDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHHTT------TTTCSEEEECSCH
T ss_pred             HHHHhc------CCCCCEEEecCCc
Confidence            122333      7899999998874

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.80  E-value=5.2e-05  Score=69.21  Aligned_cols=90  Identities=17%  Similarity=0.236  Sum_probs=64.7

Q ss_pred             ccccccccCCCcCeEEecc-eeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCccc
Q 044144          192 LLFNEKVALPNLEALEISA-INVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDL  270 (356)
Q Consensus       192 ~l~~~~~~l~~L~~L~l~~-~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l  270 (356)
                      .++. +..+++|+.|+|.+ ++++.+      |...|..+++|+.|++++ +++..+ +...+..+++|+.|+++++. +
T Consensus        23 ~ip~-l~~~~~L~~L~l~~~n~l~~~------~~~~~~~l~~L~~L~l~~-N~l~~~-~~~~~~~l~~L~~L~l~~N~-l   92 (347)
T 2ifg_A           23 SLHH-LPGAENLTELYIENQQHLQHL------ELRDLRGLGELRNLTIVK-SGLRFV-APDAFHFTPRLSRLNLSFNA-L   92 (347)
T ss_dssp             TTTT-SCSCSCCSEEECCSCSSCCEE------CGGGSCSCCCCSEEECCS-SCCCEE-CTTGGGSCSCCCEEECCSSC-C
T ss_pred             ccCC-CCCCCCeeEEEccCCCCCCCc------ChhHhccccCCCEEECCC-Ccccee-CHHHhcCCcCCCEEeCCCCc-c
Confidence            3555 77788899999986 688873      333477889999999987 478887 65777888999999999865 6


Q ss_pred             ceeeccCCCCcCcccccCCccCeeecccc
Q 044144          271 QEIISENRADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       271 ~~i~~~~~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      ..+. +.....      + .|+.|.+.++
T Consensus        93 ~~~~-~~~~~~------~-~L~~l~l~~N  113 (347)
T 2ifg_A           93 ESLS-WKTVQG------L-SLQELVLSGN  113 (347)
T ss_dssp             SCCC-STTTCS------C-CCCEEECCSS
T ss_pred             ceeC-HHHccc------C-CceEEEeeCC
Confidence            5552 222221      2 3888888765

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=97.80  E-value=2.2e-05  Score=79.22  Aligned_cols=108  Identities=20%  Similarity=0.191  Sum_probs=63.9

Q ss_pred             ccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeE
Q 044144          136 KIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDK  215 (356)
Q Consensus       136 ~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~  215 (356)
                      +..++.|+.|+++++. +..++...+              .+..|+.|.++.+.-..++..+..+++|+.|+|++|+++.
T Consensus       220 ~~~l~~L~~L~Ls~n~-l~~l~~~~~--------------~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~  284 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQ-IFNISANIF--------------KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTS  284 (727)
T ss_dssp             --CCCCCCEEECTTSC-CSCCCGGGG--------------GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSS
T ss_pred             hccCCCCcEEECCCCC-CCCCChhhc--------------CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCc
Confidence            5577888888888764 334443322              3344666666666544555556666677777777666554


Q ss_pred             EcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          216 IWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       216 ~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                            +|. .+..+++|+.|+++++ .+..+ |.. ++.+++|+.|+++++.
T Consensus       285 ------lp~-~~~~l~~L~~L~L~~N-~l~~l-p~~-~~~l~~L~~L~L~~N~  327 (727)
T 4b8c_D          285 ------LPA-ELGSCFQLKYFYFFDN-MVTTL-PWE-FGNLCNLQFLGVEGNP  327 (727)
T ss_dssp             ------CCS-SGGGGTTCSEEECCSS-CCCCC-CSS-TTSCTTCCCEECTTSC
T ss_pred             ------cCh-hhcCCCCCCEEECCCC-CCCcc-Chh-hhcCCCccEEeCCCCc
Confidence                  333 2455666777776654 55555 533 5566667777776665

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.71  E-value=3.8e-05  Score=70.78  Aligned_cols=13  Identities=15%  Similarity=0.240  Sum_probs=9.3

Q ss_pred             ccccccEEecCCC
Q 044144          138 ELAQLRYLSLGNL  150 (356)
Q Consensus       138 ~~~~L~~L~l~~~  150 (356)
                      .+|+|++|.++++
T Consensus       170 ~~P~L~~L~L~g~  182 (362)
T 2ra8_A          170 AMPLLNNLKIKGT  182 (362)
T ss_dssp             TCTTCCEEEEECC
T ss_pred             cCCCCcEEEEeCC
Confidence            4577888887765

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.68  E-value=9.3e-05  Score=67.50  Aligned_cols=84  Identities=20%  Similarity=0.150  Sum_probs=62.8

Q ss_pred             cccccccceeec-CCccccc-cccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhh
Q 044144          176 STTTYSSSEITL-DTSTLLF-NEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMI  253 (356)
Q Consensus       176 ~~~~l~~l~i~~-~~~~~l~-~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~  253 (356)
                      .+..++.|++++ +.-..++ ..+..+++|+.|+|++|+++.+      +...|..+++|+.|++++ +++..+ |...+
T Consensus        29 ~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~------~~~~~~~l~~L~~L~l~~-N~l~~~-~~~~~  100 (347)
T 2ifg_A           29 GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFV------APDAFHFTPRLSRLNLSF-NALESL-SWKTV  100 (347)
T ss_dssp             SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEE------CTTGGGSCSCCCEEECCS-SCCSCC-CSTTT
T ss_pred             CCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCcccee------CHHHhcCCcCCCEEeCCC-Ccccee-CHHHc
Confidence            445688888875 5544444 4577899999999999988884      333477889999999987 678887 66666


Q ss_pred             hhcCCCCeEEEecCc
Q 044144          254 GSLKHLQHLEVRFCE  268 (356)
Q Consensus       254 ~~l~~L~~L~i~~c~  268 (356)
                      ..++ |+.|++.+++
T Consensus       101 ~~~~-L~~l~l~~N~  114 (347)
T 2ifg_A          101 QGLS-LQELVLSGNP  114 (347)
T ss_dssp             CSCC-CCEEECCSSC
T ss_pred             ccCC-ceEEEeeCCC
Confidence            6555 9999998865

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.38  E-value=4.1e-06  Score=77.68  Aligned_cols=68  Identities=16%  Similarity=0.043  Sum_probs=29.0

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccch---hhhhhhcCCCCeEEEecCc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFS---ASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~---~~~~~~l~~L~~L~i~~c~  268 (356)
                      ...++|++|++++|.+++.-... ++. .+...++|+.|++++| .+.+...   ...+...++|++|++++|.
T Consensus       180 ~~~~~L~~L~Ls~N~l~~~g~~~-L~~-~L~~~~~L~~L~Ls~N-~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~  250 (372)
T 3un9_A          180 AGNTSVTHLSLLHTGLGDEGLEL-LAA-QLDRNRQLQELNVAYN-GAGDTAALALARAAREHPSLELLHLYFNE  250 (372)
T ss_dssp             HTCSSCCEEECTTSSCHHHHHHH-HHH-HGGGCSCCCEEECCSS-CCCHHHHHHHHHHHHHCSSCCEEECTTSS
T ss_pred             hcCCCcCEEeCCCCCCCcHHHHH-HHH-HHhcCCCcCeEECCCC-CCCHHHHHHHHHHHHhCCCCCEEeccCCC
Confidence            34455666666665444310000 000 1223345666666554 3333211   1122334556666666554

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.35  E-value=0.00019  Score=66.02  Aligned_cols=136  Identities=16%  Similarity=0.119  Sum_probs=71.2

Q ss_pred             ccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCc-------Cccccch
Q 044144          177 TTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCN-------KLKYIFS  249 (356)
Q Consensus       177 ~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~-------~l~~l~~  249 (356)
                      .+.++.|.+.++....+.. + ..++|+.|++..|.++...... +   ....+|+|++|+++.+.       .+..+.+
T Consensus       171 ~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~-l---~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~  244 (362)
T 2ra8_A          171 MPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSVVED-I---LGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP  244 (362)
T ss_dssp             CTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHHHHH-H---HHSBCTTCCEEEEECBCGGGTCCSCGGGTGG
T ss_pred             CCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHHHHH-H---HHccCCCCcEEEEeccccccccchhHHHHHH
Confidence            3457777777664333332 2 3678888888766554310000 0   01146788888875321       1222211


Q ss_pred             hhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceee-----cCCCCcCCCCcccEEeecc
Q 044144          250 ASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCL-----YPGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       250 ~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~-----~~~~~~~~~~~L~~L~i~~  324 (356)
                      ......+|+|+.|.+.+|.--....  .....   ...+++|++|+|+.+ .+...     ..+.  ..+++|+.|++++
T Consensus       245 ~l~~~~~p~Lr~L~L~~~~i~~~~~--~~la~---a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L--~~l~~L~~L~L~~  316 (362)
T 2ra8_A          245 LFSKDRFPNLKWLGIVDAEEQNVVV--EMFLE---SDILPQLETMDISAG-VLTDEGARLLLDHV--DKIKHLKFINMKY  316 (362)
T ss_dssp             GSCTTTCTTCCEEEEESCTTHHHHH--HHHHH---CSSGGGCSEEECCSS-CCBHHHHHHHHTTH--HHHTTCSEEECCS
T ss_pred             HHhcCCCCCcCEEeCCCCCCchHHH--HHHHh---CccCCCCCEEECCCC-CCChHHHHHHHhhc--ccCCcceEEECCC
Confidence            1111347888888888876321110  00000   012678888888654 56553     2221  3467888888887


Q ss_pred             Cc
Q 044144          325 CD  326 (356)
Q Consensus       325 C~  326 (356)
                      |.
T Consensus       317 n~  318 (362)
T 2ra8_A          317 NY  318 (362)
T ss_dssp             BB
T ss_pred             Cc
Confidence            74

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.29  E-value=0.019  Score=53.07  Aligned_cols=32  Identities=13%  Similarity=0.095  Sum_probs=17.6

Q ss_pred             CCccCeeeccccccceeecCCCCcCCCCcccEEee
Q 044144          288 FPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSV  322 (356)
Q Consensus       288 l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  322 (356)
                      +++|+.+.|.+  .++.+.... +..|++|+.+++
T Consensus       319 c~~L~~i~lp~--~v~~I~~~a-F~~c~~L~~i~l  350 (394)
T 4fs7_A          319 CTSLVSIDLPY--LVEEIGKRS-FRGCTSLSNINF  350 (394)
T ss_dssp             CTTCCEECCCT--TCCEECTTT-TTTCTTCCEECC
T ss_pred             CCCCCEEEeCC--cccEEhHHh-ccCCCCCCEEEE
Confidence            56777777642  355554443 244566666544

>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=97.15  E-value=0.074  Score=48.65  Aligned_cols=104  Identities=14%  Similarity=0.183  Sum_probs=58.5

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+.+|+.+.+-.. ++.+      ....|..+.+|+.+.+.  .+++.+ +...+..+++|+.+.+.+.. ++.+ ...
T Consensus       237 ~~~~~L~~i~lp~~-v~~I------~~~aF~~~~~l~~i~l~--~~i~~i-~~~aF~~c~~L~~i~l~~~~-i~~I-~~~  304 (379)
T 4h09_A          237 YGMKALDEIAIPKN-VTSI------GSFLLQNCTALKTLNFY--AKVKTV-PYLLCSGCSNLTKVVMDNSA-IETL-EPR  304 (379)
T ss_dssp             TTCSSCCEEEECTT-CCEE------CTTTTTTCTTCCEEEEC--CCCSEE-CTTTTTTCTTCCEEEECCTT-CCEE-CTT
T ss_pred             cCCccceEEEcCCC-ccEe------Cccccceeehhcccccc--ccceec-cccccccccccccccccccc-ccee-hhh
Confidence            34556666666543 3332      12235566777777774  356666 55667777888888776543 4444 223


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEee
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSV  322 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i  322 (356)
                      ....      +++|+.+.|-+  +++.+.... +..|++|+.+.+
T Consensus       305 aF~~------c~~L~~i~lp~--~l~~I~~~a-F~~C~~L~~i~i  340 (379)
T 4h09_A          305 VFMD------CVKLSSVTLPT--ALKTIQVYA-FKNCKALSTISY  340 (379)
T ss_dssp             TTTT------CTTCCEEECCT--TCCEECTTT-TTTCTTCCCCCC
T ss_pred             hhcC------CCCCCEEEcCc--cccEEHHHH-hhCCCCCCEEEE
Confidence            3333      56777777742  466665543 245566666655

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.12  E-value=0.099  Score=48.16  Aligned_cols=83  Identities=12%  Similarity=0.147  Sum_probs=51.9

Q ss_pred             CCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeec
Q 044144          227 FPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLY  306 (356)
Q Consensus       227 ~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~  306 (356)
                      |..+++|+.+.+.  ..++.+ +...+.+|.+|+.++|.+  .++.| .......      +++|+.+.|-+  +++.+.
T Consensus       284 F~~c~~L~~i~l~--~~i~~I-~~~aF~~c~~L~~i~lp~--~v~~I-~~~aF~~------C~~L~~i~ip~--sv~~I~  349 (394)
T 4gt6_A          284 FMNCPALQDIEFS--SRITEL-PESVFAGCISLKSIDIPE--GITQI-LDDAFAG------CEQLERIAIPS--SVTKIP  349 (394)
T ss_dssp             TTTCTTCCEEECC--TTCCEE-CTTTTTTCTTCCEEECCT--TCCEE-CTTTTTT------CTTCCEEEECT--TCCBCC
T ss_pred             cccccccccccCC--Cccccc-CceeecCCCCcCEEEeCC--cccEe-hHhHhhC------CCCCCEEEECc--ccCEEh
Confidence            5566777777774  356666 666777778888887764  25455 2233333      67788887742  466665


Q ss_pred             CCCCcCCCCcccEEeecc
Q 044144          307 PGMHTSEWPALEIFSVFR  324 (356)
Q Consensus       307 ~~~~~~~~~~L~~L~i~~  324 (356)
                      ... +..|++|+.+++.+
T Consensus       350 ~~a-F~~C~~L~~i~~~~  366 (394)
T 4gt6_A          350 ESA-FSNCTALNNIEYSG  366 (394)
T ss_dssp             GGG-GTTCTTCCEEEESS
T ss_pred             HhH-hhCCCCCCEEEECC
Confidence            443 25677787776654

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=97.07  E-value=0.039  Score=50.94  Aligned_cols=37  Identities=14%  Similarity=0.226  Sum_probs=21.7

Q ss_pred             CCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEe
Q 044144          226 VFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVR  265 (356)
Q Consensus       226 ~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~  265 (356)
                      .|..+.+|+.+.+.+  .++.+ ....+.+|.+|+++.|-
T Consensus       306 aF~~c~~L~~i~lp~--~v~~I-~~~aF~~C~~L~~i~ip  342 (394)
T 4gt6_A          306 VFAGCISLKSIDIPE--GITQI-LDDAFAGCEQLERIAIP  342 (394)
T ss_dssp             TTTTCTTCCEEECCT--TCCEE-CTTTTTTCTTCCEEEEC
T ss_pred             eecCCCCcCEEEeCC--cccEe-hHhHhhCCCCCCEEEEC
Confidence            355566666666642  45555 44556666666666664

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=96.28  E-value=0.00017  Score=66.73  Aligned_cols=12  Identities=17%  Similarity=0.180  Sum_probs=9.5

Q ss_pred             ccccEEecCCCC
Q 044144          140 AQLRYLSLGNLP  151 (356)
Q Consensus       140 ~~L~~L~l~~~~  151 (356)
                      ++|++|+++++.
T Consensus       101 ~~L~~L~Ls~n~  112 (372)
T 3un9_A          101 HALDEVNLASCQ  112 (372)
T ss_dssp             SCEEEEECTTCC
T ss_pred             CCceEEEecCCC
Confidence            688888888763

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.46  E-value=0.0032  Score=55.14  Aligned_cols=65  Identities=22%  Similarity=0.207  Sum_probs=41.2

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      ..+|+|+.|++++|+++.+-.   +|. .+..+++|+.|++++ +++..+.....+..+ +|++|++.+++
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~---l~~-~~~~l~~L~~L~Ls~-N~i~~~~~l~~l~~l-~L~~L~L~~Np  231 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDD---MSS-IVQKAPNLKILNLSG-NELKSERELDKIKGL-KLEELWLDGNS  231 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGG---GTT-HHHHSTTCCEEECTT-SCCCSGGGGGGGTTS-CCSEEECTTST
T ss_pred             hhCCCCCEEECCCCCCCCCcc---chh-HHhhCCCCCEEECCC-CccCCchhhhhcccC-CcceEEccCCc
Confidence            457888888888887776311   111 233678888888876 566665222222233 78888888876

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=94.47  E-value=0.035  Score=48.48  Aligned_cols=65  Identities=14%  Similarity=0.127  Sum_probs=42.6

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCcccc-----chhhhhhhcCCCCeEEEec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYI-----FSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l-----~~~~~~~~l~~L~~L~i~~  266 (356)
                      .+..+++|+.|++++|+++++..   +.  .+..+ +|+.|++.+.+-....     +...++..+|+|+.|+-..
T Consensus       191 ~~~~l~~L~~L~Ls~N~i~~~~~---l~--~l~~l-~L~~L~L~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg~~  260 (267)
T 3rw6_A          191 IVQKAPNLKILNLSGNELKSERE---LD--KIKGL-KLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLDGHE  260 (267)
T ss_dssp             HHHHSTTCCEEECTTSCCCSGGG---GG--GGTTS-CCSEEECTTSTTGGGCSSHHHHHHHHHHHCTTCCEESSCB
T ss_pred             HHhhCCCCCEEECCCCccCCchh---hh--hcccC-CcceEEccCCcCccccCcchhHHHHHHHHCcccCeECCcC
Confidence            34578999999999998887311   11  12233 8999999986633321     1234567888888876443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.76  E-value=0.013  Score=48.05  Aligned_cols=70  Identities=13%  Similarity=0.085  Sum_probs=36.0

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeec-cCcCccccc---hhhhhhhcCCCCeEEEecCc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVW-HCNKLKYIF---SASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~-~c~~l~~l~---~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +...++|+.|++.+|.+.+..... +.. .+...++|++|+++ ..+.+.+..   -...+...++|++|++++|.
T Consensus        89 L~~n~~L~~L~L~~N~i~~~g~~~-l~~-~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A           89 LKVNNTLKSLNVESNFISGSGILA-LVE-ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHHCSSCCEEECCSSCCCHHHHHH-HHH-GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHhCCCcCEEECcCCcCCHHHHHH-HHH-HHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence            344567777777777655411000 000 13344667777773 234454431   11333455777777777764

>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=92.96  E-value=1.6  Score=39.50  Aligned_cols=93  Identities=15%  Similarity=0.211  Sum_probs=60.3

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeecc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISE  276 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~  276 (356)
                      ...+.+|+.+.+.. +++.      .+...|..+.+|+.+.+.+ ..++.+ +...+.+|.+|+.+++.+  .++.| ..
T Consensus       259 F~~~~~l~~i~l~~-~i~~------i~~~aF~~c~~L~~i~l~~-~~i~~I-~~~aF~~c~~L~~i~lp~--~l~~I-~~  326 (379)
T 4h09_A          259 LQNCTALKTLNFYA-KVKT------VPYLLCSGCSNLTKVVMDN-SAIETL-EPRVFMDCVKLSSVTLPT--ALKTI-QV  326 (379)
T ss_dssp             TTTCTTCCEEEECC-CCSE------ECTTTTTTCTTCCEEEECC-TTCCEE-CTTTTTTCTTCCEEECCT--TCCEE-CT
T ss_pred             cceeehhccccccc-ccee------ccccccccccccccccccc-ccccee-hhhhhcCCCCCCEEEcCc--cccEE-HH
Confidence            34567888888865 3444      2333477889999999865 357777 667888899999998864  35555 22


Q ss_pred             CCCCcCcccccCCccCeeeccccccceeecCCC
Q 044144          277 NRADEVIPYFVFPQLTTLILQYLPKLRCLYPGM  309 (356)
Q Consensus       277 ~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~  309 (356)
                      ....+      +++|+.+.+-.  +++.+....
T Consensus       327 ~aF~~------C~~L~~i~ip~--~v~~I~~~a  351 (379)
T 4h09_A          327 YAFKN------CKALSTISYPK--SITLIESGA  351 (379)
T ss_dssp             TTTTT------CTTCCCCCCCT--TCCEECTTT
T ss_pred             HHhhC------CCCCCEEEECC--ccCEEchhH
Confidence            33333      56777776632  466665443

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=92.48  E-value=0.013  Score=48.17  Aligned_cols=123  Identities=14%  Similarity=0.021  Sum_probs=67.1

Q ss_pred             cccccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccc---hhhhhhhcCCCCeEEEecCccc
Q 044144          195 NEKVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIF---SASMIGSLKHLQHLEVRFCEDL  270 (356)
Q Consensus       195 ~~~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~---~~~~~~~l~~L~~L~i~~c~~l  270 (356)
                      ..+...++|+.|++.+| .+.+..... +.. .+...++|++|++++| .+.+..   -...+...++|++|++++|. +
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~~g~~~-l~~-~L~~~~~L~~L~Ls~n-~i~~~g~~~l~~~L~~n~~L~~L~L~~N~-i  105 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPVPTLKA-CAE-ALKTNTYVKKFSIVGT-RSNDPVAFALAEMLKVNNTLKSLNVESNF-I  105 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHH-HHH-HHTTCCSCCEEECTTS-CCCHHHHHHHHHHHHHCSSCCEEECCSSC-C
T ss_pred             HHHhcCCCCCEEEecCCCCCCHHHHHH-HHH-HHHhCCCcCEEECcCC-CCChHHHHHHHHHHHhCCCcCEEECcCCc-C
Confidence            34456788999999888 776521111 111 1334578899999876 455431   12334456789999998875 3


Q ss_pred             ceeeccCCCCc-CcccccCCccCeeec--cccccceeecCCCCc---CCCCcccEEeeccCc
Q 044144          271 QEIISENRADE-VIPYFVFPQLTTLIL--QYLPKLRCLYPGMHT---SEWPALEIFSVFRCD  326 (356)
Q Consensus       271 ~~i~~~~~~~~-~~~~~~l~~L~~L~l--~~c~~L~~~~~~~~~---~~~~~L~~L~i~~C~  326 (356)
                      ..    +++.. .......+.|++|++  .++ .+..-....+.   ...++|++|++.+|.
T Consensus       106 ~~----~g~~~l~~~L~~n~~L~~L~L~~~~N-~i~~~g~~~l~~~L~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          106 SG----SGILALVEALQSNTSLIELRIDNQSQ-PLGNNVEMEIANMLEKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             CH----HHHHHHHHGGGGCSSCCEEECCCCSS-CCCHHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             CH----HHHHHHHHHHHhCCCceEEEecCCCC-CCCHHHHHHHHHHHHhCCCcCEEeccCCC
Confidence            22    11100 001112567888888  444 44442211110   234678888887764

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=85.18  E-value=1  Score=34.31  Aligned_cols=35  Identities=17%  Similarity=0.270  Sum_probs=19.7

Q ss_pred             CccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          232 NLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       232 ~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +|+.|++++ ++++.+ +...+..+++|+.|++.+++
T Consensus        32 ~l~~L~Ls~-N~l~~l-~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           32 DTTELVLTG-NNLTAL-PPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TCSEEECTT-SCCSSC-CTTTGGGCTTCCEEECCSSC
T ss_pred             CCCEEECCC-CcCCcc-ChhhhhhccccCEEEecCCC
Confidence            456666654 455555 55555555666666665543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	356
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.47
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.45
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.42
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.4
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.39
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.31
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.29
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.27
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.26
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.21
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.21
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.21
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.19
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.17
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.16
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.13
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.09
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.07
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.06
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.98
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.98
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.81
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.71
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.59
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.53
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.48
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.37
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.34
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.28
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.17
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.16
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.9
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.59
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	96.04
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.64
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.45
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.28
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.75
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	89.41
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	85.57
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	83.85

>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=99.47  E-value=1.4e-12  Score=119.17  Aligned_cols=79  Identities=20%  Similarity=0.310  Sum_probs=57.0

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.|++.++ +++++ .  .++.+++|++|+++++ +++.+      ..++.+++|++|+++++. +.+++    +.
T Consensus        43 l~~l~~L~l~~~-~I~~l-~--gl~~L~nL~~L~Ls~N-~l~~l------~~l~~L~~L~~L~L~~n~-i~~i~----~l  106 (384)
T d2omza2          43 LDQVTTLQADRL-GIKSI-D--GVEYLNNLTQINFSNN-QLTDI------TPLKNLTKLVDILMNNNQ-IADIT----PL  106 (384)
T ss_dssp             HTTCCEEECCSS-CCCCC-T--TGGGCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSSC-CCCCG----GG
T ss_pred             hCCCCEEECCCC-CCCCc-c--ccccCCCCCEEeCcCC-cCCCC------ccccCCcccccccccccc-ccccc----cc
Confidence            357888888776 34443 2  3457899999999998 67755      347788999999999864 55542    23


Q ss_pred             cCCCCccEEEEccCC
Q 044144           82 ESFNELKIIQAYNCD   96 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~   96 (356)
                      ..+++|+.|++.++.
T Consensus       107 ~~l~~L~~L~~~~~~  121 (384)
T d2omza2         107 ANLTNLTGLTLFNNQ  121 (384)
T ss_dssp             TTCTTCCEEECCSSC
T ss_pred             ccccccccccccccc
Confidence            568899999987754

>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=99.45  E-value=9.2e-15  Score=129.18  Aligned_cols=67  Identities=13%  Similarity=0.117  Sum_probs=44.6

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccc
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSN  100 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~  100 (356)
                      ...+|++|++++| .+..   .........+++|++|.+.+|. +.+.....  ...+++|++|++++|.++++
T Consensus        44 ~~~~L~~LdLs~~-~i~~---~~l~~l~~~c~~L~~L~L~~~~-l~~~~~~~--l~~~~~L~~L~Ls~c~~itd  110 (284)
T d2astb2          44 SPFRVQHMDLSNS-VIEV---STLHGILSQCSKLQNLSLEGLR-LSDPIVNT--LAKNSNLVRLNLSGCSGFSE  110 (284)
T ss_dssp             CCBCCCEEECTTC-EECH---HHHHHHHTTBCCCSEEECTTCB-CCHHHHHH--HTTCTTCSEEECTTCBSCCH
T ss_pred             cCCCCCEEECCCC-ccCH---HHHHHHHHhCCCcccccccccC-CCcHHHHH--HhcCCCCcCccccccccccc
Confidence            5668999999887 3321   1111235678999999999984 43321111  13478999999999988764

>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=99.42  E-value=5e-12  Score=115.35  Aligned_cols=271  Identities=17%  Similarity=0.222  Sum_probs=140.6

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|++|++++. .++++.   .++++++|++|++++| .++.+      ..++.+++|+.|++.+.. +..++...   
T Consensus        65 L~nL~~L~Ls~N-~l~~l~---~l~~L~~L~~L~L~~n-~i~~i------~~l~~l~~L~~L~~~~~~-~~~~~~~~---  129 (384)
T d2omza2          65 LNNLTQINFSNN-QLTDIT---PLKNLTKLVDILMNNN-QIADI------TPLANLTNLTGLTLFNNQ-ITDIDPLK---  129 (384)
T ss_dssp             CTTCCEEECCSS-CCCCCG---GGTTCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSSC-CCCCGGGT---
T ss_pred             CCCCCEEeCcCC-cCCCCc---cccCCccccccccccc-ccccc------cccccccccccccccccc-cccccccc---
Confidence            678999999887 455542   2568999999999999 56544      346788999999987743 33332111   


Q ss_pred             cCCCCccEEEEccC-----------------------CCccccCchhhh----h-----ccccccccccchhhhhccccc
Q 044144           82 ESFNELKIIQAYNC-----------------------DKLSNIFWLSTV----V-----NHSSTVVNCSKMKEIFAIGEE  129 (356)
Q Consensus        82 ~~l~~L~~L~l~~c-----------------------~~l~~~~~l~~l----l-----~~L~~i~~c~~L~~l~~~~~~  129 (356)
                       ....+........                       .....+......    .     ........++.+..+......
T Consensus       130 -~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~  208 (384)
T d2omza2         130 -NLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQ  208 (384)
T ss_dssp             -TCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC
T ss_pred             -ccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccCCc
Confidence             1122222221110                       000000000000    0     000012222222222211111


Q ss_pred             ccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEec
Q 044144          130 VDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEIS  209 (356)
Q Consensus       130 ~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~  209 (356)
                      ..........++|++|.+.++. ++.++.               ...+..++.+++..+.-..+ ..+..+++|+.|++.
T Consensus       209 i~~~~~~~~~~~L~~L~l~~n~-l~~~~~---------------l~~l~~L~~L~l~~n~l~~~-~~~~~~~~L~~L~l~  271 (384)
T d2omza2         209 ISDITPLGILTNLDELSLNGNQ-LKDIGT---------------LASLTNLTDLDLANNQISNL-APLSGLTKLTELKLG  271 (384)
T ss_dssp             CCCCGGGGGCTTCCEEECCSSC-CCCCGG---------------GGGCTTCSEEECCSSCCCCC-GGGTTCTTCSEEECC
T ss_pred             cCCCCcccccCCCCEEECCCCC-CCCcch---------------hhcccccchhccccCccCCC-CcccccccCCEeecc
Confidence            1111223456788888887753 333221               01333466666665542222 235667888888888


Q ss_pred             ceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCC
Q 044144          210 AINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFP  289 (356)
Q Consensus       210 ~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~  289 (356)
                      +++++.+      +.  +..++.++.+.+.++ .+..+   .....+++++.|+++++. ++.+.   ....      ++
T Consensus       272 ~~~l~~~------~~--~~~~~~l~~l~~~~n-~l~~~---~~~~~~~~l~~L~ls~n~-l~~l~---~l~~------l~  329 (384)
T d2omza2         272 ANQISNI------SP--LAGLTALTNLELNEN-QLEDI---SPISNLKNLTYLTLYFNN-ISDIS---PVSS------LT  329 (384)
T ss_dssp             SSCCCCC------GG--GTTCTTCSEEECCSS-CCSCC---GGGGGCTTCSEEECCSSC-CSCCG---GGGG------CT
T ss_pred             CcccCCC------Cc--ccccccccccccccc-ccccc---cccchhcccCeEECCCCC-CCCCc---cccc------CC
Confidence            7766542      21  335566677766553 44444   234556777777777663 44431   1222      66


Q ss_pred             ccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          290 QLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       290 ~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      +|++|++++| +++.++. .  ..+++|++|++.+| +++.++
T Consensus       330 ~L~~L~L~~n-~l~~l~~-l--~~l~~L~~L~l~~N-~l~~l~  367 (384)
T d2omza2         330 KLQRLFFANN-KVSDVSS-L--ANLTNINWLSAGHN-QISDLT  367 (384)
T ss_dssp             TCCEEECCSS-CCCCCGG-G--GGCTTCCEEECCSS-CCCBCG
T ss_pred             CCCEEECCCC-CCCCChh-H--cCCCCCCEEECCCC-cCCCCh
Confidence            7777777776 5666542 1  45677777777665 455554

>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=99.40  E-value=1.1e-11  Score=110.02  Aligned_cols=109  Identities=14%  Similarity=0.212  Sum_probs=77.9

Q ss_pred             CCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCC
Q 044144          200 LPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRA  279 (356)
Q Consensus       200 l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~  279 (356)
                      +++|+.|.+.++..+..     .+ ..+..++.++.|+++++ .+..+ +...+.++++|++|++++|. ++.+  +++.
T Consensus       170 ~~~L~~L~l~~n~~~~~-----~~-~~~~~~~~l~~L~~s~n-~l~~~-~~~~~~~l~~L~~L~L~~N~-L~~l--p~~l  238 (305)
T d1xkua_         170 PPSLTELHLDGNKITKV-----DA-ASLKGLNNLAKLGLSFN-SISAV-DNGSLANTPHLRELHLNNNK-LVKV--PGGL  238 (305)
T ss_dssp             CTTCSEEECTTSCCCEE-----CT-GGGTTCTTCCEEECCSS-CCCEE-CTTTGGGSTTCCEEECCSSC-CSSC--CTTT
T ss_pred             CCccCEEECCCCcCCCC-----Ch-hHhhccccccccccccc-ccccc-ccccccccccceeeeccccc-cccc--cccc
Confidence            57889999888855552     11 13667788889988775 77777 55777888999999999884 7665  2444


Q ss_pred             CcCcccccCCccCeeeccccccceeecCCCC-----cCCCCcccEEeeccCc
Q 044144          280 DEVIPYFVFPQLTTLILQYLPKLRCLYPGMH-----TSEWPALEIFSVFRCD  326 (356)
Q Consensus       280 ~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~-----~~~~~~L~~L~i~~C~  326 (356)
                      ..      +++|++|+++++ +++.++....     ....++|+.|++.+++
T Consensus       239 ~~------l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         239 AD------HKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             TT------CSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             cc------ccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            44      789999999886 6888754321     1345678888888876

>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=99.39  E-value=1.3e-13  Score=121.64  Aligned_cols=40  Identities=10%  Similarity=0.047  Sum_probs=26.4

Q ss_pred             ccCcccceeeccccccccccccccccccCCCCccEEEEccCC
Q 044144           55 DAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        55 ~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      ....+|++|++++|. +..-....+ ...+++|++|++++|+
T Consensus        43 ~~~~~L~~LdLs~~~-i~~~~l~~l-~~~c~~L~~L~L~~~~   82 (284)
T d2astb2          43 FSPFRVQHMDLSNSV-IEVSTLHGI-LSQCSKLQNLSLEGLR   82 (284)
T ss_dssp             CCCBCCCEEECTTCE-ECHHHHHHH-HTTBCCCSEEECTTCB
T ss_pred             ccCCCCCEEECCCCc-cCHHHHHHH-HHhCCCcccccccccC
Confidence            345689999999875 322111111 2457999999999994

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.31  E-value=2.7e-11  Score=107.76  Aligned_cols=62  Identities=11%  Similarity=0.049  Sum_probs=37.0

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccc-ccccccccccCCCCccEEEEccCC
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINME-RIWIDQLKVESFNELKIIQAYNCD   96 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~-~l~~~~~~~~~l~~L~~L~l~~c~   96 (356)
                      .+++.|++.++ ++...  ...+..++.+++|++|++.++.++. .+|...   +.+++|++|+++++.
T Consensus        50 ~~v~~L~L~~~-~l~g~--~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i---~~L~~L~~L~Ls~N~  112 (313)
T d1ogqa_          50 YRVNNLDLSGL-NLPKP--YPIPSSLANLPYLNFLYIGGINNLVGPIPPAI---AKLTQLHYLYITHTN  112 (313)
T ss_dssp             CCEEEEEEECC-CCSSC--EECCGGGGGCTTCSEEEEEEETTEESCCCGGG---GGCTTCSEEEEEEEC
T ss_pred             EEEEEEECCCC-CCCCC--CCCChHHhcCcccccccccccccccccccccc---ccccccchhhhcccc
Confidence            35777777776 33210  0013456677777777777765555 444433   557777777777763

>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=99.29  E-value=6.2e-11  Score=104.93  Aligned_cols=228  Identities=19%  Similarity=0.190  Sum_probs=138.8

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCc--hhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFW--LST  106 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~--l~~  106 (356)
                      +++++|+++++ +++.+..    .++..+++|++|++.++. +..++...  ...+++|+.|++.++ +++.++.  ...
T Consensus        31 ~~l~~L~Ls~N-~i~~l~~----~~f~~l~~L~~L~l~~n~-~~~i~~~~--f~~l~~L~~L~l~~n-~l~~l~~~~~~~  101 (305)
T d1xkua_          31 PDTALLDLQNN-KITEIKD----GDFKNLKNLHTLILINNK-ISKISPGA--FAPLVKLERLYLSKN-QLKELPEKMPKT  101 (305)
T ss_dssp             TTCCEEECCSS-CCCCBCT----TTTTTCTTCCEEECCSSC-CCCBCTTT--TTTCTTCCEEECCSS-CCSBCCSSCCTT
T ss_pred             CCCCEEECcCC-cCCCcCh----hHhhcccccccccccccc-ccccchhh--hhCCCccCEecccCC-ccCcCccchhhh
Confidence            67889999888 6776621    245677888888888865 44442221  245788888888876 3444432  111


Q ss_pred             hhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceee
Q 044144          107 VVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEIT  186 (356)
Q Consensus       107 ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~  186 (356)
                      + ..| ...+.. +..++.        ........+..+.....+...                                
T Consensus       102 l-~~L-~~~~n~-l~~l~~--------~~~~~~~~~~~l~~~~n~~~~--------------------------------  138 (305)
T d1xkua_         102 L-QEL-RVHENE-ITKVRK--------SVFNGLNQMIVVELGTNPLKS--------------------------------  138 (305)
T ss_dssp             C-CEE-ECCSSC-CCBBCH--------HHHTTCTTCCEEECCSSCCCG--------------------------------
T ss_pred             h-hhh-hccccc-hhhhhh--------hhhhccccccccccccccccc--------------------------------
Confidence            1 222 111100 000000        000111222222222211100                                


Q ss_pred             cCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEec
Q 044144          187 LDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       187 ~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~  266 (356)
                         ..........+++|+.+.+.+++++.      +|.   ..+++|++|++.++... .. +...+..++.++.|++++
T Consensus       139 ---~~~~~~~~~~l~~L~~l~l~~n~l~~------l~~---~~~~~L~~L~l~~n~~~-~~-~~~~~~~~~~l~~L~~s~  204 (305)
T d1xkua_         139 ---SGIENGAFQGMKKLSYIRIADTNITT------IPQ---GLPPSLTELHLDGNKIT-KV-DAASLKGLNNLAKLGLSF  204 (305)
T ss_dssp             ---GGBCTTGGGGCTTCCEEECCSSCCCS------CCS---SCCTTCSEEECTTSCCC-EE-CTGGGTTCTTCCEEECCS
T ss_pred             ---cCCCccccccccccCccccccCCccc------cCc---ccCCccCEEECCCCcCC-CC-ChhHhhcccccccccccc
Confidence               01122234567899999999987765      332   14689999999886544 33 345677889999999999


Q ss_pred             CcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc
Q 044144          267 CEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       267 c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                      +. +..+. +.....      +++|++|++.++ +++.++...  ..+++|+.|+++++ +++.++..
T Consensus       205 n~-l~~~~-~~~~~~------l~~L~~L~L~~N-~L~~lp~~l--~~l~~L~~L~Ls~N-~i~~i~~~  260 (305)
T d1xkua_         205 NS-ISAVD-NGSLAN------TPHLRELHLNNN-KLVKVPGGL--ADHKYIQVVYLHNN-NISAIGSN  260 (305)
T ss_dssp             SC-CCEEC-TTTGGG------STTCCEEECCSS-CCSSCCTTT--TTCSSCCEEECCSS-CCCCCCTT
T ss_pred             cc-ccccc-cccccc------cccceeeecccc-ccccccccc--ccccCCCEEECCCC-ccCccChh
Confidence            85 76663 233333      889999999998 899987654  67999999999997 58888643

>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=99.27  E-value=1.8e-11  Score=103.83  Aligned_cols=58  Identities=9%  Similarity=0.090  Sum_probs=40.0

Q ss_pred             cccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           26 EGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        26 ~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      ..+.+|+.|++.+| +++.+      ..+..+++|++|+++++ .+..+.    +...+++|+.++++++
T Consensus        38 ~~l~~L~~L~l~~~-~i~~l------~~l~~l~~L~~L~ls~n-~i~~~~----~l~~l~~l~~l~~~~n   95 (227)
T d1h6ua2          38 ADLDGITTLSAFGT-GVTTI------EGVQYLNNLIGLELKDN-QITDLA----PLKNLTKITELELSGN   95 (227)
T ss_dssp             HHHHTCCEEECTTS-CCCCC------TTGGGCTTCCEEECCSS-CCCCCG----GGTTCCSCCEEECCSC
T ss_pred             HHcCCcCEEECCCC-CCCcc------hhHhcCCCCcEeecCCc-eeeccc----cccccccccccccccc
Confidence            46778888888887 56644      34667888888888885 344442    2355788888887765

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=1e-10  Score=101.53  Aligned_cols=176  Identities=19%  Similarity=0.185  Sum_probs=101.9

Q ss_pred             cccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCccccc
Q 044144           58 PLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKI  137 (356)
Q Consensus        58 ~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~  137 (356)
                      +++++|+|++ ..++.++.+.+  ..+++|++|+++++ +++.++.                                ..
T Consensus        31 ~~l~~L~Ls~-N~i~~l~~~~f--~~l~~L~~L~L~~N-~l~~l~~--------------------------------~~   74 (266)
T d1p9ag_          31 KDTTILHLSE-NLLYTFSLATL--MPYTRLTQLNLDRA-ELTKLQV--------------------------------DG   74 (266)
T ss_dssp             TTCCEEECTT-SCCSEEEGGGG--TTCTTCCEEECTTS-CCCEEEC--------------------------------CS
T ss_pred             cCCCEEECcC-CcCCCcCHHHh--hccccccccccccc-ccccccc--------------------------------cc
Confidence            5788888888 45666654322  34778888888775 3332221                                12


Q ss_pred             ccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEc
Q 044144          138 ELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIW  217 (356)
Q Consensus       138 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~  217 (356)
                      .+++|++|++++.. ++..                                     +.....+++|+.|++.++.+..  
T Consensus        75 ~l~~L~~L~Ls~N~-l~~~-------------------------------------~~~~~~l~~L~~L~l~~~~~~~--  114 (266)
T d1p9ag_          75 TLPVLGTLDLSHNQ-LQSL-------------------------------------PLLGQTLPALTVLDVSFNRLTS--  114 (266)
T ss_dssp             CCTTCCEEECCSSC-CSSC-------------------------------------CCCTTTCTTCCEEECCSSCCCC--
T ss_pred             cccccccccccccc-cccc-------------------------------------ccccccccccccccccccccce--
Confidence            34778888887753 3321                                     1122445667777777665444  


Q ss_pred             ccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeecc
Q 044144          218 HYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQ  297 (356)
Q Consensus       218 ~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~  297 (356)
                          ++...+..+.+++.|++.+ +.+..+ +......+++|+.++++++. ++.+. ++....      +++|++|+++
T Consensus       115 ----~~~~~~~~l~~l~~L~l~~-n~l~~l-~~~~~~~l~~l~~l~l~~N~-l~~~~-~~~~~~------l~~L~~L~Ls  180 (266)
T d1p9ag_         115 ----LPLGALRGLGELQELYLKG-NELKTL-PPGLLTPTPKLEKLSLANNN-LTELP-AGLLNG------LENLDTLLLQ  180 (266)
T ss_dssp             ----CCSSTTTTCTTCCEEECTT-SCCCCC-CTTTTTTCTTCCEEECTTSC-CSCCC-TTTTTT------CTTCCEEECC
T ss_pred             ----eeccccccccccccccccc-ccccee-ccccccccccchhccccccc-ccccC-cccccc------ccccceeecc
Confidence                2222344566677777755 355555 55555666677777777654 54442 222232      6677777776


Q ss_pred             ccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          298 YLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       298 ~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      ++ ++++++.+.  ..+++|+.|++.+.|
T Consensus       181 ~N-~L~~lp~~~--~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         181 EN-SLYTIPKGF--FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             SS-CCCCCCTTT--TTTCCCSEEECCSCC
T ss_pred             cC-CCcccChhH--CCCCCCCEEEecCCC
Confidence            65 466666654  456667777766543

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.21  E-value=8.5e-11  Score=99.57  Aligned_cols=80  Identities=10%  Similarity=0.152  Sum_probs=58.5

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++|+.|++.++ +++++ .  ..+.+++|++|+++++ .+..+      ..+..+++++.+.+.++ .+++++    ..
T Consensus        40 l~~L~~L~l~~~-~i~~l-~--~l~~l~~L~~L~ls~n-~i~~~------~~l~~l~~l~~l~~~~n-~~~~i~----~l  103 (227)
T d1h6ua2          40 LDGITTLSAFGT-GVTTI-E--GVQYLNNLIGLELKDN-QITDL------APLKNLTKITELELSGN-PLKNVS----AI  103 (227)
T ss_dssp             HHTCCEEECTTS-CCCCC-T--TGGGCTTCCEEECCSS-CCCCC------GGGTTCCSCCEEECCSC-CCSCCG----GG
T ss_pred             cCCcCEEECCCC-CCCcc-h--hHhcCCCCcEeecCCc-eeecc------ccccccccccccccccc-cccccc----cc
Confidence            467889999887 35544 2  3568999999999998 56543      34778899999999985 355552    12


Q ss_pred             cCCCCccEEEEccCCC
Q 044144           82 ESFNELKIIQAYNCDK   97 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~   97 (356)
                      ..+++|+.+.++++..
T Consensus       104 ~~l~~L~~l~l~~~~~  119 (227)
T d1h6ua2         104 AGLQSIKTLDLTSTQI  119 (227)
T ss_dssp             TTCTTCCEEECTTSCC
T ss_pred             cccccccccccccccc
Confidence            4588999999987743

>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=99.21  E-value=1.2e-10  Score=101.25  Aligned_cols=176  Identities=16%  Similarity=0.198  Sum_probs=109.2

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccCchhhhh
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIFWLSTVV  108 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~~l~~ll  108 (356)
                      +++++|+|+++ .++.+.    ...+..+++|++|+++++ +++.++..    ..+++|+.|+++++. +...+.     
T Consensus        31 ~~l~~L~Ls~N-~i~~l~----~~~f~~l~~L~~L~L~~N-~l~~l~~~----~~l~~L~~L~Ls~N~-l~~~~~-----   94 (266)
T d1p9ag_          31 KDTTILHLSEN-LLYTFS----LATLMPYTRLTQLNLDRA-ELTKLQVD----GTLPVLGTLDLSHNQ-LQSLPL-----   94 (266)
T ss_dssp             TTCCEEECTTS-CCSEEE----GGGGTTCTTCCEEECTTS-CCCEEECC----SCCTTCCEEECCSSC-CSSCCC-----
T ss_pred             cCCCEEECcCC-cCCCcC----HHHhhccccccccccccc-cccccccc----ccccccccccccccc-cccccc-----
Confidence            57999999998 787762    235677899999999995 67777432    468999999999863 332211     


Q ss_pred             ccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCCCCCCCCCCCCccccccccccceeecC
Q 044144          109 NHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKTPSASPNRPASQEESTTTYSSSEITLD  188 (356)
Q Consensus       109 ~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~i~~~  188 (356)
                                                .+..+++|+.|+++++... .+..                              
T Consensus        95 --------------------------~~~~l~~L~~L~l~~~~~~-~~~~------------------------------  117 (266)
T d1p9ag_          95 --------------------------LGQTLPALTVLDVSFNRLT-SLPL------------------------------  117 (266)
T ss_dssp             --------------------------CTTTCTTCCEEECCSSCCC-CCCS------------------------------
T ss_pred             --------------------------ccccccccccccccccccc-eeec------------------------------
Confidence                                      0123467777777765321 1111                              


Q ss_pred             CccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          189 TSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       189 ~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                            .....+++++.|.+.++.++.      +|...+..+++|+.+++++ ++++.+ +...+..+++|++|+++++.
T Consensus       118 ------~~~~~l~~l~~L~l~~n~l~~------l~~~~~~~l~~l~~l~l~~-N~l~~~-~~~~~~~l~~L~~L~Ls~N~  183 (266)
T d1p9ag_         118 ------GALRGLGELQELYLKGNELKT------LPPGLLTPTPKLEKLSLAN-NNLTEL-PAGLLNGLENLDTLLLQENS  183 (266)
T ss_dssp             ------STTTTCTTCCEEECTTSCCCC------CCTTTTTTCTTCCEEECTT-SCCSCC-CTTTTTTCTTCCEEECCSSC
T ss_pred             ------cccccccccccccccccccce------eccccccccccchhccccc-cccccc-CccccccccccceeecccCC
Confidence                  111334666777777665555      3333345566777777765 356665 55556666777777777764


Q ss_pred             ccceeeccCCCCcCcccccCCccCeeeccccc
Q 044144          269 DLQEIISENRADEVIPYFVFPQLTTLILQYLP  300 (356)
Q Consensus       269 ~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~  300 (356)
                       ++.+  ++++..      +++|+.|.|.+.|
T Consensus       184 -L~~l--p~~~~~------~~~L~~L~L~~Np  206 (266)
T d1p9ag_         184 -LYTI--PKGFFG------SHLLPFAFLHGNP  206 (266)
T ss_dssp             -CCCC--CTTTTT------TCCCSEEECCSCC
T ss_pred             -Cccc--ChhHCC------CCCCCEEEecCCC
Confidence             6554  233333      5667777776543

>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=99.21  E-value=1.7e-10  Score=101.14  Aligned_cols=62  Identities=19%  Similarity=0.304  Sum_probs=27.2

Q ss_pred             cCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          199 ALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       199 ~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      .+++|+.|++.+++++.+      +...+..+++|+.+++.++ ++..+ +...+..+++|++|+++++.
T Consensus       151 ~~~~L~~L~l~~N~l~~l------~~~~f~~l~~L~~l~l~~N-~l~~i-~~~~f~~l~~L~~L~l~~N~  212 (284)
T d1ozna_         151 DLGNLTHLFLHGNRISSV------PERAFRGLHSLDRLLLHQN-RVAHV-HPHAFRDLGRLMTLYLFANN  212 (284)
T ss_dssp             TCTTCCEEECCSSCCCEE------CTTTTTTCTTCCEEECCSS-CCCEE-CTTTTTTCTTCCEEECCSSC
T ss_pred             cccchhhcccccCccccc------chhhhccccccchhhhhhc-ccccc-ChhHhhhhhhcccccccccc
Confidence            344455555555544442      1112334455555555442 33333 22334444555555555443

>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=99.19  E-value=1.6e-10  Score=102.69  Aligned_cols=89  Identities=15%  Similarity=0.084  Sum_probs=61.6

Q ss_pred             cceEEeeCcccCceeeccccCccccCCCcEEEEecCCCce-EeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            4 NVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFF-CIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         4 ~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++..|+|.+.........+..++.+++|++|++++|.++. .+     +..++.+++|++|+++++ ++..++...  ..
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~i-----P~~i~~L~~L~~L~Ls~N-~l~~~~~~~--~~  122 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPI-----PPAIAKLTQLHYLYITHT-NVSGAIPDF--LS  122 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCC-----CGGGGGCTTCSEEEEEEE-CCEEECCGG--GG
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCcccccccccccccccccc-----ccccccccccchhhhccc-ccccccccc--cc
Confidence            5788899776432222223467799999999999876665 23     456888999999999995 454443222  24


Q ss_pred             CCCCccEEEEccCCCccc
Q 044144           83 SFNELKIIQAYNCDKLSN  100 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~  100 (356)
                      .+.+|+.++++++.....
T Consensus       123 ~~~~L~~l~l~~N~~~~~  140 (313)
T d1ogqa_         123 QIKTLVTLDFSYNALSGT  140 (313)
T ss_dssp             GCTTCCEEECCSSEEESC
T ss_pred             chhhhccccccccccccc
Confidence            578999999988654443

>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=99.17  E-value=1.4e-10  Score=96.19  Aligned_cols=57  Identities=16%  Similarity=0.117  Sum_probs=35.0

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      .++++++|++.++ +++.+      ..+..+++|++|+++++ .++.++.    ...+++|++|+++++
T Consensus        38 ~l~~l~~L~l~~~-~i~~l------~~l~~l~nL~~L~Ls~N-~l~~~~~----l~~l~~L~~L~l~~n   94 (199)
T d2omxa2          38 DLDQVTTLQADRL-GIKSI------DGVEYLNNLTQINFSNN-QLTDITP----LKNLTKLVDILMNNN   94 (199)
T ss_dssp             HHTTCCEEECTTS-CCCCC------TTGGGCTTCCEEECCSS-CCCCCGG----GTTCTTCCEEECCSS
T ss_pred             HhcCCCEEECCCC-CCCCc------cccccCCCcCcCccccc-cccCccc----ccCCccccccccccc
Confidence            4667777777776 45543      23456677777777774 4555421    245667777777665

>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=99.16  E-value=1.2e-10  Score=97.42  Aligned_cols=57  Identities=12%  Similarity=0.204  Sum_probs=27.6

Q ss_pred             ccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccC
Q 044144           27 GFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNC   95 (356)
Q Consensus        27 ~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c   95 (356)
                      .+..|+.|++.++ .++.+      ..+..+++|++|+++++ .+++++    +...+++|+.|+++++
T Consensus        44 ~L~~L~~L~l~~~-~i~~l------~~l~~l~~L~~L~L~~n-~i~~l~----~~~~l~~L~~L~l~~n  100 (210)
T d1h6ta2          44 ELNSIDQIIANNS-DIKSV------QGIQYLPNVTKLFLNGN-KLTDIK----PLANLKNLGWLFLDEN  100 (210)
T ss_dssp             HHHTCCEEECTTS-CCCCC------TTGGGCTTCCEEECCSS-CCCCCG----GGTTCTTCCEEECCSS
T ss_pred             HhcCccEEECcCC-CCCCc------hhHhhCCCCCEEeCCCc-cccCcc----ccccCccccccccccc
Confidence            3455666666555 34332      22444555666665553 343332    1133555555555554

>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=99.13  E-value=8e-10  Score=96.67  Aligned_cols=65  Identities=15%  Similarity=0.178  Sum_probs=41.1

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCcccc
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~  101 (356)
                      +.+++|+|+++ +++.+.    ...+..+++|++|++++. .+..+....  ...+..++++.+.....+..+
T Consensus        32 ~~~~~L~Ls~N-~i~~i~----~~~f~~l~~L~~L~ls~n-~l~~i~~~~--~~~~~~~~~l~~~~~~~~~~l   96 (284)
T d1ozna_          32 AASQRIFLHGN-RISHVP----AASFRACRNLTILWLHSN-VLARIDAAA--FTGLALLEQLDLSDNAQLRSV   96 (284)
T ss_dssp             TTCSEEECTTS-CCCEEC----TTTTTTCTTCCEEECCSS-CCCEECTTT--TTTCTTCCEEECCSCTTCCCC
T ss_pred             CCCCEEECcCC-cCCCCC----HHHhhccccccccccccc-ccccccccc--ccccccccccccccccccccc
Confidence            46788888887 677772    234566788888888773 455553322  123567777777666555544

>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=99.09  E-value=6.8e-10  Score=92.78  Aligned_cols=164  Identities=19%  Similarity=0.260  Sum_probs=106.2

Q ss_pred             CcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeecccccccccccccccccc
Q 044144            3 NNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVE   82 (356)
Q Consensus         3 ~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~   82 (356)
                      ++++.|++.++. ++++.   ..+.+++|++|+++++ +++.+      ...+.+++|+.|+++++ .+++++.    ..
T Consensus        46 ~~L~~L~l~~~~-i~~l~---~l~~l~~L~~L~L~~n-~i~~l------~~~~~l~~L~~L~l~~n-~i~~l~~----l~  109 (210)
T d1h6ta2          46 NSIDQIIANNSD-IKSVQ---GIQYLPNVTKLFLNGN-KLTDI------KPLANLKNLGWLFLDEN-KVKDLSS----LK  109 (210)
T ss_dssp             HTCCEEECTTSC-CCCCT---TGGGCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSS-CCCCGGG----GT
T ss_pred             cCccEEECcCCC-CCCch---hHhhCCCCCEEeCCCc-cccCc------cccccCccccccccccc-ccccccc----cc
Confidence            467888887763 44432   2458999999999998 67654      34567899999999985 5766642    24


Q ss_pred             CCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCCC
Q 044144           83 SFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVKT  162 (356)
Q Consensus        83 ~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~  162 (356)
                      .+++|+.|++.++.... +.   .+                             ..++.++.+.+.++. ++..      
T Consensus       110 ~l~~L~~L~l~~~~~~~-~~---~l-----------------------------~~l~~l~~l~~~~n~-l~~~------  149 (210)
T d1h6ta2         110 DLKKLKSLSLEHNGISD-IN---GL-----------------------------VHLPQLESLYLGNNK-ITDI------  149 (210)
T ss_dssp             TCTTCCEEECTTSCCCC-CG---GG-----------------------------GGCTTCCEEECCSSC-CCCC------
T ss_pred             ccccccccccccccccc-cc---cc-----------------------------ccccccccccccccc-cccc------
Confidence            58999999998875321 11   11                             123566666665532 2111      


Q ss_pred             CCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCc
Q 044144          163 PSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCN  242 (356)
Q Consensus       163 ~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~  242 (356)
                                                      .....+++|+.+.+.++++++      ++.  +..+++|++|+++++ 
T Consensus       150 --------------------------------~~~~~l~~L~~l~l~~n~l~~------i~~--l~~l~~L~~L~Ls~N-  188 (210)
T d1h6ta2         150 --------------------------------TVLSRLTKLDTLSLEDNQISD------IVP--LAGLTKLQNLYLSKN-  188 (210)
T ss_dssp             --------------------------------GGGGGCTTCSEEECCSSCCCC------CGG--GTTCTTCCEEECCSS-
T ss_pred             --------------------------------ccccccccccccccccccccc------ccc--ccCCCCCCEEECCCC-
Confidence                                            112346778888887776665      222  446778888888765 


Q ss_pred             CccccchhhhhhhcCCCCeEEEec
Q 044144          243 KLKYIFSASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       243 ~l~~l~~~~~~~~l~~L~~L~i~~  266 (356)
                      +++++ +  .+..+++|+.|++++
T Consensus       189 ~i~~l-~--~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         189 HISDL-R--ALAGLKNLDVLELFS  209 (210)
T ss_dssp             CCCBC-G--GGTTCTTCSEEEEEE
T ss_pred             CCCCC-h--hhcCCCCCCEEEccC
Confidence            56666 4  356677888887753

>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=99.07  E-value=1e-09  Score=90.84  Aligned_cols=161  Identities=21%  Similarity=0.295  Sum_probs=105.2

Q ss_pred             CCcceEEeeCcccCceeeccccCccccCCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccc
Q 044144            2 INNVECLWLDKLQGIENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKV   81 (356)
Q Consensus         2 ~~~l~~L~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~   81 (356)
                      +++++.|++.++. +.++ .  ..+.+++|++|+++++ +++.+      ..+..+++|++|.+.++. +..++    ..
T Consensus        39 l~~l~~L~l~~~~-i~~l-~--~l~~l~nL~~L~Ls~N-~l~~~------~~l~~l~~L~~L~l~~n~-~~~~~----~l  102 (199)
T d2omxa2          39 LDQVTTLQADRLG-IKSI-D--GVEYLNNLTQINFSNN-QLTDI------TPLKNLTKLVDILMNNNQ-IADIT----PL  102 (199)
T ss_dssp             HTTCCEEECTTSC-CCCC-T--TGGGCTTCCEEECCSS-CCCCC------GGGTTCTTCCEEECCSSC-CCCCG----GG
T ss_pred             hcCCCEEECCCCC-CCCc-c--ccccCCCcCcCccccc-cccCc------ccccCCcccccccccccc-ccccc----cc
Confidence            4578889998763 4443 2  3468999999999998 67644      347789999999999864 44442    23


Q ss_pred             cCCCCccEEEEccCCCccccCchhhhhccccccccccchhhhhcccccccCcccccccccccEEecCCCCCcceeecCCC
Q 044144           82 ESFNELKIIQAYNCDKLSNIFWLSTVVNHSSTVVNCSKMKEIFAIGEEVDNSIEKIELAQLRYLSLGNLPEVTSFCREVK  161 (356)
Q Consensus        82 ~~l~~L~~L~l~~c~~l~~~~~l~~ll~~L~~i~~c~~L~~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  161 (356)
                      ..+++|+.|+++++.... ..   .                             +..+++|+.+.++++. +..+     
T Consensus       103 ~~l~~L~~L~l~~~~~~~-~~---~-----------------------------~~~l~~L~~L~l~~n~-l~~~-----  143 (199)
T d2omxa2         103 ANLTNLTGLTLFNNQITD-ID---P-----------------------------LKNLTNLNRLELSSNT-ISDI-----  143 (199)
T ss_dssp             TTCTTCSEEECCSSCCCC-CG---G-----------------------------GTTCTTCSEEECCSSC-CCCC-----
T ss_pred             cccccccccccccccccc-cc---c-----------------------------cchhhhhHHhhhhhhh-hccc-----
Confidence            468899999988764432 11   1                             1234677888887653 2211     


Q ss_pred             CCCCCCCCCCCccccccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccC
Q 044144          162 TPSASPNRPASQEESTTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHC  241 (356)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c  241 (356)
                                                       +.+..+++|+.|.+.+|++++      ++.  +..+++|++|+++++
T Consensus       144 ---------------------------------~~l~~~~~L~~L~l~~n~l~~------l~~--l~~l~~L~~L~ls~N  182 (199)
T d2omxa2         144 ---------------------------------SALSGLTSLQQLNFSSNQVTD------LKP--LANLTTLERLDISSN  182 (199)
T ss_dssp             ---------------------------------GGGTTCTTCSEEECCSSCCCC------CGG--GTTCTTCCEEECCSS
T ss_pred             ---------------------------------ccccccccccccccccccccC------Ccc--ccCCCCCCEEECCCC
Confidence                                             123456778888888776665      222  456778888888775


Q ss_pred             cCccccchhhhhhhcCCCCeE
Q 044144          242 NKLKYIFSASMIGSLKHLQHL  262 (356)
Q Consensus       242 ~~l~~l~~~~~~~~l~~L~~L  262 (356)
                       +++++ +  .+..+++|++|
T Consensus       183 -~i~~i-~--~l~~L~~L~~L  199 (199)
T d2omxa2         183 -KVSDI-S--VLAKLTNLESL  199 (199)
T ss_dssp             -CCCCC-G--GGGGCTTCSEE
T ss_pred             -CCCCC-c--cccCCCCCCcC
Confidence             56666 3  34566777765

>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=99.06  E-value=4.3e-09  Score=89.47  Aligned_cols=67  Identities=19%  Similarity=0.090  Sum_probs=47.1

Q ss_pred             CCCcEEEEecCCCceEeecCCcccccccCcccceeeccccccccccccccccccCCCCccEEEEccCCCccccC
Q 044144           29 SQLKLLWVQNNPDFFCIVDSRAMVACDAFPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNIF  102 (356)
Q Consensus        29 ~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~~  102 (356)
                      +++++|+++++ .++.+..    .....+++|++|+++++...+.++.+.  ...+++++++.+.++.++....
T Consensus        29 ~~l~~L~Ls~n-~i~~l~~----~~f~~l~~L~~L~ls~n~~~~~i~~~~--f~~l~~l~~l~~~~~n~l~~~~   95 (242)
T d1xwdc1          29 RNAIELRFVLT-KLRVIQK----GAFSGFGDLEKIEISQNDVLEVIEADV--FSNLPKLHEIRIEKANNLLYIN   95 (242)
T ss_dssp             SCCSEEEEESC-CCCEECT----TTTTTCTTCCEEEEESCTTCCEECSSS--EESCTTCCEEEEECCTTCCEEC
T ss_pred             CCCCEEECcCC-cCCccCh----hHhhccchhhhhhhccccccceeeccc--cccccccccccccccccccccc
Confidence            58999999988 6887722    245678999999999876554443222  1347889999988887766443

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.98  E-value=1.4e-08  Score=90.49  Aligned_cols=60  Identities=23%  Similarity=0.151  Sum_probs=46.3

Q ss_pred             hcCCCCeEEEecCcccceeeccCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCcccccc
Q 044144          255 SLKHLQHLEVRFCEDLQEIISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAA  333 (356)
Q Consensus       255 ~l~~L~~L~i~~c~~l~~i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~  333 (356)
                      .+++|++|++++|. ++.+.  .   .      +++|+.|++.+| ++++++..     .++|++|++++|+ ++++|.
T Consensus       282 ~~~~L~~L~Ls~N~-l~~lp--~---~------~~~L~~L~L~~N-~L~~l~~~-----~~~L~~L~L~~N~-L~~lp~  341 (353)
T d1jl5a_         282 LPPSLEELNVSNNK-LIELP--A---L------PPRLERLIASFN-HLAEVPEL-----PQNLKQLHVEYNP-LREFPD  341 (353)
T ss_dssp             CCTTCCEEECCSSC-CSCCC--C---C------CTTCCEEECCSS-CCSCCCCC-----CTTCCEEECCSSC-CSSCCC
T ss_pred             cCCCCCEEECCCCc-cCccc--c---c------cCCCCEEECCCC-cCCccccc-----cCCCCEEECcCCc-CCCCCc
Confidence            35789999999985 65551  1   1      678999999877 78887653     4689999999987 999885

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=1e-08  Score=87.08  Aligned_cols=42  Identities=19%  Similarity=0.116  Sum_probs=29.8

Q ss_pred             CcccceeeccccccccccccccccccCCCCccEEEEccCCCcccc
Q 044144           57 FPLLESLILHNLINMERIWIDQLKVESFNELKIIQAYNCDKLSNI  101 (356)
Q Consensus        57 ~~~L~~L~l~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~~  101 (356)
                      ++++++|++++ ..++.++.+.+  ..+++|++|+++++.....+
T Consensus        28 ~~~l~~L~Ls~-n~i~~l~~~~f--~~l~~L~~L~ls~n~~~~~i   69 (242)
T d1xwdc1          28 PRNAIELRFVL-TKLRVIQKGAF--SGFGDLEKIEISQNDVLEVI   69 (242)
T ss_dssp             CSCCSEEEEES-CCCCEECTTTT--TTCTTCCEEEEESCTTCCEE
T ss_pred             CCCCCEEECcC-CcCCccChhHh--hccchhhhhhhcccccccee
Confidence            46889999988 45777754322  34789999999888665543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.81  E-value=9.8e-08  Score=84.87  Aligned_cols=41  Identities=24%  Similarity=0.053  Sum_probs=32.5

Q ss_pred             cCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccccc
Q 044144          287 VFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFAAD  334 (356)
Q Consensus       287 ~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~~~  334 (356)
                      .+++|++|++.+| +++.++.     .+++|+.|++.+| +++++|..
T Consensus       282 ~~~~L~~L~Ls~N-~l~~lp~-----~~~~L~~L~L~~N-~L~~l~~~  322 (353)
T d1jl5a_         282 LPPSLEELNVSNN-KLIELPA-----LPPRLERLIASFN-HLAEVPEL  322 (353)
T ss_dssp             CCTTCCEEECCSS-CCSCCCC-----CCTTCCEEECCSS-CCSCCCCC
T ss_pred             cCCCCCEEECCCC-ccCcccc-----ccCCCCEEECCCC-cCCccccc
Confidence            3679999999988 6777764     3689999999876 58888754

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.71  E-value=7.2e-09  Score=82.68  Aligned_cols=106  Identities=19%  Similarity=0.250  Sum_probs=74.2

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|+.|++++|+++++      +.  +..+++|++|+++++ ++..+ +......+++|++|++.+|. +..+....
T Consensus        38 ~~l~~L~~L~Ls~N~i~~l------~~--~~~l~~L~~L~ls~N-~i~~l-~~~~~~~l~~L~~L~L~~N~-i~~~~~l~  106 (162)
T d1a9na_          38 ATLDQFDAIDFSDNEIRKL------DG--FPLLRRLKTLLVNNN-RICRI-GEGLDQALPDLTELILTNNS-LVELGDLD  106 (162)
T ss_dssp             GGTTCCSEEECCSSCCCEE------CC--CCCCSSCCEEECCSS-CCCEE-CSCHHHHCTTCCEEECCSCC-CCCGGGGG
T ss_pred             cccccCCEEECCCCCCCcc------CC--cccCcchhhhhcccc-cccCC-Cccccccccccccceecccc-cccccccc
Confidence            4578999999999988874      21  557899999999885 67777 65667788999999999986 54442112


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCC--CCcCCCCcccEEe
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPG--MHTSEWPALEIFS  321 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~--~~~~~~~~L~~L~  321 (356)
                      ....      +++|++|++.+|+ ++..+..  .....+|+|+.|+
T Consensus       107 ~l~~------l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_         107 PLAS------LKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             GGGG------CTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             cccc------ccccchhhcCCCc-cccccchHHHHHHHCCCcCeeC
Confidence            2333      7899999999884 4444321  1124567777765

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.59  E-value=1.1e-07  Score=77.81  Aligned_cols=109  Identities=21%  Similarity=0.294  Sum_probs=59.4

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCC
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRAD  280 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~  280 (356)
                      +++++|++.+++++..     ++...|..+++|+.|++++ +++..+ +...+..+++|++|+++++. ++++. ++...
T Consensus        29 ~~l~~L~Ls~N~i~~~-----~~~~~f~~l~~L~~L~L~~-N~i~~~-~~~~~~~~~~L~~L~Ls~N~-l~~l~-~~~F~   99 (192)
T d1w8aa_          29 LHTTELLLNDNELGRI-----SSDGLFGRLPHLVKLELKR-NQLTGI-EPNAFEGASHIQELQLGENK-IKEIS-NKMFL   99 (192)
T ss_dssp             TTCSEEECCSCCCCSB-----CCSCSGGGCTTCCEEECCS-SCCCCB-CTTTTTTCTTCCEEECCSCC-CCEEC-SSSST
T ss_pred             CCCCEEEeCCCCCccc-----ccccccCCCceEeeeeccc-cccccc-cccccccccccceeeecccc-ccccC-HHHHh
Confidence            4566666666655431     2222355566666666655 344444 44555566666666666653 55542 22233


Q ss_pred             cCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          281 EVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       281 ~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                      .      +++|++|+|+++ +++.++.+.. ..+++|+++++.+.+
T Consensus       100 ~------l~~L~~L~L~~N-~l~~i~~~~f-~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_         100 G------LHQLKTLNLYDN-QISCVMPGSF-EHLNSLTSLNLASNP  137 (192)
T ss_dssp             T------CTTCCEEECCSS-CCCEECTTSS-TTCTTCCEEECTTCC
T ss_pred             C------CCcccccccCCc-cccccCHHHh-cCCcccccccccccc
Confidence            3      566666666654 5666655432 455666666665543

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.53  E-value=1.1e-07  Score=72.06  Aligned_cols=61  Identities=20%  Similarity=0.218  Sum_probs=32.8

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +..+++|++|+++++++++      +|. .+..+++|+.|++++ +.++.+ +  .+..+++|++|+++++.
T Consensus        16 l~~l~~L~~L~ls~N~l~~------lp~-~~~~l~~L~~L~l~~-N~i~~l-~--~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRA------LPP-ALAALRCLEVLQASD-NALENV-D--GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCC------CCG-GGGGCTTCCEEECCS-SCCCCC-G--GGTTCSSCCEEECCSSC
T ss_pred             cccCCCCCEEECCCCccCc------chh-hhhhhhccccccccc-cccccc-C--ccccccccCeEECCCCc
Confidence            4555666666666665554      222 144556666666655 355554 3  24455666666666543

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=6.1e-08  Score=77.09  Aligned_cols=114  Identities=16%  Similarity=0.127  Sum_probs=85.0

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      .++.++++|++++++++.+      +. .+..+++|+.|+++++ .++.+ +  .+..+++|++|++++|. ++.+. +.
T Consensus        15 ~n~~~lr~L~L~~n~I~~i------~~-~~~~l~~L~~L~Ls~N-~i~~l-~--~~~~l~~L~~L~ls~N~-i~~l~-~~   81 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVI------EN-LGATLDQFDAIDFSDN-EIRKL-D--GFPLLRRLKTLLVNNNR-ICRIG-EG   81 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSC------CC-GGGGTTCCSEEECCSS-CCCEE-C--CCCCCSSCCEEECCSSC-CCEEC-SC
T ss_pred             cCcCcCcEEECCCCCCCcc------Cc-cccccccCCEEECCCC-CCCcc-C--CcccCcchhhhhccccc-ccCCC-cc
Confidence            4567899999999988873      22 2346899999999984 78877 3  46788999999999987 76663 11


Q ss_pred             CCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCcCccccc
Q 044144          278 RADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCDKLKIFA  332 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~l~~l~  332 (356)
                      ....      +++|++|.+.++ ++++++.-.....+++|+.+++.+|+ ++.+|
T Consensus        82 ~~~~------l~~L~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~  128 (162)
T d1a9na_          82 LDQA------LPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNP-VTNKK  128 (162)
T ss_dssp             HHHH------CTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSG-GGGST
T ss_pred             cccc------ccccccceeccc-cccccccccccccccccchhhcCCCc-ccccc
Confidence            1222      789999999987 67766543223678999999999986 44443

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.37  E-value=2.4e-07  Score=70.01  Aligned_cols=101  Identities=17%  Similarity=0.259  Sum_probs=65.2

Q ss_pred             CeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCcCc
Q 044144          204 EALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADEVI  283 (356)
Q Consensus       204 ~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~~~  283 (356)
                      |.|+++++++++      ++.  +..+++|++|++++ ++++.+ |. .+..+++|+.|+++++. ++.+   .+...  
T Consensus         1 R~L~Ls~n~l~~------l~~--l~~l~~L~~L~ls~-N~l~~l-p~-~~~~l~~L~~L~l~~N~-i~~l---~~~~~--   63 (124)
T d1dcea3           1 RVLHLAHKDLTV------LCH--LEQLLLVTHLDLSH-NRLRAL-PP-ALAALRCLEVLQASDNA-LENV---DGVAN--   63 (124)
T ss_dssp             SEEECTTSCCSS------CCC--GGGGTTCCEEECCS-SCCCCC-CG-GGGGCTTCCEEECCSSC-CCCC---GGGTT--
T ss_pred             CEEEcCCCCCCC------Ccc--cccCCCCCEEECCC-CccCcc-hh-hhhhhhccccccccccc-cccc---Ccccc--
Confidence            356677776665      332  45677788888865 567776 53 35667888888888754 6554   23333  


Q ss_pred             ccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          284 PYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       284 ~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                          +++|++|++.++ ++++++.......+++|+.+++.+.+
T Consensus        64 ----l~~L~~L~l~~N-~i~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          64 ----LPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             ----CSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             ----ccccCeEECCCC-ccCCCCCchhhcCCCCCCEEECCCCc
Confidence                778888888765 66666543333567788888877744

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.34  E-value=9.2e-07  Score=71.99  Aligned_cols=86  Identities=24%  Similarity=0.293  Sum_probs=52.5

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccC
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISEN  277 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~  277 (356)
                      ..+++|+.|++.++++..      ++...+..+++|++|++++ ++++.+ +...+.++++|++|+++++. ++.+. ++
T Consensus        51 ~~l~~L~~L~L~~N~i~~------~~~~~~~~~~~L~~L~Ls~-N~l~~l-~~~~F~~l~~L~~L~L~~N~-l~~i~-~~  120 (192)
T d1w8aa_          51 GRLPHLVKLELKRNQLTG------IEPNAFEGASHIQELQLGE-NKIKEI-SNKMFLGLHQLKTLNLYDNQ-ISCVM-PG  120 (192)
T ss_dssp             GGCTTCCEEECCSSCCCC------BCTTTTTTCTTCCEEECCS-CCCCEE-CSSSSTTCTTCCEEECCSSC-CCEEC-TT
T ss_pred             CCCceEeeeecccccccc------ccccccccccccceeeecc-cccccc-CHHHHhCCCcccccccCCcc-ccccC-HH
Confidence            456677777777766655      2222355667777777765 466666 55666667777777777754 65552 23


Q ss_pred             CCCcCcccccCCccCeeecccc
Q 044144          278 RADEVIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       278 ~~~~~~~~~~l~~L~~L~l~~c  299 (356)
                      ....      +++|++|++.+.
T Consensus       121 ~f~~------l~~L~~l~L~~N  136 (192)
T d1w8aa_         121 SFEH------LNSLTSLNLASN  136 (192)
T ss_dssp             SSTT------CTTCCEEECTTC
T ss_pred             HhcC------Cccccccccccc
Confidence            3333      667777777654

>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=98.28  E-value=1.7e-06  Score=67.98  Aligned_cols=67  Identities=15%  Similarity=0.251  Sum_probs=31.9

Q ss_pred             ccccccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          194 FNEKVALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       194 ~~~~~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      +..+..+++|++|.+.++ .++.+      +...|..+++|+.|++++ ++++.+ +...+..+++|++|+++++.
T Consensus        24 p~~l~~l~~l~~L~l~~n~~l~~i------~~~~f~~l~~L~~L~Ls~-N~l~~i-~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          24 LHHLPGAENLTELYIENQQHLQHL------ELRDLRGLGELRNLTIVK-SGLRFV-APDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             TTTSCSCSCCSEEECCSCSSCCEE------CGGGSCSCCCCSEEECCS-SCCCEE-CTTGGGSCSCCCEEECCSSC
T ss_pred             cccccCccccCeeecCCCcccccc------CchhhccccccCcceeec-cccCCc-ccccccccccccceeccCCC
Confidence            333344455555555544 35442      211244455555555544 245554 33444555555555555543

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.17  E-value=3.1e-08  Score=81.63  Aligned_cols=79  Identities=15%  Similarity=0.124  Sum_probs=35.0

Q ss_pred             ccccccceeecCCccccccccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhc
Q 044144          177 TTTYSSSEITLDTSTLLFNEKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSL  256 (356)
Q Consensus       177 ~~~l~~l~i~~~~~~~l~~~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l  256 (356)
                      +..++.|+++.+.-..+ +.+..+++|+.|++.+|.+++      +|. ....+++|+.|++.++ +++.+ +  .+..+
T Consensus        47 L~~L~~L~Ls~n~I~~i-~~l~~l~~L~~L~Ls~N~i~~------i~~-~~~~~~~L~~L~l~~N-~i~~l-~--~~~~l  114 (198)
T d1m9la_          47 LKACKHLALSTNNIEKI-SSLSGMENLRILSLGRNLIKK------IEN-LDAVADTLEELWISYN-QIASL-S--GIEKL  114 (198)
T ss_dssp             TTTCCEEECSEEEESCC-CCHHHHTTCCEEECCEEEECS------CSS-HHHHHHHCCEEECSEE-ECCCH-H--HHHHH
T ss_pred             ccccceeECcccCCCCc-ccccCCccccChhhccccccc------ccc-cccccccccccccccc-ccccc-c--ccccc
Confidence            33445555444332222 234445555555555555444      111 0112344555555442 44443 2  23445


Q ss_pred             CCCCeEEEecC
Q 044144          257 KHLQHLEVRFC  267 (356)
Q Consensus       257 ~~L~~L~i~~c  267 (356)
                      ++|+.|+++++
T Consensus       115 ~~L~~L~L~~N  125 (198)
T d1m9la_         115 VNLRVLYMSNN  125 (198)
T ss_dssp             HHSSEEEESEE
T ss_pred             ccccccccccc
Confidence            55555555554

>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=98.16  E-value=3.2e-06  Score=66.29  Aligned_cols=106  Identities=17%  Similarity=0.124  Sum_probs=76.1

Q ss_pred             CcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeeccCCCCc
Q 044144          202 NLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIISENRADE  281 (356)
Q Consensus       202 ~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~~~~~~~  281 (356)
                      ..+.++..+.++.+      .|. .+..+++|++|++.+.+.++.+ +...+..+++|+.|+++++. +..+. +.....
T Consensus         9 ~~~~l~c~~~~~~~------~p~-~l~~l~~l~~L~l~~n~~l~~i-~~~~f~~l~~L~~L~Ls~N~-l~~i~-~~~f~~   78 (156)
T d2ifga3           9 GSSGLRCTRDGALD------SLH-HLPGAENLTELYIENQQHLQHL-ELRDLRGLGELRNLTIVKSG-LRFVA-PDAFHF   78 (156)
T ss_dssp             SSSCEECCSSCCCT------TTT-TSCSCSCCSEEECCSCSSCCEE-CGGGSCSCCCCSEEECCSSC-CCEEC-TTGGGS
T ss_pred             CCCeEEecCCCCcc------Ccc-cccCccccCeeecCCCcccccc-CchhhccccccCcceeeccc-cCCcc-cccccc
Confidence            33445555544443      232 2556788999999877778888 76778889999999999876 77773 333444


Q ss_pred             CcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          282 VIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       282 ~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                            +++|++|+|+++ +++.++.+.  .....|+.|++.+.|
T Consensus        79 ------l~~L~~L~Ls~N-~l~~l~~~~--~~~~~l~~L~L~~Np  114 (156)
T d2ifga3          79 ------TPRLSRLNLSFN-ALESLSWKT--VQGLSLQELVLSGNP  114 (156)
T ss_dssp             ------CSCCCEEECCSS-CCSCCCSTT--TCSCCCCEEECCSSC
T ss_pred             ------cccccceeccCC-CCcccChhh--hccccccccccCCCc
Confidence                  789999999876 788888776  344579999998765

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.90  E-value=2.8e-07  Score=75.68  Aligned_cols=109  Identities=17%  Similarity=0.174  Sum_probs=61.9

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCcccceeec
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCEDLQEIIS  275 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~~l~~i~~  275 (356)
                      .+..+++|+.|+++++++++      ++.  +..+++|+.|+++++ .++++ + .....+++|+.|+++++. ++.+  
T Consensus        43 sl~~L~~L~~L~Ls~n~I~~------i~~--l~~l~~L~~L~Ls~N-~i~~i-~-~~~~~~~~L~~L~l~~N~-i~~l--  108 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNIEK------ISS--LSGMENLRILSLGRN-LIKKI-E-NLDAVADTLEELWISYNQ-IASL--  108 (198)
T ss_dssp             HHHHTTTCCEEECSEEEESC------CCC--HHHHTTCCEEECCEE-EECSC-S-SHHHHHHHCCEEECSEEE-CCCH--
T ss_pred             HHhcccccceeECcccCCCC------ccc--ccCCccccChhhccc-ccccc-c-cccccccccccccccccc-cccc--
Confidence            44566777777777776665      222  446677777777664 45555 3 233344567777777663 5443  


Q ss_pred             cCCCCcCcccccCCccCeeeccccccceeecCCCCcCCCCcccEEeeccCc
Q 044144          276 ENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHTSEWPALEIFSVFRCD  326 (356)
Q Consensus       276 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~  326 (356)
                       .+...      +++|++|+++++ ++++++.......+++|+.|++.+++
T Consensus       109 -~~~~~------l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         109 -SGIEK------LVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             -HHHHH------HHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             -ccccc------cccccccccccc-hhccccccccccCCCccceeecCCCc
Confidence             22222      567777777665 44444321112456677777766654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.59  E-value=8.1e-07  Score=79.14  Aligned_cols=126  Identities=14%  Similarity=0.034  Sum_probs=68.7

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccc---hhhhhhhcCCCCeEEEecCcccce
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIF---SASMIGSLKHLQHLEVRFCEDLQE  272 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~---~~~~~~~l~~L~~L~i~~c~~l~~  272 (356)
                      .+..+++|+.|.+.+|++++..... .-...+..+++|+.|+++++ .+.+..   ....+..+++|++|++++|. +..
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~~  257 (344)
T d2ca6a1         181 TFQSHRLLHTVKMVQNGIRPEGIEH-LLLEGLAYCQELKVLDLQDN-TFTHLGSSALAIALKSWPNLRELGLNDCL-LSA  257 (344)
T ss_dssp             HHHHCTTCCEEECCSSCCCHHHHHH-HHHTTGGGCTTCCEEECCSS-CCHHHHHHHHHHHGGGCTTCCEEECTTCC-CCH
T ss_pred             hhhhhhhhccccccccccccccccc-chhhhhcchhhhcccccccc-cccccccccccccccccccchhhhhhcCc-cCc
Confidence            3456788999999888665421000 00012446788999999875 343321   12345677889999999986 422


Q ss_pred             eeccCCCCcCcccccCCccCeeeccccccceeecCCCCc----CCCCcccEEeeccCc
Q 044144          273 IISENRADEVIPYFVFPQLTTLILQYLPKLRCLYPGMHT----SEWPALEIFSVFRCD  326 (356)
Q Consensus       273 i~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~~~~~~~~----~~~~~L~~L~i~~C~  326 (356)
                      ... ............+.|++|+++++ +++.-......    ...+.|++|++.++.
T Consensus       258 ~g~-~~l~~~l~~~~~~~L~~L~ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         258 RGA-AAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHH-HHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             hhh-HHHHHHhhhccCCCCCEEECCCC-cCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            100 00000000011467899999876 34432111100    135678888887644

>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=96.04  E-value=0.00018  Score=63.30  Aligned_cols=90  Identities=12%  Similarity=-0.004  Sum_probs=51.5

Q ss_pred             CcceEEeeCcccC----ceeeccccCccccCCCcEEEEecCCCceEeecCCc------ccccccCcccceeecccccccc
Q 044144            3 NNVECLWLDKLQG----IENVLFNLDTEGFSQLKLLWVQNNPDFFCIVDSRA------MVACDAFPLLESLILHNLINME   72 (356)
Q Consensus         3 ~~l~~L~l~~~~~----~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~------~~~~~~~~~L~~L~l~~~~~l~   72 (356)
                      ..++.|+|++..-    ++.+.  ......++|+.|++.++. .........      ...+...++|++|+++++. +.
T Consensus        31 ~~l~~L~Ls~n~i~~~~~~~l~--~~l~~~~~L~~l~l~~~~-~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~  106 (344)
T d2ca6a1          31 DSVKEIVLSGNTIGTEAARWLS--ENIASKKDLEIAEFSDIF-TGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNA-FG  106 (344)
T ss_dssp             SCCCEEECTTSEECHHHHHHHH--HTTTTCTTCCEEECCSCC-TTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCC-CC
T ss_pred             CCCCEEECcCCcCCHHHHHHHH--HHHHhCCCCCEEECCCCc-ccccccccchHHHHHHHHHhhCCCcccccccccc-cc
Confidence            5688899987531    12221  123467899999998773 211101000      0134557899999999863 32


Q ss_pred             ccccccc--cccCCCCccEEEEccCC
Q 044144           73 RIWIDQL--KVESFNELKIIQAYNCD   96 (356)
Q Consensus        73 ~l~~~~~--~~~~l~~L~~L~l~~c~   96 (356)
                      ......+  .....++|++|++++|+
T Consensus       107 ~~~~~~l~~~l~~~~~L~~L~l~~n~  132 (344)
T d2ca6a1         107 PTAQEPLIDFLSKHTPLEHLYLHNNG  132 (344)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSSC
T ss_pred             cccccchhhhhcccccchheeccccc
Confidence            2111111  01236899999999875

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.64  E-value=0.00034  Score=54.54  Aligned_cols=65  Identities=18%  Similarity=0.103  Sum_probs=41.3

Q ss_pred             ccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccchhhhhhhcCCCCeEEEecCc
Q 044144          198 VALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFSASMIGSLKHLQHLEVRFCE  268 (356)
Q Consensus       198 ~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~~~~~~~l~~L~~L~i~~c~  268 (356)
                      ..+++|+.|++++|+++++..   ++ ..+..+++|+.|++++ +.++++ +....-...+|++|++.+++
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~---~~-~~~~~l~~L~~L~Ls~-N~i~~l-~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDD---MS-SIVQKAPNLKILNLSG-NELKSE-RELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSG---GG-THHHHSTTCCCCCCTT-SCCCCG-GGHHHHTTCCCSSCCCTTST
T ss_pred             HhCCCCCEeeCCCccccCCch---hH-HHHhhCCccccccccc-Cccccc-hhhhhhhccccceeecCCCC
Confidence            357888888888887776311   11 1234578888888876 567776 32222234567888887766

>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=95.45  E-value=0.0011  Score=59.70  Aligned_cols=43  Identities=9%  Similarity=0.026  Sum_probs=27.4

Q ss_pred             CCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccc
Q 044144          201 PNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKY  246 (356)
Q Consensus       201 ~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~  246 (356)
                      ++|++|++.+|++++..... ++. .+..+++|++|+++++ .+.+
T Consensus        84 ~~L~~L~L~~n~it~~~~~~-l~~-~l~~~~~L~~L~L~~N-~i~~  126 (460)
T d1z7xw1          84 CKIQKLSLQNCCLTGAGCGV-LSS-TLRTLPTLQELHLSDN-LLGD  126 (460)
T ss_dssp             CCCCEEECTTSCCBGGGHHH-HHH-HTTSCTTCCEEECCSS-BCHH
T ss_pred             CCCCEEECCCCCcccccccc-ccc-hhhccccccccccccc-cchh
Confidence            57999999998776521111 111 2446788999999875 3444

>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=95.28  E-value=0.0016  Score=58.52  Aligned_cols=59  Identities=19%  Similarity=0.315  Sum_probs=27.8

Q ss_pred             CcCeEEecceeeeEE-cccCCCCCCCCCCCcCccEEeeccCcCccccch---hhhhhhcCCCCeEEEecC
Q 044144          202 NLEALEISAINVDKI-WHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFS---ASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       202 ~L~~L~l~~~~l~~~-~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~---~~~~~~l~~L~~L~i~~c  267 (356)
                      +|++|+++++++++. |..      .++.++++++|++.+| .+++...   ...+..+++|++|+++++
T Consensus         3 ~l~~ld~~~~~i~~~~~~~------l~~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N   65 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAE------LLPLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSN   65 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHH------HHHHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTC
T ss_pred             CCCEEEeeCCcCChHHHHH------HHHhCCCCCEEEeCCC-CCCHHHHHHHHHHHhcCCCCCEEECcCC
Confidence            455566655454431 111      1234456666666665 2433210   122345566666666655

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0019  Score=50.06  Aligned_cols=61  Identities=15%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCcccc-----chhhhhhhcCCCCeEE
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYI-----FSASMIGSLKHLQHLE  263 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l-----~~~~~~~~l~~L~~L~  263 (356)
                      ...+++|+.|++++++++++      +...+....+|+.|++.+.+-....     +-..+...+|+|+.|+
T Consensus        87 ~~~l~~L~~L~Ls~N~i~~l------~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1          87 VQKAPNLKILNLSGNELKSE------RELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHSTTCCCCCCTTSCCCCG------GGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             HhhCCcccccccccCccccc------hhhhhhhccccceeecCCCCcCcCcccchhHHHHHHHHCCCCCEEC
Confidence            45689999999999988873      2111223457899999885432221     1224456778888775

>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=89.41  E-value=0.027  Score=43.39  Aligned_cols=69  Identities=7%  Similarity=-0.045  Sum_probs=33.2

Q ss_pred             ccccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccch---hhhhhhcCCCCeEEEecC
Q 044144          196 EKVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIFS---ASMIGSLKHLQHLEVRFC  267 (356)
Q Consensus       196 ~~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~~---~~~~~~l~~L~~L~i~~c  267 (356)
                      .+...++|++|++++|.+++..... +.. .+...+.|++|++++| .+.+...   ...+...++|++|++.++
T Consensus        39 ~L~~n~~L~~L~Ls~n~l~~~~~~~-la~-~L~~n~~L~~L~L~~n-~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          39 AACNSKHIEKFSLANTAISDSEARG-LIE-LIETSPSLRVLNVESN-FLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             HHTTCSCCCEEECTTSCCBHHHHTT-HHH-HHHHCSSCCEEECCSS-BCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             HHhhCCccceeeccccccchhHHHH-Hhh-hhhhcccccceeeehh-hcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            3444566777777776554311111 100 1223456677777665 3444311   122334455666666654

>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=85.57  E-value=0.081  Score=40.36  Aligned_cols=68  Identities=13%  Similarity=0.070  Sum_probs=31.3

Q ss_pred             cccCCCcCeEEecceeeeEEcccCCCCCCCCCCCcCccEEeeccCc-Cccccc---hhhhhhhcCCCCeEEEec
Q 044144          197 KVALPNLEALEISAINVDKIWHYNQIPAAVFPRFQNLTRLIVWHCN-KLKYIF---SASMIGSLKHLQHLEVRF  266 (356)
Q Consensus       197 ~~~l~~L~~L~l~~~~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~-~l~~l~---~~~~~~~l~~L~~L~i~~  266 (356)
                      +...++++.+.+.++.++...... +-. .+...++|+.+++..+. .+.+..   -...+...++|++|++..
T Consensus        70 l~~~~~l~~l~l~~~~~~~~g~~~-l~~-~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~  141 (166)
T d1io0a_          70 LKVNNTLKSLNVESNFISGSGILA-LVE-ALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHF  141 (166)
T ss_dssp             HHHCSSCCEEECCSSCCCHHHHHH-HHH-GGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCC
T ss_pred             HhhcccchhhhhccccccchhHHH-HHH-HHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcC
Confidence            344566777777666443311000 000 12334566666665332 343321   112334566677766654

>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=83.85  E-value=0.22  Score=37.94  Aligned_cols=94  Identities=11%  Similarity=0.031  Sum_probs=55.4

Q ss_pred             ccCCCcCeEEecce-eeeEEcccCCCCCCCCCCCcCccEEeeccCcCccccc---hhhhhhhcCCCCeEEEecCccccee
Q 044144          198 VALPNLEALEISAI-NVDKIWHYNQIPAAVFPRFQNLTRLIVWHCNKLKYIF---SASMIGSLKHLQHLEVRFCEDLQEI  273 (356)
Q Consensus       198 ~~l~~L~~L~l~~~-~l~~~~~~~~~p~~~~~~l~~L~~L~i~~c~~l~~l~---~~~~~~~l~~L~~L~i~~c~~l~~i  273 (356)
                      ...++|++|+|.++ .+++.-... +-. .+...+.|++|++++| .+.+..   -...+...+.|++|++++|. +..-
T Consensus        12 ~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_          12 EDDTDLKEVNINNMKRVSKERIRS-LIE-AACNSKHIEKFSLANT-AISDSEARGLIELIETSPSLRVLNVESNF-LTPE   87 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHH-HHH-HHTTCSCCCEEECTTS-CCBHHHHTTHHHHHHHCSSCCEEECCSSB-CCHH
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHH-HHH-HHhhCCccceeecccc-ccchhHHHHHhhhhhhcccccceeeehhh-cchH
Confidence            45689999999986 555411000 000 1345578999999886 455431   12344567899999999985 4321


Q ss_pred             eccCCCCc-CcccccCCccCeeecccc
Q 044144          274 ISENRADE-VIPYFVFPQLTTLILQYL  299 (356)
Q Consensus       274 ~~~~~~~~-~~~~~~l~~L~~L~l~~c  299 (356)
                          ++.. ......-+.|++|++.++
T Consensus        88 ----g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          88 ----LLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             ----HHHHHHHHTTTTCCCSEEECCCC
T ss_pred             ----HHHHHHHHHHhCCcCCEEECCCC
Confidence                1100 001122568999999765