Citrus Sinensis ID: 041360

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-
Protein Sequence
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTSLGFNEIIAADDPAPK
Secondary Structure (PSIPRED)
cEEEEccHHHHHHHcccccEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccccccHHHHHHHcccccccHHHHHHHHHHccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEcHHHHHHHHHHHccccEEEEEccccccccccccEEcccEEEEccccccccccccccccccEEEEEEcccccccccccHHHcccccEEEEEccccccccccccccccccccEEccccccccccccccccccccEEEccccccccccHHHcccccccccccccccccccccccccccccccccccccccccHHHHccccccccEEEEEEEcccccccccccccccEEEEEEcccccccccccccccccccccccccccccccHHHHcccccccEEEccccccccccccccccccccccccEEEEEccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cEEEEccHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHccccccccccHHHHEcHcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHccccccccEEEEHHHHHHHHHHHHccccEEEEEcccccccccccccccEEEEEEEcccccccccccccccccEEEEEcccccccccccHHHHHcccccEEEEEcccccccccccccccccccEEEccccccccccccccccccEEEEEcccccHHccccccccccHcEEcHcccHcHccHHHccccccHHHccccccccHHHHHHHcccccccEEEEEcccccccccccccHHccccEEcccccccccccccccccccHHHHccccccccccccccccHHHcEEEcccccccccccccccccccccccccEEEEcccHHHHccccccccccccccccccEEEEcccccccccccccccHHHHHHHHcHHHHcccHHHccccccccc
Coil and Loop (DISEMBL)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILgdstktstiqPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLrssnpreidgmdknvYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSscllldgdgkdevkmHDVIHVVAVSIAteeqmfnipnvADVEKKMEETkqkgpiaislphrdiqelperlqcpnlELFLLFRKgygsmqisdlffegtEEVKVLSLTgvrfsslpsslgrlfnlqtlclggcrlkdiaIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLeelymgdsfsqwdkveggsnaslaelkglsklttlEIQVRDAQILPQDLVLVELQRYKICIgeawrmwgvtSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAvhelddgegfprlkhlRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILhgqkptaaskgperekpttslgfneiiaaddpapk
Flexible Loop (DISEMBL)
miltsrnrdllerdmnSQKNFLIEVLSKEEALQLFENIlgdstktstIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSqlrssnpreidgmDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVsiateeqmfnIPNVADVEKKMEETKqkgpiaislphRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILhivgsvgrvrrKVFPLLESLSLKKASFVILHgqkptaaskgperekpttslgfneiiaaddpapk
Low Complexity Region (SEG)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTSLGFNEIIAADDPAPK
Disordered region (IsUnstruct)
*******************NFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDAL*************MDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVA****************ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILH**********************************
Disordered Region (DISOPRED)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSS******G**KNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHG******************LGFNEIIAADD****
Disordered Region (DISEMBL)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQK*************TTSLGFNEIIAADDPAPK
Disordered Region (DISPRO)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTSLGFNEIIAAD*****
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTSLGFNEIIAADDPAPK
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	561	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.846	0.482	0.282	1e-43
O81825	919	Probable disease resistan	no	no	0.695	0.424	0.291	5e-38
Q42484	909	Disease resistance protei	no	no	0.679	0.419	0.285	3e-33
Q9LVT4	843	Probable disease resistan	no	no	0.570	0.379	0.275	3e-23
Q8RXS5	888	Probable disease resistan	no	no	0.598	0.378	0.282	5e-21
P60838	894	Probable disease resistan	no	no	0.577	0.362	0.286	1e-20
Q940K0	889	Probable disease resistan	no	no	0.573	0.362	0.278	6e-20
O82484	892	Putative disease resistan	no	no	0.579	0.364	0.257	3e-19
O64789	925	Probable disease resistan	no	no	0.563	0.341	0.269	4e-19
O64790	762	Probable disease resistan	no	no	0.541	0.398	0.277	8e-19

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

 Score =  177 bits (450), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 147/520 (28%), Positives = 272/520 (52%), Gaps = 45/520 (8%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           +ILTSR  ++  R M +  +  ++ L +E+A +LF    GD  ++  ++ IA  + + CG
Sbjct: 278 VILTSRFLEVC-RSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECG 336

Query: 61  GLPVAVTTVANALK-SKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A+ TV  A++  K++ +W   LS+L  S P  I  +++ ++  ++LSY+ L  K A
Sbjct: 337 GLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLEDK-A 394

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           K  F LC L+ E ++I+V  ++RY M  G  + + + E++ +     +++LK  CLL DG
Sbjct: 395 KFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDG 454

Query: 180 DGKDEVKMHDVIHVVAVSIATEEQ------MFNIPNVADV-EKKMEETKQKGPIAISLPH 232
           D +D VKMHDV+   A+ I +  Q      + +   + D+ + K+  + ++    +SL +
Sbjct: 455 DRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRR----VSLMN 510

Query: 233 RDIQELPERLQ--CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-S 289
             ++ LP+ ++  C    + LL +  +   ++   F +    +++L+L+G R  S PS S
Sbjct: 511 NKLESLPDLVEEFCVKTSV-LLLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCS 569

Query: 290 LGRLFNLQTLCLGGC-RLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTR-------- 340
           L RLF+L +L L  C +L  +  +  L KLE+L    ++I E P  + +L R        
Sbjct: 570 LLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSR 629

Query: 341 ---LVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS---NASLAELKGLSKLTTLEIQV 394
              L  I   ++S+ S LE L M  S  +W  V+G +    A++ E+  L +L  L I++
Sbjct: 630 TLHLESIPARVVSRLSSLETLDMTSSHYRWS-VQGETQKGQATVEEIGCLQRLQVLSIRL 688

Query: 395 RDAQIL--PQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKM 452
             +  L   ++  +  L+++++ +G  + +   T    R + +  L NVS +     +  
Sbjct: 689 HSSPFLLNKRNTWIKRLKKFQLVVGSRYIL--RTRHDKRRLTISHL-NVSQV----SIGW 741

Query: 453 LLKEAEEIHLNELKGVQNAVHEL-DDGEGFPRLKHLRVES 491
           LL     + LN  +G++  + +L  D +GF  LK L +E+
Sbjct: 742 LLAYTTSLALNHCQGIEAMMKKLVSDNKGFKNLKSLTIEN 781

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score =  159 bits (402), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 122/418 (29%), Positives = 212/418 (50%), Gaps = 28/418 (6%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSR  ++ ++ M + +N  +  L ++EA +LF + +G+   +  ++PIA ++   C 
Sbjct: 248 VVLTSRRLEVCQQ-MMTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECC 306

Query: 61  GLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A+ T+   L+ K  +++WK  L+ L+ S P  ID  +K ++ +++LSY+ L     
Sbjct: 307 GLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAP-SIDTEEK-IFGTLKLSYDFLQDN-M 363

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           KS F  C L+ E ++I+V+ L+ Y +  GL    +  E+  +    L++ LK SCLL DG
Sbjct: 364 KSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDG 423

Query: 180 DGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIA----ISLPHRDI 235
           D  D VKMHDV+   A+   +  Q     ++    + + E  Q   ++    +SL    +
Sbjct: 424 DSCDTVKMHDVVRDFAIWFMS-SQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKL 482

Query: 236 QELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFN 295
           + LP  +      L LL +      ++ + F +    +++L L+GVR  +LP S   L +
Sbjct: 483 ERLPNNVIEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHS 542

Query: 296 LQTLCLGGC-RLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA--------- 345
           L++L L  C +L+++  +  L KL+ L   +S I ELP  +  L+ L  I          
Sbjct: 543 LRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQS 602

Query: 346 --PNLISKFSQLEELYMGDSFSQW----DKVEGGSNASLAELKGLSKLTTLEIQVRDA 397
                I + S LE L M  S   W    ++ EG   A+L E+  L  L  L I++ D 
Sbjct: 603 IPAGTILQLSSLEVLDMAGSAYSWGIKGEEREG--QATLDEVTCLPHLQFLAIKLLDV 658

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 =  144 bits (362), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 118/414 (28%), Positives = 213/414 (51%), Gaps = 33/414 (7%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILG--DSTKTSTIQPIADEIVKR 58
           ++ T+R+  L   +M ++    +E L K+ A +LF + +   D  ++S+I+ +A+ IV +
Sbjct: 286 VMFTTRSIALC-NNMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSK 344

Query: 59  CGGLPVAVTTVANALKSKSLDI-WKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
           CGGLP+A+ T+  A+  +  +  W  A S++ +  P E+ GM+  V+  ++ SY+ L S 
Sbjct: 345 CGGLPLALITLGGAMAHRETEEEWIHA-SEVLTRFPAEMKGMNY-VFALLKFSYDNLESD 402

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
             +S F  C L+ E H+I++  L+ Y +G G   + + +     + + LI +LK++CLL 
Sbjct: 403 LLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGVNTI-YKGYFLIGDLKAACLLE 461

Query: 178 DGDGKDEVKMHDVIHVVAVSIATEEQMFN-----IPNVADVEKKMEETKQKGPIAISLPH 232
            GD K +VKMH+V+   A+ +A+E+  +       P++   E    E  ++  + ISL  
Sbjct: 462 TGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQA-LVISLLD 520

Query: 233 RDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR 292
             IQ LPE+L CP L   L+ ++     +I   FF     ++VL L+    + +P S+  
Sbjct: 521 NRIQTLPEKLICPKLTT-LMLQQNSSLKKIPTGFFMHMPVLRVLDLSFTSITEIPLSIKY 579

Query: 293 LFNLQTLCLGGCRLKDIAI-VGQLKKLEILSF-RDSYIEELPHEIGQLTRLVVIAPNLIS 350
           L  L  L + G ++  +   +G L+KL+ L   R  +++ +P +              I 
Sbjct: 580 LVELYHLSMSGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDA-------------IC 626

Query: 351 KFSQLEELYMGDSFSQWDKVEGGSNAS----LAELKGLSKLTTLEIQVRDAQIL 400
             S+LE L +  S++ W+    G + +     A+L+ L  LTTL I V   + L
Sbjct: 627 WLSKLEVLNLYYSYAGWELQSFGEDEAEELGFADLEYLENLTTLGITVLSLETL 680

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|Q9LVT4|DRL37_ARATH Probable disease resistance protein At5g47250 OS=Arabidopsis thaliana GN=At5g47250 PE=2 SV=1

 Score =  110 bits (276), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 98/356 (27%), Positives = 175/356 (49%), Gaps = 36/356 (10%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++ T+R++D+    M + ++  ++ LS+ +A  LF+  +      + I  IA +IV +C 
Sbjct: 289 VVFTTRSKDVCSV-MRANEDIEVQCLSENDAWDLFDMKV-HCDGLNEISDIAKKIVAKCC 346

Query: 61  GLPVAVTTVANALKSKSLDI-WKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A+  +   + SKS  I W+ AL  L S    E+ G +K ++  ++LSY+ L +K A
Sbjct: 347 GLPLALEVIRKTMASKSTVIQWRRALDTLESYRS-EMKGTEKGIFQVLKLSYDYLKTKNA 405

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           K  F  C L+ + + I+   L+ Y +G G        E A+ R + +IDNL  + LLL+ 
Sbjct: 406 KC-FLYCALFPKAYYIKQDELVEYWIGEGFIDEKDGRERAKDRGYEIIDNLVGAGLLLES 464

Query: 180 DGKDEVKMHDVIHVVAVSIATE---EQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQ 236
           + K  V MHD+I  +A+ I +E    + + +   A + +  + T       +SL + +I+
Sbjct: 465 NKK--VYMHDMIRDMALWIVSEFRDGERYVVKTDAGLSQLPDVTDWTTVTKMSLFNNEIK 522

Query: 237 ELPERLQCPN-LELFLLFRKGYGSMQISDLF---------------FEGTE--------- 271
            +P+  + P+   L  LF +    + I   F               F+ TE         
Sbjct: 523 NIPDDPEFPDQTNLVTLFLQNNRLVDIVGKFFLVMSTLVVLDLSWNFQITELPKGISALV 582

Query: 272 EVKVLSLTGVRFSSLPSSLGRLFNLQTLCL-GGCRLKDIAIVGQLKKLEILSFRDS 326
            +++L+L+G     LP  LG L  L  L L     L+ + ++ +L+KL++L F  S
Sbjct: 583 SLRLLNLSGTSIKHLPEGLGVLSKLIHLNLESTSNLRSVGLISELQKLQVLRFYGS 638

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  103 bits (256), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 100/354 (28%), Positives = 178/354 (50%), Gaps = 18/354 (5%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
           ++ T+R +++  R M    +  +  L+ ++A  LF   +G+ T  S   I  +A  + K+
Sbjct: 287 IVFTTRLKEICGR-MGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKK 345

Query: 59  CGGLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
           C GLP+A+  +   +  K ++  W+ A+  L SS   E  GM+  +   ++ SY+ L S+
Sbjct: 346 CRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAA-EFSGMEDEILPILKYSYDNLKSE 404

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
           + K  F+ C L+ E H I+   L+ Y +G G         +A ++ + +I  L  SCLL+
Sbjct: 405 QLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDR--NKGKAENQGYEIIGILVRSCLLM 462

Query: 178 DGDGKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVEKKMEETKQKGPIA--ISLPHR 233
           + + ++ VKMHDV+  +A+ IA++  +Q  N    A ++ +     +K  +A  +SL   
Sbjct: 463 E-ENQETVKMHDVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRVSLMFN 521

Query: 234 DIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGR 292
           +I+ + +  + P L + LL RK +    IS  FF     + VL L+  R    LP+ +  
Sbjct: 522 NIESIRDAPESPQL-ITLLLRKNFLG-HISSSFFRLMPMLVVLDLSMNRDLRHLPNEISE 579

Query: 293 LFNLQTLCLGGCRLKDIAIVG--QLKKLEILSFRDSYIEELPHEIGQLTRLVVI 344
             +LQ L L   R++ I   G  +L+KL  L+   + + E    I  LT L V+
Sbjct: 580 CVSLQYLSLSRTRIR-IWPAGLVELRKLLYLNLEYTRMVESICGISGLTSLKVL 632

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  102 bits (253), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 98/342 (28%), Positives = 173/342 (50%), Gaps = 18/342 (5%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
           ++ T+R+RD+  R M       +  L   EA +LF+  +G++T      I  +A ++  +
Sbjct: 289 VVFTTRSRDVCGR-MRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGK 347

Query: 59  CGGLPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
           C GLP+A+  +   +  K +   W++A+  L SS   E  GM++ +   ++ SY+ L  +
Sbjct: 348 CCGLPLALNVIGETMACKRMVQEWRNAIDVL-SSYAAEFPGMEQ-ILPILKYSYDNLNKE 405

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
           + K  F  C L+ E + ++   L+ Y +  G      + E A S+ + +I  L  +CLLL
Sbjct: 406 QVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYEIIGILVRACLLL 465

Query: 178 -DGDGKDEVKMHDVIHVVAVSIAT---EEQMFNIPNVADVEKKMEETKQKGPI-AISLPH 232
            +   K++VKMHDV+  +A+ IA+   E +   I  V    +++ + K    +  +SL  
Sbjct: 466 EEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLME 525

Query: 233 RDIQELPERLQCPNLELFLLF-RKGYGSMQISDLFFEGTEEVKVLSLTG-VRFSSLPSSL 290
            +I+ L    +C  LEL  LF +K    + ISD FF     + VL L+G      LP+ +
Sbjct: 526 NEIEILSGSPEC--LELTTLFLQKNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQI 583

Query: 291 GRLFNLQTLCLGGCRLKDIAI-VGQLKKLEILSFRDSYIEEL 331
            +L +L+ L L    +K + + + +LKKL  L  R  Y++ L
Sbjct: 584 SKLVSLRYLDLSWTYIKRLPVGLQELKKLRYL--RLDYMKRL 623

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 99.4 bits (246), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 94/338 (27%), Positives = 166/338 (49%), Gaps = 16/338 (4%)

Query: 3   LTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCG 60
            T+R+R++   +M   K   +  L  E+A +LF+N +GD+T +S   I  +A E+ ++C 
Sbjct: 287 FTTRSREVC-GEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCR 345

Query: 61  GLPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A+  +   + SK++   W+ A+    +S   E   M   +   ++ SY+ L  +  
Sbjct: 346 GLPLALNVIGETMSSKTMVQEWEHAIHVFNTS-AAEFSDMQNKILPILKYSYDSLGDEHI 404

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           KS F  C L+ E   I    L+ Y +  G       ++ AR++ + ++  L  + LL   
Sbjct: 405 KSCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKV 464

Query: 180 DGKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVE-KKMEETKQKGPI-AISLPHRDI 235
            G     MHDV+  +A+ IA++  +Q  N    A V   ++ + K  G +  +SL   DI
Sbjct: 465 -GTYYCVMHDVVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRKMSLMDNDI 523

Query: 236 QELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGRLF 294
           +E+    +C   EL  LF +      +   F    +++ VL L+  R F+ LP  +  L 
Sbjct: 524 EEITCESKCS--ELTTLFLQSNKLKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLV 581

Query: 295 NLQTLCLGGCRLKDIAIVGQLKKLEILSFRD-SYIEEL 331
           +LQ L L    ++ + I   LK+L+ L+F D +Y + L
Sbjct: 582 SLQFLDLSNTSIEHMPI--GLKELKKLTFLDLTYTDRL 617

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 97.1 bits (240), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 93/361 (25%), Positives = 164/361 (45%), Gaps = 36/361 (9%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
           ++ T+R+ D+  R M       ++ LS  +A +LF+  +G  +  S   I  +A ++  +
Sbjct: 286 VVFTTRSLDVCAR-MGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAGK 344

Query: 59  CGGLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
           C GLP+A+  +   +  K ++  W  A+  L +S   E  GMD ++   ++ SY+ L  K
Sbjct: 345 CRGLPLALNVIGETMAGKRAVQEWHHAVDVL-TSYAAEFSGMDDHILLILKYSYDNLNDK 403

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
             +S F+ C LY E ++I+   L+ Y +  G        E A ++ + ++  L  +CLL 
Sbjct: 404 HVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDGNIGKERAVNQGYEILGTLVRACLLS 463

Query: 178 -DGDGKDEVKMHDVIHVVAVSIATE---EQMFNIPNVADVEKKMEETKQKGPI-AISLPH 232
            +G  K EVKMHDV+  +A+   ++    +   I       +K+ + +  G +  +SL +
Sbjct: 464 EEGKNKLEVKMHDVVREMALWTLSDLGKNKERCIVQAGSGLRKVPKVEDWGAVRRLSLMN 523

Query: 233 RDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLT-GVRFSSLPSSLG 291
             I+E+    +CP L   L  ++    + IS  FF    ++ VL L+   +   LP  + 
Sbjct: 524 NGIEEISGSPECPELTT-LFLQENKSLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQIS 582

Query: 292 RLFNLQTLCLG--------GC----------------RLKDIAIVGQLKKLEILSFRDSY 327
            L  L+ L L          C                RL  IA + +L  L  L  R+S 
Sbjct: 583 ELVALRYLDLSHTNIEGLPACLQDLKTLIHLNLECMRRLGSIAGISKLSSLRTLGLRNSN 642

Query: 328 I 328
           I
Sbjct: 643 I 643

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 96.7 bits (239), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 92/342 (26%), Positives = 167/342 (48%), Gaps = 26/342 (7%)

Query: 3   LTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCG 60
            T+R+R++   +M   K   +  L  E+A +LF+N +GD+T +S   I  +A E+ ++C 
Sbjct: 289 FTTRSREVC-GEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCR 347

Query: 61  GLPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A+  +   + SK++   W+ A+  L  S   E  GM+  +   ++ SY+ L  +  
Sbjct: 348 GLPLALNVIGETMASKTMVQEWEYAIDVLTRS-AAEFSGMENKILPILKYSYDSLGDEHI 406

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCL---- 175
           KS F  C L+ E   I   +L+   +  G       ++ AR++ + ++  L  + L    
Sbjct: 407 KSCFLYCALFPEDGQIYTETLIDKLICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKV 466

Query: 176 ------LLDGDGKDEVKMHDVIHVVAVSIAT----EEQMFNIPNVADVEKKMEETKQKGP 225
                 LL         MHDV+  +A+ IA+    +++ F +   A +  ++ E K  G 
Sbjct: 467 GTELANLLTKVSIYHCVMHDVVREMALWIASDFGKQKENFVVQASAGLH-EIPEVKDWGA 525

Query: 226 I-AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-F 283
           +  +SL   +I+E+    +C   EL  LF +      +S  F    +++ VL L+  R F
Sbjct: 526 VRRMSLMRNEIEEITCESKCS--ELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSDNRDF 583

Query: 284 SSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRD 325
           + LP  +  L +LQ L L   R++ + +   LK+L+ L+F D
Sbjct: 584 NELPEQISGLVSLQYLDLSFTRIEQLPV--GLKELKKLTFLD 623

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 95.9 bits (237), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 88/317 (27%), Positives = 154/317 (48%), Gaps = 13/317 (4%)

Query: 3   LTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCG 60
            T+R++ +   +M   K   ++ L  E+A +LF+N +GD+T  S   I  +A E+ ++C 
Sbjct: 176 FTTRDQKVC-GEMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCR 234

Query: 61  GLPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
           GLP+A++ +   + SK++   W+ A+  L  S   E   M   +   ++ SY+ L  +  
Sbjct: 235 GLPLALSVIGETMASKTMVQEWEHAIDVLTRS-AAEFSNMGNKILPILKYSYDSLGDEHI 293

Query: 120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           KS F  C L+ E   I    L+ Y +  G       ++ AR++ + ++  L  + LL   
Sbjct: 294 KSCFLYCALFPEDDEIYNEKLIDYWICEGFIGEDQVIKRARNKGYEMLGTLTLANLLTKV 353

Query: 180 DGKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVE-KKMEETKQKGPI-AISLPHRDI 235
            G + V MHDV+  +A+ IA++  +Q  N    A V   +  E K  G +  +SL    I
Sbjct: 354 -GTEHVVMHDVVREMALWIASDFGKQKENFVVRARVGLHERPEAKDWGAVRRMSLMDNHI 412

Query: 236 QELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGRLF 294
           +E+    +C   EL  LF +      +S  F    +++ VL L+  R F+ LP  +  L 
Sbjct: 413 EEITCESKCS--ELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSYNRDFNKLPEQISGLV 470

Query: 295 NLQTLCLGGCRLKDIAI 311
           +LQ L L    +K + +
Sbjct: 471 SLQFLDLSNTSIKQLPV 487

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	561
255563252	1603	Disease resistance protein RPS5, putativ	0.905	0.316	0.475	1e-117
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.942	0.312	0.449	1e-115
359488103	1530	PREDICTED: disease resistance protein At	0.935	0.343	0.439	1e-114
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.919	0.385	0.459	1e-112
359488095	1347	PREDICTED: probable disease resistance p	0.935	0.389	0.431	1e-111
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.919	0.392	0.449	1e-110
296087872	1152	unnamed protein product [Vitis vinifera]	0.926	0.451	0.449	1e-110
359488027	1520	PREDICTED: disease resistance protein At	0.926	0.342	0.449	1e-110
224125154	949	cc-nbs-lrr resistance protein [Populus t	0.901	0.533	0.444	1e-110
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.937	0.360	0.433	1e-110

>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 =  427 bits (1098), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 253/532 (47%), Positives = 346/532 (65%), Gaps = 24/532 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSR+RDLL  DM  QK F +EVL +EEAL LFE ++GD  K    Q  A E+ K+C 
Sbjct: 285 ILLTSRSRDLLSCDMGVQKVFRLEVLQEEEALSLFEMMVGD-VKGGEFQSAASEVTKKCA 343

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLPV + T+A ALK+K L +WKDA+ QL   +  EI    + VY+++ELSYN L   E K
Sbjct: 344 GLPVLIVTIARALKNKDLYVWKDAVKQLSRCDNEEIQ---EKVYSALELSYNHLIGAEVK 400

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCGL  +   I +  LL Y  G GLFK + TL +AR+RVH+LI +LK++CLLLD D
Sbjct: 401 SLFLLCGLLGKSD-IAILDLLMYSTGLGLFKGIDTLGDARNRVHKLISDLKAACLLLDSD 459

Query: 181 GKDEVKMHDVIHVVAVSIATEEQ-MFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELP 239
            K  VK+HDV+  VA+SIA+  Q +F + N A +++   +   K    ISLP+ DI  LP
Sbjct: 460 IKGRVKIHDVVRDVAISIASRMQHLFTVRNGALLKEWPNKDVCKSCTRISLPYNDIHGLP 519

Query: 240 ERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTL 299
           E L+CP LELFLLF +   S+++ DL FE T+ ++VL+ TG+ FSSLP SLG L NL TL
Sbjct: 520 EVLECPELELFLLFTQDI-SLKVPDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTL 578

Query: 300 CLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLT-----------RLVVIAPNL 348
           CL  C L+D+AI+G+L  L ILSF+ S I ELP EI QLT           +L VI   +
Sbjct: 579 CLDWCALRDVAIIGELTGLTILSFKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKI 638

Query: 349 ISKFSQLEELYMGDSFSQWD--KVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL 406
           IS+ +QLEELYM +SF  WD   +    NASLAEL+ L  LTTLEI V DA+ILP+DL  
Sbjct: 639 ISELTQLEELYMNNSFDLWDVQGINNQRNASLAELECLPYLTTLEICVLDAKILPKDLFF 698

Query: 407 VELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK 466
            +L+R++I IG+ W   G     SR ++L    N S++   +G+ +LL+  E+++L E+K
Sbjct: 699 RKLERFRIFIGDVWSGTGDYG-TSRTLKLK--LNTSSIHLEHGLSILLEVTEDLYLAEVK 755

Query: 467 GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSL 518
           G+++ +++L D +GF +LKHL V++  EI +I+    R     FP+LESL L
Sbjct: 756 GIKSVLYDL-DSQGFTQLKHLDVQNDPEIQYIIDPNRRSPCNAFPILESLYL 806

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  423 bits (1087), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 248/552 (44%), Positives = 352/552 (63%), Gaps = 23/552 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSRN+ +L  +M++QK+F ++ L ++E   LF+N  GDS +   +QPIA ++ K C 
Sbjct: 280 LVLTSRNKQVLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECA 339

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K++ IWKDAL QL S     I GM+  VY+S++LSY  L   E K
Sbjct: 340 GLPIAIVTVAKALKNKNVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVK 399

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCGL++  + I +  LL+YGMG  LF+   TLEEA++R+  L+DNLKSS LLL+  
Sbjct: 400 SLFLLCGLFS--NYIYIRDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETG 457

Query: 181 GKDEVKMHDVIHVVAVSIATEE-QMFNIPNVAD-VEKKMEETKQKGPIAISLPHRDIQEL 238
               V+MHDV+  VA+ I++++  +F +      VEK     + +  I ++    DI EL
Sbjct: 458 HNAVVRMHDVVRSVALDISSKDHHVFTLQQTTGRVEKWPRIDELQKVIWVNQDECDIHEL 517

Query: 239 PERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQT 298
           PE L CP L+LF+   K   +++I + FFEG ++++VL  T +   SLPSSL  L NLQT
Sbjct: 518 PEGLVCPKLKLFICCLKTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQT 577

Query: 299 LCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-----------VVIAPN 347
           L L GC+L DI I+ +LKKLEILS  DS IE+LP EI QLT L            VI   
Sbjct: 578 LLLYGCKLGDIGIITELKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIKVIPSG 637

Query: 348 LISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLV 407
           +IS  SQLE+L M +SF+QW+  EG SNA LAELK LS LT+L+IQ+ DA++LP+D+V  
Sbjct: 638 VISSLSQLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDVVFE 696

Query: 408 ELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKG 467
            L RY+I +G+ W +W    + +R ++L   +    L++  G+  LLK  E++HL EL G
Sbjct: 697 NLVRYRIFVGDVW-IWEENYKTNRTLKLKKFDTSLHLVD--GISKLLKITEDLHLRELCG 753

Query: 468 VQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVR-RKVFPLLESLSLKKASFV-- 524
             N + +L DGEGF +LKHL VES  EI +IV S+        FP++E+LSL +   +  
Sbjct: 754 GTNVLSKL-DGEGFFKLKHLNVESSPEIQYIVNSLDLTSPHGAFPVMETLSLNQLINLQE 812

Query: 525 ILHGQKPTAASK 536
           + HGQ P  +S+
Sbjct: 813 VCHGQFPVESSR 824

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488103|ref|XP_002263579.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  419 bits (1076), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 242/551 (43%), Positives = 347/551 (62%), Gaps = 26/551 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSRN+ +L  +M++QK+F +  L ++E   LF+N  GDS +   +QPIA ++ K C 
Sbjct: 280 LVLTSRNKQVLSNEMSTQKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECA 339

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K++ IWKDAL QL+S     I GM+  VY+S++LSY  L   E K
Sbjct: 340 GLPIAIVTVAKALKNKNVSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVK 399

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SL  LCGL++    I +  LL+YG+G  LF+   TLEE ++R+  L+DNLKSS  LL+  
Sbjct: 400 SLCLLCGLFS--RYIHIRDLLKYGVGLRLFQGTNTLEEVKNRIDTLVDNLKSSNFLLETG 457

Query: 181 GKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAIS---LPHRDIQE 237
               V+MHD++   A  IA+E+          V  ++EE  +   + ++   L H DI E
Sbjct: 458 RNAVVRMHDLVRSTARKIASEQHHVFTHQKTTV--RVEEWSRIDELQVTWVKLHHCDIHE 515

Query: 238 LPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQ 297
           LPE L CP LE F  F K   +++I + FFEG +++KVL LTG++  SLP SL  L NL+
Sbjct: 516 LPEGLVCPKLEFFECFLKTNLAVKIPNTFFEGMKQLKVLDLTGMQLPSLPLSLQSLANLR 575

Query: 298 TLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLT-----------RLVVIAP 346
           TLCL GC+L DI I+ +LKKLEILS  DS IE+LP EI QLT           +L VI  
Sbjct: 576 TLCLDGCKLGDIVIIAELKKLEILSLMDSDIEQLPREIAQLTHLRLFDLKSSFKLKVIPS 635

Query: 347 NLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL 406
           ++IS   +LE+L M +SF+QW+  EG SNA LAELK LS LT L+IQ+ DA++LP+D+V 
Sbjct: 636 DVISSLFRLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTALDIQIPDAKLLPKDMVF 694

Query: 407 VELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK 466
             L RY+I +G+ W +W    + +R+++L+  +    L++  G+  LLK  E++HL EL 
Sbjct: 695 DNLMRYRIFVGDIW-IWEKNYKTNRILKLNKFDTSLHLVD--GISKLLKRTEDLHLRELC 751

Query: 467 GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRV-RRKVFPLLESLSLKKASFV- 524
           G  N + +L+  EGF +LKHL VES  EI +IV S+        FP++E+LSL +   + 
Sbjct: 752 GGTNVLSKLNR-EGFLKLKHLNVESSPEIQYIVNSMDLTSSHAAFPVMETLSLNQLINLQ 810

Query: 525 -ILHGQKPTAA 534
            + HGQ P  +
Sbjct: 811 EVCHGQFPAGS 821

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  412 bits (1058), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 252/549 (45%), Positives = 346/549 (63%), Gaps = 33/549 (6%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           +++TSRN+++L R+M + +NF ++VL   EA   FE ++G + K  ++QP+A E+ KRC 
Sbjct: 278 ILMTSRNKNVLSREMGANRNFQVQVLPVREAWNFFEKMVGVTVKNPSVQPVAAEVAKRCA 337

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+ + TVA ALK++ L  WKDAL QL   +  EID     VY+ +ELSY  L   E K
Sbjct: 338 GLPILLATVARALKNEDLYAWKDALKQLTRFDKDEIDN---QVYSCLELSYKALRGDEIK 394

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCG +   +   ++ LL+Y +G  LFK   TLEEAR+R+  L+D LK+SCLLL+GD
Sbjct: 395 SLFLLCGQF-LTYDSSISDLLKYAIGLDLFKGRSTLEEARNRLRTLVDELKASCLLLEGD 453

Query: 181 GKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQ-KGPIAISLPHRDIQELP 239
               VKMHDV+   A S+A+ +    I  VAD  K+   +   +   AISLP+R I +LP
Sbjct: 454 KDGRVKMHDVVQSFAFSVASRDHHVLI--VADEFKEWPTSDVLQQYTAISLPYRKIPDLP 511

Query: 240 ERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTL 299
             L+CPNL  F+L  K   S+QI D FF   +E+KVL LT V  S LPSSL  L NLQTL
Sbjct: 512 AILECPNLNSFILLNKD-PSLQIPDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTL 570

Query: 300 CLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLT-----------RLVVIAPNL 348
           CL GC L+DI+IVG+LKKL++LS   S I  LP EIG+LT           RL VI+PN+
Sbjct: 571 CLDGCVLEDISIVGELKKLKVLSLISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNV 630

Query: 349 ISKFSQLEELYMGDSFSQWDKVEGGS----NASLAELKGLSKLTTLEIQVRDAQILPQDL 404
           +S  ++LEELYMG+SF +W+  EG S    NA L+ELK LS L TL +Q+ DA  + +DL
Sbjct: 631 LSSLTRLEELYMGNSFVKWE-TEGSSSQRNNACLSELKRLSNLITLHMQITDADNMLKDL 689

Query: 405 VLV--ELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHL 462
             +  +L+R++I IG+ W  W V    SR ++L    N    LE + +  LLK  EE+HL
Sbjct: 690 SFLFQKLERFRIFIGDGWD-WSVKYATSRTLKLKL--NTVIQLEEW-VNTLLKSTEELHL 745

Query: 463 NELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKAS 522
            ELKGV++ +++L DGE FPRLKHL V++C  + +I+ S+    R  F  L+SL L+   
Sbjct: 746 QELKGVKSILNDL-DGEDFPRLKHLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLD 804

Query: 523 FV--ILHGQ 529
            +  I HGQ
Sbjct: 805 NLEKICHGQ 813

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488095|ref|XP_002270726.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  409 bits (1051), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 238/551 (43%), Positives = 343/551 (62%), Gaps = 26/551 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSRN+ +L  +M++QK+F ++ L ++E   LF+N  GDS K   +QPIA ++ K C 
Sbjct: 280 LVLTSRNKQVLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIKNPELQPIAVDVAKECA 339

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K++ IWKDAL QL+S     I GM+  VY+S++LSY  L   E K
Sbjct: 340 GLPIAIVTVAKALKNKNVSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVK 399

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SL  LCGL++    I +  LL+YG+G  LF+   TLEEA++R+  L+DNLKSS  LL+ D
Sbjct: 400 SLCLLCGLFSSD--IHIGDLLKYGVGLRLFQGTNTLEEAKNRIDTLVDNLKSSNFLLETD 457

Query: 181 GKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAIS---LPHRDIQE 237
               V+MHD++   A  IA+E++         V  ++EE  +   + ++   L   DI E
Sbjct: 458 HNAYVRMHDLVRSTARKIASEQRHVFTHQKTTV--RVEEWSRIDELQVTWVKLHDCDIHE 515

Query: 238 LPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQ 297
           LPE L CP LE F  F K + +++I + FFEG +++KVL  + ++  SLP S+  L NL+
Sbjct: 516 LPEGLVCPKLEFFECFLKTHSAVKIPNTFFEGMKQLKVLDFSRMQLPSLPLSIQCLANLR 575

Query: 298 TLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-----------VVIAP 346
           TLCL GC+L DI I+ +LKKLEILS   S +E+LP EI QLT L            VI  
Sbjct: 576 TLCLDGCKLGDIVIIAELKKLEILSLMSSDMEQLPREIAQLTHLRLLDLSDSSTIKVIPS 635

Query: 347 NLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL 406
            +IS   +LE+L M +SF+QW+  EG SNA LAELK LS LT L+IQ+ DA++LP+D+V 
Sbjct: 636 GVISSLFRLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTFLDIQIPDAKLLPKDIVF 694

Query: 407 VELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK 466
             L RY+I +G+ W  W    E +  ++L+  +    L++  G+  LLK  E++HL EL 
Sbjct: 695 ENLVRYRILVGDVWS-WEEIFEANSTLKLNKFDTSLHLVD--GISKLLKRTEDLHLRELC 751

Query: 467 GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRK-VFPLLESLSLKKASFV- 524
           G  N + +L+  EGF +LKHL VES  EI +IV S+        FP++E+LSL +   + 
Sbjct: 752 GGTNVLSKLNR-EGFLKLKHLNVESSPEIQYIVNSMDLTSSHGAFPVMETLSLNQLINLQ 810

Query: 525 -ILHGQKPTAA 534
            + HGQ P  +
Sbjct: 811 EVCHGQFPAGS 821

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  406 bits (1043), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 247/549 (44%), Positives = 339/549 (61%), Gaps = 33/549 (6%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++++SRN  +L R+M S +NF I+VL   EA  LFE ++G + K  +++ +A E+ +RC 
Sbjct: 278 ILMSSRNEYVLSREMGSNRNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCA 337

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+ + TVA ALK+K L  WK AL QL   +    D +D  VY  +ELSY  L   E K
Sbjct: 338 GLPILLATVARALKNKDLYAWKKALKQLTRFDK---DDIDDQVYLGLELSYKSLRGDEIK 394

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCG     + I ++ LLRYG+G  LFK   TLEE R+ +  L+D LK+SCLLL+GD
Sbjct: 395 SLFLLCGQLRSNN-ILISDLLRYGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLEGD 453

Query: 181 GKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQ-KGPIAISLPHRDIQELP 239
               VKMHDV+H  A+S+A  +   ++  VAD  K+       +   AISLP R I +LP
Sbjct: 454 KDGSVKMHDVVHSFAISVALRDH--HVLTVADEFKEWPANDVLQQYTAISLPFRKIPDLP 511

Query: 240 ERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTL 299
             L+CPNL  FLL  K   S+QI D FF   +E+K+L LT V  S LPSSL  L NLQTL
Sbjct: 512 AILECPNLNSFLLLNKD-PSLQIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTL 570

Query: 300 CLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLV-----------VIAPNL 348
           CL  C L+DI+I+G+L KL++LS   S I  LP EIG++TRL            VI+PN 
Sbjct: 571 CLDHCVLEDISIIGELNKLKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNA 630

Query: 349 ISKFSQLEELYMGDSFSQWDKVEGGS----NASLAELKGLSKLTTLEIQVRDAQILPQDL 404
           +S  ++LE+LYMG+SF +W+  EG S    NA L+ELK LS L+TL +Q+ DA  +P+DL
Sbjct: 631 LSSLTRLEDLYMGNSFVKWE-TEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDL 689

Query: 405 V--LVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHL 462
                 L+R++I IG+ W  W V    SR ++L  L  V  L E  G+  LLK  EE+HL
Sbjct: 690 FSSFQNLERFRIFIGDGWD-WSVKDATSRTLKLK-LNTVIQLEE--GVNTLLKITEELHL 745

Query: 463 NELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKAS 522
            EL GV++ +++L DGEGFP+L+HL V++C  + +I+ S+    R  F  L+SL L+   
Sbjct: 746 QELNGVKSILNDL-DGEGFPQLRHLHVQNCPGVQYIINSIRMGPRTAFLNLDSLFLENLD 804

Query: 523 FV--ILHGQ 529
            +  I HGQ
Sbjct: 805 NLEKICHGQ 813

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 =  405 bits (1041), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 245/545 (44%), Positives = 346/545 (63%), Gaps = 25/545 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           M+LTSRN+ +L  +M +QK+F +E L +EEAL LF+ + GDS +   +Q IA ++ K C 
Sbjct: 103 MVLTSRNKHILSNEMGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECA 162

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K L IW+DAL QL+ S P  I GMD  VY+++ELSY  L   E K
Sbjct: 163 GLPIAIVTVAKALKNKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVK 222

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCGL +  + I +  LL+YGMG  LF+   TLEEA++R+  L+D+LK+S LLLD  
Sbjct: 223 SLFLLCGLMS--NKIYIDDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTG 280

Query: 181 GKDEVKMHDVIHVVAVSIATE-EQMFNIPNVADVE-KKMEETKQKGPIAISLPHRDIQEL 238
               V+MHDV+  VA++I ++  ++F++     VE  KM+E +      +SL + DI EL
Sbjct: 281 HNSFVRMHDVVRDVAIAIVSKVHRVFSLREDELVEWPKMDELQT--CTKMSLAYNDICEL 338

Query: 239 PERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQT 298
           P  L CP LELFL +      ++I + FFE  +++KVL L+ + F+SLPSSL  L NL+T
Sbjct: 339 PIELVCPELELFLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRT 398

Query: 299 LCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV-----------IAPN 347
           L L  C+L DI+I+ +LKKLE  SF  S IE+LP EI QLT L +           I PN
Sbjct: 399 LSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPN 458

Query: 348 LISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLV 407
           +IS  S+LE L M +SF+ W+ VEG SNAS+AE K L  LTTL+IQ+ DA++L  D++  
Sbjct: 459 VISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFE 517

Query: 408 ELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKG 467
           +L RY+I IG+ W  W      ++ ++L+ L+    L +  G+ +LLK A+++HL EL G
Sbjct: 518 KLIRYRIFIGDVWS-WDKNCPTTKTLKLNKLDTSLRLAD--GISLLLKGAKDLHLRELSG 574

Query: 468 VQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKV-FPLLESLSLKKASFV-- 524
             N   +L D EGF +LK L VE   E+ HI+ S+  +     FP+LESL L +   +  
Sbjct: 575 AANVFPKL-DREGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQE 633

Query: 525 ILHGQ 529
           + HGQ
Sbjct: 634 VCHGQ 638

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 245/545 (44%), Positives = 346/545 (63%), Gaps = 25/545 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           M+LTSRN+ +L  +M +QK+F +E L +EEAL LF+ + GDS +   +Q IA ++ K C 
Sbjct: 283 MVLTSRNKHILSNEMGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECA 342

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K L IW+DAL QL+ S P  I GMD  VY+++ELSY  L   E K
Sbjct: 343 GLPIAIVTVAKALKNKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVK 402

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           SLF LCGL +  + I +  LL+YGMG  LF+   TLEEA++R+  L+D+LK+S LLLD  
Sbjct: 403 SLFLLCGLMS--NKIYIDDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTG 460

Query: 181 GKDEVKMHDVIHVVAVSIATE-EQMFNIPNVADVE-KKMEETKQKGPIAISLPHRDIQEL 238
               V+MHDV+  VA++I ++  ++F++     VE  KM+E +      +SL + DI EL
Sbjct: 461 HNSFVRMHDVVRDVAIAIVSKVHRVFSLREDELVEWPKMDELQT--CTKMSLAYNDICEL 518

Query: 239 PERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQT 298
           P  L CP LELFL +      ++I + FFE  +++KVL L+ + F+SLPSSL  L NL+T
Sbjct: 519 PIELVCPELELFLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRT 578

Query: 299 LCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV-----------IAPN 347
           L L  C+L DI+I+ +LKKLE  SF  S IE+LP EI QLT L +           I PN
Sbjct: 579 LSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPN 638

Query: 348 LISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLV 407
           +IS  S+LE L M +SF+ W+ VEG SNAS+AE K L  LTTL+IQ+ DA++L  D++  
Sbjct: 639 VISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQIPDAELLLTDVLFE 697

Query: 408 ELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKG 467
           +L RY+I IG+ W  W      ++ ++L+ L+    L +  G+ +LLK A+++HL EL G
Sbjct: 698 KLIRYRIFIGDVWS-WDKNCPTTKTLKLNKLDTSLRLAD--GISLLLKGAKDLHLRELSG 754

Query: 468 VQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKV-FPLLESLSLKKASFV-- 524
             N   +LD  EGF +LK L VE   E+ HI+ S+  +     FP+LESL L +   +  
Sbjct: 755 AANVFPKLDR-EGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQE 813

Query: 525 ILHGQ 529
           + HGQ
Sbjct: 814 VCHGQ 818

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224125154|ref|XP_002319513.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222857889|gb|EEE95436.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  404 bits (1038), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 237/533 (44%), Positives = 337/533 (63%), Gaps = 27/533 (5%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           +++TSR+R++L R M ++K F ++VL + EA  LF+ + GD  K   +Q +A EI KRC 
Sbjct: 282 ILMTSRDRNVLSRGMVTKKVFWLQVLPENEAWNLFKKMAGDVVKYPDLQLVAVEIAKRCA 341

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+ + TVA  LK   L  WKDAL +L+  +    D MD  V +++ELSY+ L  +E K
Sbjct: 342 GLPILIVTVAGTLKDGDLSEWKDALVRLKRFDK---DEMDSRVCSALELSYDSLKGEEIK 398

Query: 121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
           S+F LCG   E H+I +  LL+Y +G GLFK + TLEEAR+R+HRL+++LK+SCLLL+G 
Sbjct: 399 SVFLLCGQL-EPHSIAILDLLKYTVGLGLFKRISTLEEARNRLHRLVNDLKASCLLLEGG 457

Query: 181 GKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQKGPIAISLPHRDIQELPE 240
               VKMHDV+H  A  +A+ +          V K+  +  ++   AISLP   I  LPE
Sbjct: 458 ADGIVKMHDVVHGFAAFVASRDHHVFTLASDTVLKEWPDMPEQCS-AISLPRCKIPGLPE 516

Query: 241 RLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC 300
            L  P  E F+L+ +   S++I D  F+GT+ ++++ +T V+  +LPSSL  L  LQTLC
Sbjct: 517 VLNFPKAESFILYNED-PSLKIPDSLFKGTKTLQLVDMTAVQLPTLPSSLQFLEKLQTLC 575

Query: 301 LGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLV-----------VIAPNLI 349
           L  C LKDIA++G+LK L++LS  DS I  LP EIGQLTRL            +I PN++
Sbjct: 576 LDSCGLKDIAMIGELKMLKVLSLIDSNIVRLPREIGQLTRLQLLDLSNNPRLEMIPPNVL 635

Query: 350 SKFSQLEELYMGDSFSQWDKVEG----GSNASLAELKGLSKLTTLEIQVRDAQILPQDLV 405
           S  +QLE+LYM +SF QW ++EG     +NASLAELK L  L+TL + + D  ILP+D  
Sbjct: 636 SCLTQLEDLYMENSFLQW-RIEGLDSQRNNASLAELKYLPNLSTLHLHITDPMILPRDFF 694

Query: 406 LVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNEL 465
             +L+R+KI IGE W  W    E S  ++L    ++ +     G+++LLK  E++HL+ L
Sbjct: 695 SKKLERFKILIGEGWD-WSRKRETSTTMKLKISASIQS---EEGIQLLLKRTEDLHLDGL 750

Query: 466 KGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSL 518
           KGV++  +EL DG+GFPRLKHL +++  EI +IV S        FPLLESLSL
Sbjct: 751 KGVKSVSYEL-DGQGFPRLKHLHIQNSLEIRYIVDSTMLSPSIAFPLLESLSL 802

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777048|emb|CAN65562.1| hypothetical protein VITISV_009359 [Vitis vinifera]

 Score =  404 bits (1037), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 239/551 (43%), Positives = 346/551 (62%), Gaps = 25/551 (4%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           ++LTSRN+ +L  +M++QK+F ++ L ++E   LF+N  GDS +   +QPIA ++ K C 
Sbjct: 280 LVLTSRNKQVLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECA 339

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
           GLP+A+ TVA ALK+K++ IWKDAL QL S     I GM+  VY+S++LSY  L   E K
Sbjct: 340 GLPIAIVTVAKALKNKNVAIWKDALQQLESQTSTNITGMETKVYSSLKLSYEHLEGDEMK 399

Query: 121 SLFRLCGL-YNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
           SL  LCGL Y++   I ++ LL+YG+G  LF+   TLEEA++R+  L+D LKSS  LL+ 
Sbjct: 400 SLCLLCGLCYSQ---IYISDLLKYGVGLRLFQGTNTLEEAKNRIDTLVDKLKSSNFLLET 456

Query: 180 DGKDEVKMHDVIHVVAVSIATEE-QMF-NIPNVADVEKKMEETKQKGPIAISLPHRDIQE 237
                V+MHD++   A  IA+E+  +F +      VE+     + +    +SL   DI E
Sbjct: 457 GHNAVVRMHDLVRSTARKIASEQLHVFTHQKTTVRVEEWPRTDELQKVTWVSLGDCDIHE 516

Query: 238 LPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQ 297
           LPE L CP LELF  ++K   +++I   FFEG ++++VL  + ++  SLP SL  L NL+
Sbjct: 517 LPEGLLCPELELFQCYQKTSSAVKIPHTFFEGMKQLEVLDFSNMQLPSLPLSLQCLANLR 576

Query: 298 TLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLT-----------RLVVIAP 346
           TLCL GC+L DI I+ +LKKLEILS  DS IE+LP EI QLT           +L VI P
Sbjct: 577 TLCLDGCKLGDIVIIAKLKKLEILSLIDSDIEQLPREIAQLTHLRLFDLKDSSKLKVIPP 636

Query: 347 NLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL 406
           ++IS   +LE+L M +SF+QW+  EG SNA LAELK LS LT+L+IQ+ DA++LP+D+V 
Sbjct: 637 DVISSLFRLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPDAKLLPKDIVF 695

Query: 407 VELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK 466
             L RY+I +G  W  W    + +  ++L+  +    L++  G+  LLK  E++HL EL 
Sbjct: 696 ENLVRYRIFVGNVWS-WKEIFKANSTLKLNKFDTSLHLVD--GISKLLKRTEDLHLRELC 752

Query: 467 GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRK-VFPLLESLSLKKASFV- 524
           G  N + +L+  EGF +LKHL VES  EI +IV S+        FP++E+LSL +   + 
Sbjct: 753 GGTNVLSKLNR-EGFLKLKHLNVESSPEIQYIVNSMDLTSSHGAFPVMETLSLNQLINLQ 811

Query: 525 -ILHGQKPTAA 534
            + HGQ P  +
Sbjct: 812 EVCHGQFPAGS 822

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	561
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.900	0.549	0.260	1.6e-39
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.598	0.341	0.310	5.9e-39
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.682	0.421	0.298	4.1e-35
TAIR|locus:2171579	843	AT5G47250 [Arabidopsis thalian	0.600	0.399	0.281	1.1e-23
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.629	0.394	0.279	1.2e-23
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.705	0.445	0.269	2.4e-23
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.590	0.434	0.290	7.1e-23
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.664	0.438	0.276	1.1e-22
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.590	0.368	0.281	2.7e-22
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.775	0.449	0.264	6.6e-22

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

 Score = 431 (156.8 bits), Expect = 1.6e-39, P = 1.6e-39
 Identities = 141/541 (26%), Positives = 262/541 (48%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
             ++LTSR  ++ ++ M ++ N  +  L ++EA +LF + +G+   +  ++PIA ++   C 
Sbjct:   248 VVLTSRRLEVCQQMMTNE-NIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECC 306

Query:    61 GLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
             GLP+A+ T+   L+ K  +++WK  L+ L+ S P  ID  +K ++ +++LSY+ L     
Sbjct:   307 GLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAP-SIDTEEK-IFGTLKLSYDFLQDN-M 363

Query:   120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
             KS F  C L+ E ++I+V+ L+ Y +  GL    +  E+  +    L++ LK SCLL DG
Sbjct:   364 KSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDG 423

Query:   180 DGKDEVKMHDVIHVVAV-SIATEEQMFNIPNVADVEKKMEETKQKGPIA----ISLPHRD 234
             D  D VKMHDV+   A+  ++++ + F+  ++    + + E  Q   ++    +SL    
Sbjct:   424 DSCDTVKMHDVVRDFAIWFMSSQGEGFH--SLVMAGRGLIEFPQDKFVSSVQRVSLMANK 481

Query:   235 IQELPERLQCPNLELFLLFRKGYGSM-QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRL 293
             ++ LP  +    +E  +L  +G   + ++ + F +    +++L L+GVR  +LP S   L
Sbjct:   482 LERLPNNV-IEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNL 540

Query:   294 FNLQTLCLGGCR-LKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA------- 345
              +L++L L  C+ L+++  +  L KL+ L   +S I ELP  +  L+ L  I        
Sbjct:   541 HSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQL 600

Query:   346 ---P-NLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE-IQVRDAQIL 400
                P   I + S LE L M  S   W  ++G      A L  ++ L  L+ + ++   +L
Sbjct:   601 QSIPAGTILQLSSLEVLDMAGSAYSWG-IKGEEREGQATLDEVTCLPHLQFLAIKLLDVL 659

Query:   401 PQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTL-LENYGMKMLLKEAEE 459
                     L +    + +   ++     +S      G   +S + + N  +  LL+    
Sbjct:   660 SFSYEFDSLTKR---LTKFQFLFSPIRSVSPPGTGEGCLAISDVNVSNASIGWLLQHVTS 716

Query:   460 IHLNELKGVQNAVHEL--DDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLS 517
             + LN  +G+      L       F  +K L +     +    G   ++   +FP LE LS
Sbjct:   717 LDLNYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQL--DLFPNLEELS 774

Query:   518 L 518
             L
Sbjct:   775 L 775

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 412 (150.1 bits), Expect = 5.9e-39, Sum P(2) = 5.9e-39
 Identities = 108/348 (31%), Positives = 190/348 (54%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
             +ILTSR  ++  R M +  +  ++ L +E+A +LF    GD  ++  ++ IA  + + CG
Sbjct:   278 VILTSRFLEVC-RSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECG 336

Query:    61 GLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA 119
             GLP+A+ TV  A++ K ++ +W   LS+L  S P  I  +++ ++  ++LSY+ L  K A
Sbjct:   337 GLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLEDK-A 394

Query:   120 KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDG 179
             K  F LC L+ E ++I+V  ++RY M  G  + + + E++ +     +++LK  CLL DG
Sbjct:   395 KFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDG 454

Query:   180 DGKDEVKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEETKQK-GPIA--ISLPHRDIQ 236
             D +D VKMHDV+   A+ I +  Q  +   V       +  + K  P    +SL +  ++
Sbjct:   455 DRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLE 514

Query:   237 ELPERLQ--CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRL 293
              LP+ ++  C    + LL +  +   ++   F +    +++L+L+G R  S PS SL RL
Sbjct:   515 SLPDLVEEFCVKTSVLLL-QGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRL 573

Query:   294 FNLQTLCLGGC-RLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTR 340
             F+L +L L  C +L  +  +  L KLE+L    ++I E P  + +L R
Sbjct:   574 FSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKR 621

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 381 (139.2 bits), Expect = 4.1e-35, Sum P(2) = 4.1e-35
 Identities = 123/412 (29%), Positives = 217/412 (52%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILG--DSTKTSTIQPIADEIVKR 58
             ++ T+R+  L   +M ++    +E L K+ A +LF + +   D  ++S+I+ +A+ IV +
Sbjct:   286 VMFTTRSIALCN-NMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSK 344

Query:    59 CGGLPVAVTTVANALKSKSLDI-WKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
             CGGLP+A+ T+  A+  +  +  W  A S++ +  P E+ GM+  V+  ++ SY+ L S 
Sbjct:   345 CGGLPLALITLGGAMAHRETEEEWIHA-SEVLTRFPAEMKGMNY-VFALLKFSYDNLESD 402

Query:   118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
               +S F  C L+ E H+I++  L+ Y +G G   + + +     + + LI +LK++CLL 
Sbjct:   403 LLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHGVNTIY-KGYFLIGDLKAACLLE 461

Query:   178 DGDGKDEVKMHDVIHVVAVSIATEEQMFNI-----PNVADVEK-KMEETKQKGPIAISLP 231
              GD K +VKMH+V+   A+ +A+E+  +       P++   E  K E  +Q   + ISL 
Sbjct:   462 TGDEKTQVKMHNVVRSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQA--LVISLL 519

Query:   232 HRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLG 291
                IQ LPE+L CP L   +L ++     +I   FF     ++VL L+    + +P S+ 
Sbjct:   520 DNRIQTLPEKLICPKLTTLML-QQNSSLKKIPTGFFMHMPVLRVLDLSFTSITEIPLSIK 578

Query:   292 RLFNLQTLCLGGCRLKDIAI-VGQLKKLEILSF-RDSYIEELPHE-IGQLTRLVVIAPNL 348
              L  L  L + G ++  +   +G L+KL+ L   R  +++ +P + I  L++L V+  NL
Sbjct:   579 YLVELYHLSMSGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVL--NL 636

Query:   349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL 400
                ++  E      SF + D+ E       A+L+ L  LTTL I V   + L
Sbjct:   637 YYSYAGWEL----QSFGE-DEAE---ELGFADLEYLENLTTLGITVLSLETL 680

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:2171579 AT5G47250 [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 99/352 (28%), Positives = 177/352 (50%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFE-NILGDSTKTSTIQPIADEIVKRC 59
             ++ T+R++D+    M + ++  ++ LS+ +A  LF+  +  D    + I  IA +IV +C
Sbjct:   289 VVFTTRSKDVCSV-MRANEDIEVQCLSENDAWDLFDMKVHCDGL--NEISDIAKKIVAKC 345

Query:    60 GGLPVAVTTVANALKSKSLDI-WKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKE 118
              GLP+A+  +   + SKS  I W+ AL  L S    E+ G +K ++  ++LSY+ L +K 
Sbjct:   346 CGLPLALEVIRKTMASKSTVIQWRRALDTLESYRS-EMKGTEKGIFQVLKLSYDYLKTKN 404

Query:   119 AKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLD 178
             AK  F  C L+ + + I+   L+ Y +G G        E A+ R + +IDNL  + LLL+
Sbjct:   405 AKC-FLYCALFPKAYYIKQDELVEYWIGEGFIDEKDGRERAKDRGYEIIDNLVGAGLLLE 463

Query:   179 GDGKDEVKMHDVIHVVAVSIATE---EQMFNIPNVADVEKKMEETKQKGPIAISLPHRDI 235
              + K  V MHD+I  +A+ I +E    + + +   A + +  + T       +SL + +I
Sbjct:   464 SNKK--VYMHDMIRDMALWIVSEFRDGERYVVKTDAGLSQLPDVTDWTTVTKMSLFNNEI 521

Query:   236 QELPERLQCPN-LELFLLFRKGYGSMQISDLFFEGTEEVKVLSLT-GVRFSSLPSSLGRL 293
             + +P+  + P+   L  LF +    + I   FF     + VL L+   + + LP  +  L
Sbjct:   522 KNIPDDPEFPDQTNLVTLFLQNNRLVDIVGKFFLVMSTLVVLDLSWNFQITELPKGISAL 581

Query:   294 FNLQTLCLGGCRLKDIAI-VGQLKKLEILSFRDSYIEELPHEIGQLTRLVVI 344
              +L+ L L G  +K +   +G L KL  L+   +        I +L +L V+
Sbjct:   582 VSLRLLNLSGTSIKHLPEGLGVLSKLIHLNLESTSNLRSVGLISELQKLQVL 633

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

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

 Score = 303 (111.7 bits), Expect = 1.2e-23, P = 1.2e-23
 Identities = 105/376 (27%), Positives = 186/376 (49%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
             ++ T+R+RD+  R M       +  L   EA +LF+  +G++T      I  +A ++  +
Sbjct:   289 VVFTTRSRDVCGR-MRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGK 347

Query:    59 CGGLPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
             C GLP+A+  +   +  K +   W++A+  L SS   E  GM++ +   ++ SY+ L  +
Sbjct:   348 CCGLPLALNVIGETMACKRMVQEWRNAIDVL-SSYAAEFPGMEQ-ILPILKYSYDNLNKE 405

Query:   118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
             + K  F  C L+ E + ++   L+ Y +  G      + E A S+ + +I  L  +CLLL
Sbjct:   406 QVKPCFLYCSLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYEIIGILVRACLLL 465

Query:   178 D-GDGKDEVKMHDVIHVVAVSIAT---EEQMFNIPNVADVEKKMEETKQKGPIA-ISLPH 232
             +    K++VKMHDV+  +A+ IA+   E +   I  V    +++ + K    +  +SL  
Sbjct:   466 EEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSLME 525

Query:   233 RDIQELPERLQCPNLELFLLF-RKGYGSMQISDLFFEGTEEVKVLSLTG-VRFSSLPSSL 290
              +I+ L    +C  LEL  LF +K    + ISD FF     + VL L+G      LP+ +
Sbjct:   526 NEIEILSGSPEC--LELTTLFLQKNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQI 583

Query:   291 GRLFNLQTLCLGGCRLKDIAI-VGQLKKLEILSFRDSYIEELPH-----EIGQLTRLVVI 344
              +L +L+ L L    +K + + + +LKKL  L  R  Y++ L        I  L +L ++
Sbjct:   584 SKLVSLRYLDLSWTYIKRLPVGLQELKKLRYL--RLDYMKRLKSISGISNISSLRKLQLL 641

Query:   345 APNLISKFSQLEELYM 360
                +    S +EEL +
Sbjct:   642 QSKMSLDMSLVEELQL 657

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 305 (112.4 bits), Expect = 2.4e-23, Sum P(2) = 2.4e-23
 Identities = 113/420 (26%), Positives = 204/420 (48%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
             ++ T+R +++  R M    +  +  L+ ++A  LF   +G+ T  S   I  +A  + K+
Sbjct:   287 IVFTTRLKEICGR-MGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKK 345

Query:    59 CGGLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
             C GLP+A+  +   +  K ++  W+ A+  L SS   E  GM+  +   ++ SY+ L S+
Sbjct:   346 CRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSS-AAEFSGMEDEILPILKYSYDNLKSE 404

Query:   118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
             + K  F+ C L+ E H I+   L+ Y +G G         +A ++ + +I  L  SCLL+
Sbjct:   405 QLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFIDR--NKGKAENQGYEIIGILVRSCLLM 462

Query:   178 DGDGKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVEKKMEETKQKGPIA--ISLPHR 233
             + + ++ VKMHDV+  +A+ IA++  +Q  N    A ++ +     +K  +A  +SL   
Sbjct:   463 E-ENQETVKMHDVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRVSLMFN 521

Query:   234 DIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGR 292
             +I+ + +  + P L + LL RK +    IS  FF     + VL L+  R    LP+ +  
Sbjct:   522 NIESIRDAPESPQL-ITLLLRKNFLG-HISSSFFRLMPMLVVLDLSMNRDLRHLPNEISE 579

Query:   293 LFNLQTLCLGGCRLKDIAIVG--QLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLIS 350
               +LQ L L   R++ I   G  +L+KL  L+   + + E    I  LT L V+    +S
Sbjct:   580 CVSLQYLSLSRTRIR-IWPAGLVELRKLLYLNLEYTRMVESICGISGLTSLKVLRL-FVS 637

Query:   351 KFSQ----LEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL 406
              F +    L EL + ++  Q   +  G  + L +     +L +    +R   + PQ  V+
Sbjct:   638 GFPEDPCVLNELQLLENL-QTLTITLGLASILEQFLSNQRLASCTRALRIENLNPQSSVI 696

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 7.1e-23, P = 7.1e-23
 Identities = 101/348 (29%), Positives = 173/348 (49%)

Query:     4 TSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCGG 61
             T+R++ +   +M   K   ++ L  E+A +LF+N +GD+T  S   I  +A E+ ++C G
Sbjct:   177 TTRDQKVCG-EMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCRG 235

Query:    62 LPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
             LP+A++ +   + SK++   W+ A+  L  S   E   M   +   ++ SY+ L  +  K
Sbjct:   236 LPLALSVIGETMASKTMVQEWEHAIDVLTRS-AAEFSNMGNKILPILKYSYDSLGDEHIK 294

Query:   121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
             S F  C L+ E   I    L+ Y +  G       ++ AR++ + ++  L  + LL    
Sbjct:   295 SCFLYCALFPEDDEIYNEKLIDYWICEGFIGEDQVIKRARNKGYEMLGTLTLANLLTKV- 353

Query:   181 GKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVE-KKMEETKQKGPIA-ISLPHRDIQ 236
             G + V MHDV+  +A+ IA++  +Q  N    A V   +  E K  G +  +SL    I+
Sbjct:   354 GTEHVVMHDVVREMALWIASDFGKQKENFVVRARVGLHERPEAKDWGAVRRMSLMDNHIE 413

Query:   237 ELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGRLFN 295
             E+    +C   EL  LF +      +S  F    +++ VL L+  R F+ LP  +  L +
Sbjct:   414 EITCESKCS--ELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSYNRDFNKLPEQISGLVS 471

Query:   296 LQTLCLGGCRLKDIAIVGQLKKLEILSFRD-SYIEELPHEIGQLTRLV 342
             LQ L L    +K +  VG LKKL+ L+F + +Y   L   I  ++RL+
Sbjct:   472 LQFLDLSNTSIKQLP-VG-LKKLKKLTFLNLAYTVRLC-SISGISRLL 516

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 294 (108.6 bits), Expect = 1.1e-22, P = 1.1e-22
 Identities = 114/413 (27%), Positives = 201/413 (48%)

Query:     1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKR 58
             ++ T+R++D+  RDM       ++ L  +EA +LF+  +G     S   I  +A ++ ++
Sbjct:   286 IVFTTRSKDVC-RDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEK 344

Query:    59 CGGLPVAVTTVANALKSK-SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
             C GLP+A++ +  A+ S+ ++  W+  +  L SS+  E   M++ +   ++ SY+ L  +
Sbjct:   345 CCGLPLALSVIGKAMASRETVQEWQHVIHVLNSSS-HEFPSMEEKILPVLKFSYDDLKDE 403

Query:   118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
             + K  F  C L+ E + ++   L+ Y M  G        + A ++ H +I +L  + LL+
Sbjct:   404 KVKLCFLYCSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHDIIGSLVRAHLLM 463

Query:   178 DGDGKDEVKMHDVIHVVAVSIAT-----EEQMFNIPNV--ADVEKKME-ETKQKGPIAIS 229
             DG+   +VKMHDVI  +A+ IA+     +E +   P V    + K +  E+ ++    +S
Sbjct:   464 DGELTTKVKMHDVIREMALWIASNFGKQKETLCVKPGVQLCHIPKDINWESLRR----MS 519

Query:   230 LPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLT-GVRFSSLPS 288
             L    I  +      PNL   LL  +    + IS  FF     + VL L+     SSLP 
Sbjct:   520 LMCNQIANISSSSNSPNLSTLLL--QNNKLVHISCDFFRFMPALVVLDLSRNSSLSSLPE 577

Query:   289 SLGRLFNLQTLCLGGCRLKDIAI-VGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPN 347
             ++ +L +LQ + L    +K + +   +LKKL  L+    + +EL   +G  T L    PN
Sbjct:   578 AISKLGSLQYINLSTTGIKWLPVSFKELKKLIHLNLE--FTDELESIVGIATSL----PN 631

Query:   348 LISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL 400
             L     Q+ +L     FS    ++G   + + EL  L  L  L   ++DA IL
Sbjct:   632 L-----QVLKL-----FSSRVCIDG---SLMEELLLLEHLKVLTATIKDALIL 671

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 291 (107.5 bits), Expect = 2.7e-22, P = 2.7e-22
 Identities = 98/348 (28%), Positives = 173/348 (49%)

Query:     4 TSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCGG 61
             T+R+R++   +M   K   +  L  E+A +LF+N +GD+T +S   I  +A E+ ++C G
Sbjct:   288 TTRSREVCG-EMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRG 346

Query:    62 LPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
             LP+A+  +   + SK++   W+ A+    +S   E   M   +   ++ SY+ L  +  K
Sbjct:   347 LPLALNVIGETMSSKTMVQEWEHAIHVFNTS-AAEFSDMQNKILPILKYSYDSLGDEHIK 405

Query:   121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
             S F  C L+ E   I    L+ Y +  G       ++ AR++ + ++  L  + LL    
Sbjct:   406 SCFLYCALFPEDGEIYNEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKV- 464

Query:   181 GKDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVE-KKMEETKQKGPIA-ISLPHRDIQ 236
             G     MHDV+  +A+ IA++  +Q  N    A V   ++ + K  G +  +SL   DI+
Sbjct:   465 GTYYCVMHDVVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRKMSLMDNDIE 524

Query:   237 ELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGRLFN 295
             E+    +C   EL  LF +      +   F    +++ VL L+  R F+ LP  +  L +
Sbjct:   525 EITCESKCS--ELTTLFLQSNKLKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVS 582

Query:   296 LQTLCLGGCRLKDIAIVGQLKKLEILSFRD-SYIEELPHEIGQLTRLV 342
             LQ L L    ++ + I G LK+L+ L+F D +Y + L   I  ++RL+
Sbjct:   583 LQFLDLSNTSIEHMPI-G-LKELKKLTFLDLTYTDRLC-SISGISRLL 627

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 288 (106.4 bits), Expect = 6.6e-22, P = 6.6e-22
 Identities = 125/472 (26%), Positives = 221/472 (46%)

Query:     4 TSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTS--TIQPIADEIVKRCGG 61
             T+R++ +  + M   K   ++ L  E+A +LF+N +GD+T  S   I  +A E+ ++C G
Sbjct:   289 TTRDQKVCGQ-MGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRG 347

Query:    62 LPVAVTTVANALKSKSL-DIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAK 120
             LP+A++ +   + SK++   W+ A+  L  S   E   M   +   ++ SY+ L  +  K
Sbjct:   348 LPLALSCIGETMASKTMVQEWEHAIDVLTRS-AAEFSDMQNKILPILKYSYDSLEDEHIK 406

Query:   121 SLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD 180
             S F  C L+ E   I   +L+   +  G       ++ AR++ + ++  L  + LL +  
Sbjct:   407 SCFLYCALFPEDDKIDTKTLINKWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDR 466

Query:   181 G--KDEVKMHDVIHVVAVSIATE--EQMFNIPNVADVE-KKMEETKQKGPIA-ISLPHRD 234
             G  K  V MHDV+  +A+ IA++  +Q  N    A V   ++ + K  G +  +SL   +
Sbjct:   467 GFVKWHVVMHDVVREMALWIASDFGKQKENYVVRARVGLHEIPKVKDWGAVRRMSLMMNE 526

Query:   235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLT-GVRFSSLPSSLGRL 293
             I+E+    +C   EL  LF +      +S  F    +++ VL L+    F+ LP  +  L
Sbjct:   527 IEEITCESKCS--ELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGL 584

Query:   294 FNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFS 353
              +LQ L L   R++ +  VG LK+L+ L F +    E         RL  I+   IS+  
Sbjct:   585 VSLQYLDLSWTRIEQLP-VG-LKELKKLIFLNLCFTE---------RLCSISG--ISRLL 631

Query:   354 QLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYK 413
              L  L + +S      V G ++  L EL+ L  L  L I    A+++  D  L +L    
Sbjct:   632 SLRWLSLRES-----NVHGDASV-LKELQQLENLQDLRI-TESAELISLDQRLAKLISVL 684

Query:   414 ICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE--IHLN 463
                G   + + + S ++ +  L+GL   ++      +K    E E   +H+N
Sbjct:   685 RIEGFLQKPFDL-SFLASMENLYGLLVENSYFSEINIKCRESETESSYLHIN 735

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	561
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-21
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	5e-04
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.001

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 92.4 bits (230), Expect = 9e-21
 Identities = 42/152 (27%), Positives = 75/152 (49%), Gaps = 6/152 (3%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDST--KTSTIQPIADEIVKR 58
           +I+T+R+  +  R   + K   +E L  EE+ +LF N + +        ++ +A EIV++
Sbjct: 131 VIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEK 190

Query: 59  CGGLPVAVTTVANALKSKS-LDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASK 117
           C GLP+A+  +   L  KS +  W+  L QL +      DG++  V + + LSY+ L   
Sbjct: 191 CKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNE-LAGRDGLN-EVLSILSLSYDNLPM- 247

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGL 149
             K  F    L+ E + I+   L++  +  G 
Sbjct: 248 HLKRCFLYLALFPEDYNIRKEQLIKLWIAEGF 279

Length = 285

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

 Score = 42.3 bits (99), Expect = 5e-04
 Identities = 36/132 (27%), Positives = 55/132 (41%), Gaps = 4/132 (3%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDI-AIVGQLKKLE 319
            I  L       +K L L+  +  SLPS L  L NL+ L L    L D+  ++  L  L 
Sbjct: 130 DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLN 189

Query: 320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA 379
            L    + I +LP EI  L+ L  +    +S  S +E L    +      +E  +N    
Sbjct: 190 NLDLSGNKISDLPPEIELLSALEEL---DLSNNSIIELLSSLSNLKNLSGLELSNNKLED 246

Query: 380 ELKGLSKLTTLE 391
             + +  L+ LE
Sbjct: 247 LPESIGNLSNLE 258

Length = 394

>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies)

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 12/39 (30%), Positives = 19/39 (48%)

Query: 295 NLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
           NL+TL L   ++ D+  +  L  LE L    + I +L  
Sbjct: 2   NLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLSP 40

Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains. Length = 43

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	561
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.89
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.83
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.82
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.78
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.78
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.74
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.72
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.71
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.66
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.62
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.6
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.5
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.5
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.44
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.41
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.39
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.34
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.28
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.26
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.07
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.06
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.01
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.98
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.96
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.92
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.8
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.79
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.61
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.61
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.56
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.55
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.53
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.46
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.41
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.37
PLN03150	623	hypothetical protein; Provisional	98.31
PLN03150	623	hypothetical protein; Provisional	98.17
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.17
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.02
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.02
KOG4341	483	consensus F-box protein containing LRR [General fu	98.01
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.0
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.97
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.94
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.86
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.84
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.81
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.77
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.76
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.64
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.6
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.49
PRK15386	426	type III secretion protein GogB; Provisional	97.49
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.43
KOG4341	483	consensus F-box protein containing LRR [General fu	97.22
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.22
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.19
PRK04841	903	transcriptional regulator MalT; Provisional	97.16
PRK15386	426	type III secretion protein GogB; Provisional	97.14
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.12
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.03
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.67
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.48
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.25
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.21
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.91
KOG1947	482	consensus Leucine rich repeat proteins, some prote	95.89
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.76
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.29
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	94.64
COG3903	414	Predicted ATPase [General function prediction only	94.19
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.18
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.05
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	91.57
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	90.88
smart00370	26	LRR Leucine-rich repeats, outliers.	90.88
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	90.36
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	90.28
KOG3864	221	consensus Uncharacterized conserved protein [Funct	89.94
smart00370	26	LRR Leucine-rich repeats, outliers.	89.83
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	89.83
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	88.09
KOG1947	482	consensus Leucine rich repeat proteins, some prote	87.64
KOG0473	326	consensus Leucine-rich repeat protein [Function un	85.84
KOG0473	326	consensus Leucine-rich repeat protein [Function un	84.02
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	81.71

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=5.7e-59  Score=502.37  Aligned_cols=519  Identities=25%  Similarity=0.331  Sum_probs=375.6

Q ss_pred             CEEeeccchhhhcccCCcceEecCCCCHHHHHHHHHHHhCCC--CCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCC-C
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDS--TKTSTIQPIADEIVKRCGGLPVAVTTVANALKSK-S   77 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~~L~~~~a~~Lf~~~~~~~--~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~-~   77 (561)
                      |++|||++.|+..++++...+++++|.++|||+||++.||..  ..++.++++|+++|++|+|+|||+.++|+.|+.+ +
T Consensus       292 vvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t  371 (889)
T KOG4658|consen  292 VVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKT  371 (889)
T ss_pred             EEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCc
Confidence            689999999987668888999999999999999999999843  3445589999999999999999999999999987 8


Q ss_pred             HHHHHHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCcccccccHH
Q 041360           78 LDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLE  157 (561)
Q Consensus        78 ~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~~~  157 (561)
                      .++|+++++.+.+....+.+.+...+..++++||+.||++ +|.||+|||.||+||.|+++.++.+|+||||+......+
T Consensus       372 ~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~  450 (889)
T KOG4658|consen  372 VQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGE  450 (889)
T ss_pred             HHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHHHHhhccCCcccccchHHHHHHHHhccCcCcccccc
Confidence            8899999999988766666667899999999999999975 999999999999999999999999999999998877788


Q ss_pred             HHHHHHHHHHHHHHHcCcccccC---CCCceehhHHHHHHHHHHhh-----cCceEEecCcchh--hhhhhcccCCCceE
Q 041360          158 EARSRVHRLIDNLKSSCLLLDGD---GKDEVKMHDVIHVVAVSIAT-----EEQMFNIPNVADV--EKKMEETKQKGPIA  227 (561)
Q Consensus       158 ~~~~~~~~~i~~L~~~sll~~~~---~~~~~~mh~lv~~~~~~~~~-----~e~~~~~~~~~~~--~~~~~~~~~~~l~~  227 (561)
                      .+++.+++++++||++++++..+   ....|+|||+||++|.+++.     +++ ..+.++...  .....+|  ..+|+
T Consensus       451 ~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~-~iv~~~~~~~~~~~~~~~--~~~rr  527 (889)
T KOG4658|consen  451 TAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEEN-QIVSDGVGLSEIPQVKSW--NSVRR  527 (889)
T ss_pred             chhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccc-eEEECCcCccccccccch--hheeE
Confidence            88999999999999999998764   44789999999999999999     555 333322100  1112233  57899


Q ss_pred             EEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC-CCCCCchhhcCCCCCcEEEeCCCCC
Q 041360          228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV-RFSSLPSSLGRLFNLQTLCLGGCRL  306 (561)
Q Consensus       228 l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~i~~lp~~i~~L~~L~~L~l~~~~l  306 (561)
                      +++.++.+..++....+++|++|.+.++...+..++..+|..|++||+|||++| .+.++|.+|+.|.|||||+++++.+
T Consensus       528 ~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I  607 (889)
T KOG4658|consen  528 MSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGI  607 (889)
T ss_pred             EEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCc
Confidence            999999999999988999999999999862267888999999999999999987 5888999999999999999999999


Q ss_pred             CC-cccccCCCCCcEEEccCCc-CcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCC
Q 041360          307 KD-IAIVGQLKKLEILSFRDSY-IEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGL  384 (561)
Q Consensus       307 ~~-p~~i~~L~~L~~L~l~~~~-~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l  384 (561)
                      ++ |..+++|++|++||+..+. ...+|..              ...|++|++|.+......      .+...+.++.++
T Consensus       608 ~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i--------------~~~L~~Lr~L~l~~s~~~------~~~~~l~el~~L  667 (889)
T KOG4658|consen  608 SHLPSGLGNLKKLIYLNLEVTGRLESIPGI--------------LLELQSLRVLRLPRSALS------NDKLLLKELENL  667 (889)
T ss_pred             cccchHHHHHHhhheeccccccccccccch--------------hhhcccccEEEeeccccc------cchhhHHhhhcc
Confidence            99 9999999999999999884 3333322              344666666665544311      122344566666


Q ss_pred             CCCcEEEEeeccCcccCcccccccccEEEEEe---cccccc---CCCCccccceEEEecCCccchhh-hhhh----HHH-
Q 041360          385 SKLTTLEIQVRDAQILPQDLVLVELQRYKICI---GEAWRM---WGVTSEISRLVRLHGLENVSTLL-ENYG----MKM-  452 (561)
Q Consensus       385 ~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~---~~~~~~---~~~~~~~~~l~~L~~~~~~~~~~-~~~~----~~~-  452 (561)
                      ++|+.+.++..+...+.......+|.++....   +...+.   ....+..+  ..|.+.+|. ... ...+    ... 
T Consensus       668 e~L~~ls~~~~s~~~~e~l~~~~~L~~~~~~l~~~~~~~~~~~~~~~~l~~L--~~L~i~~~~-~~e~~~~~~~~~~~~~  744 (889)
T KOG4658|consen  668 EHLENLSITISSVLLLEDLLGMTRLRSLLQSLSIEGCSKRTLISSLGSLGNL--EELSILDCG-ISEIVIEWEESLIVLL  744 (889)
T ss_pred             cchhhheeecchhHhHhhhhhhHHHHHHhHhhhhcccccceeecccccccCc--ceEEEEcCC-Cchhhcccccccchhh
Confidence            66666666543331111111222222111100   000000   11111111  222222111 100 0000    001 


Q ss_pred             hhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcc-----cCCcCcccccc-ccccccc--c
Q 041360          453 LLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRV-----RRKVFPLLESL-SLKKASF--V  524 (561)
Q Consensus       453 ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~-----~~~~~~~L~~L-~l~~c~~--~  524 (561)
                      .|+++..+.+.+|...+.+.+..    -.|+|+.|.+..|+.++++.+.....     ....|.+++.+ .+.+.+.  .
T Consensus       745 ~f~~l~~~~~~~~~~~r~l~~~~----f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~  820 (889)
T KOG4658|consen  745 CFPNLSKVSILNCHMLRDLTWLL----FAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQ  820 (889)
T ss_pred             hHHHHHHHHhhccccccccchhh----ccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCce
Confidence            14666777777777777776643    37888888888888887766542211     14566667777 4666665  5


Q ss_pred             ccCCCCCCCCCCCCcccCCCccccccccc
Q 041360          525 ILHGQKPTAASKGPEREKPTTSLGFNEII  553 (561)
Q Consensus       525 ~~~~~~~~~~l~~L~~L~i~~c~~l~~~~  553 (561)
                      ++..++++.   .|+.+.|..||++..++
T Consensus       821 i~~~~l~~~---~l~~~~ve~~p~l~~~P  846 (889)
T KOG4658|consen  821 LYWLPLSFL---KLEELIVEECPKLGKLP  846 (889)
T ss_pred             eEecccCcc---chhheehhcCcccccCc
Confidence            555554432   37777777777766544

>PLN03210 Resistant to P

Probab=100.00  E-value=3.2e-48  Score=441.25  Aligned_cols=503  Identities=19%  Similarity=0.280  Sum_probs=372.0

Q ss_pred             CEEeeccchhhhcccCCcceEecCCCCHHHHHHHHHHHhCC-CCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHH
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGD-STKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLD   79 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~~L~~~~a~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~   79 (561)
                      ||||||++.|+.. .+..++|+++.|++++||+||+++||. ..+++++.+++++||++|+|+||||+++|++|++++..
T Consensus       327 IIiTTrd~~vl~~-~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~  405 (1153)
T PLN03210        327 IIVITKDKHFLRA-HGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKE  405 (1153)
T ss_pred             EEEEeCcHHHHHh-cCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHH
Confidence            7999999999853 566789999999999999999999994 44556788999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCcccccccHHHH
Q 041360           80 IWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEA  159 (561)
Q Consensus        80 ~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~~~~~  159 (561)
                      +|+.+++++.+.+       ..++..++++||+.|++++.|.||+++|+||.+..++   .+..|.+.+....       
T Consensus       406 ~W~~~l~~L~~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~-------  468 (1153)
T PLN03210        406 DWMDMLPRLRNGL-------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV-------  468 (1153)
T ss_pred             HHHHHHHHHHhCc-------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc-------
Confidence            9999999987652       4679999999999998644899999999999875443   3555666654321       


Q ss_pred             HHHHHHHHHHHHHcCcccccCCCCceehhHHHHHHHHHHhhcCc-----eEEecCcchhhhhhhcccC-CCceEEEccCC
Q 041360          160 RSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVSIATEEQ-----MFNIPNVADVEKKMEETKQ-KGPIAISLPHR  233 (561)
Q Consensus       160 ~~~~~~~i~~L~~~sll~~~~~~~~~~mh~lv~~~~~~~~~~e~-----~~~~~~~~~~~~~~~~~~~-~~l~~l~l~~~  233 (561)
                          ...++.|+++||++..  .+++.|||++|+||+.+++++.     +..+++.+++...++.-.+ .+++.+++..+
T Consensus       469 ----~~~l~~L~~ksLi~~~--~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~  542 (1153)
T PLN03210        469 ----NIGLKNLVDKSLIHVR--EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDID  542 (1153)
T ss_pred             ----hhChHHHHhcCCEEEc--CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccC
Confidence                1247789999999765  3579999999999999987652     3344555555544433222 44555554433


Q ss_pred             Ccc---------------------------------ccCCcc-CC-CCccEEEeeccCCCCccccHHHHcCCCCccEEEe
Q 041360          234 DIQ---------------------------------ELPERL-QC-PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSL  278 (561)
Q Consensus       234 ~~~---------------------------------~l~~~~-~~-~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l  278 (561)
                      .+.                                 .+|..+ .+ .+||.|.+.++.  +..+|..+  .+.+|+.|++
T Consensus       543 ~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~--l~~lP~~f--~~~~L~~L~L  618 (1153)
T PLN03210        543 EIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYP--LRCMPSNF--RPENLVKLQM  618 (1153)
T ss_pred             ccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCC--CCCCCCcC--CccCCcEEEC
Confidence            222                                 122222 11 346666665553  66677664  5688899999


Q ss_pred             cCCCCCCCchhhcCCCCCcEEEeCCCC-CCCcccccCCCCCcEEEccCC-cCcccChhhhccccc-----------cccC
Q 041360          279 TGVRFSSLPSSLGRLFNLQTLCLGGCR-LKDIAIVGQLKKLEILSFRDS-YIEELPHEIGQLTRL-----------VVIA  345 (561)
Q Consensus       279 ~~~~i~~lp~~i~~L~~L~~L~l~~~~-l~~p~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L-----------~~l~  345 (561)
                      +++.+..+|.++..+.+|++|+|++|. +..++.++.+++|++|++++| .+..+|..+++|++|           +.+|
T Consensus       619 ~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp  698 (1153)
T PLN03210        619 QGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILP  698 (1153)
T ss_pred             cCccccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccC
Confidence            998888888888899999999999886 555556888999999999988 688889888887777           3445


Q ss_pred             chhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCC-
Q 041360          346 PNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWG-  424 (561)
Q Consensus       346 ~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-  424 (561)
                      .. + ++++|+.|++++|......+.           ...+|+.|+++.+.+..+|....+++|+.|.++......-|. 
T Consensus       699 ~~-i-~l~sL~~L~Lsgc~~L~~~p~-----------~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~  765 (1153)
T PLN03210        699 TG-I-NLKSLYRLNLSGCSRLKSFPD-----------ISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWER  765 (1153)
T ss_pred             Cc-C-CCCCCCEEeCCCCCCcccccc-----------ccCCcCeeecCCCccccccccccccccccccccccchhhcccc
Confidence            43 2 788999999988865433221           235889999999999889988888899988875422110010 


Q ss_pred             -------CCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccch
Q 041360          425 -------VTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILH  497 (561)
Q Consensus       425 -------~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~  497 (561)
                             ......++..|++.+|......|.++..+ ++|+.|++.+|..++.+|..    ..+++|+.|++++|.+++.
T Consensus       766 ~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L-~~L~~L~Ls~C~~L~~LP~~----~~L~sL~~L~Ls~c~~L~~  840 (1153)
T PLN03210        766 VQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNL-HKLEHLEIENCINLETLPTG----INLESLESLDLSGCSRLRT  840 (1153)
T ss_pred             ccccchhhhhccccchheeCCCCCCccccChhhhCC-CCCCEEECCCCCCcCeeCCC----CCccccCEEECCCCCcccc
Confidence                   01122456677776654344467777776 99999999999988888764    3588999999999988877


Q ss_pred             hhcccC----------c-----ccCCcCccccccccccccc--cccCCCCCCCCCCCCcccCCCcccccccc
Q 041360          498 IVGSVG----------R-----VRRKVFPLLESLSLKKASF--VILHGQKPTAASKGPEREKPTTSLGFNEI  552 (561)
Q Consensus       498 l~~~~~----------~-----~~~~~~~~L~~L~l~~c~~--~~~~~~~~~~~l~~L~~L~i~~c~~l~~~  552 (561)
                      +|....          .     .....+++|+.|.+.+|++  .++   .....+++|+.+.+.+|++|..+
T Consensus       841 ~p~~~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~---~~~~~L~~L~~L~l~~C~~L~~~  909 (1153)
T PLN03210        841 FPDISTNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVS---LNISKLKHLETVDFSDCGALTEA  909 (1153)
T ss_pred             ccccccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccC---cccccccCCCeeecCCCcccccc
Confidence            653210          0     0235678899999999998  443   33677889999999999998765

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.89  E-value=1e-23  Score=206.46  Aligned_cols=150  Identities=33%  Similarity=0.582  Sum_probs=123.5

Q ss_pred             CEEeeccchhhhcccCCcceEecCCCCHHHHHHHHHHHhCCCC--CCCCchHHHHHHHHHcCCChHHHHHHHHHHcCC-C
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDST--KTSTIQPIADEIVKRCGGLPVAVTTVANALKSK-S   77 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~~L~~~~a~~Lf~~~~~~~~--~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~-~   77 (561)
                      ||||||+..|+........+|++++|+.+||++||++.++...  .++.+++.+++|+++|+|+||||.++|++|+.+ +
T Consensus       132 ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~  211 (287)
T PF00931_consen  132 ILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKST  211 (287)
T ss_dssp             EEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHS
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            6999999999753233368999999999999999999998433  455668899999999999999999999999754 7


Q ss_pred             HHHHHHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCcccc
Q 041360           78 LDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKN  152 (561)
Q Consensus        78 ~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~  152 (561)
                      ..+|+++++++..... +..+....+..++.+||+.||++ +|.||+|||+||+++.|+++.++++|+++|+++.
T Consensus       212 ~~~w~~~~~~l~~~~~-~~~~~~~~~~~~l~~s~~~L~~~-~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  212 VDEWEEALEELENSLR-ESRDYDRSVFSALELSYDSLPDE-LRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             SSSHHHHHHHHHHCHT-CSSGSCHHHHHHHHHHHHSSHTC-CHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             cccccccccccccccc-ccccccccccccceechhcCCcc-HHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            8899999999877742 22235788999999999999996 9999999999999999999999999999999874

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

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

Probab=99.83  E-value=7.9e-20  Score=208.74  Aligned_cols=181  Identities=24%  Similarity=0.288  Sum_probs=95.7

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCC-CCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFS-SLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~-~lp~~i~~L~~L~~L~l  301 (561)
                      .+++++++++|.+....+...+++|++|++++|. ....+|..+ +.+++|++|++++|.+. .+|..++++.+|++|++
T Consensus       118 ~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~-~~~~~p~~~-~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  195 (968)
T PLN00113        118 SSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNM-LSGEIPNDI-GSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTL  195 (968)
T ss_pred             CCCCEEECcCCccccccCccccCCCCEEECcCCc-ccccCChHH-hcCCCCCEEECccCcccccCChhhhhCcCCCeeec
Confidence            4555666655555322222235556666666655 233445443 56666666666666654 35666666666666666


Q ss_pred             CCCCCCC--cccccCCCCCcEEEccCCcCc-ccChhhhcccccc-----------ccCchhhcCCCCCcEEEccCCcccc
Q 041360          302 GGCRLKD--IAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLV-----------VIAPNLISKFSQLEELYMGDSFSQW  367 (561)
Q Consensus       302 ~~~~l~~--p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~-----------~l~~~~i~~l~~L~~L~l~~~~~~~  367 (561)
                      ++|.+..  |..++++++|++|++++|.+. .+|..++++++|+           .+|. .++++++|++|++++|....
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~-~l~~l~~L~~L~L~~n~l~~  274 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPS-SLGNLKNLQYLFLYQNKLSG  274 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccCh-hHhCCCCCCEEECcCCeeec
Confidence            6666543  556666666666666666544 4555565555552           2222 25566666666666554432


Q ss_pred             cccCCCcccchHhhcCCCCCcEEEEeeccCc-ccCccc-ccccccEEEE
Q 041360          368 DKVEGGSNASLAELKGLSKLTTLEIQVRDAQ-ILPQDL-VLVELQRYKI  414 (561)
Q Consensus       368 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~l  414 (561)
                      ..+        ..+.++++|+.|+++.|.+. .+|..+ .+++|+.|++
T Consensus       275 ~~p--------~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l  315 (968)
T PLN00113        275 PIP--------PSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHL  315 (968)
T ss_pred             cCc--------hhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEEC
Confidence            222        34445555555555555443 222221 3445555554

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

Probab=99.82  E-value=1.7e-19  Score=205.93  Aligned_cols=303  Identities=17%  Similarity=0.156  Sum_probs=180.1

Q ss_pred             CCceEEEccCCCcc-ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQ-ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~-~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~L  299 (561)
                      .++++|++++|.+. .+|..+ .+++|++|+++++. ....+|..+ .++++|++|++++|.+.. +|..+..+++|++|
T Consensus       236 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~-l~~~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L  313 (968)
T PLN00113        236 TSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNK-LSGPIPPSI-FSLQKLISLDLSDNSLSGEIPELVIQLQNLEIL  313 (968)
T ss_pred             CCCCEEECcCceeccccChhHhCCCCCCEEECcCCe-eeccCchhH-hhccCcCEEECcCCeeccCCChhHcCCCCCcEE
Confidence            45666666666653 344444 55666666666665 233444443 556666666666665543 45555566666666


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCc-ccChhhhcccccc----------------------------------
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLV----------------------------------  342 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~----------------------------------  342 (561)
                      ++++|.+..  |..++.+++|++|++++|.+. .+|..++++.+|+                                  
T Consensus       314 ~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~  393 (968)
T PLN00113        314 HLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLE  393 (968)
T ss_pred             ECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEec
Confidence            666655443  455555555555655555444 3455444444431                                  


Q ss_pred             -ccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccc
Q 041360          343 -VIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEA  419 (561)
Q Consensus       343 -~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~  419 (561)
                       .+|. .++.+++|+.|++++|......        ...+.++++|+.|+++.|.+......  ..+++|+.|++..+..
T Consensus       394 ~~~p~-~~~~~~~L~~L~L~~n~l~~~~--------p~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~  464 (968)
T PLN00113        394 GEIPK-SLGACRSLRRVRLQDNSFSGEL--------PSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKF  464 (968)
T ss_pred             ccCCH-HHhCCCCCCEEECcCCEeeeEC--------ChhHhcCCCCCEEECcCCcccCccChhhccCCCCcEEECcCcee
Confidence             1222 2445555555555555443222        24566677777777777766533222  2567788887754332


Q ss_pred             cccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhh
Q 041360          420 WRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIV  499 (561)
Q Consensus       420 ~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  499 (561)
                      ...........++..|++.+|......+..+..+ ++|+.|+++++.-...+|..   .+.+++|++|+|++|.--..+|
T Consensus       465 ~~~~p~~~~~~~L~~L~ls~n~l~~~~~~~~~~l-~~L~~L~Ls~N~l~~~~p~~---~~~l~~L~~L~Ls~N~l~~~~p  540 (968)
T PLN00113        465 FGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSL-SELMQLKLSENKLSGEIPDE---LSSCKKLVSLDLSHNQLSGQIP  540 (968)
T ss_pred             eeecCcccccccceEEECcCCccCCccChhhhhh-hccCEEECcCCcceeeCChH---HcCccCCCEEECCCCcccccCC
Confidence            1111112223456677777655344556677776 89999999987665566655   3578999999999965444455


Q ss_pred             cccCcccCCcCccccccccccccc--cccCCCCCCCCCCCCcccCCCcccc
Q 041360          500 GSVGRVRRKVFPLLESLSLKKASF--VILHGQKPTAASKGPEREKPTTSLG  548 (561)
Q Consensus       500 ~~~~~~~~~~~~~L~~L~l~~c~~--~~~~~~~~~~~l~~L~~L~i~~c~~  548 (561)
                      .     ....+++|+.|++.+|.-  .++   ..+..+++|+.|++.+|.-
T Consensus       541 ~-----~~~~l~~L~~L~Ls~N~l~~~~p---~~l~~l~~L~~l~ls~N~l  583 (968)
T PLN00113        541 A-----SFSEMPVLSQLDLSQNQLSGEIP---KNLGNVESLVQVNISHNHL  583 (968)
T ss_pred             h-----hHhCcccCCEEECCCCcccccCC---hhHhcCcccCEEeccCCcc
Confidence            2     336788999999998886  332   2366788999999988863

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

Probab=99.78  E-value=4.4e-21  Score=189.91  Aligned_cols=306  Identities=15%  Similarity=0.161  Sum_probs=136.6

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      .++.||++..|++..+-..+ +++.||++++..+......+|..+| +++.|.+||||+|.+++.|..+...+++-+|+|
T Consensus        55 qkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNL  133 (1255)
T KOG0444|consen   55 QKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNSIVLNL  133 (1255)
T ss_pred             hhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCcEEEEc
Confidence            34455555555544333322 4555555555554433344555543 455555555555555555555555555555555


Q ss_pred             CCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCc-------hh---hcCCCCCcEEEccCCcccccc
Q 041360          302 GGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAP-------NL---ISKFSQLEELYMGDSFSQWDK  369 (561)
Q Consensus       302 ~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~-------~~---i~~l~~L~~L~l~~~~~~~~~  369 (561)
                      ++|.|.. | +-+-+|..|-.||+++|++..+|..+..|..|+++.-       +.   +..+++|++|++++.+..   
T Consensus       134 S~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRT---  210 (1255)
T KOG0444|consen  134 SYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRT---  210 (1255)
T ss_pred             ccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccch---
Confidence            5555444 4 3333455555555555555555555544444432210       00   123444455555443221   


Q ss_pred             cCCCcccchHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhh
Q 041360          370 VEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENY  448 (561)
Q Consensus       370 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~  448 (561)
                          ....+.++..+.+|+.+++++|++..+|.-. .+++|++|++++...-.-......-.++..|.++.+. ....|.
T Consensus       211 ----l~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQ-Lt~LP~  285 (1255)
T KOG0444|consen  211 ----LDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQ-LTVLPD  285 (1255)
T ss_pred             ----hhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccch-hccchH
Confidence                1112244555556666666666665555443 5556666655432110000000111122333333332 333344


Q ss_pred             hHHHhhccccceeecccc-CcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-ccc
Q 041360          449 GMKMLLKEAEEIHLNELK-GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VIL  526 (561)
Q Consensus       449 ~~~~ll~~L~~L~l~~~~-~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~  526 (561)
                      .+-.+ ++|+.|.+.+.. ....+|+.   ++.+.+|+.+...+ ++|+-+|     .+..-++.|++|.+....- .++
T Consensus       286 avcKL-~kL~kLy~n~NkL~FeGiPSG---IGKL~~Levf~aan-N~LElVP-----EglcRC~kL~kL~L~~NrLiTLP  355 (1255)
T KOG0444|consen  286 AVCKL-TKLTKLYANNNKLTFEGIPSG---IGKLIQLEVFHAAN-NKLELVP-----EGLCRCVKLQKLKLDHNRLITLP  355 (1255)
T ss_pred             HHhhh-HHHHHHHhccCcccccCCccc---hhhhhhhHHHHhhc-cccccCc-----hhhhhhHHHHHhcccccceeech
Confidence            44444 555555554422 11223332   44555555555554 4455444     2223444555555543322 332


Q ss_pred             CCCCCCCCCCCCcccCCCcccccc
Q 041360          527 HGQKPTAASKGPEREKPTTSLGFN  550 (561)
Q Consensus       527 ~~~~~~~~l~~L~~L~i~~c~~l~  550 (561)
                      ..   +.-++.|+.|+++..++|.
T Consensus       356 ea---IHlL~~l~vLDlreNpnLV  376 (1255)
T KOG0444|consen  356 EA---IHLLPDLKVLDLRENPNLV  376 (1255)
T ss_pred             hh---hhhcCCcceeeccCCcCcc
Confidence            22   3445555555555555544

>PLN03210 Resistant to P

Probab=99.78  E-value=2.2e-18  Score=197.33  Aligned_cols=313  Identities=16%  Similarity=0.165  Sum_probs=203.0

Q ss_pred             cccCCCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCCchhhcCCCCCc
Q 041360          219 ETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPSSLGRLFNLQ  297 (561)
Q Consensus       219 ~~~~~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~lp~~i~~L~~L~  297 (561)
                      ..| .++|.+.+.++.+..+|..+...+|+.|++.++.  +..++..+ ..+++|++|+++++. +..+|. ++.+++|+
T Consensus       586 ~lp-~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~--l~~L~~~~-~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le  660 (1153)
T PLN03210        586 YLP-PKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSK--LEKLWDGV-HSLTGLRNIDLRGSKNLKEIPD-LSMATNLE  660 (1153)
T ss_pred             hcC-cccEEEEecCCCCCCCCCcCCccCCcEEECcCcc--cccccccc-ccCCCCCEEECCCCCCcCcCCc-cccCCccc
Confidence            344 6799999999999999998888999999999987  77787775 789999999999875 666774 88899999


Q ss_pred             EEEeCCCC-CCC-cccccCCCCCcEEEccCC-cCcccChhhhccccccccCchh---h----cCCCCCcEEEccCCcccc
Q 041360          298 TLCLGGCR-LKD-IAIVGQLKKLEILSFRDS-YIEELPHEIGQLTRLVVIAPNL---I----SKFSQLEELYMGDSFSQW  367 (561)
Q Consensus       298 ~L~l~~~~-l~~-p~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~---i----~~l~~L~~L~l~~~~~~~  367 (561)
                      +|++++|. +.. |..++++++|+.|++++| .+..+|..+ ++++|+.+.-..   +    ...++|++|++.++... 
T Consensus       661 ~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~-  738 (1153)
T PLN03210        661 TLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIE-  738 (1153)
T ss_pred             EEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccccCCcCeeecCCCccc-
Confidence            99999987 666 888999999999999998 788888765 555553322110   0    12357788888777532 


Q ss_pred             cccCCCcccch----------------------HhhcCCCCCcEEEEeecc-CcccCccc-ccccccEEEEEeccccccC
Q 041360          368 DKVEGGSNASL----------------------AELKGLSKLTTLEIQVRD-AQILPQDL-VLVELQRYKICIGEAWRMW  423 (561)
Q Consensus       368 ~~~~~~~~~~~----------------------~~l~~l~~L~~L~l~~~~-~~~~~~~~-~~~~L~~L~l~~~~~~~~~  423 (561)
                      ..+....-..+                      ......++|+.|.++.+. ...+|..+ .+++|+.|++..+..+...
T Consensus       739 ~lP~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~L  818 (1153)
T PLN03210        739 EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETL  818 (1153)
T ss_pred             cccccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCee
Confidence            11110000000                      001112456666665442 33445443 5666777776554433322


Q ss_pred             CCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccC
Q 041360          424 GVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVG  503 (561)
Q Consensus       424 ~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~  503 (561)
                      +......++..|++.+|. ....   +....++|+.|++.+ +.++.+|..   .+.+++|++|++.+|++++.++    
T Consensus       819 P~~~~L~sL~~L~Ls~c~-~L~~---~p~~~~nL~~L~Ls~-n~i~~iP~s---i~~l~~L~~L~L~~C~~L~~l~----  886 (1153)
T PLN03210        819 PTGINLESLESLDLSGCS-RLRT---FPDISTNISDLNLSR-TGIEEVPWW---IEKFSNLSFLDMNGCNNLQRVS----  886 (1153)
T ss_pred             CCCCCccccCEEECCCCC-cccc---ccccccccCEeECCC-CCCccChHH---HhcCCCCCEEECCCCCCcCccC----
Confidence            222233445555555533 1111   111235677777765 355666654   4579999999999999999998    


Q ss_pred             cccCCcCccccccccccccc--cccCCCCC----------CCCCCCCcccCCCccccccc
Q 041360          504 RVRRKVFPLLESLSLKKASF--VILHGQKP----------TAASKGPEREKPTTSLGFNE  551 (561)
Q Consensus       504 ~~~~~~~~~L~~L~l~~c~~--~~~~~~~~----------~~~l~~L~~L~i~~c~~l~~  551 (561)
                       .....+++|+.+.+.+|++  .+.....+          ...++....+.+.+|.+++.
T Consensus       887 -~~~~~L~~L~~L~l~~C~~L~~~~l~~~~~~~~~~~~n~~~~~p~~~~l~f~nC~~L~~  945 (1153)
T PLN03210        887 -LNISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLPSTVCINFINCFNLDQ  945 (1153)
T ss_pred             -cccccccCCCeeecCCCcccccccCCCCchhhhhhcccccccCCchhccccccccCCCc
Confidence             3457889999999999997  22211111          12344456677888887763

syringae 6; Provisional

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

Probab=99.74  E-value=9.7e-20  Score=180.51  Aligned_cols=262  Identities=19%  Similarity=0.271  Sum_probs=178.9

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +.+..++++.|++...|..+ ..+++-+|+++++.  +..+|..+|-++..|-+||||+|.++.+|+.+..|.+|++|.|
T Consensus       103 ~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~--IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~L  180 (1255)
T KOG0444|consen  103 KDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNN--IETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKL  180 (1255)
T ss_pred             ccceeeecchhhhhhcchhhhhhcCcEEEEcccCc--cccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhc
Confidence            67888899999999899888 67888899999997  8889999888999999999999999999999999999999999


Q ss_pred             CCCCCCC--cccccCCCCCcEEEccCCc--CcccChhhhcccccccc-------C--chhhcCCCCCcEEEccCCccccc
Q 041360          302 GGCRLKD--IAIVGQLKKLEILSFRDSY--IEELPHEIGQLTRLVVI-------A--PNLISKFSQLEELYMGDSFSQWD  368 (561)
Q Consensus       302 ~~~~l~~--p~~i~~L~~L~~L~l~~~~--~~~lp~~i~~L~~L~~l-------~--~~~i~~l~~L~~L~l~~~~~~~~  368 (561)
                      ++|.+..  ...+..+.+|++|.+++++  +..+|.++..|.+|..+       |  +..+.++.+|+.|++++|.+..-
T Consensus       181 s~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL  260 (1255)
T KOG0444|consen  181 SNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITEL  260 (1255)
T ss_pred             CCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeee
Confidence            9998766  5777788889999998883  55677776666666211       1  23366677777777777654211


Q ss_pred             ccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhh
Q 041360          369 KVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLEN  447 (561)
Q Consensus       369 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~  447 (561)
                      .         .....-.+|++|+++.|.++.+|... .+++|++|..... .+.                     ....|
T Consensus       261 ~---------~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~N-kL~---------------------FeGiP  309 (1255)
T KOG0444|consen  261 N---------MTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNN-KLT---------------------FEGIP  309 (1255)
T ss_pred             e---------ccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccC-ccc---------------------ccCCc
Confidence            1         11223346777777777777666654 5666666554211 110                     12235


Q ss_pred             hhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-ccc
Q 041360          448 YGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VIL  526 (561)
Q Consensus       448 ~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~  526 (561)
                      .+++.+ ..|+.+...+ +.+.-+|..   ...++.|+.|.+.+ +.|-.+|+     .+.-+|.|+.|+++..|+ -++
T Consensus       310 SGIGKL-~~Levf~aan-N~LElVPEg---lcRC~kL~kL~L~~-NrLiTLPe-----aIHlL~~l~vLDlreNpnLVMP  378 (1255)
T KOG0444|consen  310 SGIGKL-IQLEVFHAAN-NKLELVPEG---LCRCVKLQKLKLDH-NRLITLPE-----AIHLLPDLKVLDLRENPNLVMP  378 (1255)
T ss_pred             cchhhh-hhhHHHHhhc-cccccCchh---hhhhHHHHHhcccc-cceeechh-----hhhhcCCcceeeccCCcCccCC
Confidence            566655 6666666654 445555544   33566777777765 56666663     235567777777777776 444


Q ss_pred             CC
Q 041360          527 HG  528 (561)
Q Consensus       527 ~~  528 (561)
                      ..
T Consensus       379 PK  380 (1255)
T KOG0444|consen  379 PK  380 (1255)
T ss_pred             CC
Confidence            33

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

Probab=99.72  E-value=8.4e-18  Score=165.83  Aligned_cols=300  Identities=17%  Similarity=0.175  Sum_probs=162.9

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~  300 (561)
                      .+++.+++..|.+..+|... ...+|+.|++.++.  +.++...-++.+..||+|||+.|.|.++|. ++..-.++++|+
T Consensus       102 ~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~--I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~  179 (873)
T KOG4194|consen  102 PNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNL--ISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLN  179 (873)
T ss_pred             CcceeeeeccchhhhcccccccccceeEEeeeccc--cccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEe
Confidence            34555555555555555554 33446666665554  444444444555566666666666655543 344445566666


Q ss_pred             eCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhh-ccccc----------------------------------cc
Q 041360          301 LGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIG-QLTRL----------------------------------VV  343 (561)
Q Consensus       301 l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~-~L~~L----------------------------------~~  343 (561)
                      |++|+|+.  -..+..+.+|-+|.++.|.+..+|..+. +|.+|                                  ..
T Consensus       180 La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~k  259 (873)
T KOG4194|consen  180 LASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISK  259 (873)
T ss_pred             eccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCccc
Confidence            66666555  3555555566666666666665554322 24444                                  12


Q ss_pred             cCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccC--cccccccccEEEEEecc--c
Q 041360          344 IAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILP--QDLVLVELQRYKICIGE--A  419 (561)
Q Consensus       344 l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~~~~~L~~L~l~~~~--~  419 (561)
                      +..+.+..+.++++|++..|....-..        ..+.+++.|+.|+++.|.++.+.  .+...++|+.|+++...  .
T Consensus       260 L~DG~Fy~l~kme~l~L~~N~l~~vn~--------g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~  331 (873)
T KOG4194|consen  260 LDDGAFYGLEKMEHLNLETNRLQAVNE--------GWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITR  331 (873)
T ss_pred             ccCcceeeecccceeecccchhhhhhc--------ccccccchhhhhccchhhhheeecchhhhcccceeEecccccccc
Confidence            222334445555555555554332111        34667788888888888876544  33466778888875332  1


Q ss_pred             cccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccccccccc-CCCCCCCccEEEEecCCccchh
Q 041360          420 WRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELD-DGEGFPRLKHLRVESCSEILHI  498 (561)
Q Consensus       420 ~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~-~~~~~~~L~~L~l~~c~~l~~l  498 (561)
                      ++ -........+..|.+.++.....-...|..+ ++|+.|+|++. .+.....+-. ...++++|+.|.+.+ ++++.+
T Consensus       332 l~-~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~l-ssL~~LdLr~N-~ls~~IEDaa~~f~gl~~LrkL~l~g-Nqlk~I  407 (873)
T KOG4194|consen  332 LD-EGSFRVLSQLEELNLSHNSIDHLAEGAFVGL-SSLHKLDLRSN-ELSWCIEDAAVAFNGLPSLRKLRLTG-NQLKSI  407 (873)
T ss_pred             CC-hhHHHHHHHhhhhcccccchHHHHhhHHHHh-hhhhhhcCcCC-eEEEEEecchhhhccchhhhheeecC-ceeeec
Confidence            11 0011112234445554443233334455555 88888888763 2222211100 024589999999998 788888


Q ss_pred             hcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCC
Q 041360          499 VGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKP  543 (561)
Q Consensus       499 ~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i  543 (561)
                      +..    ....++.||+|++.+.+- +|-...  +..+ .|++|-+
T Consensus       408 ~kr----Afsgl~~LE~LdL~~NaiaSIq~nA--Fe~m-~Lk~Lv~  446 (873)
T KOG4194|consen  408 PKR----AFSGLEALEHLDLGDNAIASIQPNA--FEPM-ELKELVM  446 (873)
T ss_pred             chh----hhccCcccceecCCCCcceeecccc--cccc-hhhhhhh
Confidence            732    235567788888888776 554333  3333 5666555

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

Probab=99.71  E-value=2.7e-18  Score=169.25  Aligned_cols=305  Identities=17%  Similarity=0.206  Sum_probs=196.6

Q ss_pred             CCceEEEccCCCccccCCc--cCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER--LQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L  299 (561)
                      ...+.|++++|++..+...  .++++|+.+.+..+.  +..+|... ....||+.|+|.+|.|.++ .+++.-++.|+.|
T Consensus        78 ~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~--Lt~IP~f~-~~sghl~~L~L~~N~I~sv~se~L~~l~alrsl  154 (873)
T KOG4194|consen   78 SQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNE--LTRIPRFG-HESGHLEKLDLRHNLISSVTSEELSALPALRSL  154 (873)
T ss_pred             cceeeeeccccccccCcHHHHhcCCcceeeeeccch--hhhccccc-ccccceeEEeeeccccccccHHHHHhHhhhhhh
Confidence            6778899999998665443  389999999999997  88898832 4566799999999999987 5688999999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccCh-hhhccccc----------cccCchhhcCCCCCcEEEccCCccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPH-EIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      ||+.|.+.. | +.+..-.++++|++++|+|..+-. .+..+.+|          ..+|...+.+|++|+.|++..|.+.
T Consensus       155 DLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~ir  234 (873)
T KOG4194|consen  155 DLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIR  234 (873)
T ss_pred             hhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhcccccee
Confidence            999999988 5 788888899999999999987753 34444444          6788888888999999999888653


Q ss_pred             ccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEEEeccc---cccCCCCcc-------------
Q 041360          367 WDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIGEA---WRMWGVTSE-------------  428 (561)
Q Consensus       367 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~---~~~~~~~~~-------------  428 (561)
                      ..        ....+.++++|+.|.+..|++..+....  .+.++++|++.....   -..|.....             
T Consensus       235 iv--------e~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~  306 (873)
T KOG4194|consen  235 IV--------EGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQ  306 (873)
T ss_pred             ee--------hhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhh
Confidence            21        1145666666666666666665554442  455555555532210   011222211             


Q ss_pred             ---------ccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhh
Q 041360          429 ---------ISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIV  499 (561)
Q Consensus       429 ---------~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  499 (561)
                               ..++..|+++.+......+..+..+ ..|++|+|+. +.+..+....  ..++.+|++|++.+ +.+.-..
T Consensus       307 rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L-~~Le~LnLs~-Nsi~~l~e~a--f~~lssL~~LdLr~-N~ls~~I  381 (873)
T KOG4194|consen  307 RIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVL-SQLEELNLSH-NSIDHLAEGA--FVGLSSLHKLDLRS-NELSWCI  381 (873)
T ss_pred             eeecchhhhcccceeEeccccccccCChhHHHHH-HHhhhhcccc-cchHHHHhhH--HHHhhhhhhhcCcC-CeEEEEE
Confidence                     1234444444444333344455554 6666666664 3344433211  24566777777766 3333222


Q ss_pred             cccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCcc
Q 041360          500 GSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTS  546 (561)
Q Consensus       500 ~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c  546 (561)
                      ... ......+++|++|.+.+..- .|+...  +..|.+|++|++-+.
T Consensus       382 EDa-a~~f~gl~~LrkL~l~gNqlk~I~krA--fsgl~~LE~LdL~~N  426 (873)
T KOG4194|consen  382 EDA-AVAFNGLPSLRKLRLTGNQLKSIPKRA--FSGLEALEHLDLGDN  426 (873)
T ss_pred             ecc-hhhhccchhhhheeecCceeeecchhh--hccCcccceecCCCC
Confidence            111 11223477777877777765 554332  566777777777544

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

Probab=99.66  E-value=5.3e-18  Score=160.17  Aligned_cols=179  Identities=24%  Similarity=0.311  Sum_probs=134.5

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      ..+.++.++.+++..+|+.+ ....++.++++.+.  ..++|+++ +.+..|..|+..+|++.++|++++.+..|..|++
T Consensus        91 ~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~--~~el~~~i-~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~  167 (565)
T KOG0472|consen   91 EALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNE--LKELPDSI-GRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDL  167 (565)
T ss_pred             HHHHHhhcccchHhhccHHHhhhhhhhhhhccccc--eeecCchH-HHHhhhhhhhccccccccCchHHHHHHHHHHhhc
Confidence            45667788888888888877 77888888888887  77888886 7888888888888888889988888888888888


Q ss_pred             CCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc--------------------------------cccCchh
Q 041360          302 GGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL--------------------------------VVIAPNL  348 (561)
Q Consensus       302 ~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L--------------------------------~~l~~~~  348 (561)
                      .++.++. |+..-+++.|++||..+|-+..+|++++.|.+|                                ..+|.+.
T Consensus       168 ~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~  247 (565)
T KOG0472|consen  168 EGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEH  247 (565)
T ss_pred             cccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHH
Confidence            8888887 655555888888888888888888888888877                                2333333


Q ss_pred             hcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEE
Q 041360          349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKI  414 (561)
Q Consensus       349 i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l  414 (561)
                      ..++++|.+||+++|...         +.+.++..+++|..|+++.|+++.+|... .+ .|+.|-+
T Consensus       248 ~~~L~~l~vLDLRdNklk---------e~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~l  304 (565)
T KOG0472|consen  248 LKHLNSLLVLDLRDNKLK---------EVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLAL  304 (565)
T ss_pred             hcccccceeeeccccccc---------cCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhh
Confidence            446667777777766542         33466777778888888888888777654 22 4555444

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

Probab=99.62  E-value=3.4e-18  Score=161.47  Aligned_cols=248  Identities=22%  Similarity=0.283  Sum_probs=186.7

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      ..+..+.++.|.++.+.+.. .+..+.+|.++++.  ..++|+.+ +++..++.|+.++|++..+|+.++.+.+|+.|+.
T Consensus        45 v~l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~--l~~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~  121 (565)
T KOG0472|consen   45 VDLQKLILSHNDLEVLREDLKNLACLTVLNVHDNK--LSQLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLDC  121 (565)
T ss_pred             cchhhhhhccCchhhccHhhhcccceeEEEeccch--hhhCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhc
Confidence            55677778888887776655 77888999999987  88899887 8999999999999999999999999999999999


Q ss_pred             CCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc----------cccCchhhcCCCCCcEEEccCCccccccc
Q 041360          302 GGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKV  370 (561)
Q Consensus       302 ~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~  370 (561)
                      +++.+.. |++++.+..|+.|+..+|++..+|.+++++.+|          ..+|++.+. ++.|++|+...|...    
T Consensus       122 s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~-m~~L~~ld~~~N~L~----  196 (565)
T KOG0472|consen  122 SSNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNKLKALPENHIA-MKRLKHLDCNSNLLE----  196 (565)
T ss_pred             cccceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccchhhCCHHHHH-HHHHHhcccchhhhh----
Confidence            9999888 899999999999999999999999999888777          566776555 889999987666442    


Q ss_pred             CCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCC--CCccccceEEEecCCccchhhhhh
Q 041360          371 EGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWG--VTSEISRLVRLHGLENVSTLLENY  448 (561)
Q Consensus       371 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~--~~~~~~~l~~L~~~~~~~~~~~~~  448 (561)
                           ..+.+++.+.+|.-|.+..|.+..+|..-.+..|++|++.... +....  ......++..|++.++. ....|+
T Consensus       197 -----tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~-i~~lpae~~~~L~~l~vLDLRdNk-lke~Pd  269 (565)
T KOG0472|consen  197 -----TLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQ-IEMLPAEHLKHLNSLLVLDLRDNK-LKEVPD  269 (565)
T ss_pred             -----cCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccH-HHhhHHHHhcccccceeeeccccc-cccCch
Confidence                 3447888899999999999999988877788888888773221 11000  01123345555555554 555666


Q ss_pred             hHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEec
Q 041360          449 GMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVES  491 (561)
Q Consensus       449 ~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  491 (561)
                      ++.-+ .+|+.|++++ +.+..+|..   .+++ .|+.|.+.+
T Consensus       270 e~clL-rsL~rLDlSN-N~is~Lp~s---Lgnl-hL~~L~leG  306 (565)
T KOG0472|consen  270 EICLL-RSLERLDLSN-NDISSLPYS---LGNL-HLKFLALEG  306 (565)
T ss_pred             HHHHh-hhhhhhcccC-CccccCCcc---cccc-eeeehhhcC
Confidence            66655 6677777775 455555554   4556 666676666

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

Probab=99.60  E-value=3.4e-17  Score=137.24  Aligned_cols=156  Identities=25%  Similarity=0.375  Sum_probs=118.0

Q ss_pred             cccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccC
Q 041360          236 QELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQ  314 (561)
Q Consensus       236 ~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~  314 (561)
                      ..+|..+++++++.|.++++.  +..+|+.+ ..+++|++|++++|.++++|.+|+.++.|+.|++.-|++.. |..+|.
T Consensus        24 ~~~~gLf~~s~ITrLtLSHNK--l~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs  100 (264)
T KOG0617|consen   24 EELPGLFNMSNITRLTLSHNK--LTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGS  100 (264)
T ss_pred             hhcccccchhhhhhhhcccCc--eeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCC
Confidence            345555567777777777776  66777776 77777888888777777787777888888888777777666 777777


Q ss_pred             CCCCcEEEccCCcCc--ccChhhhccccc----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          315 LKKLEILSFRDSYIE--ELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       315 L~~L~~L~l~~~~~~--~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      ++.|++||+.+|++.  .+|..+..|+.|          +.+|+. ++++++||.|.+.+|...         ....+++
T Consensus       101 ~p~levldltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~d-vg~lt~lqil~lrdndll---------~lpkeig  170 (264)
T KOG0617|consen  101 FPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPD-VGKLTNLQILSLRDNDLL---------SLPKEIG  170 (264)
T ss_pred             CchhhhhhccccccccccCCcchhHHHHHHHHHhcCCCcccCChh-hhhhcceeEEeeccCchh---------hCcHHHH
Confidence            788888887777544  467666666655          455665 899999999999888654         3447899


Q ss_pred             CCCCCcEEEEeeccCcccCccc
Q 041360          383 GLSKLTTLEIQVRDAQILPQDL  404 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~~  404 (561)
                      .+++|+.|++++|.++.+|+.+
T Consensus       171 ~lt~lrelhiqgnrl~vlppel  192 (264)
T KOG0617|consen  171 DLTRLRELHIQGNRLTVLPPEL  192 (264)
T ss_pred             HHHHHHHHhcccceeeecChhh
Confidence            9999999999999998877643

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

Probab=99.50  E-value=3.4e-15  Score=155.22  Aligned_cols=255  Identities=15%  Similarity=0.199  Sum_probs=189.4

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++++..+.|.+..+-....-.+|++++++++.  +..+| ++.+.+.+|..|+..+|.+..+|..+....+|++|.+.
T Consensus       219 ~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~--l~~lp-~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~  295 (1081)
T KOG0618|consen  219 PSLTALYADHNPLTTLDVHPVPLNLQYLDISHNN--LSNLP-EWIGACANLEALNANHNRLVALPLRISRITSLVSLSAA  295 (1081)
T ss_pred             cchheeeeccCcceeeccccccccceeeecchhh--hhcch-HHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhh
Confidence            6788888888888755555567889999999997  88899 66699999999999999999999999999999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc------------cccCchhhcCCCCCcEEEccCCcccccc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL------------VVIAPNLISKFSQLEELYMGDSFSQWDK  369 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L------------~~l~~~~i~~l~~L~~L~l~~~~~~~~~  369 (561)
                      .|.++. |+..+.+++|++|++..|++..+|..+-.....            ...|...=..++.|+.|.+.+|..    
T Consensus       296 ~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~L----  371 (1081)
T KOG0618|consen  296 YNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHL----  371 (1081)
T ss_pred             hhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcc----
Confidence            999999 888899999999999999999999743322111            233322223456777888877765    


Q ss_pred             cCCCcccchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhh
Q 041360          370 VEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLEN  447 (561)
Q Consensus       370 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~  447 (561)
                          .+++...+-+.++|+.|++++|.+..+|...  .++.|++|++++..                        ....+
T Consensus       372 ----td~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNk------------------------L~~Lp  423 (1081)
T KOG0618|consen  372 ----TDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNK------------------------LTTLP  423 (1081)
T ss_pred             ----cccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccch------------------------hhhhh
Confidence                3567788999999999999999999888763  67777777774321                        22334


Q ss_pred             hhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc
Q 041360          448 YGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       448 ~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      ..+..+ +.|++|...+ +.+..+|.    ...+++|+.++++. ++|+.+.-.    ....-|+|++|++.+.++
T Consensus       424 ~tva~~-~~L~tL~ahs-N~l~~fPe----~~~l~qL~~lDlS~-N~L~~~~l~----~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  424 DTVANL-GRLHTLRAHS-NQLLSFPE----LAQLPQLKVLDLSC-NNLSEVTLP----EALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             HHHHhh-hhhHHHhhcC-Cceeechh----hhhcCcceEEeccc-chhhhhhhh----hhCCCcccceeeccCCcc
Confidence            555555 7777777665 45555653    34677777777774 677665411    111226778887777775

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

Probab=99.50  E-value=4.5e-16  Score=130.56  Aligned_cols=140  Identities=21%  Similarity=0.327  Sum_probs=126.4

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +.+.++.++.|++..+|+.+ ++.+|++|.++.+.  +..+|.++ +.++.||.|++.-|.+..+|..++.++-|+.|||
T Consensus        33 s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnq--ie~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~levldl  109 (264)
T KOG0617|consen   33 SNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQ--IEELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPALEVLDL  109 (264)
T ss_pred             hhhhhhhcccCceeecCCcHHHhhhhhhhhcccch--hhhcChhh-hhchhhhheecchhhhhcCccccCCCchhhhhhc
Confidence            67889999999999999888 89999999999998  88999987 8999999999999999999999999999999999


Q ss_pred             CCCCCCC---cccccCCCCCcEEEccCCcCcccChhhhcccccc----------ccCchhhcCCCCCcEEEccCCccc
Q 041360          302 GGCRLKD---IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLV----------VIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       302 ~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~----------~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      .+|.+.+   |..+-.+..|+.|++++|.++-+|.++|+|++|+          ++|.+ ++.+++|++|++++|...
T Consensus       110 tynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpke-ig~lt~lrelhiqgnrl~  186 (264)
T KOG0617|consen  110 TYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKE-IGDLTRLRELHIQGNRLT  186 (264)
T ss_pred             cccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHH-HHHHHHHHHHhcccceee
Confidence            9999776   7888889999999999999999999999999983          45665 899999999999999764

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

Probab=99.44  E-value=3.8e-15  Score=154.89  Aligned_cols=98  Identities=22%  Similarity=0.251  Sum_probs=79.6

Q ss_pred             CceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      ++.+|++++|.+..+|..+ .+++|+.|.++.+.  +..+|.+. +++++|++|.|.+|.+..+|.++..+.+|+||+++
T Consensus        46 ~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~--i~~vp~s~-~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS  122 (1081)
T KOG0618|consen   46 KLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY--IRSVPSSC-SNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLS  122 (1081)
T ss_pred             eeEEeeccccccccCCchhhhHHHHhhcccchhh--HhhCchhh-hhhhcchhheeccchhhcCchhHHhhhcccccccc
Confidence            4889999999999999887 78999999999986  78888776 89999999999999999999999999999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEcc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFR  324 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~  324 (561)
                      +|.+.. |..+..+..+..++.+
T Consensus       123 ~N~f~~~Pl~i~~lt~~~~~~~s  145 (1081)
T KOG0618|consen  123 FNHFGPIPLVIEVLTAEEELAAS  145 (1081)
T ss_pred             hhccCCCchhHHhhhHHHHHhhh
Confidence            998665 5544444433333333

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.41  E-value=2.4e-12  Score=137.93  Aligned_cols=246  Identities=17%  Similarity=0.103  Sum_probs=114.3

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~  304 (561)
                      -..++++.+.+..+|..+. ++|+.|.+..|.  +..+|.    .+++|++|++++|.++.+|..   ..+|++|++++|
T Consensus       203 ~~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N~--Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N  272 (788)
T PRK15387        203 NAVLNVGESGLTTLPDCLP-AHITTLVIPDNN--LTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIFSN  272 (788)
T ss_pred             CcEEEcCCCCCCcCCcchh-cCCCEEEccCCc--CCCCCC----CCCCCcEEEecCCccCcccCc---ccccceeeccCC
Confidence            3445555555555554332 345555555554  444443    234555555555555555432   234555555555


Q ss_pred             CCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc-------cccCchhhcCCCCCcEEEccCCcccccccCCCccc
Q 041360          305 RLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNA  376 (561)
Q Consensus       305 ~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~  376 (561)
                      .+.. |..   ..+|+.|++++|++..+|....+|+.|       ..+|.    -..+|+.|++++|.+.. ++      
T Consensus       273 ~L~~Lp~l---p~~L~~L~Ls~N~Lt~LP~~p~~L~~LdLS~N~L~~Lp~----lp~~L~~L~Ls~N~L~~-LP------  338 (788)
T PRK15387        273 PLTHLPAL---PSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLASLPA----LPSELCKLWAYNNQLTS-LP------  338 (788)
T ss_pred             chhhhhhc---hhhcCEEECcCCccccccccccccceeECCCCccccCCC----CcccccccccccCcccc-cc------
Confidence            5444 321   133445555555544444322222111       01111    01234455555554321 11      


Q ss_pred             chHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhcc
Q 041360          377 SLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKE  456 (561)
Q Consensus       377 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~  456 (561)
                         .+  ..+|+.|+++.|.+..+|..  +++|+.|++... .+.......  ..+..|++.+|. ....+.    ..++
T Consensus       339 ---~l--p~~Lq~LdLS~N~Ls~LP~l--p~~L~~L~Ls~N-~L~~LP~l~--~~L~~LdLs~N~-Lt~LP~----l~s~  403 (788)
T PRK15387        339 ---TL--PSGLQELSVSDNQLASLPTL--PSELYKLWAYNN-RLTSLPALP--SGLKELIVSGNR-LTSLPV----LPSE  403 (788)
T ss_pred             ---cc--ccccceEecCCCccCCCCCC--Ccccceehhhcc-ccccCcccc--cccceEEecCCc-ccCCCC----cccC
Confidence               01  13677777777777766652  356666655322 111111111  233444444432 111121    1256


Q ss_pred             ccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCcccccccccccc
Q 041360          457 AEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       457 L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      |+.|+++++ .+..+|.      .+.+|+.|++.+ ++++.+|.     ....+++|+.|++.+++
T Consensus       404 L~~LdLS~N-~LssIP~------l~~~L~~L~Ls~-NqLt~LP~-----sl~~L~~L~~LdLs~N~  456 (788)
T PRK15387        404 LKELMVSGN-RLTSLPM------LPSGLLSLSVYR-NQLTRLPE-----SLIHLSSETTVNLEGNP  456 (788)
T ss_pred             CCEEEccCC-cCCCCCc------chhhhhhhhhcc-CcccccCh-----HHhhccCCCeEECCCCC
Confidence            667777663 3444443      134566677766 45666663     22456677777777666

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.39  E-value=3.5e-12  Score=136.73  Aligned_cols=229  Identities=17%  Similarity=0.106  Sum_probs=164.7

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.|.+.+|++..+|..  .++|++|++++|.  +..+|.    ...+|+.|++++|.+..+|...   .+|+.|+++
T Consensus       222 ~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~--LtsLP~----lp~sL~~L~Ls~N~L~~Lp~lp---~~L~~L~Ls  290 (788)
T PRK15387        222 AHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQ--LTSLPV----LPPGLLELSIFSNPLTHLPALP---SGLCKLWIF  290 (788)
T ss_pred             cCCCEEEccCCcCCCCCCC--CCCCcEEEecCCc--cCcccC----cccccceeeccCCchhhhhhch---hhcCEEECc
Confidence            6789999999999998863  6899999999997  777875    2468999999999998888633   578899999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc-------cccCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|+++. |..   +++|+.|++++|.+..+|....+|..|       ..+|.    -..+|+.|++++|.+.. ++    
T Consensus       291 ~N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~----lp~~Lq~LdLS~N~Ls~-LP----  358 (788)
T PRK15387        291 GNQLTSLPVL---PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPT----LPSGLQELSVSDNQLAS-LP----  358 (788)
T ss_pred             CCcccccccc---ccccceeECCCCccccCCCCcccccccccccCccccccc----cccccceEecCCCccCC-CC----
Confidence            999888 642   468999999999999888755556555       22332    12479999999987642 22    


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhh
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLL  454 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll  454 (561)
                           .+  ..+|+.|.++.|.+..+|..  +.+|+.|++..+ .+......  ..++..|++.++. ....|.    ++
T Consensus       359 -----~l--p~~L~~L~Ls~N~L~~LP~l--~~~L~~LdLs~N-~Lt~LP~l--~s~L~~LdLS~N~-LssIP~----l~  421 (788)
T PRK15387        359 -----TL--PSELYKLWAYNNRLTSLPAL--PSGLKELIVSGN-RLTSLPVL--PSELKELMVSGNR-LTSLPM----LP  421 (788)
T ss_pred             -----CC--CcccceehhhccccccCccc--ccccceEEecCC-cccCCCCc--ccCCCEEEccCCc-CCCCCc----ch
Confidence                 11  24788889999988888763  467999988543 23222221  2345667776654 323332    23


Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecCCccc
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEIL  496 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~  496 (561)
                      .+|+.|++++ +.++.+|..   ...+++|+.|+++++ .+.
T Consensus       422 ~~L~~L~Ls~-NqLt~LP~s---l~~L~~L~~LdLs~N-~Ls  458 (788)
T PRK15387        422 SGLLSLSVYR-NQLTRLPES---LIHLSSETTVNLEGN-PLS  458 (788)
T ss_pred             hhhhhhhhcc-CcccccChH---HhhccCCCeEECCCC-CCC
Confidence            6788899987 557778765   347899999999985 444

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.34  E-value=2.5e-12  Score=138.60  Aligned_cols=100  Identities=23%  Similarity=0.288  Sum_probs=45.3

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      +.++.|++++|++..+|..+ .++|++|++++|.  +..+|..+.   .+|+.|++++|.+..+|..+.  .+|++|+++
T Consensus       199 ~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~--LtsLP~~l~---~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls  270 (754)
T PRK15370        199 EQITTLILDNNELKSLPENL-QGNIKTLYANSNQ--LTSIPATLP---DTIQEMELSINRITELPERLP--SALQSLDLF  270 (754)
T ss_pred             cCCcEEEecCCCCCcCChhh-ccCCCEEECCCCc--cccCChhhh---ccccEEECcCCccCcCChhHh--CCCCEEECc
Confidence            34445555555554444432 2345555555443  334444331   244555555555544444433  245555555


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccC
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      +|++.. |..+.  .+|++|++++|++..+|
T Consensus       271 ~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP  299 (754)
T PRK15370        271 HNKISCLPENLP--EELRYLSVYDNSIRTLP  299 (754)
T ss_pred             CCccCccccccC--CCCcEEECCCCccccCc
Confidence            444444 33332  24555555555444443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.28  E-value=2e-11  Score=133.68  Aligned_cols=268  Identities=18%  Similarity=0.161  Sum_probs=158.4

Q ss_pred             ccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC--CCCCchh-hcCCCCCcEEEeCCCC-CCC-c
Q 041360          235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR--FSSLPSS-LGRLFNLQTLCLGGCR-LKD-I  309 (561)
Q Consensus       235 ~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~--i~~lp~~-i~~L~~L~~L~l~~~~-l~~-p  309 (561)
                      ....|...+....|...+.++.  +..++...  ..+.|+.|-+.++.  +..++.. +..++.|++|||++|. +.. |
T Consensus       513 ~~~~~~~~~~~~~rr~s~~~~~--~~~~~~~~--~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP  588 (889)
T KOG4658|consen  513 LSEIPQVKSWNSVRRMSLMNNK--IEHIAGSS--ENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLP  588 (889)
T ss_pred             ccccccccchhheeEEEEeccc--hhhccCCC--CCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCC
Confidence            3345555567788888888876  55565543  56689999999986  6666654 7789999999999987 777 9


Q ss_pred             ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcE
Q 041360          310 AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  389 (561)
Q Consensus       310 ~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  389 (561)
                      ..|+.|.+||+|+++++.+..+|.++++|+              .|.+|++.........+        ..+..+++||+
T Consensus       589 ~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk--------------~L~~Lnl~~~~~l~~~~--------~i~~~L~~Lr~  646 (889)
T KOG4658|consen  589 SSIGELVHLRYLDLSDTGISHLPSGLGNLK--------------KLIYLNLEVTGRLESIP--------GILLELQSLRV  646 (889)
T ss_pred             hHHhhhhhhhcccccCCCccccchHHHHHH--------------hhheecccccccccccc--------chhhhcccccE
Confidence            999999999999999999999998765554              45556554433221111        23445889999


Q ss_pred             EEEeeccCcc----cCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccc
Q 041360          390 LEIQVRDAQI----LPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNEL  465 (561)
Q Consensus       390 L~l~~~~~~~----~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~  465 (561)
                      |.+.......    +.....+++|+.+.+...+. .                     .......+..+......+.+.++
T Consensus       647 L~l~~s~~~~~~~~l~el~~Le~L~~ls~~~~s~-~---------------------~~e~l~~~~~L~~~~~~l~~~~~  704 (889)
T KOG4658|consen  647 LRLPRSALSNDKLLLKELENLEHLENLSITISSV-L---------------------LLEDLLGMTRLRSLLQSLSIEGC  704 (889)
T ss_pred             EEeeccccccchhhHHhhhcccchhhheeecchh-H---------------------hHhhhhhhHHHHHHhHhhhhccc
Confidence            9998665211    11111334444443321111 0                     00111111122122233333332


Q ss_pred             cCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCc-CccccccccccccccccCCCCCCCCCCCCcccCCC
Q 041360          466 KGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKV-FPLLESLSLKKASFVILHGQKPTAASKGPEREKPT  544 (561)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~-~~~L~~L~l~~c~~~~~~~~~~~~~l~~L~~L~i~  544 (561)
                      ........    ...+.+|+.|.|.+|...+............. |++|.++.+.+|..  ...+.+....++|+.|.+.
T Consensus       705 ~~~~~~~~----~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~--~r~l~~~~f~~~L~~l~l~  778 (889)
T KOG4658|consen  705 SKRTLISS----LGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHM--LRDLTWLLFAPHLTSLSLV  778 (889)
T ss_pred             ccceeecc----cccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhcccc--ccccchhhccCcccEEEEe
Confidence            22222222    45677888888888766543332221112222 67777777777764  1112222345677778887


Q ss_pred             cccccccccccC
Q 041360          545 TSLGFNEIIAAD  556 (561)
Q Consensus       545 ~c~~l~~~~~~~  556 (561)
                      .|+.+.+.++.+
T Consensus       779 ~~~~~e~~i~~~  790 (889)
T KOG4658|consen  779 SCRLLEDIIPKL  790 (889)
T ss_pred             cccccccCCCHH
Confidence            777777776654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.26  E-value=2.4e-11  Score=131.09  Aligned_cols=248  Identities=15%  Similarity=0.159  Sum_probs=155.3

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+...+.+.++.+..+|..+ .++|+.|++++|.  +..+|..++   .+|++|++++|.++.+|..+.  .+|+.|+++
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~--LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI-PEQITTLILDNNE--LKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc-ccCCcEEEecCCC--CCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECc
Confidence            55678899988888888755 3679999999997  778998764   589999999999999998765  479999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +|.+.. |..+.  .+|+.|++++|++..+|..+.                ++|+.|++++|.+.. .+        ..+
T Consensus       250 ~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~----------------~sL~~L~Ls~N~Lt~-LP--------~~l  302 (754)
T PRK15370        250 INRITELPERLP--SALQSLDLFHNKISCLPENLP----------------EELRYLSVYDNSIRT-LP--------AHL  302 (754)
T ss_pred             CCccCcCChhHh--CCCCEEECcCCccCccccccC----------------CCCcEEECCCCcccc-Cc--------ccc
Confidence            999888 77664  589999999999888875321                356777777765431 11        111


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhcccccee
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIH  461 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~  461 (561)
                      .  ++|+.|+++.|.++.+|... +++|+.|.+..+. +....... ..++..|++.+|. ....+..+   .++|+.|+
T Consensus       303 p--~sL~~L~Ls~N~Lt~LP~~l-~~sL~~L~Ls~N~-Lt~LP~~l-~~sL~~L~Ls~N~-L~~LP~~l---p~~L~~Ld  373 (754)
T PRK15370        303 P--SGITHLNVQSNSLTALPETL-PPGLKTLEAGENA-LTSLPASL-PPELQVLDVSKNQ-ITVLPETL---PPTITTLD  373 (754)
T ss_pred             h--hhHHHHHhcCCccccCCccc-cccceeccccCCc-cccCChhh-cCcccEEECCCCC-CCcCChhh---cCCcCEEE
Confidence            1  35666666666666555432 2566666653321 11111111 1344555555433 22233322   35677777


Q ss_pred             eccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCcccccccccccc
Q 041360          462 LNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       462 l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      ++++ .+..+|..+     ..+|+.|++++ ++++.+|..... -...+|++..|.+.+.|
T Consensus       374 Ls~N-~Lt~LP~~l-----~~sL~~LdLs~-N~L~~LP~sl~~-~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        374 VSRN-ALTNLPENL-----PAALQIMQASR-NNLVRLPESLPH-FRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             CCCC-cCCCCCHhH-----HHHHHHHhhcc-CCcccCchhHHH-HhhcCCCccEEEeeCCC
Confidence            7764 344554432     23577777776 456666532100 11223556666666555

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

Probab=99.07  E-value=9.8e-12  Score=118.10  Aligned_cols=109  Identities=24%  Similarity=0.329  Sum_probs=68.5

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecC-CCCCCCch-hhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTG-VRFSSLPS-SLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~-~~i~~lp~-~i~~L~~L~~  298 (561)
                      .....+.+..|+|..+|+..  .+++||.|++++|.  +..+.+..|.++..|-.|-+-+ |.|+.+|+ .++.|..|+-
T Consensus        67 ~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~--Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqr  144 (498)
T KOG4237|consen   67 PETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNN--ISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQR  144 (498)
T ss_pred             CcceEEEeccCCcccCChhhccchhhhceecccccc--hhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHH
Confidence            66677777777777777665  67777777777776  6666555667776666664444 66777764 4556666666


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccCh
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPH  333 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~  333 (561)
                      |.+..|++.-  ...+..|++|..|.+..|.+..++.
T Consensus       145 LllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~  181 (498)
T KOG4237|consen  145 LLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICK  181 (498)
T ss_pred             HhcChhhhcchhHHHHHHhhhcchhcccchhhhhhcc
Confidence            6666665444  3555555666555555555444443

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

Probab=99.06  E-value=7e-12  Score=119.07  Aligned_cols=128  Identities=20%  Similarity=0.278  Sum_probs=99.2

Q ss_pred             CccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCC-CCCCC-c-
Q 041360          234 DIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGG-CRLKD-I-  309 (561)
Q Consensus       234 ~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~-~~l~~-p-  309 (561)
                      .+..+|..+ -+....+++..|.  +..+|+..|+.+++||.|||++|.|+.+ |..+..|.+|-.|-+.+ |+|+. | 
T Consensus        57 GL~eVP~~L-P~~tveirLdqN~--I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k  133 (498)
T KOG4237|consen   57 GLTEVPANL-PPETVEIRLDQNQ--ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPK  133 (498)
T ss_pred             CcccCcccC-CCcceEEEeccCC--cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhh
Confidence            344455433 1345678898897  9999999999999999999999999997 88999999988888877 77999 6 


Q ss_pred             ccccCCCCCcEEEccCCcCcccCh-hhhccccc----------cccCchhhcCCCCCcEEEccCCc
Q 041360          310 AIVGQLKKLEILSFRDSYIEELPH-EIGQLTRL----------VVIAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       310 ~~i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~  364 (561)
                      ..+++|..|+.|.+.-|.+..++. .+..|++|          ++++...+..+..++.+++.-|.
T Consensus       134 ~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  134 GAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             hHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCc
Confidence            789999999999998888877754 34455544          55555556667777777765544

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

Probab=99.01  E-value=3.9e-11  Score=119.16  Aligned_cols=168  Identities=22%  Similarity=0.322  Sum_probs=142.8

Q ss_pred             CceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .....+++.|+...+|... .|-.|..+.+..+.  +..+|..+ ..+..|.+|+|+.|.+..+|..++.|+ |+.|.++
T Consensus        76 dt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~--~r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~s  151 (722)
T KOG0532|consen   76 DTVFADLSRNRFSELPEEACAFVSLESLILYHNC--IRTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVS  151 (722)
T ss_pred             chhhhhccccccccCchHHHHHHHHHHHHHHhcc--ceecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEe
Confidence            3456677788888888877 67888899998887  88888887 899999999999999999999998887 9999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc----------cccCchhhcCCCCCcEEEccCCcccccccC
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVE  371 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~  371 (561)
                      +|+++. |..++.+.+|..||.+.|.+..+|..++.|.+|          ..+|.+ +..|+ |..||+++|...     
T Consensus       152 NNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~lp~E-l~~Lp-Li~lDfScNkis-----  224 (722)
T KOG0532|consen  152 NNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEE-LCSLP-LIRLDFSCNKIS-----  224 (722)
T ss_pred             cCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHH-HhCCc-eeeeecccCcee-----
Confidence            999998 999999999999999999999999999999988          455665 55554 889999998765     


Q ss_pred             CCcccchHhhcCCCCCcEEEEeeccCcccCccccc
Q 041360          372 GGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVL  406 (561)
Q Consensus       372 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  406 (561)
                          .....+.+|++|++|-|.+|.+...|..+..
T Consensus       225 ----~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~  255 (722)
T KOG0532|consen  225 ----YLPVDFRKMRHLQVLQLENNPLQSPPAQICE  255 (722)
T ss_pred             ----ecchhhhhhhhheeeeeccCCCCCChHHHHh
Confidence                3346789999999999999999887776533

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

Probab=98.98  E-value=4.3e-10  Score=99.06  Aligned_cols=58  Identities=26%  Similarity=0.336  Sum_probs=12.9

Q ss_pred             CCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccc-cCCCCCcEEEccCCcC
Q 041360          270 TEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIV-GQLKKLEILSFRDSYI  328 (561)
Q Consensus       270 l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i-~~L~~L~~L~l~~~~~  328 (561)
                      +.+|++|++++|.|+++. .+..+.+|++|++++|+++. .+.+ ..+++|++|++++|++
T Consensus        41 l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N~I  100 (175)
T PF14580_consen   41 LDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNNKI  100 (175)
T ss_dssp             -TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS--
T ss_pred             hcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCCcC
Confidence            344444444444444432 23334444444444444443 2222 1244444444444433

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

Probab=98.96  E-value=6.1e-10  Score=110.81  Aligned_cols=62  Identities=24%  Similarity=0.204  Sum_probs=32.1

Q ss_pred             cCCCCccEEEecCCCCCC-CchhhcCCCC---CcEEEeCCCCCCC------cccccCC-CCCcEEEccCCcCc
Q 041360          268 EGTEEVKVLSLTGVRFSS-LPSSLGRLFN---LQTLCLGGCRLKD------IAIVGQL-KKLEILSFRDSYIE  329 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~---L~~L~l~~~~l~~------p~~i~~L-~~L~~L~l~~~~~~  329 (561)
                      ..+.+|+.|++++|.+.. .+..+..+.+   |++|++++|.+..      ...+..+ ++|+.|++++|.+.
T Consensus        78 ~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~  150 (319)
T cd00116          78 TKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLE  150 (319)
T ss_pred             HhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCC
Confidence            455566666666665543 2333333333   6666666665542      1234444 55666666666544

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).

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

Probab=98.92  E-value=9.4e-10  Score=96.91  Aligned_cols=125  Identities=24%  Similarity=0.272  Sum_probs=56.1

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhc-CCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLG-RLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~-~L~~L~~L~  300 (561)
                      .+.+.|+++++.+..+..-- .+.+|+.|++++|.  +..+..  +..+++|+.|++++|.|+++++.+. .+++|+.|+
T Consensus        19 ~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~--I~~l~~--l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~   94 (175)
T PF14580_consen   19 VKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQ--ITKLEG--LPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS----S--TT------TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             cccccccccccccccccchhhhhcCCCEEECCCCC--CccccC--ccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            56799999999998876433 57899999999998  777765  5889999999999999999977664 699999999


Q ss_pred             eCCCCCCC---cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEcc
Q 041360          301 LGGCRLKD---IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMG  361 (561)
Q Consensus       301 l~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~  361 (561)
                      +++|++..   ...+..+++|++|++.+|.+...+.-          -...+..+++|+.||..
T Consensus        95 L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~Y----------R~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   95 LSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNY----------RLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             -TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTH----------HHHHHHH-TT-SEETTE
T ss_pred             CcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhH----------HHHHHHHcChhheeCCE
Confidence            99999876   57788899999999999987654321          12347788888888854

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

Probab=98.80  E-value=3.4e-10  Score=112.57  Aligned_cols=174  Identities=21%  Similarity=0.268  Sum_probs=142.4

Q ss_pred             EEEccCCCccccCCcc---CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCC
Q 041360          227 AISLPHRDIQELPERL---QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~---~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~  303 (561)
                      ++.+++.+++.+|..-   ++......+++.+.  +..+|..+ ..+-.|..|.|..|.+..+|..+++|..|.||+|+.
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDlsrNR--~~elp~~~-~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~  130 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADLSRNR--FSELPEEA-CAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSS  130 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhccccc--cccCchHH-HHHHHHHHHHHHhccceecchhhhhhhHHHHhhhcc
Confidence            4455555565565433   55666678888887  77888876 788899999999999999999999999999999999


Q ss_pred             CCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc----------cccCchhhcCCCCCcEEEccCCcccccccCC
Q 041360          304 CRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEG  372 (561)
Q Consensus       304 ~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~  372 (561)
                      |+++. |..++.|+ |+.|.+++|++..+|.+++-+..|          +.+|.. ++.+.+|+.|++..|...      
T Consensus       131 NqlS~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsq-l~~l~slr~l~vrRn~l~------  202 (722)
T KOG0532|consen  131 NQLSHLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQ-LGYLTSLRDLNVRRNHLE------  202 (722)
T ss_pred             chhhcCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHH-hhhHHHHHHHHHhhhhhh------
Confidence            99999 99999887 999999999999999999966666          667776 889999999998887654      


Q ss_pred             CcccchHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEE
Q 041360          373 GSNASLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKIC  415 (561)
Q Consensus       373 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  415 (561)
                         ..+.++..+ .|..|+++||.+..+|..+ .++.|+.|.+.
T Consensus       203 ---~lp~El~~L-pLi~lDfScNkis~iPv~fr~m~~Lq~l~Le  242 (722)
T KOG0532|consen  203 ---DLPEELCSL-PLIRLDFSCNKISYLPVDFRKMRHLQVLQLE  242 (722)
T ss_pred             ---hCCHHHhCC-ceeeeecccCceeecchhhhhhhhheeeeec
Confidence               333566644 6889999999999999876 67788887774

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

Probab=98.79  E-value=9.8e-09  Score=102.10  Aligned_cols=161  Identities=19%  Similarity=0.184  Sum_probs=106.7

Q ss_pred             CCceEEEccCCCccccC-------Ccc-CCCCccEEEeeccCCCCccccHHHHcCCCC---ccEEEecCCCCCC-----C
Q 041360          223 KGPIAISLPHRDIQELP-------ERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEE---VKVLSLTGVRFSS-----L  286 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~-------~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~---Lr~L~l~~~~i~~-----l  286 (561)
                      +.++++.+.++.+...+       ..+ .+++|+.|+++++.  +.......+..+..   |++|++++|.+..     +
T Consensus        51 ~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~--~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l  128 (319)
T cd00116          51 PSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNA--LGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLL  128 (319)
T ss_pred             CCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCC--CChhHHHHHHHHhccCcccEEEeeCCccchHHHHHH
Confidence            34677777776654212       122 57899999999987  33222223344444   9999999998763     3


Q ss_pred             chhhcCC-CCCcEEEeCCCCCCC------cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEE
Q 041360          287 PSSLGRL-FNLQTLCLGGCRLKD------IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELY  359 (561)
Q Consensus       287 p~~i~~L-~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~  359 (561)
                      ...+..+ ++|+.|++++|.++.      +..+..+.+|++|++++|.+..  .++.      .++.. +..+++|+.|+
T Consensus       129 ~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~--~~~~------~l~~~-l~~~~~L~~L~  199 (319)
T cd00116         129 AKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGD--AGIR------ALAEG-LKANCNLEVLD  199 (319)
T ss_pred             HHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCch--HHHH------HHHHH-HHhCCCCCEEe
Confidence            4567777 899999999999873      3466778899999999987653  1111      11111 45668899999


Q ss_pred             ccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc
Q 041360          360 MGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       360 l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                      +++|......    .......+..+++|+.|+++.|.+.
T Consensus       200 L~~n~i~~~~----~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         200 LNNNGLTDEG----ASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             ccCCccChHH----HHHHHHHhcccCCCCEEecCCCcCc
Confidence            9988653111    1123345667788888888877654

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).

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

Probab=98.61  E-value=4.9e-09  Score=96.43  Aligned_cols=128  Identities=20%  Similarity=0.279  Sum_probs=92.7

Q ss_pred             CCceEEEccCCCccccCCccC-CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQ-CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~-~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +.+..+++++|.+..+.++.+ .+++|.|++++|+  +..+..  +..+.+|..|||++|.+.++-..-.+|-|.++|.|
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~--i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~L  359 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQNR--IRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKL  359 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEeccccc--eeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEeeeeh
Confidence            456777888888777777663 5788888888886  555544  36778888888888877766555556777888888


Q ss_pred             CCCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          302 GGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       302 ~~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      .+|.+...+.+++|.+|..||+++|+|..+-.          +  ..|++++.|+.+.+.+|...
T Consensus       360 a~N~iE~LSGL~KLYSLvnLDl~~N~Ie~lde----------V--~~IG~LPCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  360 AQNKIETLSGLRKLYSLVNLDLSSNQIEELDE----------V--NHIGNLPCLETLRLTGNPLA  412 (490)
T ss_pred             hhhhHhhhhhhHhhhhheeccccccchhhHHH----------h--cccccccHHHHHhhcCCCcc
Confidence            88877777778888888888888887765532          1  12778888888888777654

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

Probab=98.61  E-value=4e-08  Score=100.74  Aligned_cols=166  Identities=22%  Similarity=0.283  Sum_probs=87.9

Q ss_pred             CceEEEccCCCccccCCccCCC--CccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          224 GPIAISLPHRDIQELPERLQCP--NLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~~~~--~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      .+..+.+.++.+..++......  +|+.|+++++.  +..+|..+ +.+++|+.|++++|.+..+|...+.+.+|+.|++
T Consensus       117 ~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~--i~~l~~~~-~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~l  193 (394)
T COG4886         117 NLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNK--IESLPSPL-RNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDL  193 (394)
T ss_pred             ceeEEecCCcccccCccccccchhhcccccccccc--hhhhhhhh-hccccccccccCCchhhhhhhhhhhhhhhhheec
Confidence            4555555555555555555332  56666665554  44444332 5556666666666666555555555555666666


Q ss_pred             CCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          302 GGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       302 ~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                      +++++.. |..++.+..|++|.++++.+...+..              ++++.++..|.+.++...         .....
T Consensus       194 s~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~--------------~~~~~~l~~l~l~~n~~~---------~~~~~  250 (394)
T COG4886         194 SGNKISDLPPEIELLSALEELDLSNNSIIELLSS--------------LSNLKNLSGLELSNNKLE---------DLPES  250 (394)
T ss_pred             cCCccccCchhhhhhhhhhhhhhcCCcceecchh--------------hhhcccccccccCCceee---------eccch
Confidence            6665555 44444555555665555544444433              344444444444443321         11234


Q ss_pred             hcCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          381 LKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       381 l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      ++.+..++.|+++.|.++.++....+.+++.|++.
T Consensus       251 ~~~l~~l~~L~~s~n~i~~i~~~~~~~~l~~L~~s  285 (394)
T COG4886         251 IGNLSNLETLDLSNNQISSISSLGSLTNLRELDLS  285 (394)
T ss_pred             hccccccceeccccccccccccccccCccCEEecc
Confidence            45555566666666666665554455566666553

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

Probab=98.56  E-value=1e-08  Score=94.42  Aligned_cols=123  Identities=18%  Similarity=0.265  Sum_probs=86.1

Q ss_pred             CCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEccCCcCcccCh---hhhccccc------
Q 041360          271 EEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH---EIGQLTRL------  341 (561)
Q Consensus       271 ~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~---~i~~L~~L------  341 (561)
                      +.|..|||++|.|+.+-.++.-++.++.|++++|++.....+..|++|++||+++|.+.++-.   .+|+.+.|      
T Consensus       284 q~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N~  363 (490)
T KOG1259|consen  284 QELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQNK  363 (490)
T ss_pred             hhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhhh
Confidence            668888999988888888888888899999998888776668888889999998886665532   34444433      


Q ss_pred             -cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc
Q 041360          342 -VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       342 -~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  402 (561)
                       ..+.  +++++-+|..|++.+|.+.       .-+....+++++.|+.|.+..|.+..++.
T Consensus       364 iE~LS--GL~KLYSLvnLDl~~N~Ie-------~ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  364 IETLS--GLRKLYSLVNLDLSSNQIE-------ELDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             Hhhhh--hhHhhhhheeccccccchh-------hHHHhcccccccHHHHHhhcCCCccccch
Confidence             1222  3566777777777777653       11233567777777777777776654443

>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=98.55  E-value=5.4e-08  Score=70.28  Aligned_cols=58  Identities=26%  Similarity=0.316  Sum_probs=31.1

Q ss_pred             CccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCCC
Q 041360          246 NLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCR  305 (561)
Q Consensus       246 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~~  305 (561)
                      +|++|++++|.  +..+|...|.++++|++|++++|.++.+| ..+..+++|++|++++|+
T Consensus         2 ~L~~L~l~~n~--l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNK--LTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSST--ESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCC--CCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45555555554  45555555555555555555555555543 344555555555555554

...

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

Probab=98.53  E-value=9.3e-08  Score=98.06  Aligned_cols=170  Identities=26%  Similarity=0.302  Sum_probs=112.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCC-CccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTE-EVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEI  320 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~-~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~  320 (561)
                      ..+.++.|.+..+.  +..++... ..+. +|+.|++++|.+..+|..+..+++|+.|++..|.+.+ |...+.+.+|+.
T Consensus       114 ~~~~l~~L~l~~n~--i~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         114 ELTNLTSLDLDNNN--ITDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             cccceeEEecCCcc--cccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            45667777777775  66666654 4453 7777777777777777777777777777777777777 665557777777


Q ss_pred             EEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc
Q 041360          321 LSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL  400 (561)
Q Consensus       321 L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  400 (561)
                      |+++++.+..+|..              ++.+..|++|.+.+|...         ..+..+.++.++..|.+..+.+..+
T Consensus       191 L~ls~N~i~~l~~~--------------~~~~~~L~~l~~~~N~~~---------~~~~~~~~~~~l~~l~l~~n~~~~~  247 (394)
T COG4886         191 LDLSGNKISDLPPE--------------IELLSALEELDLSNNSII---------ELLSSLSNLKNLSGLELSNNKLEDL  247 (394)
T ss_pred             eeccCCccccCchh--------------hhhhhhhhhhhhcCCcce---------ecchhhhhcccccccccCCceeeec
Confidence            77777777766643              245566888888877422         2335677888888888888877664


Q ss_pred             Ccc-cccccccEEEEEeccccccCCCCccccceEEEecCC
Q 041360          401 PQD-LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLE  439 (561)
Q Consensus       401 ~~~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~  439 (561)
                      +.. ..+++++.|++.... ...+.......++..|++.+
T Consensus       248 ~~~~~~l~~l~~L~~s~n~-i~~i~~~~~~~~l~~L~~s~  286 (394)
T COG4886         248 PESIGNLSNLETLDLSNNQ-ISSISSLGSLTNLRELDLSG  286 (394)
T ss_pred             cchhccccccceecccccc-ccccccccccCccCEEeccC
Confidence            443 366778888885332 22232233445555666654

>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=98.46  E-value=1.5e-07  Score=67.91  Aligned_cols=58  Identities=24%  Similarity=0.402  Sum_probs=49.4

Q ss_pred             CCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccCCcC
Q 041360          271 EEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRDSYI  328 (561)
Q Consensus       271 ~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~  328 (561)
                      ++|++|++++|.++.+|+ .+..+++|++|++++|.++.  +..+..+++|++|++++|++
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCcC
Confidence            468999999999998874 67889999999999999888  47889999999999988864

...

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

Probab=98.41  E-value=4.6e-08  Score=94.77  Aligned_cols=156  Identities=21%  Similarity=0.141  Sum_probs=87.4

Q ss_pred             CCceEEEccCCCccccCC--cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhh--cCCCCCc
Q 041360          223 KGPIAISLPHRDIQELPE--RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSL--GRLFNLQ  297 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~--~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i--~~L~~L~  297 (561)
                      +++|.+++.++.+...+.  .. .|++++.|+++++-+.....-..+...+++|+.|+++.|.+....++.  ..+.+|+
T Consensus       121 kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK  200 (505)
T KOG3207|consen  121 KKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLK  200 (505)
T ss_pred             HhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhh
Confidence            567777777777765553  22 677777777777641111112334467777777777777655433221  2456677


Q ss_pred             EEEeCCCCCCC--c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          298 TLCLGGCRLKD--I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       298 ~L~l~~~~l~~--p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      .|.++.|.++.  . ..+-..++|+.|++..|...-.          +..+   ..-+..|++|++++|......     
T Consensus       201 ~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~----------~~~~---~~i~~~L~~LdLs~N~li~~~-----  262 (505)
T KOG3207|consen  201 QLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILI----------KATS---TKILQTLQELDLSNNNLIDFD-----  262 (505)
T ss_pred             eEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccce----------ecch---hhhhhHHhhccccCCcccccc-----
Confidence            77777777654  2 4445566777777766631100          0001   234556667777766554222     


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCc
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                        .....+.++.|+.|.++.+.+.
T Consensus       263 --~~~~~~~l~~L~~Lnls~tgi~  284 (505)
T KOG3207|consen  263 --QGYKVGTLPGLNQLNLSSTGIA  284 (505)
T ss_pred             --cccccccccchhhhhccccCcc
Confidence              2244556666666666655554

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

Probab=98.37  E-value=8.6e-08  Score=92.95  Aligned_cols=177  Identities=18%  Similarity=0.103  Sum_probs=117.4

Q ss_pred             CCceEEEccCCCccccCCcc----CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC--CchhhcCCCCC
Q 041360          223 KGPIAISLPHRDIQELPERL----QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS--LPSSLGRLFNL  296 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~----~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~--lp~~i~~L~~L  296 (561)
                      ..++.|+++.|-+..+..-.    .+++|+.|.++.|. ...-.....-..+.+|+.|.++.|++..  +-..+..+++|
T Consensus       146 ~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nr-l~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl  224 (505)
T KOG3207|consen  146 PNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNR-LSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSL  224 (505)
T ss_pred             CcceeecchhhhHHhHHHHHHHHHhcccchhccccccc-ccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcH
Confidence            57899999887664433221    68999999999886 1111111112357899999999999874  33445567889


Q ss_pred             cEEEeCCCC-CCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          297 QTLCLGGCR-LKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       297 ~~L~l~~~~-l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      ..|+|.+|. +.. -....-++.|++|||++|.+..++..          +.  ++.++.|+.|+++.+.+..-..  .+
T Consensus       225 ~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~----------~~--~~~l~~L~~Lnls~tgi~si~~--~d  290 (505)
T KOG3207|consen  225 EVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQG----------YK--VGTLPGLNQLNLSSTGIASIAE--PD  290 (505)
T ss_pred             HHhhhhcccccceecchhhhhhHHhhccccCCcccccccc----------cc--cccccchhhhhccccCcchhcC--CC
Confidence            999999985 222 34445578899999999987766632          11  5677788888877765431111  12


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcc---cccccccEEEE
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQD---LVLVELQRYKI  414 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~L~~L~l  414 (561)
                      .........+++|+.|.+..|.+..++..   ..+++|+.|.+
T Consensus       291 ~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~  333 (505)
T KOG3207|consen  291 VESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRI  333 (505)
T ss_pred             ccchhhhcccccceeeecccCccccccccchhhccchhhhhhc
Confidence            34445567788999999998887655543   25566666665

>PLN03150 hypothetical protein; Provisional

Probab=98.31  E-value=2.1e-06  Score=92.61  Aligned_cols=80  Identities=23%  Similarity=0.321  Sum_probs=37.3

Q ss_pred             ccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCC-CCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEc
Q 041360          247 LELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFS-SLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSF  323 (561)
Q Consensus       247 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~-~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l  323 (561)
                      ++.|+++++. ....+|..+ +++++|+.|+|++|.+. .+|..++.+.+|++|+|++|.+..  |..++++++|++|++
T Consensus       420 v~~L~L~~n~-L~g~ip~~i-~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~L  497 (623)
T PLN03150        420 IDGLGLDNQG-LRGFIPNDI-SKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEECCCCC-ccccCCHHH-hCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEEC
Confidence            3444444444 223344433 44555555555555444 244445555555555555554443  444455555555555


Q ss_pred             cCCcC
Q 041360          324 RDSYI  328 (561)
Q Consensus       324 ~~~~~  328 (561)
                      ++|.+
T Consensus       498 s~N~l  502 (623)
T PLN03150        498 NGNSL  502 (623)
T ss_pred             cCCcc
Confidence            44443

>PLN03150 hypothetical protein; Provisional

Probab=98.17  E-value=5.5e-06  Score=89.40  Aligned_cols=101  Identities=23%  Similarity=0.312  Sum_probs=85.4

Q ss_pred             ceEEEccCCCcc-ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEe
Q 041360          225 PIAISLPHRDIQ-ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQTLCL  301 (561)
Q Consensus       225 l~~l~l~~~~~~-~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~L~l  301 (561)
                      ++.|+++++.+. .+|..+ .+++|+.|++++|. ....+|..+ +.+++|++|+|++|.+.. +|..++++.+|++|+|
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~-l~g~iP~~~-~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~L  497 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNS-IRGNIPPSL-GSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNL  497 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCc-ccCcCChHH-hCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEEC
Confidence            778899988884 567666 78999999999998 445788775 999999999999999985 7999999999999999


Q ss_pred             CCCCCCC--cccccCC-CCCcEEEccCCc
Q 041360          302 GGCRLKD--IAIVGQL-KKLEILSFRDSY  327 (561)
Q Consensus       302 ~~~~l~~--p~~i~~L-~~L~~L~l~~~~  327 (561)
                      ++|.+..  |..++.+ .++..+++.+|.
T Consensus       498 s~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        498 NGNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             cCCcccccCChHHhhccccCceEEecCCc
Confidence            9999876  7777764 567888888773

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

Probab=98.17  E-value=3e-06  Score=56.01  Aligned_cols=37  Identities=32%  Similarity=0.503  Sum_probs=22.5

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC
Q 041360          272 EVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD  308 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~  308 (561)
                      +|++|++++|.|+.+|+.+++|++|++|++++|.+++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCC
Confidence            5666666666666666666666666666666666554

...

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

Probab=98.02  E-value=3.2e-06  Score=90.95  Aligned_cols=134  Identities=17%  Similarity=0.261  Sum_probs=96.2

Q ss_pred             CCceEEEccCCCc--cccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDI--QELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~--~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~  298 (561)
                      .++++|++++...  ...|..+  -+|.|++|.+.+-...... ...++.++++|+.||+|+++++.+ ..+++|+||+.
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~d-F~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDD-FSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQV  199 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchh-HHHHhhccCccceeecCCCCccCc-HHHhccccHHH
Confidence            6678888877443  2333333  6899999999987622222 344558899999999999999988 77999999999


Q ss_pred             EEeCCCCCCC---cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          299 LCLGGCRLKD---IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       299 L~l~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      |.+++=.+..   ..++-+|++|++||+|..+...-+.-+..-     +  +.-..|++|+-||.++...
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qY-----l--ec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQY-----L--ECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHH-----H--HhcccCccccEEecCCcch
Confidence            9999988765   578899999999999987544444211110     0  1113477888888887544

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

Probab=98.02  E-value=2.5e-06  Score=80.77  Aligned_cols=252  Identities=15%  Similarity=0.133  Sum_probs=134.0

Q ss_pred             CCCCccEEEeeccCCCCc--cccHHHHcCCCCccEEEecCCC----CCCCch-------hhcCCCCCcEEEeCCCCCCC-
Q 041360          243 QCPNLELFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTGVR----FSSLPS-------SLGRLFNLQTLCLGGCRLKD-  308 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~~~----i~~lp~-------~i~~L~~L~~L~l~~~~l~~-  308 (561)
                      .+..++.++++++.+...  ..-...+.+.+.||.-++++--    ..++|+       .+-..++|++|+|+.|-+.. 
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~  107 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPK  107 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCcc
Confidence            577888899998862111  1222334667788888887642    122444       34556688888888886443 


Q ss_pred             -c----ccccCCCCCcEEEccCCcCcccChh-hh-ccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          309 -I----AIVGQLKKLEILSFRDSYIEELPHE-IG-QLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       309 -p----~~i~~L~~L~~L~l~~~~~~~lp~~-i~-~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                       +    .-|.....|++|++.+|.+.....+ ++ -|..|. .. .-+.+-+.|+++....|.....    ...+....+
T Consensus       108 g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~-~~-kk~~~~~~Lrv~i~~rNrlen~----ga~~~A~~~  181 (382)
T KOG1909|consen  108 GIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELA-VN-KKAASKPKLRVFICGRNRLENG----GATALAEAF  181 (382)
T ss_pred             chHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHH-HH-hccCCCcceEEEEeeccccccc----cHHHHHHHH
Confidence             3    3456677888888888866543221 11 122222 11 1144556777777766654211    122334456


Q ss_pred             cCCCCCcEEEEeeccCcccCcc------cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhc
Q 041360          382 KGLSKLTTLEIQVRDAQILPQD------LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLK  455 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~------~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~  455 (561)
                      +..+.|+.+.++.|.+..-...      ..+++|+.|++.... +.               ..+   .......+..+ +
T Consensus       182 ~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNt-ft---------------~eg---s~~LakaL~s~-~  241 (382)
T KOG1909|consen  182 QSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNT-FT---------------LEG---SVALAKALSSW-P  241 (382)
T ss_pred             HhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccch-hh---------------hHH---HHHHHHHhccc-c
Confidence            6666777777777665422211      145566666553221 00               000   12222333333 6


Q ss_pred             cccceeeccccC----cccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc
Q 041360          456 EAEEIHLNELKG----VQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       456 ~L~~L~l~~~~~----~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      +|+.|++..|.-    ...+..-+  .+++|+|+.|.+.+| .++.=....-.......|.|++|.+.+|.-
T Consensus       242 ~L~El~l~dcll~~~Ga~a~~~al--~~~~p~L~vl~l~gN-eIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  242 HLRELNLGDCLLENEGAIAFVDAL--KESAPSLEVLELAGN-EITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             hheeecccccccccccHHHHHHHH--hccCCCCceeccCcc-hhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            777888877742    22222222  345888888888875 332111000001223478888888887763

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

Probab=98.01  E-value=2.2e-07  Score=89.68  Aligned_cols=104  Identities=18%  Similarity=0.140  Sum_probs=67.5

Q ss_pred             CCceEEEccCCCccccCC---c-cCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCC-ch-hhcCCCC
Q 041360          223 KGPIAISLPHRDIQELPE---R-LQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSL-PS-SLGRLFN  295 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~---~-~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~l-p~-~i~~L~~  295 (561)
                      ..++.+++.++.-.....   . ..+++++.|.+.+|.........++-..+++|++|++..|. ++.. -+ -...+++
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            456777777765432221   1 17899999999888733333444454678999999999853 5442 22 3346789


Q ss_pred             CcEEEeCCCC-CCC--c-ccccCCCCCcEEEccCC
Q 041360          296 LQTLCLGGCR-LKD--I-AIVGQLKKLEILSFRDS  326 (561)
Q Consensus       296 L~~L~l~~~~-l~~--p-~~i~~L~~L~~L~l~~~  326 (561)
                      |.||++++|. ++.  . .-......++.+...+|
T Consensus       218 L~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC  252 (483)
T KOG4341|consen  218 LKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGC  252 (483)
T ss_pred             HHHhhhccCchhhcCcchHHhccchhhhhhhhccc
Confidence            9999999997 655  2 33445556777766665

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

Probab=98.00  E-value=1e-05  Score=53.52  Aligned_cols=39  Identities=26%  Similarity=0.385  Sum_probs=33.5

Q ss_pred             CCCcEEEeCCCCCCC-cccccCCCCCcEEEccCCcCcccC
Q 041360          294 FNLQTLCLGGCRLKD-IAIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       294 ~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      ++|++|++++|.++. |+.+++|++|++|++++|.+..++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            479999999999999 777999999999999999988765

...

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

Probab=97.97  E-value=4.7e-06  Score=89.68  Aligned_cols=141  Identities=18%  Similarity=0.154  Sum_probs=94.1

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC--CchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEE
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS--LPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEIL  321 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~--lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L  321 (561)
                      -.+|+.|+++|........|..+..-++.|+.|.+++-.+..  +-.-..+++||..||+++|.++....+++|++||+|
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L  200 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVL  200 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHH
Confidence            467888888887645556667766678888888888765433  233445778888888888888777888888888888


Q ss_pred             EccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc
Q 041360          322 SFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       322 ~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                      .+++=.+..-..-            ..+.+|++|+.||++.........  -....++--..+++||.|+.+++++.
T Consensus       201 ~mrnLe~e~~~~l------------~~LF~L~~L~vLDIS~~~~~~~~~--ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  201 SMRNLEFESYQDL------------IDLFNLKKLRVLDISRDKNNDDTK--IIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             hccCCCCCchhhH------------HHHhcccCCCeeeccccccccchH--HHHHHHHhcccCccccEEecCCcchh
Confidence            7765444332110            126789999999988765432221  01122333445889999999987764

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

Probab=97.94  E-value=9.2e-07  Score=81.75  Aligned_cols=55  Identities=24%  Similarity=0.338  Sum_probs=32.4

Q ss_pred             CccEEEecCCCCCC--CchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccCC
Q 041360          272 EVKVLSLTGVRFSS--LPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRDS  326 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~--lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~  326 (561)
                      .|++|||+...|+.  +-.-++.+..|+.|.+.+.++.+  ...|.+=.+|+.|+++.|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~  244 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMC  244 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccc
Confidence            46666666666543  34445556666666666666655  255555556666666655

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

Probab=97.86  E-value=1.5e-06  Score=89.37  Aligned_cols=125  Identities=25%  Similarity=0.356  Sum_probs=72.3

Q ss_pred             CceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+..++++.+.+...-..+ .+.+|+.|++..+.  +..+...+ ..+.+|++|++++|.|+.+.. +..+..|+.|++.
T Consensus        73 ~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~--i~~i~~~l-~~~~~L~~L~ls~N~I~~i~~-l~~l~~L~~L~l~  148 (414)
T KOG0531|consen   73 SLKELNLRQNLIAKILNHLSKLKSLEALDLYDNK--IEKIENLL-SSLVNLQVLDLSFNKITKLEG-LSTLTLLKELNLS  148 (414)
T ss_pred             hHHhhccchhhhhhhhcccccccceeeeeccccc--hhhcccch-hhhhcchheeccccccccccc-hhhccchhhheec
Confidence            3444445555554422222 56666677776665  44444322 556677777777776666543 4556667777777


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +|.+.....+..+..|+.+++++|.+..+...            . ...+.+++.+.+.+|..
T Consensus       149 ~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~~------------~-~~~~~~l~~l~l~~n~i  198 (414)
T KOG0531|consen  149 GNLISDISGLESLKSLKLLDLSYNRIVDIEND------------E-LSELISLEELDLGGNSI  198 (414)
T ss_pred             cCcchhccCCccchhhhcccCCcchhhhhhhh------------h-hhhccchHHHhccCCch
Confidence            77666655555666677777766666554421            1 24555666666666543

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

Probab=97.84  E-value=1.9e-06  Score=70.54  Aligned_cols=108  Identities=18%  Similarity=0.200  Sum_probs=73.5

Q ss_pred             ceEEEccCCCccccCCcc----CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          225 PIAISLPHRDIQELPERL----QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~----~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      ...++++.|.+..+++..    ...+|...++++|.  +..+|..+-.+.+.+..|++++|.+..+|.++..++.|+.|+
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~--fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNG--FKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLN  106 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccch--hhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcc
Confidence            344555555554444332    45566667777776  677777776666677777777777777777777777777777


Q ss_pred             eCCCCCCC-cccccCCCCCcEEEccCCcCcccChh
Q 041360          301 LGGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHE  334 (561)
Q Consensus       301 l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~  334 (561)
                      ++.|.+.. |..+-.|.+|-.|+..++.+..+|-.
T Consensus       107 l~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  107 LRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             cccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            77777666 76666677777777777766666644

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

Probab=97.81  E-value=2.8e-06  Score=87.45  Aligned_cols=104  Identities=25%  Similarity=0.272  Sum_probs=89.0

Q ss_pred             CCceEEEccCCCccccCC-ccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPE-RLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +++..+++.+|.+..+.. .-.+++|++|+++++.  +..+..  +..+..|+.|++++|.+..+.. +..+.+|+.+++
T Consensus        95 ~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~--I~~i~~--l~~l~~L~~L~l~~N~i~~~~~-~~~l~~L~~l~l  169 (414)
T KOG0531|consen   95 KSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNK--ITKLEG--LSTLTLLKELNLSGNLISDISG-LESLKSLKLLDL  169 (414)
T ss_pred             cceeeeeccccchhhcccchhhhhcchheeccccc--cccccc--hhhccchhhheeccCcchhccC-CccchhhhcccC
Confidence            789999999999988887 4479999999999997  777766  4788899999999999988754 455999999999


Q ss_pred             CCCCCCCccc--ccCCCCCcEEEccCCcCccc
Q 041360          302 GGCRLKDIAI--VGQLKKLEILSFRDSYIEEL  331 (561)
Q Consensus       302 ~~~~l~~p~~--i~~L~~L~~L~l~~~~~~~l  331 (561)
                      ++|++.....  +..+.+|+.+++.++.+..+
T Consensus       170 ~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i  201 (414)
T KOG0531|consen  170 SYNRIVDIENDELSELISLEELDLGGNSIREI  201 (414)
T ss_pred             CcchhhhhhhhhhhhccchHHHhccCCchhcc
Confidence            9999888333  68999999999999877655

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

Probab=97.77  E-value=7.9e-07  Score=91.54  Aligned_cols=117  Identities=21%  Similarity=0.229  Sum_probs=63.6

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEccCCcCcccCh---hhhccccc-------
Q 041360          272 EVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH---EIGQLTRL-------  341 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~---~i~~L~~L-------  341 (561)
                      .|.+-+.+.|.+..+-.++.-++.|+.|+|++|++.....+..+++|++||+++|.+..+|.   .-++|..|       
T Consensus       165 ~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l  244 (1096)
T KOG1859|consen  165 KLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNAL  244 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhhhheeeeecccHH
Confidence            45555666666666666666666666666666666665566666666666666665555542   11112222       


Q ss_pred             cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccC
Q 041360          342 VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDA  397 (561)
Q Consensus       342 ~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  397 (561)
                      +++  .+|.+|.+|+.||++.|.+.       +...+.-|+.+..|+.|.+.+|.+
T Consensus       245 ~tL--~gie~LksL~~LDlsyNll~-------~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  245 TTL--RGIENLKSLYGLDLSYNLLS-------EHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             Hhh--hhHHhhhhhhccchhHhhhh-------cchhhhHHHHHHHHHHHhhcCCcc
Confidence            111  12566666666666666443       112234455555666666665543

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

Probab=97.76  E-value=2.6e-06  Score=78.85  Aligned_cols=40  Identities=20%  Similarity=0.230  Sum_probs=27.4

Q ss_pred             hcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeec
Q 041360          349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVR  395 (561)
Q Consensus       349 i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  395 (561)
                      ..++++|.+||+++|....       ...+.++.+++.|++|.++.+
T Consensus       309 ~~rcp~l~~LDLSD~v~l~-------~~~~~~~~kf~~L~~lSlsRC  348 (419)
T KOG2120|consen  309 VRRCPNLVHLDLSDSVMLK-------NDCFQEFFKFNYLQHLSLSRC  348 (419)
T ss_pred             HHhCCceeeeccccccccC-------chHHHHHHhcchheeeehhhh
Confidence            3577788888888775442       245677777788888777743

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

Probab=97.64  E-value=1e-06  Score=90.71  Aligned_cols=127  Identities=19%  Similarity=0.139  Sum_probs=95.3

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      ..+..+++++|.+..+-..+ -++.++.|++++|.  +..+.  ++..+.+|+.||++.|.+..+|.-=..-.+|+.|++
T Consensus       164 n~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk--~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~l  239 (1096)
T KOG1859|consen  164 NKLATASFSYNRLVLMDESLQLLPALESLNLSHNK--FTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNL  239 (1096)
T ss_pred             hhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhh--hhhhH--HHHhcccccccccccchhccccccchhhhhheeeee
Confidence            46778888888887666666 46889999999998  55554  358999999999999999988862222234999999


Q ss_pred             CCCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          302 GGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       302 ~~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      ++|.++....|.+|++|+.||+++|-+...-          .+.  .++.|..|.+|.+.||..
T Consensus       240 rnN~l~tL~gie~LksL~~LDlsyNll~~hs----------eL~--pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  240 RNNALTTLRGIENLKSLYGLDLSYNLLSEHS----------ELE--PLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             cccHHHhhhhHHhhhhhhccchhHhhhhcch----------hhh--HHHHHHHHHHHhhcCCcc
Confidence            9999988888999999999999998654331          111  155666667777777654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.60  E-value=1.2e-05  Score=74.63  Aligned_cols=60  Identities=32%  Similarity=0.340  Sum_probs=32.9

Q ss_pred             cCCCCccEEEecCCCCCC---CchhhcCCCCCcEEEeCCCCCCC-cccc-cCCCCCcEEEccCCc
Q 041360          268 EGTEEVKVLSLTGVRFSS---LPSSLGRLFNLQTLCLGGCRLKD-IAIV-GQLKKLEILSFRDSY  327 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~---lp~~i~~L~~L~~L~l~~~~l~~-p~~i-~~L~~L~~L~l~~~~  327 (561)
                      ..+.+++.|||.+|.|..   +-.-+.++++|++|+++.|.+.. +..+ -.+.+|++|-+.++.
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~  132 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTG  132 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCC
Confidence            345566666666666543   22233456666666666666554 3333 245566666666554

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

Probab=97.49  E-value=0.00022  Score=62.80  Aligned_cols=101  Identities=24%  Similarity=0.235  Sum_probs=61.6

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc--hhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP--SSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp--~~i~~L~~L~~L~  300 (561)
                      .+...+++++|.+..++....++.|.+|.+..|.  +..+.+.+-.-+++|..|.|.+|++..+-  ..+..++.|+||.
T Consensus        42 d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNr--It~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNR--ITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLT  119 (233)
T ss_pred             cccceecccccchhhcccCCCccccceEEecCCc--ceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceee
Confidence            4556666666666555554566677777776665  55665555444556777777777666542  2355566677777


Q ss_pred             eCCCCCCC-c----ccccCCCCCcEEEccC
Q 041360          301 LGGCRLKD-I----AIVGQLKKLEILSFRD  325 (561)
Q Consensus       301 l~~~~l~~-p----~~i~~L~~L~~L~l~~  325 (561)
                      +-+|.+++ .    -.++++++|++||...
T Consensus       120 ll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  120 LLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             ecCCchhcccCceeEEEEecCcceEeehhh
Confidence            66666554 2    3456666666666644

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.49  E-value=0.00035  Score=69.65  Aligned_cols=109  Identities=14%  Similarity=0.206  Sum_probs=66.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC-CCCCCchhhcCCCCCcEEEeCCC-CCCC-cccccCCCCCc
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV-RFSSLPSSLGRLFNLQTLCLGGC-RLKD-IAIVGQLKKLE  319 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~i~~lp~~i~~L~~L~~L~l~~~-~l~~-p~~i~~L~~L~  319 (561)
                      .+.+++.|++++|.  +..+|.    -..+|+.|.++++ .++.+|..+.  .+|++|++++| .+.. |+      +|+
T Consensus        50 ~~~~l~~L~Is~c~--L~sLP~----LP~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~------sLe  115 (426)
T PRK15386         50 EARASGRLYIKDCD--IESLPV----LPNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPE------SVR  115 (426)
T ss_pred             HhcCCCEEEeCCCC--CcccCC----CCCCCcEEEccCCCCcccCCchhh--hhhhheEccCccccccccc------ccc
Confidence            46788888888885  777772    2346888888875 4666776553  57888888888 4665 54      356


Q ss_pred             EEEccCCc---CcccChhhhcccc--ccccCchhhc-CC-CCCcEEEccCCcc
Q 041360          320 ILSFRDSY---IEELPHEIGQLTR--LVVIAPNLIS-KF-SQLEELYMGDSFS  365 (561)
Q Consensus       320 ~L~l~~~~---~~~lp~~i~~L~~--L~~l~~~~i~-~l-~~L~~L~l~~~~~  365 (561)
                      +|++..+.   +..+|.++..|.-  ........+. .+ ++|++|++.+|..
T Consensus       116 ~L~L~~n~~~~L~~LPssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~  168 (426)
T PRK15386        116 SLEIKGSATDSIKNVPNGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSN  168 (426)
T ss_pred             eEEeCCCCCcccccCcchHhheeccccccccccccccccCCcccEEEecCCCc
Confidence            66665543   5667776655431  0000000011 12 4677777777653

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

Probab=97.43  E-value=2.8e-05  Score=63.85  Aligned_cols=97  Identities=23%  Similarity=0.291  Sum_probs=79.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHH--HcCCCCccEEEecCCCCCCCchhhcCCC-CCcEEEeCCCCCCC-cccccCCCCC
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLF--FEGTEEVKVLSLTGVRFSSLPSSLGRLF-NLQTLCLGGCRLKD-IAIVGQLKKL  318 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~--~~~l~~Lr~L~l~~~~i~~lp~~i~~L~-~L~~L~l~~~~l~~-p~~i~~L~~L  318 (561)
                      +...+..++++.|.  +..+++..  ..+..+|...++++|.+.++|+.+.... -+.+|++.+|.+.+ |.++..++.|
T Consensus        25 dakE~h~ldLssc~--lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aL  102 (177)
T KOG4579|consen   25 DAKELHFLDLSSCQ--LMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPAL  102 (177)
T ss_pred             HHHHhhhcccccch--hhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHh
Confidence            34566778888886  55554432  2567888999999999999999887654 89999999999999 9889999999


Q ss_pred             cEEEccCCcCcccChhhhccccc
Q 041360          319 EILSFRDSYIEELPHEIGQLTRL  341 (561)
Q Consensus       319 ~~L~l~~~~~~~lp~~i~~L~~L  341 (561)
                      +.|+++.|.+...|.-|-.|.+|
T Consensus       103 r~lNl~~N~l~~~p~vi~~L~~l  125 (177)
T KOG4579|consen  103 RSLNLRFNPLNAEPRVIAPLIKL  125 (177)
T ss_pred             hhcccccCccccchHHHHHHHhH
Confidence            99999999999998876666555

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

Probab=97.22  E-value=2e-05  Score=76.57  Aligned_cols=282  Identities=17%  Similarity=0.123  Sum_probs=146.2

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCC-Cchhhc-CCCCCcEEEeCCCC-CCC--cc-cccCCCC
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSS-LPSSLG-RLFNLQTLCLGGCR-LKD--IA-IVGQLKK  317 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~-lp~~i~-~L~~L~~L~l~~~~-l~~--p~-~i~~L~~  317 (561)
                      ..|+.|.+.++...-..-...+-..++++..|++.++. ++. .-.+++ .+.+|++|++-.|. ++.  .. -....++
T Consensus       138 g~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  138 GFLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             cccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            46788888887611122223444688899999888875 332 122333 56789999999987 666  33 4557889


Q ss_pred             CcEEEccCC-cCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEe-ec
Q 041360          318 LEILSFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ-VR  395 (561)
Q Consensus       318 L~~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~-~~  395 (561)
                      |++|++++| .+..  .++   +      . ...+.+.++++...||....      .++....=.....+-++++. ++
T Consensus       218 L~~lNlSwc~qi~~--~gv---~------~-~~rG~~~l~~~~~kGC~e~~------le~l~~~~~~~~~i~~lnl~~c~  279 (483)
T KOG4341|consen  218 LKYLNLSWCPQISG--NGV---Q------A-LQRGCKELEKLSLKGCLELE------LEALLKAAAYCLEILKLNLQHCN  279 (483)
T ss_pred             HHHhhhccCchhhc--Ccc---h------H-Hhccchhhhhhhhccccccc------HHHHHHHhccChHhhccchhhhc
Confidence            999999998 4443  111   0      0 02334444444444442210      00111111111122222221 22


Q ss_pred             cCcccCcc---cccccccEEEEEecccccc---CCCCccccceEEEecCCccchhhhhhhHHHh---hccccceeecccc
Q 041360          396 DAQILPQD---LVLVELQRYKICIGEAWRM---WGVTSEISRLVRLHGLENVSTLLENYGMKML---LKEAEEIHLNELK  466 (561)
Q Consensus       396 ~~~~~~~~---~~~~~L~~L~l~~~~~~~~---~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~l---l~~L~~L~l~~~~  466 (561)
                      .+++...+   -.+..|+.+....+...+.   |.-.....++..+.+..|.  .....++..+   -+.|+.+++.+|.
T Consensus       280 ~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~--~fsd~~ft~l~rn~~~Le~l~~e~~~  357 (483)
T KOG4341|consen  280 QLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQ--QFSDRGFTMLGRNCPHLERLDLEECG  357 (483)
T ss_pred             cccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccc--hhhhhhhhhhhcCChhhhhhcccccc
Confidence            22221111   1344445444433322221   2111222333333333321  1112222221   3788899988876


Q ss_pred             CcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc---cccCCCCCCCCCCCCcccCC
Q 041360          467 GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF---VILHGQKPTAASKGPEREKP  543 (561)
Q Consensus       467 ~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~---~~~~~~~~~~~l~~L~~L~i  543 (561)
                      ...+-...-. ..+.+.|+.|.+++|..++.-.-..-.....++..|+.+.+.+||.   .....   +..+++|+.+++
T Consensus       358 ~~~d~tL~sl-s~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~---l~~c~~Leri~l  433 (483)
T KOG4341|consen  358 LITDGTLASL-SRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEH---LSICRNLERIEL  433 (483)
T ss_pred             eehhhhHhhh-ccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHH---HhhCcccceeee
Confidence            5444311000 4578999999999998776541001012346778899999999997   22111   456778999888


Q ss_pred             Ccccccc
Q 041360          544 TTSLGFN  550 (561)
Q Consensus       544 ~~c~~l~  550 (561)
                      .+|.+..
T Consensus       434 ~~~q~vt  440 (483)
T KOG4341|consen  434 IDCQDVT  440 (483)
T ss_pred             echhhhh
Confidence            8887654

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

Probab=97.22  E-value=0.00024  Score=67.74  Aligned_cols=134  Identities=19%  Similarity=0.214  Sum_probs=92.9

Q ss_pred             CCceEEEccCCCccccCCc-----c-CCCCccEEEeeccCCCCcc--ccHHHHcCCCCccEEEecCCCCCC-----Cchh
Q 041360          223 KGPIAISLPHRDIQELPER-----L-QCPNLELFLLFRKGYGSMQ--ISDLFFEGTEEVKVLSLTGVRFSS-----LPSS  289 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-----~-~~~~L~~L~l~~~~~~~~~--~~~~~~~~l~~Lr~L~l~~~~i~~-----lp~~  289 (561)
                      .++|.+....|+...-+..     + ..+.|+.+.+..+......  ....-|..++||++|||.+|.++.     +.+.
T Consensus       157 ~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~Laka  236 (382)
T KOG1909|consen  157 PKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKA  236 (382)
T ss_pred             cceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHH
Confidence            6788888888888655542     2 4678999999888622221  122224789999999999998765     5667


Q ss_pred             hcCCCCCcEEEeCCCCCCC--c----ccc-cCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccC
Q 041360          290 LGRLFNLQTLCLGGCRLKD--I----AIV-GQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGD  362 (561)
Q Consensus       290 i~~L~~L~~L~l~~~~l~~--p----~~i-~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~  362 (561)
                      ++.+++|+.|++++|.++.  .    ..+ ...++|++|.+.+|.+..-....        + ...+...+.|..|++.+
T Consensus       237 L~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~--------l-a~~~~ek~dL~kLnLng  307 (382)
T KOG1909|consen  237 LSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALA--------L-AACMAEKPDLEKLNLNG  307 (382)
T ss_pred             hcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHH--------H-HHHHhcchhhHHhcCCc
Confidence            7888899999999998765  1    222 23678999999998766322110        0 11245677888888888


Q ss_pred             Ccc
Q 041360          363 SFS  365 (561)
Q Consensus       363 ~~~  365 (561)
                      |..
T Consensus       308 N~l  310 (382)
T KOG1909|consen  308 NRL  310 (382)
T ss_pred             ccc
Confidence            866

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.19  E-value=0.00034  Score=65.18  Aligned_cols=85  Identities=24%  Similarity=0.194  Sum_probs=59.0

Q ss_pred             CCCCccEEEeeccCCCCcccc--HHHHcCCCCccEEEecCCCCCCCchhh-cCCCCCcEEEeCCCCCCC---cccccCCC
Q 041360          243 QCPNLELFLLFRKGYGSMQIS--DLFFEGTEEVKVLSLTGVRFSSLPSSL-GRLFNLQTLCLGGCRLKD---IAIVGQLK  316 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~--~~~~~~l~~Lr~L~l~~~~i~~lp~~i-~~L~~L~~L~l~~~~l~~---p~~i~~L~  316 (561)
                      .++.++.+++.+|.  +..+.  ..+..+|++|++|+++.|.+...-+++ ..+.+|++|.|.++.+..   -..+..++
T Consensus        69 ~~~~v~elDL~~N~--iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP  146 (418)
T KOG2982|consen   69 SVTDVKELDLTGNL--ISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLP  146 (418)
T ss_pred             Hhhhhhhhhcccch--hccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcch
Confidence            57778888888876  33322  334578889999999988765433333 466788999998888655   36677787


Q ss_pred             CCcEEEccCCcCc
Q 041360          317 KLEILSFRDSYIE  329 (561)
Q Consensus       317 ~L~~L~l~~~~~~  329 (561)
                      .++.|+++.|+..
T Consensus       147 ~vtelHmS~N~~r  159 (418)
T KOG2982|consen  147 KVTELHMSDNSLR  159 (418)
T ss_pred             hhhhhhhccchhh
Confidence            8888877776433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.16  E-value=0.0077  Score=69.06  Aligned_cols=170  Identities=14%  Similarity=0.206  Sum_probs=106.2

Q ss_pred             CEEeeccchhh--hcccCCcceEecC----CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHc
Q 041360            1 MILTSRNRDLL--ERDMNSQKNFLIE----VLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALK   74 (561)
Q Consensus         1 IlvTTR~~~va--~~~~~~~~~~~l~----~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~   74 (561)
                      +|||||..--.  ..........+++    +++.+|+.++|....+...    -.+.+.++.+.++|.|+++..++..++
T Consensus       155 lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~  230 (903)
T PRK04841        155 LVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALSAR  230 (903)
T ss_pred             EEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            46899974211  0000112355666    9999999999998765322    246688999999999999999988776


Q ss_pred             CCCHHHHHHHHHHHhhCCCCCCCCchhhHHHHHHHH-HHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCccccc
Q 041360           75 SKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELS-YNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNV  153 (561)
Q Consensus        75 ~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~s-y~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~  153 (561)
                      ..+. ........+...       ....+...+.-. |+.||++ .+..+...|+++   .++...+-.+.   |     
T Consensus       231 ~~~~-~~~~~~~~~~~~-------~~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~~~---~~~~~l~~~l~---~-----  290 (903)
T PRK04841        231 QNNS-SLHDSARRLAGI-------NASHLSDYLVEEVLDNVDLE-TRHFLLRCSVLR---SMNDALIVRVT---G-----  290 (903)
T ss_pred             hCCC-chhhhhHhhcCC-------CchhHHHHHHHHHHhcCCHH-HHHHHHHhcccc---cCCHHHHHHHc---C-----
Confidence            4321 011111111100       123355544433 7899997 999999999987   45544433321   1     


Q ss_pred             ccHHHHHHHHHHHHHHHHHcCcccc-cC-CCCceehhHHHHHHHHHHhh
Q 041360          154 YTLEEARSRVHRLIDNLKSSCLLLD-GD-GKDEVKMHDVIHVVAVSIAT  200 (561)
Q Consensus       154 ~~~~~~~~~~~~~i~~L~~~sll~~-~~-~~~~~~mh~lv~~~~~~~~~  200 (561)
                        ..++    .+.++.|.+.+++.. .+ ....|..|++++++.+....
T Consensus       291 --~~~~----~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        291 --EENG----QMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             --CCcH----HHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHH
Confidence              1112    347778888888653 22 33468899999999987753

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.14  E-value=0.001  Score=66.37  Aligned_cols=98  Identities=20%  Similarity=0.252  Sum_probs=62.3

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC-CCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV-RFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~i~~lp~~i~~L~~L~~L~l  301 (561)
                      .++++|++++|.+..+|.  --++|++|.+.+|. .+..+|..+   ..+|++|++++| .+..+|.+      |++|++
T Consensus        52 ~~l~~L~Is~c~L~sLP~--LP~sLtsL~Lsnc~-nLtsLP~~L---P~nLe~L~Ls~Cs~L~sLP~s------Le~L~L  119 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV--LPNELTEITIENCN-NLTTLPGSI---PEGLEKLTVCHCPEISGLPES------VRSLEI  119 (426)
T ss_pred             cCCCEEEeCCCCCcccCC--CCCCCcEEEccCCC-CcccCCchh---hhhhhheEccCcccccccccc------cceEEe
Confidence            457788888888877773  12358888888776 566666544   257888888887 56667654      555555


Q ss_pred             CCCC---CCC-cccccCC------------------CCCcEEEccCCcCcccC
Q 041360          302 GGCR---LKD-IAIVGQL------------------KKLEILSFRDSYIEELP  332 (561)
Q Consensus       302 ~~~~---l~~-p~~i~~L------------------~~L~~L~l~~~~~~~lp  332 (561)
                      ..+.   +.. |+++..|                  .+|++|++++|....+|
T Consensus       120 ~~n~~~~L~~LPssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~LP  172 (426)
T PRK15386        120 KGSATDSIKNVPNGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNIILP  172 (426)
T ss_pred             CCCCCcccccCcchHhheeccccccccccccccccCCcccEEEecCCCcccCc
Confidence            5443   333 4444333                  36788888777654444

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

Probab=97.12  E-value=0.00076  Score=59.47  Aligned_cols=104  Identities=18%  Similarity=0.254  Sum_probs=55.4

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcC-CCCCcEEEeCCCCCCC---cccccCCCCCcE
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR-LFNLQTLCLGGCRLKD---IAIVGQLKKLEI  320 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~-L~~L~~L~l~~~~l~~---p~~i~~L~~L~~  320 (561)
                      .....++++.+.  +..++.  |..++.|..|.+.+|.|..+-+.+.. +++|+.|.|.+|.+.+   ...+..+++|+.
T Consensus        42 d~~d~iDLtdNd--l~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   42 DQFDAIDLTDND--LRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             cccceecccccc--hhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            344556666665  444443  45666666666666666665444443 3456666666666544   344445556666


Q ss_pred             EEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccC
Q 041360          321 LSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGD  362 (561)
Q Consensus       321 L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~  362 (561)
                      |.+-+|.+...+.       -   -..++.++++|+.||++.
T Consensus       118 Ltll~Npv~~k~~-------Y---R~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  118 LTLLGNPVEHKKN-------Y---RLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             eeecCCchhcccC-------c---eeEEEEecCcceEeehhh
Confidence            6655554332210       0   012255666666666554

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

Probab=97.03  E-value=0.00081  Score=61.92  Aligned_cols=246  Identities=15%  Similarity=0.116  Sum_probs=114.9

Q ss_pred             CCCccEEEeeccCCCCcc----ccHHHHcCCCCccEEEecCCCCC----C-------CchhhcCCCCCcEEEeCCCCCCC
Q 041360          244 CPNLELFLLFRKGYGSMQ----ISDLFFEGTEEVKVLSLTGVRFS----S-------LPSSLGRLFNLQTLCLGGCRLKD  308 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~----~~~~~~~~l~~Lr~L~l~~~~i~----~-------lp~~i~~L~~L~~L~l~~~~l~~  308 (561)
                      +..+..++++||.  +..    .....+.+-++|++.++++.-..    +       +.+.+-++++|+..+|+.|-+..
T Consensus        29 ~d~~~evdLSGNt--igtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~  106 (388)
T COG5238          29 MDELVEVDLSGNT--IGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGS  106 (388)
T ss_pred             hcceeEEeccCCc--ccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCc
Confidence            5667777777775  221    11222355667777777654211    1       22344566777777777775433


Q ss_pred             --c----ccccCCCCCcEEEccCCcCcccCh-hhhc-cccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          309 --I----AIVGQLKKLEILSFRDSYIEELPH-EIGQ-LTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       309 --p----~~i~~L~~L~~L~l~~~~~~~lp~-~i~~-L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                        |    .-|.+-..|.||.+++|.+..+.. .|++ |.+|...-.  ...-+.|+......|.....    +.......
T Consensus       107 ~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKK--aa~kp~Le~vicgrNRleng----s~~~~a~~  180 (388)
T COG5238         107 EFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKK--AADKPKLEVVICGRNRLENG----SKELSAAL  180 (388)
T ss_pred             ccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhh--hccCCCceEEEeccchhccC----cHHHHHHH
Confidence              3    334555667777776665443321 1221 111111100  23344455555444432100    01111222


Q ss_pred             hcCCCCCcEEEEeeccCcccC--c-----ccccccccEEEEEeccccccCCCCccccceEEEecCCccc----hhhhhhh
Q 041360          381 LKGLSKLTTLEIQVRDAQILP--Q-----DLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVS----TLLENYG  449 (561)
Q Consensus       381 l~~l~~L~~L~l~~~~~~~~~--~-----~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~----~~~~~~~  449 (561)
                      +..-.+|+.+.+..|.+..-.  .     ...+++|+.|++                       .+++.    +......
T Consensus       181 l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDl-----------------------qDNtft~~gS~~La~a  237 (388)
T COG5238         181 LESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDL-----------------------QDNTFTLEGSRYLADA  237 (388)
T ss_pred             HHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeec-----------------------cccchhhhhHHHHHHH
Confidence            333345555566555543110  0     013344554444                       22221    1122222


Q ss_pred             HHHhhccccceeecccc----CcccccccccCCCCCCCccEEEEecCCccchhhcc--cCcccCCcCcccccccccccc
Q 041360          450 MKMLLKEAEEIHLNELK----GVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGS--VGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       450 ~~~ll~~L~~L~l~~~~----~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~--~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      +..+ +.|..|++.+|-    +.+.+...|. ..-+|+|..|...+...-..+...  ...+..+++|-|..|.+.+..
T Consensus       238 l~~W-~~lrEL~lnDClls~~G~~~v~~~f~-e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr  314 (388)
T COG5238         238 LCEW-NLLRELRLNDCLLSNEGVKSVLRRFN-EKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNR  314 (388)
T ss_pred             hccc-chhhhccccchhhccccHHHHHHHhh-hhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCc
Confidence            2333 566777777763    3333333332 334778888877764322222211  112366788888888887654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.67  E-value=0.00011  Score=67.64  Aligned_cols=80  Identities=25%  Similarity=0.264  Sum_probs=64.5

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC---cccccCCCCCc
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD---IAIVGQLKKLE  319 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~  319 (561)
                      ++.+.+.|++.||+  +..+.  +..+|+.|.||.|+-|.|+++-+ +..+.+|+.|.|+.|.|..   ...+.++++|+
T Consensus        17 dl~~vkKLNcwg~~--L~DIs--ic~kMp~lEVLsLSvNkIssL~p-l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr   91 (388)
T KOG2123|consen   17 DLENVKKLNCWGCG--LDDIS--ICEKMPLLEVLSLSVNKISSLAP-LQRCTRLKELYLRKNCIESLDELEYLKNLPSLR   91 (388)
T ss_pred             HHHHhhhhcccCCC--ccHHH--HHHhcccceeEEeeccccccchh-HHHHHHHHHHHHHhcccccHHHHHHHhcCchhh
Confidence            35567778888887  55553  35799999999999999988844 7889999999999998877   57788899999


Q ss_pred             EEEccCCc
Q 041360          320 ILSFRDSY  327 (561)
Q Consensus       320 ~L~l~~~~  327 (561)
                      +|-|..|.
T Consensus        92 ~LWL~ENP   99 (388)
T KOG2123|consen   92 TLWLDENP   99 (388)
T ss_pred             hHhhccCC
Confidence            99887773

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

Probab=96.48  E-value=0.0012  Score=60.64  Aligned_cols=83  Identities=25%  Similarity=0.378  Sum_probs=48.7

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC--CCCC-CchhhcCCCCCcEEEeCCCCCCC---cccccCCCC
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV--RFSS-LPSSLGRLFNLQTLCLGGCRLKD---IAIVGQLKK  317 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~--~i~~-lp~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~  317 (561)
                      +..|+.|.+.++.  ...+..  |..|++|+.|.++.|  .+.. ++...-.+++|++|++++|+++.   ...+.++.+
T Consensus        42 ~~~le~ls~~n~g--ltt~~~--~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~n  117 (260)
T KOG2739|consen   42 FVELELLSVINVG--LTTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELEN  117 (260)
T ss_pred             ccchhhhhhhccc--eeeccc--CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcc
Confidence            4444444444443  323222  356677777777777  3332 54445555777777777777654   345556667


Q ss_pred             CcEEEccCCcCcc
Q 041360          318 LEILSFRDSYIEE  330 (561)
Q Consensus       318 L~~L~l~~~~~~~  330 (561)
                      |..|++.+|....
T Consensus       118 L~~Ldl~n~~~~~  130 (260)
T KOG2739|consen  118 LKSLDLFNCSVTN  130 (260)
T ss_pred             hhhhhcccCCccc
Confidence            7777777775443

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

Probab=96.25  E-value=0.0025  Score=58.66  Aligned_cols=109  Identities=26%  Similarity=0.226  Sum_probs=76.2

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCC-CCccccHHHHcCCCCccEEEecCCCCCCC--chhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGY-GSMQISDLFFEGTEEVKVLSLTGVRFSSL--PSSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~-~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l--p~~i~~L~~L~~L  299 (561)
                      ..+..+++.+..+..+.....+++|+.|.++.+.. ....++... ..+++|++|++++|.+.-+  -..+..+.+|..|
T Consensus        43 ~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~-e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~L  121 (260)
T KOG2739|consen   43 VELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLA-EKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSL  121 (260)
T ss_pred             cchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehh-hhCCceeEEeecCCccccccccchhhhhcchhhh
Confidence            45667777776666665555799999999999831 233333333 5679999999999987642  1235778899999


Q ss_pred             EeCCCCCCC---c--ccccCCCCCcEEEccCCcCcccC
Q 041360          300 CLGGCRLKD---I--AIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       300 ~l~~~~l~~---p--~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      ++..|....   .  ..+..+++|..||-....-.+.|
T Consensus       122 dl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~~~Ea~  159 (260)
T KOG2739|consen  122 DLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVDGEEAP  159 (260)
T ss_pred             hcccCCccccccHHHHHHHHhhhhccccccccCCcccc
Confidence            999998544   2  45667888888877665444444

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.21  E-value=0.0024  Score=56.40  Aligned_cols=88  Identities=15%  Similarity=0.111  Sum_probs=64.2

Q ss_pred             cceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCc
Q 041360          430 SRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKV  509 (561)
Q Consensus       430 ~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~  509 (561)
                      .....++-+++.+.......+..+ ++++.|.+.+|..+.+++.+.- .+.+++|+.|+|++|+++++-.-    .....
T Consensus       101 ~~IeaVDAsds~I~~eGle~L~~l-~~i~~l~l~~ck~~dD~~L~~l-~~~~~~L~~L~lsgC~rIT~~GL----~~L~~  174 (221)
T KOG3864|consen  101 VKIEAVDASDSSIMYEGLEHLRDL-RSIKSLSLANCKYFDDWCLERL-GGLAPSLQDLDLSGCPRITDGGL----ACLLK  174 (221)
T ss_pred             ceEEEEecCCchHHHHHHHHHhcc-chhhhheeccccchhhHHHHHh-cccccchheeeccCCCeechhHH----HHHHH
Confidence            445566666633222223344444 8889999999999988876654 45799999999999999986431    14578


Q ss_pred             Cccccccccccccc
Q 041360          510 FPLLESLSLKKASF  523 (561)
Q Consensus       510 ~~~L~~L~l~~c~~  523 (561)
                      |++|+.|.+.+.|.
T Consensus       175 lknLr~L~l~~l~~  188 (221)
T KOG3864|consen  175 LKNLRRLHLYDLPY  188 (221)
T ss_pred             hhhhHHHHhcCchh
Confidence            99999999999986

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

Probab=95.91  E-value=0.0029  Score=34.71  Aligned_cols=21  Identities=33%  Similarity=0.646  Sum_probs=12.7

Q ss_pred             CccEEEecCCCCCCCchhhcC
Q 041360          272 EVKVLSLTGVRFSSLPSSLGR  292 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~lp~~i~~  292 (561)
                      +|++||+++|.++.+|+++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666665543

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 ....

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

Probab=95.89  E-value=0.0015  Score=68.81  Aligned_cols=82  Identities=26%  Similarity=0.330  Sum_probs=39.7

Q ss_pred             CCCccEEEeeccCCCCcccc-HHHHcCCCCccEEEecCC-C-CCC----CchhhcCCCCCcEEEeCCCC-CCC--ccccc
Q 041360          244 CPNLELFLLFRKGYGSMQIS-DLFFEGTEEVKVLSLTGV-R-FSS----LPSSLGRLFNLQTLCLGGCR-LKD--IAIVG  313 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~-~~~~~~l~~Lr~L~l~~~-~-i~~----lp~~i~~L~~L~~L~l~~~~-l~~--p~~i~  313 (561)
                      ++.|+.|.+.++. .+.... ..+...+++|+.|+++++ . +..    .+.....+.+|+.|++++|. +++  ...+.
T Consensus       187 ~~~L~~l~l~~~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  187 CPLLKRLSLSGCS-KITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             CchhhHhhhcccc-cCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            5566666666654 333211 222356666777776652 1 111    11223344556666666665 444  23333


Q ss_pred             C-CCCCcEEEccCC
Q 041360          314 Q-LKKLEILSFRDS  326 (561)
Q Consensus       314 ~-L~~L~~L~l~~~  326 (561)
                      . +++|++|.+.+|
T Consensus       266 ~~c~~L~~L~l~~c  279 (482)
T KOG1947|consen  266 SRCPNLETLSLSNC  279 (482)
T ss_pred             hhCCCcceEccCCC
Confidence            2 555666655444

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

Probab=95.76  E-value=0.0034  Score=34.41  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=12.7

Q ss_pred             CCcEEEccCCcCcccChhhhc
Q 041360          317 KLEILSFRDSYIEELPHEIGQ  337 (561)
Q Consensus       317 ~L~~L~l~~~~~~~lp~~i~~  337 (561)
                      +|++||+++|++..+|.++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666655543

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 ....

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.29  E-value=0.0014  Score=60.61  Aligned_cols=108  Identities=20%  Similarity=0.287  Sum_probs=70.5

Q ss_pred             cCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCch
Q 041360          268 EGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPN  347 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~  347 (561)
                      +.+.+.+.|+..||++..+. -..+++.|++|.|+-|+|+....+..+++|++|+++.|.|..+-+ +.           
T Consensus        16 sdl~~vkKLNcwg~~L~DIs-ic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldE-L~-----------   82 (388)
T KOG2123|consen   16 SDLENVKKLNCWGCGLDDIS-ICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDE-LE-----------   82 (388)
T ss_pred             hHHHHhhhhcccCCCccHHH-HHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHH-HH-----------
Confidence            34567788888888876652 235778899999999988887778888899999998887765542 11           


Q ss_pred             hhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEE
Q 041360          348 LISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLE  391 (561)
Q Consensus       348 ~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  391 (561)
                      -+.++++|+.|.+..|......+   .+.....+.-+++|++|+
T Consensus        83 YLknlpsLr~LWL~ENPCc~~ag---~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   83 YLKNLPSLRTLWLDENPCCGEAG---QNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             HHhcCchhhhHhhccCCcccccc---hhHHHHHHHHcccchhcc
Confidence            14566777777777665432221   111223455555555554

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

Probab=94.64  E-value=0.044  Score=50.91  Aligned_cols=164  Identities=15%  Similarity=0.130  Sum_probs=90.1

Q ss_pred             CCceEEEccCCCccc-----cCCcc-CCCCccEEEeeccCC--CCccccHH------HHcCCCCccEEEecCCCCCC-Cc
Q 041360          223 KGPIAISLPHRDIQE-----LPERL-QCPNLELFLLFRKGY--GSMQISDL------FFEGTEEVKVLSLTGVRFSS-LP  287 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~-----l~~~~-~~~~L~~L~l~~~~~--~~~~~~~~------~~~~l~~Lr~L~l~~~~i~~-lp  287 (561)
                      ..+..+++++|.+.+     +...+ .-.+|+...++..--  .-..+++.      .+-+|++|+..+||+|.+.. .|
T Consensus        30 d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~  109 (388)
T COG5238          30 DELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFP  109 (388)
T ss_pred             cceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccc
Confidence            566777777777632     22222 445666666654310  01112211      13578888888888887644 33


Q ss_pred             ----hhhcCCCCCcEEEeCCCCCCC--ccc-------------ccCCCCCcEEEccCCcCcccChhhhccccccccCchh
Q 041360          288 ----SSLGRLFNLQTLCLGGCRLKD--IAI-------------VGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNL  348 (561)
Q Consensus       288 ----~~i~~L~~L~~L~l~~~~l~~--p~~-------------i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~  348 (561)
                          +-|++...|..|.+.+|.+.-  -..             ...-+.|++.+...|++..-|...+-..         
T Consensus       110 e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~---------  180 (388)
T COG5238         110 EELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAAL---------  180 (388)
T ss_pred             hHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHH---------
Confidence                346677788888888887543  122             2345678888888887776664432211         


Q ss_pred             hcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc
Q 041360          349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       349 i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                      +..=.+|.++.++.|.+.-.-.   .--....+..+++|+.|+++-|-.+
T Consensus       181 l~sh~~lk~vki~qNgIrpegv---~~L~~~gl~y~~~LevLDlqDNtft  227 (388)
T COG5238         181 LESHENLKEVKIQQNGIRPEGV---TMLAFLGLFYSHSLEVLDLQDNTFT  227 (388)
T ss_pred             HHhhcCceeEEeeecCcCcchh---HHHHHHHHHHhCcceeeeccccchh
Confidence            2222456666666664431110   0011233555667777777765443

>COG3903 Predicted ATPase [General function prediction only]

Probab=94.19  E-value=0.21  Score=49.55  Aligned_cols=186  Identities=21%  Similarity=0.216  Sum_probs=121.6

Q ss_pred             EEeeccchhhhcccCCcceEecCCCCHH-HHHHHHHHHhC----CCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCC
Q 041360            2 ILTSRNRDLLERDMNSQKNFLIEVLSKE-EALQLFENILG----DSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSK   76 (561)
Q Consensus         2 lvTTR~~~va~~~~~~~~~~~l~~L~~~-~a~~Lf~~~~~----~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~   76 (561)
                      +.|+|....    ......+.+.+|+.- ++.++|.-.+.    ...........+..|.++..|.|+||..+++..+..
T Consensus       121 ~atsre~~l----~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl  196 (414)
T COG3903         121 LATSREAIL----VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSL  196 (414)
T ss_pred             HHHhHhhhc----ccccccccCCccccCCchhHHHHHHHHHhccceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhc
Confidence            345555433    344567888888865 79999988874    333344446788999999999999999999999977


Q ss_pred             CHHHHHHHHHH----HhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCcccc
Q 041360           77 SLDIWKDALSQ----LRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKN  152 (561)
Q Consensus        77 ~~~~w~~~~~~----l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~  152 (561)
                      ...+.-..++.    +... .+......+..+..+.+||.-|... .+.-|--++.|...+....    ..|.+-|-.  
T Consensus       197 ~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgw-e~~~~~rLa~~~g~f~~~l----~~~~a~g~~--  268 (414)
T COG3903         197 SPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGW-ERALFGRLAVFVGGFDLGL----ALAVAAGAD--  268 (414)
T ss_pred             CHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhH-HHHHhcchhhhhhhhcccH----HHHHhcCCc--
Confidence            55554433332    2111 2222234778899999999999987 8999999999987654442    234443321  


Q ss_pred             cccHHHHHHHHHHHHHHHHHcCccccc--CCCCceehhHHHHHHHHHHhhcC
Q 041360          153 VYTLEEARSRVHRLIDNLKSSCLLLDG--DGKDEVKMHDVIHVVAVSIATEE  202 (561)
Q Consensus       153 ~~~~~~~~~~~~~~i~~L~~~sll~~~--~~~~~~~mh~lv~~~~~~~~~~e  202 (561)
                         .+...-.....+..+++++++...  .....|+.-+.+|.|+.....+.
T Consensus       269 ---~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~  317 (414)
T COG3903         269 ---VDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRS  317 (414)
T ss_pred             ---cccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence               101111222344557888888533  33456777888888887776653

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

Probab=94.18  E-value=0.032  Score=28.28  Aligned_cols=16  Identities=25%  Similarity=0.557  Sum_probs=7.0

Q ss_pred             CCcEEEccCCcCcccC
Q 041360          317 KLEILSFRDSYIEELP  332 (561)
Q Consensus       317 ~L~~L~l~~~~~~~lp  332 (561)
                      +|++|++++|++..+|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4566666666555544

...

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

Probab=94.05  E-value=0.036  Score=28.12  Aligned_cols=16  Identities=38%  Similarity=0.742  Sum_probs=6.6

Q ss_pred             CccEEEecCCCCCCCc
Q 041360          272 EVKVLSLTGVRFSSLP  287 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~lp  287 (561)
                      +|+.|++++|.++.+|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555444

...

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

Probab=91.57  E-value=0.36  Score=40.27  Aligned_cols=78  Identities=15%  Similarity=0.266  Sum_probs=38.9

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC--cccccCCCCCc
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLE  319 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~  319 (561)
                      .+++|+.+.+.. .  +..++...|..+..|+.+.+.++ +..++. .+..+.+|+++.+.. .+..  ...+..+.+|+
T Consensus        10 ~~~~l~~i~~~~-~--~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~   84 (129)
T PF13306_consen   10 NCSNLESITFPN-T--IKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLK   84 (129)
T ss_dssp             T-TT--EEEETS-T----EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTEC
T ss_pred             CCCCCCEEEECC-C--eeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccc
Confidence            455666666653 2  45566666677777777777664 555543 455555677777754 3333  24555666777


Q ss_pred             EEEccC
Q 041360          320 ILSFRD  325 (561)
Q Consensus       320 ~L~l~~  325 (561)
                      .+++..
T Consensus        85 ~i~~~~   90 (129)
T PF13306_consen   85 NIDIPS   90 (129)
T ss_dssp             EEEETT
T ss_pred             ccccCc
Confidence            776644

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

Probab=90.88  E-value=0.23  Score=28.28  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=16.6

Q ss_pred             CCCCcEEEccCCcCcccChhh
Q 041360          315 LKKLEILSFRDSYIEELPHEI  335 (561)
Q Consensus       315 L~~L~~L~l~~~~~~~lp~~i  335 (561)
                      |.+|++|++++|.+..+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            467888888888888888764

>smart00370 LRR Leucine-rich repeats, outliers

Probab=90.88  E-value=0.23  Score=28.28  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=16.6

Q ss_pred             CCCCcEEEccCCcCcccChhh
Q 041360          315 LKKLEILSFRDSYIEELPHEI  335 (561)
Q Consensus       315 L~~L~~L~l~~~~~~~lp~~i  335 (561)
                      |.+|++|++++|.+..+|.++
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            467888888888888888764

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=90.36  E-value=8.7  Score=38.12  Aligned_cols=136  Identities=11%  Similarity=0.073  Sum_probs=78.4

Q ss_pred             cceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCC
Q 041360           18 QKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREID   97 (561)
Q Consensus        18 ~~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~~w~~~~~~l~~~~~~~~~   97 (561)
                      ...+++++++.++..+++.+.+......-+ ++.+..|++.|+|.|-.+..+...+     ..|....+    .  ..+.
T Consensus       172 ~~~~~l~~~~~~e~~~il~~~~~~~~~~~~-~~~~~~ia~~~~G~pR~a~~~l~~~-----~~~a~~~~----~--~~I~  239 (328)
T PRK00080        172 GIVQRLEFYTVEELEKIVKRSARILGVEID-EEGALEIARRSRGTPRIANRLLRRV-----RDFAQVKG----D--GVIT  239 (328)
T ss_pred             CeeeecCCCCHHHHHHHHHHHHHHcCCCcC-HHHHHHHHHHcCCCchHHHHHHHHH-----HHHHHHcC----C--CCCC
Confidence            357899999999999999999863322222 4779999999999995444444322     12221110    0  0110


Q ss_pred             -CchhhHHHHHHHHHHhcCChHHHHHHH-hhcccCCCcccCHHHHHHHHhhcCcccccccHHHHHHHHHHHHH-HHHHcC
Q 041360           98 -GMDKNVYTSIELSYNLLASKEAKSLFR-LCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLID-NLKSSC  174 (561)
Q Consensus        98 -~~~~~~~~~l~~sy~~L~~~~~k~cfl-~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~~~~~~~~~~~~i~-~L~~~s  174 (561)
                       ..-......+...+..|++. .+..+. ....|+.+ .+..+.+....-        .+...++    +.++ .|++.+
T Consensus       240 ~~~v~~~l~~~~~~~~~l~~~-~~~~l~~~~~~~~~~-~~~~~~~a~~lg--------~~~~~~~----~~~e~~Li~~~  305 (328)
T PRK00080        240 KEIADKALDMLGVDELGLDEM-DRKYLRTIIEKFGGG-PVGLDTLAAALG--------EERDTIE----DVYEPYLIQQG  305 (328)
T ss_pred             HHHHHHHHHHhCCCcCCCCHH-HHHHHHHHHHHcCCC-ceeHHHHHHHHC--------CCcchHH----HHhhHHHHHcC
Confidence             11222334445556777765 566654 55666655 566666654431        1122222    3455 688899


Q ss_pred             ccccc
Q 041360          175 LLLDG  179 (561)
Q Consensus       175 ll~~~  179 (561)
                      +++..
T Consensus       306 li~~~  310 (328)
T PRK00080        306 FIQRT  310 (328)
T ss_pred             CcccC
Confidence            99754

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=90.28  E-value=8.9  Score=37.53  Aligned_cols=136  Identities=15%  Similarity=0.121  Sum_probs=74.2

Q ss_pred             cceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-
Q 041360           18 QKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREI-   96 (561)
Q Consensus        18 ~~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~~w~~~~~~l~~~~~~~~-   96 (561)
                      ...+++++++.++..+++.+.+......-+ ++.+..|++.|+|.|-.+..++..+       |.... .....   .+ 
T Consensus       151 ~~~~~l~~l~~~e~~~il~~~~~~~~~~~~-~~al~~ia~~~~G~pR~~~~ll~~~-------~~~a~-~~~~~---~it  218 (305)
T TIGR00635       151 GIILRLEFYTVEELAEIVSRSAGLLNVEIE-PEAALEIARRSRGTPRIANRLLRRV-------RDFAQ-VRGQK---IIN  218 (305)
T ss_pred             ceEEEeCCCCHHHHHHHHHHHHHHhCCCcC-HHHHHHHHHHhCCCcchHHHHHHHH-------HHHHH-HcCCC---CcC
Confidence            357899999999999999998863222212 5778899999999996655444432       11110 00000   00 


Q ss_pred             CCchhhHHHHHHHHHHhcCChHHHHHHH-hhcccCCCcccCHHHHHHHHhhcCcccccccHHHHHHHHHHHHH-HHHHcC
Q 041360           97 DGMDKNVYTSIELSYNLLASKEAKSLFR-LCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLID-NLKSSC  174 (561)
Q Consensus        97 ~~~~~~~~~~l~~sy~~L~~~~~k~cfl-~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~~~~~~~~~~~~i~-~L~~~s  174 (561)
                      ...-......+..+|..++.+ .+..+. ..+.+..+ .+....+....   |.     +..    .....++ .|++++
T Consensus       219 ~~~v~~~l~~l~~~~~~l~~~-~~~~L~al~~~~~~~-~~~~~~ia~~l---g~-----~~~----~~~~~~e~~Li~~~  284 (305)
T TIGR00635       219 RDIALKALEMLMIDELGLDEI-DRKLLSVLIEQFQGG-PVGLKTLAAAL---GE-----DAD----TIEDVYEPYLLQIG  284 (305)
T ss_pred             HHHHHHHHHHhCCCCCCCCHH-HHHHHHHHHHHhCCC-cccHHHHHHHh---CC-----Ccc----hHHHhhhHHHHHcC
Confidence            001111222234456677765 555444 44555433 45555544432   11     112    2233566 588999


Q ss_pred             ccccc
Q 041360          175 LLLDG  179 (561)
Q Consensus       175 ll~~~  179 (561)
                      +++..
T Consensus       285 li~~~  289 (305)
T TIGR00635       285 FLQRT  289 (305)
T ss_pred             CcccC
Confidence            99754

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.94  E-value=0.048  Score=48.46  Aligned_cols=69  Identities=14%  Similarity=0.027  Sum_probs=51.4

Q ss_pred             CCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccccccCCCCCCCCCCCCcccCCCccccc
Q 041360          478 GEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTSLGF  549 (561)
Q Consensus       478 ~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~~~~~~~~~~~~l~~L~~L~i~~c~~l  549 (561)
                      .+.+++++.|.+.+|..+.+|.-..   -.+..|+|+.|+|++||.-...|...+..|++|+.|.+..-+..
T Consensus       121 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  121 LRDLRSIKSLSLANCKYFDDWCLER---LGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYV  189 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHH---hcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhh
Confidence            4568999999999999999886332   22488999999999999811123334677889999888776643

>smart00370 LRR Leucine-rich repeats, outliers

Probab=89.83  E-value=0.32  Score=27.63  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=14.1

Q ss_pred             CCCccEEEecCCCCCCCchhh
Q 041360          270 TEEVKVLSLTGVRFSSLPSSL  290 (561)
Q Consensus       270 l~~Lr~L~l~~~~i~~lp~~i  290 (561)
                      +.+|++|+|++|.++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777776643

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

Probab=89.83  E-value=0.32  Score=27.63  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=14.1

Q ss_pred             CCCccEEEecCCCCCCCchhh
Q 041360          270 TEEVKVLSLTGVRFSSLPSSL  290 (561)
Q Consensus       270 l~~Lr~L~l~~~~i~~lp~~i  290 (561)
                      +.+|++|+|++|.++.+|...
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777776643

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

Probab=88.09  E-value=2  Score=35.68  Aligned_cols=102  Identities=14%  Similarity=0.288  Sum_probs=58.2

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .+++.+.+.. .+..++...  .+++|+.+.+...   +..++...|.++..|+.+.+.+ .+..++. .+..+.+|+.+
T Consensus        12 ~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~---~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i   86 (129)
T PF13306_consen   12 SNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN---LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNI   86 (129)
T ss_dssp             TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST---TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEE
T ss_pred             CCCCEEEECC-CeeEeChhhccccccccccccccc---ccccceeeeecccccccccccc-ccccccccccccccccccc
Confidence            3577777764 566666654  6778999998663   6677777789998999999976 6666654 55668999999


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCcccC
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      .+..+ +..  ...+.+. +|+.+.+.. .+..++
T Consensus        87 ~~~~~-~~~i~~~~f~~~-~l~~i~~~~-~~~~i~  118 (129)
T PF13306_consen   87 DIPSN-ITEIGSSSFSNC-NLKEINIPS-NITKIE  118 (129)
T ss_dssp             EETTT--BEEHTTTTTT--T--EEE-TT-B-SS--
T ss_pred             ccCcc-ccEEchhhhcCC-CceEEEECC-CccEEC
Confidence            99764 554  4667776 888888765 444443

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

Probab=87.64  E-value=0.2  Score=52.75  Aligned_cols=85  Identities=29%  Similarity=0.380  Sum_probs=59.1

Q ss_pred             CCCCccEEEeeccCCCCcccc---HHHHcCCCCccEEEecCCC-CCCC-chhhc-CCCCCcEEEeCCCC-CCC--c-ccc
Q 041360          243 QCPNLELFLLFRKGYGSMQIS---DLFFEGTEEVKVLSLTGVR-FSSL-PSSLG-RLFNLQTLCLGGCR-LKD--I-AIV  312 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~---~~~~~~l~~Lr~L~l~~~~-i~~l-p~~i~-~L~~L~~L~l~~~~-l~~--p-~~i  312 (561)
                      .+++|+.|+++++.......+   ......+++|+.|+++++. ++.. -..+. .+++|++|.+.+|. ++.  . ...
T Consensus       212 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~  291 (482)
T KOG1947|consen  212 KCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIA  291 (482)
T ss_pred             hCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHH
Confidence            789999999987310122111   2234677999999999987 5442 22333 37899999999898 666  3 555


Q ss_pred             cCCCCCcEEEccCCc
Q 041360          313 GQLKKLEILSFRDSY  327 (561)
Q Consensus       313 ~~L~~L~~L~l~~~~  327 (561)
                      .++++|++|++++|.
T Consensus       292 ~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  292 ERCPSLRELDLSGCH  306 (482)
T ss_pred             HhcCcccEEeeecCc
Confidence            678889999999884

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

Probab=85.84  E-value=0.029  Score=50.81  Aligned_cols=79  Identities=10%  Similarity=-0.032  Sum_probs=39.1

Q ss_pred             CceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+..|+++.++.-.+...+ .+..+..|+++.+.  +..+|.++ ++++.++.+++..|..+..|.+.+.+++++|+++.
T Consensus        43 r~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq--~~~~~~d~-~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~k  119 (326)
T KOG0473|consen   43 RVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQ--IKFLPKDA-KQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQK  119 (326)
T ss_pred             eeeeehhhhhHHHhhccchHHHHHHHHHhccHhh--HhhChhhH-HHHHHHHHHHhhccchhhCCccccccCCcchhhhc
Confidence            3444444444443333322 23344444555443  44445443 55555555555555555555555555555555555


Q ss_pred             CCC
Q 041360          303 GCR  305 (561)
Q Consensus       303 ~~~  305 (561)
                      ++.
T Consensus       120 ~~~  122 (326)
T KOG0473|consen  120 KTE  122 (326)
T ss_pred             cCc
Confidence            554

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

Probab=84.02  E-value=0.032  Score=50.52  Aligned_cols=83  Identities=7%  Similarity=-0.030  Sum_probs=69.8

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEIL  321 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L  321 (561)
                      .+...++|+++.+.  ...+...+ +.+..|..||++.+.+..+|...+.+..++.+++..|..+. |.+.+.+++++.+
T Consensus        40 ~~kr~tvld~~s~r--~vn~~~n~-s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   40 SFKRVTVLDLSSNR--LVNLGKNF-SILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKN  116 (326)
T ss_pred             ccceeeeehhhhhH--HHhhccch-HHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchh
Confidence            56778888888886  55555554 77888999999999999999999999999999988888888 9999999999999


Q ss_pred             EccCCcC
Q 041360          322 SFRDSYI  328 (561)
Q Consensus       322 ~l~~~~~  328 (561)
                      +..+|.+
T Consensus       117 e~k~~~~  123 (326)
T KOG0473|consen  117 EQKKTEF  123 (326)
T ss_pred             hhccCcc
Confidence            9988763

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=81.71  E-value=8.1  Score=36.95  Aligned_cols=70  Identities=16%  Similarity=0.241  Sum_probs=50.5

Q ss_pred             ceEecCCCCHHHHHHHHHHHhC--CCC-CCCCchHHHHHHHHHcCCChHHHHHHHHHHc------CC---CHHHHHHHHH
Q 041360           19 KNFLIEVLSKEEALQLFENILG--DST-KTSTIQPIADEIVKRCGGLPVAVTTVANALK------SK---SLDIWKDALS   86 (561)
Q Consensus        19 ~~~~l~~L~~~~a~~Lf~~~~~--~~~-~~~~~~~~~~~i~~~c~glPLai~~~g~~L~------~~---~~~~w~~~~~   86 (561)
                      ..+++++++.+|..+++...+.  +.. ...=..+..+.|++.++|.|..|..++..+-      ++   +.+.++.+..
T Consensus       185 ~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~  264 (269)
T TIGR03015       185 ASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIA  264 (269)
T ss_pred             eeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence            4678999999999999988764  111 1112257899999999999999999888772      11   5555655555


Q ss_pred             HH
Q 041360           87 QL   88 (561)
Q Consensus        87 ~l   88 (561)
                      .+
T Consensus       265 ~~  266 (269)
T TIGR03015       265 EI  266 (269)
T ss_pred             Hh
Confidence            43

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

---

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	561
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-30
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-20
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-15
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-20
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	5e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-08
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-08
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	9e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	9e-07
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-06
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-07
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	6e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-06
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	7e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	9e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-04
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-04

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  124 bits (312), Expect = 2e-30
 Identities = 27/211 (12%), Positives = 70/211 (33%), Gaps = 10/211 (4%)

Query: 2   ILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGG 61
           ++T+R+ ++      + +   +  L  +E     E            + + ++ ++   G
Sbjct: 269 LVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSG 328

Query: 62  LPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSI----ELSYNLLASK 117
            P  +     + + K+ +      ++L S     ++ +    Y S+    +    +L+ +
Sbjct: 329 NPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDE 388

Query: 118 EAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLLL 177
           + +S      +   G  I V                  L++    V   +  L     LL
Sbjct: 389 D-RSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDD---EVADRLKRLSKRGALL 444

Query: 178 DGD--GKDEVKMHDVIHVVAVSIATEEQMFN 206
            G        K+  +IH+    +   + + N
Sbjct: 445 SGKRMPVLTFKIDHIIHMFLKHVVDAQTIAN 475

>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 = 95.3 bits (236), Expect = 1e-20
 Identities = 69/402 (17%), Positives = 130/402 (32%), Gaps = 113/402 (28%)

Query: 1   MILTSRNRDLLER-DMNSQKNFLIE----VLSKEEALQLFENILGDSTKTSTIQPIADEI 55
           ++LT+R + + +     +  +  ++     L+ +E   L    L    +   +       
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD--CRPQDLPREV--- 322

Query: 56  VKRCGGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLA 115
                  P  ++ +A       L  W       +  N       DK + T IE S N+L 
Sbjct: 323 ---LTTNPRRLSIIA-ESIRDGLATWD----NWKHVN------CDK-LTTIIESSLNVLE 367

Query: 116 SKEAKSLFRLCGLYNEGHAI--QVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSS 173
             E + +F    ++     I   + SL+     W         +  +S V  +++ L   
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLI-----WF--------DVIKSDVMVVVNKLHKY 414

Query: 174 CLLLDGDGKDE-VKMHDVIHVVAVSIATEEQMFNIPNVADVEKKMEE----TKQKGPIAI 228
             L++   K+  + +   I++        E    + N   + + + +     K      +
Sbjct: 415 S-LVEKQPKESTISIPS-IYL--------ELKVKLENEYALHRSIVDHYNIPKTFDSDDL 464

Query: 229 SLPHRD---IQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFS 284
             P+ D      +   L    + E   LFR  +      D  F    E K      +R  
Sbjct: 465 IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-----LDFRF---LEQK------IRHD 510

Query: 285 SLP-SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYI-------EELPHEIG 336
           S   ++ G + N                + QLK  +       YI       E L + I 
Sbjct: 511 STAWNASGSILNT---------------LQQLKFYK------PYICDNDPKYERLVNAI- 548

Query: 337 QLTRLVVIAPNLI-SKFSQL--------EELYMGDSFSQWDK 369
            L  L  I  NLI SK++ L        +E    ++  Q  +
Sbjct: 549 -LDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

>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 = 77.2 bits (189), Expect = 7e-15
 Identities = 73/517 (14%), Positives = 153/517 (29%), Gaps = 136/517 (26%)

Query: 6   RNRDLLE-------RDMNSQ--KNFLIEVLSKEEALQLFENILGDSTKTSTIQPIAD--- 53
           + +D+L         + + +  ++    +LSKEE     ++I+      S    +     
Sbjct: 17  QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE----IDHIIMSKDAVSGTLRLFWTLL 72

Query: 54  ----EIVKR-CGGL-----PVAVTTVANALKSKSLD--IWKDALSQLRSSNPREIDGMDK 101
               E+V++    +        ++ +    +  S+   ++ +   +L + N         
Sbjct: 73  SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY--- 129

Query: 102 NVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARS 161
           NV + ++    L   ++A  L  L         + +      G+  G  K    L+    
Sbjct: 130 NV-SRLQPYLKL---RQA--LLEL----RPAKNVLI-----DGVL-GSGKTWVALDVCL- 172

Query: 162 RVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVAVS--IATEEQMFNIPNVADVEKKMEE 219
                               K + KM   I  + +    + E  +  +  +         
Sbjct: 173 ------------------SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214

Query: 220 TKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYG----------SMQISDLFFEG 269
           ++      I L    IQ    R         LL  K Y           + +  + F   
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRR---------LLKSKPYENCLLVLLNVQNAKAWNAF--- 262

Query: 270 TEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLK------KLEILS- 322
               K+L  T  RF  +           T  L       I++              +L  
Sbjct: 263 NLSCKILLTT--RFKQV-----------TDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309

Query: 323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL- 381
           + D   ++LP E+          P  +S  ++     + D  + WD  +  +   L  + 
Sbjct: 310 YLDCRPQDLPREVLT------TNPRRLSIIAES----IRDGLATWDNWKHVNCDKLTTII 359

Query: 382 -KGLSKLTTLEIQVR--DAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGL 438
              L+ L   E +       + P     +      +     W  + V      +V ++ L
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPS-AHIPTILLSL----IW--FDVIKSDVMVV-VNKL 411

Query: 439 ENVSTLLENYGMKMLLKEAEEIHLNELKGVQN--AVH 473
              S + +    K        I+L     ++N  A+H
Sbjct: 412 HKYSLVEKQP--KESTISIPSIYLELKVKLENEYALH 446

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 93.4 bits (232), Expect = 3e-20
 Identities = 37/208 (17%), Positives = 78/208 (37%), Gaps = 23/208 (11%)

Query: 2   ILTSRNRDLLERDMNSQKN-FLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCG 60
           +LT+R++ + +  M  +    +   L KE+ L++    +    K + +   A  I+K C 
Sbjct: 261 LLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM--KKADLPEQAHSIIKECK 318

Query: 61  GLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSI----ELSYNLLAS 116
           G P+ V+ +   L+    + W+  L QL++   + I       Y ++     +S  +L  
Sbjct: 319 GSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE 377

Query: 117 KEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCLL 176
            + K  +    +  +   +    L      W        +E     V  ++    +  LL
Sbjct: 378 -DIKDYYTDLSILQKDVKVPTKVLCIL---WD-------MET--EEVEDILQEFVNKSLL 424

Query: 177 -LDGDGKDE-VKMHDVIHVVAVSIATEE 202
             D +GK     +HD+           +
Sbjct: 425 FCDRNGKSFRYYLHDLQVDFLTEKNCSQ 452

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

 Score = 64.6 bits (158), Expect = 2e-11
 Identities = 25/172 (14%), Positives = 58/172 (33%), Gaps = 20/172 (11%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRL- 293
           ++   + L            + + + + ++         ++ + TG    +    L    
Sbjct: 25  LRPYHDVLSQWQRHYNADRNRWHSAWRQANS-----NNPQIETRTGRALKATADLLEDAT 79

Query: 294 -FNLQTLCLGGCRLKDI-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA------ 345
                 L L    L        +L  L+ ++   + + ELP  + Q   L  +       
Sbjct: 80  QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPL 139

Query: 346 ---PNLISKFSQLEELYMGDSFSQWDKV--EGGSNASLAELKGLSKLTTLEI 392
              P  I+  ++L EL +  +  +  ++     S  +  E +GL  L +L +
Sbjct: 140 RALPASIASLNRLRELSI-RACPELTELPEPLASTDASGEHQGLVNLQSLRL 190

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

 Score = 58.0 bits (141), Expect = 2e-09
 Identities = 25/110 (22%), Positives = 43/110 (39%), Gaps = 21/110 (19%)

Query: 274 KVLSLTGV-RFSSLPSSLGR---------LFNLQTLCLGGCRLKDI-AIVGQLKKLEILS 322
           + LS+      + LP  L           L NLQ+L L    ++ + A +  L+ L+ L 
Sbjct: 153 RELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLK 212

Query: 323 FRDSYIEELPHEIGQLTRLVVIA----------PNLISKFSQLEELYMGD 362
            R+S +  L   I  L +L  +           P +    + L+ L + D
Sbjct: 213 IRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD 262

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

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 9/102 (8%), Positives = 24/102 (23%), Gaps = 14/102 (13%)

Query: 274 KVLSLTG-VRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELP 332
           + L   G          L +                          +I +     ++   
Sbjct: 15  ENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHS--AWRQANSNNPQIETRTGRALKATA 72

Query: 333 HEIGQLTRLVVIA-----------PNLISKFSQLEELYMGDS 363
             +   T+   +A           P+   + S L+ + +  +
Sbjct: 73  DLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA 114

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 64.8 bits (158), Expect = 5e-11
 Identities = 33/199 (16%), Positives = 77/199 (38%), Gaps = 23/199 (11%)

Query: 1   MILTSRNRDLLERDMNSQKNFLIEV-LSKEEALQLFENILGDSTKTSTIQPIADEIVKRC 59
           ++LT+R++ + +  M  +    +E  L +E+ L++    +    K   +   A  I+K C
Sbjct: 260 ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVN--MKKEDLPAEAHSIIKEC 317

Query: 60  GGLPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMD----KNVYTSIELSYNLLA 115
            G P+ V+ +   L+    + W   L QL++   + I        + +  ++ +S  +L 
Sbjct: 318 KGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML- 375

Query: 116 SKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSSCL 175
            ++ K  +    +  +   +    L                +     V  ++    +  L
Sbjct: 376 REDIKDYYTDLSILQKDVKVPTKVLCVL------------WDLETEEVEDILQEFVNKSL 423

Query: 176 L-LDGDGKDEV-KMHDVIH 192
           L  + +GK     +HD+  
Sbjct: 424 LFCNRNGKSFCYYLHDLQV 442

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 58.3 bits (142), Expect = 2e-09
 Identities = 28/177 (15%), Positives = 59/177 (33%), Gaps = 31/177 (17%)

Query: 228 ISLPHRDIQELPERLQCPNLE-LFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSS 285
           + +    +  +       NLE L L         QI+D+       ++  L +   + + 
Sbjct: 49  LVVAGEKVASIQGIEYLTNLEYLNL------NGNQITDISPLSNLVKLTNLYIGTNKITD 102

Query: 286 LPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV-- 343
           + + L  L NL+ L L    + DI+ +  L K+  L+   ++       +  +T L    
Sbjct: 103 ISA-LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLT 161

Query: 344 IAPNLISKFS------QLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEI 392
           +  + +   +       L  L +              N    ++ L  L+ L     
Sbjct: 162 VTESKVKDVTPIANLTDLYSLSLNY------------NQIEDISPLASLTSLHYFTA 206

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 54.1 bits (131), Expect = 5e-08
 Identities = 27/143 (18%), Positives = 55/143 (38%), Gaps = 25/143 (17%)

Query: 261 QISDLF-FEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
            I+ +F      E     L     + + +    L ++  L + G ++  I  +  L  LE
Sbjct: 11  PINQIFPDADLAEGIRAVLQKASVTDVVT-QEELESITKLVVAGEKVASIQGIEYLTNLE 69

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISKFS------QLEELYMGDSFSQWDKVE 371
            L+   + I ++   +  L +L    I  N I+  S       L ELY+ +         
Sbjct: 70  YLNLNGNQITDIS-PLSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNE--------- 119

Query: 372 GGSN--ASLAELKGLSKLTTLEI 392
              +  + ++ L  L+K+ +L +
Sbjct: 120 ---DNISDISPLANLTKMYSLNL 139

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 50.6 bits (122), Expect = 6e-07
 Identities = 24/138 (17%), Positives = 55/138 (39%), Gaps = 16/138 (11%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRL 293
           I ++        L    +     G+ +I+DL       ++  L +   + S + + +  L
Sbjct: 211 ITDITPVANMTRLNSLKI-----GNNKITDLSPLANLSQLTWLEIGTNQISDINA-VKDL 264

Query: 294 FNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEEL-PHEIGQLTRLVVI--APNLIS 350
             L+ L +G  ++ DI+++  L +L  L   ++ +       IG LT L  +  + N I+
Sbjct: 265 TKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHIT 324

Query: 351 KFS------QLEELYMGD 362
                    +++     +
Sbjct: 325 DIRPLASLSKMDSADFAN 342

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 49.8 bits (120), Expect = 1e-06
 Identities = 26/141 (18%), Positives = 55/141 (39%), Gaps = 24/141 (17%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           ++ D+       ++  LSL   +   + S L  L +L        ++ DI  V  + +L 
Sbjct: 166 KVKDVTPIANLTDLYSLSLNYNQIEDI-SPLASLTSLHYFTAYVNQITDITPVANMTRLN 224

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISKFS------QLEELYMGDSFSQWDKVE 371
            L   ++ I +L   +  L++L    I  N IS  +      +L+ L +           
Sbjct: 225 SLKIGNNKITDLS-PLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNV----------- 272

Query: 372 GGSNASLAELKGLSKLTTLEI 392
              +  ++++  L+ L+ L  
Sbjct: 273 --GSNQISDISVLNNLSQLNS 291

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 56.3 bits (135), Expect = 2e-08
 Identities = 40/169 (23%), Positives = 70/169 (41%), Gaps = 38/169 (22%)

Query: 228 ISLPHRDIQELPERLQCPNLE-LFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSS 285
           + L    + ++       NL  LFL         +I DL   +  +++K LSL     S 
Sbjct: 70  LFLNGNKLTDIKPLTNLKNLGWLFL------DENKIKDLSSLKDLKKLKSLSLEHNGISD 123

Query: 286 LPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA 345
           + + L  L  L++L LG  ++ DI ++ +L KL+ LS  D+ I ++              
Sbjct: 124 I-NGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVP------------ 170

Query: 346 PNLISKFSQLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEI 392
              ++  ++L+ LY+              N  + L  L GL  L  LE+
Sbjct: 171 ---LAGLTKLQNLYLSK------------NHISDLRALAGLKNLDVLEL 204

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 55.9 bits (134), Expect = 2e-08
 Identities = 48/229 (20%), Positives = 82/229 (35%), Gaps = 38/229 (16%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
            ++D         +  +        S+   +  L N+  L L G +L DI  +  LK L 
Sbjct: 32  SVTDAVTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGNKLTDIKPLTNLKNLG 90

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISK------FSQLEELYMGDSFSQWDKVE 371
            L   ++ I++L   +  L +L    +  N IS         QLE LY+G+         
Sbjct: 91  WLFLDENKIKDLS-SLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGN--------- 140

Query: 372 GGSN--ASLAELKGLSKLTTLEI---QVRDAQILPQDLVLVELQRYKICIGEAWRMWGVT 426
              N    +  L  L+KL TL +   Q+ D   L     L  L   K  I          
Sbjct: 141 ---NKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHI---------- 187

Query: 427 SEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHEL 475
           S++  L  L  L+ +    +    K +  ++  +  N +K    ++   
Sbjct: 188 SDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTP 236

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 18/114 (15%), Positives = 40/114 (35%), Gaps = 19/114 (16%)

Query: 288 SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV--IA 345
                        L    + D     +L  ++ +   +S I+ +   I  L  +    + 
Sbjct: 15  FPDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 73

Query: 346 PNLISKFS------QLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
            N ++          L  L++ ++     K++      L+ LK L KL +L ++
Sbjct: 74  GNKLTDIKPLTNLKNLGWLFLDEN-----KIK-----DLSSLKDLKKLKSLSLE 117

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

 Score = 56.4 bits (136), Expect = 2e-08
 Identities = 21/170 (12%), Positives = 49/170 (28%), Gaps = 15/170 (8%)

Query: 232 HRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLG 291
            +   +  +RL   +L L     +      I        ++ ++ +LT  R + +  ++ 
Sbjct: 388 KKMFLDYDQRLNLSDL-LQDAINRNPEMKPIKKDSRISLKDTQIGNLTN-RITFISKAIQ 445

Query: 292 RLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA------ 345
           RL  LQ +           I   +   +  S      E        L  L  +       
Sbjct: 446 RLTKLQIIYFANSPFTYDNI--AVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPN 503

Query: 346 ----PNLISKFSQLEELYMGD-SFSQWDKVEGGSNASLAELKGLSKLTTL 390
               P+ +    +L+ L +         +++        +     K+   
Sbjct: 504 MTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF 553

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

 Score = 51.0 bits (122), Expect = 7e-07
 Identities = 26/171 (15%), Positives = 58/171 (33%), Gaps = 34/171 (19%)

Query: 235 IQELPERL-QCPNLE-LFL-------LFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS 285
           + +LP+ L   P L+ L +         +      +++D    G + +++  +       
Sbjct: 504 MTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPK-IQIFYMGYNNLEE 562

Query: 286 LPSS--LGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV 343
            P+S  L ++  L  L     +++ +   G   KL  L    + IEE+P +    T    
Sbjct: 563 FPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFT---- 618

Query: 344 IAPNLISKFSQLEELYMGD-SFSQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
                     Q+E L                   ++   K +  + +++  
Sbjct: 619 ---------DQVEGLGFSHNKLK--------YIPNIFNAKSVYVMGSVDFS 652

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

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 23/165 (13%), Positives = 45/165 (27%), Gaps = 35/165 (21%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRFS 284
           I    R+I    +  +  N     L        +I       F     +  + L+    +
Sbjct: 656 IGSEGRNISCSMDDYKGINASTVTL-----SYNEIQKFPTELFATGSPISTIILSNNLMT 710

Query: 285 SLPS--------SLGRLFNLQTLCLGGCRLKDI---AIVGQLKKLEILSFRDSYIEELPH 333
           S+P         +    + L T+ L   +L  +        L  L  +    +     P 
Sbjct: 711 SIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPT 770

Query: 334 EIGQLTRLVVIA----------------PNLISKFSQLEELYMGD 362
           +    ++L                    P  I+    L +L +G 
Sbjct: 771 QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS 815

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

 Score = 45.6 bits (108), Expect = 4e-05
 Identities = 11/142 (7%), Positives = 38/142 (26%), Gaps = 25/142 (17%)

Query: 235 IQELPERL--QCPNLELFLLFRKGYGSMQISDL----FFEGTEEVKVLSLTGVRFSSLPS 288
           I+E+PE        +E            ++  +      +    +  +  +  +  S   
Sbjct: 607 IEEIPEDFCAFTDQVEGLGF-----SHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGR 661

Query: 289 SLG------RLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIEELPHEIGQLTR 340
           ++       +  N  T+ L    ++     +      +  +   ++ +  +P    +   
Sbjct: 662 NISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPK- 720

Query: 341 LVVIAPNLISKFSQLEELYMGD 362
                         L  + +  
Sbjct: 721 -----DGNYKNTYLLTTIDLRF 737

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 55.7 bits (135), Expect = 2e-08
 Identities = 35/141 (24%), Positives = 54/141 (38%), Gaps = 24/141 (17%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           ++SD+        ++ L  T  + S +   LG L NL  L L G +LKDI  +  L  L 
Sbjct: 188 KVSDISVLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLKDIGTLASLTNLT 246

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISKFS------QLEELYMGDSFSQWDKVE 371
            L   ++ I  L   +  LT+L    +  N IS  S       L  L +           
Sbjct: 247 DLDLANNQISNLA-PLSGLTKLTELKLGANQISNISPLAGLTALTNLEL----------- 294

Query: 372 GGSNASLAELKGLSKLTTLEI 392
             +   L ++  +S L  L  
Sbjct: 295 --NENQLEDISPISNLKNLTY 313

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 54.2 bits (131), Expect = 7e-08
 Identities = 29/157 (18%), Positives = 55/157 (35%), Gaps = 29/157 (18%)

Query: 258 GSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLK 316
           G   ++D       ++V  L    +   S+   +  L NL  +     +L DI  +  L 
Sbjct: 32  GKTNVTDTVSQTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLT 90

Query: 317 KLEILSFRDSYIEELPHEIGQLTRLVVIAPNL----------ISKFSQLEELYMGDSFSQ 366
           KL  +   ++ I ++   +  LT L  +   L          +   + L  L +      
Sbjct: 91  KLVDILMNNNQIADIT-PLANLTNLTGL--TLFNNQITDIDPLKNLTNLNRLEL------ 141

Query: 367 WDKVEGGSN--ASLAELKGLSKLTTLEIQVRDAQILP 401
                  SN  + ++ L GL+ L  L    +   + P
Sbjct: 142 ------SSNTISDISALSGLTSLQQLSFGNQVTDLKP 172

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 53.8 bits (130), Expect = 9e-08
 Identities = 37/177 (20%), Positives = 70/177 (39%), Gaps = 30/177 (16%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSL 286
           +SL    ++++       NL    L      + QIS+L    G  ++  L L   + S++
Sbjct: 226 LSLNGNQLKDIGTLASLTNLTDLDL-----ANNQISNLAPLSGLTKLTELKLGANQISNI 280

Query: 287 PSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVI-- 344
              L  L  L  L L   +L+DI+ +  LK L  L+   + I ++   +  LT+L  +  
Sbjct: 281 SP-LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFF 338

Query: 345 ------APNLISKFSQLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEIQ 393
                   + ++  + +  L  G             N  + L  L  L+++T L + 
Sbjct: 339 YNNKVSDVSSLANLTNINWLSAGH------------NQISDLTPLANLTRITQLGLN 383

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 50.3 bits (121), Expect = 9e-07
 Identities = 40/169 (23%), Positives = 72/169 (42%), Gaps = 31/169 (18%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRL 293
           I ++       NL    L      S  ISD+    G   ++ LS  G + + L   L  L
Sbjct: 124 ITDIDPLKNLTNLNRLEL-----SSNTISDISALSGLTSLQQLSF-GNQVTDL-KPLANL 176

Query: 294 FNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVI--------A 345
             L+ L +   ++ DI+++ +L  LE L   ++ I ++   +G LT L  +         
Sbjct: 177 TTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDIT-PLGILTNLDELSLNGNQLKD 235

Query: 346 PNLISKFSQLEELYMGDSFSQWDKVEGGSN--ASLAELKGLSKLTTLEI 392
              ++  + L +L + +            N  ++LA L GL+KLT L++
Sbjct: 236 IGTLASLTNLTDLDLAN------------NQISNLAPLSGLTKLTELKL 272

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 48.8 bits (117), Expect = 3e-06
 Identities = 25/135 (18%), Positives = 44/135 (32%), Gaps = 16/135 (11%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRL 293
           ++++       NL    L         ISD+       +++ L     + S + S L  L
Sbjct: 299 LEDISPISNLKNLTYLTL-----YFNNISDISPVSSLTKLQRLFFYNNKVSDVSS-LANL 352

Query: 294 FNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL---------VVI 344
            N+  L  G  ++ D+  +  L ++  L   D      P        +          +I
Sbjct: 353 TNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALI 412

Query: 345 APNLISKFSQLEELY 359
           AP  IS      E  
Sbjct: 413 APATISDGGSYTEPD 427

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 54.3 bits (131), Expect = 3e-08
 Identities = 27/156 (17%), Positives = 53/156 (33%), Gaps = 23/156 (14%)

Query: 259 SMQISDLF-FEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKK 317
              I+ +F          ++      +    +   L  + TL   G  +  I  V  L  
Sbjct: 6   PTAINVIFPDPALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGTGVTTIEGVQYLNN 64

Query: 318 LEILSFRDSYIEELPHEIGQLTRLVV--IAPNLISKFS------QLEELYMGD-SFSQWD 368
           L  L  +D+ I +L   +  LT++    ++ N +   S       ++ L +     +   
Sbjct: 65  LIGLELKDNQITDLA-PLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVT 123

Query: 369 KVEG---------GSNA--SLAELKGLSKLTTLEIQ 393
            + G           N   +++ L GL+ L  L I 
Sbjct: 124 PLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIG 159

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 17/100 (17%), Positives = 34/100 (34%), Gaps = 2/100 (2%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           Q+SDL       ++  L     + S + S L  L NL  + L   ++ D++ +     L 
Sbjct: 162 QVSDLTPLANLSKLTTLKADDNKISDI-SPLASLPNLIEVHLKNNQISDVSPLANTSNLF 220

Query: 320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELY 359
           I++  +  I   P        +  +             + 
Sbjct: 221 IVTLTNQTITNQPVFYNNNLVVPNVVKGPSGAPIAPATIS 260

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

 Score = 54.7 bits (132), Expect = 6e-08
 Identities = 17/179 (9%), Positives = 52/179 (29%), Gaps = 21/179 (11%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP 287
           +      +   P R    +L +            I        ++ + +       + + 
Sbjct: 143 MHYQKTFVDYDP-REDFSDL-IKDCINSDPQQKSIKKSSRITLKDTQ-IGQLSNNITFVS 199

Query: 288 SSLGRLFNLQTLCLGGCRL--KDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA 345
            ++ RL  L+   +G      ++I    + +  E         +    +   L  L  + 
Sbjct: 200 KAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQ----YKTEDLKWDNLKDLTDVE 255

Query: 346 ----------PNLISKFSQLEELYMGD-SFSQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
                     P  +    +++ + +        ++++     +LA+     K+  + I 
Sbjct: 256 VYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQ-ALADAPVGEKIQIIYIG 313

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

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 20/143 (13%), Positives = 46/143 (32%), Gaps = 31/143 (21%)

Query: 274 KVLSLTGVRFSSLP---------SSLGRLFNLQTLCLGGCRLKDIAI---VGQLKKLEIL 321
           +++++   R  S           +       +Q + +G   LK   +   + ++KKL +L
Sbjct: 276 QLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGML 335

Query: 322 SFRDSYIEELPHEIGQLTRLVV----------IAPNLISKFSQLEELYMGD-SFSQWDKV 370
               + +E      G   +L            I  N      Q+E L             
Sbjct: 336 ECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLK----- 390

Query: 371 EGGSNASLAELKGLSKLTTLEIQ 393
                 ++ + K +S ++ ++  
Sbjct: 391 ---YIPNIFDAKSVSVMSAIDFS 410

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

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 10/88 (11%), Positives = 27/88 (30%), Gaps = 8/88 (9%)

Query: 277 SLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIEELPHE 334
           S+ G  F  L  +  +  N+ ++ L   ++      +      L  ++   + + E+P  
Sbjct: 416 SVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKN 475

Query: 335 IGQLTRLVVIAPNLISKFSQLEELYMGD 362
             +                 L  + +  
Sbjct: 476 SLKD------ENENFKNTYLLTSIDLRF 497

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 53.6 bits (128), Expect = 1e-07
 Identities = 23/133 (17%), Positives = 48/133 (36%), Gaps = 9/133 (6%)

Query: 215 KKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEV 273
           K ++  +      +         + +        L L          ++ L   E    V
Sbjct: 412 KAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHL------AHKDLTVLCHLEQLLLV 465

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
             L L+  R  +LP +L  L  L+ L      L+++  V  L +L+ L   ++ +++   
Sbjct: 466 THLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAA 525

Query: 334 --EIGQLTRLVVI 344
              +    RLV++
Sbjct: 526 IQPLVSCPRLVLL 538

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

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 30/155 (19%), Positives = 55/155 (35%), Gaps = 15/155 (9%)

Query: 211 ADVEKKMEETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGT 270
           A V +KM      G   +++    +  LP+ L   ++   ++         ++ L     
Sbjct: 28  AAVVQKMRACLNNGNAVLNVGESGLTTLPDCL-PAHITTLVIPD-----NNLTSLPALPP 81

Query: 271 EEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEE 330
           E ++ L ++G + +SLP     L  L         L  +        L  L    + +  
Sbjct: 82  E-LRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPAL-----PSGLCKLWIFGNQLTS 135

Query: 331 LPHEIGQLTRLVVIAPNLIS---KFSQLEELYMGD 362
           LP     L  L V    L S     S+L +L+  +
Sbjct: 136 LPVLPPGLQELSVSDNQLASLPALPSELCKLWAYN 170

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

 Score = 45.7 bits (108), Expect = 3e-05
 Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 5/71 (7%)

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
           K L ++G R +SLP        L+ L + G RL  +        L  LS   + +  LP 
Sbjct: 224 KELIVSGNRLTSLPVLPS---ELKELMVSGNRLTSLP--MLPSGLLSLSVYRNQLTRLPE 278

Query: 334 EIGQLTRLVVI 344
            +  L+    +
Sbjct: 279 SLIHLSSETTV 289

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

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 21/95 (22%), Positives = 34/95 (35%), Gaps = 14/95 (14%)

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
           + LS++  + +SLP+       L  L     RL  +        L+ L    + +  LP 
Sbjct: 184 QELSVSDNQLASLPTLPS---ELYKLWAYNNRLTSLP--ALPSGLKELIVSGNRLTSLPV 238

Query: 334 EIGQLTRLVVIA------PNLISKFSQLEELYMGD 362
              +L  L+V        P L    S L  L +  
Sbjct: 239 LPSELKELMVSGNRLTSLPMLP---SGLLSLSVYR 270

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 50.3 bits (121), Expect = 2e-07
 Identities = 18/159 (11%), Positives = 49/159 (30%), Gaps = 26/159 (16%)

Query: 245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGC 304
              + +L      G    +++       +  ++L  +  + L + +    N++ L +   
Sbjct: 20  STFKAYL--NGLLGQSSTANITEAQMNSLTYITLANINVTDL-TGIEYAHNIKDLTINNI 76

Query: 305 RLKDIAIVGQLKKLEILSFRDSYI-EELPHEIGQLTRLVV----------IAPNLISKFS 353
              +   +  L  LE L      +  +    +  LT L +               I+   
Sbjct: 77  HATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLP 136

Query: 354 QLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEI 392
           ++  + +              N ++ ++  L  L  L+ 
Sbjct: 137 KVNSIDL------------SYNGAITDIMPLKTLPELKS 163

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 26/149 (17%), Positives = 54/149 (36%), Gaps = 28/149 (18%)

Query: 259 SMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAI--VGQL 315
           ++ ++DL   E    +K L++  +  ++  + +  L NL+ L + G  +    I  +  L
Sbjct: 53  NINVTDLTGIEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGL 111

Query: 316 KKLEILSFRDSYIEELPHE-IGQLTRLVVIAPNL-----------ISKFSQLEELYMGDS 363
             L +L    S  ++     I  L ++  I  +L           +    +L+ L +   
Sbjct: 112 TSLTLLDISHSAHDDSILTKINTLPKVNSI--DLSYNGAITDIMPLKTLPELKSLNI--Q 167

Query: 364 FSQWDKVEGGSNASLAELKGLSKLTTLEI 392
           F       G        ++   KL  L  
Sbjct: 168 FDGVHDYRG--------IEDFPKLNQLYA 188

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 40.7 bits (96), Expect = 5e-04
 Identities = 17/105 (16%), Positives = 36/105 (34%), Gaps = 23/105 (21%)

Query: 289 SLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNL 348
           +  ++ +L  + L    + D+  +     ++ L+  + +                     
Sbjct: 39  TEAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNP--------------- 83

Query: 349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
           IS  S LE L +             ++  +  L GL+ LT L+I 
Sbjct: 84  ISGLSNLERLRIMGK--------DVTSDKIPNLSGLTSLTLLDIS 120

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 51.8 bits (124), Expect = 4e-07
 Identities = 29/240 (12%), Positives = 65/240 (27%), Gaps = 22/240 (9%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSS--LGRLFNLQTLCLGGCRLKDIAIVGQLKKL 318
            + DL       V+ L L      ++  +        L+ L L    + D+       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 319 EILSFRDSYIEELPHEIGQLTRLVVIA---------PNLISKFSQLEELYMGDSFSQWDK 369
           + L    + +  +  E      +  I+            +     LE   +    + +  
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDL--RGNGFHC 251

Query: 370 VEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEI 429
                    ++ + +  +    ++    Q   +  V         C  +           
Sbjct: 252 GT--LRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDL-----PAPFA 304

Query: 430 SRLVRLHGLENVSTLLENYGMKMLLKEAEE-IHLNELKGVQNAVHELDDGEGFPRLKHLR 488
            RL+ L   E+     +    + L  E E      E+  ++     + D     R +   
Sbjct: 305 DRLIALKRKEHALLSGQGSETERLECERENQARQREIDALKEQYRTVIDQV-TLRKQAKI 363

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 23/110 (20%), Positives = 40/110 (36%), Gaps = 12/110 (10%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           Q      +    VK L L+G   S +  + L     L+ L L    L +   +  L  L 
Sbjct: 24  QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLR 83

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISK-----FSQLEELYMGD 362
            L   ++Y++EL         +     A N IS+         + +Y+ +
Sbjct: 84  TLDLNNNYVQELL----VGPSIETLHAANNNISRVSCSRGQGKKNIYLAN 129

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

 Score = 51.5 bits (124), Expect = 4e-07
 Identities = 23/132 (17%), Positives = 50/132 (37%), Gaps = 14/132 (10%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRL 293
           +++LP+    P+LE         G+ Q+ +L   +    +  +         LP      
Sbjct: 165 LKKLPDLP--PSLEFIAA-----GNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPL-- 215

Query: 294 FNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA---PNLIS 350
            +L+++  G   L+++  +  L  L  +   ++ ++ LP     L  L V      +L  
Sbjct: 216 -SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPE 274

Query: 351 KFSQLEELYMGD 362
               L  L + +
Sbjct: 275 LPQSLTFLDVSE 286

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

 Score = 50.8 bits (122), Expect = 8e-07
 Identities = 42/236 (17%), Positives = 80/236 (33%), Gaps = 37/236 (15%)

Query: 230 LPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL--FFEGTEEVKVLSLTGVRFSSLP 287
           L +  +  LPE    P+LE  +          +++L    +  + + V +      S LP
Sbjct: 78  LNNLGLSSLPELP--PHLESLVA-----SCNSLTELPELPQSLKSLLVDNNNLKALSDLP 130

Query: 288 SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPN 347
                   L+ L +   +L+ +  +     L+I+   ++ +++LP     L  +      
Sbjct: 131 P------LLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQ 184

Query: 348 L-----ISKFSQLEELYMG--------DSFSQWDKVEGGSN--ASLAELKGLSKLTTLEI 392
           L     +     L  +Y          D     + +  G+N    L EL+ L  LTT+  
Sbjct: 185 LEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYA 244

Query: 393 QVRDAQILPQDLV-LVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLEN 447
                + LP     L  L      + +      +      L  L   EN+ + L  
Sbjct: 245 DNNLLKTLPDLPPSLEALNVRDNYLTD------LPELPQSLTFLDVSENIFSGLSE 294

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

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 21/136 (15%), Positives = 45/136 (33%), Gaps = 18/136 (13%)

Query: 229 SLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS 288
                 + ELP  L      L         S +I  L  +    ++ L+++  +   LP+
Sbjct: 286 ENIFSGLSELPPNLY----YLNAS------SNEIRSLC-DLPPSLEELNVSNNKLIELPA 334

Query: 289 SLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV--IAP 346
                  L+ L      L ++      + L+ L    + + E P     +  L +     
Sbjct: 335 LPP---RLERLIASFNHLAEVP--ELPQNLKQLHVEYNPLREFPDIPESVEDLRMNSHLA 389

Query: 347 NLISKFSQLEELYMGD 362
            +      L++L++  
Sbjct: 390 EVPELPQNLKQLHVET 405

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

 Score = 44.6 bits (106), Expect = 5e-05
 Identities = 25/147 (17%), Positives = 53/147 (36%), Gaps = 26/147 (17%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLF 294
           ++ELPE    P L           +  +  L  +    ++ L++     + LP     L 
Sbjct: 227 LEELPELQNLPFLTTIYA-----DNNLLKTLP-DLPPSLEALNVRDNYLTDLPELPQSLT 280

Query: 295 NLQTLCLGGCRLKDI---------------AIVGQLKKLEILSFRDSYIEELPHEIGQLT 339
            L         L ++               ++      LE L+  ++ + ELP    +L 
Sbjct: 281 FLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLE 340

Query: 340 RLVVIAPNLISKF----SQLEELYMGD 362
           RL+  + N +++       L++L++  
Sbjct: 341 RLIA-SFNHLAEVPELPQNLKQLHVEY 366

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

 Score = 44.2 bits (105), Expect = 8e-05
 Identities = 34/197 (17%), Positives = 64/197 (32%), Gaps = 52/197 (26%)

Query: 234 DIQELPERL-QCPNL-ELFLLFRKGYGS----------MQISDLFFEGTEEVKVLSLTGV 281
           ++ E+P       +  E +  + +   +          M +S L      +   L L  +
Sbjct: 22  NLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNL 81

Query: 282 RFSSLPSSLGRLFNLQTLCLGGCRLKDI-AIVGQLKKLEILSFRDSYIEELPH------- 333
             SSLP       +L++L      L ++  +   LK L + +     + +LP        
Sbjct: 82  GLSSLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGV 138

Query: 334 ---------EIGQLTRLVV--IAPNLISKF----SQLEELYMGDSFSQWDKVEGGSN--A 376
                    E+   + L +  +  N + K       LE +  G+            N   
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGN------------NQLE 186

Query: 377 SLAELKGLSKLTTLEIQ 393
            L EL+ L  LT +   
Sbjct: 187 ELPELQNLPFLTAIYAD 203

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

 Score = 51.6 bits (124), Expect = 4e-07
 Identities = 27/148 (18%), Positives = 49/148 (33%), Gaps = 15/148 (10%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP 287
           ++            +  P+LE   L R G            GT  +K L L+     ++ 
Sbjct: 330 LTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMS 389

Query: 288 SSLGRLFNLQTLCLGGCRLKDIAIVG---QLKKLEILSFRDSYIEELPHEI-GQLTRLVV 343
           S+   L  L+ L      LK ++       L+ L  L    ++     + I   L+ L V
Sbjct: 390 SNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449

Query: 344 -----------IAPNLISKFSQLEELYM 360
                        P++ ++   L  L +
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDL 477

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

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 23/104 (22%), Positives = 32/104 (30%), Gaps = 14/104 (13%)

Query: 273 VKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIE 329
            K L L+      L S S      LQ L L  C ++ I       L  L  L    + I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 330 ELPHEI-GQLTRLVV----------IAPNLISKFSQLEELYMGD 362
            L       L+ L            +    I     L+EL +  
Sbjct: 90  SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH 133

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

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 16/112 (14%), Positives = 39/112 (34%), Gaps = 15/112 (13%)

Query: 266 FFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGCRLKDI---AIVGQLKKLEIL 321
            F     +  L ++        +     L +L+ L + G   ++     I  +L+ L  L
Sbjct: 416 VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

Query: 322 SFRDSYIEELPHEI-GQLTRLVV----------IAPNLISKFSQLEELYMGD 362
                 +E+L       L+ L V          +   +  + + L+++++  
Sbjct: 476 DLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHT 527

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

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 27/127 (21%), Positives = 45/127 (35%), Gaps = 17/127 (13%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDIA--IVGQLKK 317
            I D  ++    +  L LTG    SL   +   L +LQ L      L  +    +G LK 
Sbjct: 66  TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT 125

Query: 318 LEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS 377
           L+ L+   + I+                P   S  + LE L +  S ++   +       
Sbjct: 126 LKELNVAHNLIQSFKL------------PEYFSNLTNLEHLDL--SSNKIQSIYCTDLRV 171

Query: 378 LAELKGL 384
           L ++  L
Sbjct: 172 LHQMPLL 178

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 50.7 bits (122), Expect = 1e-06
 Identities = 23/138 (16%), Positives = 43/138 (31%), Gaps = 26/138 (18%)

Query: 273 VKVLSLTGVRFS----SLPSSLGRLFNLQTLCLGGCRLK-DIAIVGQLKKLEILSFRDSY 327
           V  + L+    +    ++ SSL  L  L++L L    +   ++       L  L    + 
Sbjct: 52  VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNS 111

Query: 328 IE-ELP--HEIGQLTRLVV-----------IAPNLISKFSQLEELYMGD-SFSQWDKVEG 372
           +   +     +G  + L                +   K + LE L +   S S      G
Sbjct: 112 LSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSIS------G 165

Query: 373 GSNASLAELKGLSKLTTL 390
            +        G  +L  L
Sbjct: 166 ANVVGWVLSDGCGELKHL 183

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 48.0 bits (115), Expect = 8e-06
 Identities = 16/127 (12%), Positives = 36/127 (28%), Gaps = 38/127 (29%)

Query: 274 KVLSLTGVRFS-SLPSSLGRLFNLQTLCLGGCRLK--------------DIA-------- 310
           + L ++G + S     ++     L+ L +   +                 +A        
Sbjct: 226 QHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEI 285

Query: 311 ---IVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLVVIA-----------PNLISKFSQL 355
              + G    L  L    ++    +P   G  + L  +A            + + K   L
Sbjct: 286 PDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGL 345

Query: 356 EELYMGD 362
           + L +  
Sbjct: 346 KVLDLSF 352

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 45.7 bits (109), Expect = 4e-05
 Identities = 26/138 (18%), Positives = 54/138 (39%), Gaps = 14/138 (10%)

Query: 237 ELPERLQCPNLE-LFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFS-SLPSSLGRLF 294
           ++   L+  +LE L L      G+  +  +  +G  E+K L+++G + S  +   + R  
Sbjct: 143 KVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD--VSRCV 200

Query: 295 NLQTLCLGGCRLK-DIAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLVVI--APNLI- 349
           NL+ L +        I  +G    L+ L    + +  +    I   T L ++  + N   
Sbjct: 201 NLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFV 260

Query: 350 -----SKFSQLEELYMGD 362
                     L+ L + +
Sbjct: 261 GPIPPLPLKSLQYLSLAE 278

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 44.9 bits (107), Expect = 6e-05
 Identities = 27/124 (21%), Positives = 44/124 (35%), Gaps = 14/124 (11%)

Query: 277 SLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRD-SYIEELPH 333
            LTG     +PS L    NL  + L   RL       +G+L+ L IL   + S+   +P 
Sbjct: 477 DLTG----EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPA 532

Query: 334 EIGQLTRLVVI--APNLIS-----KFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSK 386
           E+G    L+ +    NL +        +       +  +    V   ++    E  G   
Sbjct: 533 ELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGN 592

Query: 387 LTTL 390
           L   
Sbjct: 593 LLEF 596

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 41.4 bits (98), Expect = 7e-04
 Identities = 23/117 (19%), Positives = 43/117 (36%), Gaps = 20/117 (17%)

Query: 263 SDLFFEGTEEVKVLSLTGVRFS-SLPSSLGRLFNLQTLCLGGCRL-----KDIAIVGQLK 316
            +L       ++ L L    F+  +P +L     L +L L    L       +   G L 
Sbjct: 386 PNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSL---GSLS 442

Query: 317 KLEILSFRDSYIE-ELPHEIGQLTRLVVIA----------PNLISKFSQLEELYMGD 362
           KL  L    + +E E+P E+  +  L  +           P+ +S  + L  + + +
Sbjct: 443 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSN 499

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

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 32/173 (18%), Positives = 56/173 (32%), Gaps = 25/173 (14%)

Query: 235 IQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR 292
           +Q LP  +  +   L    L   G            GT  +K L L+     ++ S+   
Sbjct: 40  LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 99

Query: 293 LFNLQTLCLGGCRLKDIAIVG---QLKKLEILSFRDSYIEELPHEI----GQLTRLV--- 342
           L  L+ L      LK ++       L+ L  L    ++     + I      L  L    
Sbjct: 100 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG 159

Query: 343 -----VIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL 390
                   P++ ++   L  L +  S  Q +++   +         LS L  L
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDL--SQCQLEQLSPTA------FNSLSSLQVL 204

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

 Score = 49.2 bits (118), Expect = 1e-06
 Identities = 16/113 (14%), Positives = 31/113 (27%), Gaps = 11/113 (9%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLP--SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKL 318
            + DL       V+ L L      ++           L+ L L    + D+       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 319 EILSFRDSYIEELPHEIGQLTRLVVIA---------PNLISKFSQLEELYMGD 362
           + L    + +  +  E      +  I+            +     LE   +  
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG 246

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

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 25/145 (17%), Positives = 51/145 (35%), Gaps = 18/145 (12%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           Q      +    VK L L+G   S +  + L     L+ L L    L +   +  L  L 
Sbjct: 24  QALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLR 83

Query: 320 ILSFRDSYIEELPHEIGQLTRLVV--IAPNLISK-----FSQLEELYMGDSFSQWDKVEG 372
            L   ++Y++EL         +     A N IS+         + +Y+  + ++   +  
Sbjct: 84  TLDLNNNYVQELL----VGPSIETLHAANNNISRVSCSRGQGKKNIYL--ANNKITMLRD 137

Query: 373 GSNASLAELKGLS----KLTTLEIQ 393
                 + ++ L     ++ T+   
Sbjct: 138 LDEGCRSRVQYLDLKLNEIDTVNFA 162

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 33/136 (24%), Positives = 60/136 (44%), Gaps = 31/136 (22%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           ++ DL   +  +++K LSL     S + + L  L  L++L LG  ++ DI ++ +L KL+
Sbjct: 101 KVKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGNNKITDITVLSRLTKLD 159

Query: 320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSN--AS 377
            LS  D+ I ++                 ++  ++L+ LY+              N  + 
Sbjct: 160 TLSLEDNQISDIVP---------------LAGLTKLQNLYLSK------------NHISD 192

Query: 378 LAELKGLSKLTTLEIQ 393
           L  L GL  L  LE+ 
Sbjct: 193 LRALAGLKNLDVLELF 208

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 15/113 (13%), Positives = 32/113 (28%), Gaps = 22/113 (19%)

Query: 288 SSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV--IA 345
            S           L    + D     +L  ++ +   +S I+ +   I  L  +    + 
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 76

Query: 346 PNLISKFS------QLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEI 392
            N ++          L  L++                 + +L  L  L  L+ 
Sbjct: 77  GNKLTDIKPLANLKNLGWLFL-------------DENKVKDLSSLKDLKKLKS 116

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

 Score = 48.5 bits (116), Expect = 4e-06
 Identities = 26/146 (17%), Positives = 46/146 (31%), Gaps = 21/146 (14%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKK 317
           Q+SD  F     +  L L       +  +   +  NL TL L    L         QL+ 
Sbjct: 87  QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLEN 146

Query: 318 LEILSFRDSYIEELPHE---IGQLTRLVV----------IAPNLISKFSQLEELYMGDSF 364
           L+ L   ++ I+ L  E   I   + L             +P       +L  L++ +  
Sbjct: 147 LQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNV- 205

Query: 365 SQWDKVEGGSNASLAELKGLSKLTTL 390
               ++       L      + +  L
Sbjct: 206 ----QLGPSLTEKLCLELANTSIRNL 227

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

 Score = 48.5 bits (116), Expect = 4e-06
 Identities = 25/129 (19%), Positives = 46/129 (35%), Gaps = 27/129 (20%)

Query: 261 QISDLF---FEGTEEVKVLSLTGVRFSSL---PSSLGRLFNLQTLCLGGCRLKDI--AIV 312
           +   L    F     ++ L L  V   ++   PS    L NL  L L    + +I   ++
Sbjct: 441 KYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDML 500

Query: 313 GQLKKLEILSFRDSYIEELPHE---------IGQLTRLVV----------IAPNLISKFS 353
             L+KLEIL  + + +  L            +  L+ L +          I   +     
Sbjct: 501 EGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLF 560

Query: 354 QLEELYMGD 362
           +L+ + +G 
Sbjct: 561 ELKIIDLGL 569

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

 Score = 46.1 bits (110), Expect = 2e-05
 Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 14/104 (13%)

Query: 273 VKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIE 329
           + VL+LT  +   L  ++  R   L +L +G   +  +   +  +L  L++L+ + + + 
Sbjct: 27  ITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS 86

Query: 330 ELP-HEIGQLTRLVV----------IAPNLISKFSQLEELYMGD 362
           +L        T L            I  N   K   L  L +  
Sbjct: 87  QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH 130

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

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 26/149 (17%), Positives = 47/149 (31%), Gaps = 24/149 (16%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKDI--AIVGQLKK 317
           ++     +    +KVL+L     S L   +     NL  L L    ++ I      + K 
Sbjct: 63  KLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKN 122

Query: 318 LEILSFRDSYIEEL-PHEIGQLTRLVV----------IAPNLISKF--SQLEELYMGDSF 364
           L  L    + +         QL  L            +    +  F  S L++L +  S 
Sbjct: 123 LITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLEL--SS 180

Query: 365 SQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
           +Q  +   G          + +L  L + 
Sbjct: 181 NQIKEFSPGC------FHAIGRLFGLFLN 203

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 47.3 bits (113), Expect = 4e-06
 Identities = 31/143 (21%), Positives = 54/143 (37%), Gaps = 23/143 (16%)

Query: 258 GSMQISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLK 316
           G   ++DL   +    V+  +       SL + +    NL+ L L   ++ D++ +  L 
Sbjct: 27  GKQSVTDLVSQKELSGVQNFNGDNSNIQSL-AGMQFFTNLKELHLSHNQISDLSPLKDLT 85

Query: 317 KLEILSFRDSYIEEL-PHEIGQLTRLVVIAPNLISKFS------QLEELYMGDSFSQWDK 369
           KLE LS   + ++ L       L+RL  +  N +           LE L +         
Sbjct: 86  KLEELSVNRNRLKNLNGIPSACLSRL-FLDNNELRDTDSLIHLKNLEILSI--------- 135

Query: 370 VEGGSNASLAELKGLSKLTTLEI 392
                N  L  +  L  L+ LE+
Sbjct: 136 ----RNNKLKSIVMLGFLSKLEV 154

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 23/104 (22%), Positives = 41/104 (39%), Gaps = 6/104 (5%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEI 320
           ++ +L    +  +  L L          SL  L NL+ L +   +LK I ++G L KLE+
Sbjct: 96  RLKNLNGIPSACLSRLFLDNNELRDT-DSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEV 154

Query: 321 LSFRDSYIEELPHEIGQLTRLVV--IAPNLISK--FSQLEELYM 360
           L    + I      + +L ++    +              ELY+
Sbjct: 155 LDLHGNEITNTG-GLTRLKKVNWIDLTGQKCVNEPVKYQPELYI 197

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

 Score = 48.1 bits (115), Expect = 5e-06
 Identities = 26/134 (19%), Positives = 45/134 (33%), Gaps = 15/134 (11%)

Query: 244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGG 303
            P+LE   L R G            GT  +K L L+     ++ S+   L  L+ L    
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH 405

Query: 304 CRLKDI---AIVGQLKKLEILSFRDSYIEEL-PHEIGQLTRLVV-----------IAPNL 348
             LK +   ++   L+ L  L    ++           L+ L V             P++
Sbjct: 406 SNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI 465

Query: 349 ISKFSQLEELYMGD 362
            ++   L  L +  
Sbjct: 466 FTELRNLTFLDLSQ 479

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

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 22/104 (21%), Positives = 31/104 (29%), Gaps = 14/104 (13%)

Query: 273 VKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIE 329
            K L L+      L   S      LQ L L  C ++ I       L  L  L    + I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 330 EL-PHEIGQLTRLVV----------IAPNLISKFSQLEELYMGD 362
            L       L+ L            +    I     L+EL +  
Sbjct: 90  SLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH 133

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

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 24/120 (20%), Positives = 40/120 (33%), Gaps = 18/120 (15%)

Query: 261 QISDLF--FEGTEEVKVLSLTGVRFSSL--PSSLGRLFNLQTLCLGGCRLKDI--AIVGQ 314
            +  +   F G E+++ L         +   S    L NL  L +     +     I   
Sbjct: 384 GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNG 443

Query: 315 LKKLEILSFRDSYIEE--LPHEIGQLTRLVV----------IAPNLISKFSQLEELYMGD 362
           L  LE+L    +  +E  LP    +L  L            ++P   +  S L+ L M  
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 45.8 bits (109), Expect = 7e-06
 Identities = 27/130 (20%), Positives = 51/130 (39%), Gaps = 17/130 (13%)

Query: 270 TEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIE 329
             E   L         + ++L  L   + L L    ++ I+ +  ++ L ILS   + I+
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK 83

Query: 330 ELPHEIGQLTRLVV--IAPNLISKFS------QLEELYMGDSF-SQWDKVEGGSNASLAE 380
           ++ +       L    I+ N I+  S       L  LYM ++  + W +++        +
Sbjct: 84  KIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEID--------K 135

Query: 381 LKGLSKLTTL 390
           L  L KL  L
Sbjct: 136 LAALDKLEDL 145

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

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 29/172 (16%), Positives = 55/172 (31%), Gaps = 22/172 (12%)

Query: 235 IQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS---S 289
            + L +      P+L   L  +     +++     E  E ++ L L+     +       
Sbjct: 313 FENLCQISASNFPSLT-HLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQ 371

Query: 290 LGRLFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIEELPHE--IGQLTRLVV-- 343
           L  L +LQ+L L       +      +  +LE+L    + ++    +     L  L V  
Sbjct: 372 LRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLN 431

Query: 344 --------IAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL 387
                    +  L      L+ L +    + + K       SL  L  L  L
Sbjct: 432 LSHSLLDISSEQLFDGLPALQHLNL--QGNHFPKGNIQKTNSLQTLGRLEIL 481

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

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 24/140 (17%), Positives = 51/140 (36%), Gaps = 15/140 (10%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKDIA--IVGQLKK 317
            +++    G + +K L       SS+    L     L++L LG   +  I        +K
Sbjct: 95  FMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEK 154

Query: 318 LEILSFRDSYIEELPHE-IGQLTRLVVI-----------APNLISKFSQLEELYMGDSFS 365
           L++L F+++ I  L  E +  L +   +                   +  + L  G + +
Sbjct: 155 LKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQN 214

Query: 366 QWDKVEGGSNASLAELKGLS 385
                +G  N+++  L   +
Sbjct: 215 LLVIFKGLKNSTIQSLWLGT 234

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

 Score = 44.6 bits (106), Expect = 6e-05
 Identities = 27/131 (20%), Positives = 45/131 (34%), Gaps = 20/131 (15%)

Query: 262 ISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDI--AIVGQLKKLE 319
           IS   F     ++ L LT    S LPS L  L  L+ L L   + +++          L 
Sbjct: 269 ISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLT 328

Query: 320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA 379
            LS + +               + +    +     L EL +  S    +  +  +     
Sbjct: 329 HLSIKGNTK------------RLELGTGCLENLENLRELDL--SHDDIETSDCCNLQ--- 371

Query: 380 ELKGLSKLTTL 390
            L+ LS L +L
Sbjct: 372 -LRNLSHLQSL 381

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

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 31/158 (19%), Positives = 54/158 (34%), Gaps = 34/158 (21%)

Query: 262 ISDLFFEGTEEVKVLSLTGVRFSSL----PSSLGRLFNLQTLCLGGCRLKDIA--IVGQL 315
            S+  F+G   ++ L+L G  F        +SL  L  L+ L L  C L  I       L
Sbjct: 440 SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSL 499

Query: 316 KKLEILSFRDSYIEELPHEI-GQLTRLVV---------IAPNLISKFSQLEELYMGD--- 362
           K +  +    + +     E    L  + +         I P+L+   SQ   + +     
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNPL 559

Query: 363 -------SFSQW-----DKVEGGSN---ASLAELKGLS 385
                   F +W      K+E   +    +   L+G+ 
Sbjct: 560 DCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLLRGVR 597

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

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 19/113 (16%), Positives = 35/113 (30%), Gaps = 14/113 (12%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDI--AIVGQLKK 317
            I +  F+    +  L LT      +   +L     L+ L      +  I    +   K 
Sbjct: 71  WIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKT 130

Query: 318 LEILSFRDSYIEELP-HEIGQLTRLVV----------IAPNLISKFSQLEELY 359
           LE L    ++I  +   +     +L V          ++   +S   Q   L 
Sbjct: 131 LESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLS 183

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

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 19/156 (12%), Positives = 49/156 (31%), Gaps = 24/156 (15%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDIA--IVGQLKK 317
           ++     +   +V++L+L  ++   + + +      +Q L +G   ++ +   +   +  
Sbjct: 59  KLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPL 118

Query: 318 LEILSFRDSYIEELPHEI-GQLTRLVV----------IAPNLISKFSQLEELYMGD---- 362
           L +L    + +  LP  I     +L            I  +     + L+ L +      
Sbjct: 119 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT 178

Query: 363 -----SFSQWDKVEGGSNASLAELKGLSKLTTLEIQ 393
                            N  L+ L     +  L+  
Sbjct: 179 HVDLSLIPSLFHANVSYN-LLSTLAIPIAVEELDAS 213

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

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 22/122 (18%), Positives = 43/122 (35%), Gaps = 13/122 (10%)

Query: 228 ISLPHRDIQELPERLQCPNL-ELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRF 283
           + L H ++ +    L  P L E+ L         ++  +    F   + ++ L ++  R 
Sbjct: 231 LKLQHNNLTDTAWLLNYPGLVEVDL------SYNELEKIMYHPFVKMQRLERLYISNNRL 284

Query: 284 SSLPSSLGRLFNLQTLCLGGCRLKDI-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLV 342
            +L      +  L+ L L    L  +     Q  +LE L    + I  L   +     L 
Sbjct: 285 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLK--LSTHHTLK 342

Query: 343 VI 344
            +
Sbjct: 343 NL 344

>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* Length = 594

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 53/312 (16%), Positives = 97/312 (31%), Gaps = 63/312 (20%)

Query: 243 QCPNLELFLL--FRKGYGSMQISDL--FFEGTEEVKVLS-LTGVRFSSLPSSLGRLFNLQ 297
           + P LE      +         S L     G +E++ LS       + LP+       L 
Sbjct: 233 RAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLT 292

Query: 298 TLCLGGCRLKD---IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQ 354
           TL L    ++    + ++ Q  KL+ L   D            +    +    L S    
Sbjct: 293 TLNLSYATVQSYDLVKLLCQCPKLQRLWVLD-----------YIEDAGLEV--LASTCKD 339

Query: 355 LEELYMGDSFSQWDKVEGG-SNASLAEL-KGLSKLTTLEIQVRD---------AQILPQD 403
           L EL +  S     +     +   L  +  G  KL ++    R          A+  P  
Sbjct: 340 LRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPN- 398

Query: 404 LVLVELQRYKICIGEAWRMWGVTSEIS------------RLVRLHGLENVSTLLENYGMK 451
                + R+++CI E      +T E               L RL    ++S LL +   +
Sbjct: 399 -----MTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRL----SLSGLLTDKVFE 449

Query: 452 MLLKEAEEIHLNELKGVQN---AVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRK 508
            +   A+++ +  +    +    +H +    G   L+ L +  C                
Sbjct: 450 YIGTYAKKMEMLSVAFAGDSDLGMHHV--LSGCDSLRKLEIRDC----PFGDKALLANAS 503

Query: 509 VFPLLESLSLKK 520
               + SL +  
Sbjct: 504 KLETMRSLWMSS 515

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 45.9 bits (109), Expect = 2e-05
 Identities = 45/275 (16%), Positives = 92/275 (33%), Gaps = 55/275 (20%)

Query: 261 QISDL---FFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDI--AIVGQ 314
           +I+ +     +    ++ L LT    +++   S   L +L+ L L    L ++  +    
Sbjct: 63  RITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKP 122

Query: 315 LKKLEILSFRDSYIEELPH-------------EIGQLTRLVVIAPNLISKFSQLEELYMG 361
           L  L  L+   +  + L                +G +     I     +  + LEEL + 
Sbjct: 123 LSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEID 182

Query: 362 DSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIGEA 419
              S     E  S      LK +  ++ L + ++   +L +    V   ++   + + + 
Sbjct: 183 A--SDLQSYEPKS------LKSIQNVSHLILHMKQHILLLEIFVDVTSSVE--CLELRDT 232

Query: 420 WRMWGVTSEISR-----LVRLHGLENVS----TLLENYGMKMLLKEAEEIHL--NELKGV 468
                  SE+S      L++     NV     +L +   +   +    E+    N+LK V
Sbjct: 233 DLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSV 292

Query: 469 -QNAVHELDDGEGFPRLKHLRVE------SCSEIL 496
                  L        L+ + +       SC  I 
Sbjct: 293 PDGIFDRL------TSLQKIWLHTNPWDCSCPRID 321

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 45.2 bits (108), Expect = 3e-05
 Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 17/107 (15%)

Query: 273 VKVLSLTGVRFS---SLPSSLGRLFNLQTLCLGG-CRLK-DI-AIVGQLKKLEILSFRDS 326
           V  L L+G+       +PSSL  L  L  L +GG   L   I   + +L +L  L    +
Sbjct: 52  VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111

Query: 327 YIE-ELPHEIGQLTRLVVIA----------PNLISKFSQLEELYMGD 362
            +   +P  + Q+  LV +           P  IS    L  +    
Sbjct: 112 NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 45.2 bits (108), Expect = 3e-05
 Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 17/94 (18%)

Query: 277 SLTGVRFSSLPSSLGRLFNLQTLCLGGCRLK-DI-AIVGQLKKLEILSFRDSYIE-ELPH 333
           +L G     +P ++ +L  L  L +    +   I   + Q+K L  L F  + +   LP 
Sbjct: 88  NLVG----PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPP 143

Query: 334 EIGQLTRLVVIA----------PNLISKFSQLEE 357
            I  L  LV I           P+    FS+L  
Sbjct: 144 SISSLPNLVGITFDGNRISGAIPDSYGSFSKLFT 177

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 45.3 bits (107), Expect = 4e-05
 Identities = 15/112 (13%), Positives = 37/112 (33%), Gaps = 10/112 (8%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKDI-AIVGQLKK 317
            ++D  +      +  + L+      +      ++  L+ L +   RL  +      +  
Sbjct: 243 NLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPT 302

Query: 318 LEILSFRDSYIEELPHEIGQLTRLVVI--APNLISK-----FSQLEELYMGD 362
           L++L    +++  +     Q  RL  +    N I          L+ L +  
Sbjct: 303 LKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSH 354

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 44.5 bits (105), Expect = 7e-05
 Identities = 20/152 (13%), Positives = 53/152 (34%), Gaps = 22/152 (14%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRFS 284
           I +  +D+    E +   N ++         +  +  L     +   +V++L+L  ++  
Sbjct: 34  IDMQTQDVYFGFEDITLNNQKIVTF-----KNSTMRKLPAALLDSFRQVELLNLNDLQIE 88

Query: 285 SLPS-SLGRLFNLQTLCLGGCRLKDIA--IVGQLKKLEILSFRDSYIEELPHEI-GQLTR 340
            + + +      +Q L +G   ++ +   +   +  L +L    + +  LP  I     +
Sbjct: 89  EIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPK 148

Query: 341 LVV----------IAPNLISKFSQLEELYMGD 362
           L            I  +     + L+ L +  
Sbjct: 149 LTTLSMSNNNLERIEDDTFQATTSLQNLQLSS 180

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.8 bits (103), Expect = 1e-04
 Identities = 21/118 (17%), Positives = 40/118 (33%), Gaps = 11/118 (9%)

Query: 228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRFS 284
           + L H ++ +    L  P L    L        ++  +    F   + ++ L ++  R  
Sbjct: 237 LKLQHNNLTDTAWLLNYPGLVEVDL-----SYNELEKIMYHPFVKMQRLERLYISNNRLV 291

Query: 285 SLPSSLGRLFNLQTLCLGGCRLKDI-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRL 341
           +L      +  L+ L L    L  +     Q  +LE L    + I  L   +     L
Sbjct: 292 ALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLK--LSTHHTL 347

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

 Score = 44.7 bits (106), Expect = 6e-05
 Identities = 19/130 (14%), Positives = 45/130 (34%), Gaps = 24/130 (18%)

Query: 235 IQELPERLQCP-NL-ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR 292
              +P+  Q P  +  L L       S  I  +     + ++VL ++     S       
Sbjct: 399 FHPMPDSCQWPEKMRFLNL------SSTGIRVVKTCIPQTLEVLDVSNNNLDSFSL---F 449

Query: 293 LFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKF 352
           L  LQ L +   +LK +        L ++    + ++ +P               +  + 
Sbjct: 450 LPRLQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVP-------------DGIFDRL 496

Query: 353 SQLEELYMGD 362
           + L+++++  
Sbjct: 497 TSLQKIWLHT 506

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

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 21/124 (16%), Positives = 48/124 (38%), Gaps = 8/124 (6%)

Query: 243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG 302
             P+L+  +L +    SMQ +       + +  L ++   F  +P S      ++ L L 
Sbjct: 359 AWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLS 418

Query: 303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISK------FSQLE 356
              ++ +      + LE+L   ++ ++     + +L  L  I+ N +        F  L 
Sbjct: 419 STGIRVVK-TCIPQTLEVLDVSNNNLDSFSLFLPRLQEL-YISRNKLKTLPDASLFPVLL 476

Query: 357 ELYM 360
            + +
Sbjct: 477 VMKI 480

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

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 30/136 (22%), Positives = 50/136 (36%), Gaps = 22/136 (16%)

Query: 273 VKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKDIA--IVGQLKKLEILSFRDSYIE 329
           +K L L+  + + +    L    NLQ L L   R+  I       L  LE L   D+++ 
Sbjct: 28  MKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLS 87

Query: 330 ELP----HEIGQLTRL--------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS 377
            L       +  L  L         +   +L    + L+ L +G+  +        S   
Sbjct: 88  SLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF-------SEIR 140

Query: 378 LAELKGLSKLTTLEIQ 393
             +  GL+ L  LEI+
Sbjct: 141 RIDFAGLTSLNELEIK 156

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

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 16/106 (15%), Positives = 35/106 (33%), Gaps = 17/106 (16%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR-LFNLQTLCLGGCRLKDIAI-----VGQ 314
                 +   E+VK +++   +   +P S  + L +L+ L L    + +  +      G 
Sbjct: 300 YDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGA 359

Query: 315 LKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYM 360
              L+ L    +++  +      L  L             L  L +
Sbjct: 360 WPSLQTLVLSQNHLRSMQKTGEILLTL-----------KNLTSLDI 394

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

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 44/290 (15%), Positives = 91/290 (31%), Gaps = 39/290 (13%)

Query: 235 IQELPER--LQCPNLELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRFSSLPSS 289
           I  +       C NL++ +L      S +I+ +    F     ++ L L+    SSL SS
Sbjct: 38  ITYIGHGDLRACANLQVLIL-----KSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSS 92

Query: 290 -LGRLFNLQTLCLGGCRLKDI---AIVGQLKKLEILSFRDSY-IEELPHE-IGQLTRLVV 343
             G L +L+ L L G   + +   ++   L  L+ L   +     E+       LT L  
Sbjct: 93  WFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNE 152

Query: 344 ----------IAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLS----KLTT 389
                          +     +  L +  S S +  +       L+ ++ L      L  
Sbjct: 153 LEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAF--LLEIFADILSSVRYLELRDTNLAR 210

Query: 390 LEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYG 449
            +        +   +  +  +   +       +  +   I  L  +   +     L ++ 
Sbjct: 211 FQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFN 270

Query: 450 MKML-----LKEAEEIHLNELKGVQNAVHELDDG--EGFPRLKHLRVESC 492
                    L + E + +  L   Q  +            ++K + VE+ 
Sbjct: 271 PSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS 320

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

 Score = 44.4 bits (105), Expect = 7e-05
 Identities = 25/114 (21%), Positives = 42/114 (36%), Gaps = 13/114 (11%)

Query: 262 ISDLFFEGTEEVKVLSLTGV-RFSSLPS-SLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           I    F     ++ L L  + R S +   +   L NL+ L L  C L++I  +  L KL+
Sbjct: 151 IPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLD 210

Query: 320 ILSFRDSYIEELPHEI----GQLTRL-------VVIAPNLISKFSQLEELYMGD 362
            L    +++  +          L +L        VI  N       L E+ +  
Sbjct: 211 ELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAH 264

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

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 33/143 (23%), Positives = 52/143 (36%), Gaps = 21/143 (14%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSL-GRLFNLQTLCLGGC-RLKDIA--IVGQLK 316
            I +  F    ++K L L      S+PS    R+ +L+ L LG   RL  I+      L 
Sbjct: 126 TIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLS 185

Query: 317 KLEILSFRDSYIEELPHEIG--QLTRL-------VVIAPNLISKFSQLEELYMGDSFSQW 367
            L  L+     + E+P+     +L  L         I P        L++L+M    SQ 
Sbjct: 186 NLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWM--IQSQI 243

Query: 368 DKVEGGSNASLAELKGLSKLTTL 390
             +E  +         L  L  +
Sbjct: 244 QVIERNA------FDNLQSLVEI 260

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 25/161 (15%), Positives = 53/161 (32%), Gaps = 25/161 (15%)

Query: 243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG 302
           Q  NL             ++++L      ++  L+    + + L   + +   L  L   
Sbjct: 83  QNTNLTYLACDSN-----KLTNLDVTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCA 135

Query: 303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNL---------ISKFS 353
              L +I +     +L  L    +       ++   T+L  +  +          +S+  
Sbjct: 136 RNTLTEIDV-SHNTQLTELDCHLNKKITKL-DVTPQTQLTTL--DCSFNKITELDVSQNK 191

Query: 354 QLEELYMGDSFSQWDKVEGGSNASLAELKGLS--KLTTLEI 392
            L  L      +   K++   N  L  L   S  KLT +++
Sbjct: 192 LLNRLNCDT--NNITKLDLNQNIQLTFL-DCSSNKLTEIDV 229

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 25/153 (16%), Positives = 46/153 (30%), Gaps = 29/153 (18%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEI 320
           +++ L       +  L+      + +   +     L  L     +      V    +L  
Sbjct: 117 KLTKLDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTT 174

Query: 321 LSFRDSYIEELPHEIGQLTRLVVIAPNL---------ISKFSQLEELYMGDSFSQWDKVE 371
           L    + I EL   + Q   L  +  N          +++  QL  L    S ++  +++
Sbjct: 175 LDCSFNKITELD--VSQNKLLNRL--NCDTNNITKLDLNQNIQLTFLDC--SSNKLTEID 228

Query: 372 GGSNASLAEL------------KGLSKLTTLEI 392
                 L                 LSKLTTL  
Sbjct: 229 VTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHC 261

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 7/94 (7%)

Query: 271 EEVKVLSLTGVRFS--SLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYI 328
            +VK L L   R +   L         L+ L      L  IA + +L KL+ L   D+ +
Sbjct: 17  SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRV 76

Query: 329 ----EELPHEIGQLTRLVVIAPNLISKFSQLEEL 358
               E L  +   LT L  ++ N I   S +E L
Sbjct: 77  SGGLEVLAEKCPNLTHL-NLSGNKIKDLSTIEPL 109

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 28/132 (21%), Positives = 48/132 (36%), Gaps = 17/132 (12%)

Query: 274 KVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELP 332
            +L L+     +   + L     L  L L    L  + + G L  L  L    + ++ LP
Sbjct: 34  TILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLP 93

Query: 333 ---HEIGQLTRLVV-------IAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK 382
                +  LT L V       +    +    +L+ELY+    ++   +  G      +L+
Sbjct: 94  LLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKG--NELKTLPPGLLTPTPKLE 151

Query: 383 GLS----KLTTL 390
            LS     LT L
Sbjct: 152 KLSLANNNLTEL 163

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

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 26/114 (22%), Positives = 42/114 (36%), Gaps = 13/114 (11%)

Query: 262 ISDLFFEGTEEVKVLSLTGV-RFSSLPS-SLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
           I    F     +  L L  + +   +   +   LFNL+ L LG C +KD+  +  L  LE
Sbjct: 162 IPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLE 221

Query: 320 ILSFRDSYIEELPHEI----GQLTRL-------VVIAPNLISKFSQLEELYMGD 362
            L    ++  E+          L +L        +I  N     + L EL +  
Sbjct: 222 ELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAH 275

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

 Score = 42.7 bits (100), Expect = 3e-04
 Identities = 19/91 (20%), Positives = 32/91 (35%), Gaps = 11/91 (12%)

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
           K L +   + + LP        L+ +     +L  +        LE+LS R++ +  LP 
Sbjct: 123 KHLDVDNNQLTMLPELPA---LLEYINADNNQLTMLP--ELPTSLEVLSVRNNQLTFLPE 177

Query: 334 EIGQLTRLVVIA------PNLISKFSQLEEL 358
               L  L V        P +  +    EE 
Sbjct: 178 LPESLEALDVSTNLLESLPAVPVRNHHSEET 208

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

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 24/119 (20%), Positives = 36/119 (30%), Gaps = 17/119 (14%)

Query: 261 QISDL---FFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKDIA--IVGQ 314
           Q+  +    F G   +  L L       L       L  LQ L L    L+ +       
Sbjct: 92  QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRD 151

Query: 315 LKKLEILSFRDSYIEELPHEI----GQLTRLV-------VIAPNLISKFSQLEELYMGD 362
           L  L  L    + I  +P         L RL+        + P+      +L  LY+  
Sbjct: 152 LGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA 210

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

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 21/114 (18%), Positives = 41/114 (35%), Gaps = 14/114 (12%)

Query: 239 PERLQCPNLELFLLFRKGYGSMQISDL---FFEGTEEVKVLSLTGVRFSSLPS-SLGRLF 294
           P  L   NL    +         ++ +          ++ L+L+    S++    L  L 
Sbjct: 218 PNCLYGLNLTSLSI-----THCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELL 272

Query: 295 NLQTLCLGGCRLKDI---AIVGQLKKLEILSFRDSYIEELPHEI-GQLTRLVVI 344
            LQ + L G +L  +   A  G L  L +L+   + +  L   +   +  L  +
Sbjct: 273 RLQEIQLVGGQLAVVEPYAFRG-LNYLRVLNVSGNQLTTLEESVFHSVGNLETL 325

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

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 23/115 (20%), Positives = 43/115 (37%), Gaps = 14/115 (12%)

Query: 262 ISDLFFEGTEEVKVLSLTGVRF-SSLPSSLGRLFNLQTLCLGGCRLKDIA--IVGQLKKL 318
           I D  F+    +KVL ++   +  ++  +     NL +L +  C L  +    V  L  L
Sbjct: 191 IRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYL 250

Query: 319 EILSFRDSYIEELP----HEIGQLTRLV-------VIAPNLISKFSQLEELYMGD 362
             L+   + I  +     HE+ +L  +        V+ P      + L  L +  
Sbjct: 251 RFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSG 305

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 25/141 (17%), Positives = 43/141 (30%), Gaps = 15/141 (10%)

Query: 235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLF 294
                +++  P+L    L R              GT  ++ L L+      + ++   L 
Sbjct: 340 GSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE 399

Query: 295 NLQTLCLGGCRLKDIA---IVGQLKKLEILSFRDSYIEELPHEI-GQLTRLVV------- 343
            LQ L      LK +        L+KL  L    +  +     I   LT L         
Sbjct: 400 ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNS 459

Query: 344 ----IAPNLISKFSQLEELYM 360
                  N+ +  + L  L +
Sbjct: 460 FKDNTLSNVFANTTNLTFLDL 480

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

 Score = 41.1 bits (97), Expect = 5e-04
 Identities = 32/139 (23%), Positives = 62/139 (44%), Gaps = 16/139 (11%)

Query: 261 QISDLFFEGTEEVKVLSLTGVRFSSLPSSL-GRLFNLQTLCLGGCRLKDI--AIVGQLKK 317
            +    F    ++++L L   +  +LP+ +   L NL+TL +   +L+ +   +  QL  
Sbjct: 51  SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVN 110

Query: 318 LEILSFRDSYIEELPHEI----GQLTRLVV-------IAPNLISKFSQLEELYMGDSFSQ 366
           L  L    + ++ LP  +     +LT L +       +   +  K + L+EL + +  +Q
Sbjct: 111 LAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN--NQ 168

Query: 367 WDKVEGGSNASLAELKGLS 385
             +V  G+   L ELK L 
Sbjct: 169 LKRVPEGAFDKLTELKTLK 187

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 41.5 bits (97), Expect = 7e-04
 Identities = 53/305 (17%), Positives = 93/305 (30%), Gaps = 53/305 (17%)

Query: 243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG 302
                    L        +  +L      ++  L L+ +  + +P        ++ L L 
Sbjct: 244 NLEEFCGGSLNEDIGMPEKYMNL--VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLL 301

Query: 303 GCRLKD---IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELY 359
              L+      ++ +   LE+L  R+         IG    L V+A        QL+ L 
Sbjct: 302 YALLETEDHCTLIQKCPNLEVLETRNV--------IGDRG-LEVLAQYC----KQLKRLR 348

Query: 360 MGDSFSQWDKVEGG---SNASLAEL-KGLSKLTTLEIQVRD---------AQILP--QDL 404
           +     +    +     S   L  L +G  +L  + + V D            L    D 
Sbjct: 349 IERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDF 408

Query: 405 VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLE--NVSTLLENYGMKMLLKEAEEIHL 462
            LV L R +  I +     GV S +    +L           L + G+  + + +  +  
Sbjct: 409 RLVLLDREE-RITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRW 467

Query: 463 NELKGVQN---AVHELDDGEGFPRLKHLRVESCS----EILHIVGSVGRVRRKVFPLLES 515
             L  V      + E     G P L+ L +  C      I   V           P L  
Sbjct: 468 MLLGYVGESDEGLMEF--SRGCPNLQKLEMRGCCFSERAIAAAVTK--------LPSLRY 517

Query: 516 LSLKK 520
           L ++ 
Sbjct: 518 LWVQG 522

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 41.1 bits (97), Expect = 7e-04
 Identities = 20/170 (11%), Positives = 57/170 (33%), Gaps = 18/170 (10%)

Query: 235 IQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGR 292
           I ++ + +      + +  L      S  I +  F+G +++  + +     +++P  L  
Sbjct: 133 ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL-- 190

Query: 293 LFNLQTLCLGGCRLKDI--AIVGQLKKLEILSFRDSYIEELPHEI-GQLTRLVVIA---- 345
             +L  L L G ++  +  A +  L  L  L    + I  + +        L  +     
Sbjct: 191 PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN 250

Query: 346 -----PNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTL 390
                P  ++    ++ +Y+ +  +    +              +  + +
Sbjct: 251 KLVKVPGGLADHKYIQVVYLHN--NNISAIGSNDFCPPGYNTKKASYSGV 298

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	561
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.93
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.89
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.87
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.87
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.87
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.86
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.86
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.86
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.86
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.86
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.85
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.85
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.85
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.85
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.84
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.84
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.84
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.84
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.84
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.83
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.83
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.83
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.83
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.83
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.83
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.83
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.83
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.82
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.82
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.82
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.82
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.81
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.81
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.81
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.81
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.81
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.81
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.8
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.8
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.79
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.79
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.78
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.78
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.78
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.77
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.77
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.76
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.76
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.76
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.76
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.75
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.75
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.73
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.73
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.72
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.72
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.72
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.71
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.71
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.69
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.67
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.67
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.66
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.66
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.66
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.64
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.63
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.63
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.63
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.62
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.62
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.62
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.61
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.61
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.59
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.59
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.58
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.56
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.56
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.55
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.54
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.53
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.53
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.53
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.52
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.51
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.51
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.5
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.49
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.49
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.49
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.48
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.48
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.48
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.48
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.48
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.47
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.46
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.45
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.45
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.44
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.44
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.44
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.43
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.43
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.4
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.4
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.4
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.39
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.38
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.38
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.37
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.37
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.37
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.35
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.33
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.32
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.32
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.32
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.32
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.3
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.27
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.26
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.26
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.25
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.24
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.22
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.19
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.18
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.17
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.13
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.03
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.03
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.99
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.86
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.77
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.71
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.7
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.58
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.54
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.44
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.36
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.14
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.13
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.02
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.82
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.82
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.81
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.72
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.68
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.61
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.54
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.25
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	96.83
2fna_A	357	Conserved hypothetical protein; structural genomic	96.6
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.12
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.98
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	95.81
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.68
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.63
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.53
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.05
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	92.14
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	89.67
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	88.2
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	86.63
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	82.52

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.93  E-value=2.7e-27  Score=250.84  Aligned_cols=188  Identities=13%  Similarity=0.104  Sum_probs=141.7

Q ss_pred             CEEeeccchhhhcccC-CcceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHH
Q 041360            1 MILTSRNRDLLERDMN-SQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLD   79 (561)
Q Consensus         1 IlvTTR~~~va~~~~~-~~~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~   79 (561)
                      ||||||++.|+.. ++ ..++|+|++|++++||+||.+++|....++++++++.+|+++|+|+||||+++|+.|+.++ +
T Consensus       268 ilvTTR~~~v~~~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w  345 (549)
T 2a5y_B          268 CLVTTRDVEISNA-ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-F  345 (549)
T ss_dssp             EEEEESBGGGGGG-CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-H
T ss_pred             EEEEcCCHHHHHH-cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch-H
Confidence            7999999999863 43 4478999999999999999999985544567788999999999999999999999998764 2


Q ss_pred             HHHHHHHH-HhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHH-----------hhcccCCCcccCHHHHHHHHhhc
Q 041360           80 IWKDALSQ-LRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFR-----------LCGLYNEGHAIQVASLLRYGMGW  147 (561)
Q Consensus        80 ~w~~~~~~-l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl-----------~~s~fp~~~~~~~~~l~~~w~a~  147 (561)
                      +|...+.. +...       ....+..++.+||+.||++ +|.||+           |||+||+++.++    +++|+|+
T Consensus       346 ~~~~~l~~~l~~~-------~~~~i~~~l~~Sy~~L~~~-lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~  413 (549)
T 2a5y_B          346 EKMAQLNNKLESR-------GLVGVECITPYSYKSLAMA-LQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCV  413 (549)
T ss_dssp             HHHHHHHHHHHHH-------CSSTTCCCSSSSSSSHHHH-HHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHH
T ss_pred             HHHHHhHHHhhcc-------cHHHHHHHHhcccccccHH-HHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeee
Confidence            33222222 2111       1245777888999999987 999999           999999999998    8899999


Q ss_pred             --CcccccccHHHHHHHHHHHHHHHHHcCcccccC--CCCceehhHHHHHHHHHHhhcCc
Q 041360          148 --GLFKNVYTLEEARSRVHRLIDNLKSSCLLLDGD--GKDEVKMHDVIHVVAVSIATEEQ  203 (561)
Q Consensus       148 --g~~~~~~~~~~~~~~~~~~i~~L~~~sll~~~~--~~~~~~mh~lv~~~~~~~~~~e~  203 (561)
                        ||+.........++.+. ++++|+++||++...  ...+|+|||++|++|+.++.+++
T Consensus       414 ~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          414 IPVDICSNEEEQLDDEVAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             SCC-------CCCTHHHHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             ccceeccCCCCCCHHHHHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence              99974321111222333 889999999998653  34579999999999998887654

>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=99.89  E-value=8.5e-22  Score=197.21  Aligned_cols=292  Identities=15%  Similarity=0.116  Sum_probs=198.8

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      ++++++++.++.+..++....+++|++|+++++.  +..++.  ++++++|++|++++|.+..+| .+..+++|++|+++
T Consensus        44 ~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~--i~~~~~--~~~l~~L~~L~L~~n~i~~~~-~~~~l~~L~~L~l~  118 (347)
T 4fmz_A           44 ESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQ--ITDISP--LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELYLN  118 (347)
T ss_dssp             TTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEECT
T ss_pred             ccccEEEEeCCccccchhhhhcCCccEEEccCCc--cccchh--hhcCCcCCEEEccCCcccCch-HHcCCCcCCEEECc
Confidence            5778888888888777654477888888888876  666666  578888888888888877765 57888888888888


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccC--------chhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA--------PNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~--------~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|.+...+.+..+++|++|++++|.....+..+..+++|+.+.        ...++.+++|++|++++|....       
T Consensus       119 ~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~-------  191 (347)
T 4fmz_A          119 EDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIED-------  191 (347)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCC-------
T ss_pred             CCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcccc-------
Confidence            8887773337788888888888874444444466666552221        1116788888899988876431       


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhh
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLL  454 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll  454 (561)
                         ...+..+++|+.|+++.+.+...+....+++|+.|++..+. +..........++..|++.++. ... .+.+..+ 
T Consensus       192 ---~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~l~~L~~L~l~~n~-l~~-~~~~~~l-  264 (347)
T 4fmz_A          192 ---ISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNK-ITDLSPLANLSQLTWLEIGTNQ-ISD-INAVKDL-  264 (347)
T ss_dssp             ---CGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSC-CCCCGGGTTCTTCCEEECCSSC-CCC-CGGGTTC-
T ss_pred             ---cccccCCCccceeecccCCCCCCchhhcCCcCCEEEccCCc-cCCCcchhcCCCCCEEECCCCc-cCC-ChhHhcC-
Confidence               12267788888888888888777666677888888885432 2222222333455666665543 222 2344454 


Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCC
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTA  533 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~  533 (561)
                      ++|+.|+++++ .+..++.    ...+++|++|++++|. ++..+.    .....+++|+.|++.+|+- .+    .++.
T Consensus       265 ~~L~~L~l~~n-~l~~~~~----~~~l~~L~~L~L~~n~-l~~~~~----~~l~~l~~L~~L~L~~n~l~~~----~~~~  330 (347)
T 4fmz_A          265 TKLKMLNVGSN-QISDISV----LNNLSQLNSLFLNNNQ-LGNEDM----EVIGGLTNLTTLFLSQNHITDI----RPLA  330 (347)
T ss_dssp             TTCCEEECCSS-CCCCCGG----GGGCTTCSEEECCSSC-CCGGGH----HHHHTCTTCSEEECCSSSCCCC----GGGG
T ss_pred             CCcCEEEccCC-ccCCChh----hcCCCCCCEEECcCCc-CCCcCh----hHhhccccCCEEEccCCccccc----cChh
Confidence            88999999876 4555543    4568999999999974 443321    1235689999999999985 32    2267


Q ss_pred             CCCCCcccCCCccc
Q 041360          534 ASKGPEREKPTTSL  547 (561)
Q Consensus       534 ~l~~L~~L~i~~c~  547 (561)
                      .+++|+.|++.+|+
T Consensus       331 ~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          331 SLSKMDSADFANQV  344 (347)
T ss_dssp             GCTTCSEESSSCC-
T ss_pred             hhhccceeehhhhc
Confidence            88999999998875

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

Probab=99.89  E-value=1.8e-22  Score=205.42  Aligned_cols=293  Identities=16%  Similarity=0.129  Sum_probs=199.9

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L  299 (561)
                      .+++++++.++.+..+|...  .+++|++|+++++.  +..++...|+++++|++|++++|.+..+| ..++.+++|++|
T Consensus        45 ~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L~~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  122 (390)
T 3o6n_A           45 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ--IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  122 (390)
T ss_dssp             CCCSEEEEESCEESEECTHHHHHCCCCSEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCceEEEecCCchhhCChhHhcccccCcEEECCCCc--ccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEE
Confidence            67888888888888888764  68888888888886  66666655688888888888888888874 457888888888


Q ss_pred             EeCCCCCCC-ccc-ccCCCCCcEEEccCCcCcccCh-hhhcccccccc-------CchhhcCCCCCcEEEccCCcccccc
Q 041360          300 CLGGCRLKD-IAI-VGQLKKLEILSFRDSYIEELPH-EIGQLTRLVVI-------APNLISKFSQLEELYMGDSFSQWDK  369 (561)
Q Consensus       300 ~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~l-------~~~~i~~l~~L~~L~l~~~~~~~~~  369 (561)
                      ++++|.+.. |.. ++++++|++|++++|.+..++. .++++++|+.+       ....++.+++|+.|++++|...   
T Consensus       123 ~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~L~~L~l~~n~l~---  199 (390)
T 3o6n_A          123 VLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLS---  199 (390)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSBCCGGGCTTCSEEECCSSCCS---
T ss_pred             ECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCccccccccccceeeccccccc---
Confidence            888888888 644 5888888888888888777643 35555444221       1112445666666666655431   


Q ss_pred             cCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhh
Q 041360          370 VEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYG  449 (561)
Q Consensus       370 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~  449 (561)
                                .+...++|+.|+++.|.+..++.. .+++|+.|++..+. +..........++..|++.++......+..
T Consensus       200 ----------~~~~~~~L~~L~l~~n~l~~~~~~-~~~~L~~L~l~~n~-l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~  267 (390)
T 3o6n_A          200 ----------TLAIPIAVEELDASHNSINVVRGP-VNVELTILKLQHNN-LTDTAWLLNYPGLVEVDLSYNELEKIMYHP  267 (390)
T ss_dssp             ----------EEECCSSCSEEECCSSCCCEEECC-CCSSCCEEECCSSC-CCCCGGGGGCTTCSEEECCSSCCCEEESGG
T ss_pred             ----------ccCCCCcceEEECCCCeeeecccc-ccccccEEECCCCC-CcccHHHcCCCCccEEECCCCcCCCcChhH
Confidence                      233445677777777777666543 34678888875332 221111222345556666654423333555


Q ss_pred             HHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccccccCCC
Q 041360          450 MKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQ  529 (561)
Q Consensus       450 ~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~~~~~~~  529 (561)
                      +..+ ++|+.|+++++ .+..++..   ...+++|++|++++| +++.+|.     ....+++|+.|++.+|+-  .  .
T Consensus       268 ~~~l-~~L~~L~L~~n-~l~~~~~~---~~~l~~L~~L~L~~n-~l~~~~~-----~~~~l~~L~~L~L~~N~i--~--~  332 (390)
T 3o6n_A          268 FVKM-QRLERLYISNN-RLVALNLY---GQPIPTLKVLDLSHN-HLLHVER-----NQPQFDRLENLYLDHNSI--V--T  332 (390)
T ss_dssp             GTTC-SSCCEEECCSS-CCCEEECS---SSCCTTCCEEECCSS-CCCCCGG-----GHHHHTTCSEEECCSSCC--C--C
T ss_pred             cccc-ccCCEEECCCC-cCcccCcc---cCCCCCCCEEECCCC-cceecCc-----cccccCcCCEEECCCCcc--c--e
Confidence            6665 89999999875 45555543   457899999999996 6777763     336789999999999874  2  2


Q ss_pred             CCCCCCCCCcccCCCccc
Q 041360          530 KPTAASKGPEREKPTTSL  547 (561)
Q Consensus       530 ~~~~~l~~L~~L~i~~c~  547 (561)
                      +++..+++|+.|++.+++
T Consensus       333 ~~~~~~~~L~~L~l~~N~  350 (390)
T 3o6n_A          333 LKLSTHHTLKNLTLSHND  350 (390)
T ss_dssp             CCCCTTCCCSEEECCSSC
T ss_pred             eCchhhccCCEEEcCCCC
Confidence            236778899999998765

>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=99.87  E-value=2.9e-21  Score=201.22  Aligned_cols=290  Identities=15%  Similarity=0.132  Sum_probs=177.2

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++.++.+..+|....+++|++|+++++.  +..++.  ++++++|++|++++|.+..+++ ++.+++|++|+++
T Consensus        46 ~~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~--l~~~~~--~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~  120 (466)
T 1o6v_A           46 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ--LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  120 (466)
T ss_dssp             HTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             ccccEEecCCCCCccCcchhhhcCCCEEECCCCc--cCCchh--hhccccCCEEECCCCccccChh-hcCCCCCCEEECC
Confidence            5688888888888888765578888999998886  666766  5888899999998888888877 8888889999998


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccC-------chhhcCCCCCcEEEccCCcccccccCCCcc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA-------PNLISKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~-------~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      +|.+...+.++++++|++|++++|.+..+| .++++++|+.+.       ...++++++|++|++++|....        
T Consensus       121 ~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~--------  191 (466)
T 1o6v_A          121 NNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSD--------  191 (466)
T ss_dssp             SSCCCCCGGGTTCTTCSEEEEEEEEECCCG-GGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCC--------
T ss_pred             CCCCCCChHHcCCCCCCEEECCCCccCCCh-hhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCC--------
Confidence            888887333888888999999888877776 366666663221       1126777788888877775421        


Q ss_pred             cchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEecc---------------------ccccCCCCccccceEE
Q 041360          376 ASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGE---------------------AWRMWGVTSEISRLVR  434 (561)
Q Consensus       376 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~---------------------~~~~~~~~~~~~~l~~  434 (561)
                        +..+..+++|+.|+++.|.+...+....+++|+.|++..+.                     .+..........++..
T Consensus       192 --~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~  269 (466)
T 1o6v_A          192 --ISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTE  269 (466)
T ss_dssp             --CGGGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSE
T ss_pred             --ChhhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhhhcCCCCCE
Confidence              12244455555555555544444333344444444442211                     1111111112223334


Q ss_pred             EecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCcccc
Q 041360          435 LHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLE  514 (561)
Q Consensus       435 L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~  514 (561)
                      |++.++. ....+ .+..+ ++|+.|++.++. +..++.    .+.+++|+.|++++| ++..++      ....+++|+
T Consensus       270 L~l~~n~-l~~~~-~~~~l-~~L~~L~L~~n~-l~~~~~----~~~l~~L~~L~L~~n-~l~~~~------~~~~l~~L~  334 (466)
T 1o6v_A          270 LKLGANQ-ISNIS-PLAGL-TALTNLELNENQ-LEDISP----ISNLKNLTYLTLYFN-NISDIS------PVSSLTKLQ  334 (466)
T ss_dssp             EECCSSC-CCCCG-GGTTC-TTCSEEECCSSC-CSCCGG----GGGCTTCSEEECCSS-CCSCCG------GGGGCTTCC
T ss_pred             EECCCCc-cCccc-cccCC-CccCeEEcCCCc-ccCchh----hcCCCCCCEEECcCC-cCCCch------hhccCccCC
Confidence            4443322 11111 13333 566666665532 333322    235666777777665 444443      235677777


Q ss_pred             ccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          515 SLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       515 ~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      .|.+.+|+- .+    ..+..+++|+.|++.+|.
T Consensus       335 ~L~l~~n~l~~~----~~l~~l~~L~~L~l~~n~  364 (466)
T 1o6v_A          335 RLFFYNNKVSDV----SSLANLTNINWLSAGHNQ  364 (466)
T ss_dssp             EEECCSSCCCCC----GGGTTCTTCCEEECCSSC
T ss_pred             EeECCCCccCCc----hhhccCCCCCEEeCCCCc
Confidence            777777764 32    235677888888887774

>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=99.87  E-value=9.1e-22  Score=211.39  Aligned_cols=293  Identities=16%  Similarity=0.127  Sum_probs=196.3

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .+++.+++.++.+..+|..+  .+++|++|+++++.  +..++...|+.+++|++|++++|.+..+|+ .++.+++|++|
T Consensus        51 ~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  128 (597)
T 3oja_B           51 NNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ--IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVL  128 (597)
T ss_dssp             CCCSEEEESSCEESEECTHHHHHCCCCSEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCceEEEeeCCCCCCcCHHHHccCCCCcEEECCCCC--CCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEE
Confidence            56778888888887777764  67888888888876  566665556788888888888888877654 46788888888


Q ss_pred             EeCCCCCCC-ccc-ccCCCCCcEEEccCCcCcccCh-hhhccccccccC-------chhhcCCCCCcEEEccCCcccccc
Q 041360          300 CLGGCRLKD-IAI-VGQLKKLEILSFRDSYIEELPH-EIGQLTRLVVIA-------PNLISKFSQLEELYMGDSFSQWDK  369 (561)
Q Consensus       300 ~l~~~~l~~-p~~-i~~L~~L~~L~l~~~~~~~lp~-~i~~L~~L~~l~-------~~~i~~l~~L~~L~l~~~~~~~~~  369 (561)
                      +|++|.+.. |+. ++++++|++|++++|.+..+|. .++++++|+.+.       ...++.+++|+.|++++|...   
T Consensus       129 ~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~---  205 (597)
T 3oja_B          129 VLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLS---  205 (597)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCS---
T ss_pred             EeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccc---
Confidence            888888777 544 5788888888888887776654 355555442111       111345666666666665432   


Q ss_pred             cCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhh
Q 041360          370 VEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYG  449 (561)
Q Consensus       370 ~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~  449 (561)
                                .+....+|+.|+++.|.+..++... .++|+.|++..+. +..........++..|++.+|......+..
T Consensus       206 ----------~l~~~~~L~~L~ls~n~l~~~~~~~-~~~L~~L~L~~n~-l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~  273 (597)
T 3oja_B          206 ----------TLAIPIAVEELDASHNSINVVRGPV-NVELTILKLQHNN-LTDTAWLLNYPGLVEVDLSYNELEKIMYHP  273 (597)
T ss_dssp             ----------EEECCTTCSEEECCSSCCCEEECSC-CSCCCEEECCSSC-CCCCGGGGGCTTCSEEECCSSCCCEEESGG
T ss_pred             ----------cccCCchhheeeccCCccccccccc-CCCCCEEECCCCC-CCCChhhccCCCCCEEECCCCccCCCCHHH
Confidence                      2344557778888777776665443 3678888875332 221111223345556666554433334556


Q ss_pred             HHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccccccCCC
Q 041360          450 MKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQ  529 (561)
Q Consensus       450 ~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~~~~~~~  529 (561)
                      +..+ ++|+.|+++++ .+..++..   ...+++|++|++++| .+..+|.     ....+++|+.|++.+|+-  .  .
T Consensus       274 ~~~l-~~L~~L~Ls~N-~l~~l~~~---~~~l~~L~~L~Ls~N-~l~~i~~-----~~~~l~~L~~L~L~~N~l--~--~  338 (597)
T 3oja_B          274 FVKM-QRLERLYISNN-RLVALNLY---GQPIPTLKVLDLSHN-HLLHVER-----NQPQFDRLENLYLDHNSI--V--T  338 (597)
T ss_dssp             GTTC-SSCCEEECTTS-CCCEEECS---SSCCTTCCEEECCSS-CCCCCGG-----GHHHHTTCSEEECCSSCC--C--C
T ss_pred             hcCc-cCCCEEECCCC-CCCCCCcc---cccCCCCcEEECCCC-CCCccCc-----ccccCCCCCEEECCCCCC--C--C
Confidence            6666 89999999874 45555543   456899999999985 6777773     336789999999999874  1  2


Q ss_pred             CCCCCCCCCcccCCCccc
Q 041360          530 KPTAASKGPEREKPTTSL  547 (561)
Q Consensus       530 ~~~~~l~~L~~L~i~~c~  547 (561)
                      .++..+++|+.|++.+++
T Consensus       339 ~~~~~~~~L~~L~l~~N~  356 (597)
T 3oja_B          339 LKLSTHHTLKNLTLSHND  356 (597)
T ss_dssp             CCCCTTCCCSEEECCSSC
T ss_pred             cChhhcCCCCEEEeeCCC
Confidence            246778899999998765

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.87  E-value=1.5e-21  Score=228.06  Aligned_cols=186  Identities=16%  Similarity=0.250  Sum_probs=154.7

Q ss_pred             CEEeeccchhhhcccCCcceEecCC-CCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHH
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIEV-LSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLD   79 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~~-L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~   79 (561)
                      ||||||++.|+....+..+.+++.+ |++++|++||.+.++..  .+++++++++|+++|+|+||||+++|++|+.++ .
T Consensus       260 ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~--~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~  336 (1249)
T 3sfz_A          260 ILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK--KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-N  336 (1249)
T ss_dssp             EEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC--STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-S
T ss_pred             EEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC--hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-h
Confidence            7999999999854466778999996 99999999999999632  345568899999999999999999999999775 5


Q ss_pred             HHHHHHHHHhhCCCCCCC----CchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCccccccc
Q 041360           80 IWKDALSQLRSSNPREID----GMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYT  155 (561)
Q Consensus        80 ~w~~~~~~l~~~~~~~~~----~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~  155 (561)
                      .|+..++++.......+.    .....+..++.+||+.||++ .|.||+|||+||+++.|++..++.+|.+++       
T Consensus       337 ~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~-------  408 (1249)
T 3sfz_A          337 RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLET-------  408 (1249)
T ss_dssp             CHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTT-THHHHHHGGGSCTTCCEEHHHHHHHHTCCH-------
T ss_pred             HHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHH-HHHHHHHhCccCCCCeeCHHHHHHHhCCCH-------
Confidence            799999998776433322    12467999999999999997 999999999999999999999999997652       


Q ss_pred             HHHHHHHHHHHHHHHHHcCcccccCC--CCceehhHHHHHHHHHHhhcC
Q 041360          156 LEEARSRVHRLIDNLKSSCLLLDGDG--KDEVKMHDVIHVVAVSIATEE  202 (561)
Q Consensus       156 ~~~~~~~~~~~i~~L~~~sll~~~~~--~~~~~mh~lv~~~~~~~~~~e  202 (561)
                           +.+.+++++|+++||++....  ..+|+||+++|++++....++
T Consensus       409 -----~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          409 -----EEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             -----HHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             -----HHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence                 234557889999999986532  235999999999999987665

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

Probab=99.87  E-value=5.1e-22  Score=214.63  Aligned_cols=315  Identities=12%  Similarity=0.061  Sum_probs=219.4

Q ss_pred             CCceEEEccCCCc-cccCCcc-CCCCccEEEeeccCC-------------------------------------------
Q 041360          223 KGPIAISLPHRDI-QELPERL-QCPNLELFLLFRKGY-------------------------------------------  257 (561)
Q Consensus       223 ~~l~~l~l~~~~~-~~l~~~~-~~~~L~~L~l~~~~~-------------------------------------------  257 (561)
                      .+++.++++++.+ +.+|+.+ .+++|++|+++++..                                           
T Consensus        81 ~~V~~L~L~~~~l~g~lp~~l~~L~~L~~L~Ls~N~~~~~~~~~~~~~~~~~~~~~~~~~l~l~l~~~~l~~~~~~~~~~  160 (636)
T 4eco_A           81 GRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSD  160 (636)
T ss_dssp             CCEEEEECTTSCCEEEECGGGGGCTTCCEEESCCGGGGGTCCSBSTTSBCTTCCHHHHHHHHTHHHHHHTCCCGGGGSCH
T ss_pred             CCEEEEEecCcccCCcCChHHhcCccceEEECcCCccccCCccccccccccCchHHHHHHHHhhHHHhhhccCchhhHHH
Confidence            4788889988888 4677666 789999999988731                                           


Q ss_pred             ---------------------------------CCccccHHHHcCCCCccEEEecCCCCCC------------------C
Q 041360          258 ---------------------------------GSMQISDLFFEGTEEVKVLSLTGVRFSS------------------L  286 (561)
Q Consensus       258 ---------------------------------~~~~~~~~~~~~l~~Lr~L~l~~~~i~~------------------l  286 (561)
                                                       .+..+|..+ +++++|++|++++|.+..                  +
T Consensus       161 ~~~~l~~~~l~~~~~~~~~~~~l~~l~l~~~~n~l~~ip~~l-~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~i  239 (636)
T 4eco_A          161 LIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAV-MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYK  239 (636)
T ss_dssp             HHHHHHHHCTTSCCCCCCCCCCCCTTTTTCCSCEEEEECGGG-GGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHT
T ss_pred             HHHHHhhcCccccccccccccchhhhhhccccCCCccCCHHH-hcccCCCEEECcCCccccccccccccccccchhcccC
Confidence                                             122366664 889999999999999888                  8


Q ss_pred             chhhc--CCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccCCc-Cc--ccChhhhcc------ccc----------cc
Q 041360          287 PSSLG--RLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRDSY-IE--ELPHEIGQL------TRL----------VV  343 (561)
Q Consensus       287 p~~i~--~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~-~~--~lp~~i~~L------~~L----------~~  343 (561)
                      |.+++  ++++|++|++++|.+..  |..++++++|++|++++|. +.  .+|.++++|      ++|          ..
T Consensus       240 p~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~  319 (636)
T 4eco_A          240 TEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKT  319 (636)
T ss_dssp             TSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSS
T ss_pred             chhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCc
Confidence            99888  99999999999998655  7889999999999999987 77  488888776      555          45


Q ss_pred             cCc-hhhcCCCCCcEEEccCCcccccccCC--------------CcccchHhhcCCCC-CcEEEEeeccCcccCccc---
Q 041360          344 IAP-NLISKFSQLEELYMGDSFSQWDKVEG--------------GSNASLAELKGLSK-LTTLEIQVRDAQILPQDL---  404 (561)
Q Consensus       344 l~~-~~i~~l~~L~~L~l~~~~~~~~~~~~--------------~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~---  404 (561)
                      +|. ..++++++|++|++++|.....++..              ........+.++++ |+.|+++.|.+..+|..+   
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~N~l~~lp~~~~~~  399 (636)
T 4eco_A          320 FPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAK  399 (636)
T ss_dssp             CCCHHHHTTCTTCCEEECCSCCCEEECCCCEEEEEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTT
T ss_pred             cCchhhhccCCCCCEEeCcCCcCccchhhhCCCCCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchhhhhc
Confidence            565 24888889999998888765333211              01123345667777 888888888877777654   


Q ss_pred             ccccccEEEEEeccc---cccCCC-----CccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccccccccc
Q 041360          405 VLVELQRYKICIGEA---WRMWGV-----TSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELD  476 (561)
Q Consensus       405 ~~~~L~~L~l~~~~~---~~~~~~-----~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~  476 (561)
                      .+++|+.|++..+..   .|.++.     .....++..|++.++. ....+..+...+++|+.|+++++. +..++...+
T Consensus       400 ~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~-l~~lp~~~~~~l~~L~~L~Ls~N~-l~~i~~~~~  477 (636)
T 4eco_A          400 SVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGNM-LTEIPKNSL  477 (636)
T ss_dssp             CSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSC-CCSCCTHHHHTTCCCSEEECCSSC-CSBCCSSSS
T ss_pred             ccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCc-cCcCCHHHHccCCCCCEEECCCCC-CCCcCHHHh
Confidence            234678877753321   122222     1134467778887765 334555554434899999999854 446655432


Q ss_pred             C-----CCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          477 D-----GEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       477 ~-----~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      .     ...+++|++|+++++ +++.+|...   ....+++|+.|++.+|.- .+   +..+..+++|+.|+++++.
T Consensus       478 ~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~---~~~~l~~L~~L~Ls~N~l~~i---p~~~~~l~~L~~L~Ls~N~  547 (636)
T 4eco_A          478 KDENENFKNTYLLTSIDLRFN-KLTKLSDDF---RATTLPYLVGIDLSYNSFSKF---PTQPLNSSTLKGFGIRNQR  547 (636)
T ss_dssp             EETTEECTTGGGCCEEECCSS-CCCBCCGGG---STTTCTTCCEEECCSSCCSSC---CCGGGGCSSCCEEECCSCB
T ss_pred             ccccccccccCCccEEECcCC-cCCccChhh---hhccCCCcCEEECCCCCCCCc---ChhhhcCCCCCEEECCCCc
Confidence            0     012339999999995 677777322   113889999999999875 43   3346789999999997644

>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=99.86  E-value=5.3e-21  Score=206.27  Aligned_cols=117  Identities=26%  Similarity=0.342  Sum_probs=88.0

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L  299 (561)
                      ++++++++++|.+..++.. + .+++|++|+++++.  +..+++..|+++++|++|++++|.+..+ |..++.+.+|++|
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~--l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L  109 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE--IETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENL  109 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC--CCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEE
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCc--ccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEE
Confidence            6788888888888777653 3 77888888888876  5566555567888888888888888776 6778888888888


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCc--ccChhhhccccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIE--ELPHEIGQLTRL  341 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~--~lp~~i~~L~~L  341 (561)
                      ++++|.+.. + ..++++++|++|++++|.+.  .+|..++++++|
T Consensus       110 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L  155 (606)
T 3vq2_A          110 VAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNL  155 (606)
T ss_dssp             ECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGGGTCTTC
T ss_pred             EccCCccccccccccCCCCCCCEEeCCCCcccceechHhHhhcCCC
Confidence            888888766 3 66788888888888887776  367777777666

>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=99.86  E-value=7e-21  Score=199.12  Aligned_cols=289  Identities=14%  Similarity=0.088  Sum_probs=171.1

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      ..++.|++++|.+..++. .+ .+++|++|+++++.  +..++...|+++++|++|++++|.+..+|. .+..+++|++|
T Consensus        32 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  109 (477)
T 2id5_A           32 TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENI--VSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKL  109 (477)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEE
T ss_pred             CCCcEEECCCCccceECHhHccCCCCCCEEECCCCc--cCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEE
Confidence            678888888888877754 33 78888888888886  555644445888888888888888888875 46788888888


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccc
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS  377 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~  377 (561)
                      ++++|.+..  +..+.++++|++|++++|.+..++.             ..++++++|++|++++|......        
T Consensus       110 ~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~~--------  168 (477)
T 2id5_A          110 DISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISH-------------RAFSGLNSLEQLTLEKCNLTSIP--------  168 (477)
T ss_dssp             ECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECT-------------TSSTTCTTCCEEEEESCCCSSCC--------
T ss_pred             ECCCCccccCChhHccccccCCEEECCCCccceeCh-------------hhccCCCCCCEEECCCCcCcccC--------
Confidence            888888776  5678888888888888887765532             22556667777777666543111        


Q ss_pred             hHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCC-CCccccceEEEecCCccchhhhh-hhHHHh
Q 041360          378 LAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWG-VTSEISRLVRLHGLENVSTLLEN-YGMKML  453 (561)
Q Consensus       378 ~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~-~~~~~~~l~~L~~~~~~~~~~~~-~~~~~l  453 (561)
                      ...+.++++|+.|+++.|.+..++..  ..+++|+.|++..+....... ......++..|++.++. ....+ ..+..+
T Consensus       169 ~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~-l~~~~~~~~~~l  247 (477)
T 2id5_A          169 TEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCN-LTAVPYLAVRHL  247 (477)
T ss_dssp             HHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSC-CCSCCHHHHTTC
T ss_pred             hhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCc-ccccCHHHhcCc
Confidence            14466667777777776666555432  255667777665432211110 01111234444444433 22222 233343


Q ss_pred             hccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCC
Q 041360          454 LKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPT  532 (561)
Q Consensus       454 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~  532 (561)
                       ++|+.|+++++. +..++...  ...+++|++|++.++ +++.++.    .....+++|+.|++.++.- .+...  .+
T Consensus       248 -~~L~~L~Ls~n~-l~~~~~~~--~~~l~~L~~L~L~~n-~l~~~~~----~~~~~l~~L~~L~L~~N~l~~~~~~--~~  316 (477)
T 2id5_A          248 -VYLRFLNLSYNP-ISTIEGSM--LHELLRLQEIQLVGG-QLAVVEP----YAFRGLNYLRVLNVSGNQLTTLEES--VF  316 (477)
T ss_dssp             -TTCCEEECCSSC-CCEECTTS--CTTCTTCCEEECCSS-CCSEECT----TTBTTCTTCCEEECCSSCCSCCCGG--GB
T ss_pred             -cccCeeECCCCc-CCccChhh--ccccccCCEEECCCC-ccceECH----HHhcCcccCCEEECCCCcCceeCHh--Hc
Confidence             666777776543 33333221  245666666666663 4443321    1224456666666666543 22111  13


Q ss_pred             CCCCCCcccCCCcc
Q 041360          533 AASKGPEREKPTTS  546 (561)
Q Consensus       533 ~~l~~L~~L~i~~c  546 (561)
                      ..+++|+.|++.++
T Consensus       317 ~~l~~L~~L~l~~N  330 (477)
T 2id5_A          317 HSVGNLETLILDSN  330 (477)
T ss_dssp             SCGGGCCEEECCSS
T ss_pred             CCCcccCEEEccCC
Confidence            44556666666544

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

Probab=99.86  E-value=1.8e-21  Score=214.36  Aligned_cols=304  Identities=13%  Similarity=0.085  Sum_probs=193.3

Q ss_pred             CCceEEEccCCCccc------------------cCCcc---CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC
Q 041360          223 KGPIAISLPHRDIQE------------------LPERL---QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV  281 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~------------------l~~~~---~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~  281 (561)
                      .+++.|++++|.+..                  +|..+   .+++|+.|++++|. ....+|..+ +++++|++|++++|
T Consensus       448 ~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~-l~~~iP~~l-~~L~~L~~L~Ls~N  525 (876)
T 4ecn_A          448 TKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCP-NMTQLPDFL-YDLPELQSLNIACN  525 (876)
T ss_dssp             TTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCT-TCCSCCGGG-GGCSSCCEEECTTC
T ss_pred             CCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCC-CCccChHHH-hCCCCCCEEECcCC
Confidence            678999999998877                  88876   58999999999987 566777664 88899999999998


Q ss_pred             C-CCC--CchhhcCCC-------CCcEEEeCCCCCCC-cc--cccCCCCCcEEEccCCcCcccChhhhccccc-------
Q 041360          282 R-FSS--LPSSLGRLF-------NLQTLCLGGCRLKD-IA--IVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------  341 (561)
Q Consensus       282 ~-i~~--lp~~i~~L~-------~L~~L~l~~~~l~~-p~--~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------  341 (561)
                      . +..  +|..++.+.       +|++|++++|.+.. |.  .++++++|++|++++|.+..+| .++++++|       
T Consensus       526 ~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L~~L~Ls~  604 (876)
T 4ecn_A          526 RGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKLDY  604 (876)
T ss_dssp             TTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC-CCCTTSEESEEECCS
T ss_pred             CCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccch-hhcCCCcceEEECcC
Confidence            7 775  787777665       88888888888877 76  7888888888888888888888 77777666       


Q ss_pred             ---cccCchhhcCCCC-CcEEEccCCcccccccCCCc---------------------ccchHhhc--CCCCCcEEEEee
Q 041360          342 ---VVIAPNLISKFSQ-LEELYMGDSFSQWDKVEGGS---------------------NASLAELK--GLSKLTTLEIQV  394 (561)
Q Consensus       342 ---~~l~~~~i~~l~~-L~~L~l~~~~~~~~~~~~~~---------------------~~~~~~l~--~l~~L~~L~l~~  394 (561)
                         ..+|.. +.++++ |+.|++++|.+. .++..-.                     ......+.  .+.+|+.|+++.
T Consensus       605 N~l~~lp~~-l~~l~~~L~~L~Ls~N~L~-~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~  682 (876)
T 4ecn_A          605 NQIEEIPED-FCAFTDQVEGLGFSHNKLK-YIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSY  682 (876)
T ss_dssp             SCCSCCCTT-SCEECTTCCEEECCSSCCC-SCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCS
T ss_pred             CccccchHH-HhhccccCCEEECcCCCCC-cCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccC
Confidence               344544 677777 888888887654 2221100                     00000111  223666777776


Q ss_pred             ccCcccCccc--ccccccEEEEEecc--ccccCCCCcc------ccceEEEecCCccchhhhhhhHH--Hhhccccceee
Q 041360          395 RDAQILPQDL--VLVELQRYKICIGE--AWRMWGVTSE------ISRLVRLHGLENVSTLLENYGMK--MLLKEAEEIHL  462 (561)
Q Consensus       395 ~~~~~~~~~~--~~~~L~~L~l~~~~--~~~~~~~~~~------~~~l~~L~~~~~~~~~~~~~~~~--~ll~~L~~L~l  462 (561)
                      |.+..+|...  .+++|+.|++..+.  .+|.+.....      ..++..|++.+|. ....+..+.  .+ ++|+.|++
T Consensus       683 N~L~~lp~~~~~~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~-L~~lp~~l~~~~l-~~L~~L~L  760 (876)
T 4ecn_A          683 NEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNK-LTSLSDDFRATTL-PYLSNMDV  760 (876)
T ss_dssp             SCCCSCCHHHHHTTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSC-CCCCCGGGSTTTC-TTCCEEEC
T ss_pred             CcCCccCHHHHccCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCC-CccchHHhhhccC-CCcCEEEe
Confidence            6666666553  45677777774322  2222111111      1155566665544 224444443  33 77777777


Q ss_pred             ccccCcccccccccCCCCCCCccEEEEecCC------ccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCC
Q 041360          463 NELKGVQNAVHELDDGEGFPRLKHLRVESCS------EILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAAS  535 (561)
Q Consensus       463 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~------~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l  535 (561)
                      +++ .+..++..   ...+++|+.|++++++      -...+|.     ....+++|+.|++.+|.- .++     ....
T Consensus       761 s~N-~L~~lp~~---l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~-----~l~~L~~L~~L~Ls~N~L~~Ip-----~~l~  826 (876)
T 4ecn_A          761 SYN-CFSSFPTQ---PLNSSQLKAFGIRHQRDAEGNRILRQWPT-----GITTCPSLIQLQIGSNDIRKVD-----EKLT  826 (876)
T ss_dssp             CSS-CCSSCCCG---GGGCTTCCEEECCCCBCTTCCBCCCCCCT-----TGGGCSSCCEEECCSSCCCBCC-----SCCC
T ss_pred             CCC-CCCccchh---hhcCCCCCEEECCCCCCcccccccccChH-----HHhcCCCCCEEECCCCCCCccC-----Hhhc
Confidence            764 33345544   3357777777776532      1223331     235577777777777764 332     2233


Q ss_pred             CCCcccCCCccc
Q 041360          536 KGPEREKPTTSL  547 (561)
Q Consensus       536 ~~L~~L~i~~c~  547 (561)
                      ++|+.|++++|+
T Consensus       827 ~~L~~LdLs~N~  838 (876)
T 4ecn_A          827 PQLYILDIADNP  838 (876)
T ss_dssp             SSSCEEECCSCT
T ss_pred             CCCCEEECCCCC
Confidence            577777777775

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

Probab=99.86  E-value=2.3e-21  Score=209.50  Aligned_cols=304  Identities=13%  Similarity=0.115  Sum_probs=196.1

Q ss_pred             CCceEEEccCCCccc------------------cCCccC---CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC
Q 041360          223 KGPIAISLPHRDIQE------------------LPERLQ---CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV  281 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~------------------l~~~~~---~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~  281 (561)
                      .+++.|++++|.+..                  +|..+.   +++|++|++++|. ....+|..+ +++++|++|++++|
T Consensus       206 ~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~-l~~~~p~~l-~~l~~L~~L~Ls~n  283 (636)
T 4eco_A          206 TKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCP-NLTKLPTFL-KALPEMQLINVACN  283 (636)
T ss_dssp             TTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCT-TCSSCCTTT-TTCSSCCEEECTTC
T ss_pred             cCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCc-CCccChHHH-hcCCCCCEEECcCC
Confidence            678999999998877                  887764   8899999999987 566777665 88999999999999


Q ss_pred             C-CCC--CchhhcCC------CCCcEEEeCCCCCCC-cc--cccCCCCCcEEEccCCcCc-ccChhhhccccc-------
Q 041360          282 R-FSS--LPSSLGRL------FNLQTLCLGGCRLKD-IA--IVGQLKKLEILSFRDSYIE-ELPHEIGQLTRL-------  341 (561)
Q Consensus       282 ~-i~~--lp~~i~~L------~~L~~L~l~~~~l~~-p~--~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L-------  341 (561)
                      . ++.  +|..++.+      ++|++|++++|.++. |.  .++++++|++|++++|.+. .+| .++++++|       
T Consensus       284 ~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~  362 (636)
T 4eco_A          284 RGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAY  362 (636)
T ss_dssp             TTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCS
T ss_pred             CCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCC
Confidence            7 875  78888876      889999999998888 77  7889999999999888888 888 77777666       


Q ss_pred             ---cccCchhhcCCCC-CcEEEccCCcccccccCC-C-----------------cccchHhhc-------CCCCCcEEEE
Q 041360          342 ---VVIAPNLISKFSQ-LEELYMGDSFSQWDKVEG-G-----------------SNASLAELK-------GLSKLTTLEI  392 (561)
Q Consensus       342 ---~~l~~~~i~~l~~-L~~L~l~~~~~~~~~~~~-~-----------------~~~~~~~l~-------~l~~L~~L~l  392 (561)
                         ..+|.. ++++++ |++|++++|... .++.. .                 .......+.       .+++|+.|++
T Consensus       363 N~l~~lp~~-l~~l~~~L~~L~Ls~N~l~-~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~L  440 (636)
T 4eco_A          363 NQITEIPAN-FCGFTEQVENLSFAHNKLK-YIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINL  440 (636)
T ss_dssp             SEEEECCTT-SEEECTTCCEEECCSSCCS-SCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEEC
T ss_pred             CccccccHh-hhhhcccCcEEEccCCcCc-ccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEEC
Confidence               344544 677777 888888887654 22211 0                 000012233       4556777777


Q ss_pred             eeccCcccCccc--ccccccEEEEEecc--ccccCCCCcc------ccceEEEecCCccchhhhhhhHH--Hhhccccce
Q 041360          393 QVRDAQILPQDL--VLVELQRYKICIGE--AWRMWGVTSE------ISRLVRLHGLENVSTLLENYGMK--MLLKEAEEI  460 (561)
Q Consensus       393 ~~~~~~~~~~~~--~~~~L~~L~l~~~~--~~~~~~~~~~------~~~l~~L~~~~~~~~~~~~~~~~--~ll~~L~~L  460 (561)
                      +.|.+..+|...  .+++|+.|++..+.  .+|.......      ..++..|++.+|. ....+..+.  .+ ++|+.|
T Consensus       441 s~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~lp~~~~~~~l-~~L~~L  518 (636)
T 4eco_A          441 SNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNK-LTKLSDDFRATTL-PYLVGI  518 (636)
T ss_dssp             CSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSC-CCBCCGGGSTTTC-TTCCEE
T ss_pred             cCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCc-CCccChhhhhccC-CCcCEE
Confidence            777766666543  36777777774322  1121111000      0155566665544 234444443  43 777777


Q ss_pred             eeccccCcccccccccCCCCCCCccEEEEecCC------ccchhhcccCcccCCcCccccccccccccc-cccCCCCCCC
Q 041360          461 HLNELKGVQNAVHELDDGEGFPRLKHLRVESCS------EILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTA  533 (561)
Q Consensus       461 ~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~------~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~  533 (561)
                      +++++. +..+|..   ...+++|++|+++++.      -...+|.     ....+++|+.|++.+|.- .++.     .
T Consensus       519 ~Ls~N~-l~~ip~~---~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~-----~l~~l~~L~~L~Ls~N~l~~ip~-----~  584 (636)
T 4eco_A          519 DLSYNS-FSKFPTQ---PLNSSTLKGFGIRNQRDAQGNRTLREWPE-----GITLCPSLTQLQIGSNDIRKVNE-----K  584 (636)
T ss_dssp             ECCSSC-CSSCCCG---GGGCSSCCEEECCSCBCTTCCBCCCCCCT-----TGGGCSSCCEEECCSSCCCBCCS-----C
T ss_pred             ECCCCC-CCCcChh---hhcCCCCCEEECCCCcccccCcccccChH-----HHhcCCCCCEEECCCCcCCccCH-----h
Confidence            777643 3335544   2357777777775422      1233331     234567777777777764 3322     2


Q ss_pred             CCCCCcccCCCccc
Q 041360          534 ASKGPEREKPTTSL  547 (561)
Q Consensus       534 ~l~~L~~L~i~~c~  547 (561)
                      ..++|+.|++.+|+
T Consensus       585 ~~~~L~~L~Ls~N~  598 (636)
T 4eco_A          585 ITPNISVLDIKDNP  598 (636)
T ss_dssp             CCTTCCEEECCSCT
T ss_pred             HhCcCCEEECcCCC
Confidence            23677777777764

>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=99.86  E-value=1.6e-20  Score=195.75  Aligned_cols=289  Identities=16%  Similarity=0.175  Sum_probs=196.7

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++++++++|.+..++....+++|++|+++++.  +..++.  ++++++|++|++++|.+..+|. +..+++|++|+++
T Consensus        68 ~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l~~n~--l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l~  142 (466)
T 1o6v_A           68 NNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQ--IADITP--LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLELS  142 (466)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEEE
T ss_pred             cCCCEEECCCCccCCchhhhccccCCEEECCCCc--cccChh--hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEECC
Confidence            6788888888888877764478888888888886  566665  5888888888888888888765 7888888888888


Q ss_pred             CCCCCCccc---------------------ccCCCCCcEEEccCCcCcccChhhhccccccccC--------chhhcCCC
Q 041360          303 GCRLKDIAI---------------------VGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA--------PNLISKFS  353 (561)
Q Consensus       303 ~~~l~~p~~---------------------i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~--------~~~i~~l~  353 (561)
                      +|.+...+.                     ++++++|++|++++|.+..++. +.++++|+.+.        ...++.++
T Consensus       143 ~n~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~~~~l~  221 (466)
T 1o6v_A          143 SNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISV-LAKLTNLESLIATNNQISDITPLGILT  221 (466)
T ss_dssp             EEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECCSSCCCCCGGGGGCT
T ss_pred             CCccCCChhhccCCcccEeecCCcccCchhhccCCCCCEEECcCCcCCCChh-hccCCCCCEEEecCCcccccccccccC
Confidence            887665223                     4455566666666666555542 44444442110        00145666


Q ss_pred             CCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceE
Q 041360          354 QLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLV  433 (561)
Q Consensus       354 ~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~  433 (561)
                      +|++|++++|...          .+..+..+++|+.|+++.|.+..++....+++|+.|++..+. +..........++.
T Consensus       222 ~L~~L~l~~n~l~----------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~l~~L~  290 (466)
T 1o6v_A          222 NLDELSLNGNQLK----------DIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQ-ISNISPLAGLTALT  290 (466)
T ss_dssp             TCCEEECCSSCCC----------CCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSC-CCCCGGGTTCTTCS
T ss_pred             CCCEEECCCCCcc----------cchhhhcCCCCCEEECCCCccccchhhhcCCCCCEEECCCCc-cCccccccCCCccC
Confidence            7777777666442          124577788999999998888877766678889999885432 22222223344566


Q ss_pred             EEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccc
Q 041360          434 RLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLL  513 (561)
Q Consensus       434 ~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L  513 (561)
                      .|++.++. .... ..+..+ ++|+.|+++++. +...+.    ...+++|++|++.+| .++.++      ....+++|
T Consensus       291 ~L~L~~n~-l~~~-~~~~~l-~~L~~L~L~~n~-l~~~~~----~~~l~~L~~L~l~~n-~l~~~~------~l~~l~~L  355 (466)
T 1o6v_A          291 NLELNENQ-LEDI-SPISNL-KNLTYLTLYFNN-ISDISP----VSSLTKLQRLFFYNN-KVSDVS------SLANLTNI  355 (466)
T ss_dssp             EEECCSSC-CSCC-GGGGGC-TTCSEEECCSSC-CSCCGG----GGGCTTCCEEECCSS-CCCCCG------GGTTCTTC
T ss_pred             eEEcCCCc-ccCc-hhhcCC-CCCCEEECcCCc-CCCchh----hccCccCCEeECCCC-ccCCch------hhccCCCC
Confidence            66666544 2222 224454 899999999864 444433    346899999999986 666664      45678999


Q ss_pred             cccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          514 ESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       514 ~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      +.|++.+|+- .+    .++..+++|+.|++.+|.
T Consensus       356 ~~L~l~~n~l~~~----~~~~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          356 NWLSAGHNQISDL----TPLANLTRITQLGLNDQA  386 (466)
T ss_dssp             CEEECCSSCCCBC----GGGTTCTTCCEEECCCEE
T ss_pred             CEEeCCCCccCcc----chhhcCCCCCEEeccCCc
Confidence            9999998875 22    236788899999998874

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

Probab=99.85  E-value=4.2e-21  Score=211.45  Aligned_cols=271  Identities=11%  Similarity=0.095  Sum_probs=189.7

Q ss_pred             CCccccCCcc-CCCCccEEEeeccCCCCcc------------------ccHHH-HcCCCCccEEEecCCCCC-CCchhhc
Q 041360          233 RDIQELPERL-QCPNLELFLLFRKGYGSMQ------------------ISDLF-FEGTEEVKVLSLTGVRFS-SLPSSLG  291 (561)
Q Consensus       233 ~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~------------------~~~~~-~~~l~~Lr~L~l~~~~i~-~lp~~i~  291 (561)
                      |.+..+|..+ .+++|++|+++++.  +..                  +|..+ |.++++|++|++++|.+. .+|..++
T Consensus       435 N~L~~IP~~l~~L~~L~~L~Ls~N~--Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~  512 (876)
T 4ecn_A          435 NRITFISKAIQRLTKLQIIYFANSP--FTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLY  512 (876)
T ss_dssp             CEEEEECGGGGGCTTCCEEEEESCC--CCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGG
T ss_pred             CcccchhHHHhcCCCCCEEECcCCc--CCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHh
Confidence            5555588877 89999999999998  444                  88876 349999999999999855 4899999


Q ss_pred             CCCCCcEEEeCCCC-CCC---cccccCCC-------CCcEEEccCCcCcccCh--hhhccccc----------cccCchh
Q 041360          292 RLFNLQTLCLGGCR-LKD---IAIVGQLK-------KLEILSFRDSYIEELPH--EIGQLTRL----------VVIAPNL  348 (561)
Q Consensus       292 ~L~~L~~L~l~~~~-l~~---p~~i~~L~-------~L~~L~l~~~~~~~lp~--~i~~L~~L----------~~l~~~~  348 (561)
                      ++++|++|++++|. ++.   |..++++.       +|++|++++|.+..+|.  .++++++|          ..+|  .
T Consensus       513 ~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp--~  590 (876)
T 4ecn_A          513 DLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE--A  590 (876)
T ss_dssp             GCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC--C
T ss_pred             CCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccch--h
Confidence            99999999999998 773   66676665       99999999999999999  89988887          4556  4


Q ss_pred             hcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCC-CcEEEEeeccCcccCccc---ccccccEEEEEeccc---cc
Q 041360          349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSK-LTTLEIQVRDAQILPQDL---VLVELQRYKICIGEA---WR  421 (561)
Q Consensus       349 i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~---~~~~L~~L~l~~~~~---~~  421 (561)
                      ++++++|+.|++++|... ..+        ..+.++++ |+.|+++.|.+..+|..+   ..++|+.|++..+..   .|
T Consensus       591 ~~~L~~L~~L~Ls~N~l~-~lp--------~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip  661 (876)
T 4ecn_A          591 FGTNVKLTDLKLDYNQIE-EIP--------EDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGR  661 (876)
T ss_dssp             CCTTSEESEEECCSSCCS-CCC--------TTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSS
T ss_pred             hcCCCcceEEECcCCccc-cch--------HHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccc
Confidence            889999999999999765 333        45788888 999999999998888664   234588888854321   12


Q ss_pred             cC---CCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccC-----CCCCCCccEEEEecCC
Q 041360          422 MW---GVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDD-----GEGFPRLKHLRVESCS  493 (561)
Q Consensus       422 ~~---~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~-----~~~~~~L~~L~l~~c~  493 (561)
                      .+   .......++..|++.+|. ....+.++...+++|+.|+++++ .+..++..++.     ...+++|++|++++| 
T Consensus       662 ~l~~~l~~~~~~~L~~L~Ls~N~-L~~lp~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N-  738 (876)
T 4ecn_A          662 NISCSMDDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGNYKNTYLLTTIDLRFN-  738 (876)
T ss_dssp             SCSSCTTTCCCCCEEEEECCSSC-CCSCCHHHHHTTCCCSEEECCSC-CCSCCCTTSSSCTTSCCTTGGGCCEEECCSS-
T ss_pred             cchhhhccccCCCcCEEEccCCc-CCccCHHHHccCCCCCEEECCCC-cCCccChHHhccccccccccCCccEEECCCC-
Confidence            22   222334467778777765 33445555433377888887764 34455443220     011236666666664 


Q ss_pred             ccchhhcccCcccCCcCcccccccccccc
Q 041360          494 EILHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       494 ~l~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      +++.+|...   ....+++|+.|++.+|.
T Consensus       739 ~L~~lp~~l---~~~~l~~L~~L~Ls~N~  764 (876)
T 4ecn_A          739 KLTSLSDDF---RATTLPYLSNMDVSYNC  764 (876)
T ss_dssp             CCCCCCGGG---STTTCTTCCEEECCSSC
T ss_pred             CCccchHHh---hhccCCCcCEEEeCCCC
Confidence            555555211   01145555555555544

>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=99.85  E-value=2.5e-20  Score=186.43  Aligned_cols=268  Identities=16%  Similarity=0.180  Sum_probs=206.9

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      ++++++++++|.+..++....+++|++|+++++.  +..++.  |+++++|++|++++|.+..+|. +..+++|++|+++
T Consensus        66 ~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~--i~~~~~--~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~  140 (347)
T 4fmz_A           66 TNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNK--ITDISA--LQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLG  140 (347)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC--CCCCGG--GTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECT
T ss_pred             CCccEEEccCCccccchhhhcCCcCCEEEccCCc--ccCchH--HcCCCcCCEEECcCCcccCchh-hccCCceeEEECC
Confidence            6899999999999888875589999999999997  666764  6899999999999999999887 8999999999999


Q ss_pred             CCC-CCCcccccCCCCCcEEEccCCcCcccChhhhcccccc----------ccCchhhcCCCCCcEEEccCCcccccccC
Q 041360          303 GCR-LKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLV----------VIAPNLISKFSQLEELYMGDSFSQWDKVE  371 (561)
Q Consensus       303 ~~~-l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~----------~l~~~~i~~l~~L~~L~l~~~~~~~~~~~  371 (561)
                      +|. +..++.+..+++|++|++++|.+..++. +..+++|+          .++.  +..+++|+.|++++|....    
T Consensus       141 ~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~----  213 (347)
T 4fmz_A          141 ANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTAYVNQITD----  213 (347)
T ss_dssp             TCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCC----
T ss_pred             CCCCcccccchhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCccccccc--ccCCCccceeecccCCCCC----
Confidence            997 4447779999999999999999888875 66666662          3333  7889999999999886531    


Q ss_pred             CCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHH
Q 041360          372 GGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMK  451 (561)
Q Consensus       372 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~  451 (561)
                            ...+..+++|+.|+++.|.+..++....+++|+.|++..+ .+..........++..|++.+|. ... ...+.
T Consensus       214 ------~~~~~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~l~~L~~L~l~~n~-l~~-~~~~~  284 (347)
T 4fmz_A          214 ------ITPVANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTN-QISDINAVKDLTKLKMLNVGSNQ-ISD-ISVLN  284 (347)
T ss_dssp             ------CGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSS-CCCCCGGGTTCTTCCEEECCSSC-CCC-CGGGG
T ss_pred             ------CchhhcCCcCCEEEccCCccCCCcchhcCCCCCEEECCCC-ccCCChhHhcCCCcCEEEccCCc-cCC-Chhhc
Confidence                  1227788999999999999988887668899999998643 22222222334456666666644 222 23455


Q ss_pred             HhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCcccccccccccc
Q 041360          452 MLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       452 ~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      .+ ++|+.|+++++.-....+..   ...+++|++|++++|+ ++.++      ....+++|++|++.+|+
T Consensus       285 ~l-~~L~~L~L~~n~l~~~~~~~---l~~l~~L~~L~L~~n~-l~~~~------~~~~l~~L~~L~l~~N~  344 (347)
T 4fmz_A          285 NL-SQLNSLFLNNNQLGNEDMEV---IGGLTNLTTLFLSQNH-ITDIR------PLASLSKMDSADFANQV  344 (347)
T ss_dssp             GC-TTCSEEECCSSCCCGGGHHH---HHTCTTCSEEECCSSS-CCCCG------GGGGCTTCSEESSSCC-
T ss_pred             CC-CCCCEEECcCCcCCCcChhH---hhccccCCEEEccCCc-ccccc------Chhhhhccceeehhhhc
Confidence            55 99999999987544333333   3479999999999974 77666      35789999999999986

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

Probab=99.85  E-value=5.5e-21  Score=194.47  Aligned_cols=276  Identities=12%  Similarity=0.129  Sum_probs=202.1

Q ss_pred             CCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCCCCCC--cccccCC
Q 041360          239 PERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKD--IAIVGQL  315 (561)
Q Consensus       239 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L  315 (561)
                      +..+.+++++.|++.++.  +..+|..+|+++++|++|++++|.+..+| ..+..+++|++|++++|.+..  |..++++
T Consensus        39 ~~~~~l~~l~~l~l~~~~--l~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l  116 (390)
T 3o6n_A           39 FEDITLNNQKIVTFKNST--MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNV  116 (390)
T ss_dssp             CSSGGGCCCSEEEEESCE--ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             ccccccCCceEEEecCCc--hhhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCC
Confidence            334578999999999997  88999998899999999999999999976 489999999999999999888  4678999


Q ss_pred             CCCcEEEccCCcCcccChhh-hccccc----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCC
Q 041360          316 KKLEILSFRDSYIEELPHEI-GQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGL  384 (561)
Q Consensus       316 ~~L~~L~l~~~~~~~lp~~i-~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l  384 (561)
                      ++|++|++++|.+..+|.++ +++++|          ..+++..++++++|++|++++|....           ..+..+
T Consensus       117 ~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~-----------~~~~~l  185 (390)
T 3o6n_A          117 PLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTH-----------VDLSLI  185 (390)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSB-----------CCGGGC
T ss_pred             CCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCc-----------cccccc
Confidence            99999999999999998764 556555          33444446777888888887775431           124556


Q ss_pred             CCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeecc
Q 041360          385 SKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNE  464 (561)
Q Consensus       385 ~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~  464 (561)
                      ++|+.|+++.|.+..++   ..++|+.|++.... +... +.....++..|++.++. . ....++..+ ++|+.|++++
T Consensus       186 ~~L~~L~l~~n~l~~~~---~~~~L~~L~l~~n~-l~~~-~~~~~~~L~~L~l~~n~-l-~~~~~l~~l-~~L~~L~Ls~  257 (390)
T 3o6n_A          186 PSLFHANVSYNLLSTLA---IPIAVEELDASHNS-INVV-RGPVNVELTILKLQHNN-L-TDTAWLLNY-PGLVEVDLSY  257 (390)
T ss_dssp             TTCSEEECCSSCCSEEE---CCSSCSEEECCSSC-CCEE-ECCCCSSCCEEECCSSC-C-CCCGGGGGC-TTCSEEECCS
T ss_pred             cccceeecccccccccC---CCCcceEEECCCCe-eeec-cccccccccEEECCCCC-C-cccHHHcCC-CCccEEECCC
Confidence            77888888877665443   34577887774332 1111 11223456667776543 2 223455565 9999999998


Q ss_pred             ccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCC
Q 041360          465 LKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKP  543 (561)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i  543 (561)
                      +.-....+..   ...+++|++|+++++ +++.++     .....+++|+.|++.+|.- .++.   .+..+++|+.|++
T Consensus       258 n~l~~~~~~~---~~~l~~L~~L~L~~n-~l~~~~-----~~~~~l~~L~~L~L~~n~l~~~~~---~~~~l~~L~~L~L  325 (390)
T 3o6n_A          258 NELEKIMYHP---FVKMQRLERLYISNN-RLVALN-----LYGQPIPTLKVLDLSHNHLLHVER---NQPQFDRLENLYL  325 (390)
T ss_dssp             SCCCEEESGG---GTTCSSCCEEECCSS-CCCEEE-----CSSSCCTTCCEEECCSSCCCCCGG---GHHHHTTCSEEEC
T ss_pred             CcCCCcChhH---ccccccCCEEECCCC-cCcccC-----cccCCCCCCCEEECCCCcceecCc---cccccCcCCEEEC
Confidence            6433333333   457999999999994 777776     2346789999999999974 4332   2567889999999


Q ss_pred             Cccc
Q 041360          544 TTSL  547 (561)
Q Consensus       544 ~~c~  547 (561)
                      .+|.
T Consensus       326 ~~N~  329 (390)
T 3o6n_A          326 DHNS  329 (390)
T ss_dssp             CSSC
T ss_pred             CCCc
Confidence            8875

>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=99.85  E-value=1e-20  Score=196.74  Aligned_cols=313  Identities=16%  Similarity=0.155  Sum_probs=189.3

Q ss_pred             ccCCCceEEEccCCCccccC-Ccc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCC
Q 041360          220 TKQKGPIAISLPHRDIQELP-ERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNL  296 (561)
Q Consensus       220 ~~~~~l~~l~l~~~~~~~l~-~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L  296 (561)
                      .+ +++++|++++|.+..++ ..+ .+++|++|+++++. ....++...|+++++|++|++++|.+..+ |..++.+.+|
T Consensus        28 l~-~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~-~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  105 (455)
T 3v47_A           28 LP-AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQT-PGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANL  105 (455)
T ss_dssp             CC-TTCCEEECCSSCCCEECTTTTSSCTTCCEEECCCCS-TTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTC
T ss_pred             CC-CccCEEEecCCccCcCChhHhccCccccEEECcCCc-ccceECcccccccccCCEEeCCCCccCccChhhccCcccC
Confidence            44 78999999999998774 444 89999999999997 34467666679999999999999999886 7889999999


Q ss_pred             cEEEeCCCCCCC--ccc--ccCCCCCcEEEccCCcCccc-Chh-hhcccccccc----------CchhhcCC--CCCcEE
Q 041360          297 QTLCLGGCRLKD--IAI--VGQLKKLEILSFRDSYIEEL-PHE-IGQLTRLVVI----------APNLISKF--SQLEEL  358 (561)
Q Consensus       297 ~~L~l~~~~l~~--p~~--i~~L~~L~~L~l~~~~~~~l-p~~-i~~L~~L~~l----------~~~~i~~l--~~L~~L  358 (561)
                      ++|++++|.+..  |..  ++.+++|++|++++|.+..+ |.. ++++++|+.+          +...+..+  .+|+.|
T Consensus       106 ~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L  185 (455)
T 3v47_A          106 EVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLL  185 (455)
T ss_dssp             CEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEE
T ss_pred             CEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccccChhhhhcccccccccc
Confidence            999999999887  544  99999999999999998877 444 5666666221          12122222  344444


Q ss_pred             EccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc-Ccc----------------------------------
Q 041360          359 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL-PQD----------------------------------  403 (561)
Q Consensus       359 ~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-~~~----------------------------------  403 (561)
                      ++.+|.................+..+++|+.|+++.|.+... +..                                  
T Consensus       186 ~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~  265 (455)
T 3v47_A          186 RLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPD  265 (455)
T ss_dssp             ECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCC
T ss_pred             ccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccceeeEeeccccccccccchhhhccCc
Confidence            444443221111000000011122334455555554433210 000                                  


Q ss_pred             ------cccccccEEEEEecc---ccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccccccc
Q 041360          404 ------LVLVELQRYKICIGE---AWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHE  474 (561)
Q Consensus       404 ------~~~~~L~~L~l~~~~---~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~  474 (561)
                            ...++|+.|++..+.   ..+.+....  .++..|++.++......+..+..+ ++|+.|+++++. +..++..
T Consensus       266 ~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l--~~L~~L~Ls~n~l~~~~~~~~~~l-~~L~~L~Ls~N~-l~~~~~~  341 (455)
T 3v47_A          266 NFTFKGLEASGVKTCDLSKSKIFALLKSVFSHF--TDLEQLTLAQNEINKIDDNAFWGL-THLLKLNLSQNF-LGSIDSR  341 (455)
T ss_dssp             TTTTGGGTTSCCCEEECCSSCCCEECTTTTTTC--TTCCEEECTTSCCCEECTTTTTTC-TTCCEEECCSSC-CCEECGG
T ss_pred             ccccccccccCceEEEecCccccccchhhcccC--CCCCEEECCCCcccccChhHhcCc-ccCCEEECCCCc-cCCcChh
Confidence                  012456666664322   112222222  344555555444222334455555 778888887753 3433222


Q ss_pred             ccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          475 LDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       475 ~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      .  ...+++|++|+++++ +++.++.    .....+++|+.|++.++.- .++..  .+..+++|+.|++.+++
T Consensus       342 ~--~~~l~~L~~L~Ls~N-~l~~~~~----~~~~~l~~L~~L~L~~N~l~~~~~~--~~~~l~~L~~L~l~~N~  406 (455)
T 3v47_A          342 M--FENLDKLEVLDLSYN-HIRALGD----QSFLGLPNLKELALDTNQLKSVPDG--IFDRLTSLQKIWLHTNP  406 (455)
T ss_dssp             G--GTTCTTCCEEECCSS-CCCEECT----TTTTTCTTCCEEECCSSCCSCCCTT--TTTTCTTCCEEECCSSC
T ss_pred             H--hcCcccCCEEECCCC-cccccCh----hhccccccccEEECCCCccccCCHh--HhccCCcccEEEccCCC
Confidence            1  356788888888875 4554421    1335678888888888764 33222  24667788888886654

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

Probab=99.84  E-value=2.9e-20  Score=199.04  Aligned_cols=117  Identities=26%  Similarity=0.327  Sum_probs=83.0

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L  299 (561)
                      ..++++++++|.+..++.. + .+++|++|++++|.  +..++...|+++++|++|++++|.+..+| ..++.+.+|++|
T Consensus        28 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~--i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  105 (570)
T 2z63_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE--IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL  105 (570)
T ss_dssp             SSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCC--CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEE
T ss_pred             ccccEEEccCCccCccChhHhhCCCCceEEECCCCc--CCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccc
Confidence            5677788877777666543 2 67777888887776  55666555677777777777777777764 567777777777


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcc--cChhhhccccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEE--LPHEIGQLTRL  341 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L  341 (561)
                      ++++|.+.. + ..++++++|++|++++|.+..  +|..++++++|
T Consensus       106 ~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L  151 (570)
T 2z63_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNL  151 (570)
T ss_dssp             ECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTC
T ss_pred             cccccccccCCCccccccccccEEecCCCccceecChhhhcccCCC
Confidence            777777766 3 357777777777777776664  57777766666

>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=99.84  E-value=3.4e-20  Score=199.96  Aligned_cols=311  Identities=18%  Similarity=0.149  Sum_probs=193.1

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L  299 (561)
                      ..++++++++|.+..+++ .+ .+++|++|+++++.  +..+++..|+++++|++|++++|.+..+ |..++.+++|++|
T Consensus        33 ~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  110 (606)
T 3t6q_A           33 NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQ--IYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHL  110 (606)
T ss_dssp             TTCCEEECTTCCCSEECTTTSTTCTTCSEEECTTCC--CCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEE
T ss_pred             CcCcEEEccCCccCcCChhHhccCccceEEECCCCc--cceeChhhccCccccCeeeCCCCcccccChhhhcccccccEe
Confidence            788999999999988754 34 78999999999987  5556555568999999999999998885 6788999999999


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCccc--Chhhhccccc----------cccCchhhcCCCCCc--EEEccCC
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIEEL--PHEIGQLTRL----------VVIAPNLISKFSQLE--ELYMGDS  363 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~l--p~~i~~L~~L----------~~l~~~~i~~l~~L~--~L~l~~~  363 (561)
                      ++++|.+..  +..++++++|++|++++|.+..+  |..+ .+++|          ..+++..++.+++|+  +|++++|
T Consensus       111 ~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~l~L~l~~n  189 (606)
T 3t6q_A          111 FFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGF-PTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGN  189 (606)
T ss_dssp             ECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTC-CCTTCCEEECCSSCCCEECHHHHHTTTTCCSEEEECTTC
T ss_pred             eccccCcccCCcchhccCCcccEEECCCCcccccCccccc-CCcccCEEEcccCcccccChhhhhhhcccceeEEecCCC
Confidence            999999887  57889999999999999988876  4333 35555          334445577888888  7777777


Q ss_pred             cccccccCCCc-------------------------------------------------------------------cc
Q 041360          364 FSQWDKVEGGS-------------------------------------------------------------------NA  376 (561)
Q Consensus       364 ~~~~~~~~~~~-------------------------------------------------------------------~~  376 (561)
                      ......+....                                                                   ..
T Consensus       190 ~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~  269 (606)
T 3t6q_A          190 DIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNI  269 (606)
T ss_dssp             CCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSC
T ss_pred             ccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCcc
Confidence            54322211100                                                                   00


Q ss_pred             chHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEEecc---ccccCCCCccccceEEEecCCccchhhh-hhhHH
Q 041360          377 SLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKICIGE---AWRMWGVTSEISRLVRLHGLENVSTLLE-NYGMK  451 (561)
Q Consensus       377 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~---~~~~~~~~~~~~~l~~L~~~~~~~~~~~-~~~~~  451 (561)
                      ....++++++|+.|+++.|.+..+|..+ .+++|+.|++..+.   ..+......  .++..|++.++...... ...+.
T Consensus       270 ~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l--~~L~~L~l~~n~~~~~~~~~~~~  347 (606)
T 3t6q_A          270 SSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNF--PSLTHLSIKGNTKRLELGTGCLE  347 (606)
T ss_dssp             CTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGC--TTCSEEECCSCSSCCBCCSSTTT
T ss_pred             CHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhcc--CcCCEEECCCCCcccccchhhhh
Confidence            0112455566666666666666665543 45666666663221   111112222  23444444433211112 22233


Q ss_pred             HhhccccceeeccccCcccccc-cccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCC
Q 041360          452 MLLKEAEEIHLNELKGVQNAVH-ELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQ  529 (561)
Q Consensus       452 ~ll~~L~~L~l~~~~~~~~~~~-~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~  529 (561)
                      .+ ++|+.|+++++.- ..... ... ...+++|++|+++++ ++..++.    .....+++|+.|++.+|.- ... .+
T Consensus       348 ~l-~~L~~L~l~~n~l-~~~~~~~~~-~~~l~~L~~L~l~~n-~l~~~~~----~~~~~l~~L~~L~l~~n~l~~~~-~~  418 (606)
T 3t6q_A          348 NL-ENLRELDLSHDDI-ETSDCCNLQ-LRNLSHLQSLNLSYN-EPLSLKT----EAFKECPQLELLDLAFTRLKVKD-AQ  418 (606)
T ss_dssp             TC-TTCCEEECCSSCC-CEEEESTTT-TTTCTTCCEEECCSC-SCEEECT----TTTTTCTTCSEEECTTCCEECCT-TC
T ss_pred             cc-CcCCEEECCCCcc-ccccCcchh-cccCCCCCEEECCCC-cCCcCCH----HHhcCCccCCeEECCCCcCCCcc-cc
Confidence            43 6677777765432 22210 011 456777777777775 3333321    1235677888888887765 221 11


Q ss_pred             CCCCCCCCCcccCCCccc
Q 041360          530 KPTAASKGPEREKPTTSL  547 (561)
Q Consensus       530 ~~~~~l~~L~~L~i~~c~  547 (561)
                      ..+..+++|+.|++.+|.
T Consensus       419 ~~~~~l~~L~~L~l~~n~  436 (606)
T 3t6q_A          419 SPFQNLHLLKVLNLSHSL  436 (606)
T ss_dssp             CTTTTCTTCCEEECTTCC
T ss_pred             hhhhCcccCCEEECCCCc
Confidence            225678888888888774

>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=99.84  E-value=5.8e-20  Score=182.44  Aligned_cols=290  Identities=15%  Similarity=0.121  Sum_probs=200.0

Q ss_pred             CceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~  302 (561)
                      +++.++++++.+..+|..+ .+++++|+++++.  +..++...|+++++|++|++++|.+..+ |..++.+++|++|+++
T Consensus        32 ~l~~l~~~~~~l~~lp~~~-~~~l~~L~L~~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls  108 (330)
T 1xku_A           32 HLRVVQCSDLGLEKVPKDL-PPDTALLDLQNNK--ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS  108 (330)
T ss_dssp             ETTEEECTTSCCCSCCCSC-CTTCCEEECCSSC--CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCeEEEecCCCccccCccC-CCCCeEEECCCCc--CCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECC
Confidence            5678888888888887654 3688999999987  7777776668999999999999998887 7789999999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +|.++. |..+.  ++|++|++++|.+..++.             ..++++++|++|++++|......      .....+
T Consensus       109 ~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~~------~~~~~~  167 (330)
T 1xku_A          109 KNQLKELPEKMP--KTLQELRVHENEITKVRK-------------SVFNGLNQMIVVELGTNPLKSSG------IENGAF  167 (330)
T ss_dssp             SSCCSBCCSSCC--TTCCEEECCSSCCCBBCH-------------HHHTTCTTCCEEECCSSCCCGGG------BCTTGG
T ss_pred             CCcCCccChhhc--ccccEEECCCCcccccCH-------------hHhcCCccccEEECCCCcCCccC------cChhhc
Confidence            998887 66554  789999999988776653             23678888888888887653211      122457


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccccEEEEEeccc---cccCCCCccccceEEEecCCccchhhhhhhHHHhhcccc
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEA---WRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAE  458 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~---~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~  458 (561)
                      .++++|+.|+++.|.+..+|.... ++|+.|++..+..   .+.+....  .++..|++.++......+..+..+ ++|+
T Consensus       168 ~~l~~L~~L~l~~n~l~~l~~~~~-~~L~~L~l~~n~l~~~~~~~~~~l--~~L~~L~Ls~n~l~~~~~~~~~~l-~~L~  243 (330)
T 1xku_A          168 QGMKKLSYIRIADTNITTIPQGLP-PSLTELHLDGNKITKVDAASLKGL--NNLAKLGLSFNSISAVDNGSLANT-PHLR  243 (330)
T ss_dssp             GGCTTCCEEECCSSCCCSCCSSCC-TTCSEEECTTSCCCEECTGGGTTC--TTCCEEECCSSCCCEECTTTGGGS-TTCC
T ss_pred             cCCCCcCEEECCCCccccCCcccc-ccCCEEECCCCcCCccCHHHhcCC--CCCCEEECCCCcCceeChhhccCC-CCCC
Confidence            778889999998888887776554 7888888743221   11122222  345555555543222233355555 8899


Q ss_pred             ceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcc--cCCcCccccccccccccc-cccCCCCCCCCC
Q 041360          459 EIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRV--RRKVFPLLESLSLKKASF-VILHGQKPTAAS  535 (561)
Q Consensus       459 ~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~--~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l  535 (561)
                      .|+++++ .+..++..   ...+++|++|++.++ .++.++...-..  .....+.|+.|.+.+.|- .....+..+.++
T Consensus       244 ~L~L~~N-~l~~lp~~---l~~l~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~~~~~~i~~~~f~~~  318 (330)
T 1xku_A          244 ELHLNNN-KLVKVPGG---LADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCV  318 (330)
T ss_dssp             EEECCSS-CCSSCCTT---TTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSSCGGGSCGGGGTTC
T ss_pred             EEECCCC-cCccCChh---hccCCCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCcccccccCccccccc
Confidence            9999875 45566654   457889999999984 677766332100  112357788888988886 222233446778


Q ss_pred             CCCcccCCCcc
Q 041360          536 KGPEREKPTTS  546 (561)
Q Consensus       536 ~~L~~L~i~~c  546 (561)
                      .+++.+++.++
T Consensus       319 ~~l~~l~L~~N  329 (330)
T 1xku_A          319 YVRAAVQLGNY  329 (330)
T ss_dssp             CCGGGEEC---
T ss_pred             cceeEEEeccc
Confidence            88888887654

>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=99.84  E-value=1.2e-19  Score=191.84  Aligned_cols=104  Identities=15%  Similarity=0.248  Sum_probs=63.3

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      ++++++++++|.+..++. .+ .+++|++|+++++.  +..+++..|+++++|++|++++|.++.+|..  .+.+|++|+
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~   96 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNR--IQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLD   96 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSC--CCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEEE
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCc--cCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccEEe
Confidence            556666666666655543 22 56666666666665  4444333346666666666666666666655  566666666


Q ss_pred             eCCCCCCC---cccccCCCCCcEEEccCCcCcc
Q 041360          301 LGGCRLKD---IAIVGQLKKLEILSFRDSYIEE  330 (561)
Q Consensus       301 l~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~  330 (561)
                      +++|.+..   |..++++++|++|++++|.+..
T Consensus        97 L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~  129 (520)
T 2z7x_B           97 LSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK  129 (520)
T ss_dssp             CCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG
T ss_pred             ccCCccccccchhhhccCCcceEEEecCcccch
Confidence            66666543   3566666666666666665544

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

Probab=99.84  E-value=2.2e-20  Score=185.62  Aligned_cols=291  Identities=16%  Similarity=0.154  Sum_probs=193.5

Q ss_pred             CceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~  302 (561)
                      +++.++++++.+..+|..+ .+++++|+++++.  +..++...|+++++|++|++++|.+..+ |..++.+++|++|+++
T Consensus        34 ~l~~l~~~~~~l~~ip~~~-~~~l~~L~l~~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  110 (332)
T 2ft3_A           34 HLRVVQCSDLGLKAVPKEI-SPDTTLLDLQNND--ISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYIS  110 (332)
T ss_dssp             ETTEEECCSSCCSSCCSCC-CTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECC
T ss_pred             cCCEEECCCCCccccCCCC-CCCCeEEECCCCc--CCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECC
Confidence            4677888888888887655 4688888888887  6666655568888889999888888886 6778888888999988


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +|.+.. |..+.  ++|++|++++|.+..+|.             ..++++++|++|++++|......      .....+
T Consensus       111 ~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~~------~~~~~~  169 (332)
T 2ft3_A          111 KNHLVEIPPNLP--SSLVELRIHDNRIRKVPK-------------GVFSGLRNMNCIEMGGNPLENSG------FEPGAF  169 (332)
T ss_dssp             SSCCCSCCSSCC--TTCCEEECCSSCCCCCCS-------------GGGSSCSSCCEEECCSCCCBGGG------SCTTSS
T ss_pred             CCcCCccCcccc--ccCCEEECCCCccCccCH-------------hHhCCCccCCEEECCCCccccCC------CCcccc
Confidence            888877 66555  788888888887776553             23677888888888887653110      112344


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCC--CCccccceEEEecCCccchhhhhhhHHHhhccccc
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWG--VTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE  459 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~--~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~  459 (561)
                      ..+ +|+.|+++.|.+..+|.... ++|+.|++..+. +....  ......++..|++.++......+..+..+ ++|+.
T Consensus       170 ~~l-~L~~L~l~~n~l~~l~~~~~-~~L~~L~l~~n~-i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l-~~L~~  245 (332)
T 2ft3_A          170 DGL-KLNYLRISEAKLTGIPKDLP-ETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFL-PTLRE  245 (332)
T ss_dssp             CSC-CCSCCBCCSSBCSSCCSSSC-SSCSCCBCCSSC-CCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGC-TTCCE
T ss_pred             cCC-ccCEEECcCCCCCccCcccc-CCCCEEECCCCc-CCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCC-CCCCE
Confidence            555 78888888888777776543 678877774322 11111  11122344555555544222333455555 89999


Q ss_pred             eeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCc-c-cCCcCccccccccccccc-cccCCCCCCCCCC
Q 041360          460 IHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGR-V-RRKVFPLLESLSLKKASF-VILHGQKPTAASK  536 (561)
Q Consensus       460 L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~-~-~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~  536 (561)
                      |+++++ .+..++..   ...+++|++|++++ +.++.++...-. . ....++.|+.|.+.++|. .....+..+.+++
T Consensus       246 L~L~~N-~l~~lp~~---l~~l~~L~~L~l~~-N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~~~~~~~~~~~~l~  320 (332)
T 2ft3_A          246 LHLDNN-KLSRVPAG---LPDLKLLQVVYLHT-NNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPYWEVQPATFRCVT  320 (332)
T ss_dssp             EECCSS-CCCBCCTT---GGGCTTCCEEECCS-SCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSCGGGSCGGGGTTBC
T ss_pred             EECCCC-cCeecChh---hhcCccCCEEECCC-CCCCccChhHccccccccccccccceEeecCcccccccCcccccccc
Confidence            999975 45566655   34789999999998 467776632200 0 112267899999999986 2222333467788


Q ss_pred             CCcccCCCccc
Q 041360          537 GPEREKPTTSL  547 (561)
Q Consensus       537 ~L~~L~i~~c~  547 (561)
                      +|+.+.+.++.
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            88888887764

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

Probab=99.83  E-value=7.4e-20  Score=189.37  Aligned_cols=290  Identities=13%  Similarity=0.095  Sum_probs=179.4

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .++++++++++.+..+|....+++|++|+++++.  +..+|   ++.+++|++|++++|.++.+|  ++.+++|++|+++
T Consensus        42 ~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~--l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L~  114 (457)
T 3bz5_A           42 ATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNN--ITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNCD  114 (457)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSC--CSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEECC
T ss_pred             CCCCEEEccCCCcccChhhcccCCCCEEEccCCc--CCeEc---cccCCCCCEEECcCCCCceee--cCCCCcCCEEECC
Confidence            6788999999888888744478899999999887  66665   588899999999999888875  8888999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhcccccccc--------CchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVI--------APNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l--------~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|.++..+ ++.+++|++|++++|.+..+|  ++++++|+.+        ....++.+++|++|++++|.... .     
T Consensus       115 ~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~-l-----  185 (457)
T 3bz5_A          115 TNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITE-L-----  185 (457)
T ss_dssp             SSCCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCC-C-----
T ss_pred             CCcCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccce-e-----
Confidence            99888732 888889999999988888775  5555555222        11125677888888888775431 1     


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHh-
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKML-  453 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~l-  453 (561)
                           .+..+++|+.|+++.|.++.++ ...+++|+.|++..+. +.. ++.....++..|++.++......+..+..+ 
T Consensus       186 -----~l~~l~~L~~L~l~~N~l~~~~-l~~l~~L~~L~Ls~N~-l~~-ip~~~l~~L~~L~l~~N~l~~~~~~~l~~L~  257 (457)
T 3bz5_A          186 -----DVSQNKLLNRLNCDTNNITKLD-LNQNIQLTFLDCSSNK-LTE-IDVTPLTQLTYFDCSVNPLTELDVSTLSKLT  257 (457)
T ss_dssp             -----CCTTCTTCCEEECCSSCCSCCC-CTTCTTCSEEECCSSC-CSC-CCCTTCTTCSEEECCSSCCSCCCCTTCTTCC
T ss_pred             -----ccccCCCCCEEECcCCcCCeec-cccCCCCCEEECcCCc-ccc-cCccccCCCCEEEeeCCcCCCcCHHHCCCCC
Confidence                 1556667777777777666553 3356667777664321 211 112233344555554433111111111111 


Q ss_pred             -----hccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCc---ccCCcCccccccccccccccc
Q 041360          454 -----LKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGR---VRRKVFPLLESLSLKKASFVI  525 (561)
Q Consensus       454 -----l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~---~~~~~~~~L~~L~l~~c~~~~  525 (561)
                           ..+|+.|++.++.....++     .+.+++|+.|++++|..++.+|.....   ......++|+.|.+.++.  +
T Consensus       258 ~L~l~~n~L~~L~l~~n~~~~~~~-----~~~l~~L~~L~Ls~n~~l~~l~~~~~~L~~L~l~~~~~L~~L~L~~N~--l  330 (457)
T 3bz5_A          258 TLHCIQTDLLEIDLTHNTQLIYFQ-----AEGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQNPKLVYLYLNNTE--L  330 (457)
T ss_dssp             EEECTTCCCSCCCCTTCTTCCEEE-----CTTCTTCCCCCCTTCTTCCEEECTTCCCSCCCCTTCTTCCEEECTTCC--C
T ss_pred             EEeccCCCCCEEECCCCccCCccc-----ccccccCCEEECCCCcccceeccCCCcceEechhhcccCCEEECCCCc--c
Confidence                 0134445555544333333     346788888888888777777632111   122333444444444443  2


Q ss_pred             cCCCCCCCCCCCCcccCCCc
Q 041360          526 LHGQKPTAASKGPEREKPTT  545 (561)
Q Consensus       526 ~~~~~~~~~l~~L~~L~i~~  545 (561)
                      . + +++..+++|+.|++.+
T Consensus       331 ~-~-l~l~~l~~L~~L~l~~  348 (457)
T 3bz5_A          331 T-E-LDVSHNTKLKSLSCVN  348 (457)
T ss_dssp             S-C-CCCTTCTTCSEEECCS
T ss_pred             c-c-cccccCCcCcEEECCC
Confidence            1 1 2466677777776644

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

Probab=99.83  E-value=2.1e-20  Score=185.14  Aligned_cols=213  Identities=16%  Similarity=0.168  Sum_probs=140.8

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEIL  321 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L  321 (561)
                      ..++++.|+++++.  +..+|..+ +++++|++|++++|.+..+|..++.+.+|++|++++|.+.. |..++++++|++|
T Consensus        79 ~~~~l~~L~L~~n~--l~~lp~~l-~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L  155 (328)
T 4fcg_A           79 TQPGRVALELRSVP--LPQFPDQA-FRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLREL  155 (328)
T ss_dssp             TSTTCCEEEEESSC--CSSCCSCG-GGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEE
T ss_pred             cccceeEEEccCCC--chhcChhh-hhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEE
Confidence            45788999999987  66888876 66899999999999988889889999999999999998888 8889999999999


Q ss_pred             EccCC-cCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc
Q 041360          322 SFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL  400 (561)
Q Consensus       322 ~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  400 (561)
                      ++++| .+..+|..++...    ++. .++++++|++|++++|... .++        ..++++++|+.|+++.|.+..+
T Consensus       156 ~L~~n~~~~~~p~~~~~~~----~~~-~~~~l~~L~~L~L~~n~l~-~lp--------~~l~~l~~L~~L~L~~N~l~~l  221 (328)
T 4fcg_A          156 SIRACPELTELPEPLASTD----ASG-EHQGLVNLQSLRLEWTGIR-SLP--------ASIANLQNLKSLKIRNSPLSAL  221 (328)
T ss_dssp             EEEEETTCCCCCSCSEEEC-----CC-CEEESTTCCEEEEEEECCC-CCC--------GGGGGCTTCCEEEEESSCCCCC
T ss_pred             ECCCCCCccccChhHhhcc----chh-hhccCCCCCEEECcCCCcC-cch--------HhhcCCCCCCEEEccCCCCCcC
Confidence            99886 4556676554422    111 1556777888887777553 222        4567777777777777776655


Q ss_pred             Cccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCC
Q 041360          401 PQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGE  479 (561)
Q Consensus       401 ~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~  479 (561)
                      |..+ .+++|+.|++..+...                       ...+..+..+ ++|+.|++.+|.....++..   .+
T Consensus       222 ~~~l~~l~~L~~L~Ls~n~~~-----------------------~~~p~~~~~l-~~L~~L~L~~n~~~~~~p~~---~~  274 (328)
T 4fcg_A          222 GPAIHHLPKLEELDLRGCTAL-----------------------RNYPPIFGGR-APLKRLILKDCSNLLTLPLD---IH  274 (328)
T ss_dssp             CGGGGGCTTCCEEECTTCTTC-----------------------CBCCCCTTCC-CCCCEEECTTCTTCCBCCTT---GG
T ss_pred             chhhccCCCCCEEECcCCcch-----------------------hhhHHHhcCC-CCCCEEECCCCCchhhcchh---hh
Confidence            5432 4555555555322110                       0111122222 55666666665555555543   23


Q ss_pred             CCCCccEEEEecCCccchhh
Q 041360          480 GFPRLKHLRVESCSEILHIV  499 (561)
Q Consensus       480 ~~~~L~~L~l~~c~~l~~l~  499 (561)
                      .+++|++|+|++|+.++.+|
T Consensus       275 ~l~~L~~L~L~~n~~~~~iP  294 (328)
T 4fcg_A          275 RLTQLEKLDLRGCVNLSRLP  294 (328)
T ss_dssp             GCTTCCEEECTTCTTCCCCC
T ss_pred             cCCCCCEEeCCCCCchhhcc
Confidence            55666666666666555555

>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=99.83  E-value=1.9e-20  Score=201.11  Aligned_cols=275  Identities=13%  Similarity=0.138  Sum_probs=205.0

Q ss_pred             CccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCCCCCC-c-ccccCCC
Q 041360          240 ERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKD-I-AIVGQLK  316 (561)
Q Consensus       240 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~~l~~-p-~~i~~L~  316 (561)
                      ..+.+++++.+++.++.  +..+|..+|+++++|++|++++|.+..+| ..++.+.+|++|+|++|.+.. | ..+++++
T Consensus        46 ~~l~l~~l~~l~l~~~~--l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  123 (597)
T 3oja_B           46 EDITLNNQKIVTFKNST--MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVP  123 (597)
T ss_dssp             SSGGGCCCSEEEESSCE--ESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             ccccCCCceEEEeeCCC--CCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCC
Confidence            34468899999999987  88999998999999999999999999975 489999999999999999988 4 6689999


Q ss_pred             CCcEEEccCCcCcccChhh-hccccc----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCC
Q 041360          317 KLEILSFRDSYIEELPHEI-GQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLS  385 (561)
Q Consensus       317 ~L~~L~l~~~~~~~lp~~i-~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~  385 (561)
                      +|++|++++|.+..+|..+ +++++|          ..+++..++++++|++|++++|.....           .+..++
T Consensus       124 ~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~-----------~~~~l~  192 (597)
T 3oja_B          124 LLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV-----------DLSLIP  192 (597)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBC-----------CGGGCT
T ss_pred             CCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCc-----------Chhhhh
Confidence            9999999999999998764 666666          344444577888888888888765311           245567


Q ss_pred             CCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccc
Q 041360          386 KLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNEL  465 (561)
Q Consensus       386 ~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~  465 (561)
                      +|+.|+++.|.+..++   .+.+|+.|++..+. +.... .....++..|++.++.  ...+.++..+ ++|+.|+++++
T Consensus       193 ~L~~L~l~~n~l~~l~---~~~~L~~L~ls~n~-l~~~~-~~~~~~L~~L~L~~n~--l~~~~~l~~l-~~L~~L~Ls~N  264 (597)
T 3oja_B          193 SLFHANVSYNLLSTLA---IPIAVEELDASHNS-INVVR-GPVNVELTILKLQHNN--LTDTAWLLNY-PGLVEVDLSYN  264 (597)
T ss_dssp             TCSEEECCSSCCSEEE---CCTTCSEEECCSSC-CCEEE-CSCCSCCCEEECCSSC--CCCCGGGGGC-TTCSEEECCSS
T ss_pred             hhhhhhcccCcccccc---CCchhheeeccCCc-ccccc-cccCCCCCEEECCCCC--CCCChhhccC-CCCCEEECCCC
Confidence            8888888877766543   44578888774332 21111 1122456667776543  2224556665 99999999986


Q ss_pred             cCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCC
Q 041360          466 KGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPT  544 (561)
Q Consensus       466 ~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~  544 (561)
                      .-....+..   ...+++|++|+++++ +++.++     .....+|+|+.|++.+|+- .++.   .+..+++|+.|++.
T Consensus       265 ~l~~~~~~~---~~~l~~L~~L~Ls~N-~l~~l~-----~~~~~l~~L~~L~Ls~N~l~~i~~---~~~~l~~L~~L~L~  332 (597)
T 3oja_B          265 ELEKIMYHP---FVKMQRLERLYISNN-RLVALN-----LYGQPIPTLKVLDLSHNHLLHVER---NQPQFDRLENLYLD  332 (597)
T ss_dssp             CCCEEESGG---GTTCSSCCEEECTTS-CCCEEE-----CSSSCCTTCCEEECCSSCCCCCGG---GHHHHTTCSEEECC
T ss_pred             ccCCCCHHH---hcCccCCCEEECCCC-CCCCCC-----cccccCCCCcEEECCCCCCCccCc---ccccCCCCCEEECC
Confidence            543333443   457999999999994 777777     3346799999999999985 4432   25678899999998


Q ss_pred             ccc
Q 041360          545 TSL  547 (561)
Q Consensus       545 ~c~  547 (561)
                      +|.
T Consensus       333 ~N~  335 (597)
T 3oja_B          333 HNS  335 (597)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            875

>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=99.83  E-value=2.4e-20  Score=206.17  Aligned_cols=301  Identities=16%  Similarity=0.113  Sum_probs=143.4

Q ss_pred             CceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~L~l~  302 (561)
                      +++++++++|.+........+++|++|+++++. ....+|.  ++++++|++|++++|.+.. +|..++.+++|++|+++
T Consensus       179 ~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~--l~~l~~L~~L~Ls~n~l~~~~~~~l~~l~~L~~L~Ls  255 (768)
T 3rgz_A          179 ELKHLAISGNKISGDVDVSRCVNLEFLDVSSNN-FSTGIPF--LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS  255 (768)
T ss_dssp             TCCEEECCSSEEESCCBCTTCTTCCEEECCSSC-CCSCCCB--CTTCCSCCEEECCSSCCCSCHHHHTTTCSSCCEEECC
T ss_pred             CCCEEECCCCcccccCCcccCCcCCEEECcCCc-CCCCCcc--cccCCCCCEEECcCCcCCCcccHHHhcCCCCCEEECC
Confidence            344444444444332222345555555555554 2222332  3555566666666555553 35555555556666665


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCc-ccChhhhcc-ccc-----------cccCchhhcCCCCCcEEEccCCccccc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIE-ELPHEIGQL-TRL-----------VVIAPNLISKFSQLEELYMGDSFSQWD  368 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L-~~L-----------~~l~~~~i~~l~~L~~L~l~~~~~~~~  368 (561)
                      +|.+.. .+.. .+++|++|++++|.+. .+|..++.+ ++|           ..+|. .++++++|++|++++|.....
T Consensus       256 ~n~l~~~~~~~-~l~~L~~L~L~~n~l~~~ip~~~~~~~~~L~~L~Ls~n~l~~~~p~-~~~~l~~L~~L~L~~n~l~~~  333 (768)
T 3rgz_A          256 SNQFVGPIPPL-PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPP-FFGSCSLLESLALSSNNFSGE  333 (768)
T ss_dssp             SSCCEESCCCC-CCTTCCEEECCSSEEEESCCCCSCTTCTTCSEEECCSSEEEECCCG-GGGGCTTCCEEECCSSEEEEE
T ss_pred             CCcccCccCcc-ccCCCCEEECcCCccCCccCHHHHhhcCcCCEEECcCCcCCCccch-HHhcCCCccEEECCCCcccCc
Confidence            555443 2222 4555555555555444 445544332 333           12232 256666666666666654322


Q ss_pred             ccCCCcccchHhhcCCCCCcEEEEeeccCc-ccCccc-ccc-cccEEEEEecc---ccccCCCCccccceE---------
Q 041360          369 KVEGGSNASLAELKGLSKLTTLEIQVRDAQ-ILPQDL-VLV-ELQRYKICIGE---AWRMWGVTSEISRLV---------  433 (561)
Q Consensus       369 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~~~~~-~~~-~L~~L~l~~~~---~~~~~~~~~~~~~l~---------  433 (561)
                      .+       ...+.++++|+.|+++.|.+. .+|..+ .++ +|+.|++..+.   ..+.+.......++.         
T Consensus       334 ip-------~~~l~~l~~L~~L~Ls~n~l~~~~p~~l~~l~~~L~~L~Ls~N~l~~~~~~~~~~~~~~~L~~L~L~~n~l  406 (768)
T 3rgz_A          334 LP-------MDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGF  406 (768)
T ss_dssp             CC-------HHHHTTCTTCCEEECCSSEEEECCCTTHHHHTTTCSEEECCSSEEEEECCTTTTCSTTCCCCEEECCSSEE
T ss_pred             CC-------HHHHhcCCCCCEEeCcCCccCccccHHHHhhhcCCcEEEccCCCcCCCcChhhhhcccCCccEEECCCCcc
Confidence            22       123566666666666666554 333332 232 45555553211   111111111122233         


Q ss_pred             ---------------EEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchh
Q 041360          434 ---------------RLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHI  498 (561)
Q Consensus       434 ---------------~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l  498 (561)
                                     .|++.+|......+..+..+ ++|+.|++.++.-...++..   ...+++|++|++.+|.--..+
T Consensus       407 ~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l-~~L~~L~L~~n~l~~~~p~~---~~~l~~L~~L~L~~N~l~~~~  482 (768)
T 3rgz_A          407 TGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSL-SKLRDLKLWLNMLEGEIPQE---LMYVKTLETLILDFNDLTGEI  482 (768)
T ss_dssp             EEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC-TTCCEEECCSSCCCSCCCGG---GGGCTTCCEEECCSSCCCSCC
T ss_pred             ccccCHHHhcCCCCCEEECcCCcccCcccHHHhcC-CCCCEEECCCCcccCcCCHH---HcCCCCceEEEecCCcccCcC
Confidence                           33333322122233344443 55555555554333333333   234566666666664322233


Q ss_pred             hcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          499 VGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       499 ~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      |.     ....+++|+.|++.+|.- ..  .+..++.+++|+.|++.+|.
T Consensus       483 p~-----~l~~l~~L~~L~L~~N~l~~~--~p~~~~~l~~L~~L~L~~N~  525 (768)
T 3rgz_A          483 PS-----GLSNCTNLNWISLSNNRLTGE--IPKWIGRLENLAILKLSNNS  525 (768)
T ss_dssp             CG-----GGGGCTTCCEEECCSSCCCSC--CCGGGGGCTTCCEEECCSSC
T ss_pred             CH-----HHhcCCCCCEEEccCCccCCc--CChHHhcCCCCCEEECCCCc
Confidence            31     235667777777777764 11  12235677888888887774

>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=99.83  E-value=1.2e-19  Score=193.25  Aligned_cols=308  Identities=18%  Similarity=0.160  Sum_probs=180.8

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      ++++++++++|.+..++. .+ .+++|++|+++++.  +..++...|+++++|++|++++|.+..+|+. ++.+++|++|
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  103 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR--INTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYL  103 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEE
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCC--cCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEE
Confidence            678889998888877653 34 78889999998887  6666655568888899999998888887654 8888889999


Q ss_pred             EeCCCCCCC---cccccCCCCCcEEEccCCc-CcccC-hhhhccccccc----------cCchhhcCCCCCcEEEccCCc
Q 041360          300 CLGGCRLKD---IAIVGQLKKLEILSFRDSY-IEELP-HEIGQLTRLVV----------IAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       300 ~l~~~~l~~---p~~i~~L~~L~~L~l~~~~-~~~lp-~~i~~L~~L~~----------l~~~~i~~l~~L~~L~l~~~~  364 (561)
                      ++++|.+..   |..++++++|++|++++|. +..+| ..++++++|+.          ..+..++++++|++|++++|.
T Consensus       104 ~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~  183 (549)
T 2z81_A          104 NLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE  183 (549)
T ss_dssp             ECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSB
T ss_pred             ECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCc
Confidence            998888764   5678888888888888886 66666 35666666621          122236667777777766654


Q ss_pred             ccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc-----ccccccccEEE--------------------------
Q 041360          365 SQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ-----DLVLVELQRYK--------------------------  413 (561)
Q Consensus       365 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-----~~~~~~L~~L~--------------------------  413 (561)
                      .....        ...+..+++|+.|+++.|.+...+.     ...+++|+.|+                          
T Consensus       184 ~~~~~--------~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~~~~~~~L~~  255 (549)
T 2z81_A          184 SAFLL--------EIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILELSE  255 (549)
T ss_dssp             STTHH--------HHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEHHHHHHHHGGGGGCTTCCE
T ss_pred             ccccc--------hhhHhhcccccEEEccCCccccccccccchhhhhhcccceeccccccchhHHHHHHHHhhhhccccc
Confidence            32100        0122345666666666665544310     01222333333                          


Q ss_pred             --EEecc-----------------------------ccccCCC--C-----ccccceEEEecCCccchhhhhhhHHHhhc
Q 041360          414 --ICIGE-----------------------------AWRMWGV--T-----SEISRLVRLHGLENVSTLLENYGMKMLLK  455 (561)
Q Consensus       414 --l~~~~-----------------------------~~~~~~~--~-----~~~~~l~~L~~~~~~~~~~~~~~~~~ll~  455 (561)
                        +..+.                             .++.+..  .     ....++..|++.++. ....+.++..-++
T Consensus       256 l~l~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~~~~~l~~~~~~~~~L~~L~l~~n~-l~~ip~~~~~~l~  334 (549)
T 2z81_A          256 VEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFLVPCSFSQHLK  334 (549)
T ss_dssp             EEEESCEEECCSCCCCCTTTCCCCCTTCCEEEEESCBCSCGGGSCCCCHHHHHSTTCCEEEEESSC-CCCCCHHHHHHCT
T ss_pred             cccccccccccccccccchhhhhhhcccccccccccccchhhhcccchhhhhhcccceEEEeccCc-cccCCHHHHhcCc
Confidence              22110                             0000000  0     000123334443333 2334445432238


Q ss_pred             cccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCC
Q 041360          456 EAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAA  534 (561)
Q Consensus       456 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~  534 (561)
                      +|+.|+++++.-....+......+.+++|++|++++| +++.++...  .....+++|+.|++.+|.- .++.   .+..
T Consensus       335 ~L~~L~Ls~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~--~~~~~l~~L~~L~Ls~N~l~~lp~---~~~~  408 (549)
T 2z81_A          335 SLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQN-HLRSMQKTG--EILLTLKNLTSLDISRNTFHPMPD---SCQW  408 (549)
T ss_dssp             TCCEEECCSSCCCHHHHHHHTCTTSSTTCCEEECTTS-CCCCHHHHH--HHGGGCTTCCEEECTTCCCCCCCS---CCCC
T ss_pred             cccEEEccCCccccccccchhhhhccccCcEEEccCC-cccccccch--hhhhcCCCCCEEECCCCCCccCCh---hhcc
Confidence            8888888876544333221100356788888888874 565554110  0135677777777777753 3322   2455


Q ss_pred             CCCCcccCCCccc
Q 041360          535 SKGPEREKPTTSL  547 (561)
Q Consensus       535 l~~L~~L~i~~c~  547 (561)
                      +++|+.|++.+|.
T Consensus       409 ~~~L~~L~Ls~N~  421 (549)
T 2z81_A          409 PEKMRFLNLSSTG  421 (549)
T ss_dssp             CTTCCEEECTTSC
T ss_pred             cccccEEECCCCC
Confidence            6666666666654

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

Probab=99.83  E-value=6.6e-20  Score=196.23  Aligned_cols=115  Identities=17%  Similarity=0.247  Sum_probs=89.1

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .+++++++++|.+..++.. + .+++|++|+++++.  +..++...|+++++|++|++++|.+..+|. .++.+.+|++|
T Consensus        52 ~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L  129 (570)
T 2z63_A           52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP--IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKEL  129 (570)
T ss_dssp             SSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCC--CCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEE
T ss_pred             CCceEEECCCCcCCccCcccccCchhCCEEeCcCCc--CCccCHhhhcCccccccccccccccccCCCccccccccccEE
Confidence            6788888888888777654 3 78888999998886  666765556888888888888888888765 68888888888


Q ss_pred             EeCCCCCCC---cccccCCCCCcEEEccCCcCcccC-hhhhccc
Q 041360          300 CLGGCRLKD---IAIVGQLKKLEILSFRDSYIEELP-HEIGQLT  339 (561)
Q Consensus       300 ~l~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~  339 (561)
                      ++++|.+..   |..++++++|++|++++|.+..++ ..++.++
T Consensus       130 ~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~  173 (570)
T 2z63_A          130 NVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLH  173 (570)
T ss_dssp             ECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHH
T ss_pred             ecCCCccceecChhhhcccCCCCEEeCcCCccceecHHHccchh
Confidence            888888664   678888888888888888777654 3344333

>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=99.83  E-value=2.6e-20  Score=205.86  Aligned_cols=136  Identities=21%  Similarity=0.238  Sum_probs=71.7

Q ss_pred             CCccEEEecCCCCC-CCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccCCcCc-ccChhhhccccc-----
Q 041360          271 EEVKVLSLTGVRFS-SLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRL-----  341 (561)
Q Consensus       271 ~~Lr~L~l~~~~i~-~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L-----  341 (561)
                      ++|++|++++|.+. .+|..++.+++|++|++++|.+..  |..++.+++|++|++++|.+. .+|..++.+++|     
T Consensus       394 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  473 (768)
T 3rgz_A          394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL  473 (768)
T ss_dssp             CCCCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEEC
T ss_pred             CCccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEe
Confidence            34444444444443 245555555566666666555543  455555566666666555554 445555555444     


Q ss_pred             ------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc-ccCccc-ccccccEEE
Q 041360          342 ------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ-ILPQDL-VLVELQRYK  413 (561)
Q Consensus       342 ------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~  413 (561)
                            ..+|. .++++++|++|++++|......+        ..++.+++|+.|+++.|.+. .+|..+ .+++|+.|+
T Consensus       474 ~~N~l~~~~p~-~l~~l~~L~~L~L~~N~l~~~~p--------~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~  544 (768)
T 3rgz_A          474 DFNDLTGEIPS-GLSNCTNLNWISLSNNRLTGEIP--------KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLD  544 (768)
T ss_dssp             CSSCCCSCCCG-GGGGCTTCCEEECCSSCCCSCCC--------GGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEE
T ss_pred             cCCcccCcCCH-HHhcCCCCCEEEccCCccCCcCC--------hHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEE
Confidence                  12232 25556666666666655433222        44555666666666666654 334332 556666666


Q ss_pred             EE
Q 041360          414 IC  415 (561)
Q Consensus       414 l~  415 (561)
                      +.
T Consensus       545 Ls  546 (768)
T 3rgz_A          545 LN  546 (768)
T ss_dssp             CC
T ss_pred             CC
Confidence            63

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.83  E-value=1.6e-20  Score=202.57  Aligned_cols=160  Identities=17%  Similarity=0.239  Sum_probs=131.1

Q ss_pred             CEEeeccchhhhcccCCcceEecC------CCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHc
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIE------VLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALK   74 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~------~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~   74 (561)
                      ||||||++.++.. +....+|+++      +|+.+|||+||++..+..     ..+++.++   |+|+||||+++|+.|+
T Consensus       268 ILVTTRd~~Va~~-l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-----~eeL~~eI---CgGLPLALkLaGs~Lr  338 (1221)
T 1vt4_I          268 ILLTTRFKQVTDF-LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPREV---LTTNPRRLSIIAESIR  338 (1221)
T ss_dssp             EEEECSCSHHHHH-HHHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-----TTTHHHHH---CCCCHHHHHHHHHHHH
T ss_pred             EEEeccChHHHHh-cCCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-----HHHHHHHH---hCCCHHHHHHHHHHHh
Confidence            7999999999742 2333467777      999999999999996432     23445444   9999999999999999


Q ss_pred             CC--CHHHHHHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHH-HHHHHhhcccCCCcccCHHHHHHHHhhcCccc
Q 041360           75 SK--SLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEA-KSLFRLCGLYNEGHAIQVASLLRYGMGWGLFK  151 (561)
Q Consensus        75 ~~--~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~  151 (561)
                      .+  +..+|+..              ....+..++.+||+.||++ . |.||+|||+||+++.|..+.++.+|+++|.  
T Consensus       339 ~k~~s~eeW~~~--------------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~I~~elLa~LW~aeGe--  401 (1221)
T 1vt4_I          339 DGLATWDNWKHV--------------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK--  401 (1221)
T ss_dssp             HSCSSHHHHHHC--------------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCS--
T ss_pred             CCCCCHHHHhcC--------------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCH--
Confidence            76  77888753              1467999999999999997 8 999999999999999999999999999871  


Q ss_pred             ccccHHHHHHHHHHHHHHHHHcCcccccCCCCceehhHHHHHHH
Q 041360          152 NVYTLEEARSRVHRLIDNLKSSCLLLDGDGKDEVKMHDVIHVVA  195 (561)
Q Consensus       152 ~~~~~~~~~~~~~~~i~~L~~~sll~~~~~~~~~~mh~lv~~~~  195 (561)
                           +    .+.+++++|+++||++..+....|+|||++++++
T Consensus       402 -----e----dAe~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          402 -----S----DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             -----H----HHHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             -----H----HHHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence                 1    2445889999999998765567899999998854

>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=99.82  E-value=2.1e-19  Score=193.74  Aligned_cols=184  Identities=16%  Similarity=0.179  Sum_probs=106.3

Q ss_pred             CCceEEEccCCCcccc--CCccCCCCccEEEeeccCCCCccccHHHHcCCCCcc--EEEecCCCCCCCchhhcCCC----
Q 041360          223 KGPIAISLPHRDIQEL--PERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVK--VLSLTGVRFSSLPSSLGRLF----  294 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l--~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr--~L~l~~~~i~~lp~~i~~L~----  294 (561)
                      .+++++++++|.+..+  |....+++|++|+++++.  +..++...|+.+++|+  .|++++|.+..+++......    
T Consensus       129 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~l~L~l~~n~l~~~~~~~~~~~~L~~  206 (606)
T 3t6q_A          129 KTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA--IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQS  206 (606)
T ss_dssp             TTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC--CCEECHHHHHTTTTCCSEEEECTTCCCCEECTTTTTTCEEEE
T ss_pred             CcccEEECCCCcccccCcccccCCcccCEEEcccCc--ccccChhhhhhhcccceeEEecCCCccCccChhHhhhccccc
Confidence            4677777777777654  444467777777777775  5555555557777777  66777766655433221111    


Q ss_pred             ------------------------------------------------CCcEEEeCCCCCCC-c-ccccCCCCCcEEEcc
Q 041360          295 ------------------------------------------------NLQTLCLGGCRLKD-I-AIVGQLKKLEILSFR  324 (561)
Q Consensus       295 ------------------------------------------------~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~  324 (561)
                                                                      +|++|++++|.+.. + ..++.+++|++|+++
T Consensus       207 L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  286 (606)
T 3t6q_A          207 LNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLT  286 (606)
T ss_dssp             EECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCCSSCCTTTTTTCTTCSEEECT
T ss_pred             cccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCccCccCHHHhccccCCCEEecc
Confidence                                                            45555555555555 2 446677777777777


Q ss_pred             CCcCcccChhhhccccc----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEee
Q 041360          325 DSYIEELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQV  394 (561)
Q Consensus       325 ~~~~~~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~  394 (561)
                      +|.+..+|.+++++++|          ..+++..++++++|++|++++|......+.       ..+..+++|+.|+++.
T Consensus       287 ~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~-------~~~~~l~~L~~L~l~~  359 (606)
T 3t6q_A          287 ATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGT-------GCLENLENLRELDLSH  359 (606)
T ss_dssp             TSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCS-------STTTTCTTCCEEECCS
T ss_pred             CCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccch-------hhhhccCcCCEEECCC
Confidence            77777777766666655          223333466677777777776654322221       2245555666666665


Q ss_pred             ccCcccC---c-ccccccccEEEEE
Q 041360          395 RDAQILP---Q-DLVLVELQRYKIC  415 (561)
Q Consensus       395 ~~~~~~~---~-~~~~~~L~~L~l~  415 (561)
                      |.+...+   . ...+++|+.|++.
T Consensus       360 n~l~~~~~~~~~~~~l~~L~~L~l~  384 (606)
T 3t6q_A          360 DDIETSDCCNLQLRNLSHLQSLNLS  384 (606)
T ss_dssp             SCCCEEEESTTTTTTCTTCCEEECC
T ss_pred             CccccccCcchhcccCCCCCEEECC
Confidence            5554432   1 1245555655553

>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=99.82  E-value=1.9e-20  Score=185.44  Aligned_cols=216  Identities=19%  Similarity=0.242  Sum_probs=128.6

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      .+++.++++++.+..+|..+ .+++|++|+++++.  +..+|..+ +++++|++|++++|.+..+|..++.+++|++|++
T Consensus        81 ~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~--l~~lp~~~-~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L  157 (328)
T 4fcg_A           81 PGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG--LMELPDTM-QQFAGLETLTLARNPLRALPASIASLNRLRELSI  157 (328)
T ss_dssp             TTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSC--CCCCCSCG-GGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEE
T ss_pred             cceeEEEccCCCchhcChhhhhCCCCCEEECCCCC--ccchhHHH-hccCCCCEEECCCCccccCcHHHhcCcCCCEEEC
Confidence            56677777777777666655 56777777777766  44666554 6677777777777777777777777777777777


Q ss_pred             CCCCC-CC-cccccC---------CCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccccccc
Q 041360          302 GGCRL-KD-IAIVGQ---------LKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKV  370 (561)
Q Consensus       302 ~~~~l-~~-p~~i~~---------L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~  370 (561)
                      ++|.+ .. |..++.         +++|++|++++|.+..+|..              ++++++|++|++++|.... . 
T Consensus       158 ~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~--------------l~~l~~L~~L~L~~N~l~~-l-  221 (328)
T 4fcg_A          158 RACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPAS--------------IANLQNLKSLKIRNSPLSA-L-  221 (328)
T ss_dssp             EEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGG--------------GGGCTTCCEEEEESSCCCC-C-
T ss_pred             CCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHh--------------hcCCCCCCEEEccCCCCCc-C-
Confidence            77653 33 544443         67777777777766555532              4556666677776665431 1 


Q ss_pred             CCCcccchHhhcCCCCCcEEEEeeccCc-ccCccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhh
Q 041360          371 EGGSNASLAELKGLSKLTTLEIQVRDAQ-ILPQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENY  448 (561)
Q Consensus       371 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~-~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~  448 (561)
                             ...+..+++|+.|+++.|... .+|..+ .+++|+.|++..+..                       ....+.
T Consensus       222 -------~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~-----------------------~~~~p~  271 (328)
T 4fcg_A          222 -------GPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSN-----------------------LLTLPL  271 (328)
T ss_dssp             -------CGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTT-----------------------CCBCCT
T ss_pred             -------chhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCc-----------------------hhhcch
Confidence                   134666677777777765443 333322 455566555532211                       111222


Q ss_pred             hHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEec
Q 041360          449 GMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVES  491 (561)
Q Consensus       449 ~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  491 (561)
                      ++..+ ++|+.|++++|+....+|..   .+.+++|+.+.+..
T Consensus       272 ~~~~l-~~L~~L~L~~n~~~~~iP~~---l~~L~~L~~l~l~~  310 (328)
T 4fcg_A          272 DIHRL-TQLEKLDLRGCVNLSRLPSL---IAQLPANCIILVPP  310 (328)
T ss_dssp             TGGGC-TTCCEEECTTCTTCCCCCGG---GGGSCTTCEEECCG
T ss_pred             hhhcC-CCCCEEeCCCCCchhhccHH---HhhccCceEEeCCH
Confidence            33333 66777777776666666655   33566666666553

>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=99.82  E-value=1.1e-19  Score=192.18  Aligned_cols=111  Identities=14%  Similarity=0.160  Sum_probs=69.3

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~  304 (561)
                      ++++++++.+..+|..+. ++|++|+++++.  +..++...|+++++|++|++++|.+..+ |..++.+++|++|++++|
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N   79 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNY--ISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN   79 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSC--CCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSS
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCc--ccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCC
Confidence            456666666666665444 666666666665  5555544456666666666666666665 556666666666666666


Q ss_pred             CCCC-cccccCCCCCcEEEccCCcCcc--cChhhhccccc
Q 041360          305 RLKD-IAIVGQLKKLEILSFRDSYIEE--LPHEIGQLTRL  341 (561)
Q Consensus       305 ~l~~-p~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L  341 (561)
                      .++. |..  .+++|++|++++|.+..  +|..++++++|
T Consensus        80 ~l~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~~~l~~L  117 (520)
T 2z7x_B           80 KLVKISCH--PTVNLKHLDLSFNAFDALPICKEFGNMSQL  117 (520)
T ss_dssp             CCCEEECC--CCCCCSEEECCSSCCSSCCCCGGGGGCTTC
T ss_pred             ceeecCcc--ccCCccEEeccCCccccccchhhhccCCcc
Confidence            6666 433  56666666666666654  35566666655

>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=99.82  E-value=4.1e-19  Score=191.49  Aligned_cols=182  Identities=16%  Similarity=0.224  Sum_probs=138.9

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~  303 (561)
                      -+.++.+++.+..+|..+. +++++|+++++.  +..++...|+++++|++|++++|.+..+ |..++.+++|++|++++
T Consensus        13 ~~~~~c~~~~l~~ip~~~~-~~l~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~   89 (606)
T 3vq2_A           13 NITYQCMDQKLSKVPDDIP-SSTKNIDLSFNP--LKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTG   89 (606)
T ss_dssp             TTEEECTTSCCSSCCTTSC-TTCCEEECTTSC--CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             CCceEccCCCcccCCCCCC-CCcCEEECCCCC--cCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCC
Confidence            3468888888999998664 889999999997  7777776679999999999999999997 66899999999999999


Q ss_pred             CCCCC--cccccCCCCCcEEEccCCcCcccC-hhhhcccccc------------ccCchhhcCCCCCcEEEccCCccccc
Q 041360          304 CRLKD--IAIVGQLKKLEILSFRDSYIEELP-HEIGQLTRLV------------VIAPNLISKFSQLEELYMGDSFSQWD  368 (561)
Q Consensus       304 ~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~------------~l~~~~i~~l~~L~~L~l~~~~~~~~  368 (561)
                      |.+..  |..++++++|++|++++|.+..+| ..++++++|+            .+|. .++++++|++|++++|.....
T Consensus        90 n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~-~~~~l~~L~~L~Ls~n~l~~~  168 (606)
T 3vq2_A           90 NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPA-YFSNLTNLVHVDLSYNYIQTI  168 (606)
T ss_dssp             CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCG-GGGTCTTCCEEECCSSCCCEE
T ss_pred             CcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechH-hHhhcCCCCEEEccCCcceec
Confidence            99887  688999999999999999998887 5677777772            2344 488999999999998865433


Q ss_pred             ccCCCcccchHhhcCCCC-CcEEEEeeccCcccCccc-ccccccEEEEE
Q 041360          369 KVEGGSNASLAELKGLSK-LTTLEIQVRDAQILPQDL-VLVELQRYKIC  415 (561)
Q Consensus       369 ~~~~~~~~~~~~l~~l~~-L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  415 (561)
                      .+     ..+..+.+++. +..|+++.|.+..++... ...+|+.|++.
T Consensus       169 ~~-----~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~  212 (606)
T 3vq2_A          169 TV-----NDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLR  212 (606)
T ss_dssp             CT-----TTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEE
T ss_pred             Ch-----hhhhhhhccccccceeeccCCCcceeCcccccCceeeeeecc
Confidence            22     12333443433 446777766666555432 33356666664

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

Probab=99.81  E-value=7.3e-20  Score=180.07  Aligned_cols=241  Identities=13%  Similarity=0.113  Sum_probs=167.5

Q ss_pred             CCceEEEccCCCcc---ccCCcc-CCCCccEEEeec-cCCCCccccHHHHcCCCCccEEEecCCCCC-CCchhhcCCCCC
Q 041360          223 KGPIAISLPHRDIQ---ELPERL-QCPNLELFLLFR-KGYGSMQISDLFFEGTEEVKVLSLTGVRFS-SLPSSLGRLFNL  296 (561)
Q Consensus       223 ~~l~~l~l~~~~~~---~l~~~~-~~~~L~~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~-~lp~~i~~L~~L  296 (561)
                      .++++++++++.+.   .+|..+ .+++|++|++++ +. ....+|..+ +++++|++|++++|.+. .+|..+..+++|
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~-l~~~~p~~l-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  127 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINN-LVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETT-EESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCc-ccccCChhH-hcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            46889999998886   577766 789999999985 55 344677665 88999999999999887 578889999999


Q ss_pred             cEEEeCCCCCCC--cccccCCCCCcEEEccCCcCc-ccChhhhccccccccCchhhcCCC-CCcEEEccCCcccccccCC
Q 041360          297 QTLCLGGCRLKD--IAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLVVIAPNLISKFS-QLEELYMGDSFSQWDKVEG  372 (561)
Q Consensus       297 ~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~~l~~~~i~~l~-~L~~L~l~~~~~~~~~~~~  372 (561)
                      ++|++++|.+..  |..++.+++|++|++++|.+. .+|..              +++++ +|++|++++|......+  
T Consensus       128 ~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~--------------l~~l~~~L~~L~L~~N~l~~~~~--  191 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS--------------YGSFSKLFTSMTISRNRLTGKIP--  191 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG--------------GGCCCTTCCEEECCSSEEEEECC--
T ss_pred             CEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHH--------------HhhhhhcCcEEECcCCeeeccCC--
Confidence            999999998774  788899999999999998876 45543              55665 78888888887653333  


Q ss_pred             CcccchHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhH
Q 041360          373 GSNASLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGM  450 (561)
Q Consensus       373 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~  450 (561)
                            ..+..++ |+.|+++.|.+...+..  ..+++|+.|++..+. +.                       .....+
T Consensus       192 ------~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~-----------------------~~~~~~  240 (313)
T 1ogq_A          192 ------PTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LA-----------------------FDLGKV  240 (313)
T ss_dssp             ------GGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-EC-----------------------CBGGGC
T ss_pred             ------hHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCc-ee-----------------------eecCcc
Confidence                  4556665 88888888776543322  256667776663221 10                       000111


Q ss_pred             HHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccc-hhhcccCcccCCcCccccccccccccc
Q 041360          451 KMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEIL-HIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       451 ~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      .. +++|++|+++++.-...++..   ...+++|++|+++++ +++ .+|      ....+++|+.|.+.+++.
T Consensus       241 ~~-l~~L~~L~Ls~N~l~~~~p~~---l~~l~~L~~L~Ls~N-~l~~~ip------~~~~l~~L~~l~l~~N~~  303 (313)
T 1ogq_A          241 GL-SKNLNGLDLRNNRIYGTLPQG---LTQLKFLHSLNVSFN-NLCGEIP------QGGNLQRFDVSAYANNKC  303 (313)
T ss_dssp             CC-CTTCCEEECCSSCCEECCCGG---GGGCTTCCEEECCSS-EEEEECC------CSTTGGGSCGGGTCSSSE
T ss_pred             cc-cCCCCEEECcCCcccCcCChH---HhcCcCCCEEECcCC-cccccCC------CCccccccChHHhcCCCC
Confidence            12 277788888775544345544   346788888888875 444 444      336677888888877764

>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=99.81  E-value=2e-19  Score=191.91  Aligned_cols=104  Identities=18%  Similarity=0.219  Sum_probs=74.6

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      ++++++++++|.+..++. .+ .+++|++|+++++.  +..++...|+++++|++|++++|.++.+|..  .+.+|++|+
T Consensus        52 ~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~--l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~  127 (562)
T 3a79_B           52 PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR--IRSLDFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRHLD  127 (562)
T ss_dssp             TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCC--CCEECTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSEEE
T ss_pred             CCcCEEECCCCCccccChhhhccCCCccEEECCCCC--CCcCCHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCEEE
Confidence            677777777777777664 33 67777888887776  5566544457777788888877777777766  677777777


Q ss_pred             eCCCCCCC---cccccCCCCCcEEEccCCcCcc
Q 041360          301 LGGCRLKD---IAIVGQLKKLEILSFRDSYIEE  330 (561)
Q Consensus       301 l~~~~l~~---p~~i~~L~~L~~L~l~~~~~~~  330 (561)
                      +++|.+..   |..++++++|++|++++|.+..
T Consensus       128 Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~  160 (562)
T 3a79_B          128 LSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQ  160 (562)
T ss_dssp             CCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCT
T ss_pred             CCCCCccccCchHhhcccCcccEEecCCCcccc
Confidence            77777665   3577777777777777776553

>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=99.81  E-value=3.6e-19  Score=186.10  Aligned_cols=284  Identities=17%  Similarity=0.112  Sum_probs=210.5

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~  304 (561)
                      +.+..++..+..+|..+ .++++.|+++++.  +..++...|.++++|++|++++|.+..+ |..+..+++|++|+|++|
T Consensus        14 ~~v~c~~~~l~~ip~~~-~~~l~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n   90 (477)
T 2id5_A           14 RAVLCHRKRFVAVPEGI-PTETRLLDLGKNR--IKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSN   90 (477)
T ss_dssp             TEEECCSCCCSSCCSCC-CTTCSEEECCSSC--CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCcCCCCC-CCCCcEEECCCCc--cceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCC
Confidence            46777777888888755 4689999999997  7777666679999999999999999987 788999999999999999


Q ss_pred             CCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          305 RLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       305 ~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      .+.. | ..++++++|++|++++|.+..++.             ..+.++++|++|++++|......+        ..+.
T Consensus        91 ~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~~~--------~~~~  149 (477)
T 2id5_A           91 RLKLIPLGVFTGLSNLTKLDISENKIVILLD-------------YMFQDLYNLKSLEVGDNDLVYISH--------RAFS  149 (477)
T ss_dssp             CCCSCCTTSSTTCTTCCEEECTTSCCCEECT-------------TTTTTCTTCCEEEECCTTCCEECT--------TSST
T ss_pred             cCCccCcccccCCCCCCEEECCCCccccCCh-------------hHccccccCCEEECCCCccceeCh--------hhcc
Confidence            9988 5 568999999999999998775532             237889999999999987643222        4678


Q ss_pred             CCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccc--cc-cCCCCccccceEEEecCCccchhhhhhhHHHhhccc
Q 041360          383 GLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEA--WR-MWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEA  457 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~--~~-~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L  457 (561)
                      ++++|+.|+++.|.+..++..  ..+++|+.|++.....  .+ .......  ++..|++.++......+...... .+|
T Consensus       150 ~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~--~L~~L~l~~~~~~~~~~~~~~~~-~~L  226 (477)
T 2id5_A          150 GLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLY--RLKVLEISHWPYLDTMTPNCLYG-LNL  226 (477)
T ss_dssp             TCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCT--TCCEEEEECCTTCCEECTTTTTT-CCC
T ss_pred             CCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCc--ccceeeCCCCccccccCcccccC-ccc
Confidence            899999999999999887764  3789999999964321  11 1222333  44445444322122223333233 589


Q ss_pred             cceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCC
Q 041360          458 EEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASK  536 (561)
Q Consensus       458 ~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~  536 (561)
                      +.|+++++ .++.++...  ...+++|++|+++++ .++.++.    .....+++|+.|.+.++.- .+.  +..+..++
T Consensus       227 ~~L~l~~n-~l~~~~~~~--~~~l~~L~~L~Ls~n-~l~~~~~----~~~~~l~~L~~L~L~~n~l~~~~--~~~~~~l~  296 (477)
T 2id5_A          227 TSLSITHC-NLTAVPYLA--VRHLVYLRFLNLSYN-PISTIEG----SMLHELLRLQEIQLVGGQLAVVE--PYAFRGLN  296 (477)
T ss_dssp             SEEEEESS-CCCSCCHHH--HTTCTTCCEEECCSS-CCCEECT----TSCTTCTTCCEEECCSSCCSEEC--TTTBTTCT
T ss_pred             cEEECcCC-cccccCHHH--hcCccccCeeECCCC-cCCccCh----hhccccccCCEEECCCCccceEC--HHHhcCcc
Confidence            99999986 455555322  357899999999995 5666552    1236788999999998875 442  33477889


Q ss_pred             CCcccCCCcc
Q 041360          537 GPEREKPTTS  546 (561)
Q Consensus       537 ~L~~L~i~~c  546 (561)
                      +|+.|++.++
T Consensus       297 ~L~~L~L~~N  306 (477)
T 2id5_A          297 YLRVLNVSGN  306 (477)
T ss_dssp             TCCEEECCSS
T ss_pred             cCCEEECCCC
Confidence            9999999877

>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=99.81  E-value=2.9e-19  Score=185.71  Aligned_cols=299  Identities=12%  Similarity=0.053  Sum_probs=198.0

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-C-chhhcCCCCCcEEEeCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-L-PSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-l-p~~i~~L~~L~~L~l~~  303 (561)
                      +.+..+++.+..+|.  -.++|++|+++++.  +..++...|+++++|++|++++|.+.. + |..+..+++|++|++++
T Consensus        13 ~~~~c~~~~l~~lp~--l~~~l~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~   88 (455)
T 3v47_A           13 YNAICINRGLHQVPE--LPAHVNYVDLSLNS--IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY   88 (455)
T ss_dssp             TEEECCSSCCSSCCC--CCTTCCEEECCSSC--CCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTT
T ss_pred             cccCcCCCCcccCCC--CCCccCEEEecCCc--cCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCC
Confidence            356667777888887  34899999999997  666655556999999999999999864 4 56799999999999999


Q ss_pred             CCCCC--cccccCCCCCcEEEccCCcCcc-cChh--hhccccc----------ccc-CchhhcCCCCCcEEEccCCcccc
Q 041360          304 CRLKD--IAIVGQLKKLEILSFRDSYIEE-LPHE--IGQLTRL----------VVI-APNLISKFSQLEELYMGDSFSQW  367 (561)
Q Consensus       304 ~~l~~--p~~i~~L~~L~~L~l~~~~~~~-lp~~--i~~L~~L----------~~l-~~~~i~~l~~L~~L~l~~~~~~~  367 (561)
                      |.+..  |..++++++|++|++++|.+.. +|..  ++++++|          ..+ |...++++++|++|++++|....
T Consensus        89 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~  168 (455)
T 3v47_A           89 NQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKS  168 (455)
T ss_dssp             CTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSC
T ss_pred             CccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCcccc
Confidence            99887  6889999999999999998875 3433  5555555          222 33235677777777777776533


Q ss_pred             cccCCCcccchHhhcCC--CCCcEEEEeeccCcccCccc----------ccccccEEEEEeccc---cccC---------
Q 041360          368 DKVEGGSNASLAELKGL--SKLTTLEIQVRDAQILPQDL----------VLVELQRYKICIGEA---WRMW---------  423 (561)
Q Consensus       368 ~~~~~~~~~~~~~l~~l--~~L~~L~l~~~~~~~~~~~~----------~~~~L~~L~l~~~~~---~~~~---------  423 (561)
                      ..+        ..+..+  .+|+.|+++.+.+..++...          .+++|+.|++..+..   .+.+         
T Consensus       169 ~~~--------~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~  240 (455)
T 3v47_A          169 ICE--------EDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTK  240 (455)
T ss_dssp             CCT--------TTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHHHHHHHTTTCC
T ss_pred             cCh--------hhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchhhhhccccccc
Confidence            222        122222  46677777766665544321          335677777743311   0000         


Q ss_pred             ----------------------------CCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccc
Q 041360          424 ----------------------------GVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHEL  475 (561)
Q Consensus       424 ----------------------------~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~  475 (561)
                                                  .......++..|++.++......+..+..+ ++|+.|+++++.-....+.. 
T Consensus       241 L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l-~~L~~L~Ls~n~l~~~~~~~-  318 (455)
T 3v47_A          241 IQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHF-TDLEQLTLAQNEINKIDDNA-  318 (455)
T ss_dssp             EEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECTTTTTTC-TTCCEEECTTSCCCEECTTT-
T ss_pred             eeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccchhhcccC-CCCCEEECCCCcccccChhH-
Confidence                                        000111345555555544233334455555 88888888875433222323 


Q ss_pred             cCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          476 DDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       476 ~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                        ...+++|++|+++++ .++.++.    .....+++|+.|++.+|.- .+.  +..+..+++|+.|++.++.
T Consensus       319 --~~~l~~L~~L~Ls~N-~l~~~~~----~~~~~l~~L~~L~Ls~N~l~~~~--~~~~~~l~~L~~L~L~~N~  382 (455)
T 3v47_A          319 --FWGLTHLLKLNLSQN-FLGSIDS----RMFENLDKLEVLDLSYNHIRALG--DQSFLGLPNLKELALDTNQ  382 (455)
T ss_dssp             --TTTCTTCCEEECCSS-CCCEECG----GGGTTCTTCCEEECCSSCCCEEC--TTTTTTCTTCCEEECCSSC
T ss_pred             --hcCcccCCEEECCCC-ccCCcCh----hHhcCcccCCEEECCCCcccccC--hhhccccccccEEECCCCc
Confidence              457889999999985 5555531    1336789999999999875 432  2336778999999998863

>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=99.81  E-value=6.7e-20  Score=195.24  Aligned_cols=179  Identities=17%  Similarity=0.191  Sum_probs=144.8

Q ss_pred             EEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCCCC
Q 041360          228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRL  306 (561)
Q Consensus       228 l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~~l  306 (561)
                      .+.+++.+..+|..+. ++|++|+++++.  +..++...|+++++|++|++++|.+..++ ..++.+++|++|++++|.+
T Consensus        10 c~~~~~~l~~ip~~~~-~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l   86 (549)
T 2z81_A           10 CDGRSRSFTSIPSGLT-AAMKSLDLSFNK--ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHL   86 (549)
T ss_dssp             EECTTSCCSSCCSCCC-TTCCEEECCSSC--CCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCC
T ss_pred             EECCCCccccccccCC-CCccEEECcCCc--cCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCcc
Confidence            5666778888888653 899999999998  66665545699999999999999999975 6899999999999999999


Q ss_pred             CC-c-ccccCCCCCcEEEccCCcCccc--Chhhhccccc-----------cccCchhhcCCCCCcEEEccCCcccccccC
Q 041360          307 KD-I-AIVGQLKKLEILSFRDSYIEEL--PHEIGQLTRL-----------VVIAPNLISKFSQLEELYMGDSFSQWDKVE  371 (561)
Q Consensus       307 ~~-p-~~i~~L~~L~~L~l~~~~~~~l--p~~i~~L~~L-----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~  371 (561)
                      .. + ..++++++|++|++++|.+..+  |..++++++|           ..+|...++++++|++|++++|......+ 
T Consensus        87 ~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-  165 (549)
T 2z81_A           87 SSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQS-  165 (549)
T ss_dssp             CSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECT-
T ss_pred             CccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccCh-
Confidence            88 5 5599999999999999998854  6677777766           33444457889999999998887643333 


Q ss_pred             CCcccchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEEEec
Q 041360          372 GGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIG  417 (561)
Q Consensus       372 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~  417 (561)
                             ..++++++|+.|+++.+....++...  .+++|+.|++..+
T Consensus       166 -------~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n  206 (549)
T 2z81_A          166 -------QSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDT  206 (549)
T ss_dssp             -------TTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEEEESC
T ss_pred             -------hhhhccccCceEecccCcccccchhhHhhcccccEEEccCC
Confidence                   56788889999999988877666553  5789999999643

>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=99.81  E-value=1e-18  Score=186.46  Aligned_cols=137  Identities=19%  Similarity=0.210  Sum_probs=114.3

Q ss_pred             CceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeC
Q 041360          224 GPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLG  302 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~  302 (561)
                      ..++++++++.+..+|..+. ++|++|+++++.  +..++...|+++++|++|++++|.++.+ |..++.+++|++|+++
T Consensus        32 ~~~~l~ls~~~L~~ip~~~~-~~L~~L~Ls~N~--i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  108 (562)
T 3a79_B           32 LESMVDYSNRNLTHVPKDLP-PRTKALSLSQNS--ISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVS  108 (562)
T ss_dssp             -CCEEECTTSCCCSCCTTSC-TTCCEEECCSSC--CCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECT
T ss_pred             CCcEEEcCCCCCccCCCCCC-CCcCEEECCCCC--ccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECC
Confidence            34899999999999998664 899999999998  7778766679999999999999999997 6789999999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccC--hhhhcccccccc-------CchhhcCCCCC--cEEEccCCcc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELP--HEIGQLTRLVVI-------APNLISKFSQL--EELYMGDSFS  365 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~l-------~~~~i~~l~~L--~~L~l~~~~~  365 (561)
                      +|.++. |..  .+++|++|++++|.+..+|  ..++++++|+.+       ....+..+++|  ++|++++|..
T Consensus       109 ~N~l~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~L~~n~l  181 (562)
T 3a79_B          109 HNRLQNISCC--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSY  181 (562)
T ss_dssp             TSCCCEECSC--CCTTCSEEECCSSCCSBCCCCGGGGGCTTCCEEEEECSBCCTTTTGGGTTSCEEEEEEEESSC
T ss_pred             CCcCCccCcc--ccccCCEEECCCCCccccCchHhhcccCcccEEecCCCccccCchhhhhhceeeEEEeecccc
Confidence            999988 655  8999999999999998865  788888888332       22235556666  8888887755

>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=99.80  E-value=1e-18  Score=191.05  Aligned_cols=141  Identities=17%  Similarity=0.156  Sum_probs=111.4

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .+++++++++|.+..++.. + .+++|++|+++++.  +..+++..|+++++|++|++++|.+..+|. .++.+.+|++|
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L  102 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNT--ISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTEL  102 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSC--CCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEE
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCc--cCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEE
Confidence            7899999999999888764 3 78999999999987  666666667999999999999999999986 69999999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccC-hhhhccccccc----------cCchhh--cCCCCCcEEEccCCc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELP-HEIGQLTRLVV----------IAPNLI--SKFSQLEELYMGDSF  364 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp-~~i~~L~~L~~----------l~~~~i--~~l~~L~~L~l~~~~  364 (561)
                      ++++|.+.. + ..++++++|++|++++|.+...+ ..++++++|+.          ++...+  ..+++|++|++++|.
T Consensus       103 ~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~  182 (680)
T 1ziw_A          103 HLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQ  182 (680)
T ss_dssp             ECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCC
T ss_pred             ECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCc
Confidence            999999888 4 78999999999999999877654 44555555522          222222  245677777777765


Q ss_pred             c
Q 041360          365 S  365 (561)
Q Consensus       365 ~  365 (561)
                      .
T Consensus       183 l  183 (680)
T 1ziw_A          183 I  183 (680)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.80  E-value=5.7e-19  Score=197.23  Aligned_cols=144  Identities=21%  Similarity=0.257  Sum_probs=111.3

Q ss_pred             ccCCCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCC
Q 041360          220 TKQKGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNL  296 (561)
Q Consensus       220 ~~~~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L  296 (561)
                      .+ .++++|++++|.+..++. .+ .+++|++|+++++. ....+++..|+++++|++|+|++|.+..+ |..++.+.+|
T Consensus        22 lp-~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~-~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L   99 (844)
T 3j0a_A           22 VL-NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQY-TPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHL   99 (844)
T ss_dssp             SC-TTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTC-CCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSC
T ss_pred             CC-CCcCEEECCCCcCCccChhHCcccccCeEEeCCCCC-CccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCccc
Confidence            44 789999999999987744 44 89999999999996 46677555569999999999999999986 8899999999


Q ss_pred             cEEEeCCCCCCC--ccc--ccCCCCCcEEEccCCcCcccC--hhhhcccccccc----------CchhhcCC--CCCcEE
Q 041360          297 QTLCLGGCRLKD--IAI--VGQLKKLEILSFRDSYIEELP--HEIGQLTRLVVI----------APNLISKF--SQLEEL  358 (561)
Q Consensus       297 ~~L~l~~~~l~~--p~~--i~~L~~L~~L~l~~~~~~~lp--~~i~~L~~L~~l----------~~~~i~~l--~~L~~L  358 (561)
                      ++|+|++|.+..  |..  ++++++|++|++++|.+..++  ..++++++|+.+          ....++.+  ++|+.|
T Consensus       100 ~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L  179 (844)
T 3j0a_A          100 FELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFF  179 (844)
T ss_dssp             CCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCC
T ss_pred             CEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceE
Confidence            999999999876  544  999999999999999887663  455666655222          11223333  566666


Q ss_pred             EccCCcc
Q 041360          359 YMGDSFS  365 (561)
Q Consensus       359 ~l~~~~~  365 (561)
                      ++++|..
T Consensus       180 ~L~~n~l  186 (844)
T 3j0a_A          180 SLAANSL  186 (844)
T ss_dssp             EECCSBS
T ss_pred             ECCCCcc
Confidence            6666544

>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=99.79  E-value=3.6e-18  Score=186.64  Aligned_cols=109  Identities=21%  Similarity=0.222  Sum_probs=66.4

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L  299 (561)
                      .+++++++++|.+..+++. + .+++|++|+++++.  +..+|...|+++++|++|++++|.+..+| ..++.+++|++|
T Consensus        49 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~--l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  126 (680)
T 1ziw_A           49 SQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNE--LSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL  126 (680)
T ss_dssp             TTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEE
T ss_pred             CcCcEEECCCCccCccCHHHHhcccCcCEEECCCCc--cCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEE
Confidence            4566666666666555333 2 56666666666665  55566544566666666666666666654 456666666666


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCcccCh
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPH  333 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~  333 (561)
                      ++++|.+..  |..++++++|++|++++|.+..++.
T Consensus       127 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  162 (680)
T 1ziw_A          127 DLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKS  162 (680)
T ss_dssp             ECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCH
T ss_pred             ECCCCcccccCchhhcccccCCEEEccCCcccccCH
Confidence            666666555  3556666666666666665555543

>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=99.79  E-value=2.7e-18  Score=186.04  Aligned_cols=117  Identities=26%  Similarity=0.320  Sum_probs=81.5

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      ..+++|++++|.+..+++. + .+++|++|++++|.  +..+++..|+++++|++|+|++|.++.+|. .+..+.+|++|
T Consensus        52 ~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~--i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L  129 (635)
T 4g8a_A           52 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE--IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL  129 (635)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC--CCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEE
T ss_pred             cCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCc--CCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEE
Confidence            5677888888777777653 3 67777888887776  666766666777777777777777777764 46777777777


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcc--cChhhhccccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEE--LPHEIGQLTRL  341 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L  341 (561)
                      ++++|.++. + ..++++++|++|++++|.+..  +|..++++++|
T Consensus       130 ~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L  175 (635)
T 4g8a_A          130 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNL  175 (635)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTC
T ss_pred             ECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhh
Confidence            777777766 3 457777777777777776553  35555554444

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.78  E-value=1.7e-18  Score=185.81  Aligned_cols=182  Identities=16%  Similarity=0.274  Sum_probs=144.3

Q ss_pred             CEEeeccchhhhcccCCcceEec---CCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCC
Q 041360            1 MILTSRNRDLLERDMNSQKNFLI---EVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKS   77 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l---~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~   77 (561)
                      ||||||++.++.. .. ...+++   ++|+.+||++||.+.++..  .....+.+.+|+++|+|+||||..+|+.|+...
T Consensus       260 ilvTsR~~~~~~~-~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~--~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~  335 (591)
T 1z6t_A          260 ILLTTRDKSVTDS-VM-GPKYVVPVESSLGKEKGLEILSLFVNMK--KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP  335 (591)
T ss_dssp             EEEEESCGGGGTT-CC-SCEEEEECCSSCCHHHHHHHHHHHHTSC--GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST
T ss_pred             EEEECCCcHHHHh-cC-CCceEeecCCCCCHHHHHHHHHHHhCCC--cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc
Confidence            6999999998642 22 344555   5899999999999999742  223357899999999999999999999998663


Q ss_pred             HHHHHHHHHHHhhCCCCCC----CCchhhHHHHHHHHHHhcCChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCccccc
Q 041360           78 LDIWKDALSQLRSSNPREI----DGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNV  153 (561)
Q Consensus        78 ~~~w~~~~~~l~~~~~~~~----~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~  153 (561)
                       ..|+.+++.+.......+    .....++..++..||+.||++ .|.||+++|+||+++.|+...+..+|.+++     
T Consensus       336 -~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~l~~la~f~~~~~i~~~~l~~l~~~~~-----  408 (591)
T 1z6t_A          336 -NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDMET-----  408 (591)
T ss_dssp             -TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHHHHHGGGCCTTCCEEHHHHHHHHTCCH-----
T ss_pred             -hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHHHHHccccCCCCccCHHHHHHHhccCH-----
Confidence             379999998876532221    123468999999999999997 999999999999999999999999997541     


Q ss_pred             ccHHHHHHHHHHHHHHHHHcCccccc--CCCCceehhHHHHHHHHHHhh
Q 041360          154 YTLEEARSRVHRLIDNLKSSCLLLDG--DGKDEVKMHDVIHVVAVSIAT  200 (561)
Q Consensus       154 ~~~~~~~~~~~~~i~~L~~~sll~~~--~~~~~~~mh~lv~~~~~~~~~  200 (561)
                         +    .+.+.++.|+++|+++..  +....|.||+++|++++....
T Consensus       409 ---~----~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          409 ---E----EVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             ---H----HHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHTG
T ss_pred             ---H----HHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhhh
Confidence               2    234578899999999743  233479999999999998843

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

Probab=99.78  E-value=3.9e-19  Score=174.83  Aligned_cols=245  Identities=14%  Similarity=0.107  Sum_probs=183.4

Q ss_pred             CCccEEEeeccCCCCc--cccHHHHcCCCCccEEEecC-CCCC-CCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCC
Q 041360          245 PNLELFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTG-VRFS-SLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKL  318 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~-~~i~-~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L  318 (561)
                      .+++.|+++++. ...  .+|..+ +++++|++|++++ |.+. .+|..++.+++|++|++++|.+..  |..++++++|
T Consensus        50 ~~l~~L~L~~~~-l~~~~~~~~~l-~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  127 (313)
T 1ogq_A           50 YRVNNLDLSGLN-LPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCC-CSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCC-ccCCcccChhH-hCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            689999999998 333  677765 8999999999995 7776 479999999999999999999884  7889999999


Q ss_pred             cEEEccCCcCc-ccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCC-CCcEEEEeecc
Q 041360          319 EILSFRDSYIE-ELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLS-KLTTLEIQVRD  396 (561)
Q Consensus       319 ~~L~l~~~~~~-~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~-~L~~L~l~~~~  396 (561)
                      ++|++++|.+. .+|..              ++++++|++|++++|......+        ..+..++ +|+.|+++.|.
T Consensus       128 ~~L~Ls~N~l~~~~p~~--------------~~~l~~L~~L~L~~N~l~~~~p--------~~l~~l~~~L~~L~L~~N~  185 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPS--------------ISSLPNLVGITFDGNRISGAIP--------DSYGSFSKLFTSMTISRNR  185 (313)
T ss_dssp             CEEECCSSEEESCCCGG--------------GGGCTTCCEEECCSSCCEEECC--------GGGGCCCTTCCEEECCSSE
T ss_pred             CEEeCCCCccCCcCChH--------------HhcCCCCCeEECcCCcccCcCC--------HHHhhhhhcCcEEECcCCe
Confidence            99999999876 34432              6788899999999997653333        5677887 99999999988


Q ss_pred             Cc-ccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccc
Q 041360          397 AQ-ILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHEL  475 (561)
Q Consensus       397 ~~-~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~  475 (561)
                      +. .+|..+..-+|+.|++..+. +                      ....+..+..+ ++|+.|++.++.-....+.  
T Consensus       186 l~~~~~~~~~~l~L~~L~Ls~N~-l----------------------~~~~~~~~~~l-~~L~~L~L~~N~l~~~~~~--  239 (313)
T 1ogq_A          186 LTGKIPPTFANLNLAFVDLSRNM-L----------------------EGDASVLFGSD-KNTQKIHLAKNSLAFDLGK--  239 (313)
T ss_dssp             EEEECCGGGGGCCCSEEECCSSE-E----------------------EECCGGGCCTT-SCCSEEECCSSEECCBGGG--
T ss_pred             eeccCChHHhCCcccEEECcCCc-c----------------------cCcCCHHHhcC-CCCCEEECCCCceeeecCc--
Confidence            76 44444322237776663221 1                      11123333344 8999999998654333333  


Q ss_pred             cCCCCCCCccEEEEecCCccc-hhhcccCcccCCcCccccccccccccc--cccCCCCCCCCCCCCcccCCCccccccc
Q 041360          476 DDGEGFPRLKHLRVESCSEIL-HIVGSVGRVRRKVFPLLESLSLKKASF--VILHGQKPTAASKGPEREKPTTSLGFNE  551 (561)
Q Consensus       476 ~~~~~~~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~L~~L~l~~c~~--~~~~~~~~~~~l~~L~~L~i~~c~~l~~  551 (561)
                        ...+++|++|+++++ +++ .+|.     ....+++|+.|++.+++-  .++.    ...+++|+.+++.+++.+-.
T Consensus       240 --~~~l~~L~~L~Ls~N-~l~~~~p~-----~l~~l~~L~~L~Ls~N~l~~~ip~----~~~l~~L~~l~l~~N~~lc~  306 (313)
T 1ogq_A          240 --VGLSKNLNGLDLRNN-RIYGTLPQ-----GLTQLKFLHSLNVSFNNLCGEIPQ----GGNLQRFDVSAYANNKCLCG  306 (313)
T ss_dssp             --CCCCTTCCEEECCSS-CCEECCCG-----GGGGCTTCCEEECCSSEEEEECCC----STTGGGSCGGGTCSSSEEES
T ss_pred             --ccccCCCCEEECcCC-cccCcCCh-----HHhcCcCCCEEECcCCcccccCCC----CccccccChHHhcCCCCccC
Confidence              356899999999996 454 5552     346789999999999985  3322    36789999999999987764

>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=99.78  E-value=1.5e-18  Score=179.90  Aligned_cols=168  Identities=21%  Similarity=0.246  Sum_probs=123.6

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGG  303 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~  303 (561)
                      .+.++..+..+..+|..+ .++++.|+++++.  +..++...|+++++|++|++++|.+..++ ..+..+.+|++|+|++
T Consensus        56 ~~~v~c~~~~l~~iP~~~-~~~l~~L~L~~n~--i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~  132 (452)
T 3zyi_A           56 FSKVVCTRRGLSEVPQGI-PSNTRYLNLMENN--IQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD  132 (452)
T ss_dssp             SCEEECCSSCCSSCCSCC-CTTCSEEECCSSC--CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CcEEEECCCCcCccCCCC-CCCccEEECcCCc--CceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCC
Confidence            456677777777777654 3678888888887  66665555688888888888888888864 6788888888888888


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      |.++. + ..++.+++|++|++++|.+..+|.             ..+.++++|++|++++|......+.       ..+
T Consensus       133 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-------------~~~~~l~~L~~L~l~~~~~l~~i~~-------~~~  192 (452)
T 3zyi_A          133 NWLTVIPSGAFEYLSKLRELWLRNNPIESIPS-------------YAFNRVPSLMRLDLGELKKLEYISE-------GAF  192 (452)
T ss_dssp             SCCSBCCTTTSSSCTTCCEEECCSCCCCEECT-------------TTTTTCTTCCEEECCCCTTCCEECT-------TTT
T ss_pred             CcCCccChhhhcccCCCCEEECCCCCcceeCH-------------hHHhcCCcccEEeCCCCCCccccCh-------hhc
Confidence            88877 4 558888888888888887766553             2367778888888877544333321       346


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      .++++|+.|+++.|.+..+|....+++|+.|++.
T Consensus       193 ~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls  226 (452)
T 3zyi_A          193 EGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMS  226 (452)
T ss_dssp             TTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECT
T ss_pred             cCCCCCCEEECCCCcccccccccccccccEEECc
Confidence            6778888888888888777766677777777763

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

Probab=99.78  E-value=1.8e-18  Score=178.78  Aligned_cols=168  Identities=22%  Similarity=0.299  Sum_probs=119.8

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGG  303 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~  303 (561)
                      .+.++..+..+..+|..+. ++++.|+++++.  +..++...|+++++|++|++++|.+..++ ..+..+.+|++|+|++
T Consensus        45 ~~~v~c~~~~l~~iP~~~~-~~l~~L~L~~n~--i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~  121 (440)
T 3zyj_A           45 FSKVICVRKNLREVPDGIS-TNTRLLNLHENQ--IQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFD  121 (440)
T ss_dssp             SCEEECCSCCCSSCCSCCC-TTCSEEECCSCC--CCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCS
T ss_pred             CCEEEeCCCCcCcCCCCCC-CCCcEEEccCCc--CCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCC
Confidence            4566667777777776553 678888888886  66666555688888888888888887764 5678888888888888


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      |.++. + ..+..+++|++|++++|.+..+|.             ..+.++++|++|++++|......+.       ..+
T Consensus       122 n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~-------------~~~~~l~~L~~L~l~~~~~l~~i~~-------~~~  181 (440)
T 3zyj_A          122 NRLTTIPNGAFVYLSKLKELWLRNNPIESIPS-------------YAFNRIPSLRRLDLGELKRLSYISE-------GAF  181 (440)
T ss_dssp             SCCSSCCTTTSCSCSSCCEEECCSCCCCEECT-------------TTTTTCTTCCEEECCCCTTCCEECT-------TTT
T ss_pred             CcCCeeCHhHhhccccCceeeCCCCcccccCH-------------HHhhhCcccCEeCCCCCCCcceeCc-------chh
Confidence            88777 4 468888888888888887765543             2366777777788777544332221       346


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      .++++|+.|+++.|.++.+|....+++|+.|++.
T Consensus       182 ~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls  215 (440)
T 3zyj_A          182 EGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLS  215 (440)
T ss_dssp             TTCSSCCEEECTTSCCSSCCCCTTCSSCCEEECT
T ss_pred             hcccccCeecCCCCcCccccccCCCcccCEEECC
Confidence            6777788888887777777766667777777763

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.78  E-value=1.3e-18  Score=174.42  Aligned_cols=241  Identities=17%  Similarity=0.207  Sum_probs=153.7

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      ++++++++++|.+..++.. + .+++|++|+++++.  +..++...|+++++|++|++++|.++.+|.. ++.+++|++|
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  129 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG--INTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFL  129 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEE
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCc--cCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEE
Confidence            5778888888888777662 3 67888888888776  5566555457788888888888888877765 7778888888


Q ss_pred             EeCCCCCCC-cc--cccCCCCCcEEEccCC-cCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcc
Q 041360          300 CLGGCRLKD-IA--IVGQLKKLEILSFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       300 ~l~~~~l~~-p~--~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      ++++|.+.. |.  .++.+++|++|++++| .+..++             ...++++++|++|++++|......+     
T Consensus       130 ~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~-------------~~~~~~l~~L~~L~l~~n~l~~~~~-----  191 (353)
T 2z80_A          130 NLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQ-------------RKDFAGLTFLEELEIDASDLQSYEP-----  191 (353)
T ss_dssp             ECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC-------------TTTTTTCCEEEEEEEEETTCCEECT-----
T ss_pred             ECCCCCCcccCchhhhccCCCCcEEECCCCccccccC-------------HHHccCCCCCCEEECCCCCcCccCH-----
Confidence            888888777 43  6777888888888777 344433             2336777888888888776543222     


Q ss_pred             cchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEEEeccccccCC-------CCccccceEEEe---cCCccch
Q 041360          376 ASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIGEAWRMWG-------VTSEISRLVRLH---GLENVST  443 (561)
Q Consensus       376 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~-------~~~~~~~l~~L~---~~~~~~~  443 (561)
                         ..+.++++|+.|+++.|.+..++...  .+++|+.|++..+. +....       ..........|.   +.++. .
T Consensus       192 ---~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~-l  266 (353)
T 2z80_A          192 ---KSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELRDTD-LDTFHFSELSTGETNSLIKKFTFRNVKITDES-L  266 (353)
T ss_dssp             ---TTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEESCB-CTTCCCC------CCCCCCEEEEESCBCCHHH-H
T ss_pred             ---HHHhccccCCeecCCCCccccchhhhhhhcccccEEECCCCc-cccccccccccccccchhhccccccccccCcc-h
Confidence               45677788888888888776666543  46788888875432 11110       001111222222   21111 1


Q ss_pred             hhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecC
Q 041360          444 LLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       444 ~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                      ...+.++..+ ++|+.|+++++ .++.++..+  .+.+++|++|++.++
T Consensus       267 ~~l~~~l~~l-~~L~~L~Ls~N-~l~~i~~~~--~~~l~~L~~L~L~~N  311 (353)
T 2z80_A          267 FQVMKLLNQI-SGLLELEFSRN-QLKSVPDGI--FDRLTSLQKIWLHTN  311 (353)
T ss_dssp             HHHHHHHHTC-TTCCEEECCSS-CCCCCCTTT--TTTCTTCCEEECCSS
T ss_pred             hhhHHHHhcc-cCCCEEECCCC-CCCccCHHH--HhcCCCCCEEEeeCC
Confidence            2234445554 77777777764 445555442  246777777777775

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

Probab=99.77  E-value=4e-18  Score=176.38  Aligned_cols=248  Identities=16%  Similarity=0.095  Sum_probs=177.9

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      .+++|++|+++++.  +..+|.  ++.+++|++|++++|.++.+|  ++.+++|++|++++|.++..+ ++.+++|++|+
T Consensus        40 ~l~~L~~L~Ls~n~--l~~~~~--l~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~-~~~l~~L~~L~  112 (457)
T 3bz5_A           40 QLATLTSLDCHNSS--ITDMTG--IEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD-VTPLTKLTYLN  112 (457)
T ss_dssp             HHTTCCEEECCSSC--CCCCTT--GGGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC-CTTCTTCCEEE
T ss_pred             HcCCCCEEEccCCC--cccChh--hcccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee-cCCCCcCCEEE
Confidence            57899999999997  667773  589999999999999999986  899999999999999998842 89999999999


Q ss_pred             ccCCcCcccChhhhccccccccC-------chhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeec
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIA-------PNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVR  395 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~-------~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  395 (561)
                      +++|.+..+|  ++++++|+.+.       .-.++++++|++|++++|......          .+..+++|+.|+++.|
T Consensus       113 L~~N~l~~l~--~~~l~~L~~L~l~~N~l~~l~l~~l~~L~~L~l~~n~~~~~~----------~~~~l~~L~~L~ls~n  180 (457)
T 3bz5_A          113 CDTNKLTKLD--VSQNPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKKITKL----------DVTPQTQLTTLDCSFN  180 (457)
T ss_dssp             CCSSCCSCCC--CTTCTTCCEEECTTSCCSCCCCTTCTTCCEEECTTCSCCCCC----------CCTTCTTCCEEECCSS
T ss_pred             CCCCcCCeec--CCCCCcCCEEECCCCccceeccccCCcCCEEECCCCCccccc----------ccccCCcCCEEECCCC
Confidence            9999999887  67777663221       112678999999999988543222          3678899999999999


Q ss_pred             cCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccc
Q 041360          396 DAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHEL  475 (561)
Q Consensus       396 ~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~  475 (561)
                      .++.+| ...+++|+.|++..+. +... ......++..|++.++. ....+  +..+ ++|+.|+++++ .+..++   
T Consensus       181 ~l~~l~-l~~l~~L~~L~l~~N~-l~~~-~l~~l~~L~~L~Ls~N~-l~~ip--~~~l-~~L~~L~l~~N-~l~~~~---  249 (457)
T 3bz5_A          181 KITELD-VSQNKLLNRLNCDTNN-ITKL-DLNQNIQLTFLDCSSNK-LTEID--VTPL-TQLTYFDCSVN-PLTELD---  249 (457)
T ss_dssp             CCCCCC-CTTCTTCCEEECCSSC-CSCC-CCTTCTTCSEEECCSSC-CSCCC--CTTC-TTCSEEECCSS-CCSCCC---
T ss_pred             ccceec-cccCCCCCEEECcCCc-CCee-ccccCCCCCEEECcCCc-ccccC--cccc-CCCCEEEeeCC-cCCCcC---
Confidence            998877 5578899999885432 2211 23334556666666644 22222  4444 88999999875 344433   


Q ss_pred             cCCCCCCCccEEEEecCCccchhhcccC----cccCCcCccccccccccccc
Q 041360          476 DDGEGFPRLKHLRVESCSEILHIVGSVG----RVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       476 ~~~~~~~~L~~L~l~~c~~l~~l~~~~~----~~~~~~~~~L~~L~l~~c~~  523 (561)
                        .+.+++|+.|.+.+ ++++.+.-...    .+..+.+++|+.|++.+|+.
T Consensus       250 --~~~l~~L~~L~l~~-n~L~~L~l~~n~~~~~~~~~~l~~L~~L~Ls~n~~  298 (457)
T 3bz5_A          250 --VSTLSKLTTLHCIQ-TDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQ  298 (457)
T ss_dssp             --CTTCTTCCEEECTT-CCCSCCCCTTCTTCCEEECTTCTTCCCCCCTTCTT
T ss_pred             --HHHCCCCCEEeccC-CCCCEEECCCCccCCcccccccccCCEEECCCCcc
Confidence              34566666555544 33433321110    01235679999999999986

>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=99.77  E-value=1.1e-17  Score=172.97  Aligned_cols=276  Identities=13%  Similarity=0.126  Sum_probs=165.1

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++++++++|.+..++..  .++|++|+++++.  +..+|.  |+++++|++|++++|.++.+|..+   .+|++|+++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~--~~~L~~L~L~~n~--l~~lp~--~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~L~  181 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL--PPLLEYLGVSNNQ--LEKLPE--LQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAG  181 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC--CTTCCEEECCSSC--CSSCCC--CTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECC
T ss_pred             CCCcEEECCCCccCcccCC--CCCCCEEECcCCC--CCCCcc--cCCCCCCCEEECCCCcCcccCCCc---ccccEEECc
Confidence            5677777777766665542  2678888888876  556773  578888888888888887777543   478888888


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccc-------cccCchhhcCCCCCcEEEccCCcccccccCCCcc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      +|.++..+.++++++|++|++++|.+..+|....+|+.|       ..+|.  ++++++|++|++++|.... .+     
T Consensus       182 ~n~l~~l~~~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~n~l~~lp~--~~~l~~L~~L~l~~N~l~~-l~-----  253 (454)
T 1jl5_A          182 NNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPE--LQNLPFLTTIYADNNLLKT-LP-----  253 (454)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCCC--CTTCTTCCEEECCSSCCSS-CC-----
T ss_pred             CCcCCcCccccCCCCCCEEECCCCcCCcCCCCcCcccEEECcCCcCCcccc--cCCCCCCCEEECCCCcCCc-cc-----
Confidence            888777336888888888888888887777665555555       45553  6788888888888776532 11     


Q ss_pred             cchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhc
Q 041360          376 ASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLK  455 (561)
Q Consensus       376 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~  455 (561)
                         .   ..++|+.|+++.|.+..+|..  +++|+.|++..+. +......  ..++..|++.++. ....+    .+.+
T Consensus       254 ---~---~~~~L~~L~l~~N~l~~l~~~--~~~L~~L~ls~N~-l~~l~~~--~~~L~~L~l~~N~-l~~i~----~~~~  317 (454)
T 1jl5_A          254 ---D---LPPSLEALNVRDNYLTDLPEL--PQSLTFLDVSENI-FSGLSEL--PPNLYYLNASSNE-IRSLC----DLPP  317 (454)
T ss_dssp             ---S---CCTTCCEEECCSSCCSCCCCC--CTTCCEEECCSSC-CSEESCC--CTTCCEEECCSSC-CSEEC----CCCT
T ss_pred             ---c---cccccCEEECCCCcccccCcc--cCcCCEEECcCCc-cCcccCc--CCcCCEEECcCCc-CCccc----CCcC
Confidence               0   136778888887777766653  4677777774322 2111111  1244455554433 11111    1224


Q ss_pred             cccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCC
Q 041360          456 EAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAA  534 (561)
Q Consensus       456 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~  534 (561)
                      +|+.|+++++ .+..++.      .+++|++|+++++ +++.+|      .  .+++|+.|++.+++- .++..|..+..
T Consensus       318 ~L~~L~Ls~N-~l~~lp~------~~~~L~~L~L~~N-~l~~lp------~--~l~~L~~L~L~~N~l~~l~~ip~~l~~  381 (454)
T 1jl5_A          318 SLEELNVSNN-KLIELPA------LPPRLERLIASFN-HLAEVP------E--LPQNLKQLHVEYNPLREFPDIPESVED  381 (454)
T ss_dssp             TCCEEECCSS-CCSCCCC------CCTTCCEEECCSS-CCSCCC------C--CCTTCCEEECCSSCCSSCCCCCTTCCE
T ss_pred             cCCEEECCCC-ccccccc------cCCcCCEEECCCC-cccccc------c--hhhhccEEECCCCCCCcCCCChHHHHh
Confidence            7777777763 3444432      3677888888774 666666      1  467788888877765 43222223333


Q ss_pred             C-------------CCCcccCCCccc
Q 041360          535 S-------------KGPEREKPTTSL  547 (561)
Q Consensus       535 l-------------~~L~~L~i~~c~  547 (561)
                      +             ++|+.|++.++.
T Consensus       382 L~~n~~~~~i~~~~~~L~~L~ls~N~  407 (454)
T 1jl5_A          382 LRMNSHLAEVPELPQNLKQLHVETNP  407 (454)
T ss_dssp             EECCC---------------------
T ss_pred             hhhcccccccccccCcCCEEECCCCc
Confidence            3             677777776654

>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=99.76  E-value=2e-18  Score=169.47  Aligned_cols=155  Identities=21%  Similarity=0.181  Sum_probs=69.7

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccc---cHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQI---SDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQ  297 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~---~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~  297 (561)
                      .+++++++++|.+..+|...  .+++|++|+++++.  +..+   +..+ .++++|++|++++|.+..+|..+..+++|+
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~-~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~  104 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNG--LSFKGCCSQSD-FGTTSLKYLDLSFNGVITMSSNFLGLEQLE  104 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC--CCEEEEEEHHH-HSCSCCCEEECCSCSEEEEEEEEETCTTCC
T ss_pred             CCCCEEECCCCccCccCHhHhhccccCCEEECCCCc--cCcccCccccc-ccccccCEEECCCCccccChhhcCCCCCCC
Confidence            34455555555554444432  44455555554443  2221   2222 344555555555555444444444555555


Q ss_pred             EEEeCCCCCCC-c--ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          298 TLCLGGCRLKD-I--AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       298 ~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|++++|.+.. +  ..+..+++|++|++++|.+...+             ...++++++|++|++++|.....      
T Consensus       105 ~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-------------~~~~~~l~~L~~L~l~~n~l~~~------  165 (306)
T 2z66_A          105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF-------------NGIFNGLSSLEVLKMAGNSFQEN------  165 (306)
T ss_dssp             EEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECS-------------TTTTTTCTTCCEEECTTCEEGGG------
T ss_pred             EEECCCCcccccccchhhhhccCCCEEECCCCcCCccc-------------hhhcccCcCCCEEECCCCccccc------
Confidence            55555554443 2  24444555555555444433221             11244555555555555543210      


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCccc
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQIL  400 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~  400 (561)
                       .....+..+++|+.|+++.|.+..+
T Consensus       166 -~~~~~~~~l~~L~~L~Ls~n~l~~~  190 (306)
T 2z66_A          166 -FLPDIFTELRNLTFLDLSQCQLEQL  190 (306)
T ss_dssp             -EECSCCTTCTTCCEEECTTSCCCEE
T ss_pred             -cchhHHhhCcCCCEEECCCCCcCCc
Confidence             0112344455555555555554443

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

Probab=99.76  E-value=7.1e-18  Score=167.48  Aligned_cols=255  Identities=15%  Similarity=0.151  Sum_probs=162.0

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      ++++.+++++|.+..++. .+ .+++|++|+++++.  +..++...|+++++|++|++++|.+..+|..+.  .+|++|+
T Consensus        54 ~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L~  129 (332)
T 2ft3_A           54 PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNK--ISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVELR  129 (332)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC--CCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEEE
T ss_pred             CCCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCc--cCccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCEEE
Confidence            689999999999988865 34 89999999999997  666755556999999999999999999998776  8999999


Q ss_pred             eCCCCCCC-c-ccccCCCCCcEEEccCCcCcc---cChhhhccccc----------cccCchhhcCCCCCcEEEccCCcc
Q 041360          301 LGGCRLKD-I-AIVGQLKKLEILSFRDSYIEE---LPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       301 l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~---lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +++|.+.. + ..+..+++|++|++++|.+..   .|..++.+ +|          ..+|..   -.++|++|++++|..
T Consensus       130 l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~---~~~~L~~L~l~~n~i  205 (332)
T 2ft3_A          130 IHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKD---LPETLNELHLDHNKI  205 (332)
T ss_dssp             CCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSS---SCSSCSCCBCCSSCC
T ss_pred             CCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCcc---ccCCCCEEECCCCcC
Confidence            99999988 5 569999999999999998763   23333322 22          112211   113455555554433


Q ss_pred             cccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCCCCccccceEEEecCCccch
Q 041360          366 QWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVST  443 (561)
Q Consensus       366 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~  443 (561)
                      ....+        ..+.++++|+.|+++.|.+..++..  ..+++|+.|++                       .++. .
T Consensus       206 ~~~~~--------~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L-----------------------~~N~-l  253 (332)
T 2ft3_A          206 QAIEL--------EDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHL-----------------------DNNK-L  253 (332)
T ss_dssp             CCCCT--------TSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEEC-----------------------CSSC-C
T ss_pred             CccCH--------HHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEEC-----------------------CCCc-C
Confidence            21111        2344455555555555554443321  13444444444                       3322 2


Q ss_pred             hhhhhhHHHhhccccceeeccccCccccccccc-C---CCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccc
Q 041360          444 LLENYGMKMLLKEAEEIHLNELKGVQNAVHELD-D---GEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLK  519 (561)
Q Consensus       444 ~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~-~---~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~  519 (561)
                      ...+.++..+ ++|+.|+++++ .++.++...+ +   ...+++|+.|++.+++ +..+.-..  .....+++|+.|.+.
T Consensus       254 ~~lp~~l~~l-~~L~~L~l~~N-~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~-~~~~~~~~--~~~~~l~~L~~l~l~  328 (332)
T 2ft3_A          254 SRVPAGLPDL-KLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNP-VPYWEVQP--ATFRCVTDRLAIQFG  328 (332)
T ss_dssp             CBCCTTGGGC-TTCCEEECCSS-CCCBCCTTSSSCSSCCSSSCCBSEEECCSSS-SCGGGSCG--GGGTTBCCSTTEEC-
T ss_pred             eecChhhhcC-ccCCEEECCCC-CCCccChhHccccccccccccccceEeecCc-ccccccCc--ccccccchhhhhhcc
Confidence            2344455555 89999999974 4555554322 0   1126889999999965 43222000  123456777887777


Q ss_pred             ccc
Q 041360          520 KAS  522 (561)
Q Consensus       520 ~c~  522 (561)
                      ++.
T Consensus       329 ~n~  331 (332)
T 2ft3_A          329 NYK  331 (332)
T ss_dssp             ---
T ss_pred             ccc
Confidence            664

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

Probab=99.76  E-value=2.7e-17  Score=183.74  Aligned_cols=299  Identities=14%  Similarity=0.070  Sum_probs=186.3

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCC-chhhcCCCCCcEEEeCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSL-PSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~l-p~~i~~L~~L~~L~l~~  303 (561)
                      +.++.+++++..+|.  -.+++++|+++++.  +..++...|+++++|++|++++|. +..+ |..++++++|++|+|++
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~--i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~   82 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNY--IRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGS   82 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCC--CCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTT
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCc--CCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCC
Confidence            456777888888998  56899999999997  666655556999999999999995 4456 78899999999999999


Q ss_pred             CCCCC--cccccCCCCCcEEEccCCcCcc-cChh--hhcccccc----------cc-CchhhcCCCCCcEEEccCCcccc
Q 041360          304 CRLKD--IAIVGQLKKLEILSFRDSYIEE-LPHE--IGQLTRLV----------VI-APNLISKFSQLEELYMGDSFSQW  367 (561)
Q Consensus       304 ~~l~~--p~~i~~L~~L~~L~l~~~~~~~-lp~~--i~~L~~L~----------~l-~~~~i~~l~~L~~L~l~~~~~~~  367 (561)
                      |.+..  |..++++++|++|++++|.+.. +|..  ++++++|+          .+ +...++++++|++|++++|....
T Consensus        83 N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~  162 (844)
T 3j0a_A           83 SKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFL  162 (844)
T ss_dssp             CCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCC
T ss_pred             CcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCe
Confidence            99887  7899999999999999998875 4554  66666662          22 22346778888888877776532


Q ss_pred             cccCCCcccchHhhcCC--CCCcEEEEeeccCccc-Ccc-cccc------cccEEEEEecc---ccccC-CCC-------
Q 041360          368 DKVEGGSNASLAELKGL--SKLTTLEIQVRDAQIL-PQD-LVLV------ELQRYKICIGE---AWRMW-GVT-------  426 (561)
Q Consensus       368 ~~~~~~~~~~~~~l~~l--~~L~~L~l~~~~~~~~-~~~-~~~~------~L~~L~l~~~~---~~~~~-~~~-------  426 (561)
                      ..+        ..+..+  ++|+.|+++.|.+... +.. ..+.      +|+.|++..+.   ..+.+ ...       
T Consensus       163 ~~~--------~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~~l~  234 (844)
T 3j0a_A          163 VCE--------HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAF  234 (844)
T ss_dssp             CCS--------GGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTSGGGGTSCSCCBS
T ss_pred             eCH--------HHcccccCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCcCchhHHHHHHhhcCccccc
Confidence            222        223323  6777778777765432 111 1122      37777774331   11100 000       


Q ss_pred             ----------------------------ccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCC
Q 041360          427 ----------------------------SEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDG  478 (561)
Q Consensus       427 ----------------------------~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~  478 (561)
                                                  ....++..|++.++......+..+..+ ++|+.|++.++. +..++...  .
T Consensus       235 ~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l-~~L~~L~L~~n~-i~~~~~~~--~  310 (844)
T 3j0a_A          235 SLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETL-KDLKVLNLAYNK-INKIADEA--F  310 (844)
T ss_dssp             EEECCSSCCBCSSSCSSSTTGGGTTTTTTTTSCCCEEECTTCCCCEECSCCSSSC-CCCCEEEEESCC-CCEECTTT--T
T ss_pred             ceecccccccccccccccCCCChhhhhccccCCccEEECCCCcccccChhhhhcC-CCCCEEECCCCc-CCCCChHH--h
Confidence                                        011234444444433122223333333 666667666543 33322211  3


Q ss_pred             CCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCccc
Q 041360          479 EGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       479 ~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      .++++|++|+++++ .++.++.    .....+++|+.|++.++.- .+...  .+..+++|+.|++.++.
T Consensus       311 ~~l~~L~~L~Ls~N-~l~~~~~----~~~~~l~~L~~L~L~~N~i~~~~~~--~~~~l~~L~~L~Ls~N~  373 (844)
T 3j0a_A          311 YGLDNLQVLNLSYN-LLGELYS----SNFYGLPKVAYIDLQKNHIAIIQDQ--TFKFLEKLQTLDLRDNA  373 (844)
T ss_dssp             TTCSSCCEEEEESC-CCSCCCS----CSCSSCTTCCEEECCSCCCCCCCSS--CSCSCCCCCEEEEETCC
T ss_pred             cCCCCCCEEECCCC-CCCccCH----HHhcCCCCCCEEECCCCCCCccChh--hhcCCCCCCEEECCCCC
Confidence            45677777777774 4444321    1335667777777777754 33222  25667788888876653

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

Probab=99.76  E-value=3.7e-17  Score=174.31  Aligned_cols=99  Identities=18%  Similarity=0.231  Sum_probs=73.2

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.++++++.+..+|..+. ++|++|++++|.  +..+|.    .+++|++|++++|.++.+|.   .+++|++|+++
T Consensus        40 ~~l~~L~ls~n~L~~lp~~l~-~~L~~L~L~~N~--l~~lp~----~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  109 (622)
T 3g06_A           40 NGNAVLNVGESGLTTLPDCLP-AHITTLVIPDNN--LTSLPA----LPPELRTLEVSGNQLTSLPV---LPPGLLELSIF  109 (622)
T ss_dssp             HCCCEEECCSSCCSCCCSCCC-TTCSEEEECSCC--CSCCCC----CCTTCCEEEECSCCCSCCCC---CCTTCCEEEEC
T ss_pred             CCCcEEEecCCCcCccChhhC-CCCcEEEecCCC--CCCCCC----cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECc
Confidence            346777888888877776554 778888888876  566665    46778888888888877776   66778888888


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHE  334 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~  334 (561)
                      +|.++. |.   .+.+|++|++++|.+..+|..
T Consensus       110 ~N~l~~l~~---~l~~L~~L~L~~N~l~~lp~~  139 (622)
T 3g06_A          110 SNPLTHLPA---LPSGLCKLWIFGNQLTSLPVL  139 (622)
T ss_dssp             SCCCCCCCC---CCTTCCEEECCSSCCSCCCCC
T ss_pred             CCcCCCCCC---CCCCcCEEECCCCCCCcCCCC
Confidence            887777 44   567788888888877776643

>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=99.75  E-value=2.5e-17  Score=163.34  Aligned_cols=263  Identities=13%  Similarity=0.096  Sum_probs=162.5

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      +.++.+++++|.+..++.. + .+++|++|+++++.  +..++...|+++++|++|++++|.++.+|..+.  .+|++|+
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L~  127 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK--ISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELR  127 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC--CCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCEEE
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCc--CCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccccEEE
Confidence            6899999999999888763 3 89999999999997  666644446999999999999999999998766  7999999


Q ss_pred             eCCCCCCC-c-ccccCCCCCcEEEccCCcCcc---cChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcc
Q 041360          301 LGGCRLKD-I-AIVGQLKKLEILSFRDSYIEE---LPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       301 l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~---lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      +++|.+.. + ..++++++|++|++++|.+..   .|..              ++++++|++|++++|.... .+     
T Consensus       128 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~--------------~~~l~~L~~L~l~~n~l~~-l~-----  187 (330)
T 1xku_A          128 VHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA--------------FQGMKKLSYIRIADTNITT-IP-----  187 (330)
T ss_dssp             CCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTG--------------GGGCTTCCEEECCSSCCCS-CC-----
T ss_pred             CCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhh--------------ccCCCCcCEEECCCCcccc-CC-----
Confidence            99999888 4 679999999999999998763   2333              4445555555555544321 11     


Q ss_pred             cchHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCC--CCccccceEEEecCCccchhhhhhhHH
Q 041360          376 ASLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWG--VTSEISRLVRLHGLENVSTLLENYGMK  451 (561)
Q Consensus       376 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~--~~~~~~~l~~L~~~~~~~~~~~~~~~~  451 (561)
                         ..+  .++|+.|+++.|.+..++..  ..+++|+.|++..+. +....  ......++..|++.++. ....+.++.
T Consensus       188 ---~~~--~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~lp~~l~  260 (330)
T 1xku_A          188 ---QGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGSLANTPHLRELHLNNNK-LVKVPGGLA  260 (330)
T ss_dssp             ---SSC--CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CCEECTTTGGGSTTCCEEECCSSC-CSSCCTTTT
T ss_pred             ---ccc--cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CceeChhhccCCCCCCEEECCCCc-CccCChhhc
Confidence               001  14455555555544433211  134455555543221 10000  01112233344444433 334445555


Q ss_pred             HhhccccceeeccccCccccccccc-C---CCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccc
Q 041360          452 MLLKEAEEIHLNELKGVQNAVHELD-D---GEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKA  521 (561)
Q Consensus       452 ~ll~~L~~L~l~~~~~~~~~~~~~~-~---~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c  521 (561)
                      .+ ++|+.|++.++ .++.++...+ +   ...+++|+.|++.+.+ ++.+.-..  .....+++|+.+++.++
T Consensus       261 ~l-~~L~~L~l~~N-~i~~~~~~~f~~~~~~~~~~~l~~l~l~~N~-~~~~~i~~--~~f~~~~~l~~l~L~~N  329 (330)
T 1xku_A          261 DH-KYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP-VQYWEIQP--STFRCVYVRAAVQLGNY  329 (330)
T ss_dssp             TC-SSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS-SCGGGSCG--GGGTTCCCGGGEEC---
T ss_pred             cC-CCcCEEECCCC-cCCccChhhcCCcccccccccccceEeecCc-ccccccCc--cccccccceeEEEeccc
Confidence            55 89999999975 4555544322 0   1235889999999854 44332100  12344566777776654

>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=99.75  E-value=5e-18  Score=164.71  Aligned_cols=216  Identities=18%  Similarity=0.202  Sum_probs=148.9

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~  304 (561)
                      +.++.+++.+..+|..+ .++|+.|+++++.  +..++...|+++++|++|++++|.+..+ |..+..+++|++|++++|
T Consensus        14 ~~~~c~~~~l~~ip~~~-~~~l~~L~l~~n~--i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n   90 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGI-PAASQRIFLHGNR--ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             CEEECCSSCCSSCCTTC-CTTCSEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCcCCcccCCcCC-CCCceEEEeeCCc--CCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            56777777777777644 4688888888887  6677766668888888888888888876 677888888888888888


Q ss_pred             C-CCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          305 R-LKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       305 ~-l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      . +..  +..+..+++|++|++++|.+..++.             ..++++++|++|++++|.......        ..+
T Consensus        91 ~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~~~--------~~~  149 (285)
T 1ozn_A           91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGP-------------GLFRGLAALQYLYLQDNALQALPD--------DTF  149 (285)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCT-------------TTTTTCTTCCEEECCSSCCCCCCT--------TTT
T ss_pred             CCccccCHHHhcCCcCCCEEECCCCcCCEECH-------------hHhhCCcCCCEEECCCCcccccCH--------hHh
Confidence            6 766  5778888888888888887765532             236778888888888876542221        346


Q ss_pred             cCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccc
Q 041360          382 KGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE  459 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~  459 (561)
                      ..+++|+.|+++.|.+..++..  ..+++|+.|++..+. +.                      ...+..+..+ ++|+.
T Consensus       150 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~----------------------~~~~~~~~~l-~~L~~  205 (285)
T 1ozn_A          150 RDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNR-VA----------------------HVHPHAFRDL-GRLMT  205 (285)
T ss_dssp             TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CC----------------------EECTTTTTTC-TTCCE
T ss_pred             ccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCc-cc----------------------ccCHhHccCc-ccccE
Confidence            7778888888888887766653  256777777763221 11                      1112223333 77788


Q ss_pred             eeeccccCcccccccccCCCCCCCccEEEEecC
Q 041360          460 IHLNELKGVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       460 L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                      |+++++ .+..++...  ...+++|++|++.++
T Consensus       206 L~l~~n-~l~~~~~~~--~~~l~~L~~L~l~~N  235 (285)
T 1ozn_A          206 LYLFAN-NLSALPTEA--LAPLRALQYLRLNDN  235 (285)
T ss_dssp             EECCSS-CCSCCCHHH--HTTCTTCCEEECCSS
T ss_pred             eeCCCC-cCCcCCHHH--cccCcccCEEeccCC
Confidence            888764 344444322  346788888888874

>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=99.73  E-value=4.3e-17  Score=163.26  Aligned_cols=168  Identities=18%  Similarity=0.203  Sum_probs=132.7

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCR  305 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~  305 (561)
                      ..+.+++.+..+|..+ .++|++|+++++.  +..++...|+++++|++|++++|.+..+ |..++.+++|++|++++|.
T Consensus        35 ~c~~~~~~l~~iP~~~-~~~L~~L~l~~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~  111 (353)
T 2z80_A           35 ICKGSSGSLNSIPSGL-TEAVKSLDLSNNR--ITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNY  111 (353)
T ss_dssp             EEECCSTTCSSCCTTC-CTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EeeCCCCCcccccccc-cccCcEEECCCCc--CcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCc
Confidence            4777888888888755 3689999999997  7778876679999999999999999987 5679999999999999999


Q ss_pred             CCC-cc-cccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcC
Q 041360          306 LKD-IA-IVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKG  383 (561)
Q Consensus       306 l~~-p~-~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~  383 (561)
                      ++. +. .++++++|++|++++|.+..+|..            ..++++++|++|++++|.......       ...+.+
T Consensus       112 l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~------------~~~~~l~~L~~L~l~~n~~~~~~~-------~~~~~~  172 (353)
T 2z80_A          112 LSNLSSSWFKPLSSLTFLNLLGNPYKTLGET------------SLFSHLTKLQILRVGNMDTFTKIQ-------RKDFAG  172 (353)
T ss_dssp             CSSCCHHHHTTCTTCSEEECTTCCCSSSCSS------------CSCTTCTTCCEEEEEESSSCCEEC-------TTTTTT
T ss_pred             CCcCCHhHhCCCccCCEEECCCCCCcccCch------------hhhccCCCCcEEECCCCccccccC-------HHHccC
Confidence            988 64 489999999999999988776630            226788999999999885332222       246778


Q ss_pred             CCCCcEEEEeeccCcccC-cc-cccccccEEEEEe
Q 041360          384 LSKLTTLEIQVRDAQILP-QD-LVLVELQRYKICI  416 (561)
Q Consensus       384 l~~L~~L~l~~~~~~~~~-~~-~~~~~L~~L~l~~  416 (561)
                      +++|+.|+++.|.+.... .. ..+++|+.|++..
T Consensus       173 l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~  207 (353)
T 2z80_A          173 LTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHM  207 (353)
T ss_dssp             CCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEEC
T ss_pred             CCCCCEEECCCCCcCccCHHHHhccccCCeecCCC
Confidence            899999999999887653 22 2567777777743

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

Probab=99.73  E-value=1.9e-18  Score=170.33  Aligned_cols=264  Identities=11%  Similarity=0.007  Sum_probs=142.5

Q ss_pred             CceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          224 GPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +++++++++|.+..++. .+ .+++|++|+++++.  +...++  |+.+++|++|++++|.++.+|.    .++|++|++
T Consensus        35 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~--l~~~~~--~~~l~~L~~L~Ls~n~l~~l~~----~~~L~~L~l  106 (317)
T 3o53_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV--LYETLD--LESLSTLRTLDLNNNYVQELLV----GPSIETLHA  106 (317)
T ss_dssp             GCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSC--CEEEEE--ETTCTTCCEEECCSSEEEEEEE----CTTCCEEEC
T ss_pred             CCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCc--CCcchh--hhhcCCCCEEECcCCccccccC----CCCcCEEEC
Confidence            45555555555544432 12 45555555555554  333332  3455555555555555444332    245555555


Q ss_pred             CCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          302 GGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       302 ~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                      ++|.+.. +..  .+++|++|++++|.+..++             ...++.+++|++|++++|......+        ..
T Consensus       107 ~~n~l~~~~~~--~~~~L~~L~l~~N~l~~~~-------------~~~~~~l~~L~~L~Ls~N~l~~~~~--------~~  163 (317)
T 3o53_A          107 ANNNISRVSCS--RGQGKKNIYLANNKITMLR-------------DLDEGCRSRVQYLDLKLNEIDTVNF--------AE  163 (317)
T ss_dssp             CSSCCSEEEEC--CCSSCEEEECCSSCCCSGG-------------GBCTGGGSSEEEEECTTSCCCEEEG--------GG
T ss_pred             CCCccCCcCcc--ccCCCCEEECCCCCCCCcc-------------chhhhccCCCCEEECCCCCCCcccH--------HH
Confidence            5555444 211  1344555555555444332             1224556667777776665432111        22


Q ss_pred             h-cCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccc
Q 041360          381 L-KGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE  459 (561)
Q Consensus       381 l-~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~  459 (561)
                      + ..+++|+.|+++.|.++.++....+++|+.|++..+                       . ....+..+..+ ++|+.
T Consensus       164 ~~~~l~~L~~L~L~~N~l~~~~~~~~l~~L~~L~Ls~N-----------------------~-l~~l~~~~~~l-~~L~~  218 (317)
T 3o53_A          164 LAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSN-----------------------K-LAFMGPEFQSA-AGVTW  218 (317)
T ss_dssp             GGGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSS-----------------------C-CCEECGGGGGG-TTCSE
T ss_pred             HhhccCcCCEEECCCCcCcccccccccccCCEEECCCC-----------------------c-CCcchhhhccc-CcccE
Confidence            2 345667777777766666555555666666655322                       2 11223334444 89999


Q ss_pred             eeeccccCcccccccccCCCCCCCccEEEEecCCcc-chhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCC
Q 041360          460 IHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEI-LHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKG  537 (561)
Q Consensus       460 L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l-~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~  537 (561)
                      |+++++ .+..++..   ...+++|+.|++++++-- ..++.     ....+++|+.|.+.+++. .-  ........+.
T Consensus       219 L~L~~N-~l~~l~~~---~~~l~~L~~L~l~~N~~~~~~~~~-----~~~~~~~L~~l~l~~~~~l~~--~~~~~~~~~~  287 (317)
T 3o53_A          219 ISLRNN-KLVLIEKA---LRFSQNLEHFDLRGNGFHCGTLRD-----FFSKNQRVQTVAKQTVKKLTG--QNEEECTVPT  287 (317)
T ss_dssp             EECTTS-CCCEECTT---CCCCTTCCEEECTTCCCBHHHHHH-----HHHTCHHHHHHHHHHHHHHHS--SSSCCCSSTT
T ss_pred             EECcCC-cccchhhH---hhcCCCCCEEEccCCCccCcCHHH-----HHhccccceEEECCCchhccC--CchhccCCCc
Confidence            999985 56666654   457899999999986433 23331     336788999999988876 11  0111122334


Q ss_pred             CcccCCCcccccccccc
Q 041360          538 PEREKPTTSLGFNEIIA  554 (561)
Q Consensus       538 L~~L~i~~c~~l~~~~~  554 (561)
                      +....-.+|..+..-|+
T Consensus       288 ~~~~~~~cc~~l~~~~~  304 (317)
T 3o53_A          288 LGHYGAYCCEDLPAPFA  304 (317)
T ss_dssp             CEEETTEEEBCCTTTHH
T ss_pred             eecccceeeccCChhHH
Confidence            45555567777765543

>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=99.72  E-value=2.6e-17  Score=159.72  Aligned_cols=170  Identities=21%  Similarity=0.333  Sum_probs=131.0

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCC-chhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSL-PSSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~l-p~~i~~L~~L~~  298 (561)
                      .++++++++++.+..++.. + .+++|++|+++++.  +..++...|+++++|++|++++|. +..+ |..+..+++|++
T Consensus        32 ~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~  109 (285)
T 1ozn_A           32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV--LARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHT  109 (285)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCE
T ss_pred             CCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCc--cceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCE
Confidence            7899999999999888764 3 78999999999997  666655556999999999999997 8887 678999999999


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCccc
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNA  376 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~  376 (561)
                      |++++|.+..  +..+.++++|++|++++|.+..+|..             .++++++|++|++++|.......      
T Consensus       110 L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-------------~~~~l~~L~~L~l~~n~l~~~~~------  170 (285)
T 1ozn_A          110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDD-------------TFRDLGNLTHLFLHGNRISSVPE------  170 (285)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-------------TTTTCTTCCEEECCSSCCCEECT------
T ss_pred             EECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHh-------------HhccCCCccEEECCCCcccccCH------
Confidence            9999999888  57799999999999999988876643             25666777777777765432111      


Q ss_pred             chHhhcCCCCCcEEEEeeccCcccC-ccc-ccccccEEEEE
Q 041360          377 SLAELKGLSKLTTLEIQVRDAQILP-QDL-VLVELQRYKIC  415 (561)
Q Consensus       377 ~~~~l~~l~~L~~L~l~~~~~~~~~-~~~-~~~~L~~L~l~  415 (561)
                        ..+..+++|+.|+++.|.+..+. ..+ .+++|+.|++.
T Consensus       171 --~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  209 (285)
T 1ozn_A          171 --RAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF  209 (285)
T ss_dssp             --TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             --HHhcCccccCEEECCCCcccccCHhHccCcccccEeeCC
Confidence              23566677777777777666542 222 45666666663

>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=99.72  E-value=2.6e-16  Score=162.62  Aligned_cols=270  Identities=19%  Similarity=0.182  Sum_probs=184.3

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      ++++++++++|.+..+|..  .++|++|+++++.  +..++.    -.++|++|++++|.++.+| +++.+.+|++|+++
T Consensus        91 ~~L~~L~l~~n~l~~lp~~--~~~L~~L~l~~n~--l~~l~~----~~~~L~~L~L~~n~l~~lp-~~~~l~~L~~L~l~  161 (454)
T 1jl5_A           91 PHLESLVASCNSLTELPEL--PQSLKSLLVDNNN--LKALSD----LPPLLEYLGVSNNQLEKLP-ELQNSSFLKIIDVD  161 (454)
T ss_dssp             TTCSEEECCSSCCSSCCCC--CTTCCEEECCSSC--CSCCCS----CCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECC
T ss_pred             CCCCEEEccCCcCCccccc--cCCCcEEECCCCc--cCcccC----CCCCCCEEECcCCCCCCCc-ccCCCCCCCEEECC
Confidence            6888899988888877753  4788899998886  555553    1268899999999888888 58889999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCc--hhh----cCCCCCcEEEccCCcccccccCCCcc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAP--NLI----SKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~--~~i----~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      +|.++. |..+   .+|++|++++|.+..+| +++++++|+.+.-  +.+    ...++|++|++++|... ..+     
T Consensus       162 ~N~l~~lp~~~---~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~n~l~-~lp-----  231 (454)
T 1jl5_A          162 NNSLKKLPDLP---PSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE-ELP-----  231 (454)
T ss_dssp             SSCCSCCCCCC---TTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCS-SCC-----
T ss_pred             CCcCcccCCCc---ccccEEECcCCcCCcCc-cccCCCCCCEEECCCCcCCcCCCCcCcccEEECcCCcCC-ccc-----
Confidence            988877 5443   48889999988888887 5677666632211  001    11247788888777543 221     


Q ss_pred             cchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhc
Q 041360          376 ASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLK  455 (561)
Q Consensus       376 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~  455 (561)
                          .++.+++|+.|+++.|.+..+|.  .+++|+.|++..+. +......  ..++..|++.++. ....+    .+.+
T Consensus       232 ----~~~~l~~L~~L~l~~N~l~~l~~--~~~~L~~L~l~~N~-l~~l~~~--~~~L~~L~ls~N~-l~~l~----~~~~  297 (454)
T 1jl5_A          232 ----ELQNLPFLTTIYADNNLLKTLPD--LPPSLEALNVRDNY-LTDLPEL--PQSLTFLDVSENI-FSGLS----ELPP  297 (454)
T ss_dssp             ----CCTTCTTCCEEECCSSCCSSCCS--CCTTCCEEECCSSC-CSCCCCC--CTTCCEEECCSSC-CSEES----CCCT
T ss_pred             ----ccCCCCCCCEEECCCCcCCcccc--cccccCEEECCCCc-ccccCcc--cCcCCEEECcCCc-cCccc----CcCC
Confidence                36778888999998888877765  34788888885332 2222111  2455566665543 11111    1236


Q ss_pred             cccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCC
Q 041360          456 EAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAA  534 (561)
Q Consensus       456 ~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~  534 (561)
                      +|+.|+++++ .+..++      ...++|++|++++ .+++.+|        ..+++|+.|++.+|.- .++.      .
T Consensus       298 ~L~~L~l~~N-~l~~i~------~~~~~L~~L~Ls~-N~l~~lp--------~~~~~L~~L~L~~N~l~~lp~------~  355 (454)
T 1jl5_A          298 NLYYLNASSN-EIRSLC------DLPPSLEELNVSN-NKLIELP--------ALPPRLERLIASFNHLAEVPE------L  355 (454)
T ss_dssp             TCCEEECCSS-CCSEEC------CCCTTCCEEECCS-SCCSCCC--------CCCTTCCEEECCSSCCSCCCC------C
T ss_pred             cCCEEECcCC-cCCccc------CCcCcCCEEECCC-Ccccccc--------ccCCcCCEEECCCCccccccc------h
Confidence            7888888864 333332      1235899999998 4677776        3479999999999864 4322      4


Q ss_pred             CCCCcccCCCccc
Q 041360          535 SKGPEREKPTTSL  547 (561)
Q Consensus       535 l~~L~~L~i~~c~  547 (561)
                      +++|+.|++.++.
T Consensus       356 l~~L~~L~L~~N~  368 (454)
T 1jl5_A          356 PQNLKQLHVEYNP  368 (454)
T ss_dssp             CTTCCEEECCSSC
T ss_pred             hhhccEEECCCCC
Confidence            6899999998764

>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=99.72  E-value=3.4e-17  Score=169.75  Aligned_cols=218  Identities=19%  Similarity=0.201  Sum_probs=166.8

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      .+++.|++++|.+..++.. + .+++|+.|+++++.  +..++...|.++++|++|++++|.+..+|.. +..+++|++|
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  152 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS--IRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLREL  152 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEE
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCc--cCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEE
Confidence            7899999999999887544 3 89999999999997  7777766679999999999999999998764 8899999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCC-cCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNA  376 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~  376 (561)
                      ++++|.+.. + ..+.++++|++|++++| .+..+|             ...+.++++|++|++++|....         
T Consensus       153 ~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~-------------~~~~~~l~~L~~L~L~~n~l~~---------  210 (452)
T 3zyi_A          153 WLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYIS-------------EGAFEGLFNLKYLNLGMCNIKD---------  210 (452)
T ss_dssp             ECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEEC-------------TTTTTTCTTCCEEECTTSCCSS---------
T ss_pred             ECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccC-------------hhhccCCCCCCEEECCCCcccc---------
Confidence            999999988 4 68999999999999986 454443             3447889999999999986541         


Q ss_pred             chHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhh
Q 041360          377 SLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLL  454 (561)
Q Consensus       377 ~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll  454 (561)
                       +..+..+++|+.|+++.|.+..++..  ..+++|+.|++..+. +                      ....+..+..+ 
T Consensus       211 -~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l----------------------~~~~~~~~~~l-  265 (452)
T 3zyi_A          211 -MPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQ-V----------------------SLIERNAFDGL-  265 (452)
T ss_dssp             -CCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSC-C----------------------CEECTTTTTTC-
T ss_pred             -cccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCc-C----------------------ceECHHHhcCC-
Confidence             13477889999999999988776443  267778877763221 1                      11112233333 


Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecC
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                      ++|+.|+++++ .+..++...  ...+++|++|++.++
T Consensus       266 ~~L~~L~L~~N-~l~~~~~~~--~~~l~~L~~L~L~~N  300 (452)
T 3zyi_A          266 ASLVELNLAHN-NLSSLPHDL--FTPLRYLVELHLHHN  300 (452)
T ss_dssp             TTCCEEECCSS-CCSCCCTTS--STTCTTCCEEECCSS
T ss_pred             CCCCEEECCCC-cCCccChHH--hccccCCCEEEccCC
Confidence            78888888875 455555433  356888888888874

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

Probab=99.71  E-value=4.1e-17  Score=168.56  Aligned_cols=218  Identities=18%  Similarity=0.229  Sum_probs=166.5

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      ..++.+++++|.+..++.. + .+++|++|+++++.  +..++...|.++++|++|++++|.++.+|. .+..+.+|++|
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~--i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  141 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH--IRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKEL  141 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSC--CCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEE
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCc--CCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCcee
Confidence            7899999999999888753 3 89999999999997  777877777999999999999999999876 68999999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCC-cCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNA  376 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~  376 (561)
                      ++++|.+.. + ..+.++++|++|++++| .+..+|             ...+.++++|++|++++|... ..       
T Consensus       142 ~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~-------------~~~~~~l~~L~~L~L~~n~l~-~~-------  200 (440)
T 3zyj_A          142 WLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYIS-------------EGAFEGLSNLRYLNLAMCNLR-EI-------  200 (440)
T ss_dssp             ECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEEC-------------TTTTTTCSSCCEEECTTSCCS-SC-------
T ss_pred             eCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeC-------------cchhhcccccCeecCCCCcCc-cc-------
Confidence            999999988 4 68999999999999986 444443             344788999999999998654 11       


Q ss_pred             chHhhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhh
Q 041360          377 SLAELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLL  454 (561)
Q Consensus       377 ~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll  454 (561)
                        ..+..+++|+.|+++.|.+..++..  ..+++|+.|++..+. +.                      ...+..+..+ 
T Consensus       201 --~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~----------------------~~~~~~~~~l-  254 (440)
T 3zyj_A          201 --PNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQ-IQ----------------------VIERNAFDNL-  254 (440)
T ss_dssp             --CCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC-CC----------------------EECTTSSTTC-
T ss_pred             --cccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCc-ee----------------------EEChhhhcCC-
Confidence              2477889999999999988776433  267788887763221 11                      1112223333 


Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecC
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                      ++|+.|+++++ .+..++...  ...+++|+.|++.++
T Consensus       255 ~~L~~L~L~~N-~l~~~~~~~--~~~l~~L~~L~L~~N  289 (440)
T 3zyj_A          255 QSLVEINLAHN-NLTLLPHDL--FTPLHHLERIHLHHN  289 (440)
T ss_dssp             TTCCEEECTTS-CCCCCCTTT--TSSCTTCCEEECCSS
T ss_pred             CCCCEEECCCC-CCCccChhH--hccccCCCEEEcCCC
Confidence            78888888874 455555433  356788888888763

>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=99.71  E-value=3.7e-17  Score=160.36  Aligned_cols=166  Identities=18%  Similarity=0.159  Sum_probs=137.6

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC---chhhcCCCCCcEEEeCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL---PSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l---p~~i~~L~~L~~L~l~~  303 (561)
                      .+..+++.+..+|..+ .++|+.|+++++.  +..+|..+|+++++|++|++++|.+...   |..+..+.+|++|++++
T Consensus        11 ~l~c~~~~l~~ip~~~-~~~l~~L~L~~n~--l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~   87 (306)
T 2z66_A           11 EIRCNSKGLTSVPTGI-PSSATRLELESNK--LQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSF   87 (306)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCCEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCS
T ss_pred             EEEcCCCCcccCCCCC-CCCCCEEECCCCc--cCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEECCC
Confidence            5777778888888755 3789999999997  7789988889999999999999999865   68888999999999999


Q ss_pred             CCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          304 CRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       304 ~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      |.+.. |..+..+++|++|++++|.+..+|.            ...+.++++|++|++++|......+        ..+.
T Consensus        88 n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~------------~~~~~~l~~L~~L~l~~n~l~~~~~--------~~~~  147 (306)
T 2z66_A           88 NGVITMSSNFLGLEQLEHLDFQHSNLKQMSE------------FSVFLSLRNLIYLDISHTHTRVAFN--------GIFN  147 (306)
T ss_dssp             CSEEEEEEEEETCTTCCEEECTTSEEESSTT------------TTTTTTCTTCCEEECTTSCCEECST--------TTTT
T ss_pred             CccccChhhcCCCCCCCEEECCCCccccccc------------chhhhhccCCCEEECCCCcCCccch--------hhcc
Confidence            99888 8889999999999999998776653            1237789999999999987643332        4577


Q ss_pred             CCCCCcEEEEeeccCcc--cCccc-ccccccEEEEE
Q 041360          383 GLSKLTTLEIQVRDAQI--LPQDL-VLVELQRYKIC  415 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~--~~~~~-~~~~L~~L~l~  415 (561)
                      .+++|+.|+++.|.+..  .|..+ .+++|+.|++.
T Consensus       148 ~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls  183 (306)
T 2z66_A          148 GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS  183 (306)
T ss_dssp             TCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECT
T ss_pred             cCcCCCEEECCCCccccccchhHHhhCcCCCEEECC
Confidence            88999999999988764  45443 77889998884

>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=99.69  E-value=4.7e-16  Score=165.83  Aligned_cols=161  Identities=20%  Similarity=0.179  Sum_probs=120.0

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.|++++|.+..+|.  .+++|++|++++|.  +..+|.    .+++|++|++++|.+..+|.   .+.+|++|+++
T Consensus        61 ~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~--l~~lp~----~l~~L~~L~Ls~N~l~~l~~---~l~~L~~L~L~  129 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQ--LTSLPV----LPPGLLELSIFSNPLTHLPA---LPSGLCKLWIF  129 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCC--CSCCCC----CCTTCCEEEECSCCCCCCCC---CCTTCCEEECC
T ss_pred             CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCc--CCcCCC----CCCCCCEEECcCCcCCCCCC---CCCCcCEEECC
Confidence            789999999999999988  68999999999997  777875    78999999999999999987   67899999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccc-------cccCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|.++. |..   +++|++|++++|.+..+|..+.+|+.|       ..+|    ..+++|+.|++++|.+.. ++    
T Consensus       130 ~N~l~~lp~~---l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~l~~l~----~~~~~L~~L~Ls~N~l~~-l~----  197 (622)
T 3g06_A          130 GNQLTSLPVL---PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLP----MLPSGLQELSVSDNQLAS-LP----  197 (622)
T ss_dssp             SSCCSCCCCC---CTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCC----CCCTTCCEEECCSSCCSC-CC----
T ss_pred             CCCCCcCCCC---CCCCCEEECcCCcCCCcCCccCCCCEEECCCCCCCCCc----ccCCCCcEEECCCCCCCC-CC----
Confidence            999988 654   489999999999998888655555544       2222    234666666666665431 11    


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                             ..+++|+.|.++.|.+..+|.  .+++|+.|++.
T Consensus       198 -------~~~~~L~~L~L~~N~l~~l~~--~~~~L~~L~Ls  229 (622)
T 3g06_A          198 -------TLPSELYKLWAYNNRLTSLPA--LPSGLKELIVS  229 (622)
T ss_dssp             -------CCCTTCCEEECCSSCCSSCCC--CCTTCCEEECC
T ss_pred             -------CccchhhEEECcCCcccccCC--CCCCCCEEEcc
Confidence                   013566666666666665554  23556666653

>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=99.67  E-value=1.3e-15  Score=164.84  Aligned_cols=135  Identities=20%  Similarity=0.254  Sum_probs=111.3

Q ss_pred             EEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCC
Q 041360          228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRL  306 (561)
Q Consensus       228 l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l  306 (561)
                      ++-++.++..+|..+ -+++++|+++++.  +..++...|+++++|++|+|++|.|+.+|+ .+..|++|++|+|++|++
T Consensus        36 ~~c~~~~l~~vP~~l-p~~~~~LdLs~N~--i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l  112 (635)
T 4g8a_A           36 YQCMELNFYKIPDNL-PFSTKNLDLSFNP--LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI  112 (635)
T ss_dssp             EECTTSCCSSCCSSS-CTTCCEEECTTSC--CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC
T ss_pred             EECCCCCcCccCCCC-CcCCCEEEeeCCC--CCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcC
Confidence            344445667777654 2579999999997  888988778999999999999999999865 689999999999999999


Q ss_pred             CC-c-ccccCCCCCcEEEccCCcCcccChh-hhcccccc----------ccC-chhhcCCCCCcEEEccCCcc
Q 041360          307 KD-I-AIVGQLKKLEILSFRDSYIEELPHE-IGQLTRLV----------VIA-PNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       307 ~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L~----------~l~-~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +. | ..++++++|++|++++|++..+|.. ++++++|+          .++ +..++.+++|++|++++|.+
T Consensus       113 ~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l  185 (635)
T 4g8a_A          113 QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI  185 (635)
T ss_dssp             CEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCC
T ss_pred             CCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccc
Confidence            98 5 6789999999999999999999864 77777772          211 23478899999999998854

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

Probab=99.67  E-value=9.7e-16  Score=147.25  Aligned_cols=169  Identities=21%  Similarity=0.342  Sum_probs=85.7

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .++++|++++|.+..++.. + .+++|++|+++++.  +..++..+|+++++|++|++++|.+..+|. .+..+++|++|
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~--l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  114 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK--LQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAEL  114 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSC--CSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEE
T ss_pred             CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCc--cCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEE
Confidence            3455555555555444432 2 44555555555554  444444444555555555555555555433 23445555555


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS  377 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~  377 (561)
                      ++++|.+.. + ..++.+++|++|++++|.+..+|             ...++.+++|++|++++|......+       
T Consensus       115 ~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~-------------~~~~~~l~~L~~L~L~~n~l~~~~~-------  174 (270)
T 2o6q_A          115 RLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLP-------------KGVFDKLTSLKELRLYNNQLKRVPE-------  174 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCC-------------TTTTTTCTTCCEEECCSSCCSCCCT-------
T ss_pred             ECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccC-------------HhHccCCcccceeEecCCcCcEeCh-------
Confidence            555555444 2 33455555555555555444333             2224566666666666664432111       


Q ss_pred             hHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEE
Q 041360          378 LAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKI  414 (561)
Q Consensus       378 ~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l  414 (561)
                       ..+.++++|+.|+++.|.+..++...  .+++|+.|++
T Consensus       175 -~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l  212 (270)
T 2o6q_A          175 -GAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQL  212 (270)
T ss_dssp             -TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             -hHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEe
Confidence             23555666666666666666555432  4556666555

>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=99.66  E-value=2.1e-15  Score=147.74  Aligned_cols=176  Identities=16%  Similarity=0.212  Sum_probs=127.8

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      ++++++++.++.+..++....+++|++|+++++.  +..++.  +.++++|++|++++|.+..+| .+..+++|++|+++
T Consensus        41 ~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L~~n~--i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l~  115 (308)
T 1h6u_A           41 DGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ--ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLT  115 (308)
T ss_dssp             HTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECT
T ss_pred             CCcCEEEeeCCCccCchhhhccCCCCEEEccCCc--CCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEECC
Confidence            5788888888888887754478888999998886  667776  588888999999988888876 58888889999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccc----------cccCchhhcCCCCCcEEEccCCcccccccCC
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEG  372 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~  372 (561)
                      +|.+...+.+..+++|++|++++|.+..+|. ++.+++|          ..++.  +.++++|+.|++++|....     
T Consensus       116 ~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~-----  187 (308)
T 1h6u_A          116 STQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLKADDNKISD-----  187 (308)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCC-----
T ss_pred             CCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCcCCCChh--hcCCCCCCEEECCCCccCc-----
Confidence            8888884448888889999998888877764 4444444          12222  5667777777777765421     


Q ss_pred             CcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEe
Q 041360          373 GSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICI  416 (561)
Q Consensus       373 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~  416 (561)
                           +..+..+++|+.|+++.|.+..++....+++|+.|++..
T Consensus       188 -----~~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~  226 (308)
T 1h6u_A          188 -----ISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTN  226 (308)
T ss_dssp             -----CGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEE
T ss_pred             -----ChhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccC
Confidence                 112566677777777777776666555667777777643

>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=99.66  E-value=5.4e-16  Score=151.92  Aligned_cols=195  Identities=18%  Similarity=0.216  Sum_probs=151.6

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      ++++|+.|+++++.  +..++.  +..+++|++|++++|.+..++. +..+++|++|++++|.+..++.+..+++|++|+
T Consensus        39 ~l~~L~~L~l~~~~--i~~l~~--~~~l~~L~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~  113 (308)
T 1h6u_A           39 DLDGITTLSAFGTG--VTTIEG--VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLD  113 (308)
T ss_dssp             HHHTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEE
T ss_pred             HcCCcCEEEeeCCC--ccCchh--hhccCCCCEEEccCCcCCCChh-HccCCCCCEEEccCCcCCCchhhcCCCCCCEEE
Confidence            67899999999997  677774  5899999999999999999988 999999999999999998866899999999999


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  402 (561)
                      +++|.+..+|.               ++.+++|++|++++|....          ...+..+++|+.|+++.|.+..++.
T Consensus       114 l~~n~l~~~~~---------------l~~l~~L~~L~l~~n~l~~----------~~~l~~l~~L~~L~l~~n~l~~~~~  168 (308)
T 1h6u_A          114 LTSTQITDVTP---------------LAGLSNLQVLYLDLNQITN----------ISPLAGLTNLQYLSIGNAQVSDLTP  168 (308)
T ss_dssp             CTTSCCCCCGG---------------GTTCTTCCEEECCSSCCCC----------CGGGGGCTTCCEEECCSSCCCCCGG
T ss_pred             CCCCCCCCchh---------------hcCCCCCCEEECCCCccCc----------CccccCCCCccEEEccCCcCCCChh
Confidence            99998876541               6788899999999986531          1227788999999999998888777


Q ss_pred             ccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCC
Q 041360          403 DLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFP  482 (561)
Q Consensus       403 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~  482 (561)
                      ...+++|+.|++..+. +...                        ..+.. +++|+.|+++++ .+..++.    ...++
T Consensus       169 l~~l~~L~~L~l~~n~-l~~~------------------------~~l~~-l~~L~~L~L~~N-~l~~~~~----l~~l~  217 (308)
T 1h6u_A          169 LANLSKLTTLKADDNK-ISDI------------------------SPLAS-LPNLIEVHLKNN-QISDVSP----LANTS  217 (308)
T ss_dssp             GTTCTTCCEEECCSSC-CCCC------------------------GGGGG-CTTCCEEECTTS-CCCBCGG----GTTCT
T ss_pred             hcCCCCCCEEECCCCc-cCcC------------------------hhhcC-CCCCCEEEccCC-ccCcccc----ccCCC
Confidence            6677888888874321 1100                        01223 378888888875 3444443    45688


Q ss_pred             CccEEEEecCCccchhh
Q 041360          483 RLKHLRVESCSEILHIV  499 (561)
Q Consensus       483 ~L~~L~l~~c~~l~~l~  499 (561)
                      +|+.|++.++ .++..|
T Consensus       218 ~L~~L~l~~N-~i~~~~  233 (308)
T 1h6u_A          218 NLFIVTLTNQ-TITNQP  233 (308)
T ss_dssp             TCCEEEEEEE-EEECCC
T ss_pred             CCCEEEccCC-eeecCC
Confidence            9999999884 455544

>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=99.66  E-value=9.4e-16  Score=148.75  Aligned_cols=167  Identities=20%  Similarity=0.230  Sum_probs=103.9

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++.++.+..+|..+. ++++.|+++++.  +..++...|.++++|++|++++|.++.+|.. +.+++|++|+++
T Consensus        10 ~~l~~l~~~~~~l~~ip~~~~-~~l~~L~L~~N~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls   85 (290)
T 1p9a_G           10 ASHLEVNCDKRNLTALPPDLP-KDTTILHLSENL--LYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLS   85 (290)
T ss_dssp             TTCCEEECTTSCCSSCCSCCC-TTCCEEECTTSC--CSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEEECC
T ss_pred             CCccEEECCCCCCCcCCCCCC-CCCCEEEcCCCc--CCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEEECC
Confidence            456777777777777776553 677777777776  5556555567777888888887777776654 677778888887


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +|.+.. |..+..+++|++|++++|.+..+|.+             .+.++++|++|++++|.+....+        ..+
T Consensus        86 ~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~-------------~~~~l~~L~~L~L~~N~l~~~~~--------~~~  144 (290)
T 1p9a_G           86 HNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLG-------------ALRGLGELQELYLKGNELKTLPP--------GLL  144 (290)
T ss_dssp             SSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSS-------------TTTTCTTCCEEECTTSCCCCCCT--------TTT
T ss_pred             CCcCCcCchhhccCCCCCEEECCCCcCcccCHH-------------HHcCCCCCCEEECCCCCCCccCh--------hhc
Confidence            777777 67777777778888877777666522             24445555555555554321111        223


Q ss_pred             cCCCCCcEEEEeeccCcccCccc--ccccccEEEE
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKI  414 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l  414 (561)
                      ..+++|+.|+++.|.++.+|...  .+++|+.|++
T Consensus       145 ~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  179 (290)
T 1p9a_G          145 TPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLL  179 (290)
T ss_dssp             TTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEEC
T ss_pred             ccccCCCEEECCCCcCCccCHHHhcCcCCCCEEEC
Confidence            44455555555555555444432  3455555554

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

Probab=99.66  E-value=2.6e-16  Score=155.03  Aligned_cols=265  Identities=12%  Similarity=0.086  Sum_probs=164.6

Q ss_pred             ceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          225 PIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      +....++.+.+...+..+  .+++|+.|+++++.  +..++...|+++++|++|++++|.+...++ +..+++|++|+++
T Consensus        12 l~i~~ls~~~l~~~~~~~~~~~~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls   88 (317)
T 3o53_A           12 YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP--LSQISAADLAPFTKLELLNLSSNVLYETLD-LESLSTLRTLDLN   88 (317)
T ss_dssp             EEEESCCTTTHHHHHHHHHTTGGGCSEEECTTSC--CCCCCHHHHTTCTTCCEEECTTSCCEEEEE-ETTCTTCCEEECC
T ss_pred             eeEeeccccchhhhHHHHhccCCCCCEEECcCCc--cCcCCHHHhhCCCcCCEEECCCCcCCcchh-hhhcCCCCEEECc
Confidence            334444444444333322  45677777777776  555655555777777777777777766554 7777777777777


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.++.   +...++|++|++++|.+..++                ...+++|++|++++|......+        ..+.
T Consensus        89 ~n~l~~---l~~~~~L~~L~l~~n~l~~~~----------------~~~~~~L~~L~l~~N~l~~~~~--------~~~~  141 (317)
T 3o53_A           89 NNYVQE---LLVGPSIETLHAANNNISRVS----------------CSRGQGKKNIYLANNKITMLRD--------LDEG  141 (317)
T ss_dssp             SSEEEE---EEECTTCCEEECCSSCCSEEE----------------ECCCSSCEEEECCSSCCCSGGG--------BCTG
T ss_pred             CCcccc---ccCCCCcCEEECCCCccCCcC----------------ccccCCCCEEECCCCCCCCccc--------hhhh
Confidence            777655   112367777777777665544                2245678888888876543222        3456


Q ss_pred             CCCCCcEEEEeeccCcccCcc-c--ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccc
Q 041360          383 GLSKLTTLEIQVRDAQILPQD-L--VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE  459 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~-~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~  459 (561)
                      .+++|+.|+++.|.+..++.. .  .+++|+.|++..+. +.            .+           + +... +++|+.
T Consensus       142 ~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~------------~~-----------~-~~~~-l~~L~~  195 (317)
T 3o53_A          142 CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IY------------DV-----------K-GQVV-FAKLKT  195 (317)
T ss_dssp             GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CC------------EE-----------E-CCCC-CTTCCE
T ss_pred             ccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCc-Cc------------cc-----------c-cccc-cccCCE
Confidence            677888888888777654432 1  35677777663221 11            00           0 0001 388999


Q ss_pred             eeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCcccccccccccccc-ccCCCCCCCCCCCC
Q 041360          460 IHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFV-ILHGQKPTAASKGP  538 (561)
Q Consensus       460 L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~~-~~~~~~~~~~l~~L  538 (561)
                      |+++++ .+..++..+   ..+++|++|+++++ +++.+|.     ....+++|+.|++.+++-. . ..+..+..+++|
T Consensus       196 L~Ls~N-~l~~l~~~~---~~l~~L~~L~L~~N-~l~~l~~-----~~~~l~~L~~L~l~~N~~~~~-~~~~~~~~~~~L  264 (317)
T 3o53_A          196 LDLSSN-KLAFMGPEF---QSAAGVTWISLRNN-KLVLIEK-----ALRFSQNLEHFDLRGNGFHCG-TLRDFFSKNQRV  264 (317)
T ss_dssp             EECCSS-CCCEECGGG---GGGTTCSEEECTTS-CCCEECT-----TCCCCTTCCEEECTTCCCBHH-HHHHHHHTCHHH
T ss_pred             EECCCC-cCCcchhhh---cccCcccEEECcCC-cccchhh-----HhhcCCCCCEEEccCCCccCc-CHHHHHhccccc
Confidence            999875 455565543   46899999999985 7777773     3367789999999988751 0 011114567788


Q ss_pred             cccCCCcccccccccccC
Q 041360          539 EREKPTTSLGFNEIIAAD  556 (561)
Q Consensus       539 ~~L~i~~c~~l~~~~~~~  556 (561)
                      +.+++.+|..+....+.+
T Consensus       265 ~~l~l~~~~~l~~~~~~~  282 (317)
T 3o53_A          265 QTVAKQTVKKLTGQNEEE  282 (317)
T ss_dssp             HHHHHHHHHHHHSSSSCC
T ss_pred             eEEECCCchhccCCchhc
Confidence            888887776666554443

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

Probab=99.64  E-value=2.1e-16  Score=164.85  Aligned_cols=234  Identities=12%  Similarity=0.050  Sum_probs=152.5

Q ss_pred             CceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEe
Q 041360          224 GPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCL  301 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l  301 (561)
                      +++.|++++|.+..++. .+ .+++|++|++++|.  +...++  |+.+++|++|++++|.+..+|..    ++|++|++
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~--l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~~----~~L~~L~L  106 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV--LYETLD--LESLSTLRTLDLNNNYVQELLVG----PSIETLHA  106 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSC--CEEEEE--CTTCTTCCEEECCSSEEEEEEEC----TTCCEEEC
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCC--CCCCcc--cccCCCCCEEEecCCcCCCCCCC----CCcCEEEC
Confidence            67777777777766653 33 67777777777776  444443  47777777777777777665532    67777777


Q ss_pred             CCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          302 GGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       302 ~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                      ++|.+.. +.  ..+++|++|++++|.+..++.             ..++++++|+.|++++|.+....+        ..
T Consensus       107 ~~N~l~~~~~--~~l~~L~~L~L~~N~l~~~~~-------------~~~~~l~~L~~L~Ls~N~l~~~~~--------~~  163 (487)
T 3oja_A          107 ANNNISRVSC--SRGQGKKNIYLANNKITMLRD-------------LDEGCRSRVQYLDLKLNEIDTVNF--------AE  163 (487)
T ss_dssp             CSSCCCCEEE--CCCSSCEEEECCSSCCCSGGG-------------BCGGGGSSEEEEECTTSCCCEEEG--------GG
T ss_pred             cCCcCCCCCc--cccCCCCEEECCCCCCCCCCc-------------hhhcCCCCCCEEECCCCCCCCcCh--------HH
Confidence            7777766 33  235677777777776655431             225677888888888886643222        34


Q ss_pred             hc-CCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccc
Q 041360          381 LK-GLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEE  459 (561)
Q Consensus       381 l~-~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~  459 (561)
                      +. .+++|+.|+++.|.+..++....+++|+.|++..+.                        ....+..+..+ ++|+.
T Consensus       164 l~~~l~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~Ls~N~------------------------l~~~~~~~~~l-~~L~~  218 (487)
T 3oja_A          164 LAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNK------------------------LAFMGPEFQSA-AGVTW  218 (487)
T ss_dssp             GGGGTTTCCEEECTTSCCCEEECCCCCTTCCEEECCSSC------------------------CCEECGGGGGG-TTCSE
T ss_pred             HhhhCCcccEEecCCCccccccccccCCCCCEEECCCCC------------------------CCCCCHhHcCC-CCccE
Confidence            43 678888888888888777666667777777764221                        11122334444 89999


Q ss_pred             eeeccccCcccccccccCCCCCCCccEEEEecCCcc-chhhcccCcccCCcCcccccccccccc
Q 041360          460 IHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEI-LHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       460 L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l-~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      |+++++ .+..+|..   ...+++|+.|++.+++-. ..+|.     ....++.|+.|.+..+.
T Consensus       219 L~Ls~N-~l~~lp~~---l~~l~~L~~L~l~~N~l~c~~~~~-----~~~~l~~L~~l~~~~~~  273 (487)
T 3oja_A          219 ISLRNN-KLVLIEKA---LRFSQNLEHFDLRGNGFHCGTLRD-----FFSKNQRVQTVAKQTVK  273 (487)
T ss_dssp             EECTTS-CCCEECTT---CCCCTTCCEEECTTCCBCHHHHHH-----HHTTCHHHHHHHHHHHH
T ss_pred             EEecCC-cCcccchh---hccCCCCCEEEcCCCCCcCcchHH-----HHHhCCCCcEEeccccc
Confidence            999984 45566654   457899999999986433 13432     23567778887776433

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

Probab=99.63  E-value=3.4e-15  Score=143.40  Aligned_cols=153  Identities=20%  Similarity=0.284  Sum_probs=130.6

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      .++++|++++|.+..++...  .+++|++|+++++.  +..++...|.++++|++|++++|.+..+|. .+..+++|++|
T Consensus        61 ~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  138 (270)
T 2o6q_A           61 TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK--LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYL  138 (270)
T ss_dssp             TTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSC--CCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCc--CCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEE
Confidence            68999999999999888765  69999999999997  778888878999999999999999999865 57899999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS  377 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~  377 (561)
                      ++++|.+.. | ..++.+++|++|++++|.+..+|.             ..+.++++|++|++++|.......       
T Consensus       139 ~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~~~~~-------  198 (270)
T 2o6q_A          139 SLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPE-------------GAFDKLTELKTLKLDNNQLKRVPE-------  198 (270)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT-------------TTTTTCTTCCEEECCSSCCSCCCT-------
T ss_pred             ECCCCcCCccCHhHccCCcccceeEecCCcCcEeCh-------------hHhccCCCcCEEECCCCcCCcCCH-------
Confidence            999999988 5 558999999999999998876653             236788999999999987642222       


Q ss_pred             hHhhcCCCCCcEEEEeeccCc
Q 041360          378 LAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       378 ~~~l~~l~~L~~L~l~~~~~~  398 (561)
                       ..+..+++|+.|+++.|...
T Consensus       199 -~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          199 -GAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             -TTTTTCTTCCEEECCSSCBC
T ss_pred             -HHhccccCCCEEEecCCCee
Confidence             34678899999999988654

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

Probab=99.63  E-value=1.6e-16  Score=156.22  Aligned_cols=83  Identities=20%  Similarity=0.274  Sum_probs=42.2

Q ss_pred             CCCCccEEEecCCCCCC-Cchhh--cCCCCCcEEEeCCCCCCC-cccccCC-----CCCcEEEccCCcCcccChhhhccc
Q 041360          269 GTEEVKVLSLTGVRFSS-LPSSL--GRLFNLQTLCLGGCRLKD-IAIVGQL-----KKLEILSFRDSYIEELPHEIGQLT  339 (561)
Q Consensus       269 ~l~~Lr~L~l~~~~i~~-lp~~i--~~L~~L~~L~l~~~~l~~-p~~i~~L-----~~L~~L~l~~~~~~~lp~~i~~L~  339 (561)
                      ++++|++|++++|.+.. +|..+  +.+++|++|++++|.+.. |..++.+     ++|++|++++|.+..+|.      
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~------  166 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSC------  166 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCT------
T ss_pred             CcCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchH------
Confidence            45555555555555542 44443  555555555555555544 4444444     555555555555443321      


Q ss_pred             cccccCchhhcCCCCCcEEEccCCc
Q 041360          340 RLVVIAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       340 ~L~~l~~~~i~~l~~L~~L~l~~~~  364 (561)
                             ..++++++|++|++++|.
T Consensus       167 -------~~~~~l~~L~~L~Ls~N~  184 (312)
T 1wwl_A          167 -------EQVRVFPALSTLDLSDNP  184 (312)
T ss_dssp             -------TTCCCCSSCCEEECCSCT
T ss_pred             -------HHhccCCCCCEEECCCCC
Confidence                   124455555555555554

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.63  E-value=3.5e-15  Score=141.65  Aligned_cols=169  Identities=21%  Similarity=0.328  Sum_probs=137.7

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l  301 (561)
                      +..++++++++.+..+|..+. ++++.|+++++.  +..++...|+++++|++|++++|.+..++. .+..+.+|++|++
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~~-~~l~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGIP-ADTEKLDLQSTG--LATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCCC-TTCCEEECTTSC--CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCeEEecCCCCccccCCCCC-CCCCEEEccCCC--cCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            345678899999998887664 689999999997  667776667999999999999999998754 5889999999999


Q ss_pred             CCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchH
Q 041360          302 GGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA  379 (561)
Q Consensus       302 ~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  379 (561)
                      ++|.++. + ..+..+++|++|++++|.+..+|..             .++++++|++|++++|.+....+        .
T Consensus        91 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~Ls~N~l~~~~~--------~  149 (251)
T 3m19_A           91 ANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSG-------------VFDRLTKLKELRLNTNQLQSIPA--------G  149 (251)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-------------TTTTCTTCCEEECCSSCCCCCCT--------T
T ss_pred             CCCcccccChhHhcccCCCCEEEcCCCcCCCcChh-------------HhccCCcccEEECcCCcCCccCH--------H
Confidence            9999888 4 6789999999999999988766643             36788999999999987642222        3


Q ss_pred             hhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEE
Q 041360          380 ELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKIC  415 (561)
Q Consensus       380 ~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~  415 (561)
                      .+..+++|+.|+++.|.+..++..  ..+++|+.|++.
T Consensus       150 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  187 (251)
T 3m19_A          150 AFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLF  187 (251)
T ss_dssp             TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             HcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEee
Confidence            577889999999999998877753  267888888874

>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=99.62  E-value=4.2e-15  Score=143.27  Aligned_cols=148  Identities=18%  Similarity=0.215  Sum_probs=88.6

Q ss_pred             cCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC-
Q 041360          231 PHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD-  308 (561)
Q Consensus       231 ~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~-  308 (561)
                      .+..+..+|..+ .++|++|+++++.  +..++...|.++++|++|++++|.+..++. .+..+++|++|++++|.+.. 
T Consensus        15 ~~~~l~~ip~~l-~~~l~~L~ls~n~--l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~   91 (276)
T 2z62_A           15 MELNFYKIPDNL-PFSTKNLDLSFNP--LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL   91 (276)
T ss_dssp             TTSCCSSCCSSS-CTTCCEEECTTCC--CCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEE
T ss_pred             cCCCccccCCCC-CCCccEEECCCCc--ccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCcc
Confidence            334444555433 2456777776665  555555445667777777777777666543 56667777777777777666 


Q ss_pred             -cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCC
Q 041360          309 -IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL  387 (561)
Q Consensus       309 -p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L  387 (561)
                       +..+.++++|++|++++|.+..++.             ..++++++|++|++++|.....       .....+.++++|
T Consensus        92 ~~~~~~~l~~L~~L~l~~n~l~~~~~-------------~~~~~l~~L~~L~l~~n~l~~~-------~l~~~~~~l~~L  151 (276)
T 2z62_A           92 ALGAFSGLSSLQKLVAVETNLASLEN-------------FPIGHLKTLKELNVAHNLIQSF-------KLPEYFSNLTNL  151 (276)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCCSTT-------------CCCTTCTTCCEEECCSSCCCCC-------CCCGGGGGCTTC
T ss_pred             ChhhhcCCccccEEECCCCCccccCc-------------hhcccCCCCCEEECcCCcccee-------cCchhhccCCCC
Confidence             3566677777777777666554432             1255666677777766654321       112455666677


Q ss_pred             cEEEEeeccCcccC
Q 041360          388 TTLEIQVRDAQILP  401 (561)
Q Consensus       388 ~~L~l~~~~~~~~~  401 (561)
                      +.|+++.|.++.++
T Consensus       152 ~~L~Ls~N~l~~~~  165 (276)
T 2z62_A          152 EHLDLSSNKIQSIY  165 (276)
T ss_dssp             CEEECCSSCCCEEC
T ss_pred             CEEECCCCCCCcCC
Confidence            77777766665544

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

Probab=99.62  E-value=7.1e-15  Score=141.32  Aligned_cols=168  Identities=23%  Similarity=0.284  Sum_probs=138.3

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l  301 (561)
                      ++++.+.+.++.+..++....+++|++|+++++.  +..++.  ++++++|++|++++|.++.+|.. ++.+++|++|++
T Consensus        41 ~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~--l~~~~~--l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  116 (272)
T 3rfs_A           41 NSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNK--LHDISA--LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVL  116 (272)
T ss_dssp             TTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSC--CCCCGG--GTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cceeeeeeCCCCcccccccccCCCCcEEECCCCC--CCCchh--hcCCCCCCEEECCCCccCccChhHhcCCcCCCEEEC
Confidence            6799999999999888766689999999999997  556653  58999999999999999998654 689999999999


Q ss_pred             CCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchH
Q 041360          302 GGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA  379 (561)
Q Consensus       302 ~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  379 (561)
                      ++|.+.. + ..++.+++|++|++++|.+..+|..             .++++++|++|++++|......+        .
T Consensus       117 ~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-------------~~~~l~~L~~L~l~~n~l~~~~~--------~  175 (272)
T 3rfs_A          117 VENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKG-------------VFDKLTNLTELDLSYNQLQSLPE--------G  175 (272)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-------------TTTTCTTCCEEECCSSCCCCCCT--------T
T ss_pred             CCCcCCccCHHHhccCCCCCEEECCCCccCccCHH-------------HhccCccCCEEECCCCCcCccCH--------H
Confidence            9999888 4 5589999999999999988766542             36788999999999987642222        3


Q ss_pred             hhcCCCCCcEEEEeeccCcccCcc--cccccccEEEEE
Q 041360          380 ELKGLSKLTTLEIQVRDAQILPQD--LVLVELQRYKIC  415 (561)
Q Consensus       380 ~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~L~~L~l~  415 (561)
                      .+..+++|+.|+++.|.+..++..  ..+++|+.|++.
T Consensus       176 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  213 (272)
T 3rfs_A          176 VFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH  213 (272)
T ss_dssp             TTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             HhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEcc
Confidence            467889999999999998877764  367888888874

>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=99.62  E-value=2.6e-15  Score=144.78  Aligned_cols=173  Identities=21%  Similarity=0.278  Sum_probs=134.1

Q ss_pred             CCceEEEccCCCccccCC-cc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPE-RL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L  299 (561)
                      .+++++++++|.+..++. .+ .+++|++|+++++.  +..++...|+++++|++|++++|.+..++ ..+..+.+|++|
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  105 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE--IQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKL  105 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCC--CCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEE
T ss_pred             CCccEEECCCCcccccCHhHhccccCCcEEECCCCc--CCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEE
Confidence            689999999999988876 33 78999999999997  77777766799999999999999999875 679999999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcc--cChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEE--LPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSN  375 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~  375 (561)
                      ++++|.+.. + ..++.+++|++|++++|.+..  +|..              ++++++|++|++++|.......     
T Consensus       106 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~--------------~~~l~~L~~L~Ls~N~l~~~~~-----  166 (276)
T 2z62_A          106 VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY--------------FSNLTNLEHLDLSSNKIQSIYC-----  166 (276)
T ss_dssp             ECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGG--------------GGGCTTCCEEECCSSCCCEECG-----
T ss_pred             ECCCCCccccCchhcccCCCCCEEECcCCccceecCchh--------------hccCCCCCEEECCCCCCCcCCH-----
Confidence            999999888 4 579999999999999998876  3433              5677778888888776542222     


Q ss_pred             cchHhhcCCCCCc-EEEEeeccCcccCccc-ccccccEEEEEe
Q 041360          376 ASLAELKGLSKLT-TLEIQVRDAQILPQDL-VLVELQRYKICI  416 (561)
Q Consensus       376 ~~~~~l~~l~~L~-~L~l~~~~~~~~~~~~-~~~~L~~L~l~~  416 (561)
                      ..+..+..++.|. .|+++.|.+..++... ...+|+.|++..
T Consensus       167 ~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~  209 (276)
T 2z62_A          167 TDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDT  209 (276)
T ss_dssp             GGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCS
T ss_pred             HHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCC
Confidence            2334455555555 6777777777665443 444677777743

>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=99.61  E-value=1.5e-14  Score=140.44  Aligned_cols=165  Identities=22%  Similarity=0.237  Sum_probs=139.4

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++++|.+..++....+++|++|+++++.  +..++.  ++++++|++|++++|.+..+|. +..+++|++|+++
T Consensus        46 ~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~--l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~  120 (291)
T 1h6t_A           46 NSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK--LTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSLE  120 (291)
T ss_dssp             HTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEECT
T ss_pred             CcccEEEccCCCcccChhHhcCCCCCEEEccCCc--cCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEEECC
Confidence            5789999999999888765589999999999997  677776  5899999999999999988765 9999999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.+..++.+..+++|++|++++|.+..++               .++++++|++|++++|.... .         ..+.
T Consensus       121 ~n~i~~~~~l~~l~~L~~L~l~~n~l~~~~---------------~l~~l~~L~~L~L~~N~l~~-~---------~~l~  175 (291)
T 1h6t_A          121 HNGISDINGLVHLPQLESLYLGNNKITDIT---------------VLSRLTKLDTLSLEDNQISD-I---------VPLA  175 (291)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCG---------------GGGGCTTCSEEECCSSCCCC-C---------GGGT
T ss_pred             CCcCCCChhhcCCCCCCEEEccCCcCCcch---------------hhccCCCCCEEEccCCcccc-c---------hhhc
Confidence            999988777899999999999999877652               26788889999999886531 1         1277


Q ss_pred             CCCCCcEEEEeeccCcccCcccccccccEEEEEec
Q 041360          383 GLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIG  417 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  417 (561)
                      .+++|+.|+++.|.++.++....+++|+.|++...
T Consensus       176 ~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          176 GLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             TCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEE
T ss_pred             CCCccCEEECCCCcCCCChhhccCCCCCEEECcCC
Confidence            88999999999999888877668889999988644

>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=99.61  E-value=3.5e-15  Score=140.57  Aligned_cols=140  Identities=17%  Similarity=0.217  Sum_probs=91.5

Q ss_pred             ccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCCch-hhcCCCCCcEEEeCC-CCCCC-c-
Q 041360          235 IQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSLPS-SLGRLFNLQTLCLGG-CRLKD-I-  309 (561)
Q Consensus       235 ~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~lp~-~i~~L~~L~~L~l~~-~~l~~-p-  309 (561)
                      +..+|.  -.++|+.|+++++.  +..++...|+++++|++|++++|. ++.+|+ .+..+++|++|++++ |.++. + 
T Consensus        23 l~~ip~--~~~~l~~L~l~~n~--l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~   98 (239)
T 2xwt_C           23 IQRIPS--LPPSTQTLKLIETH--LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDP   98 (239)
T ss_dssp             CSSCCC--CCTTCCEEEEESCC--CSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECT
T ss_pred             ccccCC--CCCcccEEEEeCCc--ceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCH
Confidence            555665  23478888888876  667776556788888888888886 777754 677788888888887 66776 3 


Q ss_pred             ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCc---EEEccCC-cccccccCCCcccchHhhcCCC
Q 041360          310 AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLE---ELYMGDS-FSQWDKVEGGSNASLAELKGLS  385 (561)
Q Consensus       310 ~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~---~L~l~~~-~~~~~~~~~~~~~~~~~l~~l~  385 (561)
                      ..+..+++|++|++++|.+..+|.               ++.+++|+   +|++++| ... ..+       ...+.+++
T Consensus        99 ~~f~~l~~L~~L~l~~n~l~~lp~---------------~~~l~~L~~L~~L~l~~N~~l~-~i~-------~~~~~~l~  155 (239)
T 2xwt_C           99 DALKELPLLKFLGIFNTGLKMFPD---------------LTKVYSTDIFFILEITDNPYMT-SIP-------VNAFQGLC  155 (239)
T ss_dssp             TSEECCTTCCEEEEEEECCCSCCC---------------CTTCCBCCSEEEEEEESCTTCC-EEC-------TTTTTTTB
T ss_pred             HHhCCCCCCCEEeCCCCCCccccc---------------cccccccccccEEECCCCcchh-hcC-------cccccchh
Confidence            567778888888888877766653               23333443   7777766 332 111       12355566


Q ss_pred             CCc-EEEEeeccCcccC
Q 041360          386 KLT-TLEIQVRDAQILP  401 (561)
Q Consensus       386 ~L~-~L~l~~~~~~~~~  401 (561)
                      +|+ .|+++.|.++.+|
T Consensus       156 ~L~~~L~l~~n~l~~i~  172 (239)
T 2xwt_C          156 NETLTLKLYNNGFTSVQ  172 (239)
T ss_dssp             SSEEEEECCSCCCCEEC
T ss_pred             cceeEEEcCCCCCcccC
Confidence            666 6666666554333

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.59  E-value=1.4e-16  Score=165.72  Aligned_cols=37  Identities=16%  Similarity=0.237  Sum_probs=18.6

Q ss_pred             CCCccEEEEecCCccc-----hhhcccCcccCCcCccccccccccccc
Q 041360          481 FPRLKHLRVESCSEIL-----HIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       481 ~~~L~~L~l~~c~~l~-----~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      .++|++|++++| +++     .++.     ....+++|++|++.+|+-
T Consensus       369 ~~~L~~L~L~~n-~i~~~~~~~l~~-----~l~~~~~L~~L~l~~N~i  410 (461)
T 1z7x_W          369 GSVLRVLWLADC-DVSDSSCSSLAA-----TLLANHSLRELDLSNNCL  410 (461)
T ss_dssp             TCCCCEEECTTS-CCCHHHHHHHHH-----HHHHCCCCCEEECCSSSC
T ss_pred             CCceEEEECCCC-CCChhhHHHHHH-----HHHhCCCccEEECCCCCC
Confidence            456666666664 333     2331     123356666666666553

>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=99.59  E-value=4.8e-15  Score=139.62  Aligned_cols=168  Identities=14%  Similarity=0.192  Sum_probs=121.9

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecC-CCCCCCc-hhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTG-VRFSSLP-SSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~-~~i~~lp-~~i~~L~~L~~  298 (561)
                      .+++.+++++|.+..++.. + .+++|++|+++++. .+..++...|+++++|++|++++ |.++.+| ..+..+++|++
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~-~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~  109 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDV-TLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKF  109 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCS-SCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCE
T ss_pred             CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCC-CcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCE
Confidence            6899999999999988874 3 79999999999995 37778876679999999999998 8999986 46889999999


Q ss_pred             EEeCCCCCCC-cccccCCCCCc---EEEccCC-cCcccChhhhccccccccCchhhcCCCCCc-EEEccCCcccccccCC
Q 041360          299 LCLGGCRLKD-IAIVGQLKKLE---ILSFRDS-YIEELPHEIGQLTRLVVIAPNLISKFSQLE-ELYMGDSFSQWDKVEG  372 (561)
Q Consensus       299 L~l~~~~l~~-p~~i~~L~~L~---~L~l~~~-~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~-~L~l~~~~~~~~~~~~  372 (561)
                      |++++|.++. |. ++.+.+|+   +|++++| .+..+|..             .+.++++|+ +|++++|... ..+. 
T Consensus       110 L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~-------------~~~~l~~L~~~L~l~~n~l~-~i~~-  173 (239)
T 2xwt_C          110 LGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIPVN-------------AFQGLCNETLTLKLYNNGFT-SVQG-  173 (239)
T ss_dssp             EEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEECTT-------------TTTTTBSSEEEEECCSCCCC-EECT-
T ss_pred             EeCCCCCCccccc-cccccccccccEEECCCCcchhhcCcc-------------cccchhcceeEEEcCCCCCc-ccCH-
Confidence            9999999888 55 88888888   9999999 88777643             245555566 6666555443 1110 


Q ss_pred             CcccchHhhcCCCCCcEEEEeecc-CcccCccc--cc-ccccEEEE
Q 041360          373 GSNASLAELKGLSKLTTLEIQVRD-AQILPQDL--VL-VELQRYKI  414 (561)
Q Consensus       373 ~~~~~~~~l~~l~~L~~L~l~~~~-~~~~~~~~--~~-~~L~~L~l  414 (561)
                            ..+.. ++|+.|+++.|. ++.++...  .+ ++|+.|++
T Consensus       174 ------~~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l  212 (239)
T 2xwt_C          174 ------YAFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDV  212 (239)
T ss_dssp             ------TTTTT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEEC
T ss_pred             ------hhcCC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEEC
Confidence                  11222 456666666552 55444332  34 55666555

>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=99.58  E-value=5e-15  Score=147.91  Aligned_cols=165  Identities=15%  Similarity=0.101  Sum_probs=104.7

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-Cch-hhcCCCCCcE-EEeCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPS-SLGRLFNLQT-LCLGG  303 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~-~i~~L~~L~~-L~l~~  303 (561)
                      .+..+++++..+|..+ .++++.|+++++.  +..+|...|+++++|++|+|++|.+.+ +|. .+.++++|+. +.+.+
T Consensus        13 ~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~--i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~   89 (350)
T 4ay9_X           13 VFLCQESKVTEIPSDL-PRNAIELRFVLTK--LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   89 (350)
T ss_dssp             EEEEESTTCCSCCTTC-CTTCSEEEEESCC--CSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEE
T ss_pred             EEEecCCCCCccCcCc-CCCCCEEEccCCc--CCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccC
Confidence            4556667777777755 4678888888887  778887777888888888888888755 553 5677887765 55556


Q ss_pred             CCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          304 CRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       304 ~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +++..  |..+..+++|++|++++|.+..+|..             .+....++..|++.++......+.       ..+
T Consensus        90 N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~-------------~~~~~~~l~~l~l~~~~~i~~l~~-------~~f  149 (350)
T 4ay9_X           90 NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDV-------------HKIHSLQKVLLDIQDNINIHTIER-------NSF  149 (350)
T ss_dssp             TTCCEECTTSBCCCTTCCEEEEEEECCSSCCCC-------------TTCCBSSCEEEEEESCTTCCEECT-------TSS
T ss_pred             CcccccCchhhhhccccccccccccccccCCch-------------hhcccchhhhhhhccccccccccc-------cch
Confidence            67777  46788888888888888887766532             123334455555544332222221       122


Q ss_pred             cCC-CCCcEEEEeeccCcccCccc-ccccccEEEE
Q 041360          382 KGL-SKLTTLEIQVRDAQILPQDL-VLVELQRYKI  414 (561)
Q Consensus       382 ~~l-~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l  414 (561)
                      ..+ ..++.|+++.|.++.++... ...+|+.+.+
T Consensus       150 ~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l  184 (350)
T 4ay9_X          150 VGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNL  184 (350)
T ss_dssp             TTSBSSCEEEECCSSCCCEECTTSSTTEEEEEEEC
T ss_pred             hhcchhhhhhccccccccCCChhhccccchhHHhh
Confidence            222 24666677766666555442 3344555544

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

Probab=99.56  E-value=1.5e-14  Score=141.92  Aligned_cols=171  Identities=18%  Similarity=0.211  Sum_probs=96.0

Q ss_pred             CCceEEEccCCCcc-ccCCcc---CCCCccEEEeeccCCCCccccHHHHcCC-----CCccEEEecCCCCCCCc-hhhcC
Q 041360          223 KGPIAISLPHRDIQ-ELPERL---QCPNLELFLLFRKGYGSMQISDLFFEGT-----EEVKVLSLTGVRFSSLP-SSLGR  292 (561)
Q Consensus       223 ~~l~~l~l~~~~~~-~l~~~~---~~~~L~~L~l~~~~~~~~~~~~~~~~~l-----~~Lr~L~l~~~~i~~lp-~~i~~  292 (561)
                      .+++++++++|.+. .+|..+   .+++|++|+++++.  +..+|..+ +.+     ++|++|++++|.+..+| ..++.
T Consensus        95 ~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~--l~~~~~~~-~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~  171 (312)
T 1wwl_A           95 SGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS--WATRDAWL-AELQQWLKPGLKVLSIAQAHSLNFSCEQVRV  171 (312)
T ss_dssp             SCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCB--CSSSSSHH-HHHHTTCCTTCCEEEEESCSCCCCCTTTCCC
T ss_pred             CCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCC--CcchhHHH-HHHHHhhcCCCcEEEeeCCCCccchHHHhcc
Confidence            45666666666664 345432   46666666666665  44444332 444     66666666666666654 56666


Q ss_pred             CCCCcEEEeCCCCCCC----cccc--cCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          293 LFNLQTLCLGGCRLKD----IAIV--GQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       293 L~~L~~L~l~~~~l~~----p~~i--~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      +++|++|++++|.+..    |..+  +.+++|++|++++|.+..+|.          ++...+.++++|++|++++|...
T Consensus       172 l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~----------~~~~~~~~l~~L~~L~Ls~N~l~  241 (312)
T 1wwl_A          172 FPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSG----------VCSALAAARVQLQGLDLSHNSLR  241 (312)
T ss_dssp             CSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHH----------HHHHHHHTTCCCSEEECTTSCCC
T ss_pred             CCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHH----------HHHHHHhcCCCCCEEECCCCcCC
Confidence            6666666666666432    2333  566666666666666554332          11122456666667776666543


Q ss_pred             ccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEE
Q 041360          367 WDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKI  414 (561)
Q Consensus       367 ~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  414 (561)
                      ...+       ...+..+++|+.|+++.|.++.+|.... ++|+.|++
T Consensus       242 ~~~~-------~~~~~~l~~L~~L~Ls~N~l~~ip~~~~-~~L~~L~L  281 (312)
T 1wwl_A          242 DAAG-------APSCDWPSQLNSLNLSFTGLKQVPKGLP-AKLSVLDL  281 (312)
T ss_dssp             SSCC-------CSCCCCCTTCCEEECTTSCCSSCCSSCC-SEEEEEEC
T ss_pred             cccc-------hhhhhhcCCCCEEECCCCccChhhhhcc-CCceEEEC
Confidence            2221       1223445666677776666666655444 55665555

>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=99.56  E-value=3.6e-14  Score=134.63  Aligned_cols=154  Identities=21%  Similarity=0.302  Sum_probs=131.0

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L  299 (561)
                      ..++.+++++|.+..++.. + .+++|++|+++++.  +..++...|.++++|++|++++|.+..+|. .+..+++|++|
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  112 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQ--LQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKL  112 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC--CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCc--CCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEE
Confidence            7899999999999887764 3 78999999999997  777777767999999999999999999864 57899999999


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS  377 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~  377 (561)
                      ++++|.++. + ..+..+++|++|++++|.+..+|.             ..++++++|++|++++|......+       
T Consensus       113 ~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~~~~~-------  172 (251)
T 3m19_A          113 YLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPA-------------GAFDKLTNLQTLSLSTNQLQSVPH-------  172 (251)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-------------TTTTTCTTCCEEECCSSCCSCCCT-------
T ss_pred             EcCCCcCCCcChhHhccCCcccEEECcCCcCCccCH-------------HHcCcCcCCCEEECCCCcCCccCH-------
Confidence            999999988 5 557999999999999998877663             237789999999999997653222       


Q ss_pred             hHhhcCCCCCcEEEEeeccCcc
Q 041360          378 LAELKGLSKLTTLEIQVRDAQI  399 (561)
Q Consensus       378 ~~~l~~l~~L~~L~l~~~~~~~  399 (561)
                       ..+..+++|+.|+++.|.+..
T Consensus       173 -~~~~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          173 -GAFDRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             -TTTTTCTTCCEEECCSCCBCT
T ss_pred             -HHHhCCCCCCEEEeeCCceeC
Confidence             457788999999999988753

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

Probab=99.56  E-value=4e-15  Score=155.18  Aligned_cols=207  Identities=12%  Similarity=0.017  Sum_probs=151.6

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.|++++|.+...++...+++|++|++++|.  +..+|.     .++|++|++++|.+..+|..  .+++|++|+++
T Consensus        58 ~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~--l~~l~~-----~~~L~~L~L~~N~l~~~~~~--~l~~L~~L~L~  128 (487)
T 3oja_A           58 TKLELLNLSSNVLYETLDLESLSTLRTLDLNNNY--VQELLV-----GPSIETLHAANNNISRVSCS--RGQGKKNIYLA  128 (487)
T ss_dssp             TTCCEEECTTSCCEEEEECTTCTTCCEEECCSSE--EEEEEE-----CTTCCEEECCSSCCCCEEEC--CCSSCEEEECC
T ss_pred             CCCCEEEeeCCCCCCCcccccCCCCCEEEecCCc--CCCCCC-----CCCcCEEECcCCcCCCCCcc--ccCCCCEEECC
Confidence            6899999999999776664489999999999997  666653     38999999999999998763  57899999999


Q ss_pred             CCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          303 GCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       303 ~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                      +|.+..  |..++.+++|++|++++|.+...+            |....+.+++|++|++++|.+...          ..
T Consensus       129 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~------------~~~l~~~l~~L~~L~Ls~N~l~~~----------~~  186 (487)
T 3oja_A          129 NNKITMLRDLDEGCRSRVQYLDLKLNEIDTVN------------FAELAASSDTLEHLNLQYNFIYDV----------KG  186 (487)
T ss_dssp             SSCCCSGGGBCGGGGSSEEEEECTTSCCCEEE------------GGGGGGGTTTCCEEECTTSCCCEE----------EC
T ss_pred             CCCCCCCCchhhcCCCCCCEEECCCCCCCCcC------------hHHHhhhCCcccEEecCCCccccc----------cc
Confidence            999988  578999999999999999887643            122134789999999999976432          22


Q ss_pred             hcCCCCCcEEEEeeccCcccCccc-ccccccEEEEEecc--ccccCCCCccccceEEEecCCccch-hhhhhhHHHhhcc
Q 041360          381 LKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKICIGE--AWRMWGVTSEISRLVRLHGLENVST-LLENYGMKMLLKE  456 (561)
Q Consensus       381 l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~~~~--~~~~~~~~~~~~~l~~L~~~~~~~~-~~~~~~~~~ll~~  456 (561)
                      ...+++|+.|+++.|.++.+|..+ .+++|+.|++..+.  .+|.+....  .++..|++.+|... ...+.++..+ +.
T Consensus       187 ~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l--~~L~~L~l~~N~l~c~~~~~~~~~l-~~  263 (487)
T 3oja_A          187 QVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS--QNLEHFDLRGNGFHCGTLRDFFSKN-QR  263 (487)
T ss_dssp             CCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEECTTCCCC--TTCCEEECTTCCBCHHHHHHHHTTC-HH
T ss_pred             cccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecCCcCcccchhhccC--CCCCEEEcCCCCCcCcchHHHHHhC-CC
Confidence            346899999999999998887654 78899999985432  233333322  33445555443311 2334444443 55


Q ss_pred             ccceeec
Q 041360          457 AEEIHLN  463 (561)
Q Consensus       457 L~~L~l~  463 (561)
                      |+.|.+.
T Consensus       264 L~~l~~~  270 (487)
T 3oja_A          264 VQTVAKQ  270 (487)
T ss_dssp             HHHHHHH
T ss_pred             CcEEecc
Confidence            6666554

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

Probab=99.55  E-value=4e-14  Score=136.01  Aligned_cols=164  Identities=17%  Similarity=0.226  Sum_probs=135.0

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l  301 (561)
                      ++++++++++|.+..++....+++|++|+++++.  +..++...|+++++|++|++++|.+..+|.. ++.+++|++|++
T Consensus        63 ~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~--l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  140 (272)
T 3rfs_A           63 PNVRYLALGGNKLHDISALKELTNLTYLILTGNQ--LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL  140 (272)
T ss_dssp             TTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSC--CCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCcEEECCCCCCCCchhhcCCCCCCEEECCCCc--cCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEEC
Confidence            6899999999999887755589999999999997  7788887779999999999999999998664 789999999999


Q ss_pred             CCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchH
Q 041360          302 GGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA  379 (561)
Q Consensus       302 ~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  379 (561)
                      ++|.+.. + ..++.+++|++|++++|.+..+|..             .++.+++|++|++++|......+        .
T Consensus       141 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~-------------~~~~l~~L~~L~L~~N~l~~~~~--------~  199 (272)
T 3rfs_A          141 AHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEG-------------VFDKLTQLKDLRLYQNQLKSVPD--------G  199 (272)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-------------TTTTCTTCCEEECCSSCCSCCCT--------T
T ss_pred             CCCccCccCHHHhccCccCCEEECCCCCcCccCHH-------------HhcCCccCCEEECCCCcCCccCH--------H
Confidence            9999988 5 5579999999999999988766532             36788999999999987653222        4


Q ss_pred             hhcCCCCCcEEEEeeccCcccCcccccccccEEEE
Q 041360          380 ELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKI  414 (561)
Q Consensus       380 ~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l  414 (561)
                      .+..+++|+.|+++.|....     .+++|+.|.+
T Consensus       200 ~~~~l~~L~~L~l~~N~~~~-----~~~~l~~l~~  229 (272)
T 3rfs_A          200 VFDRLTSLQYIWLHDNPWDC-----TCPGIRYLSE  229 (272)
T ss_dssp             TTTTCTTCCEEECCSSCBCC-----CTTTTHHHHH
T ss_pred             HHhCCcCCCEEEccCCCccc-----cCcHHHHHHH
Confidence            57889999999999886542     3444554443

>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=99.54  E-value=5.1e-14  Score=136.49  Aligned_cols=168  Identities=20%  Similarity=0.168  Sum_probs=143.6

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~  300 (561)
                      ..++.|++++|.+..++.. + .+++|+.|+++++.  +..++..  +.+++|++|++++|.+..+|..+..+++|++|+
T Consensus        31 ~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~--l~~~~~~--~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~  106 (290)
T 1p9a_G           31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE--LTKLQVD--GTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLD  106 (290)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC--CCEEECC--SCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEE
T ss_pred             CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCc--cCcccCC--CCCCcCCEEECCCCcCCcCchhhccCCCCCEEE
Confidence            7899999999999877643 3 89999999999997  7677663  789999999999999999999999999999999


Q ss_pred             eCCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccch
Q 041360          301 LGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASL  378 (561)
Q Consensus       301 l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  378 (561)
                      +++|.++. | ..+..+++|++|++++|.+..+|.+             .+.++++|+.|++++|.+.....        
T Consensus       107 l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~L~~N~l~~l~~--------  165 (290)
T 1p9a_G          107 VSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPG-------------LLTPTPKLEKLSLANNNLTELPA--------  165 (290)
T ss_dssp             CCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTT-------------TTTTCTTCCEEECTTSCCSCCCT--------
T ss_pred             CCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChh-------------hcccccCCCEEECCCCcCCccCH--------
Confidence            99999988 4 7799999999999999988877643             36789999999999997652222        


Q ss_pred             HhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEE
Q 041360          379 AELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKIC  415 (561)
Q Consensus       379 ~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  415 (561)
                      ..+.++++|+.|+++.|.+..+|... ...+|+.+.+.
T Consensus       166 ~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~  203 (290)
T 1p9a_G          166 GLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (290)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             HHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeC
Confidence            34678899999999999999888765 56789988874

>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=99.53  E-value=4.8e-14  Score=150.10  Aligned_cols=163  Identities=22%  Similarity=0.248  Sum_probs=128.6

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.|+++++.+..++....+++|+.|++++|.  +..++.  +..+++|++|+|++|.+..+| .+..+++|++|+|+
T Consensus        43 ~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~--l~~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls  117 (605)
T 1m9s_A           43 NSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK--LTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLSLE  117 (605)
T ss_dssp             TTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSC--CCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEECT
T ss_pred             CCCCEEECcCCCCCCChHHccCCCCCEEEeeCCC--CCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEEec
Confidence            6788899999999888765588999999999987  667776  589999999999999998876 68999999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.+..++.+..+++|+.|++++|.+..++               .++.+++|+.|++++|.+..         . ..+.
T Consensus       118 ~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l~---------------~l~~l~~L~~L~Ls~N~l~~---------~-~~l~  172 (605)
T 1m9s_A          118 HNGISDINGLVHLPQLESLYLGNNKITDIT---------------VLSRLTKLDTLSLEDNQISD---------I-VPLA  172 (605)
T ss_dssp             TSCCCCCGGGGGCTTCSEEECCSSCCCCCG---------------GGGSCTTCSEEECCSSCCCC---------C-GGGT
T ss_pred             CCCCCCCccccCCCccCEEECCCCccCCch---------------hhcccCCCCEEECcCCcCCC---------c-hhhc
Confidence            999888767899999999999999877652               25677777777777775431         1 1166


Q ss_pred             CCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          383 GLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      .+++|+.|+|+.|.+..++....+++|+.|++.
T Consensus       173 ~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~  205 (605)
T 1m9s_A          173 GLTKLQNLYLSKNHISDLRALAGLKNLDVLELF  205 (605)
T ss_dssp             TCTTCCEEECCSSCCCBCGGGTTCTTCSEEECC
T ss_pred             cCCCCCEEECcCCCCCCChHHccCCCCCEEEcc
Confidence            777777777777777776655567777777774

>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=99.53  E-value=2.3e-14  Score=139.04  Aligned_cols=143  Identities=24%  Similarity=0.314  Sum_probs=118.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      .+++|+.|+++++.  +..++.  ++.+++|++|++++|.+..++. +..+++|++|++++|.+..++.++.+++|++|+
T Consensus        44 ~l~~L~~L~l~~~~--i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~  118 (291)
T 1h6t_A           44 ELNSIDQIIANNSD--IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLS  118 (291)
T ss_dssp             HHHTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             hcCcccEEEccCCC--cccChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCcCCCChhhccCCCCCEEE
Confidence            67889999999987  667765  5889999999999999999887 999999999999999998866699999999999


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  402 (561)
                      +++|.+..++               .+..+++|+.|++++|....          +..+..+++|+.|+++.|.+..++.
T Consensus       119 L~~n~i~~~~---------------~l~~l~~L~~L~l~~n~l~~----------~~~l~~l~~L~~L~L~~N~l~~~~~  173 (291)
T 1h6t_A          119 LEHNGISDIN---------------GLVHLPQLESLYLGNNKITD----------ITVLSRLTKLDTLSLEDNQISDIVP  173 (291)
T ss_dssp             CTTSCCCCCG---------------GGGGCTTCCEEECCSSCCCC----------CGGGGGCTTCSEEECCSSCCCCCGG
T ss_pred             CCCCcCCCCh---------------hhcCCCCCCEEEccCCcCCc----------chhhccCCCCCEEEccCCccccchh
Confidence            9999877653               26788899999999886531          1467888999999999988877766


Q ss_pred             ccccccccEEEEE
Q 041360          403 DLVLVELQRYKIC  415 (561)
Q Consensus       403 ~~~~~~L~~L~l~  415 (561)
                      ...+++|+.|++.
T Consensus       174 l~~l~~L~~L~L~  186 (291)
T 1h6t_A          174 LAGLTKLQNLYLS  186 (291)
T ss_dssp             GTTCTTCCEEECC
T ss_pred             hcCCCccCEEECC
Confidence            5567777777763

>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=99.53  E-value=6e-14  Score=127.83  Aligned_cols=147  Identities=14%  Similarity=0.165  Sum_probs=107.8

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcEEEe
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQTLCL  301 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~L~l  301 (561)
                      .++++++++++.+..+|....+++|++|++++|.  +..++.  ++++++|++|++++|.+.. .|..++.+++|++|++
T Consensus        44 ~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~--~~~~~~--l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~L  119 (197)
T 4ezg_A           44 NSLTYITLANINVTDLTGIEYAHNIKDLTINNIH--ATNYNP--ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDI  119 (197)
T ss_dssp             HTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCC--CSCCGG--GTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEEC
T ss_pred             CCccEEeccCCCccChHHHhcCCCCCEEEccCCC--CCcchh--hhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEe
Confidence            5678888888888877743478888888888885  555542  5788888888888888876 5777888888888888


Q ss_pred             CCCCCCC--cccccCCCCCcEEEccCCc-CcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccch
Q 041360          302 GGCRLKD--IAIVGQLKKLEILSFRDSY-IEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASL  378 (561)
Q Consensus       302 ~~~~l~~--p~~i~~L~~L~~L~l~~~~-~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  378 (561)
                      ++|.+..  |..++.+++|++|++++|. +..+|               .++++++|++|++++|....          +
T Consensus       120 s~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~---------------~l~~l~~L~~L~l~~n~i~~----------~  174 (197)
T 4ezg_A          120 SHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM---------------PLKTLPELKSLNIQFDGVHD----------Y  174 (197)
T ss_dssp             CSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG---------------GGGGCSSCCEEECTTBCCCC----------C
T ss_pred             cCCccCcHhHHHHhhCCCCCEEEccCCCCccccH---------------hhcCCCCCCEEECCCCCCcC----------h
Confidence            8888776  6778888888888888886 65543               15677788888888776431          1


Q ss_pred             HhhcCCCCCcEEEEeeccCc
Q 041360          379 AELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       379 ~~l~~l~~L~~L~l~~~~~~  398 (561)
                      ..+..+++|+.|+++.|.+.
T Consensus       175 ~~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          175 RGIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             TTGGGCSSCCEEEECBC---
T ss_pred             HHhccCCCCCEEEeeCcccC
Confidence            24667778888888877654

>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=99.52  E-value=2.5e-14  Score=141.99  Aligned_cols=219  Identities=18%  Similarity=0.109  Sum_probs=134.8

Q ss_pred             CCceEEEccCCCccccCCcc-CC--CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC--CchhhcCCCCCc
Q 041360          223 KGPIAISLPHRDIQELPERL-QC--PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS--LPSSLGRLFNLQ  297 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~--~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~--lp~~i~~L~~L~  297 (561)
                      ...++++++++.+.  +..+ .+  ++++.|++.++.  +...+..+ .++++|++|++++|.+..  +|..+..+++|+
T Consensus        47 ~~~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l~~n~--l~~~~~~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~  121 (336)
T 2ast_B           47 SLWQTLDLTGKNLH--PDVTGRLLSQGVIAFRCPRSF--MDQPLAEH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQ  121 (336)
T ss_dssp             TTSSEEECTTCBCC--HHHHHHHHHTTCSEEECTTCE--ECSCCCSC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCCS
T ss_pred             hhheeeccccccCC--HHHHHhhhhccceEEEcCCcc--ccccchhh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCCC
Confidence            44677888776654  2222 33  678888887776  43443333 467888888888887764  677778888888


Q ss_pred             EEEeCCCCCCC--cccccCCCCCcEEEccCC-cCcc--cChhhhccccccccCchhhcCCCCCcEEEccCC-cccccccC
Q 041360          298 TLCLGGCRLKD--IAIVGQLKKLEILSFRDS-YIEE--LPHEIGQLTRLVVIAPNLISKFSQLEELYMGDS-FSQWDKVE  371 (561)
Q Consensus       298 ~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~-~~~~--lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~-~~~~~~~~  371 (561)
                      +|++++|.+..  +..++.+++|++|++++| .+..  +|.              .+.++++|++|++++| ....    
T Consensus       122 ~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~--------------~~~~~~~L~~L~l~~~~~l~~----  183 (336)
T 2ast_B          122 NLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT--------------LLSSCSRLDELNLSWCFDFTE----  183 (336)
T ss_dssp             EEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH--------------HHHHCTTCCEEECCCCTTCCH----
T ss_pred             EEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHH--------------HHhcCCCCCEEcCCCCCCcCh----
Confidence            88888888765  677778888888888887 4442  221              2566777888888877 4321    


Q ss_pred             CCcccchHhhcCCC-CCcEEEEeecc--Cc--ccCccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhh
Q 041360          372 GGSNASLAELKGLS-KLTTLEIQVRD--AQ--ILPQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLL  445 (561)
Q Consensus       372 ~~~~~~~~~l~~l~-~L~~L~l~~~~--~~--~~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~  445 (561)
                         ......+..++ +|+.|+++.+.  ++  .++... .+++|+.|++..+..+                      ...
T Consensus       184 ---~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l----------------------~~~  238 (336)
T 2ast_B          184 ---KHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVML----------------------KND  238 (336)
T ss_dssp             ---HHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTC----------------------CGG
T ss_pred             ---HHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcC----------------------CHH
Confidence               11234566777 88888887763  22  222222 5566666666322211                      111


Q ss_pred             hhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecC
Q 041360          446 ENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       446 ~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                      .+..+..+ ++|+.|++.+|..+...... . ...+++|++|++.+|
T Consensus       239 ~~~~l~~l-~~L~~L~l~~~~~~~~~~~~-~-l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          239 CFQEFFQL-NYLQHLSLSRCYDIIPETLL-E-LGEIPTLKTLQVFGI  282 (336)
T ss_dssp             GGGGGGGC-TTCCEEECTTCTTCCGGGGG-G-GGGCTTCCEEECTTS
T ss_pred             HHHHHhCC-CCCCEeeCCCCCCCCHHHHH-H-HhcCCCCCEEeccCc
Confidence            22233344 78888888877643322110 1 345788888888877

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.51  E-value=9.5e-14  Score=128.77  Aligned_cols=148  Identities=18%  Similarity=0.223  Sum_probs=102.4

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~  304 (561)
                      +.++.+++.+..+|..+. ++++.|+++++.  +..++...|.++++|++|++++|.+..+ |..+..+.+|++|+|++|
T Consensus        14 ~~v~c~~~~l~~iP~~l~-~~l~~L~l~~n~--i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNLP-ETITEIRLEQNT--IKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSCC-TTCCEEECCSSC--CCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCccC-cCCCEEECCCCc--CCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            356666777777776543 677888888876  6666665567788888888888887775 667788888888888888


Q ss_pred             CCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          305 RLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       305 ~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      .++. | ..+..+++|++|++++|.+..++.             ..+..+++|+.|++++|.+.....        ..+.
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~~~~~--------~~~~  149 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNANKINCLRV-------------DAFQDLHNLNLLSLYDNKLQTIAK--------GTFS  149 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-------------TTTTTCTTCCEEECCSSCCSCCCT--------TTTT
T ss_pred             cCCccCHhHccCCCCCCEEECCCCCCCEeCH-------------HHcCCCCCCCEEECCCCcCCEECH--------HHHh
Confidence            8777 4 446778888888888877765542             236677777777777776542222        3455


Q ss_pred             CCCCCcEEEEeeccC
Q 041360          383 GLSKLTTLEIQVRDA  397 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~  397 (561)
                      .+++|+.|+++.|.+
T Consensus       150 ~l~~L~~L~L~~N~~  164 (220)
T 2v9t_B          150 PLRAIQTMHLAQNPF  164 (220)
T ss_dssp             TCTTCCEEECCSSCE
T ss_pred             CCCCCCEEEeCCCCc
Confidence            667777777776654

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.51  E-value=1.4e-13  Score=128.45  Aligned_cols=148  Identities=20%  Similarity=0.246  Sum_probs=113.5

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l~~~  304 (561)
                      +.++.+++.+..+|..+. ++|+.|+++++.  +..++...|+++++|++|++++|.+..+|.. +..+++|++|+|++|
T Consensus        22 ~~v~c~~~~l~~ip~~~~-~~L~~L~Ls~n~--i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           22 TTVDCRSKRHASVPAGIP-TNAQILYLHDNQ--ITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TEEECTTSCCSSCCSCCC-TTCSEEECCSSC--CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEeEccCCCcCccCCCCC-CCCCEEEcCCCc--cCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC
Confidence            457777788888887553 889999999987  6666555568899999999999999888754 588899999999999


Q ss_pred             CCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          305 RLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       305 ~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      .++. + ..+..+++|++|++++|.+..+|..              +.++++|++|++++|.+.....        ..+.
T Consensus        99 ~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~--------------~~~l~~L~~L~L~~N~l~~~~~--------~~~~  156 (229)
T 3e6j_A           99 QLTVLPSAVFDRLVHLKELFMCCNKLTELPRG--------------IERLTHLTHLALDQNQLKSIPH--------GAFD  156 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCSCCTT--------------GGGCTTCSEEECCSSCCCCCCT--------TTTT
T ss_pred             cCCccChhHhCcchhhCeEeccCCcccccCcc--------------cccCCCCCEEECCCCcCCccCH--------HHHh
Confidence            8888 4 4578899999999999888777643              4667778888888886542221        3466


Q ss_pred             CCCCCcEEEEeeccCc
Q 041360          383 GLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~  398 (561)
                      .+++|+.|+++.|.+.
T Consensus       157 ~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          157 RLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             TCTTCCEEECTTSCBC
T ss_pred             CCCCCCEEEeeCCCcc
Confidence            7788888888877654

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.50  E-value=1.2e-13  Score=128.20  Aligned_cols=149  Identities=13%  Similarity=0.196  Sum_probs=113.8

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccc-cHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQI-SDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGG  303 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~-~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~  303 (561)
                      +.++++++.+..+|..+ .+.++.|+++++.  +..+ +..+|+++++|++|++++|.++.+++ .+..+.+|++|+|++
T Consensus        14 ~~l~~s~n~l~~iP~~~-~~~~~~L~L~~N~--l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEHI-PQYTAELRLNNNE--FTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSCCSSCCSCC-CTTCSEEECCSSC--CCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCCcccCccCC-CCCCCEEEcCCCc--CCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            47888888888888754 4557889998887  5555 44556888999999999999888754 788899999999999


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      |.+.. + ..++.+++|++|++++|.+..++.             ..+..+++|++|++++|.+....+        ..+
T Consensus        91 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~~~~~--------~~~  149 (220)
T 2v70_A           91 NRLENVQHKMFKGLESLKTLMLRSNRITCVGN-------------DSFIGLSSVRLLSLYDNQITTVAP--------GAF  149 (220)
T ss_dssp             SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCT-------------TSSTTCTTCSEEECTTSCCCCBCT--------TTT
T ss_pred             CccCccCHhHhcCCcCCCEEECCCCcCCeECH-------------hHcCCCccCCEEECCCCcCCEECH--------HHh
Confidence            98887 4 568889999999999888776532             236778888888888887643323        456


Q ss_pred             cCCCCCcEEEEeeccCc
Q 041360          382 KGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~  398 (561)
                      ..+++|+.|+++.|.+.
T Consensus       150 ~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A          150 DTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             TTCTTCCEEECCSCCEE
T ss_pred             cCCCCCCEEEecCcCCc
Confidence            77888888888877654

>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=99.49  E-value=1.8e-14  Score=143.06  Aligned_cols=252  Identities=15%  Similarity=0.087  Sum_probs=173.5

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCC--CCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC---cccccCCCCCc
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGT--EEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD---IAIVGQLKKLE  319 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l--~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~  319 (561)
                      ..++.++++++.  +.   +..+..+  +++++|+++++.+...+..+..+++|++|++++|.+..   +..+..+++|+
T Consensus        47 ~~~~~l~l~~~~--~~---~~~~~~~~~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~  121 (336)
T 2ast_B           47 SLWQTLDLTGKN--LH---PDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQ  121 (336)
T ss_dssp             TTSSEEECTTCB--CC---HHHHHHHHHTTCSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCS
T ss_pred             hhheeecccccc--CC---HHHHHhhhhccceEEEcCCccccccchhhccCCCCCEEEccCCCcCHHHHHHHHhhCCCCC
Confidence            347889998876  32   3345677  89999999999999887778899999999999999764   57789999999


Q ss_pred             EEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeec-cCc
Q 041360          320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVR-DAQ  398 (561)
Q Consensus       320 ~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~-~~~  398 (561)
                      +|++++|.+...            .+ ..++++++|++|++++|....      .......+.++++|+.|+++++ .++
T Consensus       122 ~L~L~~~~l~~~------------~~-~~l~~~~~L~~L~L~~~~~l~------~~~l~~~~~~~~~L~~L~l~~~~~l~  182 (336)
T 2ast_B          122 NLSLEGLRLSDP------------IV-NTLAKNSNLVRLNLSGCSGFS------EFALQTLLSSCSRLDELNLSWCFDFT  182 (336)
T ss_dssp             EEECTTCBCCHH------------HH-HHHTTCTTCSEEECTTCBSCC------HHHHHHHHHHCTTCCEEECCCCTTCC
T ss_pred             EEeCcCcccCHH------------HH-HHHhcCCCCCEEECCCCCCCC------HHHHHHHHhcCCCCCEEcCCCCCCcC
Confidence            999999976521            11 126789999999999984321      1123355788999999999988 776


Q ss_pred             c--cCcc-cccc-cccEEEEEecc-ccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccc-cc
Q 041360          399 I--LPQD-LVLV-ELQRYKICIGE-AWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQN-AV  472 (561)
Q Consensus       399 ~--~~~~-~~~~-~L~~L~l~~~~-~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~-~~  472 (561)
                      .  ++.. ..++ +|++|++..+. .+.                     ....+..+..+ ++|+.|++.+|..+.. .+
T Consensus       183 ~~~~~~~~~~l~~~L~~L~l~~~~~~~~---------------------~~~l~~~~~~~-~~L~~L~l~~~~~l~~~~~  240 (336)
T 2ast_B          183 EKHVQVAVAHVSETITQLNLSGYRKNLQ---------------------KSDLSTLVRRC-PNLVHLDLSDSVMLKNDCF  240 (336)
T ss_dssp             HHHHHHHHHHSCTTCCEEECCSCGGGSC---------------------HHHHHHHHHHC-TTCSEEECTTCTTCCGGGG
T ss_pred             hHHHHHHHHhcccCCCEEEeCCCcccCC---------------------HHHHHHHHhhC-CCCCEEeCCCCCcCCHHHH
Confidence            4  3332 2567 88888774332 110                     12334445555 9999999999875443 22


Q ss_pred             ccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccccccCCCCCCCCC-CCCcccCCCccccccc
Q 041360          473 HELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASFVILHGQKPTAAS-KGPEREKPTTSLGFNE  551 (561)
Q Consensus       473 ~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~~~~~~~~~~~~l-~~L~~L~i~~c~~l~~  551 (561)
                      ..   ...+++|++|++++|..+..-.  .  .....+++|+.|++.+|-.   ...  +..+ .+++.|++ .|..+..
T Consensus       241 ~~---l~~l~~L~~L~l~~~~~~~~~~--~--~~l~~~~~L~~L~l~~~i~---~~~--~~~l~~~l~~L~l-~~n~l~~  307 (336)
T 2ast_B          241 QE---FFQLNYLQHLSLSRCYDIIPET--L--LELGEIPTLKTLQVFGIVP---DGT--LQLLKEALPHLQI-NCSHFTT  307 (336)
T ss_dssp             GG---GGGCTTCCEEECTTCTTCCGGG--G--GGGGGCTTCCEEECTTSSC---TTC--HHHHHHHSTTSEE-SCCCSCC
T ss_pred             HH---HhCCCCCCEeeCCCCCCCCHHH--H--HHHhcCCCCCEEeccCccC---HHH--HHHHHhhCcceEE-ecccCcc
Confidence            33   4568999999999997543221  0  1335699999999999922   111  1222 23666666 4556666


Q ss_pred             cccc
Q 041360          552 IIAA  555 (561)
Q Consensus       552 ~~~~  555 (561)
                      ..++
T Consensus       308 ~~~~  311 (336)
T 2ast_B          308 IARP  311 (336)
T ss_dssp             TTCS
T ss_pred             ccCC
Confidence            5554

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

Probab=99.49  E-value=8.7e-14  Score=132.81  Aligned_cols=147  Identities=22%  Similarity=0.234  Sum_probs=88.6

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++++|.+..++....+++|+.|+++++.  +..++.  ++++++|++|++++|.++.+|....  .+|++|+++
T Consensus        41 ~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~--i~~~~~--l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~~L~L~  114 (263)
T 1xeu_A           41 SGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQ--ISDLSP--LKDLTKLEELSVNRNRLKNLNGIPS--ACLSRLFLD  114 (263)
T ss_dssp             TTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCSSCCEEECCSSCCSCCTTCCC--SSCCEEECC
T ss_pred             CcCcEEECcCCCcccchHHhhCCCCCEEECCCCc--cCCChh--hccCCCCCEEECCCCccCCcCcccc--CcccEEEcc
Confidence            4566666666666666533356666666666665  555555  4666666666666666666654322  666666666


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.++.++.++.+++|++|++++|.+..+|               .++.+++|++|++++|.....          ..+.
T Consensus       115 ~N~l~~~~~l~~l~~L~~L~Ls~N~i~~~~---------------~l~~l~~L~~L~L~~N~i~~~----------~~l~  169 (263)
T 1xeu_A          115 NNELRDTDSLIHLKNLEILSIRNNKLKSIV---------------MLGFLSKLEVLDLHGNEITNT----------GGLT  169 (263)
T ss_dssp             SSCCSBSGGGTTCTTCCEEECTTSCCCBCG---------------GGGGCTTCCEEECTTSCCCBC----------TTST
T ss_pred             CCccCCChhhcCcccccEEECCCCcCCCCh---------------HHccCCCCCEEECCCCcCcch----------HHhc
Confidence            666666445666666666666666655442               145566666666666654211          3455


Q ss_pred             CCCCCcEEEEeeccCccc
Q 041360          383 GLSKLTTLEIQVRDAQIL  400 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~  400 (561)
                      .+++|+.|+++.|.+...
T Consensus       170 ~l~~L~~L~l~~N~~~~~  187 (263)
T 1xeu_A          170 RLKKVNWIDLTGQKCVNE  187 (263)
T ss_dssp             TCCCCCEEEEEEEEEECC
T ss_pred             cCCCCCEEeCCCCcccCC
Confidence            666666666666655433

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.49  E-value=1.2e-14  Score=147.21  Aligned_cols=148  Identities=12%  Similarity=0.135  Sum_probs=70.4

Q ss_pred             CCCCccEEEeeccCCCCccc-cHH---HHcCCCCccEEEecCCCCCC----Cchhh-------cCCCCCcEEEeCCCCCC
Q 041360          243 QCPNLELFLLFRKGYGSMQI-SDL---FFEGTEEVKVLSLTGVRFSS----LPSSL-------GRLFNLQTLCLGGCRLK  307 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~-~~~---~~~~l~~Lr~L~l~~~~i~~----lp~~i-------~~L~~L~~L~l~~~~l~  307 (561)
                      .+++|++|++++|.  +... +..   .+.++++|++|++++|.+..    +|..+       ..+++|++|+|++|.+.
T Consensus        30 ~~~~L~~L~L~~n~--i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~  107 (386)
T 2ca6_A           30 EDDSVKEIVLSGNT--IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFG  107 (386)
T ss_dssp             HCSCCCEEECTTSE--ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCC
T ss_pred             cCCCccEEECCCCC--CCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCC
Confidence            45666666666664  2221 111   13456666666666654432    23333       56666666666666654


Q ss_pred             C------cccccCCCCCcEEEccCCcCcccC-hhhhc-cccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchH
Q 041360          308 D------IAIVGQLKKLEILSFRDSYIEELP-HEIGQ-LTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLA  379 (561)
Q Consensus       308 ~------p~~i~~L~~L~~L~l~~~~~~~lp-~~i~~-L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~  379 (561)
                      .      |..+..+++|++|++++|.+...+ ..+.. +..+...  ..-+..++|++|++++|......    ..+...
T Consensus       108 ~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~--~~~~~~~~L~~L~L~~n~l~~~~----~~~l~~  181 (386)
T 2ca6_A          108 PTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVN--KKAKNAPPLRSIICGRNRLENGS----MKEWAK  181 (386)
T ss_dssp             TTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHH--HHHHTCCCCCEEECCSSCCTGGG----HHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhh--hhcccCCCCcEEECCCCCCCcHH----HHHHHH
Confidence            3      235566666666666666554221 11110 0000000  00011156666666666542100    001223


Q ss_pred             hhcCCCCCcEEEEeeccCc
Q 041360          380 ELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       380 ~l~~l~~L~~L~l~~~~~~  398 (561)
                      .+..+++|+.|+++.|.+.
T Consensus       182 ~l~~~~~L~~L~L~~n~l~  200 (386)
T 2ca6_A          182 TFQSHRLLHTVKMVQNGIR  200 (386)
T ss_dssp             HHHHCTTCCEEECCSSCCC
T ss_pred             HHHhCCCcCEEECcCCCCC
Confidence            4555666666666666554

>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=99.48  E-value=3e-13  Score=134.97  Aligned_cols=233  Identities=12%  Similarity=0.067  Sum_probs=147.8

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC--c-ccccCCCCCcEE-E
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD--I-AIVGQLKKLEIL-S  322 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~--p-~~i~~L~~L~~L-~  322 (561)
                      ++++.+++.  +.++|..+   .+++++|+|++|.|+.+|. .+..+++|++|+|++|.+..  + ..+.++++|+++ +
T Consensus        12 ~~v~C~~~~--Lt~iP~~l---~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~   86 (350)
T 4ay9_X           12 RVFLCQESK--VTEIPSDL---PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI   86 (350)
T ss_dssp             TEEEEESTT--CCSCCTTC---CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEE
T ss_pred             CEEEecCCC--CCccCcCc---CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhc
Confidence            566777766  77888765   3678999999999999876 57899999999999998655  3 567888888764 4


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEee-ccCcccC
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQV-RDAQILP  401 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~-~~~~~~~  401 (561)
                      +..+++..+|             +..++.+++|++|++++|.+.....        .......++..|++.. +.+..++
T Consensus        87 ~~~N~l~~l~-------------~~~f~~l~~L~~L~l~~n~l~~~~~--------~~~~~~~~l~~l~l~~~~~i~~l~  145 (350)
T 4ay9_X           87 EKANNLLYIN-------------PEAFQNLPNLQYLLISNTGIKHLPD--------VHKIHSLQKVLLDIQDNINIHTIE  145 (350)
T ss_dssp             EEETTCCEEC-------------TTSBCCCTTCCEEEEEEECCSSCCC--------CTTCCBSSCEEEEEESCTTCCEEC
T ss_pred             ccCCcccccC-------------chhhhhccccccccccccccccCCc--------hhhcccchhhhhhhcccccccccc
Confidence            4456666554             3347888999999998886543222        1233445667777753 5566555


Q ss_pred             ccc--c-cccccEEEEEeccccccC-CCCccccceEEEecCCccchhhhh-hhHHHhhccccceeeccccCccccccccc
Q 041360          402 QDL--V-LVELQRYKICIGEAWRMW-GVTSEISRLVRLHGLENVSTLLEN-YGMKMLLKEAEEIHLNELKGVQNAVHELD  476 (561)
Q Consensus       402 ~~~--~-~~~L~~L~l~~~~~~~~~-~~~~~~~~l~~L~~~~~~~~~~~~-~~~~~ll~~L~~L~l~~~~~~~~~~~~~~  476 (561)
                      ...  . ...++.|++... .+... .......++..+.+.++......+ +.+..+ ++|+.|+++++ .++.++.   
T Consensus       146 ~~~f~~~~~~l~~L~L~~N-~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l-~~L~~LdLs~N-~l~~lp~---  219 (350)
T 4ay9_X          146 RNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGA-SGPVILDISRT-RIHSLPS---  219 (350)
T ss_dssp             TTSSTTSBSSCEEEECCSS-CCCEECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTE-ECCSEEECTTS-CCCCCCS---
T ss_pred             ccchhhcchhhhhhccccc-cccCCChhhccccchhHHhhccCCcccCCCHHHhccC-cccchhhcCCC-CcCccCh---
Confidence            432  2 235666766432 22211 112233456666665422122223 334454 77777777764 4555543   


Q ss_pred             CCCCCCCccEEEEecCCccchhhcccCcccCCcCcccccccccc
Q 041360          477 DGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKK  520 (561)
Q Consensus       477 ~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~  520 (561)
                        +.|.+|+.|.+.++.+++.+|      ....|++|+.+.+.+
T Consensus       220 --~~~~~L~~L~~l~~~~l~~lP------~l~~l~~L~~l~l~~  255 (350)
T 4ay9_X          220 --YGLENLKKLRARSTYNLKKLP------TLEKLVALMEASLTY  255 (350)
T ss_dssp             --SSCTTCCEEECTTCTTCCCCC------CTTTCCSCCEEECSC
T ss_pred             --hhhccchHhhhccCCCcCcCC------CchhCcChhhCcCCC
Confidence              347777777777777777777      345677777777653

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

Probab=99.48  E-value=1.1e-13  Score=127.36  Aligned_cols=147  Identities=17%  Similarity=0.248  Sum_probs=85.7

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEeCCCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGCR  305 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l~~~~  305 (561)
                      .+...++.+..+|..+ .++|+.|+++++.  +..++...|+++++|++|++++|.++.+|.. +..+.+|++|++++|.
T Consensus        11 ~v~c~~~~l~~~p~~~-~~~l~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~   87 (208)
T 2o6s_A           11 TVECYSQGRTSVPTGI-PAQTTYLDLETNS--LKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ   87 (208)
T ss_dssp             EEECCSSCCSSCCSCC-CTTCSEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCccCCCCCC-CCCCcEEEcCCCc--cCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCc
Confidence            3444555555555433 3466666666665  4555555556666777777776666666543 4566667777777666


Q ss_pred             CCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcC
Q 041360          306 LKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKG  383 (561)
Q Consensus       306 l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~  383 (561)
                      +.. + ..++.+++|++|++++|.+..+|..             .+.++++|++|++++|.......        ..+..
T Consensus        88 l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~l~~N~l~~~~~--------~~~~~  146 (208)
T 2o6s_A           88 LQSLPNGVFDKLTQLKELALNTNQLQSLPDG-------------VFDKLTQLKDLRLYQNQLKSVPD--------GVFDR  146 (208)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCCCCTT-------------TTTTCTTCCEEECCSSCCSCCCT--------TTTTT
T ss_pred             CCccCHhHhcCccCCCEEEcCCCcCcccCHh-------------HhccCCcCCEEECCCCccceeCH--------HHhcc
Confidence            666 3 3456666777777766665544422             24556666666666664431111        23455


Q ss_pred             CCCCcEEEEeeccC
Q 041360          384 LSKLTTLEIQVRDA  397 (561)
Q Consensus       384 l~~L~~L~l~~~~~  397 (561)
                      +++|+.|+++.|..
T Consensus       147 l~~L~~L~l~~N~~  160 (208)
T 2o6s_A          147 LTSLQYIWLHDNPW  160 (208)
T ss_dssp             CTTCCEEECCSCCB
T ss_pred             CCCccEEEecCCCe
Confidence            66666666666544

>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=99.48  E-value=2.4e-13  Score=123.79  Aligned_cols=147  Identities=18%  Similarity=0.193  Sum_probs=123.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEI  320 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~  320 (561)
                      .+++|+.|+++++.  +..+|.  +..+++|++|++++|.+..++ .+..+++|++|++++|.+..  +..++.+++|++
T Consensus        42 ~l~~L~~L~l~~n~--i~~l~~--l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           42 QMNSLTYITLANIN--VTDLTG--IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEEESSC--CSCCTT--GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEeccCCC--ccChHH--HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            57889999999997  667773  589999999999999887665 78999999999999999886  789999999999


Q ss_pred             EEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc
Q 041360          321 LSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL  400 (561)
Q Consensus       321 L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  400 (561)
                      |++++|.+....            + ..++++++|++|++++|......         ..+..+++|+.|+++.|.+..+
T Consensus       117 L~Ls~n~i~~~~------------~-~~l~~l~~L~~L~L~~n~~i~~~---------~~l~~l~~L~~L~l~~n~i~~~  174 (197)
T 4ezg_A          117 LDISHSAHDDSI------------L-TKINTLPKVNSIDLSYNGAITDI---------MPLKTLPELKSLNIQFDGVHDY  174 (197)
T ss_dssp             EECCSSBCBGGG------------H-HHHTTCSSCCEEECCSCTBCCCC---------GGGGGCSSCCEEECTTBCCCCC
T ss_pred             EEecCCccCcHh------------H-HHHhhCCCCCEEEccCCCCcccc---------HhhcCCCCCCEEECCCCCCcCh
Confidence            999999876421            1 23778999999999999632222         3588899999999999999988


Q ss_pred             CcccccccccEEEEEe
Q 041360          401 PQDLVLVELQRYKICI  416 (561)
Q Consensus       401 ~~~~~~~~L~~L~l~~  416 (561)
                      +....+++|+.|++..
T Consensus       175 ~~l~~l~~L~~L~l~~  190 (197)
T 4ezg_A          175 RGIEDFPKLNQLYAFS  190 (197)
T ss_dssp             TTGGGCSSCCEEEECB
T ss_pred             HHhccCCCCCEEEeeC
Confidence            8667889999999853

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

Probab=99.48  E-value=4.1e-13  Score=128.09  Aligned_cols=162  Identities=17%  Similarity=0.162  Sum_probs=133.6

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~  304 (561)
                      +..+.+..+.+..++....+++|+.|+++++.  +..++.  ++.+++|++|++++|.+..+|. +..+++|++|++++|
T Consensus        21 l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~--i~~l~~--l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~N   95 (263)
T 1xeu_A           21 AVKQNLGKQSVTDLVSQKELSGVQNFNGDNSN--IQSLAG--MQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNRN   95 (263)
T ss_dssp             HHHHHHTCSCTTSEECHHHHTTCSEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSS
T ss_pred             HHHHHhcCCCcccccchhhcCcCcEEECcCCC--cccchH--HhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCCC
Confidence            44555666777666644478999999999997  777873  5899999999999999999988 999999999999999


Q ss_pred             CCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCC
Q 041360          305 RLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGL  384 (561)
Q Consensus       305 ~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l  384 (561)
                      .++..+.+.. .+|++|++++|.+..+|               .++++++|+.|++++|....          +..+..+
T Consensus        96 ~l~~l~~~~~-~~L~~L~L~~N~l~~~~---------------~l~~l~~L~~L~Ls~N~i~~----------~~~l~~l  149 (263)
T 1xeu_A           96 RLKNLNGIPS-ACLSRLFLDNNELRDTD---------------SLIHLKNLEILSIRNNKLKS----------IVMLGFL  149 (263)
T ss_dssp             CCSCCTTCCC-SSCCEEECCSSCCSBSG---------------GGTTCTTCCEEECTTSCCCB----------CGGGGGC
T ss_pred             ccCCcCcccc-CcccEEEccCCccCCCh---------------hhcCcccccEEECCCCcCCC----------ChHHccC
Confidence            9988333444 99999999999887653               27789999999999997631          1358889


Q ss_pred             CCCcEEEEeeccCcccCcccccccccEEEEEec
Q 041360          385 SKLTTLEIQVRDAQILPQDLVLVELQRYKICIG  417 (561)
Q Consensus       385 ~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~  417 (561)
                      ++|+.|+++.|.+..++....+++|+.|++...
T Consensus       150 ~~L~~L~L~~N~i~~~~~l~~l~~L~~L~l~~N  182 (263)
T 1xeu_A          150 SKLEVLDLHGNEITNTGGLTRLKKVNWIDLTGQ  182 (263)
T ss_dssp             TTCCEEECTTSCCCBCTTSTTCCCCCEEEEEEE
T ss_pred             CCCCEEECCCCcCcchHHhccCCCCCEEeCCCC
Confidence            999999999999988866668899999999654

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.48  E-value=1.1e-14  Score=151.41  Aligned_cols=288  Identities=15%  Similarity=0.049  Sum_probs=167.5

Q ss_pred             CceEEEccCCCcc-----ccCCcc-CCCCccEEEeeccCCCCcc-----ccHHHHcCCCCccEEEecCCCCCC-----Cc
Q 041360          224 GPIAISLPHRDIQ-----ELPERL-QCPNLELFLLFRKGYGSMQ-----ISDLFFEGTEEVKVLSLTGVRFSS-----LP  287 (561)
Q Consensus       224 ~l~~l~l~~~~~~-----~l~~~~-~~~~L~~L~l~~~~~~~~~-----~~~~~~~~l~~Lr~L~l~~~~i~~-----lp  287 (561)
                      +++++++++|.+.     .++..+ .+++|++|+++++.  +..     +...++....+|++|++++|.+..     ++
T Consensus        86 ~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~--i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~  163 (461)
T 1z7x_W           86 KIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL--LGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLA  163 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB--CHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHH
T ss_pred             ceeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCc--CchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHH
Confidence            6888888888876     344444 68889999998886  332     222222345678999998888775     46


Q ss_pred             hhhcCCCCCcEEEeCCCCCCC--ccccc-----CCCCCcEEEccCCcCcc-----cChhhhccccccccC----------
Q 041360          288 SSLGRLFNLQTLCLGGCRLKD--IAIVG-----QLKKLEILSFRDSYIEE-----LPHEIGQLTRLVVIA----------  345 (561)
Q Consensus       288 ~~i~~L~~L~~L~l~~~~l~~--p~~i~-----~L~~L~~L~l~~~~~~~-----lp~~i~~L~~L~~l~----------  345 (561)
                      ..+..+++|++|++++|.+..  +..+.     ..++|++|++++|.+..     +|..+..+++|+.+.          
T Consensus       164 ~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~  243 (461)
T 1z7x_W          164 SVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVG  243 (461)
T ss_dssp             HHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHH
T ss_pred             HHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHH
Confidence            667778889999999888765  34443     35688899998887775     466665555552221          


Q ss_pred             -----chhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc-------ccccccEEE
Q 041360          346 -----PNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL-------VLVELQRYK  413 (561)
Q Consensus       346 -----~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-------~~~~L~~L~  413 (561)
                           ......+++|++|++++|......    .......+..+++|+.|++++|.+.......       ..++|+.|+
T Consensus       244 ~~~l~~~~~~~~~~L~~L~L~~n~l~~~~----~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~  319 (461)
T 1z7x_W          244 MAELCPGLLHPSSRLRTLWIWECGITAKG----CGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLW  319 (461)
T ss_dssp             HHHHHHHHTSTTCCCCEEECTTSCCCHHH----HHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEE
T ss_pred             HHHHHHHHhcCCCCceEEECcCCCCCHHH----HHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeE
Confidence                 111235778888888887543211    0113355667888888888887764322111       235888888


Q ss_pred             EEeccc-------cccCCCCccccceEEEecCCccchhhhhhhHHHh----hccccceeeccccCcc----cccccccCC
Q 041360          414 ICIGEA-------WRMWGVTSEISRLVRLHGLENVSTLLENYGMKML----LKEAEEIHLNELKGVQ----NAVHELDDG  478 (561)
Q Consensus       414 l~~~~~-------~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~l----l~~L~~L~l~~~~~~~----~~~~~~~~~  478 (561)
                      +..+..       ++.+..  ...++..|++.++.........+...    .++|+.|++++|.-..    .++..   .
T Consensus       320 L~~n~l~~~~~~~l~~~l~--~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~---l  394 (461)
T 1z7x_W          320 VKSCSFTAACCSHFSSVLA--QNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAAT---L  394 (461)
T ss_dssp             CTTSCCBGGGHHHHHHHHH--HCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHH---H
T ss_pred             cCCCCCchHHHHHHHHHHh--hCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCCCChhhHHHHHHH---H
Confidence            754321       111111  12345566665543222223333321    2588888888764221    34433   2


Q ss_pred             CCCCCccEEEEecCCccchhhccc-CcccCCcCccccccccccccc
Q 041360          479 EGFPRLKHLRVESCSEILHIVGSV-GRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       479 ~~~~~L~~L~l~~c~~l~~l~~~~-~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      ..+++|++|+++++ .+....-.. ...-....++|+.|.+.++..
T Consensus       395 ~~~~~L~~L~l~~N-~i~~~~~~~l~~~l~~~~~~L~~L~~~~~~~  439 (461)
T 1z7x_W          395 LANHSLRELDLSNN-CLGDAGILQLVESVRQPGCLLEQLVLYDIYW  439 (461)
T ss_dssp             HHCCCCCEEECCSS-SCCHHHHHHHHHHHTSTTCCCCEEECTTCCC
T ss_pred             HhCCCccEEECCCC-CCCHHHHHHHHHHhccCCcchhheeeccccc
Confidence            35788888888885 444321000 000012234566666666543

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

Probab=99.47  E-value=5.4e-13  Score=122.59  Aligned_cols=146  Identities=16%  Similarity=0.286  Sum_probs=108.7

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      .++++++++++.+..++...  .+++|++|+++++.  +..++...|+++++|++|++++|.+..+|.. +..+++|++|
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  105 (208)
T 2o6s_A           28 AQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNK--LQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKEL  105 (208)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC--CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCcEEEcCCCccCcCChhhhcccccCcEEECCCCc--cCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEE
Confidence            57888888888887777653  67888888888886  6677777678888888888888888887654 5788888888


Q ss_pred             EeCCCCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccc
Q 041360          300 CLGGCRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNAS  377 (561)
Q Consensus       300 ~l~~~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~  377 (561)
                      ++++|.+.. + ..+..+++|++|++++|.+..+|..             .+.++++|+.|++++|...           
T Consensus       106 ~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~-------------~~~~l~~L~~L~l~~N~~~-----------  161 (208)
T 2o6s_A          106 ALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDG-------------VFDRLTSLQYIWLHDNPWD-----------  161 (208)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT-------------TTTTCTTCCEEECCSCCBC-----------
T ss_pred             EcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHH-------------HhccCCCccEEEecCCCee-----------
Confidence            888888777 4 4478888888888888877665532             2567788888888887542           


Q ss_pred             hHhhcCCCCCcEEEEeeccCc
Q 041360          378 LAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       378 ~~~l~~l~~L~~L~l~~~~~~  398 (561)
                          ..+++|+.|.++.+..+
T Consensus       162 ----~~~~~l~~L~~~~n~~~  178 (208)
T 2o6s_A          162 ----CTCPGIRYLSEWINKHS  178 (208)
T ss_dssp             ----CCTTTTHHHHHHHHHCT
T ss_pred             ----cCCCCHHHHHHHHHhCC
Confidence                23456777766666554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.46  E-value=4.9e-13  Score=124.80  Aligned_cols=129  Identities=20%  Similarity=0.289  Sum_probs=114.7

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      .+++.|++++|.+..++.. + .+++|+.|+++++.  +..++...|+++++|++|++++|.++.+|.. +..+.+|++|
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~--l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L  117 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ--LGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKEL  117 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC--CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCC--CCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeE
Confidence            7899999999999887543 4 79999999999998  7888888789999999999999999998765 6899999999


Q ss_pred             EeCCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          300 CLGGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       300 ~l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      ++++|.+.. |..+..+++|++|++++|.+..+|..             .+..+++|+.|++.+|...
T Consensus       118 ~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A          118 FMCCNKLTELPRGIERLTHLTHLALDQNQLKSIPHG-------------AFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             ECCSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCTT-------------TTTTCTTCCEEECTTSCBC
T ss_pred             eccCCcccccCcccccCCCCCEEECCCCcCCccCHH-------------HHhCCCCCCEEEeeCCCcc
Confidence            999999999 89999999999999999998877642             3778899999999998764

>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=99.45  E-value=8.1e-14  Score=149.55  Aligned_cols=305  Identities=12%  Similarity=0.033  Sum_probs=176.6

Q ss_pred             CCceEEEccCCCccccC-----Ccc-CCCCccEEEeeccCCC---CccccHHHHcCCCCccEEEecCCCCCCCchhhcCC
Q 041360          223 KGPIAISLPHRDIQELP-----ERL-QCPNLELFLLFRKGYG---SMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRL  293 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~-----~~~-~~~~L~~L~l~~~~~~---~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L  293 (561)
                      +++++|++++|.+....     ... .+++|++|+++++.+.   ...++ .++.++++|++|++++|.+..+|..+..+
T Consensus       164 ~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~-~~~~~~~~L~~L~L~~~~~~~l~~~~~~~  242 (592)
T 3ogk_B          164 RKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLE-TIARNCRSLVSVKVGDFEILELVGFFKAA  242 (592)
T ss_dssp             TTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHH-HHHHHCTTCCEEECSSCBGGGGHHHHHHC
T ss_pred             CCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHH-HHHhhCCCCcEEeccCccHHHHHHHHhhh
Confidence            57888888888753322     111 6788888888887621   01233 33467888888888888888888888888


Q ss_pred             CCCcEEEeCCCCCC----C-cccccCCCCCcEEEccCCcCcccChhhhccccccccC-------c----hhhcCCCCCcE
Q 041360          294 FNLQTLCLGGCRLK----D-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIA-------P----NLISKFSQLEE  357 (561)
Q Consensus       294 ~~L~~L~l~~~~l~----~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~-------~----~~i~~l~~L~~  357 (561)
                      ++|++|+++++...    . +..+..+++|+.|+++++....+|..+..+++|+.+.       .    ..+.++++|++
T Consensus       243 ~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~  322 (592)
T 3ogk_B          243 ANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEV  322 (592)
T ss_dssp             TTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCE
T ss_pred             hHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCE
Confidence            88888888754321    2 4567777788888887766666666655555552221       1    12467788888


Q ss_pred             EEccCCcccccccCCCcccchHhhcCCCCCcEEEEe-----------eccCccc--Ccc-cccccccEEEEEecccccc-
Q 041360          358 LYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ-----------VRDAQIL--PQD-LVLVELQRYKICIGEAWRM-  422 (561)
Q Consensus       358 L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~-----------~~~~~~~--~~~-~~~~~L~~L~l~~~~~~~~-  422 (561)
                      |++.++...        .........+++|+.|+++           ++.++..  +.. ..+++|+.|++.. ..+.. 
T Consensus       323 L~L~~~~~~--------~~l~~~~~~~~~L~~L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~-~~l~~~  393 (592)
T 3ogk_B          323 LETRNVIGD--------RGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYV-SDITNE  393 (592)
T ss_dssp             EEEEGGGHH--------HHHHHHHHHCTTCCEEEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEE-SCCCHH
T ss_pred             EeccCccCH--------HHHHHHHHhCCCCCEEEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeec-CCccHH
Confidence            887733211        1122333567778888888           3444321  111 1467888888732 22211 


Q ss_pred             ---CC-CCccccceEEEecCC-ccchh------hhhhhHHHhhccccceeeccccC-ccccc-ccccCCCCCCCccEEEE
Q 041360          423 ---WG-VTSEISRLVRLHGLE-NVSTL------LENYGMKMLLKEAEEIHLNELKG-VQNAV-HELDDGEGFPRLKHLRV  489 (561)
Q Consensus       423 ---~~-~~~~~~~l~~L~~~~-~~~~~------~~~~~~~~ll~~L~~L~l~~~~~-~~~~~-~~~~~~~~~~~L~~L~l  489 (561)
                         .+ ...+.++.+.+...+ +....      ..+..+.. +++|+.|+++.|.+ +.... ..+  ...+++|++|++
T Consensus       394 ~~~~l~~~~~~L~~L~l~~~~~~n~l~~~p~~~~~~~~~~~-~~~L~~L~L~~~~~~l~~~~~~~~--~~~~~~L~~L~L  470 (592)
T 3ogk_B          394 SLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIG-CKKLRRFAFYLRQGGLTDLGLSYI--GQYSPNVRWMLL  470 (592)
T ss_dssp             HHHHHHHHCCSCCEEEEEECSCCSCCSSCCCHHHHHHHHHH-CTTCCEEEEECCGGGCCHHHHHHH--HHSCTTCCEEEE
T ss_pred             HHHHHHhhCCCCcEEEEeecCCCccccCchHHHHHHHHHHh-CCCCCEEEEecCCCCccHHHHHHH--HHhCccceEeec
Confidence               11 112233333333111 11011      01112333 38889999876553 22211 111  235889999999


Q ss_pred             ecCCccchhhcccCcccCCcCccccccccccccc---cccCCCCCCCCCCCCcccCCCccc
Q 041360          490 ESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF---VILHGQKPTAASKGPEREKPTTSL  547 (561)
Q Consensus       490 ~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~---~~~~~~~~~~~l~~L~~L~i~~c~  547 (561)
                      .+|. ++...-.   .....+++|++|++.+|+-   .+...   ...+++|+.|++.+|.
T Consensus       471 ~~n~-l~~~~~~---~~~~~~~~L~~L~l~~n~l~~~~~~~~---~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          471 GYVG-ESDEGLM---EFSRGCPNLQKLEMRGCCFSERAIAAA---VTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             CSCC-SSHHHHH---HHHTCCTTCCEEEEESCCCBHHHHHHH---HHHCSSCCEEEEESCB
T ss_pred             cCCC-CCHHHHH---HHHhcCcccCeeeccCCCCcHHHHHHH---HHhcCccCeeECcCCc
Confidence            9864 5431100   1225679999999999983   12111   2357899999999998

>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=99.45  E-value=2.8e-13  Score=144.28  Aligned_cols=158  Identities=22%  Similarity=0.298  Sum_probs=130.6

Q ss_pred             ccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCc
Q 041360          230 LPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDI  309 (561)
Q Consensus       230 l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p  309 (561)
                      +..+.+..+.....+++|+.|+++++.  +..++.  ++.+++|++|+|++|.+..+|+ +..+++|++|+|++|.+..+
T Consensus        28 l~~~~i~~~~~~~~L~~L~~L~l~~n~--i~~l~~--l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l  102 (605)
T 1m9s_A           28 LKKKSVTDAVTQNELNSIDQIIANNSD--IKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDENKIKDL  102 (605)
T ss_dssp             TTCSCTTSEECHHHHTTCCCCBCTTCC--CCCCTT--GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCC
T ss_pred             ccCCCcccccchhcCCCCCEEECcCCC--CCCChH--HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCCCCCCC
Confidence            333344444434468899999999987  777774  5899999999999999999887 99999999999999999886


Q ss_pred             ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcE
Q 041360          310 AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  389 (561)
Q Consensus       310 ~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  389 (561)
                      +.+..+++|++|++++|.+..+|               .+..+++|+.|++++|.+..          +..+..+++|+.
T Consensus       103 ~~l~~l~~L~~L~Ls~N~l~~l~---------------~l~~l~~L~~L~Ls~N~l~~----------l~~l~~l~~L~~  157 (605)
T 1m9s_A          103 SSLKDLKKLKSLSLEHNGISDIN---------------GLVHLPQLESLYLGNNKITD----------ITVLSRLTKLDT  157 (605)
T ss_dssp             TTSTTCTTCCEEECTTSCCCCCG---------------GGGGCTTCSEEECCSSCCCC----------CGGGGSCTTCSE
T ss_pred             hhhccCCCCCEEEecCCCCCCCc---------------cccCCCccCEEECCCCccCC----------chhhcccCCCCE
Confidence            68999999999999999887653               26788999999999987531          256889999999


Q ss_pred             EEEeeccCcccCcccccccccEEEEEec
Q 041360          390 LEIQVRDAQILPQDLVLVELQRYKICIG  417 (561)
Q Consensus       390 L~l~~~~~~~~~~~~~~~~L~~L~l~~~  417 (561)
                      |+|+.|.+..++....+++|+.|++..+
T Consensus       158 L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N  185 (605)
T 1m9s_A          158 LSLEDNQISDIVPLAGLTKLQNLYLSKN  185 (605)
T ss_dssp             EECCSSCCCCCGGGTTCTTCCEEECCSS
T ss_pred             EECcCCcCCCchhhccCCCCCEEECcCC
Confidence            9999999988777668889999988543

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.44  E-value=6.3e-13  Score=123.19  Aligned_cols=129  Identities=20%  Similarity=0.321  Sum_probs=112.9

Q ss_pred             CCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      .+++.|++++|.+..++.. + .+++|+.|+++++.  +..++...|.++++|++|++++|.++.+|.. +..+++|++|
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~--i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L  109 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQ--ISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLL  109 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSC--CCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCc--CCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEE
Confidence            6899999999999988864 3 78999999999998  6677555569999999999999999999876 5889999999


Q ss_pred             EeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          300 CLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       300 ~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      +|++|.+..  +..+..+++|++|++++|.+..+|.+             .+..+++|++|++++|...
T Consensus       110 ~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          110 LLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKG-------------TFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT-------------TTTTCTTCCEEECCSSCEE
T ss_pred             ECCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHH-------------HHhCCCCCCEEEeCCCCcC
Confidence            999999988  57899999999999999998877642             3678899999999999764

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

Probab=99.44  E-value=9.5e-15  Score=156.89  Aligned_cols=61  Identities=10%  Similarity=0.004  Sum_probs=36.3

Q ss_pred             CCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc---cccCCCCCCCCCCCCcccCCCcccc
Q 041360          481 FPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF---VILHGQKPTAASKGPEREKPTTSLG  548 (561)
Q Consensus       481 ~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~---~~~~~~~~~~~l~~L~~L~i~~c~~  548 (561)
                      +++|+.|++++|. ++...-.   .-...+++|+.|++.+|+.   .+...   ...+++|+.|++.+|+.
T Consensus       455 ~~~L~~L~L~~~~-i~~~~~~---~l~~~~~~L~~L~L~~n~~~~~~~~~~---~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          455 AKKMEMLSVAFAG-DSDLGMH---HVLSGCDSLRKLEIRDCPFGDKALLAN---ASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             CTTCCEEEEESCC-SSHHHHH---HHHHHCTTCCEEEEESCSCCHHHHHHT---GGGGGGSSEEEEESSCC
T ss_pred             chhccEeeccCCC-CcHHHHH---HHHhcCCCcCEEECcCCCCcHHHHHHH---HHhCCCCCEEeeeCCCC
Confidence            5667777777654 3221100   0113478888888888885   11111   24567888888888864

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

Probab=99.44  E-value=2.9e-13  Score=132.69  Aligned_cols=176  Identities=15%  Similarity=0.091  Sum_probs=111.0

Q ss_pred             CCceEEEccCCCccc-cCCc---cCCCCccEEEeeccCCCCccc---cHHHHcCCCCccEEEecCCCCCCCc-hhhcCCC
Q 041360          223 KGPIAISLPHRDIQE-LPER---LQCPNLELFLLFRKGYGSMQI---SDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLF  294 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~-l~~~---~~~~~L~~L~l~~~~~~~~~~---~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~  294 (561)
                      .+++++++++|.+.. .|..   ..+++|++|+++++. .....   +...+..+++|++|++++|.+..+| ..++.++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~-i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVS-WATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCC-CSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEeeccc-ccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            457788887777743 3333   357778888888776 22222   2222346778888888888877764 5677788


Q ss_pred             CCcEEEeCCCCCCC----c--ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccccc
Q 041360          295 NLQTLCLGGCRLKD----I--AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWD  368 (561)
Q Consensus       295 ~L~~L~l~~~~l~~----p--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~  368 (561)
                      +|++|++++|.+..    +  ..++.+++|++|++++|.+..+|...          ...++.+++|++|++++|.+...
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~----------~~l~~~l~~L~~L~Ls~N~l~~~  239 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVC----------AALAAAGVQPHSLDLSHNSLRAT  239 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHH----------HHHHHHTCCCSSEECTTSCCCCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHH----------HHHHhcCCCCCEEECCCCCCCcc
Confidence            88888888887542    1  22367778888888887776554321          11146677788888888766433


Q ss_pred             ccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          369 KVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       369 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      .+     ..+..+..+++|+.|+++.|.++.+|.... ++|+.|++.
T Consensus       240 ~p-----~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~-~~L~~L~Ls  280 (310)
T 4glp_A          240 VN-----PSAPRCMWSSALNSLNLSFAGLEQVPKGLP-AKLRVLDLS  280 (310)
T ss_dssp             CC-----SCCSSCCCCTTCCCEECCSSCCCSCCSCCC-SCCSCEECC
T ss_pred             ch-----hhHHhccCcCcCCEEECCCCCCCchhhhhc-CCCCEEECC
Confidence            22     111222233688888888888777776553 677777764

>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=99.43  E-value=6.7e-13  Score=142.38  Aligned_cols=284  Identities=12%  Similarity=0.054  Sum_probs=183.4

Q ss_pred             CCceEEEccCCCcccc-----CCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCC----CCCchhhcC
Q 041360          223 KGPIAISLPHRDIQEL-----PERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRF----SSLPSSLGR  292 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l-----~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i----~~lp~~i~~  292 (561)
                      ++++.|+++++.+..+     +... .+++|++|++.++.  +..++.. +.++++|+.|+++++..    ...+..+..
T Consensus       192 ~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~--~~~l~~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~  268 (592)
T 3ogk_B          192 TSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE--ILELVGF-FKAAANLEEFCGGSLNEDIGMPEKYMNLVF  268 (592)
T ss_dssp             CCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB--GGGGHHH-HHHCTTCCEEEECBCCCCTTCTTSSSCCCC
T ss_pred             CCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc--HHHHHHH-HhhhhHHHhhcccccccccchHHHHHHhhc
Confidence            6899999999888532     2222 68999999999986  6667754 58999999999986432    234567788


Q ss_pred             CCCCcEEEeCCCCCCC-cccccCCCCCcEEEccCCcCcc--cChhhhccccccccC----------chhhcCCCCCcEEE
Q 041360          293 LFNLQTLCLGGCRLKD-IAIVGQLKKLEILSFRDSYIEE--LPHEIGQLTRLVVIA----------PNLISKFSQLEELY  359 (561)
Q Consensus       293 L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~L~~l~----------~~~i~~l~~L~~L~  359 (561)
                      +.+|+.|+++++.... |..+..+++|++|++++|.+..  ++..+.++++|+.+.          ......+++|++|+
T Consensus       269 ~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~  348 (592)
T 3ogk_B          269 PRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLR  348 (592)
T ss_dssp             CTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHHHHHHCTTCCEEE
T ss_pred             cccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHHHHHhCCCCCEEE
Confidence            8899999998876555 7778888999999999887542  223345555554331          11236789999999


Q ss_pred             ccC----------CcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc-c-c-ccccccEEEEEecc---ccccC
Q 041360          360 MGD----------SFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ-D-L-VLVELQRYKICIGE---AWRMW  423 (561)
Q Consensus       360 l~~----------~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~-~-~~~~L~~L~l~~~~---~~~~~  423 (561)
                      +.+          |....      ..........+++|+.|+++++.++.... . . .+++|+.|++....   .+...
T Consensus       349 L~~g~~~~~~~~~~~~~~------~~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~~~~~L~~L~l~~~~~~n~l~~~  422 (592)
T 3ogk_B          349 IERGADEQGMEDEEGLVS------QRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDL  422 (592)
T ss_dssp             EECCCCSSTTSSTTCCCC------HHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHCCSCCEEEEEECSCCSCCSSC
T ss_pred             eecCccccccccccCccC------HHHHHHHHhhCccCeEEEeecCCccHHHHHHHHhhCCCCcEEEEeecCCCccccCc
Confidence            983          32211      11222334568999999998887754221 1 1 47899999997432   22211


Q ss_pred             ---------CCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccc--ccccccCCCCCCCccEEEEecC
Q 041360          424 ---------GVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQN--AVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       424 ---------~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~--~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                               ......++.+.|..+.+.........+...+++|+.|++.++. +..  ++..   ..++++|++|+|++|
T Consensus       423 p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~~---~~~~~~L~~L~l~~n  498 (592)
T 3ogk_B          423 PLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGLMEF---SRGCPNLQKLEMRGC  498 (592)
T ss_dssp             CCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHHHHH---HTCCTTCCEEEEESC
T ss_pred             hHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHHHHH---HhcCcccCeeeccCC
Confidence                     1123334444443212111222334444435899999999765 332  2221   357899999999999


Q ss_pred             CccchhhcccCcccCCcCccccccccccccc
Q 041360          493 SEILHIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       493 ~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      + ++.-.-.   .....+++|++|.+.+|.-
T Consensus       499 ~-l~~~~~~---~~~~~l~~L~~L~ls~n~i  525 (592)
T 3ogk_B          499 C-FSERAIA---AAVTKLPSLRYLWVQGYRA  525 (592)
T ss_dssp             C-CBHHHHH---HHHHHCSSCCEEEEESCBC
T ss_pred             C-CcHHHHH---HHHHhcCccCeeECcCCcC
Confidence            7 5432100   1224689999999999984

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.43  E-value=2e-13  Score=136.90  Aligned_cols=236  Identities=10%  Similarity=0.060  Sum_probs=121.5

Q ss_pred             CCccEEEeeccCCCCccccH----HHHcCCC-CccEEEecCCCCCCC-chhhcCC-----CCCcEEEeCCCCCCC--ccc
Q 041360          245 PNLELFLLFRKGYGSMQISD----LFFEGTE-EVKVLSLTGVRFSSL-PSSLGRL-----FNLQTLCLGGCRLKD--IAI  311 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~----~~~~~l~-~Lr~L~l~~~~i~~l-p~~i~~L-----~~L~~L~l~~~~l~~--p~~  311 (561)
                      ++|+.|++++|.  +...+.    ..|.+++ +|++|++++|.+... +..+..+     .+|++|++++|.+..  +..
T Consensus        22 ~~L~~L~Ls~n~--l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~   99 (362)
T 3goz_A           22 HGVTSLDLSLNN--LYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDE   99 (362)
T ss_dssp             TTCCEEECTTSC--GGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHH
T ss_pred             CCceEEEccCCC--CChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHH
Confidence            347777777775  555543    3446666 677777777776654 4445443     677777777777654  232


Q ss_pred             ----ccCC-CCCcEEEccCCcCcccChh-hhccccccccCchhhcCC-CCCcEEEccCCcccccccCCCcccchHhhcCC
Q 041360          312 ----VGQL-KKLEILSFRDSYIEELPHE-IGQLTRLVVIAPNLISKF-SQLEELYMGDSFSQWDKVEGGSNASLAELKGL  384 (561)
Q Consensus       312 ----i~~L-~~L~~L~l~~~~~~~lp~~-i~~L~~L~~l~~~~i~~l-~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l  384 (561)
                          +..+ ++|++|++++|.+...+.. +.          ..+..+ ++|++|++++|.......    ......+...
T Consensus       100 l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~----------~~l~~~~~~L~~L~Ls~N~l~~~~~----~~l~~~l~~~  165 (362)
T 3goz_A          100 LVKTLAAIPFTITVLDLGWNDFSSKSSSEFK----------QAFSNLPASITSLNLRGNDLGIKSS----DELIQILAAI  165 (362)
T ss_dssp             HHHHHHTSCTTCCEEECCSSCGGGSCHHHHH----------HHHTTSCTTCCEEECTTSCGGGSCH----HHHHHHHHTS
T ss_pred             HHHHHHhCCCCccEEECcCCcCCcHHHHHHH----------HHHHhCCCceeEEEccCCcCCHHHH----HHHHHHHhcC
Confidence                3333 6777777777766554431 11          113342 467777777765432111    1223344444


Q ss_pred             C-CCcEEEEeeccCcccCccc------cc-ccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhcc
Q 041360          385 S-KLTTLEIQVRDAQILPQDL------VL-VELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKE  456 (561)
Q Consensus       385 ~-~L~~L~l~~~~~~~~~~~~------~~-~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~  456 (561)
                      + +|+.|+++.|.+.......      .. ++|+.|++..+. +.               ..+   ....+..+....++
T Consensus       166 ~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~---------------~~~---~~~l~~~l~~~~~~  226 (362)
T 3goz_A          166 PANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANL-LG---------------LKS---YAELAYIFSSIPNH  226 (362)
T ss_dssp             CTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSC-GG---------------GSC---HHHHHHHHHHSCTT
T ss_pred             CccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCC-CC---------------hhH---HHHHHHHHhcCCCC
Confidence            4 7777777776665433211      22 356666553221 11               000   12233344443246


Q ss_pred             ccceeeccccCcccccc-c--ccCCCCCCCccEEEEecCC-------ccchhhcccCcccCCcCcccccccccccc
Q 041360          457 AEEIHLNELKGVQNAVH-E--LDDGEGFPRLKHLRVESCS-------EILHIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       457 L~~L~l~~~~~~~~~~~-~--~~~~~~~~~L~~L~l~~c~-------~l~~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      |+.|+++++. +...+. .  .. ...+++|++|++++|.       .+..++.     ....+++|+.|++.+++
T Consensus       227 L~~L~Ls~N~-l~~~~~~~l~~~-~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~-----~~~~l~~L~~LdL~~N~  295 (362)
T 3goz_A          227 VVSLNLCLNC-LHGPSLENLKLL-KDSLKHLQTVYLDYDIVKNMSKEQCKALGA-----AFPNIQKIILVDKNGKE  295 (362)
T ss_dssp             CCEEECCSSC-CCCCCHHHHHHT-TTTTTTCSEEEEEHHHHTTCCHHHHHHHHT-----TSTTCCEEEEECTTSCB
T ss_pred             ceEEECcCCC-CCcHHHHHHHHH-HhcCCCccEEEeccCCccccCHHHHHHHHH-----HhccCCceEEEecCCCc
Confidence            7777777643 322211 0  01 3456777777777753       1222221     22345556666666554

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.40  E-value=1.8e-13  Score=138.71  Aligned_cols=178  Identities=17%  Similarity=0.126  Sum_probs=125.8

Q ss_pred             CCceEEEccCCCccc-----cCCcc-CCCCccEEEeeccCC--CCccccHHH------HcCCCCccEEEecCCCCCC---
Q 041360          223 KGPIAISLPHRDIQE-----LPERL-QCPNLELFLLFRKGY--GSMQISDLF------FEGTEEVKVLSLTGVRFSS---  285 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~-----l~~~~-~~~~L~~L~l~~~~~--~~~~~~~~~------~~~l~~Lr~L~l~~~~i~~---  285 (561)
                      .++++|++++|.+..     ++..+ .+++|++|+++++..  ....+|..+      +..+++|++|++++|.+..   
T Consensus        32 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~  111 (386)
T 2ca6_A           32 DSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQ  111 (386)
T ss_dssp             SCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTH
T ss_pred             CCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHH
Confidence            579999999998854     22223 689999999999741  122345443      4789999999999999887   


Q ss_pred             --CchhhcCCCCCcEEEeCCCCCCC--ccc----ccCC---------CCCcEEEccCCcCc--ccChhhhccccccccCc
Q 041360          286 --LPSSLGRLFNLQTLCLGGCRLKD--IAI----VGQL---------KKLEILSFRDSYIE--ELPHEIGQLTRLVVIAP  346 (561)
Q Consensus       286 --lp~~i~~L~~L~~L~l~~~~l~~--p~~----i~~L---------~~L~~L~l~~~~~~--~lp~~i~~L~~L~~l~~  346 (561)
                        +|..+..+++|++|+|++|.+..  +..    +..+         ++|++|++++|.+.  .+|.          +. 
T Consensus       112 ~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~----------l~-  180 (386)
T 2ca6_A          112 EPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKE----------WA-  180 (386)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHH----------HH-
T ss_pred             HHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHH----------HH-
Confidence              78889999999999999999864  333    4444         89999999999875  2221          01 


Q ss_pred             hhhcCCCCCcEEEccCCcccccccCCCcccchH-hhcCCCCCcEEEEeeccCc-----ccCccc-ccccccEEEEE
Q 041360          347 NLISKFSQLEELYMGDSFSQWDKVEGGSNASLA-ELKGLSKLTTLEIQVRDAQ-----ILPQDL-VLVELQRYKIC  415 (561)
Q Consensus       347 ~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~-~l~~l~~L~~L~l~~~~~~-----~~~~~~-~~~~L~~L~l~  415 (561)
                      ..+..+++|++|++++|.+....    ...... .+..+++|+.|++++|.+.     .++..+ .+++|+.|++.
T Consensus       181 ~~l~~~~~L~~L~L~~n~l~~~g----~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~  252 (386)
T 2ca6_A          181 KTFQSHRLLHTVKMVQNGIRPEG----IEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLN  252 (386)
T ss_dssp             HHHHHCTTCCEEECCSSCCCHHH----HHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECT
T ss_pred             HHHHhCCCcCEEECcCCCCCHhH----HHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECC
Confidence            12667788999999888653110    001233 6778889999999988873     333332 56677777763

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.40  E-value=1.8e-12  Score=120.11  Aligned_cols=129  Identities=19%  Similarity=0.219  Sum_probs=112.3

Q ss_pred             CCceEEEccCCCccccCC-c-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPE-R-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~  298 (561)
                      ..++.|++++|.+..++. . + .+++|+.|+++++.  +..++...|+++++|++|++++|.+..+|. .+..+++|++
T Consensus        32 ~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~--i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~  109 (220)
T 2v70_A           32 QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNK--ITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKT  109 (220)
T ss_dssp             TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCE
T ss_pred             CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCc--CCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCE
Confidence            678999999999988843 3 3 89999999999997  777877667999999999999999999865 5899999999


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      |+|++|.+..  |..+..+++|++|++++|.+..++.             ..+..+++|++|++++|...
T Consensus       110 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A          110 LMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAP-------------GAFDTLHSLSTLNLLANPFN  166 (220)
T ss_dssp             EECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCT-------------TTTTTCTTCCEEECCSCCEE
T ss_pred             EECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECH-------------HHhcCCCCCCEEEecCcCCc
Confidence            9999999988  5889999999999999998876632             23778899999999999765

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

Probab=99.40  E-value=1.8e-12  Score=136.58  Aligned_cols=185  Identities=16%  Similarity=0.169  Sum_probs=122.1

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++++|.+..+|..+ +++|++|++++|.  +..+|    +.+++|++|++++|.++.+|. ++.  +|++|+++
T Consensus        59 ~~L~~L~Ls~n~L~~lp~~l-~~~L~~L~Ls~N~--l~~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls  128 (571)
T 3cvr_A           59 NQFSELQLNRLNLSSLPDNL-PPQITVLEITQNA--LISLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVD  128 (571)
T ss_dssp             TTCSEEECCSSCCSCCCSCC-CTTCSEEECCSSC--CSCCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECC
T ss_pred             CCccEEEeCCCCCCccCHhH-cCCCCEEECcCCC--Ccccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEECC
Confidence            46888888888888888765 4788999998887  66777    357888999999998888887 665  88999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      +|.++. |.   .+++|++|++++|.+..+|.                 .+++|++|++++|.+.. ++        . +
T Consensus       129 ~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp~-----------------~l~~L~~L~Ls~N~L~~-lp--------~-l  178 (571)
T 3cvr_A          129 NNQLTMLPE---LPALLEYINADNNQLTMLPE-----------------LPTSLEVLSVRNNQLTF-LP--------E-L  178 (571)
T ss_dssp             SSCCSCCCC---CCTTCCEEECCSSCCSCCCC-----------------CCTTCCEEECCSSCCSC-CC--------C-C
T ss_pred             CCcCCCCCC---cCccccEEeCCCCccCcCCC-----------------cCCCcCEEECCCCCCCC-cc--------h-h
Confidence            988888 55   67889999998888776663                 34566677777665432 22        1 2


Q ss_pred             cCCCCCcEEEEeeccCcccCcccccccc-------cEEEEEecc--ccccCCCCccccceEEEecCCccchhhhhhhHHH
Q 041360          382 KGLSKLTTLEIQVRDAQILPQDLVLVEL-------QRYKICIGE--AWRMWGVTSEISRLVRLHGLENVSTLLENYGMKM  452 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~~~~~~~L-------~~L~l~~~~--~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~  452 (561)
                      .  ++|+.|+++.|.++.+|. +. .+|       +.|++..+.  .+|.+...  ..++..|++.+|......+..+..
T Consensus       179 ~--~~L~~L~Ls~N~L~~lp~-~~-~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~--l~~L~~L~L~~N~l~~~~p~~l~~  252 (571)
T 3cvr_A          179 P--ESLEALDVSTNLLESLPA-VP-VRNHHSEETEIFFRCRENRITHIPENILS--LDPTCTIILEDNPLSSRIRESLSQ  252 (571)
T ss_dssp             C--TTCCEEECCSSCCSSCCC-CC---------CCEEEECCSSCCCCCCGGGGG--SCTTEEEECCSSSCCHHHHHHHHH
T ss_pred             h--CCCCEEECcCCCCCchhh-HH-HhhhcccccceEEecCCCcceecCHHHhc--CCCCCEEEeeCCcCCCcCHHHHHH
Confidence            2  567777777777666665 21 255       666664321  22222222  334455555555434455555555


Q ss_pred             h
Q 041360          453 L  453 (561)
Q Consensus       453 l  453 (561)
                      +
T Consensus       253 l  253 (571)
T 3cvr_A          253 Q  253 (571)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.39  E-value=6.6e-13  Score=133.07  Aligned_cols=156  Identities=19%  Similarity=0.239  Sum_probs=92.5

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHc-CCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFE-GTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGG  303 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~-~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~  303 (561)
                      +.++.+++.+..+|..+ .+.++.|+++++.  +..++...|. ++.+|++|+|++|.+..++ ..+..+.+|++|+|++
T Consensus        21 ~~l~c~~~~l~~iP~~~-~~~l~~L~Ls~N~--l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   97 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSL-PSYTALLDLSHNN--LSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS   97 (361)
T ss_dssp             TEEECCSSCCSSCCSSC-CTTCSEEECCSSC--CCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCCcCccCccC-CCCCCEEECCCCC--CCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCC
Confidence            35566666666666543 2446677777765  5556555555 6777777777777776664 3566777777777777


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhh
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAEL  381 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l  381 (561)
                      |.++. + ..+..+++|++|++++|.+..++.             ..+.++++|+.|++++|.+..-..     ..+..+
T Consensus        98 N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~-------------~~~~~l~~L~~L~L~~N~l~~l~~-----~~~~~~  159 (361)
T 2xot_A           98 NHLHTLDEFLFSDLQALEVLLLYNNHIVVVDR-------------NAFEDMAQLQKLYLSQNQISRFPV-----ELIKDG  159 (361)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSCCCEECT-------------TTTTTCTTCCEEECCSSCCCSCCG-----GGTC--
T ss_pred             CcCCcCCHHHhCCCcCCCEEECCCCcccEECH-------------HHhCCcccCCEEECCCCcCCeeCH-----HHhcCc
Confidence            77666 3 456677777777777776654431             225566667777776665432111     111112


Q ss_pred             cCCCCCcEEEEeeccCcccCc
Q 041360          382 KGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       382 ~~l~~L~~L~l~~~~~~~~~~  402 (561)
                      ..+++|+.|+++.|.+..+|.
T Consensus       160 ~~l~~L~~L~L~~N~l~~l~~  180 (361)
T 2xot_A          160 NKLPKLMLLDLSSNKLKKLPL  180 (361)
T ss_dssp             --CTTCCEEECCSSCCCCCCH
T ss_pred             ccCCcCCEEECCCCCCCccCH
Confidence            456677777777776666553

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.38  E-value=1.6e-12  Score=130.28  Aligned_cols=156  Identities=19%  Similarity=0.187  Sum_probs=124.1

Q ss_pred             CCceEEEccCCCccccCCcc---CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPERL---QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~---~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~  298 (561)
                      ..++.|++++|.+..++...   .+++|+.|+++++.  +..++...|.++++|++|+|++|.++.+|. .+..+.+|++
T Consensus        39 ~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~--i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~  116 (361)
T 2xot_A           39 SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNH--LNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEV  116 (361)
T ss_dssp             TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCE
T ss_pred             CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCc--CCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCE
Confidence            67899999999998887754   78999999999997  777877667999999999999999999865 6889999999


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCccc
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNA  376 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~  376 (561)
                      |+|++|.+..  +..+..+++|++|++++|.+..+|..+..          .+..+++|+.|++++|.+....       
T Consensus       117 L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~----------~~~~l~~L~~L~L~~N~l~~l~-------  179 (361)
T 2xot_A          117 LLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIK----------DGNKLPKLMLLDLSSNKLKKLP-------  179 (361)
T ss_dssp             EECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC--------------CTTCCEEECCSSCCCCCC-------
T ss_pred             EECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhc----------CcccCCcCCEEECCCCCCCccC-------
Confidence            9999999887  57899999999999999998887754310          1267889999999998764222       


Q ss_pred             chHhhcCCCC--CcEEEEeeccCc
Q 041360          377 SLAELKGLSK--LTTLEIQVRDAQ  398 (561)
Q Consensus       377 ~~~~l~~l~~--L~~L~l~~~~~~  398 (561)
                       ...+..++.  |+.|++..|.+.
T Consensus       180 -~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          180 -LTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             -HHHHHHSCHHHHTTEECCSSCEE
T ss_pred             -HHHhhhccHhhcceEEecCCCcc
Confidence             244555555  477888877654

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.38  E-value=1.3e-12  Score=115.55  Aligned_cols=129  Identities=22%  Similarity=0.210  Sum_probs=108.1

Q ss_pred             CCceEEEccCCCcc--ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQ--ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~--~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~  298 (561)
                      .+++++++++|.+.  .+|..+ .+++|++|++++|.  +..+ . .++.+++|++|++++|.+.. +|..+..+++|++
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~--l~~~-~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   99 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVG--LISV-S-NLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTH   99 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSC--CCCC-S-SCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCC--CCCh-h-hhccCCCCCEEECcCCcCchHHHHHHhhCCCCCE
Confidence            78999999999997  888775 78999999999997  5555 3 35899999999999999998 7777788999999


Q ss_pred             EEeCCCCCCC-c--ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          299 LCLGGCRLKD-I--AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       299 L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      |++++|.++. +  ..++.+++|++|++++|.+..+|...          ...+..+++|++|++.+|..
T Consensus       100 L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~----------~~~~~~l~~L~~L~l~~n~~  159 (168)
T 2ell_A          100 LNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYR----------ESVFKLLPQLTYLDGYDRED  159 (168)
T ss_dssp             EECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHH----------HHHHTTCSSCCEETTEETTS
T ss_pred             EeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHH----------HHHHHhCccCcEecCCCCCh
Confidence            9999999888 5  78999999999999999887766310          12377888999999888764

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

Probab=99.37  E-value=2.2e-13  Score=133.49  Aligned_cols=169  Identities=14%  Similarity=0.063  Sum_probs=132.3

Q ss_pred             CCceEEEccCCCccccCCc------cCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC---Cch--hhc
Q 041360          223 KGPIAISLPHRDIQELPER------LQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS---LPS--SLG  291 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~------~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~---lp~--~i~  291 (561)
                      .+++.+++++|.+......      ..+++|++|++++|.  +..++...|+++++|++|++++|.+..   ++.  .++
T Consensus       117 ~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~--l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~  194 (310)
T 4glp_A          117 LALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAH--SPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPH  194 (310)
T ss_dssp             BCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCS--SCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTT
T ss_pred             CCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCC--cchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhh
Confidence            6789999999998653221      268999999999998  677776667999999999999999765   433  347


Q ss_pred             CCCCCcEEEeCCCCCCC-cc----cccCCCCCcEEEccCCcCccc-ChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          292 RLFNLQTLCLGGCRLKD-IA----IVGQLKKLEILSFRDSYIEEL-PHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       292 ~L~~L~~L~l~~~~l~~-p~----~i~~L~~L~~L~l~~~~~~~l-p~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      .+++|++|++++|.++. +.    -++.+++|++|++++|.+..+ |..++.           +..+++|++|++++|.+
T Consensus       195 ~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~-----------~~~~~~L~~L~Ls~N~l  263 (310)
T 4glp_A          195 KFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPR-----------CMWSSALNSLNLSFAGL  263 (310)
T ss_dssp             SSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSS-----------CCCCTTCCCEECCSSCC
T ss_pred             cCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHh-----------ccCcCcCCEEECCCCCC
Confidence            89999999999999987 43    257889999999999998876 544332           22347899999999977


Q ss_pred             cccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          366 QWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       366 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      . .++        ..+.  ++|+.|+++.|.++.+|....+++|+.|++.
T Consensus       264 ~-~lp--------~~~~--~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L~  302 (310)
T 4glp_A          264 E-QVP--------KGLP--AKLRVLDLSSNRLNRAPQPDELPEVDNLTLD  302 (310)
T ss_dssp             C-SCC--------SCCC--SCCSCEECCSCCCCSCCCTTSCCCCSCEECS
T ss_pred             C-chh--------hhhc--CCCCEEECCCCcCCCCchhhhCCCccEEECc
Confidence            5 333        2222  7999999999999988776678899988874

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.37  E-value=1.4e-12  Score=115.31  Aligned_cols=140  Identities=21%  Similarity=0.175  Sum_probs=110.7

Q ss_pred             CCCCccEEEeeccCCCCc--cccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCC
Q 041360          243 QCPNLELFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKL  318 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L  318 (561)
                      ..++|+.|+++++.  +.  .+|.. +..+++|++|++++|.+..+ ..++.+++|++|++++|.+..  |..++.+++|
T Consensus        22 ~~~~L~~L~l~~n~--l~~~~i~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   97 (168)
T 2ell_A           22 TPAAVRELVLDNCK--SNDGKIEGL-TAEFVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNL   97 (168)
T ss_dssp             CTTSCSEEECCSCB--CBTTBCSSC-CGGGGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTC
T ss_pred             CcccCCEEECCCCC--CChhhHHHH-HHhCCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCC
Confidence            35789999999997  54  77765 48899999999999999888 788999999999999999887  4566679999


Q ss_pred             cEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc
Q 041360          319 EILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       319 ~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                      ++|++++|.+..+|.-            ..++.+++|+.|++++|.......     .....+..+++|+.|+++.+...
T Consensus        98 ~~L~Ls~N~l~~~~~~------------~~l~~l~~L~~L~l~~N~l~~~~~-----~~~~~~~~l~~L~~L~l~~n~~~  160 (168)
T 2ell_A           98 THLNLSGNKLKDISTL------------EPLKKLECLKSLDLFNCEVTNLND-----YRESVFKLLPQLTYLDGYDREDQ  160 (168)
T ss_dssp             CEEECBSSSCCSSGGG------------GGGSSCSCCCEEECCSSGGGTSTT-----HHHHHHTTCSSCCEETTEETTSC
T ss_pred             CEEeccCCccCcchhH------------HHHhcCCCCCEEEeeCCcCcchHH-----HHHHHHHhCccCcEecCCCCChh
Confidence            9999999988776520            226788999999999987642111     11246788999999999998887


Q ss_pred             ccCcc
Q 041360          399 ILPQD  403 (561)
Q Consensus       399 ~~~~~  403 (561)
                      .+|..
T Consensus       161 ~~~~~  165 (168)
T 2ell_A          161 EAPDS  165 (168)
T ss_dssp             BCCSS
T ss_pred             hcccc
Confidence            76643

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.37  E-value=1.3e-12  Score=113.12  Aligned_cols=125  Identities=22%  Similarity=0.216  Sum_probs=104.5

Q ss_pred             CCceEEEccCCCcc--ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-CchhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQ--ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-LPSSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~--~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-lp~~i~~L~~L~~  298 (561)
                      .+++++++++|.+.  .+|..+ .+++|+.|++++|.  +..+  ..++++++|++|++++|.+.. +|..++.+++|++
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~--l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~   92 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG--LTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTH   92 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC--CCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCE
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC--CCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCE
Confidence            67999999999997  788775 88999999999997  6566  336899999999999999998 7888888999999


Q ss_pred             EEeCCCCCCC-c--ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEcc
Q 041360          299 LCLGGCRLKD-I--AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMG  361 (561)
Q Consensus       299 L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~  361 (561)
                      |++++|.++. +  ..++.+++|++|++++|.+..+|..          +...++.+++|+.|+++
T Consensus        93 L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~----------~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           93 LNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDY----------RENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTH----------HHHHHHHCTTCCEETTB
T ss_pred             EECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHH----------HHHHHHHCCCcccccCC
Confidence            9999999988 4  8899999999999999988776641          01236677777777764

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.35  E-value=5.8e-12  Score=114.03  Aligned_cols=124  Identities=20%  Similarity=0.285  Sum_probs=106.2

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~  304 (561)
                      +.++++++.+..+|..+ .++|++|+++++.  +..+|.. |.++++|++|++++|.++.++ ..+..+.+|++|+|++|
T Consensus        13 ~~l~~~~~~l~~ip~~~-~~~l~~L~L~~n~--i~~ip~~-~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N   88 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI-PRDVTELYLDGNQ--FTLVPKE-LSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEECCSSC--CCSCCGG-GGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEECCCCc--CchhHHH-hhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            46788888898888765 4789999999997  7788865 599999999999999999986 56899999999999999


Q ss_pred             CCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          305 RLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       305 ~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      .++.  +..++.+++|++|++++|.+..+|.+             .+..+++|+.|++++|...
T Consensus        89 ~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~-------------~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           89 RLRCIPPRTFDGLKSLRLLSLHGNDISVVPEG-------------AFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             CCCBCCTTTTTTCTTCCEEECCSSCCCBCCTT-------------TTTTCTTCCEEECCSSCEE
T ss_pred             ccCEeCHHHhCCCCCCCEEECCCCCCCeeChh-------------hhhcCccccEEEeCCCCee
Confidence            9888  46799999999999999988877643             3678889999999998764

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

Probab=99.33  E-value=6.5e-12  Score=132.28  Aligned_cols=182  Identities=15%  Similarity=0.125  Sum_probs=132.1

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEEEc
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEILSF  323 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l  323 (561)
                      .+++.|+++++.  +..+|..+   +++|++|++++|.++.+|   ..+++|++|++++|.++. |. +++  +|++|++
T Consensus        59 ~~L~~L~Ls~n~--L~~lp~~l---~~~L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~L  127 (571)
T 3cvr_A           59 NQFSELQLNRLN--LSSLPDNL---PPQITVLEITQNALISLP---ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDV  127 (571)
T ss_dssp             TTCSEEECCSSC--CSCCCSCC---CTTCSEEECCSSCCSCCC---CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEEC
T ss_pred             CCccEEEeCCCC--CCccCHhH---cCCCCEEECcCCCCcccc---cccCCCCEEEccCCCCCCcch-hhc--CCCEEEC
Confidence            489999999997  66788765   378999999999999999   568999999999999988 66 666  9999999


Q ss_pred             cCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcc
Q 041360          324 RDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQD  403 (561)
Q Consensus       324 ~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~  403 (561)
                      ++|.+..+|.                 .+++|+.|++++|.+.. ++        .   .+++|+.|+++.|.++.+|. 
T Consensus       128 s~N~l~~lp~-----------------~l~~L~~L~Ls~N~l~~-lp--------~---~l~~L~~L~Ls~N~L~~lp~-  177 (571)
T 3cvr_A          128 DNNQLTMLPE-----------------LPALLEYINADNNQLTM-LP--------E---LPTSLEVLSVRNNQLTFLPE-  177 (571)
T ss_dssp             CSSCCSCCCC-----------------CCTTCCEEECCSSCCSC-CC--------C---CCTTCCEEECCSSCCSCCCC-
T ss_pred             CCCcCCCCCC-----------------cCccccEEeCCCCccCc-CC--------C---cCCCcCEEECCCCCCCCcch-
Confidence            9998877662                 46789999999997642 22        1   46899999999999998888 


Q ss_pred             cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCC
Q 041360          404 LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPR  483 (561)
Q Consensus       404 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~  483 (561)
                      +. ++|+.|++..+ .+..+.. ... ++                  ....+.|+.|+++++ .++.+|..+.   .+++
T Consensus       178 l~-~~L~~L~Ls~N-~L~~lp~-~~~-~L------------------~~~~~~L~~L~Ls~N-~l~~lp~~l~---~l~~  231 (571)
T 3cvr_A          178 LP-ESLEALDVSTN-LLESLPA-VPV-RN------------------HHSEETEIFFRCREN-RITHIPENIL---SLDP  231 (571)
T ss_dssp             CC-TTCCEEECCSS-CCSSCCC-CC---------------------------CCEEEECCSS-CCCCCCGGGG---GSCT
T ss_pred             hh-CCCCEEECcCC-CCCchhh-HHH-hh------------------hcccccceEEecCCC-cceecCHHHh---cCCC
Confidence            44 89999988543 2221111 110 11                  001144577777763 4556665532   4778


Q ss_pred             ccEEEEecCC
Q 041360          484 LKHLRVESCS  493 (561)
Q Consensus       484 L~~L~l~~c~  493 (561)
                      |+.|++++++
T Consensus       232 L~~L~L~~N~  241 (571)
T 3cvr_A          232 TCTIILEDNP  241 (571)
T ss_dssp             TEEEECCSSS
T ss_pred             CCEEEeeCCc
Confidence            8888888753

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.32  E-value=8.7e-13  Score=132.29  Aligned_cols=232  Identities=11%  Similarity=0.113  Sum_probs=148.8

Q ss_pred             CCceEEEccCCCccccCC-----cc-CCC-CccEEEeeccCCCCccccHHHHcCC-----CCccEEEecCCCCCCCc-hh
Q 041360          223 KGPIAISLPHRDIQELPE-----RL-QCP-NLELFLLFRKGYGSMQISDLFFEGT-----EEVKVLSLTGVRFSSLP-SS  289 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~-----~~-~~~-~L~~L~l~~~~~~~~~~~~~~~~~l-----~~Lr~L~l~~~~i~~lp-~~  289 (561)
                      .++++|++++|.+...+.     .+ .++ +|++|++++|.  +.......+..+     ++|++|++++|.+...+ ..
T Consensus        22 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~--l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~   99 (362)
T 3goz_A           22 HGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNS--LGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDE   99 (362)
T ss_dssp             TTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSC--GGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHH
T ss_pred             CCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCC--CCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHH
Confidence            669999999999987764     33 677 89999999997  555433333554     99999999999988754 33


Q ss_pred             ----hcCC-CCCcEEEeCCCCCCC-c-cc----ccCC-CCCcEEEccCCcCcccChhhhccccccccCchhhcCCC-CCc
Q 041360          290 ----LGRL-FNLQTLCLGGCRLKD-I-AI----VGQL-KKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFS-QLE  356 (561)
Q Consensus       290 ----i~~L-~~L~~L~l~~~~l~~-p-~~----i~~L-~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~-~L~  356 (561)
                          +..+ .+|++|++++|.+.. + ..    +..+ .+|++|++++|.+......        .++. .+..++ +|+
T Consensus       100 l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~--------~l~~-~l~~~~~~L~  170 (362)
T 3goz_A          100 LVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSD--------ELIQ-ILAAIPANVN  170 (362)
T ss_dssp             HHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHH--------HHHH-HHHTSCTTCC
T ss_pred             HHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHH--------HHHH-HHhcCCcccc
Confidence                5555 899999999999877 3 33    4443 6999999999987643211        1111 245555 899


Q ss_pred             EEEccCCcccccccCCCcccchHhhcCC-CCCcEEEEeeccCcc-----cCccc-c-cccccEEEEEeccccccCCCCcc
Q 041360          357 ELYMGDSFSQWDKVEGGSNASLAELKGL-SKLTTLEIQVRDAQI-----LPQDL-V-LVELQRYKICIGEAWRMWGVTSE  428 (561)
Q Consensus       357 ~L~l~~~~~~~~~~~~~~~~~~~~l~~l-~~L~~L~l~~~~~~~-----~~~~~-~-~~~L~~L~l~~~~~~~~~~~~~~  428 (561)
                      +|++++|.......    .+....+... ++|+.|+++.|.+..     ++... . .++|+.|++..+. +.    .. 
T Consensus       171 ~L~Ls~n~l~~~~~----~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~----~~-  240 (362)
T 3goz_A          171 SLNLRGNNLASKNC----AELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNC-LH----GP-  240 (362)
T ss_dssp             EEECTTSCGGGSCH----HHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSC-CC----CC-
T ss_pred             EeeecCCCCchhhH----HHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCC-CC----cH-
Confidence            99999987642222    1233455666 599999999988776     33322 2 3578888874321 11    00 


Q ss_pred             ccceEEEecCCccchhhhhhhHHHhhccccceeecccc-------CcccccccccCCCCCCCccEEEEecC
Q 041360          429 ISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK-------GVQNAVHELDDGEGFPRLKHLRVESC  492 (561)
Q Consensus       429 ~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~-------~~~~~~~~~~~~~~~~~L~~L~l~~c  492 (561)
                                +   .......+.. +++|+.|+++++.       .+..+...   ...+++|++|+++++
T Consensus       241 ----------~---~~~l~~~~~~-l~~L~~L~L~~n~l~~i~~~~~~~l~~~---~~~l~~L~~LdL~~N  294 (362)
T 3goz_A          241 ----------S---LENLKLLKDS-LKHLQTVYLDYDIVKNMSKEQCKALGAA---FPNIQKIILVDKNGK  294 (362)
T ss_dssp             ----------C---HHHHHHTTTT-TTTCSEEEEEHHHHTTCCHHHHHHHHTT---STTCCEEEEECTTSC
T ss_pred             ----------H---HHHHHHHHhc-CCCccEEEeccCCccccCHHHHHHHHHH---hccCCceEEEecCCC
Confidence                      0   1111111222 2778888887764       12222222   345677777777764

>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=99.32  E-value=1.7e-12  Score=139.29  Aligned_cols=293  Identities=17%  Similarity=0.135  Sum_probs=157.4

Q ss_pred             CCceEEEccCCCccc-----cCCcc-CCCCccEEEeeccCCCC-ccccHHHHcCCCCccEEEecCC-CCCCCchhhcCCC
Q 041360          223 KGPIAISLPHRDIQE-----LPERL-QCPNLELFLLFRKGYGS-MQISDLFFEGTEEVKVLSLTGV-RFSSLPSSLGRLF  294 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~-----l~~~~-~~~~L~~L~l~~~~~~~-~~~~~~~~~~l~~Lr~L~l~~~-~i~~lp~~i~~L~  294 (561)
                      +++++|++++|.+..     ++... .+++|++|+++++...+ ......++..+++|++|++++| .+..+|..+..++
T Consensus       156 ~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~  235 (594)
T 2p1m_B          156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAP  235 (594)
T ss_dssp             TTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCC
Confidence            578888888776532     22222 56788888887764001 1112223355688888888877 3444566666677


Q ss_pred             CCcEEEeCCCCC--------------------------C-----C-cccccCCCCCcEEEccCCcCcc--cChhhhcccc
Q 041360          295 NLQTLCLGGCRL--------------------------K-----D-IAIVGQLKKLEILSFRDSYIEE--LPHEIGQLTR  340 (561)
Q Consensus       295 ~L~~L~l~~~~l--------------------------~-----~-p~~i~~L~~L~~L~l~~~~~~~--lp~~i~~L~~  340 (561)
                      +|++|++.++..                          .     . +..+..+++|++|++++|.+..  ++.-+.++++
T Consensus       236 ~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~~~  315 (594)
T 2p1m_B          236 QLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPK  315 (594)
T ss_dssp             TCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTCTT
T ss_pred             cceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcCCC
Confidence            777776544421                          0     1 1222356777777777776442  1222334444


Q ss_pred             ccccC----------chhhcCCCCCcEEEccCCccc--ccccCCCcccchHhh-cCCCCCcEEEEeeccCcccCcc-c--
Q 041360          341 LVVIA----------PNLISKFSQLEELYMGDSFSQ--WDKVEGGSNASLAEL-KGLSKLTTLEIQVRDAQILPQD-L--  404 (561)
Q Consensus       341 L~~l~----------~~~i~~l~~L~~L~l~~~~~~--~~~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~~~~~~~-~--  404 (561)
                      |+.+.          ......+++|++|++.++...  ...... ....+..+ ..+++|+.|.+.++.++..... +  
T Consensus       316 L~~L~l~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~g~~~~~~l-~~~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~  394 (594)
T 2p1m_B          316 LQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVAL-TEQGLVSVSMGCPKLESVLYFCRQMTNAALITIAR  394 (594)
T ss_dssp             CCEEEEEGGGHHHHHHHHHHHCTTCCEEEEECSCTTCSSCSSCC-CHHHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHH
T ss_pred             cCEEeCcCccCHHHHHHHHHhCCCCCEEEEecCcccccccCCCC-CHHHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHh
Confidence            42221          011234777888877442100  000000 11122233 3478888888887776532211 1  


Q ss_pred             ccccccEEEEEe-----ccccccCCC-------CccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCccccc
Q 041360          405 VLVELQRYKICI-----GEAWRMWGV-------TSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAV  472 (561)
Q Consensus       405 ~~~~L~~L~l~~-----~~~~~~~~~-------~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~  472 (561)
                      .+++|+.|++..     +..+.....       .....++..|++.++. .......+...+++|+.|++.+|.-.....
T Consensus       395 ~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~l~~~~~~L~~L~L~~~l-~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~  473 (594)
T 2p1m_B          395 NRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLL-TDKVFEYIGTYAKKMEMLSVAFAGDSDLGM  473 (594)
T ss_dssp             HCTTCCEEEEEESSTTCCCTTTCCCTHHHHHHHHHHCTTCCEEECCSSC-CHHHHHHHHHHCTTCCEEEEESCCSSHHHH
T ss_pred             hCCCcceeEeecccCCCcccccCCchhhHHHHHHhhCCCccEEeecCcc-cHHHHHHHHHhchhccEeeccCCCCcHHHH
Confidence            478899999872     222221000       1112345566665422 333344444435889999998875222111


Q ss_pred             ccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc
Q 041360          473 HELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       473 ~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      ..+  ..++++|++|++++|+. ......   .....+++|+.|.+.+|+.
T Consensus       474 ~~l--~~~~~~L~~L~L~~n~~-~~~~~~---~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          474 HHV--LSGCDSLRKLEIRDCPF-GDKALL---ANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             HHH--HHHCTTCCEEEEESCSC-CHHHHH---HTGGGGGGSSEEEEESSCC
T ss_pred             HHH--HhcCCCcCEEECcCCCC-cHHHHH---HHHHhCCCCCEEeeeCCCC
Confidence            111  24589999999999875 432210   1224689999999999986

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.32  E-value=6.5e-12  Score=113.67  Aligned_cols=125  Identities=18%  Similarity=0.261  Sum_probs=105.0

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHH-HHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDL-FFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGG  303 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~-~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~  303 (561)
                      +.++++++.++.+|..+ ..++++|+++++.  +..++.. +|+++++|++|++++|.++.+ |..+..+.+|++|+|++
T Consensus        11 ~~l~~s~~~l~~ip~~~-~~~l~~L~l~~n~--i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNE--LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCC--CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCC-CCCCCEEECCCCc--CCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            57888999999898765 3489999999997  6666653 468999999999999999997 77899999999999999


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      |.++. + ..+..+++|++|++++|.+..++.             ..++.+++|++|++++|...
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMP-------------GSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECT-------------TSSTTCTTCCEEECTTCCBC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCCeeCH-------------HHhhcCCCCCEEEeCCCCcc
Confidence            99988 4 668999999999999998876532             23678889999999998764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.32  E-value=1.3e-11  Score=110.12  Aligned_cols=125  Identities=16%  Similarity=0.311  Sum_probs=104.8

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l~~~  304 (561)
                      +.+++.++.+..+|..+ .++|+.|+++++.  +..++...|+++++|++|++++|.++.+|.. +..+.+|++|++++|
T Consensus        10 ~~l~~~~~~l~~~p~~~-~~~l~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A           10 TEIRCNSKGLTSVPTGI-PSSATRLELESNK--LQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             TEEECCSSCCSSCCTTC-CTTCSEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEecCCCCccCCCCC-CCCCcEEEeCCCc--ccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCC
Confidence            56778888888888554 4789999999997  6778877778999999999999999998764 689999999999999


Q ss_pred             CCCC-c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          305 RLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       305 ~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      .++. | ..++.+++|++|++++|.+..+|.+             .+..+++|++|++++|...
T Consensus        87 ~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~-------------~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           87 KLQSLPNGVFDKLTQLKELALDTNQLKSVPDG-------------IFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCSCCCTT-------------TTTTCTTCCEEECCSSCBC
T ss_pred             CccccCHHHhhCCcccCEEECcCCcceEeCHH-------------HhcCCcccCEEEecCCCee
Confidence            9988 5 4578999999999999988776643             2577889999999998764

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.30  E-value=4.6e-12  Score=112.97  Aligned_cols=129  Identities=16%  Similarity=0.094  Sum_probs=104.9

Q ss_pred             CCceEEEccCCCccccCCccCCC-CccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhh-cCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPERLQCP-NLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSL-GRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~-~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i-~~L~~L~~L~  300 (561)
                      .+++.+++++|.+..++....+. +|+.|++++|.  +..++ . |+++++|++|++++|.+..+|+.+ ..+++|++|+
T Consensus        19 ~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~--l~~~~-~-l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~   94 (176)
T 1a9n_A           19 VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE--IRKLD-G-FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   94 (176)
T ss_dssp             TSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC--CCEEC-C-CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             CCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCC--CCccc-c-cccCCCCCEEECCCCcccccCcchhhcCCCCCEEE
Confidence            67899999999998886655554 99999999997  65663 2 589999999999999999988665 8999999999


Q ss_pred             eCCCCCCC-cc--cccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          301 LGGCRLKD-IA--IVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       301 l~~~~l~~-p~--~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +++|.+.. |.  .++.+++|++|++++|.+..+|..-          ...++.+++|+.|++++|..
T Consensus        95 L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~----------~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           95 LTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYR----------LYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             CCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTTHH----------HHHHHHCTTCSEETTEECCH
T ss_pred             CCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHhHH----------HHHHHHCCccceeCCCcCCH
Confidence            99999988 65  7899999999999999887766431          01267788888998887754

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.27  E-value=3.2e-12  Score=113.97  Aligned_cols=138  Identities=14%  Similarity=0.091  Sum_probs=102.8

Q ss_pred             CCccCCCCccEEEeeccCCCCccccHHHHcCCC-CccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccc-cCC
Q 041360          239 PERLQCPNLELFLLFRKGYGSMQISDLFFEGTE-EVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIV-GQL  315 (561)
Q Consensus       239 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~-~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i-~~L  315 (561)
                      +....+++|+.|+++++.  +..++. + ..+. +|++|++++|.++.+ +.++.+++|++|++++|.++. |+.+ +.+
T Consensus        13 ~~~~~~~~L~~L~l~~n~--l~~i~~-~-~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l   87 (176)
T 1a9n_A           13 AQYTNAVRDRELDLRGYK--IPVIEN-L-GATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQAL   87 (176)
T ss_dssp             CEEECTTSCEEEECTTSC--CCSCCC-G-GGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHC
T ss_pred             HhcCCcCCceEEEeeCCC--CchhHH-h-hhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcC
Confidence            334478889999999987  666654 3 4444 999999999998887 678889999999999999888 6444 889


Q ss_pred             CCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeec
Q 041360          316 KKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVR  395 (561)
Q Consensus       316 ~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  395 (561)
                      ++|++|++++|.+..+|.-            ..++.+++|+.|++++|.... .+.    .....+..+++|+.|+++.+
T Consensus        88 ~~L~~L~L~~N~i~~~~~~------------~~l~~l~~L~~L~l~~N~i~~-~~~----~~~~~~~~l~~L~~Ld~~~n  150 (176)
T 1a9n_A           88 PDLTELILTNNSLVELGDL------------DPLASLKSLTYLCILRNPVTN-KKH----YRLYVIYKVPQVRVLDFQKV  150 (176)
T ss_dssp             TTCCEEECCSCCCCCGGGG------------GGGGGCTTCCEEECCSSGGGG-STT----HHHHHHHHCTTCSEETTEEC
T ss_pred             CCCCEEECCCCcCCcchhh------------HhhhcCCCCCEEEecCCCCCC-cHh----HHHHHHHHCCccceeCCCcC
Confidence            9999999999988766630            126778889999999887642 110    11224677888888888876


Q ss_pred             cCc
Q 041360          396 DAQ  398 (561)
Q Consensus       396 ~~~  398 (561)
                      ...
T Consensus       151 ~~~  153 (176)
T 1a9n_A          151 KLK  153 (176)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            543

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.26  E-value=5.5e-12  Score=109.07  Aligned_cols=129  Identities=21%  Similarity=0.207  Sum_probs=86.3

Q ss_pred             CCCccEEEeeccCCCCc--cccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCc
Q 041360          244 CPNLELFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLE  319 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~  319 (561)
                      .++|+.|+++++.  +.  .+|.. ++.+++|++|++++|.+..+ ..++.+++|++|++++|.+..  |..++.+++|+
T Consensus        16 ~~~l~~L~l~~n~--l~~~~~~~~-~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           16 PSDVKELVLDNSR--SNEGKLEGL-TDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             GGGCSEEECTTCB--CBTTBCCSC-CTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             CccCeEEEccCCc--CChhHHHHH-HhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            4677888888876  43  66654 37788888888888887777 667778888888888888776  45556678888


Q ss_pred             EEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEe
Q 041360          320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ  393 (561)
Q Consensus       320 ~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  393 (561)
                      +|++++|.+..+|.            ...++.+++|++|++++|.......     .....+..+++|+.|+++
T Consensus        92 ~L~ls~N~i~~~~~------------~~~~~~l~~L~~L~l~~N~l~~~~~-----~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           92 HLNLSGNKIKDLST------------IEPLKKLENLKSLDLFNCEVTNLND-----YRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EEECTTSCCCSHHH------------HGGGGGCTTCCEEECTTCGGGGSTT-----HHHHHHHHCTTCCEETTB
T ss_pred             EEECCCCcCCChHH------------HHHHhhCCCCCEEeCcCCcccchHH-----HHHHHHHHCCCcccccCC
Confidence            88888887765531            0125677778888887775431111     011346666777776553

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.26  E-value=1.1e-11  Score=112.21  Aligned_cols=125  Identities=18%  Similarity=0.189  Sum_probs=95.2

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh--hcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEc
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS--LGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSF  323 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~--i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l  323 (561)
                      ++++++++.  +..+|..++   .+|++|++++|.+..++..  ++.+++|++|++++|.++.  |..++.+++|++|++
T Consensus        11 ~~l~~s~~~--l~~ip~~~~---~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDCTGRG--LKEIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEECTTSC--CSSCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEcCCCC--cCcCccCCC---CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEEC
Confidence            678888876  677887542   3888999999988888753  7888899999999988887  578888899999999


Q ss_pred             cCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCc
Q 041360          324 RDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQ  398 (561)
Q Consensus       324 ~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  398 (561)
                      ++|.+..+|.             ..++++++|++|++++|.+....+        ..+..+++|+.|+++.|.+.
T Consensus        86 s~N~l~~~~~-------------~~~~~l~~L~~L~L~~N~l~~~~~--------~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           86 GENKIKEISN-------------KMFLGLHQLKTLNLYDNQISCVMP--------GSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CSCCCCEECS-------------SSSTTCTTCCEEECCSSCCCEECT--------TSSTTCTTCCEEECTTCCBC
T ss_pred             CCCcCCccCH-------------HHhcCCCCCCEEECCCCcCCeeCH--------HHhhcCCCCCEEEeCCCCcc
Confidence            8888776543             236778888888888887653333        45667778888888777654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.25  E-value=2.3e-11  Score=108.05  Aligned_cols=113  Identities=14%  Similarity=0.207  Sum_probs=95.3

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l~~~  304 (561)
                      +.++++++.+..+|..+. ++|+.|+++++.  +..++...|+++++|++|+|++|.++.+|.. +..+++|++|+|++|
T Consensus        15 ~~l~~~~n~l~~iP~~~~-~~L~~L~Ls~N~--l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N   91 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP-TDKQRLWLNNNQ--ITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDN   91 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC-TTCSEEECCSSC--CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             cEEEeCCCCCCccCCCcC-CCCcEEEeCCCC--ccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCC
Confidence            578888889988888664 889999999997  7777666678999999999999999999876 578999999999999


Q ss_pred             CCCC-cc-cccCCCCCcEEEccCCcCcccChhhhccccc
Q 041360          305 RLKD-IA-IVGQLKKLEILSFRDSYIEELPHEIGQLTRL  341 (561)
Q Consensus       305 ~l~~-p~-~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L  341 (561)
                      .++. |+ .+..+++|++|++++|.+...|..+..+...
T Consensus        92 ~l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~~~~~l~~~  130 (174)
T 2r9u_A           92 HLKSIPRGAFDNLKSLTHIYLYNNPWDCECRDIMYLRNW  130 (174)
T ss_dssp             CCCCCCTTTTTTCTTCSEEECCSSCBCTTBGGGHHHHHH
T ss_pred             ccceeCHHHhccccCCCEEEeCCCCcccccccHHHHHHH
Confidence            9988 54 4899999999999999888888766665543

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.24  E-value=4.4e-11  Score=108.17  Aligned_cols=124  Identities=18%  Similarity=0.200  Sum_probs=95.4

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccC
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRD  325 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~  325 (561)
                      ++++++++.  +..+|..+   ..+|++|++++|.++.+|..+..+.+|++|++++|.++.  +..+..+++|++|++++
T Consensus        13 ~~l~~~~~~--l~~ip~~~---~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           13 TVVRCSNKG--LKVLPKGI---PRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEECTTSC--CSSCCSCC---CTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCC--CCcCCCCC---CCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            567777776  77788654   367899999999998888889999999999999999888  46788999999999999


Q ss_pred             CcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccC
Q 041360          326 SYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDA  397 (561)
Q Consensus       326 ~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  397 (561)
                      |.+..+|.             ..++++++|++|++++|.+.....        ..+..+++|+.|+++.|.+
T Consensus        88 N~l~~i~~-------------~~f~~l~~L~~L~L~~N~l~~~~~--------~~~~~l~~L~~L~L~~N~~  138 (193)
T 2wfh_A           88 NRLRCIPP-------------RTFDGLKSLRLLSLHGNDISVVPE--------GAFNDLSALSHLAIGANPL  138 (193)
T ss_dssp             SCCCBCCT-------------TTTTTCTTCCEEECCSSCCCBCCT--------TTTTTCTTCCEEECCSSCE
T ss_pred             CccCEeCH-------------HHhCCCCCCCEEECCCCCCCeeCh--------hhhhcCccccEEEeCCCCe
Confidence            88776653             236788888888888887642222        3466677888888876654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.22  E-value=1.4e-11  Score=134.56  Aligned_cols=111  Identities=19%  Similarity=0.223  Sum_probs=49.1

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEee-----ccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCC
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLF-----RKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNL  296 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~-----~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L  296 (561)
                      ..++++++..+.+...+... ....|+.+.+.     .+.  +. ++...|..+..|++|+|++|.+..+|..+..+.+|
T Consensus       173 ~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~--~~-~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L  249 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENR--MV-MPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFL  249 (727)
T ss_dssp             ----------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSC
T ss_pred             CccceEEeeCCCCCcchhhHhhcCccCcccccCccccccc--ee-cChhhhccCCCCcEEECCCCCCCCCChhhcCCCCC
Confidence            45666777666665544332 22233333222     221  22 33444567777777777777777777777777777


Q ss_pred             cEEEeCCCCCCC-cccccCCCCCcEEEccCCcCcccChhhh
Q 041360          297 QTLCLGGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIG  336 (561)
Q Consensus       297 ~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~  336 (561)
                      ++|+|++|.++. |..+++|++|++|++++|.+..+|.+++
T Consensus       250 ~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~  290 (727)
T 4b8c_D          250 TRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG  290 (727)
T ss_dssp             SCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGG
T ss_pred             CEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhc
Confidence            777777777766 6677777777777777777666665443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.21  E-value=4.6e-11  Score=126.32  Aligned_cols=119  Identities=22%  Similarity=0.270  Sum_probs=98.9

Q ss_pred             CccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhc
Q 041360          272 EVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLIS  350 (561)
Q Consensus       272 ~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~  350 (561)
                      .|++|++++|.++.+|. ++.+.+|++|+|++|.++. |..++.+++|++|++++|.+..+| .              ++
T Consensus       442 ~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~--------------l~  505 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-G--------------VA  505 (567)
T ss_dssp             TCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-G--------------GT
T ss_pred             CceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-c--------------cC
Confidence            58999999999999987 9999999999999999888 899999999999999999887665 2              67


Q ss_pred             CCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc-----ccccccEEE
Q 041360          351 KFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL-----VLVELQRYK  413 (561)
Q Consensus       351 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-----~~~~L~~L~  413 (561)
                      ++++|++|++++|.+....       .+..++.+++|+.|+++.|.++..|...     .+++|+.|+
T Consensus       506 ~l~~L~~L~Ls~N~l~~~~-------~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          506 NLPRLQELLLCNNRLQQSA-------AIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             TCSSCCEEECCSSCCCSSS-------TTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCCcEEECCCCCCCCCC-------CcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence            8889999999998764322       0367888999999999999988776543     478888775

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.19  E-value=4.6e-11  Score=126.32  Aligned_cols=107  Identities=19%  Similarity=0.223  Sum_probs=82.2

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEcc
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFR  324 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~  324 (561)
                      ..|+.|+++++.  +..+|.  |+++++|++|++++|.++.+|..++.+++|++|+|++|.++.++.++.+++|++|+++
T Consensus       441 ~~L~~L~Ls~n~--l~~lp~--~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~l~~l~~L~~L~Ls  516 (567)
T 1dce_A          441 ADVRVLHLAHKD--LTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLC  516 (567)
T ss_dssp             TTCSEEECTTSC--CSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECC
T ss_pred             cCceEEEecCCC--CCCCcC--ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCcccCCCCCCcEEECC
Confidence            357888888886  666776  5788888888888888888888888888888888888888873378888888888888


Q ss_pred             CCcCccc--ChhhhccccccccCchhhcCCCCCcEEEccCCcccccc
Q 041360          325 DSYIEEL--PHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDK  369 (561)
Q Consensus       325 ~~~~~~l--p~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~  369 (561)
                      +|.+..+  |..              ++++++|+.|++++|.+....
T Consensus       517 ~N~l~~~~~p~~--------------l~~l~~L~~L~L~~N~l~~~~  549 (567)
T 1dce_A          517 NNRLQQSAAIQP--------------LVSCPRLVLLNLQGNSLCQEE  549 (567)
T ss_dssp             SSCCCSSSTTGG--------------GGGCTTCCEEECTTSGGGGSS
T ss_pred             CCCCCCCCCcHH--------------HhcCCCCCEEEecCCcCCCCc
Confidence            8877665  332              567777888888887765443

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.18  E-value=2.8e-11  Score=132.07  Aligned_cols=87  Identities=26%  Similarity=0.302  Sum_probs=46.6

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEIL  321 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L  321 (561)
                      .+++|+.|+++++.  +..+|..+| ++++|++|+|++|.+..+|.+++.|.+|++|+|++|.++. |..+++|.+|++|
T Consensus       222 ~l~~L~~L~Ls~n~--l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L  298 (727)
T 4b8c_D          222 DDQLWHALDLSNLQ--IFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF  298 (727)
T ss_dssp             CCCCCCEEECTTSC--CSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEE
T ss_pred             cCCCCcEEECCCCC--CCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEE
Confidence            44555555555554  345554442 5555555555555555555555555555555555555555 5555555555555


Q ss_pred             EccCCcCcccC
Q 041360          322 SFRDSYIEELP  332 (561)
Q Consensus       322 ~l~~~~~~~lp  332 (561)
                      ++++|.+..+|
T Consensus       299 ~L~~N~l~~lp  309 (727)
T 4b8c_D          299 YFFDNMVTTLP  309 (727)
T ss_dssp             ECCSSCCCCCC
T ss_pred             ECCCCCCCccC
Confidence            55555544444

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.17  E-value=1e-10  Score=103.49  Aligned_cols=111  Identities=16%  Similarity=0.267  Sum_probs=90.1

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEEEeCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTLCLGG  303 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L~l~~  303 (561)
                      .+.++++++.+..+|..+ .++|+.|+++++.  +..++...|+++++|++|++++|.++.+|+. +..+++|++|+|++
T Consensus        11 ~~~l~~s~n~l~~ip~~~-~~~l~~L~L~~N~--i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI-PTTTQVLYLYDNQ--ITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEECCSSC--CCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEeCCCCcCccCccC-CCCCcEEEcCCCc--CCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            357888888888888766 4889999999997  7777666668999999999999999998765 57899999999999


Q ss_pred             CCCCC-c-ccccCCCCCcEEEccCCcCcccChhhhcc
Q 041360          304 CRLKD-I-AIVGQLKKLEILSFRDSYIEELPHEIGQL  338 (561)
Q Consensus       304 ~~l~~-p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L  338 (561)
                      |.++. + ..+..+++|++|++++|.+...+..+..+
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~~l~~l  124 (170)
T 3g39_A           88 NQLKSIPRGAFDNLKSLTHIWLLNNPWDCACSDILYL  124 (170)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCBCTTBGGGHHH
T ss_pred             CccCEeCHHHhcCCCCCCEEEeCCCCCCCCchhHHHH
Confidence            99888 5 45889999999999998777665544433

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.13  E-value=1.9e-10  Score=102.44  Aligned_cols=113  Identities=20%  Similarity=0.296  Sum_probs=98.1

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchh-hcCCCCCcEE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSS-LGRLFNLQTL  299 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~-i~~L~~L~~L  299 (561)
                      .+++++++++|.+..++...  .+++|++|+++++.  +..++...|+.+++|++|++++|.++.+|.. +..+++|++|
T Consensus        28 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~--l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L  105 (177)
T 2o6r_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQ--IQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKEL  105 (177)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSC--CCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCc--ceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEE
Confidence            68999999999998888754  78999999999997  7788887779999999999999999998765 6899999999


Q ss_pred             EeCCCCCCC-cc-cccCCCCCcEEEccCCcCcccChhhhc
Q 041360          300 CLGGCRLKD-IA-IVGQLKKLEILSFRDSYIEELPHEIGQ  337 (561)
Q Consensus       300 ~l~~~~l~~-p~-~i~~L~~L~~L~l~~~~~~~lp~~i~~  337 (561)
                      ++++|.++. |. .+..+++|++|++++|.+...+..+..
T Consensus       106 ~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~~l~~  145 (177)
T 2o6r_A          106 ALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDY  145 (177)
T ss_dssp             ECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCHHHHHH
T ss_pred             ECcCCcceEeCHHHhcCCcccCEEEecCCCeeccCccHHH
Confidence            999999988 64 468899999999999987765544443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.03  E-value=2e-11  Score=111.00  Aligned_cols=107  Identities=16%  Similarity=0.204  Sum_probs=53.4

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      .+++|++|+++++.  +..+| . ++++++|++|++++|.+..+|..+..+++|++|++++|.+..++.++.+++|++|+
T Consensus        46 ~l~~L~~L~ls~n~--l~~l~-~-~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~~~~~l~~L~~L~  121 (198)
T 1ds9_A           46 TLKACKHLALSTNN--IEKIS-S-LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCSEEECSEEE--ESCCC-C-HHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHHHHHHHHHSSEEE
T ss_pred             cCCCCCEEECCCCC--Ccccc-c-cccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCCccccCCCCCEEE
Confidence            45555555555554  33444 2 34555555555555555555555555555555555555555522455555555555


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +++|.+..+|.-            ..+..+++|++|++++|..
T Consensus       122 l~~N~i~~~~~~------------~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          122 MSNNKITNWGEI------------DKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             ESEEECCCHHHH------------HHHTTTTTCSEEEECSCHH
T ss_pred             CCCCcCCchhHH------------HHHhcCCCCCEEEecCCcc
Confidence            555544433210            1144555555555555543

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.03  E-value=6.8e-10  Score=98.08  Aligned_cols=102  Identities=19%  Similarity=0.245  Sum_probs=84.4

Q ss_pred             ccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCCCCC-c-ccccCCCCCcEEEc
Q 041360          247 LELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKD-I-AIVGQLKKLEILSF  323 (561)
Q Consensus       247 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l  323 (561)
                      .++++++++.  +..+|..+   .++|++|++++|.++.+ |..+..+.+|++|+|++|+++. | ..+..+++|++|++
T Consensus        11 ~~~l~~s~n~--l~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L   85 (170)
T 3g39_A           11 GTTVDCSGKS--LASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSL   85 (170)
T ss_dssp             TTEEECTTSC--CSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCEEEeCCCC--cCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEEC
Confidence            4678888887  77888754   38899999999999998 6678999999999999999888 5 45689999999999


Q ss_pred             cCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          324 RDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       324 ~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      ++|.+..+|.+             .+.++++|++|++++|...
T Consensus        86 ~~N~l~~~~~~-------------~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           86 NDNQLKSIPRG-------------AFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             CSSCCCCCCTT-------------TTTTCTTCCEEECCSSCBC
T ss_pred             CCCccCEeCHH-------------HhcCCCCCCEEEeCCCCCC
Confidence            99988776642             3678888999999988664

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.99  E-value=1.8e-09  Score=95.73  Aligned_cols=101  Identities=18%  Similarity=0.291  Sum_probs=66.4

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCCCCC-cc-cccCCCCCcEEEcc
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCRLKD-IA-IVGQLKKLEILSFR  324 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~l~~-p~-~i~~L~~L~~L~l~  324 (561)
                      +.++++++.  +..+|..+   ..+|++|++++|.+..+ |..+..+.+|++|+|++|+++. |. .+.++++|++|+++
T Consensus        15 ~~l~~~~n~--l~~iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~   89 (174)
T 2r9u_A           15 TLVNCQNIR--LASVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLN   89 (174)
T ss_dssp             SEEECCSSC--CSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             cEEEeCCCC--CCccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECC
Confidence            566666665  56666644   26777777777777776 4566777777777777777776 43 35677777777777


Q ss_pred             CCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          325 DSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       325 ~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      +|.+..+|.+             .+.++++|++|++++|...
T Consensus        90 ~N~l~~l~~~-------------~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           90 DNHLKSIPRG-------------AFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             SSCCCCCCTT-------------TTTTCTTCSEEECCSSCBC
T ss_pred             CCccceeCHH-------------HhccccCCCEEEeCCCCcc
Confidence            7766655432             2556666777777766543

>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=98.86  E-value=9.3e-11  Score=106.60  Aligned_cols=130  Identities=18%  Similarity=0.214  Sum_probs=104.4

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++++|.+..+|....+++|+.|++++|.  +..+|..+ ..+++|++|++++|.+..+| .+..+++|++|+++
T Consensus        48 ~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~--l~~l~~~~-~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~l~  123 (198)
T 1ds9_A           48 KACKHLALSTNNIEKISSLSGMENLRILSLGRNL--IKKIENLD-AVADTLEELWISYNQIASLS-GIEKLVNLRVLYMS  123 (198)
T ss_dssp             TTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEE--ECSCSSHH-HHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEEES
T ss_pred             CCCCEEECCCCCCccccccccCCCCCEEECCCCC--cccccchh-hcCCcCCEEECcCCcCCcCC-ccccCCCCCEEECC
Confidence            6899999999999888833388999999999997  66888754 77899999999999999987 68999999999999


Q ss_pred             CCCCCC-c--ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEE
Q 041360          303 GCRLKD-I--AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELY  359 (561)
Q Consensus       303 ~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~  359 (561)
                      +|.+.. +  ..+..+++|++|++++|.+...+..-.   .........+..+++|+.|+
T Consensus       124 ~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~---~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          124 NNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENN---ATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTT---THHHHHHHHHHHCSSCSEEC
T ss_pred             CCcCCchhHHHHHhcCCCCCEEEecCCcccccccccc---chHHHHHHHHHhCCCcEEEC
Confidence            999988 4  479999999999999997765432100   00111223467888899887

>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=98.77  E-value=2.1e-08  Score=98.77  Aligned_cols=57  Identities=21%  Similarity=0.257  Sum_probs=42.7

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCC
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGG  303 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~  303 (561)
                      +++|+.+.+.. .  +..++...|.+|.+|+.|+++++.+..++ ..+..+.++.++.+..
T Consensus       100 ~~~L~~l~L~~-~--i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~  157 (329)
T 3sb4_A          100 KQTLEKVILSE-K--IKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGS  157 (329)
T ss_dssp             CTTCCC-CBCT-T--CCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTC
T ss_pred             cCCCcEEECCc-c--ccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcc
Confidence            88999999988 5  77788888899999999999998877654 3555666666665544

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.71  E-value=3.8e-08  Score=97.71  Aligned_cols=102  Identities=14%  Similarity=0.067  Sum_probs=82.2

Q ss_pred             EEEccCC-CccccCCcc-CCCCccEEEeec-cCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeC
Q 041360          227 AISLPHR-DIQELPERL-QCPNLELFLLFR-KGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLG  302 (561)
Q Consensus       227 ~l~l~~~-~~~~l~~~~-~~~~L~~L~l~~-~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~  302 (561)
                      .++.+++ .+..+|. + .+++|+.|++++ +.  +..++...|+++.+|++|+|++|.+..+| ..+..|.+|++|+|+
T Consensus        12 ~v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~--l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH-LPGAENLTELYIENQQH--LQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             CEECCSSCCCTTTTT-SCSCSCCSEEECCSCSS--CCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             EEEcCCCCCCCccCC-CCCCCCeeEEEccCCCC--CCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            3566666 7888888 6 778899999996 75  78888777799999999999999999875 467999999999999


Q ss_pred             CCCCCC-cccccCCCCCcEEEccCCcCccc
Q 041360          303 GCRLKD-IAIVGQLKKLEILSFRDSYIEEL  331 (561)
Q Consensus       303 ~~~l~~-p~~i~~L~~L~~L~l~~~~~~~l  331 (561)
                      +|.+.. |+.+....+|++|++.+|.+...
T Consensus        89 ~N~l~~~~~~~~~~~~L~~l~l~~N~~~c~  118 (347)
T 2ifg_A           89 FNALESLSWKTVQGLSLQELVLSGNPLHCS  118 (347)
T ss_dssp             SSCCSCCCSTTTCSCCCCEEECCSSCCCCC
T ss_pred             CCccceeCHHHcccCCceEEEeeCCCccCC
Confidence            999888 64443333499999999877644

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.70  E-value=3.3e-08  Score=98.16  Aligned_cols=100  Identities=18%  Similarity=0.184  Sum_probs=83.6

Q ss_pred             EEEeecc-CCCCccccHHHHcCCCCccEEEecC-CCCCCCc-hhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEc
Q 041360          249 LFLLFRK-GYGSMQISDLFFEGTEEVKVLSLTG-VRFSSLP-SSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSF  323 (561)
Q Consensus       249 ~L~l~~~-~~~~~~~~~~~~~~l~~Lr~L~l~~-~~i~~lp-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l  323 (561)
                      .++.+++ .  +..+|.  ++.+.+|++|+|++ |.+..+| ..++.|.+|++|+|++|.++.  |..+++|++|++|+|
T Consensus        12 ~v~~~~~n~--l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l   87 (347)
T 2ifg_A           12 GLRCTRDGA--LDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNL   87 (347)
T ss_dssp             CEECCSSCC--CTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEEC
T ss_pred             EEEcCCCCC--CCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeC
Confidence            4566666 4  778998  59999999999996 9999987 579999999999999999998  467899999999999


Q ss_pred             cCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          324 RDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       324 ~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      ++|.+..+|.++             +..++ |+.|++.+|.+.
T Consensus        88 ~~N~l~~~~~~~-------------~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           88 SFNALESLSWKT-------------VQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             CSSCCSCCCSTT-------------TCSCC-CCEEECCSSCCC
T ss_pred             CCCccceeCHHH-------------cccCC-ceEEEeeCCCcc
Confidence            999988877543             33444 889999888654

>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=98.58  E-value=9.1e-08  Score=94.16  Aligned_cols=199  Identities=10%  Similarity=0.086  Sum_probs=107.8

Q ss_pred             cccHHHHcC--------CCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEEccCCc--
Q 041360          261 QISDLFFEG--------TEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILSFRDSY--  327 (561)
Q Consensus       261 ~~~~~~~~~--------l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~--  327 (561)
                      .+|...|.+        +.+|+.|++.+ .++.+++ .+..+.+|++|++.++.+..  +..+..+.++..+......  
T Consensus        83 ~I~~~aF~~~~~~~~~g~~~L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~  161 (329)
T 3sb4_A           83 FVPAYAFSNVVNGVTKGKQTLEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAY  161 (329)
T ss_dssp             EECTTTTEEEETTEEEECTTCCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHH
T ss_pred             ccCHHHhcccccccccccCCCcEEECCc-cccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhh
Confidence            455666667        77777777777 7777643 56777777777777777655  3556666666655554321  


Q ss_pred             --CcccC-hhhhcccccc---------ccCchhh---cCCCCCcEEEccCCcccccccCCCcccchHhhc-CCCCCcEEE
Q 041360          328 --IEELP-HEIGQLTRLV---------VIAPNLI---SKFSQLEELYMGDSFSQWDKVEGGSNASLAELK-GLSKLTTLE  391 (561)
Q Consensus       328 --~~~lp-~~i~~L~~L~---------~l~~~~i---~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~-~l~~L~~L~  391 (561)
                        ...+. ..+.....|+         .++....   ....+++.+.+.+....         .....+. .+++|+.|+
T Consensus       162 ~~~~~i~~~~f~~~~~L~~~i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~---------~~~~~l~~~~~~L~~l~  232 (329)
T 3sb4_A          162 RFKNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDN---------ADFKLIRDYMPNLVSLD  232 (329)
T ss_dssp             HTSTTTTTSCEEESCCCEEEEEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCH---------HHHHHHHHHCTTCCEEE
T ss_pred             hccccccccccccccccceeEEecCCCcHHHHHhhcccCccccceEEEeeeecH---------HHHHHHHHhcCCCeEEE
Confidence              01110 0011111111         1111100   12333444444332111         1112222 378999999


Q ss_pred             EeeccCcccCccc--ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhcccc-ceeeccccCc
Q 041360          392 IQVRDAQILPQDL--VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAE-EIHLNELKGV  468 (561)
Q Consensus       392 l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~-~L~l~~~~~~  468 (561)
                      ++.|.+..++...  .+.+|+.+.+...  +            ..+          ....|..+ ++|+ .+.+.+  .+
T Consensus       233 L~~n~i~~I~~~aF~~~~~L~~l~l~~n--i------------~~I----------~~~aF~~~-~~L~~~l~l~~--~l  285 (329)
T 3sb4_A          233 ISKTNATTIPDFTFAQKKYLLKIKLPHN--L------------KTI----------GQRVFSNC-GRLAGTLELPA--SV  285 (329)
T ss_dssp             CTTBCCCEECTTTTTTCTTCCEEECCTT--C------------CEE----------CTTTTTTC-TTCCEEEEECT--TC
T ss_pred             CCCCCcceecHhhhhCCCCCCEEECCcc--c------------cee----------hHHHhhCC-hhccEEEEEcc--cc
Confidence            9988888888764  6778888876211  1            111          12223333 6777 888875  56


Q ss_pred             ccccccccCCCCCCCccEEEEecCCccchhh
Q 041360          469 QNAVHELDDGEGFPRLKHLRVESCSEILHIV  499 (561)
Q Consensus       469 ~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~  499 (561)
                      +.++...  ..++++|+.+++.. ++++.++
T Consensus       286 ~~I~~~a--F~~c~~L~~l~l~~-n~i~~I~  313 (329)
T 3sb4_A          286 TAIEFGA--FMGCDNLRYVLATG-DKITTLG  313 (329)
T ss_dssp             CEECTTT--TTTCTTEEEEEECS-SCCCEEC
T ss_pred             eEEchhh--hhCCccCCEEEeCC-CccCccc
Confidence            6665433  24678888888866 5666665

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.54  E-value=9e-09  Score=102.89  Aligned_cols=163  Identities=13%  Similarity=0.029  Sum_probs=110.4

Q ss_pred             CCceEEEccCCCccccC-----Ccc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-----chhh
Q 041360          223 KGPIAISLPHRDIQELP-----ERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-----PSSL  290 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~-----~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-----p~~i  290 (561)
                      +.++.+++++|.+....     ..+  ..++|+.|++++|. ........++..+++|++|+|++|.+...     ...+
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L  150 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQ-LDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLL  150 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCC-CCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCC-CCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHH
Confidence            67889999998885322     222  23689999999987 22222333445567899999999988652     2223


Q ss_pred             -cCCCCCcEEEeCCCCCCC------cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCC
Q 041360          291 -GRLFNLQTLCLGGCRLKD------IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDS  363 (561)
Q Consensus       291 -~~L~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~  363 (561)
                       ...++|++|+|++|.+..      +..+...++|++|++++|.+....  +.      .++. .+...++|++|++++|
T Consensus       151 ~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g--~~------~L~~-~L~~~~~L~~L~Ls~N  221 (372)
T 3un9_A          151 LHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEG--LE------LLAA-QLDRNRQLQELNVAYN  221 (372)
T ss_dssp             HSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHH--HH------HHHH-HGGGCSCCCEEECCSS
T ss_pred             HhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHH--HH------HHHH-HHhcCCCcCeEECCCC
Confidence             346789999999998765      244577889999999999865422  11      1111 2566778999999998


Q ss_pred             cccccccCCCcccchHhhcCCCCCcEEEEeeccCcc
Q 041360          364 FSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQI  399 (561)
Q Consensus       364 ~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  399 (561)
                      .+....    ..+....+...++|+.|++++|.+..
T Consensus       222 ~i~~~g----~~~l~~~L~~~~~L~~L~Ls~N~i~~  253 (372)
T 3un9_A          222 GAGDTA----ALALARAAREHPSLELLHLYFNELSS  253 (372)
T ss_dssp             CCCHHH----HHHHHHHHHHCSSCCEEECTTSSCCH
T ss_pred             CCCHHH----HHHHHHHHHhCCCCCEEeccCCCCCH
Confidence            653211    11334556677889999999988764

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.44  E-value=3e-08  Score=99.11  Aligned_cols=157  Identities=11%  Similarity=0.047  Sum_probs=107.0

Q ss_pred             CCCccEEEeeccCCCCccccHHHHc-----CCCCccEEEecCCCCCCC--chhhcCCCCCcEEEeCCCCCCC--cccc--
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFE-----GTEEVKVLSLTGVRFSSL--PSSLGRLFNLQTLCLGGCRLKD--IAIV--  312 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~-----~l~~Lr~L~l~~~~i~~l--p~~i~~L~~L~~L~l~~~~l~~--p~~i--  312 (561)
                      .++|+.|++++|.  +.......+.     ...+|++|+|++|.+..-  ..-...+.+|++|+|++|.+..  ...+  
T Consensus        71 ~~~L~~L~Ls~n~--l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~  148 (372)
T 3un9_A           71 LSSLRQLNLAGVR--MTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRD  148 (372)
T ss_dssp             HTTCCEEECTTSC--CCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHH
T ss_pred             HhhCCEEEecCCC--CCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHH
Confidence            5679999999997  4433222222     337999999999998652  2222345689999999999876  3444  


Q ss_pred             ---cCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcE
Q 041360          313 ---GQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  389 (561)
Q Consensus       313 ---~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  389 (561)
                         ...++|++|++++|.+....  +.      .++. .+...++|++|++++|.+....    .......+...++|+.
T Consensus       149 ~L~~~~~~L~~L~Ls~n~l~~~~--~~------~l~~-~L~~~~~L~~L~Ls~N~l~~~g----~~~L~~~L~~~~~L~~  215 (372)
T 3un9_A          149 LLLHDQCQITTLRLSNNPLTAAG--VA------VLME-GLAGNTSVTHLSLLHTGLGDEG----LELLAAQLDRNRQLQE  215 (372)
T ss_dssp             HHHSTTCCCCEEECCSSCCHHHH--HH------HHHH-HHHTCSSCCEEECTTSSCHHHH----HHHHHHHGGGCSCCCE
T ss_pred             HHHhcCCccceeeCCCCCCChHH--HH------HHHH-HHhcCCCcCEEeCCCCCCCcHH----HHHHHHHHhcCCCcCe
Confidence               34688999999999875422  11      1111 2578889999999999753211    1133456788889999


Q ss_pred             EEEeeccCcccCcc-----c-ccccccEEEEE
Q 041360          390 LEIQVRDAQILPQD-----L-VLVELQRYKIC  415 (561)
Q Consensus       390 L~l~~~~~~~~~~~-----~-~~~~L~~L~l~  415 (561)
                      |++++|.+......     + ..++|+.|++.
T Consensus       216 L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls  247 (372)
T 3un9_A          216 LNVAYNGAGDTAALALARAAREHPSLELLHLY  247 (372)
T ss_dssp             EECCSSCCCHHHHHHHHHHHHHCSSCCEEECT
T ss_pred             EECCCCCCCHHHHHHHHHHHHhCCCCCEEecc
Confidence            99999988643221     1 45778888874

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.36  E-value=2.1e-06  Score=86.62  Aligned_cols=161  Identities=19%  Similarity=0.165  Sum_probs=84.8

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEE
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILS  322 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~  322 (561)
                      .+|+.+.+.. .  +..++...|.+|.+|+.+++.++.++.+|.......+|+.+.+..+ ++.  ...+.++.+|+.++
T Consensus       157 ~~L~~i~lp~-~--l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~  232 (401)
T 4fdw_A          157 STVQEIVFPS-T--LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIE  232 (401)
T ss_dssp             CCCCEEECCT-T--CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEE
T ss_pred             CCceEEEeCC-C--ccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEe
Confidence            3566666654 2  5566666667777777777777777777665555677777777643 444  36677777777777


Q ss_pred             ccCCcCcccChhhh---ccccc------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEe
Q 041360          323 FRDSYIEELPHEIG---QLTRL------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ  393 (561)
Q Consensus       323 l~~~~~~~lp~~i~---~L~~L------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  393 (561)
                      +..+ +..++...-   +|+.+      ..++...+.++++|+.+.+.++.......   ..-....+.++++|+.+.+.
T Consensus       233 l~~~-l~~I~~~aF~~~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~---~~I~~~aF~~c~~L~~l~l~  308 (401)
T 4fdw_A          233 IPEN-VSTIGQEAFRESGITTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDDPE---AMIHPYCLEGCPKLARFEIP  308 (401)
T ss_dssp             CCTT-CCEECTTTTTTCCCSEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCCTT---CEECTTTTTTCTTCCEECCC
T ss_pred             cCCC-ccCccccccccCCccEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCCcc---cEECHHHhhCCccCCeEEeC
Confidence            7553 343332211   11111      33444445556666666655543220000   00001234555566665555


Q ss_pred             eccCcccCccc--ccccccEEEE
Q 041360          394 VRDAQILPQDL--VLVELQRYKI  414 (561)
Q Consensus       394 ~~~~~~~~~~~--~~~~L~~L~l  414 (561)
                       +.+..++...  .+.+|+.+.+
T Consensus       309 -~~i~~I~~~aF~~c~~L~~l~l  330 (401)
T 4fdw_A          309 -ESIRILGQGLLGGNRKVTQLTI  330 (401)
T ss_dssp             -TTCCEECTTTTTTCCSCCEEEE
T ss_pred             -CceEEEhhhhhcCCCCccEEEE
Confidence             3344443332  3455555544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.14  E-value=3e-06  Score=83.92  Aligned_cols=180  Identities=16%  Similarity=0.095  Sum_probs=103.0

Q ss_pred             CCceEEEccCCCcc---------ccCCcc-CCCCccEEEeeccCCC---C-----ccccHHHHcCCCCccEEEecCCCCC
Q 041360          223 KGPIAISLPHRDIQ---------ELPERL-QCPNLELFLLFRKGYG---S-----MQISDLFFEGTEEVKVLSLTGVRFS  284 (561)
Q Consensus       223 ~~l~~l~l~~~~~~---------~l~~~~-~~~~L~~L~l~~~~~~---~-----~~~~~~~~~~l~~Lr~L~l~~~~i~  284 (561)
                      ..++.|.+......         .+.+.. .+++|+.|.+......   +     ..+ ..++..+++|+.|+++++.-.
T Consensus       107 ~~v~~L~lg~~~~~~~~~~~~~~~L~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L-~~ll~~~P~L~~L~L~g~~~l  185 (362)
T 2ra8_A          107 PSLKQITIGXWGYEGEDCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDL-SPVLDAMPLLNNLKIKGTNNL  185 (362)
T ss_dssp             GGCSEEEECCCCSSSCCSHHHHHHHHTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBC-HHHHHTCTTCCEEEEECCBTC
T ss_pred             hhcceEEEcccccCCCcHHHHHHHHHHhhhhcchhhheeecCcchhhcccccccccCH-HHHHhcCCCCcEEEEeCCCCc
Confidence            45667777644332         112222 5688999988654200   1     123 344578899999999887433


Q ss_pred             CCchhhcCCCCCcEEEeCCCCCCC--ccccc--CCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEc
Q 041360          285 SLPSSLGRLFNLQTLCLGGCRLKD--IAIVG--QLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYM  360 (561)
Q Consensus       285 ~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~--~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l  360 (561)
                      .++. + .+++|+.|++..|.+..  ...+.  .+++|++|+++.+.-.....  ..+..+..+..  ...+++|+.|++
T Consensus       186 ~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~--~~~~~l~~~l~--~~~~p~Lr~L~L  259 (362)
T 2ra8_A          186 SIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFD--GDMNVFRPLFS--KDRFPNLKWLGI  259 (362)
T ss_dssp             BCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCC--SCGGGTGGGSC--TTTCTTCCEEEE
T ss_pred             eecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccc--hhHHHHHHHHh--cCCCCCcCEEeC
Confidence            4554 4 38899999999888765  35554  78999999985421000000  00111111111  245788999998


Q ss_pred             cCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc-----Ccc-cccccccEEEE
Q 041360          361 GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL-----PQD-LVLVELQRYKI  414 (561)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-----~~~-~~~~~L~~L~l  414 (561)
                      .+|.......     ..+.+...+++|++|+|+.|.+...     ... ..+++|+.|++
T Consensus       260 ~~~~i~~~~~-----~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L  314 (362)
T 2ra8_A          260 VDAEEQNVVV-----EMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINM  314 (362)
T ss_dssp             ESCTTHHHHH-----HHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEEC
T ss_pred             CCCCCchHHH-----HHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEEC
Confidence            8776532111     1222234577899999988776542     221 24566777666

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.13  E-value=2.3e-05  Score=78.85  Aligned_cols=168  Identities=15%  Similarity=0.132  Sum_probs=83.6

Q ss_pred             ceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEe
Q 041360          225 PIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCL  301 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l  301 (561)
                      ++.+.+.. .+..++...  .|++|+.+.+..+.  +..++...|. +..|+.+.+..+ ++.++ ..+..+.+|+.+.+
T Consensus       159 L~~i~lp~-~l~~I~~~aF~~c~~L~~l~l~~n~--l~~I~~~aF~-~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l  233 (401)
T 4fdw_A          159 VQEIVFPS-TLEQLKEDIFYYCYNLKKADLSKTK--ITKLPASTFV-YAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEI  233 (401)
T ss_dssp             CCEEECCT-TCCEECSSTTTTCTTCCEEECTTSC--CSEECTTTTT-TCCCSEEECCTT-CCEECTTTTTTCTTCCCEEC
T ss_pred             ceEEEeCC-CccEehHHHhhCcccCCeeecCCCc--ceEechhhEe-ecccCEEEeCCc-hheehhhHhhCCCCCCEEec
Confidence            44444443 344443332  55666666665544  4445544443 345555555422 44432 23444445555555


Q ss_pred             CCC---------------------CCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEE
Q 041360          302 GGC---------------------RLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEEL  358 (561)
Q Consensus       302 ~~~---------------------~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L  358 (561)
                      ..+                     .++.  ...+.++.+|+.+++.++.+..-        .+..++...+.++++|+.+
T Consensus       234 ~~~l~~I~~~aF~~~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~--------~~~~I~~~aF~~c~~L~~l  305 (401)
T 4fdw_A          234 PENVSTIGQEAFRESGITTVKLPNGVTNIASRAFYYCPELAEVTTYGSTFNDD--------PEAMIHPYCLEGCPKLARF  305 (401)
T ss_dssp             CTTCCEECTTTTTTCCCSEEEEETTCCEECTTTTTTCTTCCEEEEESSCCCCC--------TTCEECTTTTTTCTTCCEE
T ss_pred             CCCccCccccccccCCccEEEeCCCccEEChhHhhCCCCCCEEEeCCccccCC--------cccEECHHHhhCCccCCeE
Confidence            432                     2222  23444455555555544332200        0013555667788888888


Q ss_pred             EccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEEEe
Q 041360          359 YMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKICI  416 (561)
Q Consensus       359 ~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~  416 (561)
                      .+..+..  .+.       ...+.++++|+.+.+.. .+..++...  .+ +|+.+.+..
T Consensus       306 ~l~~~i~--~I~-------~~aF~~c~~L~~l~lp~-~l~~I~~~aF~~~-~L~~l~l~~  354 (401)
T 4fdw_A          306 EIPESIR--ILG-------QGLLGGNRKVTQLTIPA-NVTQINFSAFNNT-GIKEVKVEG  354 (401)
T ss_dssp             CCCTTCC--EEC-------TTTTTTCCSCCEEEECT-TCCEECTTSSSSS-CCCEEEECC
T ss_pred             EeCCceE--EEh-------hhhhcCCCCccEEEECc-cccEEcHHhCCCC-CCCEEEEcC
Confidence            8774321  111       13567778888888843 344444332  45 788877743

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.02  E-value=8.4e-06  Score=80.69  Aligned_cols=182  Identities=11%  Similarity=0.042  Sum_probs=85.9

Q ss_pred             ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcE
Q 041360          310 AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTT  389 (561)
Q Consensus       310 ~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~  389 (561)
                      ..+.++++|+.|.+.........-++...   ..+. ..+..+++|+.|.+++|... ..         ..+. +++|+.
T Consensus       133 ~s~~~l~~L~~L~l~~~~~e~~~is~~~~---~~L~-~ll~~~P~L~~L~L~g~~~l-~l---------~~~~-~~~L~~  197 (362)
T 2ra8_A          133 ENKEKFAHFEGLFWGDIDFEEQEISWIEQ---VDLS-PVLDAMPLLNNLKIKGTNNL-SI---------GKKP-RPNLKS  197 (362)
T ss_dssp             TTHHHHTTCSEEEECCCCTTTCCGGGCBC---CBCH-HHHHTCTTCCEEEEECCBTC-BC---------CSCB-CTTCSE
T ss_pred             HhhhhcchhhheeecCcchhhcccccccc---cCHH-HHHhcCCCCcEEEEeCCCCc-ee---------cccc-CCCCcE
Confidence            55778889999988664332221111110   1122 23677888888888776211 11         1122 678888


Q ss_pred             EEEeeccCcccC--cc--cccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHH-Hhhccccceeecc
Q 041360          390 LEIQVRDAQILP--QD--LVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMK-MLLKEAEEIHLNE  464 (561)
Q Consensus       390 L~l~~~~~~~~~--~~--~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~-~ll~~L~~L~l~~  464 (561)
                      |.+..+.+..-.  ..  ..+++|+.|+++.+.....  +...              .......+. ..+|+|+.|++.+
T Consensus       198 L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~--~~~~--------------~~~l~~~l~~~~~p~Lr~L~L~~  261 (362)
T 2ra8_A          198 LEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYG--FDGD--------------MNVFRPLFSKDRFPNLKWLGIVD  261 (362)
T ss_dssp             EEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGT--CCSC--------------GGGTGGGSCTTTCTTCCEEEEES
T ss_pred             EEEecCCCChHHHHHHHHccCCCCcEEEEeccccccc--cchh--------------HHHHHHHHhcCCCCCcCEEeCCC
Confidence            888766553211  11  1567777777753221110  0000              000000000 1136777777766


Q ss_pred             ccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc
Q 041360          465 LKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       465 ~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~  523 (561)
                      |.-.......+.....+++|++|+|+. +.+.......-......+++|+.|++.+|.-
T Consensus       262 ~~i~~~~~~~la~a~~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i  319 (362)
T 2ra8_A          262 AEEQNVVVEMFLESDILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYNYL  319 (362)
T ss_dssp             CTTHHHHHHHHHHCSSGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSBBC
T ss_pred             CCCchHHHHHHHhCccCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCCcC
Confidence            543221111111023567777777765 3454421000000113567777777776653

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.82  E-value=1.2e-05  Score=69.90  Aligned_cols=92  Identities=17%  Similarity=0.169  Sum_probs=64.5

Q ss_pred             ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC-CCCC-chhhcCC----CCCcEEEeCCCC-CCC
Q 041360          237 ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR-FSSL-PSSLGRL----FNLQTLCLGGCR-LKD  308 (561)
Q Consensus       237 ~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~-i~~l-p~~i~~L----~~L~~L~l~~~~-l~~  308 (561)
                      .+|... .-.+|+.|++++|. ....-... +.++++|+.|+|++|. ++.- -..++.+    ++|++|+|++|. +++
T Consensus        52 ~LP~~~~~~~~L~~LDLs~~~-Itd~GL~~-L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD  129 (176)
T 3e4g_A           52 HLPTGPLDKYKIQAIDATDSC-IMSIGFDH-MEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTD  129 (176)
T ss_dssp             GSCCCSTTCCCEEEEEEESCC-CCGGGGGG-GTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCH
T ss_pred             cCCcccCCCceEeEEeCcCCC-ccHHHHHH-hcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCH
Confidence            344432 34578899999887 23222333 3789999999999985 5541 2345554    369999999987 887


Q ss_pred             --cccccCCCCCcEEEccCC-cCcc
Q 041360          309 --IAIVGQLKKLEILSFRDS-YIEE  330 (561)
Q Consensus       309 --p~~i~~L~~L~~L~l~~~-~~~~  330 (561)
                        ...+.++++|++|++++| .++.
T Consensus       130 ~Gl~~L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          130 KGIIALHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HHHHHGGGCTTCCEEEEESCTTCCC
T ss_pred             HHHHHHhcCCCCCEEECCCCCCCCc
Confidence              677888999999999998 4543

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.82  E-value=0.00031  Score=70.64  Aligned_cols=74  Identities=14%  Similarity=0.077  Sum_probs=36.6

Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCc---cccccccccccccccCCCCC
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFP---LLESLSLKKASFVILHGQKP  531 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~---~L~~L~l~~c~~~~~~~~~~  531 (561)
                      .+|+.+.+.+  +++.++...  ..++.+|+.+.|.+  +++.+.       ..+|.   +|+.+.+-..-..+...  .
T Consensus       297 ~~L~~i~l~~--~i~~I~~~a--F~~c~~L~~i~lp~--~v~~I~-------~~aF~~c~~L~~i~lp~~l~~I~~~--a  361 (394)
T 4fs7_A          297 SSLTEVKLLD--SVKFIGEEA--FESCTSLVSIDLPY--LVEEIG-------KRSFRGCTSLSNINFPLSLRKIGAN--A  361 (394)
T ss_dssp             TTCCEEEECT--TCCEECTTT--TTTCTTCCEECCCT--TCCEEC-------TTTTTTCTTCCEECCCTTCCEECTT--T
T ss_pred             cccccccccc--ccceechhh--hcCCCCCCEEEeCC--cccEEh-------HHhccCCCCCCEEEECccccEehHH--H
Confidence            5666666642  345554322  23456777777642  344443       34443   45554442211144222  3


Q ss_pred             CCCCCCCcccCC
Q 041360          532 TAASKGPEREKP  543 (561)
Q Consensus       532 ~~~l~~L~~L~i  543 (561)
                      +..+++|+.+++
T Consensus       362 F~~C~~L~~i~l  373 (394)
T 4fs7_A          362 FQGCINLKKVEL  373 (394)
T ss_dssp             BTTCTTCCEEEE
T ss_pred             hhCCCCCCEEEE
Confidence            566677777766

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.81  E-value=1.5e-05  Score=71.02  Aligned_cols=118  Identities=13%  Similarity=0.138  Sum_probs=59.5

Q ss_pred             HcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCcccChh
Q 041360          267 FEGTEEVKVLSLTGV-RFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEELPHE  334 (561)
Q Consensus       267 ~~~l~~Lr~L~l~~~-~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~lp~~  334 (561)
                      +...+.|++|+|++| .+..     +...+....+|++|+|++|.+..  .    ..+...++|++|++++|.+..-  +
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~--g  109 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGS--G  109 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHH--H
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHH--H
Confidence            355566666666666 5543     34445555666666666666543  1    2334445666666666654421  1


Q ss_pred             hhccccccccCchhhcCCCCCcEEEc--cCCcccccccCCCcccchHhhcCCCCCcEEEEeeccC
Q 041360          335 IGQLTRLVVIAPNLISKFSQLEELYM--GDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDA  397 (561)
Q Consensus       335 i~~L~~L~~l~~~~i~~l~~L~~L~l--~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  397 (561)
                      +..+      . ..+...++|++|++  ++|.+....    ..+....+...+.|+.|++++|.+
T Consensus       110 ~~~l------~-~~L~~n~~L~~L~L~~~~N~i~~~g----~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          110 ILAL------V-EALQSNTSLIELRIDNQSQPLGNNV----EMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHH------H-HGGGGCSSCCEEECCCCSSCCCHHH----HHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHH------H-HHHHhCCCceEEEecCCCCCCCHHH----HHHHHHHHHhCCCcCEEeccCCCC
Confidence            1111      0 11444556666666  445432111    112334455556666666666554

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.72  E-value=2.8e-05  Score=73.02  Aligned_cols=86  Identities=26%  Similarity=0.287  Sum_probs=61.4

Q ss_pred             cCCCCccEEEecCCCCCCCc---hhhcCCCCCcEEEeCCCCCCCcccccCCC--CCcEEEccCCcCcc-cChhhhccccc
Q 041360          268 EGTEEVKVLSLTGVRFSSLP---SSLGRLFNLQTLCLGGCRLKDIAIVGQLK--KLEILSFRDSYIEE-LPHEIGQLTRL  341 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~lp---~~i~~L~~L~~L~l~~~~l~~p~~i~~L~--~L~~L~l~~~~~~~-lp~~i~~L~~L  341 (561)
                      .++++|+.|+|++|.+..++   ..+..+++|++|+|++|.++....+..+.  +|++|++++|.+.. +|..-..    
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y----  242 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLCDTFRDQSTY----  242 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGGGGGGTTSCCSEEECTTSTTGGGCSSHHHH----
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchhhhhcccCCcceEEccCCcCccccCcchhH----
Confidence            56889999999999988754   66778999999999999988754455555  89999999997653 3311000    


Q ss_pred             cccCchhhcCCCCCcEEEc
Q 041360          342 VVIAPNLISKFSQLEELYM  360 (561)
Q Consensus       342 ~~l~~~~i~~l~~L~~L~l  360 (561)
                         -...+..+++|+.|+-
T Consensus       243 ---~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          243 ---ISAIRERFPKLLRLDG  258 (267)
T ss_dssp             ---HHHHHHHCTTCCEESS
T ss_pred             ---HHHHHHHCcccCeECC
Confidence               0122567777777773

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.68  E-value=4.4e-05  Score=66.39  Aligned_cols=83  Identities=17%  Similarity=0.280  Sum_probs=56.0

Q ss_pred             CCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCC-CCC--cccccCC----CCCcEEEccCC-cCcccChhhhccccc
Q 041360          271 EEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCR-LKD--IAIVGQL----KKLEILSFRDS-YIEELPHEIGQLTRL  341 (561)
Q Consensus       271 ~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~-l~~--p~~i~~L----~~L~~L~l~~~-~~~~lp~~i~~L~~L  341 (561)
                      ..|+.||+++|.++.- -..+..+++|++|+|++|. +++  ...+..+    ++|++|++++| +++.-  ++      
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~--Gl------  132 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDK--GI------  132 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHH--HH------
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHH--HH------
Confidence            4688888888887652 3456778888888888886 766  5666665    36888888887 34421  11      


Q ss_pred             cccCchhhcCCCCCcEEEccCCccc
Q 041360          342 VVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       342 ~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                           ..+.++++|++|++++|...
T Consensus       133 -----~~L~~~~~L~~L~L~~c~~I  152 (176)
T 3e4g_A          133 -----IALHHFRNLKYLFLSDLPGV  152 (176)
T ss_dssp             -----HHGGGCTTCCEEEEESCTTC
T ss_pred             -----HHHhcCCCCCEEECCCCCCC
Confidence                 11456777777777777544

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.61  E-value=6e-05  Score=66.97  Aligned_cols=111  Identities=16%  Similarity=0.119  Sum_probs=71.1

Q ss_pred             CCCCccEEEeecc-CCCCc-----cccHHHHcCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEeCCCCCCC---
Q 041360          243 QCPNLELFLLFRK-GYGSM-----QISDLFFEGTEEVKVLSLTGVRFSS-----LPSSLGRLFNLQTLCLGGCRLKD---  308 (561)
Q Consensus       243 ~~~~L~~L~l~~~-~~~~~-----~~~~~~~~~l~~Lr~L~l~~~~i~~-----lp~~i~~L~~L~~L~l~~~~l~~---  308 (561)
                      ..+.|++|+++++ .  +.     .+... +...++|++|+|++|.+..     +...+....+|++|+|++|.+..   
T Consensus        34 ~~~~L~~L~L~~n~~--i~~~g~~~l~~~-L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~  110 (185)
T 1io0_A           34 NDPDLEEVNLNNIMN--IPVPTLKACAEA-LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGI  110 (185)
T ss_dssp             TCTTCCEEECTTCTT--CCHHHHHHHHHH-HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHH
T ss_pred             cCCCCCEEEecCCCC--CCHHHHHHHHHH-HHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHH
Confidence            4566777777776 4  22     12222 3567788888888888764     45556666788888888888765   


Q ss_pred             ---cccccCCCCCcEEEc--cCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          309 ---IAIVGQLKKLEILSF--RDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       309 ---p~~i~~L~~L~~L~l--~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                         ...+...++|++|++  ++|.+..-  +...+.       ..+...++|++|++++|..
T Consensus       111 ~~l~~~L~~n~~L~~L~L~~~~N~i~~~--g~~~l~-------~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          111 LALVEALQSNTSLIELRIDNQSQPLGNN--VEMEIA-------NMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHHHGGGGCSSCCEEECCCCSSCCCHH--HHHHHH-------HHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHHHhCCCceEEEecCCCCCCCHH--HHHHHH-------HHHHhCCCcCEEeccCCCC
Confidence               245666778888888  66765432  111111       1255667788888887754

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.54  E-value=7.2e-05  Score=70.16  Aligned_cols=78  Identities=27%  Similarity=0.325  Sum_probs=61.4

Q ss_pred             CCCCccEEEeeccCCCCccccH--HHHcCCCCccEEEecCCCCCCCchhhcCCC--CCcEEEeCCCCCCC--c-------
Q 041360          243 QCPNLELFLLFRKGYGSMQISD--LFFEGTEEVKVLSLTGVRFSSLPSSLGRLF--NLQTLCLGGCRLKD--I-------  309 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~--~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~--~L~~L~l~~~~l~~--p-------  309 (561)
                      .+++|++|++++|.  +..++.  ..++.+++|++|+|++|.+..+ ..+..+.  +|++|+|++|.+..  |       
T Consensus       168 ~l~~L~~L~Ls~N~--l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~  244 (267)
T 3rw6_A          168 NIPELLSLNLSNNR--LYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYIS  244 (267)
T ss_dssp             HCTTCCEEECTTSC--CCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHH
T ss_pred             hCCCCCEEECCCCC--CCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHH
Confidence            58899999999997  555432  3347899999999999999887 3455555  99999999999764  2       


Q ss_pred             ccccCCCCCcEEEc
Q 041360          310 AIVGQLKKLEILSF  323 (561)
Q Consensus       310 ~~i~~L~~L~~L~l  323 (561)
                      ..+..+++|+.||=
T Consensus       245 ~il~~~P~L~~LDg  258 (267)
T 3rw6_A          245 AIRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHHCTTCCEESS
T ss_pred             HHHHHCcccCeECC
Confidence            24778899998864

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.25  E-value=0.002  Score=64.54  Aligned_cols=54  Identities=15%  Similarity=0.097  Sum_probs=29.5

Q ss_pred             CCCCCccEEEEecCCccchhhcccCcccCCcC---ccccccccccccccccCCCCCCCCCCCCcccCC
Q 041360          479 EGFPRLKHLRVESCSEILHIVGSVGRVRRKVF---PLLESLSLKKASFVILHGQKPTAASKGPEREKP  543 (561)
Q Consensus       479 ~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~---~~L~~L~l~~c~~~~~~~~~~~~~l~~L~~L~i  543 (561)
                      ..+.+|+.+.+.+  +++.++       ..+|   ++|+.+.+-+--..+..  ..+..+++|+.+.+
T Consensus       294 ~~~~~L~~i~l~~--~i~~I~-------~~aF~~c~~L~~i~lp~~v~~I~~--~aF~~c~~L~~i~l  350 (394)
T 4fs7_A          294 YGCSSLTEVKLLD--SVKFIG-------EEAFESCTSLVSIDLPYLVEEIGK--RSFRGCTSLSNINF  350 (394)
T ss_dssp             TTCTTCCEEEECT--TCCEEC-------TTTTTTCTTCCEECCCTTCCEECT--TTTTTCTTCCEECC
T ss_pred             ccccccccccccc--ccceec-------hhhhcCCCCCCEEEeCCcccEEhH--HhccCCCCCCEEEE
Confidence            3567888888754  455543       3445   45666655321114432  23566677777766

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=96.83  E-value=0.019  Score=56.06  Aligned_cols=148  Identities=16%  Similarity=0.174  Sum_probs=88.4

Q ss_pred             ceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcC-CCHHHH-HHHHHHHhhCCCCCC
Q 041360           19 KNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKS-KSLDIW-KDALSQLRSSNPREI   96 (561)
Q Consensus        19 ~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~-~~~~~w-~~~~~~l~~~~~~~~   96 (561)
                      ..+++.+|+.+|+.+++.+.........+ .+.+..+++.++|.|+++..++..+.. .+...+ ..+.+.         
T Consensus       196 ~~i~l~pl~~~e~~~~l~~~~~~~~~~~~-~~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~---------  265 (350)
T 2qen_A          196 GEVLVKPFDKDTSVEFLKRGFREVNLDVP-ENEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEV---------  265 (350)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCCCC-HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHH---------
T ss_pred             ceeeCCCCCHHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHH---------
Confidence            48999999999999999886532111111 467889999999999999999876532 222222 111111         


Q ss_pred             CCchhhHHHHHHHHHHhc---CChHHHHHHHhhcccCCCcccCHHHHHHHHhhcCcccccccHHHHHHHHHHHHHHHHHc
Q 041360           97 DGMDKNVYTSIELSYNLL---ASKEAKSLFRLCGLYNEGHAIQVASLLRYGMGWGLFKNVYTLEEARSRVHRLIDNLKSS  173 (561)
Q Consensus        97 ~~~~~~~~~~l~~sy~~L---~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~a~g~~~~~~~~~~~~~~~~~~i~~L~~~  173 (561)
                            +...+.-.+..+   ++. .+..+..+|.   + .++...+.....+..-   ..+..    ....+++.|.+.
T Consensus       266 ------~~~~~~~~l~~l~~~~~~-~~~~l~~la~---g-~~~~~~l~~~~~~~~~---~~~~~----~~~~~l~~L~~~  327 (350)
T 2qen_A          266 ------AKGLIMGELEELRRRSPR-YVDILRAIAL---G-YNRWSLIRDYLAVKGT---KIPEP----RLYALLENLKKM  327 (350)
T ss_dssp             ------HHHHHHHHHHHHHHHCHH-HHHHHHHHHT---T-CCSHHHHHHHHHHTTC---CCCHH----HHHHHHHHHHHT
T ss_pred             ------HHHHHHHHHHHHHhCChh-HHHHHHHHHh---C-CCCHHHHHHHHHHHhC---CCCHH----HHHHHHHHHHhC
Confidence                  111111122222   554 8888888887   2 2455555554322110   01122    234577888889


Q ss_pred             CcccccCCCCceeh-hHHHHHHHH
Q 041360          174 CLLLDGDGKDEVKM-HDVIHVVAV  196 (561)
Q Consensus       174 sll~~~~~~~~~~m-h~lv~~~~~  196 (561)
                      +++...  .+.|.+ |++++++.+
T Consensus       328 gli~~~--~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          328 NWIVEE--DNTYKIADPVVATVLR  349 (350)
T ss_dssp             TSEEEE--TTEEEESSHHHHHHHT
T ss_pred             CCEEec--CCEEEEecHHHHHHHc
Confidence            999765  245555 778887653

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=96.60  E-value=0.024  Score=55.54  Aligned_cols=147  Identities=14%  Similarity=0.175  Sum_probs=86.0

Q ss_pred             ceEecCCCCHHHHHHHHHHHhCC-CCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcC-CCHHHHH-HHHHHHhhCCCCC
Q 041360           19 KNFLIEVLSKEEALQLFENILGD-STKTSTIQPIADEIVKRCGGLPVAVTTVANALKS-KSLDIWK-DALSQLRSSNPRE   95 (561)
Q Consensus        19 ~~~~l~~L~~~~a~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~-~~~~~w~-~~~~~l~~~~~~~   95 (561)
                      ..+++.+|+.+|+.+++.+.+.. ....++    ...|++.++|.|+++..++..+.. .+...|- .+.+..       
T Consensus       202 ~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~-------  270 (357)
T 2fna_A          202 STVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYA-------  270 (357)
T ss_dssp             EEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHH-------
T ss_pred             ceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHH-------
Confidence            58999999999999999986531 111122    288999999999999999987652 2333331 111111       


Q ss_pred             CCCchhhHHHHHH-HHHH--hcCChHHHHHHHhhcccCCCcccCHHHHHHHHh-hcCcccccccHHHHHHHHHHHHHHHH
Q 041360           96 IDGMDKNVYTSIE-LSYN--LLASKEAKSLFRLCGLYNEGHAIQVASLLRYGM-GWGLFKNVYTLEEARSRVHRLIDNLK  171 (561)
Q Consensus        96 ~~~~~~~~~~~l~-~sy~--~L~~~~~k~cfl~~s~fp~~~~~~~~~l~~~w~-a~g~~~~~~~~~~~~~~~~~~i~~L~  171 (561)
                          ...+...+. +.++  .+++. .+..+..+|.   + . +...+..... ..|.   ..+.    .....+++.|+
T Consensus       271 ----~~~~~~~l~~~~~~~~~l~~~-~~~~l~~la~---g-~-~~~~l~~~~~~~~g~---~~~~----~~~~~~L~~L~  333 (357)
T 2fna_A          271 ----KKLILKEFENFLHGREIARKR-YLNIMRTLSK---C-G-KWSDVKRALELEEGI---EISD----SEIYNYLTQLT  333 (357)
T ss_dssp             ----HHHHHHHHHHHHTTCGGGHHH-HHHHHHHHTT---C-B-CHHHHHHHHHHHHCS---CCCH----HHHHHHHHHHH
T ss_pred             ----HHHHHHHHHHHhhccccccHH-HHHHHHHHHc---C-C-CHHHHHHHHHHhcCC---CCCH----HHHHHHHHHHH
Confidence                111111221 1111  56775 8888888887   2 1 4444443211 1121   0011    22345778888


Q ss_pred             HcCcccccCCCCceeh-hHHHHHHH
Q 041360          172 SSCLLLDGDGKDEVKM-HDVIHVVA  195 (561)
Q Consensus       172 ~~sll~~~~~~~~~~m-h~lv~~~~  195 (561)
                      +.+++...+  +.|.+ |++++++.
T Consensus       334 ~~gli~~~~--~~y~f~~~~~~~~l  356 (357)
T 2fna_A          334 KHSWIIKEG--EKYCPSEPLISLAF  356 (357)
T ss_dssp             HTTSEEESS--SCEEESSHHHHHHT
T ss_pred             hCCCEEecC--CEEEecCHHHHHhh
Confidence            999997653  45664 78888764

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.12  E-value=0.048  Score=54.41  Aligned_cols=74  Identities=8%  Similarity=0.102  Sum_probs=34.2

Q ss_pred             ccEEEeeccCCCCccccHHHHcCCCCccEEEecCCC---CCCCc-hhhcCCCCCcEEEeCCCCCCC--cccccCCCCCcE
Q 041360          247 LELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVR---FSSLP-SSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEI  320 (561)
Q Consensus       247 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~---i~~lp-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~  320 (561)
                      |+++.+...   +..+....|.++.+|+.+.+..+.   ++.+. ..+..+.+|+.+.+..+ ++.  ...+..+.+|+.
T Consensus        66 L~sI~iP~s---vt~Ig~~AF~~C~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~-~~~I~~~aF~~c~~L~~  141 (394)
T 4gt6_A           66 LTSVQIPDT---VTEIGSNAFYNCTSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS-VTEIDSEAFHHCEELDT  141 (394)
T ss_dssp             CCEEEECTT---CCEECTTTTTTCTTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT-CSEECTTTTTTCTTCCE
T ss_pred             CEEEEECCC---eeEEhHHHhhCCccCceEeecCCCCCeeeEechhhchhcccceeeccCCc-cceehhhhhhhhccccc
Confidence            555555432   445555555666666666665432   33332 23444444444443322 222  133444555555


Q ss_pred             EEcc
Q 041360          321 LSFR  324 (561)
Q Consensus       321 L~l~  324 (561)
                      +.+.
T Consensus       142 i~lp  145 (394)
T 4gt6_A          142 VTIP  145 (394)
T ss_dssp             EECC
T ss_pred             cccc
Confidence            5553

>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=95.98  E-value=0.18  Score=49.85  Aligned_cols=53  Identities=9%  Similarity=0.110  Sum_probs=26.6

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEe
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCL  301 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l  301 (561)
                      ..+|+.+.+...   +..++...|.++.+|+.+.+..+ ++.++. .+... +|+.+.+
T Consensus        45 ~~~i~~v~ip~~---vt~Ig~~aF~~C~~L~~I~lp~~-v~~Ig~~aF~~c-~l~~i~~   98 (379)
T 4h09_A           45 RDRISEVRVNSG---ITSIGEANFNSCYNMTKVTVAST-VTSIGDGAFADT-KLQSYTG   98 (379)
T ss_dssp             GGGCSEEEECTT---EEEECTTTTTTCTTCCEEEECTT-CCEECTTTTTTC-CCCEEEE
T ss_pred             ccCCEEEEeCCC---ccChHHHHhhCCCCCCEEEeCCc-ceEechhhhcCC-CCceEEC
Confidence            445566555432   45555555666666666666432 444432 23332 4444444

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=95.81  E-value=0.13  Score=51.17  Aligned_cols=78  Identities=13%  Similarity=0.274  Sum_probs=42.4

Q ss_pred             CCceEEEccCCC---ccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCC
Q 041360          223 KGPIAISLPHRD---IQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNL  296 (561)
Q Consensus       223 ~~l~~l~l~~~~---~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L  296 (561)
                      .+++.+.+..+.   +..+....  .+.+|+.+.+...   +..++...|..+.+|+.+.+..+ +..++ ..+..+.+|
T Consensus        87 ~~L~~i~~~~n~p~~l~~Ig~~aF~~c~~L~~i~~~~~---~~~I~~~aF~~c~~L~~i~lp~~-~~~I~~~~F~~c~~L  162 (394)
T 4gt6_A           87 TSLKRVTIQDNKPSCVKKIGRQAFMFCSELTDIPILDS---VTEIDSEAFHHCEELDTVTIPEG-VTSVADGMFSYCYSL  162 (394)
T ss_dssp             TTCCEEEEGGGCCCCCCEECTTTTTTCTTCCBCGGGTT---CSEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTC
T ss_pred             ccCceEeecCCCCCeeeEechhhchhcccceeeccCCc---cceehhhhhhhhcccccccccce-eeeecccceeccccc
Confidence            455666665432   33343332  5666666655432   44566666677777777777532 33332 345556666


Q ss_pred             cEEEeCCC
Q 041360          297 QTLCLGGC  304 (561)
Q Consensus       297 ~~L~l~~~  304 (561)
                      +.+.+..+
T Consensus       163 ~~i~~~~~  170 (394)
T 4gt6_A          163 HTVTLPDS  170 (394)
T ss_dssp             CEEECCTT
T ss_pred             ccccccce
Confidence            66666543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.68  E-value=0.053  Score=44.47  Aligned_cols=50  Identities=18%  Similarity=0.294  Sum_probs=23.3

Q ss_pred             EEEecCCCCC--CCchhhcCCCCCcEEEeCCCCCCC-c-ccccCCCCCcEEEccCC
Q 041360          275 VLSLTGVRFS--SLPSSLGRLFNLQTLCLGGCRLKD-I-AIVGQLKKLEILSFRDS  326 (561)
Q Consensus       275 ~L~l~~~~i~--~lp~~i~~L~~L~~L~l~~~~l~~-p-~~i~~L~~L~~L~l~~~  326 (561)
                      +++-++++++  .+|..+.  .+|++|+|++|.|+. + ..+..+++|++|+|.+|
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             EEEeCCCCCccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            4444444444  4443221  234555555555444 2 33444555555555554

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=94.63  E-value=0.17  Score=50.61  Aligned_cols=138  Identities=14%  Similarity=0.090  Sum_probs=78.8

Q ss_pred             eEecCCCCHHHHHHHHHHHhC---CCCCCCCchHHHHHHHHHcC------CChHHHHHHHHHH-c-----CC---CHHHH
Q 041360           20 NFLIEVLSKEEALQLFENILG---DSTKTSTIQPIADEIVKRCG------GLPVAVTTVANAL-K-----SK---SLDIW   81 (561)
Q Consensus        20 ~~~l~~L~~~~a~~Lf~~~~~---~~~~~~~~~~~~~~i~~~c~------glPLai~~~g~~L-~-----~~---~~~~w   81 (561)
                      .+++.+++.++++++|...+.   ...  .--.+.+..+++.++      |.|..+..+.... .     ..   +.+.+
T Consensus       209 ~i~l~~l~~~e~~~ll~~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v  286 (412)
T 1w5s_A          209 KLHLPAYKSRELYTILEQRAELGLRDT--VWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLV  286 (412)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHBCTT--SCCHHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHH
T ss_pred             eeeeCCCCHHHHHHHHHHHHHhcCCCC--CCChHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHH
Confidence            399999999999999987653   211  112567889999999      9997655544321 1     11   33444


Q ss_pred             HHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhcccC--CCcccCHHHHHHHHh--h---cCcccccc
Q 041360           82 KDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCGLYN--EGHAIQVASLLRYGM--G---WGLFKNVY  154 (561)
Q Consensus        82 ~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s~fp--~~~~~~~~~l~~~w~--a---~g~~~~~~  154 (561)
                      ..+......             ...+.-.+..||.+ .+.++..++.+.  .+..++...+...|.  +   .|. . ..
T Consensus       287 ~~~~~~~~~-------------~~~~~~~l~~l~~~-~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~  350 (412)
T 1w5s_A          287 RKAVSENEA-------------ASIQTHELEALSIH-ELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNV-K-PR  350 (412)
T ss_dssp             HHHHHHC-------------------CCSSSSSCHH-HHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCC-C-CC
T ss_pred             HHHHHHHhc-------------cchHHHHHHcCCHH-HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCC-C-CC
Confidence            444433210             12223345678876 788888788653  233555555544332  1   111 0 00


Q ss_pred             cHHHHHHHHHHHHHHHHHcCccccc
Q 041360          155 TLEEARSRVHRLIDNLKSSCLLLDG  179 (561)
Q Consensus       155 ~~~~~~~~~~~~i~~L~~~sll~~~  179 (561)
                      +    ...+.+++++|.+.+++...
T Consensus       351 ~----~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          351 G----YTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             C----HHHHHHHHHHHHHTTSEEEE
T ss_pred             C----HHHHHHHHHHHHhCCCEEee
Confidence            1    12344578889999999653

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.53  E-value=0.043  Score=48.47  Aligned_cols=119  Identities=11%  Similarity=0.168  Sum_probs=69.4

Q ss_pred             HcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCcccChh
Q 041360          267 FEGTEEVKVLSLTGV-RFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEELPHE  334 (561)
Q Consensus       267 ~~~l~~Lr~L~l~~~-~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~lp~~  334 (561)
                      ...-..|+.|+|+++ .|..     +-..+..-..|+.|+|++|.+..  .    ..+..=..|++|++++|.|..  .+
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~--~G  114 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTP--EL  114 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCH--HH
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCH--HH
Confidence            355567888888775 5543     44556666778888888887764  1    334455678888888887652  22


Q ss_pred             hhccccccccCchhhcCCCCCcEEEccCCcc-cccccCCCcccchHhhcCCCCCcEEEEeecc
Q 041360          335 IGQLTRLVVIAPNLISKFSQLEELYMGDSFS-QWDKVEGGSNASLAELKGLSKLTTLEIQVRD  396 (561)
Q Consensus       335 i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~-~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  396 (561)
                      ...+.       ..+..-+.|++|+++++.. .....  ...+....+..-+.|+.|+++++.
T Consensus       115 a~ala-------~aL~~N~tL~~L~L~n~~~~~ig~~--g~~~ia~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          115 LARLL-------RSTLVTQSIVEFKADNQRQSVLGNQ--VEMDMMMAIEENESLLRVGISFAS  168 (197)
T ss_dssp             HHHHH-------HHTTTTCCCSEEECCCCSSCCCCHH--HHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             HHHHH-------HHHhhCCceeEEECCCCcCcCcCHH--HHHHHHHHHHhCCCcCeEeccCCC
Confidence            21111       1244455688888875422 11110  012344566666778888877654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.05  E-value=0.069  Score=43.78  Aligned_cols=53  Identities=30%  Similarity=0.368  Sum_probs=33.4

Q ss_pred             EEEeeccCCCCc--cccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCC
Q 041360          249 LFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRL  306 (561)
Q Consensus       249 ~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l  306 (561)
                      .++.++..  +.  .+|..+   -.+|++|+|++|.|+.+|. .+..+.+|++|+|++|.+
T Consensus        12 ~v~Cs~~~--L~~~~vP~~l---p~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRG--LTWASLPTAF---PVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSC--CCTTTSCSCC---CTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCC--CccccCCCCC---CcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            34444444  44  566432   2457778888888877765 456677788888877763

>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=92.14  E-value=0.56  Score=46.17  Aligned_cols=124  Identities=17%  Similarity=0.195  Sum_probs=69.1

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCCCCCC--cccccCCCCCc
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLE  319 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~  319 (561)
                      .+.+|+.+.+...   +..+....|.++..|+.+.+..+ ++.+. ..+..+.+|+.+.+... +..  ...+..+.+|+
T Consensus       215 ~~~~l~~i~~~~~---~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~  289 (379)
T 4h09_A          215 YGKNLKKITITSG---VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLT  289 (379)
T ss_dssp             TCSSCSEEECCTT---CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCC
T ss_pred             cccccceeeeccc---eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccc
Confidence            4566666666443   34455555667777777777554 44443 34556667777777543 333  25566677777


Q ss_pred             EEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEe
Q 041360          320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQ  393 (561)
Q Consensus       320 ~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  393 (561)
                      .+.+.++.+..++             ...+.++.+|+.+.+..+..  .+.       ..++.++++|+.+.+.
T Consensus       290 ~i~l~~~~i~~I~-------------~~aF~~c~~L~~i~lp~~l~--~I~-------~~aF~~C~~L~~i~ip  341 (379)
T 4h09_A          290 KVVMDNSAIETLE-------------PRVFMDCVKLSSVTLPTALK--TIQ-------VYAFKNCKALSTISYP  341 (379)
T ss_dssp             EEEECCTTCCEEC-------------TTTTTTCTTCCEEECCTTCC--EEC-------TTTTTTCTTCCCCCCC
T ss_pred             cccccccccceeh-------------hhhhcCCCCCCEEEcCcccc--EEH-------HHHhhCCCCCCEEEEC
Confidence            7777665554443             23355666666666654321  111       0345556666665553

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=89.67  E-value=0.55  Score=42.47  Aligned_cols=72  Identities=13%  Similarity=0.181  Sum_probs=48.7

Q ss_pred             CEEeeccchhh-hcccCCcceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHH
Q 041360            1 MILTSRNRDLL-ERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANAL   73 (561)
Q Consensus         1 IlvTTR~~~va-~~~~~~~~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L   73 (561)
                      ||+||+..... .....-...+++++++.++..+++.+.+......- -.+..+.|++.|+|.|..+..+...+
T Consensus       159 ~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          159 FLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH-EPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             EEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB-CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             EEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            35666554322 11112236899999999999999998875222111 14678899999999999988776544

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=88.20  E-value=1.2  Score=42.68  Aligned_cols=54  Identities=17%  Similarity=-0.049  Sum_probs=41.7

Q ss_pred             ceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHH
Q 041360           19 KNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANAL   73 (561)
Q Consensus        19 ~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L   73 (561)
                      .++.+.+++.+|..+++.+.+......- -.+....+++.++|.|-.+..+...+
T Consensus       161 ~~i~l~~~~~~e~~~~l~~~~~~~~~~~-~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          161 IVEHLEYYTPEELAQGVMRDARLLGVRI-TEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CEEECCCCCHHHHHHHHHHHHHTTTCCC-CHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EEEecCCCCHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            5899999999999999998875322211 25778899999999998887766554

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=86.63  E-value=0.61  Score=41.02  Aligned_cols=91  Identities=11%  Similarity=0.038  Sum_probs=51.6

Q ss_pred             cCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCcccChhhh
Q 041360          268 EGTEEVKVLSLTGVRFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEELPHEIG  336 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~lp~~i~  336 (561)
                      ..-..|+.|+|++|.+..     +-..+..-..|++|+|++|.|..  .    ..+..=..|++|+++++....+.....
T Consensus        67 ~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~  146 (197)
T 1pgv_A           67 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVE  146 (197)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHH
T ss_pred             hhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHH
Confidence            455677777777777653     44455555678888888877765  1    345555568888887553322221110


Q ss_pred             ccccccccCchhhcCCCCCcEEEccCCc
Q 041360          337 QLTRLVVIAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       337 ~L~~L~~l~~~~i~~l~~L~~L~l~~~~  364 (561)
                      .     .+. ..+..-+.|.+|+++.+.
T Consensus       147 ~-----~ia-~aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          147 M-----DMM-MAIEENESLLRVGISFAS  168 (197)
T ss_dssp             H-----HHH-HHHHHCSSCCEEECCCCC
T ss_pred             H-----HHH-HHHHhCCCcCeEeccCCC
Confidence            0     000 124455667777776553

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=82.52  E-value=18  Score=35.02  Aligned_cols=139  Identities=12%  Similarity=0.058  Sum_probs=79.2

Q ss_pred             ceEecCCCCHHHHHHHHHHHhCC-CCCCCCchHHHHHHHHHcC---CChH-HHHHHHHHHc-----C---CCHHHHHHHH
Q 041360           19 KNFLIEVLSKEEALQLFENILGD-STKTSTIQPIADEIVKRCG---GLPV-AVTTVANALK-----S---KSLDIWKDAL   85 (561)
Q Consensus        19 ~~~~l~~L~~~~a~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~---glPL-ai~~~g~~L~-----~---~~~~~w~~~~   85 (561)
                      ..+.+++++.++..+++.+.+.. .....--.++.+.++++++   |.|- |+..+..+..     +   .+.+.+..++
T Consensus       194 ~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~  273 (387)
T 2v1u_A          194 VELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSAR  273 (387)
T ss_dssp             EECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHH
T ss_pred             eEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Confidence            58999999999999999988631 0011111356777888888   9993 3333332221     1   1667777776


Q ss_pred             HHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhhc-ccCCCcccCHHHHHHHHh----hcCcccccccHHHHH
Q 041360           86 SQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLCG-LYNEGHAIQVASLLRYGM----GWGLFKNVYTLEEAR  160 (561)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~s-~fp~~~~~~~~~l~~~w~----a~g~~~~~~~~~~~~  160 (561)
                      +...              ...+.-++..++.+ .+..+...+ .+.....+....+.+.+.    ..|. .. .    +.
T Consensus       274 ~~~~--------------~~~~~~~~~~l~~~-~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~----~~  332 (387)
T 2v1u_A          274 AEIE--------------RDRVSEVVRTLPLH-AKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLGL-EH-V----TL  332 (387)
T ss_dssp             HHHH--------------HHHHHHHHHSSCHH-HHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTTC-CC-C----CH
T ss_pred             HHHh--------------hchHHHHHHcCCHH-HHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcCC-CC-C----CH
Confidence            6542              22455678889875 555554444 332222455554444332    1221 10 0    12


Q ss_pred             HHHHHHHHHHHHcCcccc
Q 041360          161 SRVHRLIDNLKSSCLLLD  178 (561)
Q Consensus       161 ~~~~~~i~~L~~~sll~~  178 (561)
                      ..+.++++.|...++++.
T Consensus       333 ~~~~~~l~~L~~~gli~~  350 (387)
T 2v1u_A          333 RRVSGIISELDMLGIVKS  350 (387)
T ss_dssp             HHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHHhCCCeEE
Confidence            345567888888998864

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	561
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-13
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-04
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.001
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.002

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 68.3 bits (166), Expect = 3e-13
 Identities = 14/124 (11%), Positives = 42/124 (33%), Gaps = 8/124 (6%)

Query: 2   ILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGG 61
           ++T+R+ ++      + +   +  L  +E     E            + + ++ ++   G
Sbjct: 161 LVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSG 220

Query: 62  LPVAVTTVANALKSKSLDIWKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKS 121
            P  +     + + K+ +      ++L S     ++ +          SY  LA    + 
Sbjct: 221 NPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI-------TPYSYKSLAM-ALQR 272

Query: 122 LFRL 125
              +
Sbjct: 273 CVEV 276

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 48.1 bits (113), Expect = 1e-06
 Identities = 16/71 (22%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
             L+L     S +   +  L  LQ L     ++ D++ +  L  +  LS   + I +L  
Sbjct: 310 TYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLT- 367

Query: 334 EIGQLTRLVVI 344
            +  LTR+  +
Sbjct: 368 PLANLTRITQL 378

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 42.3 bits (98), Expect = 1e-04
 Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 2/66 (3%)

Query: 261 QISDL-FFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
            ISD+       +++ L     + S + S L  L N+  L  G  ++ D+  +  L ++ 
Sbjct: 318 NISDISPVSSLTKLQRLFFANNKVSDVSS-LANLTNINWLSAGHNQISDLTPLANLTRIT 376

Query: 320 ILSFRD 325
            L   D
Sbjct: 377 QLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.1 bits (95), Expect = 2e-04
 Identities = 20/88 (22%), Positives = 38/88 (43%), Gaps = 1/88 (1%)

Query: 260 MQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLE 319
             I+ +F +     K+ ++ G    +   S   L  + TL      +K I  V  L  L 
Sbjct: 10  TPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLT 69

Query: 320 ILSFRDSYIEELPHEIGQLTRLVVIAPN 347
            ++F ++ + ++   +  LT+LV I  N
Sbjct: 70  QINFSNNQLTDIT-PLKNLTKLVDILMN 96

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 46.7 bits (109), Expect = 4e-06
 Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 5/68 (7%)

Query: 274 KVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPH 333
           + L+++  +   LP+       L+ L      L ++      + L+ L    + + E P 
Sbjct: 287 EELNVSNNKLIELPALPP---RLERLIASFNHLAEVP--ELPQNLKQLHVEYNPLREFPD 341

Query: 334 EIGQLTRL 341
               +  L
Sbjct: 342 IPESVEDL 349

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 41.3 bits (95), Expect = 2e-04
 Identities = 15/72 (20%), Positives = 32/72 (44%), Gaps = 7/72 (9%)

Query: 293 LFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKF 352
             +L+ L +   +L ++       +LE L    +++ E+P     L +L  +  N + +F
Sbjct: 283 PPSLEELNVSNNKLIELP--ALPPRLERLIASFNHLAEVPELPQNLKQL-HVEYNPLREF 339

Query: 353 ----SQLEELYM 360
                 +E+L M
Sbjct: 340 PDIPESVEDLRM 351

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 40.1 bits (92), Expect = 4e-04
 Identities = 10/42 (23%), Positives = 22/42 (52%), Gaps = 1/42 (2%)

Query: 285 SLPSSLGRLFNLQTLCLGGCRLK-DIAIVGQLKKLEILSFRD 325
           +LP  L +L  L +L +    L  +I   G L++ ++ ++ +
Sbjct: 259 TLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYAN 300

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

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]

 Score = 38.1 bits (87), Expect = 0.001
 Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 272 EVKVLSLTG--VRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSF 323
           E + + L G       + ++L  L   + L L    ++ I+ +  ++ L ILS 
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSL 77

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

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]

 Score = 38.1 bits (87), Expect = 0.002
 Identities = 9/44 (20%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 282 RFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRD 325
           + S +   L  L NL  + L   ++ D++ +     L I++  +
Sbjct: 184 KISDISP-LASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTN 226

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	561
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.79
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.78
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.71
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.66
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.63
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.63
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.62
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.61
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.6
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.58
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.57
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.52
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.51
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.48
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.47
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.46
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.43
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.41
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.39
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.38
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.34
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.33
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.32
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.29
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.29
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.28
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.21
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.21
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.13
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.08
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.06
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.86
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.77
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.53
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.19
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.11
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.39
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.33
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.19
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.77
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.65
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.41
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.1

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.79  E-value=1.1e-20  Score=179.10  Aligned_cols=118  Identities=13%  Similarity=0.146  Sum_probs=102.0

Q ss_pred             CEEeeccchhhhcccCCcceEecCCCCHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHcCCChHHHHHHHHHHcCCCHHH
Q 041360            1 MILTSRNRDLLERDMNSQKNFLIEVLSKEEALQLFENILGDSTKTSTIQPIADEIVKRCGGLPVAVTTVANALKSKSLDI   80 (561)
Q Consensus         1 IlvTTR~~~va~~~~~~~~~~~l~~L~~~~a~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~g~~L~~~~~~~   80 (561)
                      ||||||++.||.......++|+|++|+.+|||+||++++|.....+..++++++|+++|+|+||||+++|+.|+.++.+.
T Consensus       160 ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~  239 (277)
T d2a5yb3         160 CLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEK  239 (277)
T ss_dssp             EEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHH
T ss_pred             EEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHH
Confidence            69999999998643444478999999999999999999986655566789999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCCCCCCCchhhHHHHHHHHHHhcCChHHHHHHHhh
Q 041360           81 WKDALSQLRSSNPREIDGMDKNVYTSIELSYNLLASKEAKSLFRLC  126 (561)
Q Consensus        81 w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~~  126 (561)
                      |.++.++++...       ...+..++.+||+.||++ +|+||.++
T Consensus       240 ~~~~~~~L~~~~-------~~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         240 MAQLNNKLESRG-------LVGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHHHC-------SSTTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             HHHHHHHHhcCc-------HHHHHHHHHHHHhcccHH-HHHHHHhC
Confidence            999999987652       355778889999999998 99999864

>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=99.78  E-value=1.8e-18  Score=172.99  Aligned_cols=286  Identities=16%  Similarity=0.180  Sum_probs=170.5

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.|+++++.+..+...-.+++|++|+++++.  +..+++  ++++++|++|++++|.+..+++ ++.+++|++|++.
T Consensus        44 ~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~--l~~l~~--l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~~  118 (384)
T d2omza2          44 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ--LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  118 (384)
T ss_dssp             TTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             CCCCEEECCCCCCCCccccccCCCCCEEeCcCCc--CCCCcc--ccCCcccccccccccccccccc-ccccccccccccc
Confidence            5788899988888777433378889999998887  777775  5888899999999988888764 7888889999988


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccCh------------------------------------------hhhcccc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPH------------------------------------------EIGQLTR  340 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~------------------------------------------~i~~L~~  340 (561)
                      ++.+...........+..+....+.+..+..                                          ....+++
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  198 (384)
T d2omza2         119 NNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTN  198 (384)
T ss_dssp             SSCCCCCGGGTTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccc
Confidence            8877663333444455555444332221111                                          0111111


Q ss_pred             c----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccccccccc
Q 041360          341 L----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQ  410 (561)
Q Consensus       341 L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~  410 (561)
                      +          ..+++  .+..++|++|++.+|...          .+..+..+++|+.|+++.+.++.++....+++|+
T Consensus       199 ~~~l~l~~n~i~~~~~--~~~~~~L~~L~l~~n~l~----------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~  266 (384)
T d2omza2         199 LESLIATNNQISDITP--LGILTNLDELSLNGNQLK----------DIGTLASLTNLTDLDLANNQISNLAPLSGLTKLT  266 (384)
T ss_dssp             CSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCC----------CCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCS
T ss_pred             cceeeccCCccCCCCc--ccccCCCCEEECCCCCCC----------CcchhhcccccchhccccCccCCCCcccccccCC
Confidence            1          01111  233344444444444321          1234566667777777777666666555666777


Q ss_pred             EEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEe
Q 041360          411 RYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVE  490 (561)
Q Consensus       411 ~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~  490 (561)
                      .|++.... +...........+..+....+.  ......+..+ ++++.|+++++ .+..++.    ...+++|++|++.
T Consensus       267 ~L~l~~~~-l~~~~~~~~~~~l~~l~~~~n~--l~~~~~~~~~-~~l~~L~ls~n-~l~~l~~----l~~l~~L~~L~L~  337 (384)
T d2omza2         267 ELKLGANQ-ISNISPLAGLTALTNLELNENQ--LEDISPISNL-KNLTYLTLYFN-NISDISP----VSSLTKLQRLFFA  337 (384)
T ss_dssp             EEECCSSC-CCCCGGGTTCTTCSEEECCSSC--CSCCGGGGGC-TTCSEEECCSS-CCSCCGG----GGGCTTCCEEECC
T ss_pred             EeeccCcc-cCCCCccccccccccccccccc--cccccccchh-cccCeEECCCC-CCCCCcc----cccCCCCCEEECC
Confidence            77663221 1111111222233334443321  1112233333 77888888764 4455443    3568889999998


Q ss_pred             cCCccchhhcccCcccCCcCccccccccccccc-cccCCCCCCCCCCCCcccCCCc
Q 041360          491 SCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQKPTAASKGPEREKPTT  545 (561)
Q Consensus       491 ~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i~~  545 (561)
                      +| +++.++      ....+++|++|++.+|+- .+    .++..+++|+.|++++
T Consensus       338 ~n-~l~~l~------~l~~l~~L~~L~l~~N~l~~l----~~l~~l~~L~~L~L~~  382 (384)
T d2omza2         338 NN-KVSDVS------SLANLTNINWLSAGHNQISDL----TPLANLTRITQLGLND  382 (384)
T ss_dssp             SS-CCCCCG------GGGGCTTCCEEECCSSCCCBC----GGGTTCTTCSEEECCC
T ss_pred             CC-CCCCCh------hHcCCCCCCEEECCCCcCCCC----hhhccCCCCCEeeCCC
Confidence            86 677665      346688888888888763 32    2367788888888764

>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=99.71  E-value=3.2e-16  Score=156.31  Aligned_cols=265  Identities=17%  Similarity=0.208  Sum_probs=170.5

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      +++++|++++|++..++....+++|++|+++++.  +..+++  ++++++|+.|+++++.+..++... ....+..+...
T Consensus        66 ~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~--i~~i~~--l~~l~~L~~L~~~~~~~~~~~~~~-~~~~~~~~~~~  140 (384)
T d2omza2          66 NNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQ--IADITP--LANLTNLTGLTLFNNQITDIDPLK-NLTNLNRLELS  140 (384)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCGGGT-TCTTCSEEEEE
T ss_pred             CCCCEEeCcCCcCCCCccccCCcccccccccccc--cccccc--cccccccccccccccccccccccc-ccccccccccc
Confidence            7899999999999999875589999999999997  666765  589999999999988776543211 11111111111


Q ss_pred             CCC-------------------------------------------CCCcccccCCCCCcEEEccCCcCcccChhhhccc
Q 041360          303 GCR-------------------------------------------LKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLT  339 (561)
Q Consensus       303 ~~~-------------------------------------------l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~  339 (561)
                      .+.                                           .........+++++.++++++.+..++. .+...
T Consensus       141 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~l~~n~i~~~~~-~~~~~  219 (384)
T d2omza2         141 SNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITP-LGILT  219 (384)
T ss_dssp             EEEECCCGGGTTCTTCSEEEEEESCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG-GGGCT
T ss_pred             cccccccccccccccccccccccccchhhhhccccccccccccccccccccccccccccceeeccCCccCCCCc-ccccC
Confidence            110                                           0001233444555555555555544432 11112


Q ss_pred             cc----------cccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccc
Q 041360          340 RL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVEL  409 (561)
Q Consensus       340 ~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L  409 (561)
                      +|          +.++  .+..+++|+.|++.+|....          +..+..+++|+.|+++.+.+..++....++.+
T Consensus       220 ~L~~L~l~~n~l~~~~--~l~~l~~L~~L~l~~n~l~~----------~~~~~~~~~L~~L~l~~~~l~~~~~~~~~~~l  287 (384)
T d2omza2         220 NLDELSLNGNQLKDIG--TLASLTNLTDLDLANNQISN----------LAPLSGLTKLTELKLGANQISNISPLAGLTAL  287 (384)
T ss_dssp             TCCEEECCSSCCCCCG--GGGGCTTCSEEECCSSCCCC----------CGGGTTCTTCSEEECCSSCCCCCGGGTTCTTC
T ss_pred             CCCEEECCCCCCCCcc--hhhcccccchhccccCccCC----------CCcccccccCCEeeccCcccCCCCcccccccc
Confidence            22          2222  26788889999988886531          13477788999999998888877776677778


Q ss_pred             cEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEE
Q 041360          410 QRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRV  489 (561)
Q Consensus       410 ~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l  489 (561)
                      +.+.+... .+...........+..|++.++. ... ..++..+ ++|+.|+++++ .++.++.    ...+++|++|++
T Consensus       288 ~~l~~~~n-~l~~~~~~~~~~~l~~L~ls~n~-l~~-l~~l~~l-~~L~~L~L~~n-~l~~l~~----l~~l~~L~~L~l  358 (384)
T d2omza2         288 TNLELNEN-QLEDISPISNLKNLTYLTLYFNN-ISD-ISPVSSL-TKLQRLFFANN-KVSDVSS----LANLTNINWLSA  358 (384)
T ss_dssp             SEEECCSS-CCSCCGGGGGCTTCSEEECCSSC-CSC-CGGGGGC-TTCCEEECCSS-CCCCCGG----GGGCTTCCEEEC
T ss_pred             cccccccc-ccccccccchhcccCeEECCCCC-CCC-CcccccC-CCCCEEECCCC-CCCCChh----HcCCCCCCEEEC
Confidence            87776432 22211112223344455555433 222 2235555 99999999987 5666653    456999999999


Q ss_pred             ecCCccchhhcccCcccCCcCccccccccccc
Q 041360          490 ESCSEILHIVGSVGRVRRKVFPLLESLSLKKA  521 (561)
Q Consensus       490 ~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c  521 (561)
                      +++ +++.++      ....+++|+.|++++.
T Consensus       359 ~~N-~l~~l~------~l~~l~~L~~L~L~~N  383 (384)
T d2omza2         359 GHN-QISDLT------PLANLTRITQLGLNDQ  383 (384)
T ss_dssp             CSS-CCCBCG------GGTTCTTCSEEECCCE
T ss_pred             CCC-cCCCCh------hhccCCCCCEeeCCCC
Confidence            885 788776      4578899999998864

>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=99.66  E-value=1.6e-15  Score=146.11  Aligned_cols=264  Identities=17%  Similarity=0.167  Sum_probs=156.9

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCR  305 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~  305 (561)
                      .++-++..+..+|..+ .+++++|+++++.  +..+|...|.++++|++|++++|.+..+ |..+..+++|++|++++|+
T Consensus        14 ~~~C~~~~L~~lP~~l-~~~l~~L~Ls~N~--i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~   90 (305)
T d1xkua_          14 VVQCSDLGLEKVPKDL-PPDTALLDLQNNK--ITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ   90 (305)
T ss_dssp             EEECTTSCCCSCCCSC-CTTCCEEECCSSC--CCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSC
T ss_pred             EEEecCCCCCccCCCC-CCCCCEEECcCCc--CCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCc
Confidence            4444455566666654 3567777777776  6777765567777788888877777776 4567777778888887777


Q ss_pred             CCC-cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCC
Q 041360          306 LKD-IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGL  384 (561)
Q Consensus       306 l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l  384 (561)
                      ++. |..+  ...++.|++.++.+..++..             .+.....+..+....+......      .....+..+
T Consensus        91 l~~l~~~~--~~~l~~L~~~~n~l~~l~~~-------------~~~~~~~~~~l~~~~n~~~~~~------~~~~~~~~l  149 (305)
T d1xkua_          91 LKELPEKM--PKTLQELRVHENEITKVRKS-------------VFNGLNQMIVVELGTNPLKSSG------IENGAFQGM  149 (305)
T ss_dssp             CSBCCSSC--CTTCCEEECCSSCCCBBCHH-------------HHTTCTTCCEEECCSSCCCGGG------BCTTGGGGC
T ss_pred             cCcCccch--hhhhhhhhccccchhhhhhh-------------hhhccccccccccccccccccC------CCccccccc
Confidence            776 5433  34677777777766655432             2344555556665554332111      112345666


Q ss_pred             CCCcEEEEeeccCcccCcccccccccEEEEEeccc---cccCCCCccccceEEEecCCccchhhhhhhHHHhhcccccee
Q 041360          385 SKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEA---WRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIH  461 (561)
Q Consensus       385 ~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~---~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~  461 (561)
                      ++|+.+.+..+.+..++... +++|+.|++.....   .+......  ..+..|...++......+.++..+ ++|++|+
T Consensus       150 ~~L~~l~l~~n~l~~l~~~~-~~~L~~L~l~~n~~~~~~~~~~~~~--~~l~~L~~s~n~l~~~~~~~~~~l-~~L~~L~  225 (305)
T d1xkua_         150 KKLSYIRIADTNITTIPQGL-PPSLTELHLDGNKITKVDAASLKGL--NNLAKLGLSFNSISAVDNGSLANT-PHLRELH  225 (305)
T ss_dssp             TTCCEEECCSSCCCSCCSSC-CTTCSEEECTTSCCCEECTGGGTTC--TTCCEEECCSSCCCEECTTTGGGS-TTCCEEE
T ss_pred             cccCccccccCCccccCccc-CCccCEEECCCCcCCCCChhHhhcc--cccccccccccccccccccccccc-ccceeee
Confidence            77777777777776665543 56777777632211   11111122  223334443333122224445555 8888888


Q ss_pred             eccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCc--ccCCcCccccccccccccc
Q 041360          462 LNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGR--VRRKVFPLLESLSLKKASF  523 (561)
Q Consensus       462 l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~--~~~~~~~~L~~L~l~~c~~  523 (561)
                      ++++ .++.++..   ...+++|++|+++++ +++.++...-.  ......++|+.|.+.++|.
T Consensus       226 L~~N-~L~~lp~~---l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~  284 (305)
T d1xkua_         226 LNNN-KLVKVPGG---LADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNPV  284 (305)
T ss_dssp             CCSS-CCSSCCTT---TTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             cccc-cccccccc---cccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCcC
Confidence            8876 56666654   346888888888884 67776532100  0123456788888888875

>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=99.63  E-value=1.5e-15  Score=143.09  Aligned_cols=179  Identities=21%  Similarity=0.220  Sum_probs=114.8

Q ss_pred             ceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCC
Q 041360          225 PIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       225 l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~  304 (561)
                      ...++.+++++..+|..+. +++++|+++++.  +..+|...|.++++|++|++++|.++.+|. ++.+++|++|++++|
T Consensus        12 ~~~v~C~~~~L~~iP~~lp-~~l~~L~Ls~N~--i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~N   87 (266)
T d1p9ag_          12 HLEVNCDKRNLTALPPDLP-KDTTILHLSENL--LYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSHN   87 (266)
T ss_dssp             CCEEECTTSCCSSCCSCCC-TTCCEEECTTSC--CSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCSS
T ss_pred             CeEEEccCCCCCeeCcCcC-cCCCEEECcCCc--CCCcCHHHhhcccccccccccccccccccc-ccccccccccccccc
Confidence            3445556666666665442 456777777765  556665555667777777777777666653 456667777777777


Q ss_pred             CCCC-cccccCCCCCcEEEccCCcCcccChh-hhccccc----------cccCchhhcCCCCCcEEEccCCcccccccCC
Q 041360          305 RLKD-IAIVGQLKKLEILSFRDSYIEELPHE-IGQLTRL----------VVIAPNLISKFSQLEELYMGDSFSQWDKVEG  372 (561)
Q Consensus       305 ~l~~-p~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~  372 (561)
                      +++. +..+..+++|++|+++++.+..++.. +..+.++          ..++...+..+++|+.|++++|.+....+  
T Consensus        88 ~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~--  165 (266)
T d1p9ag_          88 QLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPA--  165 (266)
T ss_dssp             CCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCT--
T ss_pred             cccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCc--
Confidence            6666 56666677777777766665554432 2222222          34444556778888888888886543222  


Q ss_pred             CcccchHhhcCCCCCcEEEEeeccCcccCccc-ccccccEEEEE
Q 041360          373 GSNASLAELKGLSKLTTLEIQVRDAQILPQDL-VLVELQRYKIC  415 (561)
Q Consensus       373 ~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~L~l~  415 (561)
                            ..+..+++|+.|+++.|.++.+|..+ .+++|+.|++.
T Consensus       166 ------~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~  203 (266)
T d1p9ag_         166 ------GLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLH  203 (266)
T ss_dssp             ------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECC
T ss_pred             ------cccccccccceeecccCCCcccChhHCCCCCCCEEEec
Confidence                  44677888888888888888887654 67778877763

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.63  E-value=4.1e-16  Score=151.03  Aligned_cols=241  Identities=13%  Similarity=0.110  Sum_probs=163.1

Q ss_pred             CCceEEEccCCCcc---ccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCc
Q 041360          223 KGPIAISLPHRDIQ---ELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQ  297 (561)
Q Consensus       223 ~~l~~l~l~~~~~~---~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~  297 (561)
                      .+++.|+++++.+.   .+|..+ .+++|++|+++++......+|..+ +++++|++|++++|.+..+ |..+..+.+|+
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i-~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAI-AKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGG-GGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             EEEEEEECCCCCCCCCCCCChHHhcCcccccccccccccccccccccc-ccccccchhhhccccccccccccccchhhhc
Confidence            46889999988774   477777 789999999987431445788875 8999999999999998875 56688899999


Q ss_pred             EEEeCCCCCCC--cccccCCCCCcEEEccCCcCc-ccChhhhccccccccCchhhcCCCCC-cEEEccCCcccccccCCC
Q 041360          298 TLCLGGCRLKD--IAIVGQLKKLEILSFRDSYIE-ELPHEIGQLTRLVVIAPNLISKFSQL-EELYMGDSFSQWDKVEGG  373 (561)
Q Consensus       298 ~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~-~lp~~i~~L~~L~~l~~~~i~~l~~L-~~L~l~~~~~~~~~~~~~  373 (561)
                      ++++++|.+..  |..++++++|+++++++|.+. .+|..+              ..+..+ +.++++.|......+   
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~--------------~~l~~l~~~l~~~~n~l~~~~~---  191 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSY--------------GSFSKLFTSMTISRNRLTGKIP---  191 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGG--------------GCCCTTCCEEECCSSEEEEECC---
T ss_pred             ccccccccccccCchhhccCcccceeecccccccccccccc--------------cccccccccccccccccccccc---
Confidence            99999998554  788999999999999998765 455443              444443 667777766543333   


Q ss_pred             cccchHhhcCCCCCcEEEEeeccCcc-cCccc-ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHH
Q 041360          374 SNASLAELKGLSKLTTLEIQVRDAQI-LPQDL-VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMK  451 (561)
Q Consensus       374 ~~~~~~~l~~l~~L~~L~l~~~~~~~-~~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~  451 (561)
                           ..+..+..+ .+++..+.... +|... .+++|+.+++.... +.                       ..+..+.
T Consensus       192 -----~~~~~l~~~-~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~-l~-----------------------~~~~~~~  241 (313)
T d1ogqa_         192 -----PTFANLNLA-FVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LA-----------------------FDLGKVG  241 (313)
T ss_dssp             -----GGGGGCCCS-EEECCSSEEEECCGGGCCTTSCCSEEECCSSE-EC-----------------------CBGGGCC
T ss_pred             -----ccccccccc-cccccccccccccccccccccccccccccccc-cc-----------------------ccccccc
Confidence                 344544433 56666444332 22222 55667766653221 11                       0011112


Q ss_pred             HhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccc-hhhcccCcccCCcCcccccccccccc
Q 041360          452 MLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEIL-HIVGSVGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       452 ~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~L~~L~l~~c~  522 (561)
                      . +++|+.|+++++.-...+|..   .+.+++|++|++++ ++++ .+|      ..+.+++|+.+.+.+++
T Consensus       242 ~-~~~L~~L~Ls~N~l~g~iP~~---l~~L~~L~~L~Ls~-N~l~g~iP------~~~~L~~L~~l~l~~N~  302 (313)
T d1ogqa_         242 L-SKNLNGLDLRNNRIYGTLPQG---LTQLKFLHSLNVSF-NNLCGEIP------QGGNLQRFDVSAYANNK  302 (313)
T ss_dssp             C-CTTCCEEECCSSCCEECCCGG---GGGCTTCCEEECCS-SEEEEECC------CSTTGGGSCGGGTCSSS
T ss_pred             c-ccccccccCccCeecccCChH---HhCCCCCCEEECcC-CcccccCC------CcccCCCCCHHHhCCCc
Confidence            2 278889999876544467665   35789999999998 4676 566      33567888888888776

>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=99.62  E-value=4.7e-16  Score=150.58  Aligned_cols=246  Identities=14%  Similarity=0.092  Sum_probs=166.8

Q ss_pred             CCccEEEeeccCCCCc--cccHHHHcCCCCccEEEecC-CCCC-CCchhhcCCCCCcEEEeCCCCCCC--cccccCCCCC
Q 041360          245 PNLELFLLFRKGYGSM--QISDLFFEGTEEVKVLSLTG-VRFS-SLPSSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKL  318 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~--~~~~~~~~~l~~Lr~L~l~~-~~i~-~lp~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L  318 (561)
                      .+++.|+++++. ...  .+|..+ +++++|++|++++ |.+. .+|.+|++|++|++|+|++|++..  +..+..+.+|
T Consensus        50 ~~v~~L~L~~~~-l~g~~~lp~~l-~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L  127 (313)
T d1ogqa_          50 YRVNNLDLSGLN-LPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCC-CSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             EEEEEEECCCCC-CCCCCCCChHH-hcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhh
Confidence            468889999986 222  577776 8999999999987 6666 589999999999999999999877  5778889999


Q ss_pred             cEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCC-cEEEEeeccC
Q 041360          319 EILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKL-TTLEIQVRDA  397 (561)
Q Consensus       319 ~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L-~~L~l~~~~~  397 (561)
                      +++++++|.+..            .+|.. ++++++|+.+++++|......+        ..+..+..+ +.+.++.|.+
T Consensus       128 ~~l~l~~N~~~~------------~~p~~-l~~l~~L~~l~l~~n~l~~~ip--------~~~~~l~~l~~~l~~~~n~l  186 (313)
T d1ogqa_         128 VTLDFSYNALSG------------TLPPS-ISSLPNLVGITFDGNRISGAIP--------DSYGSFSKLFTSMTISRNRL  186 (313)
T ss_dssp             CEEECCSSEEES------------CCCGG-GGGCTTCCEEECCSSCCEEECC--------GGGGCCCTTCCEEECCSSEE
T ss_pred             cccccccccccc------------cCchh-hccCcccceeeccccccccccc--------cccccccccccccccccccc
Confidence            999999885432            22222 7788889999998887654443        455666665 6777777665


Q ss_pred             cccCcccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccC
Q 041360          398 QILPQDLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDD  477 (561)
Q Consensus       398 ~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~  477 (561)
                      ...... .+.++..+.+                     ++..+......+..+..+ ++|+.|++.++.-...++.    
T Consensus       187 ~~~~~~-~~~~l~~~~l---------------------~l~~~~~~~~~~~~~~~~-~~l~~l~~~~~~l~~~~~~----  239 (313)
T d1ogqa_         187 TGKIPP-TFANLNLAFV---------------------DLSRNMLEGDASVLFGSD-KNTQKIHLAKNSLAFDLGK----  239 (313)
T ss_dssp             EEECCG-GGGGCCCSEE---------------------ECCSSEEEECCGGGCCTT-SCCSEEECCSSEECCBGGG----
T ss_pred             cccccc-cccccccccc---------------------cccccccccccccccccc-ccccccccccccccccccc----
Confidence            432221 1122222111                     111111011122233333 8889999987754444433    


Q ss_pred             CCCCCCccEEEEecCCccc-hhhcccCcccCCcCccccccccccccc--cccCCCCCCCCCCCCcccCCCcccccc
Q 041360          478 GEGFPRLKHLRVESCSEIL-HIVGSVGRVRRKVFPLLESLSLKKASF--VILHGQKPTAASKGPEREKPTTSLGFN  550 (561)
Q Consensus       478 ~~~~~~L~~L~l~~c~~l~-~l~~~~~~~~~~~~~~L~~L~l~~c~~--~~~~~~~~~~~l~~L~~L~i~~c~~l~  550 (561)
                      .+.+++|+.|+++++ +++ .+|.     ....+++|++|++.++.-  .++    ..+.+++|+.+.+.+...+-
T Consensus       240 ~~~~~~L~~L~Ls~N-~l~g~iP~-----~l~~L~~L~~L~Ls~N~l~g~iP----~~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         240 VGLSKNLNGLDLRNN-RIYGTLPQ-----GLTQLKFLHSLNVSFNNLCGEIP----QGGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             CCCCTTCCEEECCSS-CCEECCCG-----GGGGCTTCCEEECCSSEEEEECC----CSTTGGGSCGGGTCSSSEEE
T ss_pred             cccccccccccCccC-eecccCCh-----HHhCCCCCCEEECcCCcccccCC----CcccCCCCCHHHhCCCcccc
Confidence            467899999999995 565 6773     347889999999999864  332    34678888888888776554

>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=99.61  E-value=9.1e-15  Score=140.78  Aligned_cols=261  Identities=15%  Similarity=0.146  Sum_probs=179.4

Q ss_pred             CccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC--cccccCCCCCcEEE
Q 041360          246 NLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLEILS  322 (561)
Q Consensus       246 ~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~~L~  322 (561)
                      ..++++-++.+  +.++|..+   .+.+++|++++|.++++|+ ++.++++|++|++++|.+..  |..+.++++|++|+
T Consensus        11 ~~~~~~C~~~~--L~~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~   85 (305)
T d1xkua_          11 HLRVVQCSDLG--LEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY   85 (305)
T ss_dssp             ETTEEECTTSC--CCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             cCCEEEecCCC--CCccCCCC---CCCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEec
Confidence            34566655554  78888865   2689999999999999986 68999999999999999888  57799999999999


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  402 (561)
                      +++|+++.+|..                ....+..|....|......        ...+.....++.+....+.......
T Consensus        86 l~~n~l~~l~~~----------------~~~~l~~L~~~~n~l~~l~--------~~~~~~~~~~~~l~~~~n~~~~~~~  141 (305)
T d1xkua_          86 LSKNQLKELPEK----------------MPKTLQELRVHENEITKVR--------KSVFNGLNQMIVVELGTNPLKSSGI  141 (305)
T ss_dssp             CCSSCCSBCCSS----------------CCTTCCEEECCSSCCCBBC--------HHHHTTCTTCCEEECCSSCCCGGGB
T ss_pred             ccCCccCcCccc----------------hhhhhhhhhccccchhhhh--------hhhhhccccccccccccccccccCC
Confidence            999998887732                3356777887776543211        1345566777777776554332211


Q ss_pred             ----ccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCC
Q 041360          403 ----DLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDG  478 (561)
Q Consensus       403 ----~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~  478 (561)
                          ...+++|+.+.+..+. +... +.....++..|++.++......+..+..+ +.++.|.++++ .+..++...  .
T Consensus       142 ~~~~~~~l~~L~~l~l~~n~-l~~l-~~~~~~~L~~L~l~~n~~~~~~~~~~~~~-~~l~~L~~s~n-~l~~~~~~~--~  215 (305)
T d1xkua_         142 ENGAFQGMKKLSYIRIADTN-ITTI-PQGLPPSLTELHLDGNKITKVDAASLKGL-NNLAKLGLSFN-SISAVDNGS--L  215 (305)
T ss_dssp             CTTGGGGCTTCCEEECCSSC-CCSC-CSSCCTTCSEEECTTSCCCEECTGGGTTC-TTCCEEECCSS-CCCEECTTT--G
T ss_pred             CccccccccccCccccccCC-cccc-CcccCCccCEEECCCCcCCCCChhHhhcc-ccccccccccc-ccccccccc--c
Confidence                1256778887774332 2211 12223456666666544233344555555 88899999875 455554432  3


Q ss_pred             CCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccccc-cccCCCC----CCCCCCCCcccCCCccc
Q 041360          479 EGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKASF-VILHGQK----PTAASKGPEREKPTTSL  547 (561)
Q Consensus       479 ~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c~~-~~~~~~~----~~~~l~~L~~L~i~~c~  547 (561)
                      .++++|++|+++++ +++.+|.     ....+++|+.|++.++.- .+....+    ......+|+.|.+.+.+
T Consensus       216 ~~l~~L~~L~L~~N-~L~~lp~-----~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         216 ANTPHLRELHLNNN-KLVKVPG-----GLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             GGSTTCCEEECCSS-CCSSCCT-----TTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             cccccceeeecccc-ccccccc-----ccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            57899999999996 7888873     346789999999999864 4432221    23456788999998876

>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=99.60  E-value=1.3e-14  Score=131.34  Aligned_cols=163  Identities=22%  Similarity=0.256  Sum_probs=137.0

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++++.+.++.+..++..-.+++|++|+++++.  +..++.  ++.+++|++|++++|.++.+| .+..+++|++|++.
T Consensus        46 ~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~--i~~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNK--LTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             cCccEEECcCCCCCCchhHhhCCCCCEEeCCCcc--ccCccc--cccCccccccccccccccccc-cccccccccccccc
Confidence            4688999999999887754479999999999997  667775  589999999999999999887 58999999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.+..++.+..+++|+.++++++.+...+               .++++++|+++++++|....          +..+.
T Consensus       121 ~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~---------------~~~~l~~L~~l~l~~n~l~~----------i~~l~  175 (210)
T d1h6ta2         121 HNGISDINGLVHLPQLESLYLGNNKITDIT---------------VLSRLTKLDTLSLEDNQISD----------IVPLA  175 (210)
T ss_dssp             TSCCCCCGGGGGCTTCCEEECCSSCCCCCG---------------GGGGCTTCSEEECCSSCCCC----------CGGGT
T ss_pred             cccccccccccccccccccccccccccccc---------------cccccccccccccccccccc----------ccccc
Confidence            999877777889999999999998776543               15678899999999886531          23478


Q ss_pred             CCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          383 GLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                      ++++|+.|+++.|.++.++....+++|+.|+++
T Consensus       176 ~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         176 GLTKLQNLYLSKNHISDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             TCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEE
T ss_pred             CCCCCCEEECCCCCCCCChhhcCCCCCCEEEcc
Confidence            899999999999999888877788999999985

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.58  E-value=2.7e-14  Score=140.15  Aligned_cols=168  Identities=17%  Similarity=0.187  Sum_probs=120.0

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .++++|+++++.+..+|+.  .++|++|+++++.  +..+|.    .+.+|+.|++++|.++.++.-   -.+|++|+++
T Consensus        38 ~~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~--l~~lp~----~~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~  106 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPEL--PPHLESLVASCNS--LTELPE----LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVS  106 (353)
T ss_dssp             HTCSEEECTTSCCSCCCSC--CTTCSEEECCSSC--CSSCCC----CCTTCCEEECCSSCCSCCCSC---CTTCCEEECC
T ss_pred             cCCCEEEeCCCCCCCCCCC--CCCCCEEECCCCC--Cccccc----chhhhhhhhhhhcccchhhhh---cccccccccc
Confidence            4678999999999999863  5789999999987  778885    356899999999998877631   1369999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccc-----cccCchhhcCCCCCcEEEccCCcccccccCC-----
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-----VVIAPNLISKFSQLEELYMGDSFSQWDKVEG-----  372 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-----~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~-----  372 (561)
                      +|.+...+.++.+.+|++|+++++.+...|.....+..+     .......++.++.++.|.+.++.........     
T Consensus       107 ~n~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~~~~~~~~~  186 (353)
T d1jl5a_         107 NNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLES  186 (353)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCCCTTCCE
T ss_pred             ccccccccchhhhccceeeccccccccccccccccccchhhccccccccccccccccceecccccccccccccccccccc
Confidence            999988445789999999999999888888776666655     1122223677888999998877543211110     


Q ss_pred             -----CcccchHhhcCCCCCcEEEEeeccCcccC
Q 041360          373 -----GSNASLAELKGLSKLTTLEIQVRDAQILP  401 (561)
Q Consensus       373 -----~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  401 (561)
                           ...........++.|+.+.++.+....++
T Consensus       187 l~~~~~~~~~~~~~~~l~~L~~l~l~~n~~~~~~  220 (353)
T d1jl5a_         187 IVAGNNILEELPELQNLPFLTTIYADNNLLKTLP  220 (353)
T ss_dssp             EECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCC
T ss_pred             cccccccccccccccccccccccccccccccccc
Confidence                 01112233455667777777766655444

>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=99.57  E-value=2.8e-14  Score=127.90  Aligned_cols=160  Identities=17%  Similarity=0.223  Sum_probs=131.8

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++.++.+..+...-.+++|++|+++++.  +..+++  ++++++|++|++++|.+..++. ++.+++|++|+++
T Consensus        40 ~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~--l~~~~~--l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l~  114 (199)
T d2omxa2          40 DQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQ--LTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  114 (199)
T ss_dssp             TTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEECC
T ss_pred             cCCCEEECCCCCCCCccccccCCCcCcCcccccc--ccCccc--ccCCcccccccccccccccccc-ccccccccccccc
Confidence            6789999999999887644478999999999987  666765  5899999999999999888874 8899999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.......+..+++|+.|++++|.+..+|               .+..+++|++|++.+|...          .+..++
T Consensus       115 ~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~---------------~l~~~~~L~~L~l~~n~l~----------~l~~l~  169 (199)
T d2omxa2         115 NNQITDIDPLKNLTNLNRLELSSNTISDIS---------------ALSGLTSLQQLNFSSNQVT----------DLKPLA  169 (199)
T ss_dssp             SSCCCCCGGGTTCTTCSEEECCSSCCCCCG---------------GGTTCTTCSEEECCSSCCC----------CCGGGT
T ss_pred             ccccccccccchhhhhHHhhhhhhhhcccc---------------ccccccccccccccccccc----------CCcccc
Confidence            998777666888999999999998776543               1678889999999888653          123478


Q ss_pred             CCCCCcEEEEeeccCcccCcccccccccEE
Q 041360          383 GLSKLTTLEIQVRDAQILPQDLVLVELQRY  412 (561)
Q Consensus       383 ~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L  412 (561)
                      ++++|+.|+++.|.++.++....+++|++|
T Consensus       170 ~l~~L~~L~ls~N~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         170 NLTTLERLDISSNKVSDISVLAKLTNLESL  199 (199)
T ss_dssp             TCTTCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             CCCCCCEEECCCCCCCCCccccCCCCCCcC
Confidence            899999999999998888766677888765

>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=99.52  E-value=6.9e-14  Score=128.27  Aligned_cols=79  Identities=19%  Similarity=0.308  Sum_probs=36.2

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEc
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSF  323 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l  323 (561)
                      +.+|+.|.+.++.  +..++.  ++++++|++|++++|.+..+++ +..+++|+++++++|.++..+.+.++++|+.+++
T Consensus        40 l~~L~~L~l~~~~--i~~l~~--l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n~~~~i~~l~~l~~L~~l~l  114 (227)
T d1h6ua2          40 LDGITTLSAFGTG--VTTIEG--VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDL  114 (227)
T ss_dssp             HHTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEEC
T ss_pred             cCCcCEEECCCCC--CCcchh--HhcCCCCcEeecCCceeecccc-cccccccccccccccccccccccccccccccccc
Confidence            3444444444443  333322  2445555555555554444432 4444455555555444444334444445555554


Q ss_pred             cCCc
Q 041360          324 RDSY  327 (561)
Q Consensus       324 ~~~~  327 (561)
                      +++.
T Consensus       115 ~~~~  118 (227)
T d1h6ua2         115 TSTQ  118 (227)
T ss_dssp             TTSC
T ss_pred             cccc
Confidence            4443

>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=99.51  E-value=6.4e-14  Score=131.78  Aligned_cols=164  Identities=16%  Similarity=0.144  Sum_probs=138.4

Q ss_pred             ccCCCceEEEccCCCccccCCc-c-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCc
Q 041360          220 TKQKGPIAISLPHRDIQELPER-L-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQ  297 (561)
Q Consensus       220 ~~~~~l~~l~l~~~~~~~l~~~-~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~  297 (561)
                      +| ..+++|++++|.+..++.. + .+++|++|+++++.  +..++.  ++.+++|++|++++|.+...|..+..+++|+
T Consensus        29 lp-~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~--l~~l~~--~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~  103 (266)
T d1p9ag_          29 LP-KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAE--LTKLQV--DGTLPVLGTLDLSHNQLQSLPLLGQTLPALT  103 (266)
T ss_dssp             CC-TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSC--CCEEEC--CSCCTTCCEEECCSSCCSSCCCCTTTCTTCC
T ss_pred             cC-cCCCEEECcCCcCCCcCHHHhhcccccccccccccc--cccccc--ccccccccccccccccccccccccccccccc
Confidence            44 7899999999999988864 3 79999999999997  777775  5789999999999999999999999999999


Q ss_pred             EEEeCCCCCCC--cccccCCCCCcEEEccCCcCcccChhh-hccccc----------cccCchhhcCCCCCcEEEccCCc
Q 041360          298 TLCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHEI-GQLTRL----------VVIAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       298 ~L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i-~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~  364 (561)
                      +|+++++.+..  +..+..+.++++|++++|.+..+|.++ ..+.+|          ..++...++.+++|++|++++|.
T Consensus       104 ~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~  183 (266)
T d1p9ag_         104 VLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENS  183 (266)
T ss_dssp             EEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cccccccccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCC
Confidence            99999999777  477889999999999999999887653 334444          56676668999999999999998


Q ss_pred             ccccccCCCcccchHhhcCCCCCcEEEEeeccC
Q 041360          365 SQWDKVEGGSNASLAELKGLSKLTTLEIQVRDA  397 (561)
Q Consensus       365 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  397 (561)
                      +. .++        ..+..+++|+.|.++.|..
T Consensus       184 L~-~lp--------~~~~~~~~L~~L~L~~Np~  207 (266)
T d1p9ag_         184 LY-TIP--------KGFFGSHLLPFAFLHGNPW  207 (266)
T ss_dssp             CC-CCC--------TTTTTTCCCSEEECCSCCB
T ss_pred             Cc-ccC--------hhHCCCCCCCEEEecCCCC
Confidence            65 343        4566789999999998865

>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=99.48  E-value=1.7e-13  Score=130.18  Aligned_cols=213  Identities=18%  Similarity=0.211  Sum_probs=124.9

Q ss_pred             EEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCc-hhhcCCCCCcEEEeCCC-C
Q 041360          228 ISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLP-SSLGRLFNLQTLCLGGC-R  305 (561)
Q Consensus       228 l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp-~~i~~L~~L~~L~l~~~-~  305 (561)
                      +..++..+..+|..+ .+.+++|+++++.  +..+|...|.++++|++|+++++.+..++ ..+..+..++.+....+ .
T Consensus        16 v~c~~~~L~~iP~~i-p~~~~~L~Ls~N~--i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~   92 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI-PAASQRIFLHGNR--ISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ   92 (284)
T ss_dssp             EECCSSCCSSCCTTC-CTTCSEEECTTSC--CCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTT
T ss_pred             EEcCCCCCCccCCCC-CCCCCEEECcCCc--CCCCCHHHhhccccccccccccccccccccccccccccccccccccccc
Confidence            445555566666544 2456777777776  66777666677777777777777777653 34456667777766544 3


Q ss_pred             CCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcC
Q 041360          306 LKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKG  383 (561)
Q Consensus       306 l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~  383 (561)
                      +..  +..+.++++|++|++++|.+..++.             ..+..+.+|+.+++.+|.......        ..++.
T Consensus        93 ~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~-------------~~~~~~~~L~~l~l~~N~l~~i~~--------~~f~~  151 (284)
T d1ozna_          93 LRSVDPATFHGLGRLHTLHLDRCGLQELGP-------------GLFRGLAALQYLYLQDNALQALPD--------DTFRD  151 (284)
T ss_dssp             CCCCCTTTTTTCTTCCEEECTTSCCCCCCT-------------TTTTTCTTCCEEECCSSCCCCCCT--------TTTTT
T ss_pred             cccccchhhcccccCCEEecCCcccccccc-------------cccchhcccchhhhccccccccCh--------hHhcc
Confidence            555  4667777777777777776554432             224566677777777765432111        34566


Q ss_pred             CCCCcEEEEeeccCcccCccc--ccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHhhcccccee
Q 041360          384 LSKLTTLEIQVRDAQILPQDL--VLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKMLLKEAEEIH  461 (561)
Q Consensus       384 l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~  461 (561)
                      +++|+.|+++.|.+..++...  .+++|+.+.+.....                       ....+.++..+ ++|++|+
T Consensus       152 ~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l-----------------------~~i~~~~f~~l-~~L~~L~  207 (284)
T d1ozna_         152 LGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRV-----------------------AHVHPHAFRDL-GRLMTLY  207 (284)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC-----------------------CEECTTTTTTC-TTCCEEE
T ss_pred             ccchhhcccccCcccccchhhhccccccchhhhhhccc-----------------------cccChhHhhhh-hhccccc
Confidence            667777777777766554432  455666655532110                       11112333333 6677777


Q ss_pred             eccccCcccccccccCCCCCCCccEEEEec
Q 041360          462 LNELKGVQNAVHELDDGEGFPRLKHLRVES  491 (561)
Q Consensus       462 l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  491 (561)
                      ++++. +..++...  .+.+++|++|++++
T Consensus       208 l~~N~-i~~~~~~~--~~~~~~L~~L~l~~  234 (284)
T d1ozna_         208 LFANN-LSALPTEA--LAPLRALQYLRLND  234 (284)
T ss_dssp             CCSSC-CSCCCHHH--HTTCTTCCEEECCS
T ss_pred             ccccc-cccccccc--cccccccCEEEecC
Confidence            76643 33333221  24567777777765

>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=99.47  E-value=2.7e-13  Score=121.37  Aligned_cols=144  Identities=17%  Similarity=0.272  Sum_probs=120.2

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      ++++++.|+++++.  +..+..  ++.+++|++|++++|.++.+++ ++.+++|++|++++|.+...+.++++++|++|+
T Consensus        38 ~l~~l~~L~l~~~~--i~~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~  112 (199)
T d2omxa2          38 DLDQVTTLQADRLG--IKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLT  112 (199)
T ss_dssp             HHTTCCEEECTTSC--CCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEE
T ss_pred             HhcCCCEEECCCCC--CCCccc--cccCCCcCcCccccccccCccc-ccCCccccccccccccccccccccccccccccc
Confidence            57889999999997  666654  4889999999999999998876 899999999999999988855689999999999


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQ  402 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  402 (561)
                      +++|....++               .+.++++|+.|++++|...          .+..+..+++|+.|.+.+|.++.++.
T Consensus       113 l~~~~~~~~~---------------~~~~l~~L~~L~l~~n~l~----------~~~~l~~~~~L~~L~l~~n~l~~l~~  167 (199)
T d2omxa2         113 LFNNQITDID---------------PLKNLTNLNRLELSSNTIS----------DISALSGLTSLQQLNFSSNQVTDLKP  167 (199)
T ss_dssp             CCSSCCCCCG---------------GGTTCTTCSEEECCSSCCC----------CCGGGTTCTTCSEEECCSSCCCCCGG
T ss_pred             cccccccccc---------------ccchhhhhHHhhhhhhhhc----------ccccccccccccccccccccccCCcc
Confidence            9988765442               2678899999999988652          12457889999999999999988887


Q ss_pred             ccccccccEEEEEe
Q 041360          403 DLVLVELQRYKICI  416 (561)
Q Consensus       403 ~~~~~~L~~L~l~~  416 (561)
                      ...+++|+.|++..
T Consensus       168 l~~l~~L~~L~ls~  181 (199)
T d2omxa2         168 LANLTTLERLDISS  181 (199)
T ss_dssp             GTTCTTCCEEECCS
T ss_pred             ccCCCCCCEEECCC
Confidence            67888999988853

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.46  E-value=1.1e-12  Score=119.96  Aligned_cols=177  Identities=16%  Similarity=0.204  Sum_probs=129.6

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++.+++.++.+..++..-.+++|+.|+++++.  +..+++  +.++++|+++++++|.++.++ .+..+++|++++++
T Consensus        41 ~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~--i~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l~  115 (227)
T d1h6ua2          41 DGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQ--ITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLT  115 (227)
T ss_dssp             HTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSC--CCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECT
T ss_pred             CCcCEEECCCCCCCcchhHhcCCCCcEeecCCce--eecccc--ccccccccccccccccccccc-cccccccccccccc
Confidence            5789999999999888644489999999999987  666655  589999999999999988776 58899999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccc--------cCchhhcCCCCCcEEEccCCcccccccCCCc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVV--------IAPNLISKFSQLEELYMGDSFSQWDKVEGGS  374 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~--------l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~  374 (561)
                      +|.......+...+.++.+.++.+.+...+. +.+..+|+.        .....++++++|++|++++|... .      
T Consensus       116 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~Ls~n~l~-~------  187 (227)
T d1h6ua2         116 STQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKIS-D------  187 (227)
T ss_dssp             TSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCC-C------
T ss_pred             cccccccchhccccchhhhhchhhhhchhhh-hccccccccccccccccccchhhcccccceecccCCCccC-C------
Confidence            9987776667788889999998887665432 233333311        11122667777777777776532 1      


Q ss_pred             ccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEE
Q 041360          375 NASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKIC  415 (561)
Q Consensus       375 ~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~  415 (561)
                         +..++++++|+.|+++.|.++.++....+++|+.|++.
T Consensus       188 ---l~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         188 ---ISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             ---CGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEE
T ss_pred             ---ChhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEee
Confidence               13366677777777777777777665567777777763

>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=99.43  E-value=7.1e-13  Score=125.85  Aligned_cols=182  Identities=23%  Similarity=0.363  Sum_probs=122.6

Q ss_pred             CCceEEEccCCCccccCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEec-CCCCCCC-chhhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQELPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLT-GVRFSSL-PSSLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~-~~~i~~l-p~~i~~L~~L~~  298 (561)
                      ..++.|++++|++..+|...  .+++|+.|+++++.  +..++...+..+..++.++.. .+.+..+ |..+..+++|++
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~--l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~  109 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV--LARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHT  109 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC--CCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCE
T ss_pred             CCCCEEECcCCcCCCCCHHHhhcccccccccccccc--ccccccccccccccccccccccccccccccchhhcccccCCE
Confidence            67899999999999998753  89999999999987  777777777888999998875 4457776 567889999999


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccChh-hhccccc----------cccCchhhcCCCCCcEEEccCCcc
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELPHE-IGQLTRL----------VVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~-i~~L~~L----------~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      |++++|.+..  +..++...+|+.+++++|.++.+|.+ +..+++|          ..++...+.++++|+.+++.+|..
T Consensus       110 L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l  189 (284)
T d1ozna_         110 LHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRV  189 (284)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCC
T ss_pred             EecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccc
Confidence            9999999776  46788889999999999988887643 2222222          223333344555555555555443


Q ss_pred             cccccCCCcccchHhhcCCCCCcEEEEeeccCcccCccc--ccccccEEEE
Q 041360          366 QWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDL--VLVELQRYKI  414 (561)
Q Consensus       366 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~L~l  414 (561)
                      ....+        ..+.++++|+.|+++.|.+..++...  .+++|+.|++
T Consensus       190 ~~i~~--------~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         190 AHVHP--------HAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             CEECT--------TTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             cccCh--------hHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            32222        33444555555555555554443321  3444444444

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.41  E-value=9.5e-13  Score=107.54  Aligned_cols=102  Identities=20%  Similarity=0.214  Sum_probs=66.0

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEEccCCc
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILSFRDSY  327 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~l~~~~  327 (561)
                      |+|+++++.  +..++.  ++++.+|++|++++|.++.+|++++.+++|++|++++|.++..+.++.+++|++|++++|.
T Consensus         1 R~L~Ls~n~--l~~l~~--l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKD--LTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSC--CSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCC--CCCCcc--cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccCccccccccCeEECCCCc
Confidence            456666665  455553  3667777777777777777776677777777777777777664456777777777777776


Q ss_pred             CcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          328 IEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       328 ~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +..+|.-            ..++++++|+.|++++|..
T Consensus        77 i~~~~~~------------~~l~~~~~L~~L~l~~N~i  102 (124)
T d1dcea3          77 LQQSAAI------------QPLVSCPRLVLLNLQGNSL  102 (124)
T ss_dssp             CCSSSTT------------GGGGGCTTCCEEECTTSGG
T ss_pred             cCCCCCc------------hhhcCCCCCCEEECCCCcC
Confidence            6655420            1145666677777766654

>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=99.39  E-value=3.1e-12  Score=115.30  Aligned_cols=142  Identities=25%  Similarity=0.403  Sum_probs=122.4

Q ss_pred             CCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeC
Q 041360          223 KGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLG  302 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~  302 (561)
                      .+++++++++|++..++....+++|+.|+++++.  +..++.  +.++++|+.|+++++.+..++ .+..+++|++++++
T Consensus        68 ~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~--i~~l~~--l~~l~~L~~L~l~~~~~~~~~-~l~~l~~l~~l~~~  142 (210)
T d1h6ta2          68 PNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENK--VKDLSS--LKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLG  142 (210)
T ss_dssp             TTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC--CCCGGG--GTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECC
T ss_pred             CCCCEEeCCCccccCccccccCcccccccccccc--cccccc--ccccccccccccccccccccc-cccccccccccccc
Confidence            6899999999999888876689999999999997  777775  589999999999999988765 58899999999999


Q ss_pred             CCCCCCcccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhc
Q 041360          303 GCRLKDIAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELK  382 (561)
Q Consensus       303 ~~~l~~p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~  382 (561)
                      +|.+..+..+..+++|+++++++|.+..++.               ++++++|++|++++|.+.          .+..+.
T Consensus       143 ~n~l~~~~~~~~l~~L~~l~l~~n~l~~i~~---------------l~~l~~L~~L~Ls~N~i~----------~l~~l~  197 (210)
T d1h6ta2         143 NNKITDITVLSRLTKLDTLSLEDNQISDIVP---------------LAGLTKLQNLYLSKNHIS----------DLRALA  197 (210)
T ss_dssp             SSCCCCCGGGGGCTTCSEEECCSSCCCCCGG---------------GTTCTTCCEEECCSSCCC----------BCGGGT
T ss_pred             ccccccccccccccccccccccccccccccc---------------ccCCCCCCEEECCCCCCC----------CChhhc
Confidence            9999887778899999999999998775531               678999999999998652          124588


Q ss_pred             CCCCCcEEEEee
Q 041360          383 GLSKLTTLEIQV  394 (561)
Q Consensus       383 ~l~~L~~L~l~~  394 (561)
                      ++++|+.|+|+.
T Consensus       198 ~l~~L~~L~Ls~  209 (210)
T d1h6ta2         198 GLKNLDVLELFS  209 (210)
T ss_dssp             TCTTCSEEEEEE
T ss_pred             CCCCCCEEEccC
Confidence            999999999974

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.38  E-value=1.2e-12  Score=106.88  Aligned_cols=103  Identities=17%  Similarity=0.162  Sum_probs=91.6

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCR  305 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~  305 (561)
                      |.+++++|++..++..-.+++|+.|+++++.  +..+|..+ +.+++|++|++++|.++.+|. ++.+++|++|++++|+
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~~L~~L~ls~N~--l~~lp~~~-~~l~~L~~L~l~~N~i~~l~~-~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNR--LRALPPAL-AALRCLEVLQASDNALENVDG-VANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSC--CCCCCGGG-GGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCc--cCcchhhh-hhhhcccccccccccccccCc-cccccccCeEECCCCc
Confidence            5789999999988865589999999999997  88898775 899999999999999999974 9999999999999999


Q ss_pred             CCC-c--ccccCCCCCcEEEccCCcCcccC
Q 041360          306 LKD-I--AIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       306 l~~-p--~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      +.. +  ..++.+++|++|++++|.+...+
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             cCCCCCchhhcCCCCCCEEECCCCcCCcCc
Confidence            887 3  67899999999999999876554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.1e-12  Score=112.66  Aligned_cols=108  Identities=14%  Similarity=0.075  Sum_probs=59.8

Q ss_pred             cCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-ccc-ccCCCCCc
Q 041360          242 LQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAI-VGQLKKLE  319 (561)
Q Consensus       242 ~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~-i~~L~~L~  319 (561)
                      ..+.++|.|+++++.  +..++. ++..+++|++|++++|.++.++ .+..+++|++|++++|.++. ++. +..+++|+
T Consensus        15 ~n~~~lr~L~L~~n~--I~~i~~-~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          15 TNAVRDRELDLRGYK--IPVIEN-LGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLT   90 (162)
T ss_dssp             ECTTSCEEEECTTSC--CCSCCC-GGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCC
T ss_pred             cCcCcCcEEECCCCC--CCccCc-cccccccCCEEECCCCCCCccC-CcccCcchhhhhcccccccCCCccccccccccc
Confidence            345556666666665  555543 2355666666666666666553 35566666666666666655 332 34566666


Q ss_pred             EEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       320 ~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +|++++|++..++.          +  ..+.++++|++|++++|..
T Consensus        91 ~L~L~~N~i~~~~~----------l--~~l~~l~~L~~L~l~~N~i  124 (162)
T d1a9na_          91 ELILTNNSLVELGD----------L--DPLASLKSLTYLCILRNPV  124 (162)
T ss_dssp             EEECCSCCCCCGGG----------G--GGGGGCTTCCEEECCSSGG
T ss_pred             cceecccccccccc----------c--cccccccccchhhcCCCcc
Confidence            66666665554431          0  1144555666666666543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.33  E-value=2.6e-11  Score=118.30  Aligned_cols=267  Identities=15%  Similarity=0.130  Sum_probs=170.2

Q ss_pred             cccCCCceEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcE
Q 041360          219 ETKQKGPIAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQT  298 (561)
Q Consensus       219 ~~~~~~l~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~  298 (561)
                      .++ +++++|++++|++..+|..  ..+|+.|++.++.  +..++.    -...|++|++++|.+..+|. ++.+.+|++
T Consensus        55 ~~~-~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~--l~~l~~----lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~  124 (353)
T d1jl5a_          55 ELP-PHLESLVASCNSLTELPEL--PQSLKSLLVDNNN--LKALSD----LPPLLEYLGVSNNQLEKLPE-LQNSSFLKI  124 (353)
T ss_dssp             SCC-TTCSEEECCSSCCSSCCCC--CTTCCEEECCSSC--CSCCCS----CCTTCCEEECCSSCCSSCCC-CTTCTTCCE
T ss_pred             CCC-CCCCEEECCCCCCcccccc--hhhhhhhhhhhcc--cchhhh----hccccccccccccccccccc-hhhhcccee
Confidence            344 7899999999999999874  5689999999987  555553    12469999999999999985 688999999


Q ss_pred             EEeCCCCCCC-c-------------------ccccCCCCCcEEEccCCcCcccChhhhccccc-------cccCchhhcC
Q 041360          299 LCLGGCRLKD-I-------------------AIVGQLKKLEILSFRDSYIEELPHEIGQLTRL-------VVIAPNLISK  351 (561)
Q Consensus       299 L~l~~~~l~~-p-------------------~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L-------~~l~~~~i~~  351 (561)
                      |+++++.+.. +                   ..++.+..++.|+++++.....+........+       ..++.  ...
T Consensus       125 L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~  202 (353)
T d1jl5a_         125 IDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPE--LQN  202 (353)
T ss_dssp             EECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCCC--CTT
T ss_pred             eccccccccccccccccccchhhccccccccccccccccceeccccccccccccccccccccccccccccccccc--ccc
Confidence            9999887543 2                   23556677888888877666655443333222       23333  577


Q ss_pred             CCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEec--cccccCCCCccc
Q 041360          352 FSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIG--EAWRMWGVTSEI  429 (561)
Q Consensus       352 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~--~~~~~~~~~~~~  429 (561)
                      ++.|+.+++.+|.....            .....++..+.+..+.....+.  ..+++....+...  ..++.....   
T Consensus       203 l~~L~~l~l~~n~~~~~------------~~~~~~l~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~l~~l~~~---  265 (353)
T d1jl5a_         203 LPFLTTIYADNNLLKTL------------PDLPPSLEALNVRDNYLTDLPE--LPQSLTFLDVSENIFSGLSELPPN---  265 (353)
T ss_dssp             CTTCCEEECCSSCCSSC------------CSCCTTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSEESCCCTT---
T ss_pred             ccccccccccccccccc------------cccccccccccccccccccccc--ccccccccccccccccccccccch---
Confidence            89999999988754311            1224567777777666554333  2233433332111  111111111   


Q ss_pred             cceEEEecCCccchhhhhhhHHHhhccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCc
Q 041360          430 SRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKV  509 (561)
Q Consensus       430 ~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~  509 (561)
                        ........+. ..    .+...+++|++|+++++ .++.++.      .+++|+.|++++| +++.+|        ..
T Consensus       266 --~~~~~~~~~~-~~----~~~~~~~~L~~L~Ls~N-~l~~lp~------~~~~L~~L~L~~N-~L~~l~--------~~  322 (353)
T d1jl5a_         266 --LYYLNASSNE-IR----SLCDLPPSLEELNVSNN-KLIELPA------LPPRLERLIASFN-HLAEVP--------EL  322 (353)
T ss_dssp             --CCEEECCSSC-CS----EECCCCTTCCEEECCSS-CCSCCCC------CCTTCCEEECCSS-CCSCCC--------CC
T ss_pred             --hcccccccCc-cc----cccccCCCCCEEECCCC-ccCcccc------ccCCCCEEECCCC-cCCccc--------cc
Confidence              1111111111 11    11122489999999986 4555543      4889999999885 788887        45


Q ss_pred             Cccccccccccccc-cccCCCCCCCCCCCCcccCC
Q 041360          510 FPLLESLSLKKASF-VILHGQKPTAASKGPEREKP  543 (561)
Q Consensus       510 ~~~L~~L~l~~c~~-~~~~~~~~~~~l~~L~~L~i  543 (561)
                      +++|++|++.+|+- .++..      ..+|+.|++
T Consensus       323 ~~~L~~L~L~~N~L~~lp~~------~~~L~~L~~  351 (353)
T d1jl5a_         323 PQNLKQLHVEYNPLREFPDI------PESVEDLRM  351 (353)
T ss_dssp             CTTCCEEECCSSCCSSCCCC------CTTCCEEEC
T ss_pred             cCCCCEEECcCCcCCCCCcc------ccccCeeEC
Confidence            77999999999985 44322      235666665

>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=99.32  E-value=1.6e-12  Score=123.07  Aligned_cols=61  Identities=16%  Similarity=0.197  Sum_probs=31.7

Q ss_pred             ccccceeeccccCcccccccccCCCCCCCccEEEEecCCccchhhcccCcccCCcCccccccccccc
Q 041360          455 KEAEEIHLNELKGVQNAVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVRRKVFPLLESLSLKKA  521 (561)
Q Consensus       455 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~~~~~L~~L~l~~c  521 (561)
                      |+|++|++++|..+++-....  ...+++|++|++++|++++.-.-    .....+|+|+.|++.+|
T Consensus       175 ~~L~~L~L~~~~~itd~~~~~--l~~~~~L~~L~L~~C~~i~~~~l----~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         175 PNLVHLDLSDSVMLKNDCFQE--FFQLNYLQHLSLSRCYDIIPETL----LELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             TTCSEEECTTCTTCCGGGGGG--GGGCTTCCEEECTTCTTCCGGGG----GGGGGCTTCCEEECTTS
T ss_pred             ccccccccccccCCCchhhhh--hcccCcCCEEECCCCCCCChHHH----HHHhcCCCCCEEeeeCC
Confidence            566666666665554322111  23456666666666665543210    12344566666666666

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=1.5e-12  Score=111.93  Aligned_cols=106  Identities=15%  Similarity=0.119  Sum_probs=63.2

Q ss_pred             CCceEEEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhh-cCCCCCcEEE
Q 041360          223 KGPIAISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSL-GRLFNLQTLC  300 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i-~~L~~L~~L~  300 (561)
                      .++|.|++++|++..++... .+++|+.|++++|.  +..++.  |+.+++|++|++++|.++.+|+.+ ..+++|++|+
T Consensus        18 ~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~--i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~   93 (162)
T d1a9na_          18 VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNE--IRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             TSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSC--CCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             CcCcEEECCCCCCCccCccccccccCCEEECCCCC--CCccCC--cccCcchhhhhcccccccCCCccccccccccccce
Confidence            34666666666666665433 45666666666665  445543  456666666666666666665433 4566666666


Q ss_pred             eCCCCCCC-c--ccccCCCCCcEEEccCCcCcccC
Q 041360          301 LGGCRLKD-I--AIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       301 l~~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      +++|.+.. +  ..+..+++|++|++++|.+..+|
T Consensus        94 L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~  128 (162)
T d1a9na_          94 LTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKK  128 (162)
T ss_dssp             CCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGST
T ss_pred             eccccccccccccccccccccchhhcCCCcccccc
Confidence            66666655 2  34556666666666666555444

>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=99.29  E-value=1.7e-11  Score=113.07  Aligned_cols=73  Identities=11%  Similarity=0.177  Sum_probs=39.0

Q ss_pred             cEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC---cccccCCCCCcEEEc
Q 041360          248 ELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD---IAIVGQLKKLEILSF  323 (561)
Q Consensus       248 ~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~---p~~i~~L~~L~~L~l  323 (561)
                      ++++.++..  +..+|..++   +++++|++++|.++.+|. .+.++++|++|++++|.+..   +..+..+++++++++
T Consensus        11 ~~i~c~~~~--l~~iP~~l~---~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~   85 (242)
T d1xwdc1          11 RVFLCQESK--VTEIPSDLP---RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRI   85 (242)
T ss_dssp             SEEEEESCS--CSSCCSCSC---SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEE
T ss_pred             CEEEEeCCC--CCCcCCCCC---CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccc
Confidence            344554443  445554432   355666666666666544 35556666666666665443   234555556666555


Q ss_pred             cC
Q 041360          324 RD  325 (561)
Q Consensus       324 ~~  325 (561)
                      ..
T Consensus        86 ~~   87 (242)
T d1xwdc1          86 EK   87 (242)
T ss_dssp             EC
T ss_pred             cc
Confidence            43

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.28  E-value=6.8e-12  Score=111.33  Aligned_cols=126  Identities=18%  Similarity=0.239  Sum_probs=104.0

Q ss_pred             eEEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCC
Q 041360          226 IAISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       226 ~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~  304 (561)
                      +.++.+++++..+|..+ .++++.|+++++. ....++...|+++++|+.|++++|.+..+ +..+..+.+|++|+|++|
T Consensus        11 ~~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~-i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDI-PLHTTELLLNDNE-LGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCSEEECCSCC-CCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEeCCCcCccCCCC-CCCCCEEEeCCCC-CcccccccccCCCceEeeeeccccccccccccccccccccceeeeccc
Confidence            36777888888888765 3789999999997 22346666679999999999999999886 567888999999999999


Q ss_pred             CCCC--cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          305 RLKD--IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       305 ~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      +++.  +..+.++++|++|++++|.+..+|.+             .+..+++|++|++++|...
T Consensus        89 ~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~-------------~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          89 KIKEISNKMFLGLHQLKTLNLYDNQISCVMPG-------------SFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCCEECSSSSTTCTTCCEEECCSSCCCEECTT-------------SSTTCTTCCEEECTTCCBC
T ss_pred             cccccCHHHHhCCCcccccccCCccccccCHH-------------HhcCCcccccccccccccc
Confidence            9988  46789999999999999998877643             3678889999999988654

>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=99.21  E-value=3.9e-12  Score=120.43  Aligned_cols=205  Identities=16%  Similarity=0.103  Sum_probs=112.6

Q ss_pred             ccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC--c-ccccCCCCCcEEEccCCcCcccChhhhccccccccCchhh
Q 041360          273 VKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD--I-AIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLI  349 (561)
Q Consensus       273 Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~--p-~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i  349 (561)
                      +..+.++.+.+...........+|++|++++|.+..  . ..+.++++|++|++++|.+..-            .+ ..+
T Consensus        25 ~~~lrl~~~~~~~~~~~~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~------------~~-~~l   91 (284)
T d2astb2          25 VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDP------------IV-NTL   91 (284)
T ss_dssp             CSEEECTTCEECSCCCSCCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHH------------HH-HHH
T ss_pred             ceEeeccccccccchhhhccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcH------------HH-HHH
Confidence            445555554443333333445567777777776544  2 4456667777777776654311            00 124


Q ss_pred             cCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcccCcccccccccEEEEEeccccccCCCCccc
Q 041360          350 SKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQILPQDLVLVELQRYKICIGEAWRMWGVTSEI  429 (561)
Q Consensus       350 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  429 (561)
                      +++++|++|++++|....+      .....-..++++|++|+++++                      ..+.        
T Consensus        92 ~~~~~L~~L~Ls~c~~itd------~~l~~l~~~~~~L~~L~ls~c----------------------~~~~--------  135 (284)
T d2astb2          92 AKNSNLVRLNLSGCSGFSE------FALQTLLSSCSRLDELNLSWC----------------------FDFT--------  135 (284)
T ss_dssp             TTCTTCSEEECTTCBSCCH------HHHHHHHHHCTTCCEEECCCC----------------------TTCC--------
T ss_pred             hcCCCCcCccccccccccc------cccchhhHHHHhccccccccc----------------------cccc--------
Confidence            5566677777666543211      111112234455555555432                      1110        


Q ss_pred             cceEEEecCCccchhhhhhhHHHhhccccceeecccc-Cccc--ccccccCCCCCCCccEEEEecCCccchhhcccCccc
Q 041360          430 SRLVRLHGLENVSTLLENYGMKMLLKEAEEIHLNELK-GVQN--AVHELDDGEGFPRLKHLRVESCSEILHIVGSVGRVR  506 (561)
Q Consensus       430 ~~l~~L~~~~~~~~~~~~~~~~~ll~~L~~L~l~~~~-~~~~--~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~  506 (561)
                                   .......+....++|+.|++.+|. .+..  +.. +  ...+|+|++|++++|+.++.-.-    ..
T Consensus       136 -------------~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~-l--~~~~~~L~~L~L~~~~~itd~~~----~~  195 (284)
T d2astb2         136 -------------EKHVQVAVAHVSETITQLNLSGYRKNLQKSDLST-L--VRRCPNLVHLDLSDSVMLKNDCF----QE  195 (284)
T ss_dssp             -------------HHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH-H--HHHCTTCSEEECTTCTTCCGGGG----GG
T ss_pred             -------------cccchhhhcccccccchhhhcccccccccccccc-c--ccccccccccccccccCCCchhh----hh
Confidence                         111111222223677888887653 2322  111 1  23589999999999988874221    13


Q ss_pred             CCcCccccccccccccccccCCCCCCCCCCCCcccCCCcc
Q 041360          507 RKVFPLLESLSLKKASFVILHGQKPTAASKGPEREKPTTS  546 (561)
Q Consensus       507 ~~~~~~L~~L~l~~c~~~~~~~~~~~~~l~~L~~L~i~~c  546 (561)
                      ...+|+|++|.+.+|.+-...+...++.+++|+.|++.+|
T Consensus       196 l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         196 FFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             hcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            4568999999999998700112223567899999999988

>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=99.21  E-value=2.9e-11  Score=111.50  Aligned_cols=177  Identities=16%  Similarity=0.151  Sum_probs=98.6

Q ss_pred             EEEccCCCccccCCccCCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC--chhhcCCCCCcEEEeCCC
Q 041360          227 AISLPHRDIQELPERLQCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL--PSSLGRLFNLQTLCLGGC  304 (561)
Q Consensus       227 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l--p~~i~~L~~L~~L~l~~~  304 (561)
                      .+...+..+..+|..+ .+++++|+++++.  +..+|...|.++++|++|++++|.+...  +..+..+.++++|.+..+
T Consensus        12 ~i~c~~~~l~~iP~~l-~~~l~~L~Ls~n~--i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          12 VFLCQESKVTEIPSDL-PRNAIELRFVLTK--LRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             EEEEESCSCSSCCSCS-CSCCSEEEEESCC--CCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             EEEEeCCCCCCcCCCC-CCCCCEEECcCCc--CCccChhHhhccchhhhhhhccccccceeecccccccccccccccccc
Confidence            4555555566666544 2467777777775  6667666567777777777777776553  335667777777776554


Q ss_pred             -CCCC--cccccCCCCCcEEEccCCcCcccCh--hhhccccc----------cccCchhhcCCC-CCcEEEccCCccccc
Q 041360          305 -RLKD--IAIVGQLKKLEILSFRDSYIEELPH--EIGQLTRL----------VVIAPNLISKFS-QLEELYMGDSFSQWD  368 (561)
Q Consensus       305 -~l~~--p~~i~~L~~L~~L~l~~~~~~~lp~--~i~~L~~L----------~~l~~~~i~~l~-~L~~L~l~~~~~~~~  368 (561)
                       .+..  +..+.++++|++|+++++.+...|.  .+..++.+          ..++...+.+++ .++.|++.+|.... 
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~-  167 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQE-  167 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCE-
T ss_pred             ccccccccccccccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccc-
Confidence             3544  4566777777777777776665543  22223333          223333333333 56667776654421 


Q ss_pred             ccCCCcccchHhhcCCCCCcEEE-EeeccCcccCccc--ccccccEEEEE
Q 041360          369 KVEGGSNASLAELKGLSKLTTLE-IQVRDAQILPQDL--VLVELQRYKIC  415 (561)
Q Consensus       369 ~~~~~~~~~~~~l~~l~~L~~L~-l~~~~~~~~~~~~--~~~~L~~L~l~  415 (561)
                      ..        .......++..+. +.++.++.+|...  .+++|+.|++.
T Consensus       168 i~--------~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls  209 (242)
T d1xwdc1         168 IH--------NCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS  209 (242)
T ss_dssp             EC--------TTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECT
T ss_pred             cc--------cccccchhhhccccccccccccccHHHhcCCCCCCEEECC
Confidence            11        1122233443332 3445555555432  45666666663

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.13  E-value=7.2e-11  Score=104.54  Aligned_cols=108  Identities=19%  Similarity=0.190  Sum_probs=93.5

Q ss_pred             CCceEEEccCCCccc-cCCcc--CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcE
Q 041360          223 KGPIAISLPHRDIQE-LPERL--QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQT  298 (561)
Q Consensus       223 ~~l~~l~l~~~~~~~-l~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~  298 (561)
                      ..+++|++++|.+.. ++...  .+++|+.|+++++.  +..++...|..+++|++|++++|.+..+|+ .+..+++|++
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~--i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~  106 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQ--LTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKT  106 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSC--CCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccc--cccccccccccccccceeeeccccccccCHHHHhCCCcccc
Confidence            689999999999965 44433  78999999999997  667777777999999999999999999865 6889999999


Q ss_pred             EEeCCCCCCC--cccccCCCCCcEEEccCCcCcccC
Q 041360          299 LCLGGCRLKD--IAIVGQLKKLEILSFRDSYIEELP  332 (561)
Q Consensus       299 L~l~~~~l~~--p~~i~~L~~L~~L~l~~~~~~~lp  332 (561)
                      |+|++|.++.  +..+..+++|++|++++|.+...+
T Consensus       107 L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~  142 (192)
T d1w8aa_         107 LNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNC  142 (192)
T ss_dssp             EECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSG
T ss_pred             cccCCccccccCHHHhcCCccccccccccccccccc
Confidence            9999999998  467899999999999999766443

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.08  E-value=1.9e-12  Score=115.26  Aligned_cols=107  Identities=17%  Similarity=0.233  Sum_probs=59.8

Q ss_pred             CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCCcccccCCCCCcEEE
Q 041360          243 QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKDIAIVGQLKKLEILS  322 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~p~~i~~L~~L~~L~  322 (561)
                      .+++|+.|+++++.  +..++.  ++++++|++|++++|.++.+|.....+.+|++|++++|.++.++.+..+++|++|+
T Consensus        46 ~L~~L~~L~Ls~n~--I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~~~~~l~~L~~L~  121 (198)
T d1m9la_          46 TLKACKHLALSTNN--IEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCCEEECSEEE--ESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHHHHHHHHHSSEEE
T ss_pred             cccccceeECcccC--CCCccc--ccCCccccChhhcccccccccccccccccccccccccccccccccccccccccccc
Confidence            45666666666654  444543  35566666666666666665554444455666666666665544455566666666


Q ss_pred             ccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcc
Q 041360          323 FRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFS  365 (561)
Q Consensus       323 l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~  365 (561)
                      +++|.+..++. +           ..++.+++|+.|++++|..
T Consensus       122 L~~N~i~~~~~-~-----------~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         122 MSNNKITNWGE-I-----------DKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             ESEEECCCHHH-H-----------HHHTTTTTCSEEEECSSHH
T ss_pred             cccchhccccc-c-----------ccccCCCccceeecCCCcc
Confidence            66665544331 0           1145556666666666543

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.06  E-value=4.4e-12  Score=112.87  Aligned_cols=129  Identities=22%  Similarity=0.179  Sum_probs=99.0

Q ss_pred             ccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCCchhhcCCCCCcEEEeCCCCCCC-cccccCCCCCcEEEccC
Q 041360          247 LELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSLPSSLGRLFNLQTLCLGGCRLKD-IAIVGQLKKLEILSFRD  325 (561)
Q Consensus       247 L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~lp~~i~~L~~L~~L~l~~~~l~~-p~~i~~L~~L~~L~l~~  325 (561)
                      ++.+.+.+....+..++.++ +.+++|++|++++|.|+.++ .+..+++|++|++++|.++. +.....+++|++|++++
T Consensus        25 ~~~~~l~~~~~~i~~l~~sl-~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~  102 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDATL-STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY  102 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHHH-HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSE
T ss_pred             cceeeeecccCchhhhhhHH-hcccccceeECcccCCCCcc-cccCCccccChhhccccccccccccccccccccccccc
Confidence            44445544322356666665 89999999999999999886 58999999999999999888 55555667899999999


Q ss_pred             CcCcccChhhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCcc
Q 041360          326 SYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQI  399 (561)
Q Consensus       326 ~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  399 (561)
                      |.+..++               .+.++++|+.|++++|.+..       -..+..++.+++|+.|.++.|.+..
T Consensus       103 N~i~~l~---------------~~~~l~~L~~L~L~~N~i~~-------~~~~~~l~~l~~L~~L~L~~N~l~~  154 (198)
T d1m9la_         103 NQIASLS---------------GIEKLVNLRVLYMSNNKITN-------WGEIDKLAALDKLEDLLLAGNPLYN  154 (198)
T ss_dssp             EECCCHH---------------HHHHHHHSSEEEESEEECCC-------HHHHHHHTTTTTCSEEEECSSHHHH
T ss_pred             ccccccc---------------cccccccccccccccchhcc-------ccccccccCCCccceeecCCCcccc
Confidence            9877653               15677889999999886531       1223578899999999999887643

>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=98.86  E-value=4.6e-09  Score=88.94  Aligned_cols=100  Identities=14%  Similarity=0.070  Sum_probs=64.5

Q ss_pred             EEccCCCccccCCcc-CCCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCCC-chhhcCCCCCcEEEeCCCC
Q 041360          228 ISLPHRDIQELPERL-QCPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSSL-PSSLGRLFNLQTLCLGGCR  305 (561)
Q Consensus       228 l~l~~~~~~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~l-p~~i~~L~~L~~L~l~~~~  305 (561)
                      +...++.....|..+ .+++|+.|++.++. .+..++...|.++.+|+.|++++|.++.+ |..+..+++|++|+|++|+
T Consensus        13 l~c~~~~~~~~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          13 LRCTRDGALDSLHHLPGAENLTELYIENQQ-HLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             EECCSSCCCTTTTTSCSCSCCSEEECCSCS-SCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEecCCCCccCcccccCccccCeeecCCCc-cccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCC
Confidence            455555555555554 56677777776554 36666666567777777777777777776 3456677777777777777


Q ss_pred             CCC-cccccCCCCCcEEEccCCcC
Q 041360          306 LKD-IAIVGQLKKLEILSFRDSYI  328 (561)
Q Consensus       306 l~~-p~~i~~L~~L~~L~l~~~~~  328 (561)
                      ++. |..+-...+|++|++++|.+
T Consensus        92 l~~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          92 LESLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSSCC
T ss_pred             CcccChhhhccccccccccCCCcc
Confidence            766 54444444677777776654

>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=98.77  E-value=1.4e-08  Score=85.82  Aligned_cols=106  Identities=17%  Similarity=0.147  Sum_probs=83.8

Q ss_pred             CCCccEEEeeccCCCCccccHHHHcCCCCccEEEecCC-CCCCCc-hhhcCCCCCcEEEeCCCCCCC--cccccCCCCCc
Q 041360          244 CPNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGV-RFSSLP-SSLGRLFNLQTLCLGGCRLKD--IAIVGQLKKLE  319 (561)
Q Consensus       244 ~~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~-~i~~lp-~~i~~L~~L~~L~l~~~~l~~--p~~i~~L~~L~  319 (561)
                      +.....++..+..  ...+|..+ .++++|+.|+++++ .++.++ ..+..+++|+.|++++|+++.  +..+..+++|+
T Consensus         7 c~~~~~l~c~~~~--~~~~p~~l-~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~   83 (156)
T d2ifga3           7 PHGSSGLRCTRDG--ALDSLHHL-PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLS   83 (156)
T ss_dssp             CSSSSCEECCSSC--CCTTTTTS-CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCC
T ss_pred             cCCCCeEEecCCC--CccCcccc-cCccccCeeecCCCccccccCchhhccccccCcceeeccccCCccccccccccccc
Confidence            3445567777776  56677765 78899999999876 488885 568899999999999999988  57799999999


Q ss_pred             EEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          320 ILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       320 ~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                      +|++++|++..+|.++             +. ..+|+.|++++|...
T Consensus        84 ~L~Ls~N~l~~l~~~~-------------~~-~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          84 RLNLSFNALESLSWKT-------------VQ-GLSLQELVLSGNPLH  116 (156)
T ss_dssp             EEECCSSCCSCCCSTT-------------TC-SCCCCEEECCSSCCC
T ss_pred             ceeccCCCCcccChhh-------------hc-cccccccccCCCccc
Confidence            9999999988877543             22 335889999988763

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=1e-08  Score=103.06  Aligned_cols=104  Identities=17%  Similarity=0.244  Sum_probs=77.2

Q ss_pred             CceEEEccCCCcccc--CCcc-CCCCccEEEeeccCCCCc-----cccHHHHcCCCCccEEEecCCCCCC-----Cchhh
Q 041360          224 GPIAISLPHRDIQEL--PERL-QCPNLELFLLFRKGYGSM-----QISDLFFEGTEEVKVLSLTGVRFSS-----LPSSL  290 (561)
Q Consensus       224 ~l~~l~l~~~~~~~l--~~~~-~~~~L~~L~l~~~~~~~~-----~~~~~~~~~l~~Lr~L~l~~~~i~~-----lp~~i  290 (561)
                      +++.|+++++++...  .+.+ .++++++|.+.+|.  +.     .+.. .+..+++|++|||++|.+..     +...+
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~--i~~~~~~~l~~-~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l   79 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCG--LTEARCKDISS-ALRVNPALAELNLRSNELGDVGVHCVLQGL   79 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSC--CCHHHHHHHHH-HHHTCTTCCEEECTTCCCHHHHHHHHHHTT
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCC--CCHHHHHHHHH-HHhcCCCCCEEECcCCcCChHHHHHHHHHH
Confidence            578899999998542  1212 68999999999997  33     2233 34789999999999998853     23333


Q ss_pred             cC-CCCCcEEEeCCCCCCC------cccccCCCCCcEEEccCCcCcc
Q 041360          291 GR-LFNLQTLCLGGCRLKD------IAIVGQLKKLEILSFRDSYIEE  330 (561)
Q Consensus       291 ~~-L~~L~~L~l~~~~l~~------p~~i~~L~~L~~L~l~~~~~~~  330 (561)
                      .. ..+|++|++++|.++.      +..+..+++|++|++++|.+..
T Consensus        80 ~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~~  126 (460)
T d1z7xw1          80 QTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGD  126 (460)
T ss_dssp             CSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHH
T ss_pred             hcCCCCCCEEECCCCCccccccccccchhhccccccccccccccchh
Confidence            32 3579999999999865      2467889999999999987653

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.19  E-value=6.5e-07  Score=86.21  Aligned_cols=181  Identities=17%  Similarity=0.081  Sum_probs=108.9

Q ss_pred             CCceEEEccCCCcc-----ccCCcc-CCCCccEEEeeccCCC--Ccccc------HHHHcCCCCccEEEecCCCCCC---
Q 041360          223 KGPIAISLPHRDIQ-----ELPERL-QCPNLELFLLFRKGYG--SMQIS------DLFFEGTEEVKVLSLTGVRFSS---  285 (561)
Q Consensus       223 ~~l~~l~l~~~~~~-----~l~~~~-~~~~L~~L~l~~~~~~--~~~~~------~~~~~~l~~Lr~L~l~~~~i~~---  285 (561)
                      ..++.|++++|.+.     .+...+ ..++|+.+.+.++...  ....+      ...+..+++|+.|++++|.+..   
T Consensus        31 ~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~  110 (344)
T d2ca6a1          31 DSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQ  110 (344)
T ss_dssp             SCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTH
T ss_pred             CCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccccccccccccc
Confidence            56888888887762     222233 5688888888765410  11111      1123567889999998887765   


Q ss_pred             --CchhhcCCCCCcEEEeCCCCCCC--cc-------------cccCCCCCcEEEccCCcCcccChhhhccccccccCchh
Q 041360          286 --LPSSLGRLFNLQTLCLGGCRLKD--IA-------------IVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNL  348 (561)
Q Consensus       286 --lp~~i~~L~~L~~L~l~~~~l~~--p~-------------~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~  348 (561)
                        +...+...++|+.|++++|.+..  ..             .....+.|+.|+++++.+..-  ++..      +.. .
T Consensus       111 ~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~--~~~~------l~~-~  181 (344)
T d2ca6a1         111 EPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG--SMKE------WAK-T  181 (344)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG--GHHH------HHH-H
T ss_pred             cchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccc--cccc------ccc-h
Confidence              44556677889999998887532  11             123456788888887765421  1111      111 2


Q ss_pred             hcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeeccCccc-----Cc-ccccccccEEEEE
Q 041360          349 ISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRDAQIL-----PQ-DLVLVELQRYKIC  415 (561)
Q Consensus       349 i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~-----~~-~~~~~~L~~L~l~  415 (561)
                      +...+.|++|+++.|.+.....   .......+...++|+.|++++|.+...     .. ....++|++|++.
T Consensus       182 l~~~~~L~~L~L~~n~i~~~g~---~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls  251 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQNGIRPEGI---EHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLN  251 (344)
T ss_dssp             HHHCTTCCEEECCSSCCCHHHH---HHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECT
T ss_pred             hhhhhhhccccccccccccccc---ccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhh
Confidence            5667789999998886532110   001223467788999999998876431     11 1255677777663

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.11  E-value=1.7e-06  Score=83.17  Aligned_cols=251  Identities=13%  Similarity=0.075  Sum_probs=136.2

Q ss_pred             CCCCccEEEeeccCCCCcccc---HHHHcCCCCccEEEecCCCCCC-----------CchhhcCCCCCcEEEeCCCCCCC
Q 041360          243 QCPNLELFLLFRKGYGSMQIS---DLFFEGTEEVKVLSLTGVRFSS-----------LPSSLGRLFNLQTLCLGGCRLKD  308 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~---~~~~~~l~~Lr~L~l~~~~i~~-----------lp~~i~~L~~L~~L~l~~~~l~~  308 (561)
                      ....|+.|+++++. ......   ...+...++|+.|+++++....           +...+...++|+.|++++|.+..
T Consensus        29 ~~~~l~~L~Ls~n~-i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~  107 (344)
T d2ca6a1          29 EDDSVKEIVLSGNT-IGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGP  107 (344)
T ss_dssp             HCSCCCEEECTTSE-ECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCT
T ss_pred             hCCCCCEEECcCCc-CCHHHHHHHHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCccccccccccccc
Confidence            57889999999875 111111   1223677899999999876443           22345677899999999998755


Q ss_pred             --c----ccccCCCCCcEEEccCCcCcccChhhhccc-cccccC-chhhcCCCCCcEEEccCCcccccccCCCcccchHh
Q 041360          309 --I----AIVGQLKKLEILSFRDSYIEELPHEIGQLT-RLVVIA-PNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAE  380 (561)
Q Consensus       309 --p----~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~-~L~~l~-~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~  380 (561)
                        .    ..+...++|++|++++|.+..  .+...+. .+..+. .......+.|+.|+++++......    .......
T Consensus       108 ~~~~~l~~~l~~~~~L~~L~l~~n~l~~--~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~----~~~l~~~  181 (344)
T d2ca6a1         108 TAQEPLIDFLSKHTPLEHLYLHNNGLGP--QAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGS----MKEWAKT  181 (344)
T ss_dssp             TTHHHHHHHHHHCTTCCEEECCSSCCHH--HHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGG----HHHHHHH
T ss_pred             ccccchhhhhcccccchheecccccccc--cccccccccccccccccccccCcccceeecccccccccc----cccccch
Confidence              2    345567899999999887542  2211110 111110 011346778899998887542111    1233445


Q ss_pred             hcCCCCCcEEEEeeccCccc------Cc-ccccccccEEEEEeccccccCCCCccccceEEEecCCccchhhhhhhHHHh
Q 041360          381 LKGLSKLTTLEIQVRDAQIL------PQ-DLVLVELQRYKICIGEAWRMWGVTSEISRLVRLHGLENVSTLLENYGMKML  453 (561)
Q Consensus       381 l~~l~~L~~L~l~~~~~~~~------~~-~~~~~~L~~L~l~~~~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~l  453 (561)
                      +...+.|+.|+++.+.+..-      .. ....++|+.|++..+. +.               ..+   .......+...
T Consensus       182 l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~-i~---------------~~g---~~~L~~~l~~~  242 (344)
T d2ca6a1         182 FQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-FT---------------HLG---SSALAIALKSW  242 (344)
T ss_dssp             HHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSC-CH---------------HHH---HHHHHHHGGGC
T ss_pred             hhhhhhhcccccccccccccccccchhhhhcchhhhccccccccc-cc---------------ccc---ccccccccccc
Confidence            67778999999988876531      11 1245667766653221 00               000   01111222222


Q ss_pred             hccccceeeccccCc----ccccccccCCCCCCCccEEEEecCCccchhhcc-cCcccCCcCcccccccccccc
Q 041360          454 LKEAEEIHLNELKGV----QNAVHELDDGEGFPRLKHLRVESCSEILHIVGS-VGRVRRKVFPLLESLSLKKAS  522 (561)
Q Consensus       454 l~~L~~L~l~~~~~~----~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~-~~~~~~~~~~~L~~L~l~~c~  522 (561)
                       ++|++|++++|.--    ..+...+. ....++|++|+|+++ ++..-.-. ....-....++|++|++.++.
T Consensus       243 -~~L~~L~Ls~n~i~~~g~~~l~~~l~-~~~~~~L~~L~ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         243 -PNLRELGLNDCLLSARGAAAVVDAFS-KLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             -TTCCEEECTTCCCCHHHHHHHHHHHH-TCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             -ccchhhhhhcCccCchhhHHHHHHhh-hccCCCCCEEECCCC-cCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence             67777777776411    11211111 123567888888875 34321100 000011235677777776654

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=1.9e-05  Score=66.47  Aligned_cols=88  Identities=24%  Similarity=0.251  Sum_probs=61.1

Q ss_pred             HHHHcCCCCccEEEecCCCCCCCc---hhhcCCCCCcEEEeCCCCCCC-c--ccccCCCCCcEEEccCCcCcccChhh-h
Q 041360          264 DLFFEGTEEVKVLSLTGVRFSSLP---SSLGRLFNLQTLCLGGCRLKD-I--AIVGQLKKLEILSFRDSYIEELPHEI-G  336 (561)
Q Consensus       264 ~~~~~~l~~Lr~L~l~~~~i~~lp---~~i~~L~~L~~L~l~~~~l~~-p--~~i~~L~~L~~L~l~~~~~~~lp~~i-~  336 (561)
                      ..++.++++|++|++++|.++.++   ..+..+++|++|++++|.++. +  ..++ ..+|++|++++|.+......- .
T Consensus        58 ~~~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~-~~~L~~L~L~~Npl~~~~~~~~~  136 (162)
T d1koha1          58 RIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIK-GLKLEELWLDGNSLSDTFRDQST  136 (162)
T ss_dssp             HHHHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHT-TCCCSSCCCTTSTTSSSSSSHHH
T ss_pred             HHHHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhh-ccccceeecCCCCcCcCcccchh
Confidence            444578899999999999988763   457789999999999999888 3  2233 346899999998776443211 0


Q ss_pred             ccccccccCchhhcCCCCCcEEE
Q 041360          337 QLTRLVVIAPNLISKFSQLEELY  359 (561)
Q Consensus       337 ~L~~L~~l~~~~i~~l~~L~~L~  359 (561)
                      ..       ...+..+++|+.||
T Consensus       137 y~-------~~i~~~~P~L~~LD  152 (162)
T d1koha1         137 YI-------SAIRERFPKLLRLD  152 (162)
T ss_dssp             HH-------HHHHTTSTTCCEET
T ss_pred             HH-------HHHHHHCCCCCEEC
Confidence            00       01255677777776

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=2.8e-05  Score=65.39  Aligned_cols=78  Identities=24%  Similarity=0.302  Sum_probs=58.5

Q ss_pred             CCCCccEEEeeccCCCCcccc--HHHHcCCCCccEEEecCCCCCCCch-hhcCCCCCcEEEeCCCCCCC-c--------c
Q 041360          243 QCPNLELFLLFRKGYGSMQIS--DLFFEGTEEVKVLSLTGVRFSSLPS-SLGRLFNLQTLCLGGCRLKD-I--------A  310 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~~~~--~~~~~~l~~Lr~L~l~~~~i~~lp~-~i~~L~~L~~L~l~~~~l~~-p--------~  310 (561)
                      .+++|++|++++|.  +..++  ...+..+++|++|++++|.++.+++ ......+|+.|++.+|.+.. .        .
T Consensus        63 ~~~~L~~L~Ls~N~--i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          63 NIPELLSLNLSNNR--LYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HCTTCCCCCCCSSC--CCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             hCCCCCEeeCCCcc--ccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            47888888888887  55443  2335789999999999999998865 33345578999999998765 2        2


Q ss_pred             cccCCCCCcEEE
Q 041360          311 IVGQLKKLEILS  322 (561)
Q Consensus       311 ~i~~L~~L~~L~  322 (561)
                      .+..+++|+.||
T Consensus       141 i~~~~P~L~~LD  152 (162)
T d1koha1         141 IRERFPKLLRLD  152 (162)
T ss_dssp             HHTTSTTCCEET
T ss_pred             HHHHCCCCCEEC
Confidence            366788999886

>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=97.19  E-value=5.6e-05  Score=74.87  Aligned_cols=112  Identities=18%  Similarity=0.196  Sum_probs=81.0

Q ss_pred             CCccEEEeeccCCCCccccHHHHcCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEeCCCCCCC--cccc----c
Q 041360          245 PNLELFLLFRKGYGSMQISDLFFEGTEEVKVLSLTGVRFSS-----LPSSLGRLFNLQTLCLGGCRLKD--IAIV----G  313 (561)
Q Consensus       245 ~~L~~L~l~~~~~~~~~~~~~~~~~l~~Lr~L~l~~~~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p~~i----~  313 (561)
                      .+|++|+++++. ....--..++..++++++|+|++|.++.     ++..+..+++|++|+|++|.+..  ...+    .
T Consensus         2 ~~l~~ld~~~~~-i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEE-LSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCC-CCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCc-CChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHh
Confidence            368999999987 2222224445788999999999999873     56677899999999999998864  2222    2


Q ss_pred             -CCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCccc
Q 041360          314 -QLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQ  366 (561)
Q Consensus       314 -~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~  366 (561)
                       ...+|++|++++|.+.....  .      .++. .+..+++|++|++++|...
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~--~------~l~~-~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGC--G------VLSS-TLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGH--H------HHHH-HTTSCTTCCEEECCSSBCH
T ss_pred             cCCCCCCEEECCCCCcccccc--c------cccc-hhhccccccccccccccch
Confidence             23479999999998764321  1      1111 2678899999999998753

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.77  E-value=0.00073  Score=56.58  Aligned_cols=64  Identities=13%  Similarity=0.068  Sum_probs=35.9

Q ss_pred             cCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCccc
Q 041360          268 EGTEEVKVLSLTGVRFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEEL  331 (561)
Q Consensus       268 ~~l~~Lr~L~l~~~~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~l  331 (561)
                      ...++|++|++++|.+..     +...+...+.|++|++++|.+..  .    ..+..-++|++|+++++.+..+
T Consensus        41 ~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~  115 (167)
T d1pgva_          41 CNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVL  115 (167)
T ss_dssp             TTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCC
T ss_pred             hhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCc
Confidence            455666666666665532     33444555566666666666543  1    3455555666666666554443

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.65  E-value=0.00057  Score=57.21  Aligned_cols=120  Identities=13%  Similarity=0.157  Sum_probs=60.1

Q ss_pred             HHcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCcccCh
Q 041360          266 FFEGTEEVKVLSLTGV-RFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEELPH  333 (561)
Q Consensus       266 ~~~~l~~Lr~L~l~~~-~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~lp~  333 (561)
                      +..+.+.|+.|+++++ .+..     +-..+...++|+.|++++|.+..  .    ..+...++++.+++++|.+..  .
T Consensus        12 ~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~--~   89 (166)
T d1io0a_          12 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISG--S   89 (166)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCH--H
T ss_pred             HHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccc--h
Confidence            3345566677777653 3432     33445566667777777766544  1    344555667777776665431  1


Q ss_pred             hhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeecc
Q 041360          334 EIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVRD  396 (561)
Q Consensus       334 ~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  396 (561)
                      ++..+.       ..+...++|+.+++..+.......  ...+....+...+.|+.|+++++.
T Consensus        90 g~~~l~-------~~l~~~~~L~~l~L~l~~n~i~~~--~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          90 GILALV-------EALQSNTSLIELRIDNQSQPLGNN--VEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHHH-------HGGGGCSSCCEEECCCCSSCCCHH--HHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             hHHHHH-------HHHHhCccccEEeeccCCCcCcHH--HHHHHHHHHHhCCCcCEEeCcCCC
Confidence            111111       114555666666554332111111  012334455566677777766543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.41  E-value=0.0012  Score=55.29  Aligned_cols=120  Identities=11%  Similarity=0.156  Sum_probs=72.9

Q ss_pred             HHcCCCCccEEEecCC-CCCC-----CchhhcCCCCCcEEEeCCCCCCC--c----ccccCCCCCcEEEccCCcCcccCh
Q 041360          266 FFEGTEEVKVLSLTGV-RFSS-----LPSSLGRLFNLQTLCLGGCRLKD--I----AIVGQLKKLEILSFRDSYIEELPH  333 (561)
Q Consensus       266 ~~~~l~~Lr~L~l~~~-~i~~-----lp~~i~~L~~L~~L~l~~~~l~~--p----~~i~~L~~L~~L~l~~~~~~~lp~  333 (561)
                      +..+.+.|+.|+|+++ .+..     +-..+....+|++|++++|.+..  .    ..+...+.|++|++++|.+..  .
T Consensus        10 l~~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_          10 LREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTP--E   87 (167)
T ss_dssp             HHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCH--H
T ss_pred             HHhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcch--H
Confidence            3456688999999874 3543     34456777889999999888764  2    345566788888888886653  2


Q ss_pred             hhhccccccccCchhhcCCCCCcEEEccCCcccccccCCCcccchHhhcCCCCCcEEEEeec
Q 041360          334 EIGQLTRLVVIAPNLISKFSQLEELYMGDSFSQWDKVEGGSNASLAELKGLSKLTTLEIQVR  395 (561)
Q Consensus       334 ~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  395 (561)
                      ++..+.       ..+..-+.|++|++.++.... .......+....+..-+.|+.|+++++
T Consensus        88 g~~~l~-------~aL~~n~sL~~L~l~~n~~~~-~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          88 LLARLL-------RSTLVTQSIVEFKADNQRQSV-LGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHHHH-------HHTTTTCCCSEEECCCCSSCC-CCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHH-------HHHHhCCcCCEEECCCCcCCC-ccHHHHHHHHHHHHhCCCccEeeCcCC
Confidence            222111       125566778888887764221 000001223455666677777777654

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.10  E-value=0.0037  Score=51.95  Aligned_cols=114  Identities=16%  Similarity=0.081  Sum_probs=72.1

Q ss_pred             CCCCccEEEeeccCCCCc----cccHHHHcCCCCccEEEecCCCCCC-----CchhhcCCCCCcEEEeCCCCCCC-----
Q 041360          243 QCPNLELFLLFRKGYGSM----QISDLFFEGTEEVKVLSLTGVRFSS-----LPSSLGRLFNLQTLCLGGCRLKD-----  308 (561)
Q Consensus       243 ~~~~L~~L~l~~~~~~~~----~~~~~~~~~l~~Lr~L~l~~~~i~~-----lp~~i~~L~~L~~L~l~~~~l~~-----  308 (561)
                      ..++|+.|.+++......    .+... +...++|+.|++++|.+..     +-..+....+++++++++|.+..     
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~a-l~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEA-LKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHH-HTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHH-HhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHH
Confidence            356777777766320111    12222 3678899999999998764     44556777889999999988754     


Q ss_pred             -cccccCCCCCcEEEccCCcCcccChhhhccccccccCchhhcCCCCCcEEEccCCc
Q 041360          309 -IAIVGQLKKLEILSFRDSYIEELPHEIGQLTRLVVIAPNLISKFSQLEELYMGDSF  364 (561)
Q Consensus       309 -p~~i~~L~~L~~L~l~~~~~~~lp~~i~~L~~L~~l~~~~i~~l~~L~~L~l~~~~  364 (561)
                       ...+...++|+.++++.+...--+.+...+.       ..+.+.++|++|++..+.
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La-------~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIA-------NMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHH-------HHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHhCccccEEeeccCCCcCcHHHHHHHH-------HHHHhCCCcCEEeCcCCC
Confidence             2667788889987776442211122222221       126678889999987654