Citrus Sinensis ID: 012512

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460--
Protein Sequence
MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHcccccccHHHHHccHHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHccccccHHHHHHHHHHHHccHHHHHHcccccHHHHHHHHHHHccccccccEEEcccccccHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHccccccccEEEcccccccHHHHHHHHHHHHHccccccEEEccccccccccccccccHHHHHHHHccccccccEEEEEcccccHHHHHHHHHHHHccccccEEEccccccccHHHHHHHHHHHccccccccccEEEcccccccHHHHHHHHHHHHcccccccEEEcccccccHHHHccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHHcccccccHHHHccHHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEccHHHHHHHHcHccccccccccHHHHHHHHHccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccccccEEEEccccccHHHHHHHHHHHHHHcHHccccHEEEcccccHccccccHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHHHHHccccccEEEccccccHHHHHHccccHHHHHHHHHccccccEEEEcccccccHHHHHHHHHHHHHcccccEEEcccccccHHHHHHHHHHHHHHHccccccEEEEcccccccHHHHHHHHHHHHHHcccccEEEcccccccHHHHccc
Coil and Loop (DISEMBL)
MVKAPSLISLAALAVKRELllgddvipyvyelPADLFDILLTclpplalqklqtkmpfrdgddcgspdycfengrkrgrygnfNTVWKKLFKTRwsgftdqiepvdWQQRYWEAHVQGCLDEAAElvvlpsfrglisdinisdTILNYIGYEQQMNHLacdysklsyhcqqfgHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHcklspsfvEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSslsildlsgnsiggwlskydrsgplfslgagkslqSLRLLNLRGNNLCKADARDLGSalvhipnleildisdntieddgirsLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTlstlrrpptslsiadnnlgrfcansg
Flexible Loop (DISEMBL)
mvkapsliSLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFengrkrgrygnfNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTlrrpptslsiadnnlgrfcansg
Low Complexity Region (SEG)
MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPssvvvelvsflssGRSLCSLKLRHCHLDRDFGRMVFsslleassslsildlsgnsIGGWLSKYDRSGPLFSLGAGKSLQSlrllnlrgnnlCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG
Disordered region (IsUnstruct)
******LISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLST***********************
Disordered Region (DISOPRED)
**KAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA***
Disordered Region (DISEMBL)
MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG
Disordered Region (DISPRO)
*VKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRD**D*************RGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG
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	462	2.2.26 [Sep-21-2011]
Q4R642	501	T-complex-associated test	N/A	no	0.344	0.317	0.327	9e-06
Q5JU00	501	T-complex-associated test	yes	no	0.348	0.321	0.324	9e-06
A6H639	498	T-complex-associated test	yes	no	0.346	0.321	0.320	1e-05
Q5DU56	1064	Protein NLRC3 OS=Mus musc	no	no	0.326	0.141	0.290	0.0001
P10775	456	Ribonuclease inhibitor OS	no	no	0.320	0.324	0.269	0.0001
B0FPE9	1035	NACHT, LRR and PYD domain	no	no	0.400	0.178	0.307	0.0002
Q8K3Z0	1020	Nucleotide-binding oligom	no	no	0.380	0.172	0.265	0.0002
Q86W24	1093	NACHT, LRR and PYD domain	no	no	0.543	0.229	0.275	0.0004

>sp|Q4R642|TCTE1_MACFA T-complex-associated testis-expressed protein 1 OS=Macaca fascicularis GN=TCTE1 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 58/177 (32%), Positives = 89/177 (50%), Gaps = 18/177 (10%)

Query: 281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRS 340
           L + + +  +L   KL    +D D  R++  SLL+    L  LDLS N IG      DR 
Sbjct: 271 LAAAIKACHTLKIFKLTRSKVDDDKARIIIRSLLD-HPVLEELDLSHNLIG------DRG 323

Query: 341 GPLFSLGAGKSLQS--LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGI 398
               + GA K L    LR+LNL  N +    A+ L  AL H  NL  L++  N IED+G 
Sbjct: 324 ----ARGAAKLLNHSRLRVLNLANNQVRAPGAQSLAHALAHNTNLISLNLRLNCIEDEGG 379

Query: 399 RSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
           ++L  + +Q + +C  L  L+L   ELS    + LL  +  +    TS++++ N++G
Sbjct: 380 QALA-HALQ-TNKC--LTTLHLGGNELS-EPTATLLSQVLAINTTLTSINLSCNHIG 431

Macaca fascicularis (taxid: 9541)

>sp|Q5JU00|TCTE1_HUMAN T-complex-associated testis-expressed protein 1 OS=Homo sapiens GN=TCTE1 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 58/179 (32%), Positives = 90/179 (50%), Gaps = 18/179 (10%)

Query: 279 VELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD 338
           + L + + +  +L   KL    +D D  R++  SLL+    L  LDLS N IG      D
Sbjct: 269 LSLAAAIKACHTLKIFKLTRSKVDDDKARIIIRSLLD-HPVLEELDLSQNLIG------D 321

Query: 339 RSGPLFSLGAGK--SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDD 396
           R     + GA K  S   LR+LNL  N +    A+ L  AL H  NL  L++  N IED+
Sbjct: 322 RG----ARGAAKLLSHSRLRVLNLANNQVRAPGAQSLAHALAHNTNLISLNLRLNCIEDE 377

Query: 397 GIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
           G ++L  + +Q + +C  L  L+L   ELS    + LL  +  +    TS++++ N++G
Sbjct: 378 GGQALA-HALQ-TNKC--LTTLHLGGNELS-EPTATLLSQVLAINTTLTSINLSCNHIG 431

Homo sapiens (taxid: 9606)

>sp|A6H639|TCTE1_MOUSE T-complex-associated testis-expressed protein 1 OS=Mus musculus GN=Tcte1 PE=2 SV=1

 Score = 51.6 bits (122), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 57/178 (32%), Positives = 86/178 (48%), Gaps = 18/178 (10%)

Query: 281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRS 340
           L + + +  +L   KL    +D D  R++  SLL+   +L  LDLS N IG      DR 
Sbjct: 269 LAATIKACHTLKIFKLTRSKVDDDKARILIRSLLD-HPALEELDLSHNLIG------DRG 321

Query: 341 GPLFSLGAGK--SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGI 398
               +  A K  S   LR+LNL  N L    A+ L  AL H  NL  L++  N IED+G 
Sbjct: 322 ----ARAAAKLLSHSRLRVLNLANNQLQAPGAQSLAHALAHNTNLVFLNLRLNCIEDEGG 377

Query: 399 RSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR 456
           +++      A E    L  L+L   +LS    + LL  + T+     SL+++ N++G+
Sbjct: 378 QAI----AHALETNKCLSVLHLGGNKLS-EPTATLLSQMLTVNTTLVSLNLSCNHIGQ 430

Mus musculus (taxid: 10090)

>sp|Q5DU56|NLRC3_MOUSE Protein NLRC3 OS=Mus musculus GN=Nlrc3 PE=2 SV=2

 Score = 48.5 bits (114), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 48/165 (29%), Positives = 78/165 (47%), Gaps = 14/165 (8%)

Query: 278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY 337
           V  L+  L S ++L SL LR   +  + G    +  L  +++L  LDL+ N +      +
Sbjct: 822 VTVLMRALCSNQTLSSLNLRENSISPE-GAQALTQALCRNNTLKHLDLTANLL------H 874

Query: 338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDG 397
           DR     ++  G++  SL  L+L+ N +    AR LG AL     L  LD+ +N I D+G
Sbjct: 875 DRGAQAIAVAVGEN-HSLTHLHLQWNFIQAGAARALGQALQLNRTLTTLDLQENAIGDEG 933

Query: 398 IRSLIPYFVQASERCN-PLVELYLENCELSGRGVSQLLDTLSTLR 441
             S     V  + + N  L+ LYL+   +  +G   L + L+  R
Sbjct: 934 ASS-----VAGALKVNTTLIALYLQVASIGSQGAQALGEALTVNR 973

May modulate T-cell activation. Decreases the transcription of genes that are normally up-regulated after T-cell stimulation. Delays degradation of NFKBIA/IKBA.

Mus musculus (taxid: 10090)

>sp|P10775|RINI_PIG Ribonuclease inhibitor OS=Sus scrofa GN=RNH1 PE=1 SV=1

 Score = 48.1 bits (113), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 45/167 (26%), Positives = 71/167 (42%), Gaps = 19/167 (11%)

Query: 298 HCHLDR---DFGRMV------FSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            CHL++   ++ R+        +S+L A+ +L  L +S N IG      +    +   G 
Sbjct: 136 QCHLEKLQLEYCRLTAASCEPLASVLRATRALKELTVSNNDIG------EAGARVLGQGL 189

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
             S   L  L L    L  A+ +DL   +    +L  LD+  N + D GI  L P  +  
Sbjct: 190 ADSACQLETLRLENCGLTPANCKDLCGIVASQASLRELDLGSNGLGDAGIAELCPGLLSP 249

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
           + R   L  L+L  C+++  G   L   L   +     LS+A N LG
Sbjct: 250 ASR---LKTLWLWECDITASGCRDLCRVLQA-KETLKELSLAGNKLG 292

Ribonuclease inhibitor which inhibits RNASE1, RNASE2 and ANG. May play a role in redox homeostasis.

Sus scrofa (taxid: 9823)

>sp|B0FPE9|NALP3_MACMU NACHT, LRR and PYD domains-containing protein 3 OS=Macaca mulatta GN=NLRP3 PE=2 SV=1

 Score = 47.4 bits (111), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 64/208 (30%), Positives = 91/208 (43%), Gaps = 23/208 (11%)

Query: 257 HKIENLSIDISSFIENCPSSVV--------VELVS-FLSSGRSLCSLKLRHCHLDRDFGR 307
           H++E+LS+    F+ N P            +++V   L    + CS +L + HL   F R
Sbjct: 674 HRVESLSL---GFLHNMPKEEEEEEKEGRHLDMVQCVLPGSHAACSHRLVNSHLTSSFCR 730

Query: 308 MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK 367
            +FS +L  S SL+ LDLS NS+G      D    +          ++R L L    L  
Sbjct: 731 GLFS-VLSTSQSLTELDLSDNSLG------DPGMRVLCETLQHPDCNIRRLWLGRCGLSH 783

Query: 368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG 427
               D+   L     L  LD+SDN + D GIR L          CN L +L+L +C L+ 
Sbjct: 784 ECCFDISLVLSSNQKLVELDLSDNALGDFGIRLLCVGLKHL--LCN-LKKLWLVSCCLTS 840

Query: 428 RGVSQLLDTLSTLRRPPTSLSIADNNLG 455
                L   LST  R  T L + +N LG
Sbjct: 841 ACCQDLASVLST-SRSLTRLYVGENALG 867

May function as an inducer of apoptosis. Interacts selectively with ASC and this complex may function as an upstream activator of NF-kappa-B signaling. Inhibits TNF-alpha induced activation and nuclear translocation of RELA/NF-KB p65. Also inhibits transcriptional activity of RELA. Activates caspase-1 in response to a number of triggers including bacterial or viral infection which leads to processing and release of IL1B and IL18.

Macaca mulatta (taxid: 9544)

>sp|Q8K3Z0|NOD2_MOUSE Nucleotide-binding oligomerization domain-containing protein 2 OS=Mus musculus GN=Nod2 PE=2 SV=1

 Score = 47.4 bits (111), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 51/192 (26%), Positives = 89/192 (46%), Gaps = 16/192 (8%)

Query: 247 RSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFG 306
           R+L     R  +++ L++  +   + C  S    +   L+  ++  SL++ + H+    G
Sbjct: 813 RTLVECALRCEQLQKLALFNNKLTDACACS----MAKLLAHKQNFLSLRVGNNHITAA-G 867

Query: 307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC 366
             V +  L++++SL  L   GNS+G      D+     +       Q+L+ L+L GNN+ 
Sbjct: 868 AEVLAQGLKSNTSLKFLGFWGNSVG------DKGTQALAEVVADH-QNLKWLSLVGNNIG 920

Query: 367 KADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS 426
              A  L   L    +LE L + +N I D+G+ SL     +  +R + L  L L N  ++
Sbjct: 921 SMGAEALALMLEKNKSLEELCLEENHICDEGVYSL----AEGLKRNSTLKFLKLSNNGIT 976

Query: 427 GRGVSQLLDTLS 438
            RG   LL  LS
Sbjct: 977 YRGAEALLQALS 988

Induces NF-kappa-B via RICK (CARDIAK, RIP2) and IKK-gamma. Confers responsiveness to intracellular bacterial lipopolysaccharides (LPS).

Mus musculus (taxid: 10090)

>sp|Q86W24|NAL14_HUMAN NACHT, LRR and PYD domains-containing protein 14 OS=Homo sapiens GN=NLRP14 PE=2 SV=1

 Score = 46.6 bits (109), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 77/280 (27%), Positives = 116/280 (41%), Gaps = 29/280 (10%)

Query: 178  CLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKL 237
            CL + NAL   ++   L  S    L       ++ VQ LC+ L      L  L    C L
Sbjct: 775  CLNISNALIRSQSLIFLNLSTNNLL-------DDGVQLLCEALRHPKCYLERLSLESCGL 827

Query: 238  SPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVS--FLSSGRSLCSLK 295
            + +  E +  +L S ++  H             +N      V+L+S     +  +L SL 
Sbjct: 828  TEAGCEYLSLALISNKRLTH---------LCLADNVLGDGGVKLMSDALQHAQCTLKSLV 878

Query: 296  LRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL 355
            LR CH        + +SLL  + SL+ LDL  N    WL   D    L          +L
Sbjct: 879  LRRCHFTSLSSEYLSTSLLH-NKSLTHLDLGSN----WLQ--DNGVKLLCDVFRHPSCNL 931

Query: 356  RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL 415
            + L L G  L  A   DL S +++ PNL  LD+ +N ++DDG++ L       +  CN +
Sbjct: 932  QDLELMGCVLTNACCLDLASVILNNPNLRSLDLGNNDLQDDGVKILCDALRYPN--CN-I 988

Query: 416  VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
              L LE C L+      L   L   +R    +++  N LG
Sbjct: 989  QRLGLEYCGLTSLCCQDLSSALICNKR-LIKMNLTQNTLG 1027

May be involved in inflammation and spermatogenesis.

Homo sapiens (taxid: 9606)

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	462
297744269	580	unnamed protein product [Vitis vinifera]	0.991	0.789	0.541	1e-135
255560275	598	protein binding protein, putative [Ricin	0.963	0.744	0.567	1e-129
449443929	604	PREDICTED: uncharacterized protein LOC10	0.995	0.761	0.556	1e-128
449475557	604	PREDICTED: LOW QUALITY PROTEIN: uncharac	0.995	0.761	0.556	1e-128
359480084	834	PREDICTED: uncharacterized protein LOC10	0.913	0.505	0.545	1e-125
356503658	604	PREDICTED: uncharacterized protein LOC10	0.971	0.743	0.539	1e-122
356570694	625	PREDICTED: uncharacterized protein LOC10	0.982	0.726	0.5	1e-116
42569177	604	leucine-rich repeats-ribonuclease inhibi	0.980	0.75	0.526	1e-110
297832112	603	leucine-rich repeat family protein [Arab	0.991	0.759	0.529	1e-106
357154921	653	PREDICTED: uncharacterized protein LOC10	0.917	0.649	0.433	1e-84

>gi|297744269|emb|CBI37239.3| unnamed protein product [Vitis vinifera]

 Score =  487 bits (1254), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 259/478 (54%), Positives = 330/478 (69%), Gaps = 20/478 (4%)

Query: 1   MVKAPSLISLAALAVKRELL---LGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMP 57
           M + PSL+SL    + +++L    G+D+   +YELP+ LFD LL  LPPL LQKLQ +MP
Sbjct: 1   MAEVPSLMSLCMKKLGKDILRDDFGNDLSSAIYELPSVLFDGLLMHLPPLTLQKLQEEMP 60

Query: 58  FRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDW---------- 107
            R  +   S + CF NGRKRG  GNFNT WK LFK+RW     +I+ VDW          
Sbjct: 61  LRCWNGHESTNICFRNGRKRGSCGNFNTAWKALFKSRWPDLARKIQRVDWSAGVAKYESI 120

Query: 108 ---QQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSK 164
              QQ YWE H+Q C+DEAAE+ VLPSF G + +I I DTI+  I Y+   +H   DYSK
Sbjct: 121 IDWQQMYWETHLQNCIDEAAEIAVLPSFDGGLGEIEIPDTIIKCIVYKGHRSHSTRDYSK 180

Query: 165 LSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNS 224
           LSYHC+QFG YARCL+LQN LC+ ET  LLR+S+LQ LVLRWI+  EH+  LC+LL QN+
Sbjct: 181 LSYHCEQFGSYARCLKLQNMLCIAETSHLLRKSRLQQLVLRWIKSSEHMDGLCQLLQQNN 240

Query: 225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSF 284
           ETL+SLEF+ C LS + +  IC SL  K  + +++++ SI  S+ +E  P S+   LVSF
Sbjct: 241 ETLSSLEFIFCNLSSASLNAICDSLRVKDMQTYRVQHFSI-TSTVLERNPLSLPHGLVSF 299

Query: 285 LSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR---SG 341
           LSSGRSLCSLK     L ++F ++VF++LL+ASS LS L+   N+I GWL  +++   + 
Sbjct: 300 LSSGRSLCSLKFSDNRLGKNFAKLVFNTLLDASSRLSTLNFEDNNITGWLFNFNQRSSTW 359

Query: 342 PLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSL 401
           PL S G GKSLQ LR+LNLRGNNLCK DA  L  AL+++PNLEILD+SDN IEDDGI SL
Sbjct: 360 PLPSFGLGKSLQLLRVLNLRGNNLCKDDADSLKYALIYMPNLEILDLSDNPIEDDGISSL 419

Query: 402 IPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
           IPYFV+ASER +PL +L L +C+LS  GV+QLLD LSTL+ P  SLSIA N LG   A
Sbjct: 420 IPYFVEASERHSPLADLSLGDCDLSCNGVTQLLDVLSTLKNPLHSLSIAHNELGSQAA 477

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560275|ref|XP_002521155.1| protein binding protein, putative [Ricinus communis] gi|223539724|gb|EEF41306.1| protein binding protein, putative [Ricinus communis]

 Score =  467 bits (1202), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 260/458 (56%), Positives = 322/458 (70%), Gaps = 13/458 (2%)

Query: 14  AVKRELLLGDDVI--PYVYELPADLFDILLTCLPPLALQKLQTKMPFRD--GDDCG-SPD 68
           A+KR+L+ GDDV+    +YE+P+ LF IL+T LPPLAL  LQ +MP+ +  G +C    D
Sbjct: 3   AIKRQLISGDDVLMLAEIYEIPSHLFSILVTKLPPLALHNLQMEMPYENSNGYECSDGGD 62

Query: 69  YCFENGRKRGRYGNFNTVWKKLFKTRWSGF--TDQIEPVDWQQRYWEAHVQGCLDEAAEL 126
            C + GRKRGR   FNT WK LFK RW     TD +E  +W Q YWE H+Q CLDEAA  
Sbjct: 63  GCSKIGRKRGRSCKFNTEWKTLFKLRWPQIVDTDSVESDNWHQAYWEKHLQNCLDEAAGS 122

Query: 127 VVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALC 186
            ++ SF G I +I + D IL +IG E  +NH    YSKLSYH QQ GHYARCLRLQN LC
Sbjct: 123 SMV-SFDGCIGEIKVPDYILKWIGCEGHLNHSI--YSKLSYHFQQLGHYARCLRLQNVLC 179

Query: 187 VEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGIC 246
           V ETCQLLR S+LQ+L LRWIR +EHV  LC+LLIQN ETL SLEF+HCKLS +FV+ IC
Sbjct: 180 VAETCQLLRNSQLQNLALRWIRSQEHVDGLCQLLIQNRETLTSLEFVHCKLSSTFVDAIC 239

Query: 247 RSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFG 306
           RSL  K K+ H I+N SI  S F+E    S+   LVSFLSSGRSLCSL+    HLDR F 
Sbjct: 240 RSLEIKDKQTHGIKNFSIRTSIFLETDLVSLPPSLVSFLSSGRSLCSLRFSGNHLDRKFA 299

Query: 307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLF---SLGAGKSLQSLRLLNLRGN 363
           R++F+ L + SS++S+LDLS N I GWLS ++R        + G  KSLQSLR+LN+R N
Sbjct: 300 RILFTLLFDDSSNISVLDLSDNIIAGWLSNFNRGSSSMVPSTFGITKSLQSLRILNVRNN 359

Query: 364 NLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENC 423
           NL K D + L   L+ +PNL+ILD+ +N IED+GIR LIPYF +A ERC+PLVEL LE+C
Sbjct: 360 NLRKCDMKSLRYTLLCMPNLDILDLGENPIEDEGIRCLIPYFTEAVERCSPLVELNLESC 419

Query: 424 ELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
           ELS  GV+ LLDTLSTL++P  SL++ADN LG   A +
Sbjct: 420 ELSCEGVTLLLDTLSTLQKPLNSLTLADNGLGSPIAGA 457

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443929|ref|XP_004139728.1| PREDICTED: uncharacterized protein LOC101206924 [Cucumis sativus]

 Score =  464 bits (1194), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 258/464 (55%), Positives = 316/464 (68%), Gaps = 4/464 (0%)

Query: 1   MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRD 60
           M +APSL+SL    V+ E+L  DDV P +Y+LP  L D L   LPPLAL+ LQ+ MPF  
Sbjct: 1   MAEAPSLLSLCIALVRDEILQRDDVPPALYDLPPHLLDTLALRLPPLALRNLQSGMPFEL 60

Query: 61  GDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCL 120
            ++    + C  +GRKR R  NFN  WKK F  RWS  TD I+PVDWQQ YWE H+Q CL
Sbjct: 61  QNEDEYDNNCLMDGRKRRRSSNFNLAWKKNFDLRWSKLTDTIQPVDWQQIYWETHLQSCL 120

Query: 121 DEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLR 180
           DEAAE+  LPSF   I +I +SD+IL YI  ++ ++     Y  LSYHCQ+FG YA CLR
Sbjct: 121 DEAAEIASLPSFSKCIGEIEMSDSILKYIASKESVHFWRAKYRYLSYHCQEFGCYALCLR 180

Query: 181 LQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPS 240
           LQ+ LCV E   +LR  +LQ+L+LRWIRF E V  LCKLL QN ETL SLE +HCKLS +
Sbjct: 181 LQSVLCVSEIYHILRSCRLQTLLLRWIRFPEQVNGLCKLLNQNRETLTSLELIHCKLSST 240

Query: 241 FVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCH 300
            V  IC +L   RK  H I + SI+ S F E  P ++   LVSF SSGR L S KL    
Sbjct: 241 SVNSICDALIHNRK-THGILHFSINGSRFDETEPVALPSGLVSFFSSGRYLYSFKLCDND 299

Query: 301 LDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR---SGPLFSLGAGKSLQSLRL 357
           L ++FG+ VF +LL+ASS LS+LDLS N + GWLS ++R   +G   S   GKSLQSLR+
Sbjct: 300 LGKNFGKFVFHTLLDASSCLSVLDLSENKMTGWLSNFNRRSLTGLQASSMVGKSLQSLRV 359

Query: 358 LNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE 417
           LNLRGN L K DA +L  AL HIPNLE LD+SDN IEDDGIR+LIPYF++ASER  P  +
Sbjct: 360 LNLRGNGLKKDDADNLRYALFHIPNLEFLDMSDNPIEDDGIRNLIPYFIEASERNCPFAD 419

Query: 418 LYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
           L LENCELS  GV+QLL+ LSTLR+P  SLS+ADN+LG   A +
Sbjct: 420 LNLENCELSCDGVTQLLNVLSTLRKPLRSLSVADNSLGSSVAGA 463

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449475557|ref|XP_004154489.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC101227026 [Cucumis sativus]

 Score =  463 bits (1192), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 258/464 (55%), Positives = 316/464 (68%), Gaps = 4/464 (0%)

Query: 1   MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRD 60
           M +APSL+SL    V+ E+L  DDV P +Y+LP  L D L   LPPLAL+ LQ+ MPF  
Sbjct: 1   MAEAPSLLSLCIALVRDEILQRDDVPPALYDLPPHLLDTLALRLPPLALRNLQSGMPFEL 60

Query: 61  GDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCL 120
            ++    + C  +GRKR R  NFN  WKK F  RWS  TD I+PVDWQQ YWE H+Q CL
Sbjct: 61  QNEDEYDNNCLMDGRKRRRSSNFNLAWKKNFDLRWSKLTDTIQPVDWQQIYWETHLQSCL 120

Query: 121 DEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLR 180
           DEAAE+  LPSF   I +I +SD+IL YI  ++ ++     Y  LSYHCQ+FG YA CLR
Sbjct: 121 DEAAEIASLPSFSKCIGEIEMSDSILKYIASKESVHFWRAKYRYLSYHCQEFGCYALCLR 180

Query: 181 LQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPS 240
           LQ+ LCV E   +LR  +LQ+L+LRWIRF E V  LCKLL QN ETL SLE +HCKLS +
Sbjct: 181 LQSVLCVSEIYHILRSCRLQTLLLRWIRFPEQVNGLCKLLNQNRETLTSLELIHCKLSST 240

Query: 241 FVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCH 300
            V  IC +L   RK  H I + SI+ S F E  P ++   LVSF SSGR L S KL    
Sbjct: 241 SVNSICDALIHNRK-THGILHFSINGSRFDETEPVALPSGLVSFXSSGRYLYSFKLCDND 299

Query: 301 LDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR---SGPLFSLGAGKSLQSLRL 357
           L ++FG+ VF +LL+ASS LS+LDLS N + GWLS ++R   +G   S   GKSLQSLR+
Sbjct: 300 LGKNFGKFVFHTLLDASSCLSVLDLSENKMTGWLSNFNRRSLTGLQASSMVGKSLQSLRV 359

Query: 358 LNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE 417
           LNLRGN L K DA +L  AL HIPNLE LD+SDN IEDDGIR+LIPYF++ASER  P  +
Sbjct: 360 LNLRGNGLKKDDADNLRYALFHIPNLEFLDMSDNPIEDDGIRNLIPYFIEASERNCPFAD 419

Query: 418 LYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
           L LENCELS  GV+QLL+ LSTLR+P  SLS+ADN+LG   A +
Sbjct: 420 LNLENCELSCDGVTQLLNVLSTLRKPLRSLSVADNSLGSSVAGA 463

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359480084|ref|XP_002267362.2| PREDICTED: uncharacterized protein LOC100261775 [Vitis vinifera]

 Score =  456 bits (1173), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 245/449 (54%), Positives = 308/449 (68%), Gaps = 27/449 (6%)

Query: 23  DDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGN 82
           +D+   +YELP+ LFD LL  LPPL LQKLQ +MP R  +   S + CF NGRKRG  GN
Sbjct: 81  NDLSSAIYELPSVLFDGLLMHLPPLTLQKLQEEMPLRCWNGHESTNICFRNGRKRGSCGN 140

Query: 83  FNTVWKKLFKTRWSGFTDQIEPVDW-------------QQRYWEAHVQGCLDEAAELVVL 129
           FNT WK LFK+RW     +I+ VDW             QQ YWE H+Q C+DEAAE+ VL
Sbjct: 141 FNTAWKALFKSRWPDLARKIQRVDWSAGVAKYESIIDWQQMYWETHLQNCIDEAAEIAVL 200

Query: 130 PSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEE 189
           PSF G + +I I              +H   DYSKLSYHC+QFG YARCL+LQN LC+ E
Sbjct: 201 PSFDGGLGEIEIPG----------HRSHSTRDYSKLSYHCEQFGSYARCLKLQNMLCIAE 250

Query: 190 TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSL 249
           T  LLR+S+LQ LVLRWI+  EH+  LC+LL QN+ETL+SLEF+ C LS + +  IC SL
Sbjct: 251 TSHLLRKSRLQQLVLRWIKSSEHMDGLCQLLQQNNETLSSLEFIFCNLSSASLNAICDSL 310

Query: 250 CSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMV 309
             K  + +++++ SI  S+ +E  P S+   LVSFLSSGRSLCSLK     L ++F ++V
Sbjct: 311 RVKDMQTYRVQHFSI-TSTVLERNPLSLPHGLVSFLSSGRSLCSLKFSDNRLGKNFAKLV 369

Query: 310 FSSLLEASSSLSILDLSGNSIGGWLSKYDR---SGPLFSLGAGKSLQSLRLLNLRGNNLC 366
           F++LL+ASS LS L+   N+I GWL  +++   + PL S G GKSLQ LR+LNLRGNNLC
Sbjct: 370 FNTLLDASSRLSTLNFEDNNITGWLFNFNQRSSTWPLPSFGLGKSLQLLRVLNLRGNNLC 429

Query: 367 KADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS 426
           K DA  L  AL+++PNLEILD+SDN IEDDGI SLIPYFV+ASER +PL +L L +C+LS
Sbjct: 430 KDDADSLKYALIYMPNLEILDLSDNPIEDDGISSLIPYFVEASERHSPLADLSLGDCDLS 489

Query: 427 GRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
             GV+QLLD LSTL+ P  SLSIA N LG
Sbjct: 490 CNGVTQLLDVLSTLKNPLHSLSIAHNELG 518

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503658|ref|XP_003520623.1| PREDICTED: uncharacterized protein LOC100794405 [Glycine max]

 Score =  445 bits (1145), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 246/456 (53%), Positives = 302/456 (66%), Gaps = 7/456 (1%)

Query: 5   PSLISLAALAVKRELL--LGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGD 62
           PSL+S+   A+ ++LL    DD++P +Y+LP+ L D L+T LPPLAL+     +PF   D
Sbjct: 6   PSLLSVCIDALTQQLLRPCDDDLLPCIYDLPSHLLDTLITRLPPLALRTFHHHLPF---D 62

Query: 63  DCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDE 122
           + G         RKR R  N N+ W++LF+ RW     QI   DW+Q YWE H+Q CLDE
Sbjct: 63  EEGFSHDDSTKKRKRARDWNLNSAWQRLFQLRWPDRVKQIHRTDWEQLYWETHLQDCLDE 122

Query: 123 AAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQ 182
           A E+ ++PSF G I DI ISD+IL YIG+    NH  CD+SKLSYHC QFG +  CL LQ
Sbjct: 123 AVEVALIPSFTGYIGDIQISDSILKYIGFVGNTNHSTCDHSKLSYHCLQFGSHVSCLGLQ 182

Query: 183 NALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFV 242
           N LC  ET  LLRE KLQSLVLR IR +E +  LCKLL Q+  TL SLEF+HC LS  F+
Sbjct: 183 NVLCTAETSVLLRECKLQSLVLRCIRSKEQIDGLCKLLAQHCRTLTSLEFVHCALSTDFI 242

Query: 243 EGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLD 302
             I  SL  +R + H I++LSI  +SF+E C  S+   LVSFLSSGRSLCSLKL   H  
Sbjct: 243 NAIFGSLVIERVQKHGIQHLSIIATSFLEPCTVSLPSGLVSFLSSGRSLCSLKLSENHHG 302

Query: 303 RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR--SGPLFSLGAGKSLQSLRLLNL 360
             F + +F +LL  SS +S+LDLS N I GWL  Y R  SG   S G GKSL+ LR+LNL
Sbjct: 303 WTFAKDLFVTLLNLSSGISVLDLSRNRISGWLFYYRRSLSGSHLSFGNGKSLKLLRVLNL 362

Query: 361 RGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYL 420
           R NNL K D + L  AL H+PNLE LDISDN+IED+GIR+LIPYFV ASE C  +  L L
Sbjct: 363 RENNLGKDDVQHLRYALEHVPNLEELDISDNSIEDEGIRNLIPYFVGASETCPRITCLKL 422

Query: 421 ENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR 456
           ENC+LS  GV+ LL  LST + P  SLSIA+N LGR
Sbjct: 423 ENCDLSCVGVNLLLHYLSTFKGPLKSLSIAENYLGR 458

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570694|ref|XP_003553520.1| PREDICTED: uncharacterized protein LOC100817679 [Glycine max]

 Score =  425 bits (1092), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 241/482 (50%), Positives = 299/482 (62%), Gaps = 28/482 (5%)

Query: 5   PSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTK-MPFRDGDD 63
           PSLISL   A+ ++ L   D +P +Y+LP+ L   L+T LPP AL+      +PF   D+
Sbjct: 6   PSLISLCIDALAQQFLRPSDDLPSIYDLPSHLLHTLITRLPPFALRTFHRHHLPF---DE 62

Query: 64  CGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEA 123
            G         RKR R  N ++ W++LF  RW     QI+P DW+Q YWE H+Q CLDEA
Sbjct: 63  EGFSRDDSTKKRKRARDWNLSSAWQRLFLLRWPDRVKQIQPTDWEQHYWEIHLQDCLDEA 122

Query: 124 AELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQN 183
           AE+ ++PSF G I DI ISD+IL YIG+    +H +CD+SKLSYHC QFG +  CL LQN
Sbjct: 123 AEVALIPSFSGYIGDIQISDSILKYIGFVGNTSHSSCDHSKLSYHCLQFGSHVSCLMLQN 182

Query: 184 ALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVE 243
            LC  ET  LLRE KLQSLVLR IR +E +  LCKLL Q+   L SLEF+HC LS  F+ 
Sbjct: 183 VLCTAETSVLLRECKLQSLVLRCIRSKEQIDGLCKLLAQHCRMLTSLEFVHCTLSTDFIN 242

Query: 244 GICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG--------------- 288
            I  SL  +R + H I++LSI  +SF+E C  S+   L+SFLSSG               
Sbjct: 243 AIFGSLVIERVQKHGIQHLSIIATSFLEPCAVSLPSGLMSFLSSGRYMSIIAFLSVEYLP 302

Query: 289 ------RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR--- 339
                 RSLCSLKL      R F + +F +LL  SS +S+LDLS N I GWLS ++R   
Sbjct: 303 YATAATRSLCSLKLSDNQHGRTFAKDLFVTLLNLSSGISVLDLSENRIAGWLSDFNRRFL 362

Query: 340 SGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIR 399
           SG   S G GKSL+ LR+LNLR NNL K D   L  AL H+PNLE LDIS N+IED+GIR
Sbjct: 363 SGSHMSFGNGKSLKLLRVLNLRENNLGKDDVESLRYALQHVPNLEELDISGNSIEDEGIR 422

Query: 400 SLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
           +LIPYFV ASE C  +  L LENC+LS  GV+ LL  LS  + P  SLSIADN LG   A
Sbjct: 423 NLIPYFVGASETCPHITCLKLENCDLSCVGVNNLLHILSNFKGPLKSLSIADNYLGSQVA 482

Query: 460 NS 461
            +
Sbjct: 483 EA 484

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42569177|ref|NP_179611.2| leucine-rich repeats-ribonuclease inhibitor domain-containing protein [Arabidopsis thaliana] gi|330251888|gb|AEC06982.1| leucine-rich repeats-ribonuclease inhibitor domain-containing protein [Arabidopsis thaliana]

 Score =  405 bits (1040), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 247/469 (52%), Positives = 302/469 (64%), Gaps = 16/469 (3%)

Query: 1   MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFR- 59
           M KAPSL  L   ++K +LL  D+ IP +YELP++L D ++  LP LALQK QT MPF  
Sbjct: 1   MTKAPSLAFLCIQSLKIQLLESDNPIPDLYELPSELLDGIVAHLPALALQKFQTNMPFHC 60

Query: 60  -----DGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIE-PVDWQQRYWE 113
                 GDDC     C   GRKR R     + WK LFK RW  F D++E P DWQQ YWE
Sbjct: 61  LDSYESGDDC-----CLITGRKRARNDVLGSSWKLLFKLRWPDFVDRVESPADWQQLYWE 115

Query: 114 AHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQ-MNHLACDYSKLSYHCQQF 172
            H+Q C+DEAAE+ + P+F G I  IN+SD IL YI +E+  M    C   +LS+H Q F
Sbjct: 116 KHLQNCVDEAAEVALRPTFSGRICSINVSDNILRYICHEEHIMTCQNCVCKELSFHFQTF 175

Query: 173 GHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEF 232
           G Y RCLRL N LCV ET +LLR SKL+SLVLRWIR E+HV+ LCKLLIQ+ ETL SLE 
Sbjct: 176 GPYLRCLRLLNVLCVTETSELLRTSKLRSLVLRWIRSEKHVEPLCKLLIQSRETLTSLEL 235

Query: 233 LHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLC 292
           +HCKLS S +  IC SL  K      ++   I  SS IE  P +     VSFL S R+L 
Sbjct: 236 IHCKLSLSSISAICTSLHEKGIHTTGMQRFCIKTSS-IEIDPLAAPSAFVSFLMSVRTLH 294

Query: 293 SLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL 352
           SL     +LDR F RMVFS+LL++SS+LS LDLS N+I GWLS +     + SL +GKSL
Sbjct: 295 SLHFGDSNLDRYFARMVFSTLLDSSSNLSSLDLSENNISGWLSTFSCKSVVGSLSSGKSL 354

Query: 353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERC 412
           QSL  LNLRGN L + DA +L  AL+H+P LE LD+S N IED GIRSLI YF +  +  
Sbjct: 355 QSLCKLNLRGNELDRYDAENLAHALLHMPGLESLDLSGNPIEDSGIRSLISYFTKNPD-- 412

Query: 413 NPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
           + L +L LENCELS  GV + LDTLS L +P   LS+ADN LG   A +
Sbjct: 413 SRLADLNLENCELSCCGVIEFLDTLSMLEKPLKFLSVADNALGSEVAEA 461

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297832112|ref|XP_002883938.1| leucine-rich repeat family protein [Arabidopsis lyrata subsp. lyrata] gi|297329778|gb|EFH60197.1| leucine-rich repeat family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  393 bits (1009), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 245/463 (52%), Positives = 300/463 (64%), Gaps = 5/463 (1%)

Query: 1   MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRD 60
           M KAPSL  L   ++K +LL  D+ IP +YELP++L D ++  LP LALQ  QT MPF  
Sbjct: 1   MTKAPSLAFLCIQSLKLQLLDSDNPIPDLYELPSELLDAVIAHLPALALQNFQTNMPFNC 60

Query: 61  GDDCGSPDYCFENGRKRG-RYGNFNTVWKKLFKTRWSGFTDQIE-PVDWQQRYWEAHVQG 118
            DD  S D C  NGRKR  R     + WK LFK RW  F D++E P DWQQ YWE H+Q 
Sbjct: 61  LDDYESGDDCLINGRKRSSRNDPLGSSWKMLFKLRWPDFVDRVESPADWQQLYWEKHLQN 120

Query: 119 CLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARC 178
           C+DEAAE+ + P+F G I  IN+SD IL YI +E+ M+   C   +LS+H Q FG Y RC
Sbjct: 121 CVDEAAEVALRPTFSGRIRSINVSDNILRYICHEEHMSCQKCVCKELSFHFQTFGPYLRC 180

Query: 179 LRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLS 238
           LRL N LCV ET +LL  SKLQSLVLRWIR E+HV+ LCKLLIQ  +TL SLEF+HCKLS
Sbjct: 181 LRLLNVLCVTETSELLMTSKLQSLVLRWIRSEKHVEPLCKLLIQTRDTLTSLEFIHCKLS 240

Query: 239 PSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRH 298
            S +  IC SL  K      ++   I  SS IE  P +     VSFL S R+L SL    
Sbjct: 241 SSSISAICASLHEKGIHTTGMQRFCIKTSS-IEIDPLAAPSAFVSFLMSVRTLHSLHFCD 299

Query: 299 CHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLL 358
            +LDR   RMVFS+LL++SS+LS LDLS N+I GWLS +     + SL +GK LQSL  L
Sbjct: 300 SNLDRHIARMVFSTLLDSSSNLSSLDLSENNISGWLSTFSCRSVVGSLSSGKFLQSLCKL 359

Query: 359 NLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL 418
           NLRGN L + DA +L  AL+H+P LE LD+S N IED GIRSLI YF +  +  + L +L
Sbjct: 360 NLRGNELDRYDAENLAHALLHMPGLESLDLSGNPIEDSGIRSLISYFTKNLD--SRLADL 417

Query: 419 YLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
            LENCELS  GV + LDTLS L +P   LS+ADN LG   A +
Sbjct: 418 DLENCELSCCGVIEFLDTLSMLEKPIKFLSVADNALGSEVAEA 460

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357154921|ref|XP_003576947.1| PREDICTED: uncharacterized protein LOC100822893 [Brachypodium distachyon]

 Score =  320 bits (819), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 191/441 (43%), Positives = 259/441 (58%), Gaps = 17/441 (3%)

Query: 32  LPADLFDILLTCLPPLALQKLQTKMPFRDGDDC------GSPDYCFENGRKRGRYGNFNT 85
           LP +L   L   L P AL+ L      R           G  D     G KR R  +FNT
Sbjct: 75  LPWELLHQLAPRLSPFALESLHDAAHARCCSSASTTVRFGGLDGGNRRGIKRSRCEDFNT 134

Query: 86  VWKKLFKTRW-----SGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDIN 140
            W+ LFK RW     +G  + +  VDWQQ+YWE H+Q CLDEAAE  +LPSFRG I ++ 
Sbjct: 135 TWQALFKCRWPLDDCTGQANFVT-VDWQQQYWEKHLQECLDEAAEAALLPSFRGSIDELI 193

Query: 141 ISDTILNYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQ 200
           IS  I++ +     ++     YS+LSYHC + G+Y R LRLQN LC  E C +L+ S+L+
Sbjct: 194 ISAKIMSSVYLSADISQ---QYSRLSYHCTRLGYYVRRLRLQNVLCTVEICSMLQHSRLE 250

Query: 201 SLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIE 260
           +LV   I  E  V  +C LL  +++TL SLEF+HC+L P  ++ IC SLC +  + H+I+
Sbjct: 251 TLVFIRIISEAEVNGVCLLLSCHAKTLVSLEFIHCQLYPVVMDKICSSLCQQGSQNHEIQ 310

Query: 261 NLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSL 320
            LSI  S   E+ PS++   L++FLS  +SL  L L    +   F +++  +LL++S  L
Sbjct: 311 RLSIKSSRVCESNPSTISAGLLNFLSHAKSLQLLSLNDAKMQPSFAKIIIHTLLKSSCGL 370

Query: 321 SILDLSGNSIGGWLSKYDRSGPLFS--LGAGKSLQSLRLLNLRGNNLCKADARDLGSALV 378
             LD+S N I GWLS  DRS   FS  L +  SL SL +L LRGNNL K D  DL + + 
Sbjct: 371 QTLDISENDIAGWLSTVDRSCTSFSSELESNTSLSSLTVLKLRGNNLQKGDMEDLCNIIA 430

Query: 379 HIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLS 438
            + NL  LDISDN I D+GIR LI +F +A ++ N L  L  ENC+LS  GV++LL+ L+
Sbjct: 431 KMSNLRSLDISDNPITDEGIRFLIHFFERALQKENLLWRLRAENCDLSSIGVTKLLECLT 490

Query: 439 TLRRPPTSLSIADNNLGRFCA 459
           ++ RP   LSIADN LG   A
Sbjct: 491 SVNRPLDMLSIADNYLGSSVA 511

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

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	462
TAIR|locus:2039027	604	AT2G20210 "AT2G20210" [Arabido	0.976	0.746	0.479	3.5e-98
UNIPROTKB|Q86W25	1043	NLRP13 "NACHT, LRR and PYD dom	0.229	0.101	0.260	0.00014
UNIPROTKB|G3MYV6	1037	Bt.111263 "Uncharacterized pro	0.175	0.078	0.362	0.00018

TAIR|locus:2039027 AT2G20210 "AT2G20210" [Arabidopsis thaliana (taxid:3702)]

 Score = 975 (348.3 bits), Expect = 3.5e-98, P = 3.5e-98
 Identities = 220/459 (47%), Positives = 269/459 (58%)

Query:     1 MVKAPSLISLAALAVKRELLLGDDVIPYVYELPADLFDILLTCLPPLALQKLQTKMPFR- 59
             M KAPSL  L   ++K +LL  D+ IP +YELP++L D ++  LP LALQK QT MPF  
Sbjct:     1 MTKAPSLAFLCIQSLKIQLLESDNPIPDLYELPSELLDGIVAHLPALALQKFQTNMPFHC 60

Query:    60 -DGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTDQIE-PVDWQQRYWEAHVQ 117
              D  + G  D C   GRKR R     + WK LFK RW  F D++E P DWQQ YWE H+Q
Sbjct:    61 LDSYESGD-DCCLITGRKRARNDVLGSSWKLLFKLRWPDFVDRVESPADWQQLYWEKHLQ 119

Query:   118 GCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQQ-MNHLACDYSKLSYHCQQFGHYA 176
              C+DEAAE+ + P+F G I  IN+SD IL YI +E+  M    C   +LS+H Q FG Y 
Sbjct:   120 NCVDEAAEVALRPTFSGRICSINVSDNILRYICHEEHIMTCQNCVCKELSFHFQTFGPYL 179

Query:   177 RCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK 236
             RCLRL N LCV ET +LLR SKL+SLVLRWIR E+HV+ LCKLLIQ+ ETL SLE +HCK
Sbjct:   180 RCLRLLNVLCVTETSELLRTSKLRSLVLRWIRSEKHVEPLCKLLIQSRETLTSLELIHCK 239

Query:   237 LSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPXXXXXXXXXXXXXGRSLCSLKL 296
             LS S +  IC SL  K      ++   I  SS IE  P              R+L SL  
Sbjct:   240 LSLSSISAICTSLHEKGIHTTGMQRFCIKTSS-IEIDPLAAPSAFVSFLMSVRTLHSLHF 298

Query:   297 RHCHLDRDFGRMVFXXXXXXXXXXXXXXXXXXXIGGWLSKYDRSGPLFSLGAGKSLQSXX 356
                +LDR F RMVF                   I GWLS +     + SL +GKSLQS  
Sbjct:   299 GDSNLDRYFARMVFSTLLDSSSNLSSLDLSENNISGWLSTFSCKSVVGSLSSGKSLQSLC 358

Query:   357 XXXXXXXXXCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV 416
                       + DA +L  AL+H+P LE LD+S N IED GIRSLI YF +  +  + L 
Sbjct:   359 KLNLRGNELDRYDAENLAHALLHMPGLESLDLSGNPIEDSGIRSLISYFTKNPD--SRLA 416

Query:   417 ELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG 455
             +L LENCELS  GV + LDTLS L +P   LS+ADN LG
Sbjct:   417 DLNLENCELSCCGVIEFLDTLSMLEKPLKFLSVADNALG 455

GO:0016114 "terpenoid biosynthetic process" evidence=RCA

UNIPROTKB|Q86W25 NLRP13 "NACHT, LRR and PYD domains-containing protein 13" [Homo sapiens (taxid:9606)]

 Score = 89 (36.4 bits), Expect = 0.00014, Sum P(2) = 0.00014
 Identities = 30/115 (26%), Positives = 54/115 (46%)

Query:   151 YEQQMNHLACDYSKLSYHCQQFGHYARCLRLQ-NALCVEETCQLLRESKLQSLVLRWIRF 209
             +E  +N L  +  + S  C +       LRL  ++  +E   ++L  SK  S +  W   
Sbjct:   659 FEVDLNILEDEELQASSFCLKHCKRLNKLRLSVSSHILERDLEILETSKFDSRMHAW--- 715

Query:   210 EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSI 264
                  ++C  L+ N E L  L+  + KL  S V+G+C +L + R ++ K+   S+
Sbjct:   716 ----NSICSTLVTN-ENLHELDLSNSKLHASSVKGLCLALKNPRCKVQKLTCKSV 765

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|G3MYV6 Bt.111263 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 109 (43.4 bits), Expect = 0.00018, Sum P(2) = 0.00018
 Identities = 33/91 (36%), Positives = 50/91 (54%)

Query:   368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG 427
             A  R+L  AL H  +L+ILD+ +N I+D+G++ L    V  S  C  L  L LE C L+ 
Sbjct:   932 AGCRELAHALKHNGHLKILDVGNNDIQDEGVKELCS--VLKSPSC-VLQTLGLEKCSLTA 988

Query:   428 ---RGVSQLLDTLSTLRRPPTSLSIADNNLG 455
                R +S +L +  +L     +L++  NNLG
Sbjct:   989 ACCRPLSSVLGSSKSLE----NLNLLGNNLG 1015

GO:0005524 "ATP 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	462
cd00116	319	cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribo	4e-12
cd00116	319	cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribo	2e-10
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	4e-04
cd00116	319	cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribo	6e-04
cd00116	319	cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribo	0.004

>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

 Score = 66.6 bits (163), Expect = 4e-12
 Identities = 46/179 (25%), Positives = 77/179 (43%), Gaps = 13/179 (7%)

Query: 279 VELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD 338
             ++  L    SL  LKL +  L     R++   L +   +L  L L  N + G      
Sbjct: 98  CGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEG------ 151

Query: 339 RSGPLFSL-GAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDG 397
                 +L  A ++ + L+ LNL  N +  A  R L   L    NLE+LD+++N + D+G
Sbjct: 152 --ASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEG 209

Query: 398 IRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR 456
             +L      AS +   L  L L +  L+  G + L   L +      +LS++ N++  
Sbjct: 210 ASALAETL--ASLKS--LEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITD 264

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). Length = 319

>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

 Score = 61.2 bits (149), Expect = 2e-10
 Identities = 60/179 (33%), Positives = 80/179 (44%), Gaps = 13/179 (7%)

Query: 281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRS 340
           L+  L+ G  L  L L    L  D G  V  SLL  SSSL  L L+ N +G      DR 
Sbjct: 73  LLQGLTKGCGLQELDLSDNALGPD-GCGVLESLLR-SSSLQELKLNNNGLG------DRG 124

Query: 341 GPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRS 400
             L + G      +L  L L  N L  A    L  AL    +L+ L++++N I D GIR+
Sbjct: 125 LRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRA 184

Query: 401 LIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
           L             L  L L N  L+  G S L +TL++L+     L++ DNNL    A
Sbjct: 185 LAEGLKANCN----LEVLDLNNNGLTDEGASALAETLASLKSLEV-LNLGDNNLTDAGA 238

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). Length = 319

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 42.2 bits (99), Expect = 4e-04
 Identities = 31/122 (25%), Positives = 49/122 (40%), Gaps = 25/122 (20%)

Query: 314 LEASSSLSILDLSGNSIGG----WLSKYDRSGPLFSLGAGKSLQSLRLLNL------RGN 363
           LE    L  +DLSGN+IG      L     +           +++LR++N       R  
Sbjct: 26  LEMMDELVEVDLSGNTIGTEAMEELCNVIAN-----------VRNLRVVNFSDAFTGRDK 74

Query: 364 NLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENC 423
           +   ++   L  AL+  P L+ +D+SDN    +    L      ++     LV L L N 
Sbjct: 75  DELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSST----DLVHLKLNNN 130

Query: 424 EL 425
            L
Sbjct: 131 GL 132

Length = 388

>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

 Score = 41.6 bits (98), Expect = 6e-04
 Identities = 49/248 (19%), Positives = 87/248 (35%), Gaps = 22/248 (8%)

Query: 177 RCLRLQNALCVEETCQ----LLRESKLQSLVLRWIRFE-EHVQALCKLLIQNSETLASLE 231
           + L L +     + C     LLR S LQ L L         ++ L K L      L  L 
Sbjct: 84  QELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLV 143

Query: 232 FLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSL 291
               +L        C +L    +    ++ L++  +   +    ++   L +      +L
Sbjct: 144 LGRNRLE----GASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKAN----CNL 195

Query: 292 CSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW-LSKYDRSGPLFSLGAGK 350
             L L +  L  D G    +  L +  SL +L+L  N++     +         +     
Sbjct: 196 EVLDLNNNGL-TDEGASALAETLASLKSLEVLNLGDNNLTDAGAAA-------LASALLS 247

Query: 351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE 410
              SL  L+L  N++    A+DL   L    +L  LD+  N   ++G + L    ++   
Sbjct: 248 PNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQLLAESLLEPGN 307

Query: 411 RCNPLVEL 418
               L   
Sbjct: 308 ELESLWVK 315

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). Length = 319

>gnl|CDD|238064 cd00116, LRR_RI, Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 29/92 (31%), Positives = 42/92 (45%), Gaps = 6/92 (6%)

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN-TIEDD-GIRSLIPYFVQ 407
             L  L++L L GN L +  A+ L SAL   P+L+ L +S N T     G++SL+     
Sbjct: 20  PKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGL-- 77

Query: 408 ASERCNPLVELYLENCELSGRGVSQLLDTLST 439
              +   L EL L +  L   G   L   L +
Sbjct: 78  --TKGCGLQELDLSDNALGPDGCGVLESLLRS 107

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). Length = 319

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	462
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.88
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.88
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.86
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.85
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.79
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.78
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.72
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.71
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.69
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.66
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	99.63
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	99.55
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.49
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.48
KOG4308	478	consensus LRR-containing protein [Function unknown	99.45
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.4
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.39
KOG4308	478	consensus LRR-containing protein [Function unknown	99.38
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.37
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.35
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.35
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.31
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.31
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.29
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.25
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	99.19
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.18
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.16
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.15
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.12
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.11
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.1
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	99.09
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.89
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.88
KOG4341	483	consensus F-box protein containing LRR [General fu	98.86
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.85
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.82
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.75
KOG4341	483	consensus F-box protein containing LRR [General fu	98.67
PLN03150	623	hypothetical protein; Provisional	98.58
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.58
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.5
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.41
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.38
PLN03150	623	hypothetical protein; Provisional	98.37
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.24
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.23
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.23
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.22
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.2
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.18
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.15
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.07
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.07
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.02
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.98
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.93
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.91
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.71
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.68
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.58
PRK15386	426	type III secretion protein GogB; Provisional	97.48
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.39
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.22
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.14
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.09
PRK15386	426	type III secretion protein GogB; Provisional	96.94
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	96.84
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.75
KOG4242	553	consensus Predicted myosin-I-binding protein [Cell	96.74
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.63
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.6
smart00368	28	LRR_RI Leucine rich repeat, ribonuclease inhibitor	96.5
KOG3864	221	consensus Uncharacterized conserved protein [Funct	96.46
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	96.28
PF13516	24	LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RI	95.5
KOG4242	553	consensus Predicted myosin-I-binding protein [Cell	95.49
KOG3735	353	consensus Tropomodulin and leiomodulin [Cytoskelet	95.42
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	93.86
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	93.76
KOG3735	353	consensus Tropomodulin and leiomodulin [Cytoskelet	92.97
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	91.93
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	89.73
PF07525	40	SOCS_box: SOCS box; InterPro: IPR001496 The SOCS b	86.42
cd03716	42	SOCS_ASB_like SOCS (suppressors of cytokine signal	84.91
KOG3763	585	consensus mRNA export factor TAP/MEX67 [RNA proces	84.29
cd03717	39	SOCS_SOCS_like SOCS (suppressors of cytokine signa	81.76
cd03587	41	SOCS SOCS (suppressors of cytokine signaling) box.	80.25

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

Probab=99.88  E-value=6.7e-21  Score=183.74  Aligned_cols=245  Identities=25%  Similarity=0.270  Sum_probs=190.0

Q ss_pred             hhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccC-CCccEEecCCC
Q 012512          189 ETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRI-HKIENLSIDIS  267 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~-~~L~~L~l~~~  267 (462)
                      ....+..+++|++|++++|.+.......+..+... ++|++|++++|.+++.+...+...+..    + ++|++|++++|
T Consensus        73 ~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~-~~L~~L~ls~~~~~~~~~~~l~~~l~~----~~~~L~~L~L~~n  147 (319)
T cd00116          73 LLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRS-SSLQELKLNNNGLGDRGLRLLAKGLKD----LPPALEKLVLGRN  147 (319)
T ss_pred             HHHHHHhcCceeEEEccCCCCChhHHHHHHHHhcc-CcccEEEeeCCccchHHHHHHHHHHHh----CCCCceEEEcCCC
Confidence            44556678899999999988765554455555555 779999999999988777777666655    4 78999999999


Q ss_pred             CCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhh
Q 012512          268 SFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLG  347 (462)
Q Consensus       268 ~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~  347 (462)
                      .++.    .....+...+..+++|++|++++|.+++.+...+...+.. .++|++|++++|.+++    .+...+...+.
T Consensus       148 ~l~~----~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~-~~~L~~L~L~~n~i~~----~~~~~l~~~~~  218 (319)
T cd00116         148 RLEG----ASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKA-NCNLEVLDLNNNGLTD----EGASALAETLA  218 (319)
T ss_pred             cCCc----hHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHh-CCCCCEEeccCCccCh----HHHHHHHHHhc
Confidence            9885    2223566677778899999999999998887777766544 3799999999998874    22233334444


Q ss_pred             CCCCCCCccEEEccCCCCCcchHHHHHHHhhc-CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          348 AGKSLQSLRLLNLRGNNLCKADARDLGSALVH-IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       348 ~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                         .+++|++|++++|.+++.++..+...+.. .++|++|++++|.+++.|...+..    .+...++|+.+++++|.++
T Consensus       219 ---~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~----~~~~~~~L~~l~l~~N~l~  291 (319)
T cd00116         219 ---SLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAE----VLAEKESLLELDLRGNKFG  291 (319)
T ss_pred             ---ccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHH----HHhcCCCccEEECCCCCCc
Confidence               56889999999999998887777766543 678999999999999888877764    4455589999999999999


Q ss_pred             hhhHHHHHHHHhcCCCCCcEEEccCCCC
Q 012512          427 GRGVSQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       427 ~~~~~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                      +.++..++..+....+.|++||+.+|.+
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (319)
T cd00116         292 EEGAQLLAESLLEPGNELESLWVKDDSF  319 (319)
T ss_pred             HHHHHHHHHHHhhcCCchhhcccCCCCC
Confidence            9999999999887436799999998875

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

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

Probab=99.88  E-value=1.8e-20  Score=180.77  Aligned_cols=248  Identities=21%  Similarity=0.247  Sum_probs=193.9

Q ss_pred             hhhhhhcCCCcCEEEeccCCCh---HHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecC
Q 012512          189 ETCQLLRESKLQSLVLRWIRFE---EHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSID  265 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~---~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~  265 (462)
                      +...+...+.+++++++++...   ..+..+...+. .+++|++|++++|.+.......+.... .    .++|++|+++
T Consensus        43 i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~-~~~~L~~L~l~~~~~~~~~~~~~~~l~-~----~~~L~~L~ls  116 (319)
T cd00116          43 LASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLT-KGCGLQELDLSDNALGPDGCGVLESLL-R----SSSLQELKLN  116 (319)
T ss_pred             HHHHHhhCCCceEEeccccccCCcchHHHHHHHHHH-hcCceeEEEccCCCCChhHHHHHHHHh-c----cCcccEEEee
Confidence            4455667788999999988765   33444434434 488999999999999866555554321 1    1459999999


Q ss_pred             CCCCCCCCCchhHHHHHHhhcCC-CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHH
Q 012512          266 ISSFIENCPSSVVVELVSFLSSG-RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLF  344 (462)
Q Consensus       266 ~~~~~~~~~~~~~~~l~~~l~~l-~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~  344 (462)
                      +|.+...    ....+...+..+ ++|+.|++++|.++..+...+...+ ..+.+|++|++++|.+++.    +...++.
T Consensus       117 ~~~~~~~----~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~-~~~~~L~~L~l~~n~l~~~----~~~~l~~  187 (319)
T cd00116         117 NNGLGDR----GLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKAL-RANRDLKELNLANNGIGDA----GIRALAE  187 (319)
T ss_pred             CCccchH----HHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHH-HhCCCcCEEECcCCCCchH----HHHHHHH
Confidence            9998762    223556677777 8999999999999987777766654 4458899999999999852    2222334


Q ss_pred             hhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          345 SLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       345 ~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      .+.   .+++|+.|++++|.+++.++..+...+..+++|++|++++|.+++.++..++..+   ....+.|++|++++|.
T Consensus       188 ~l~---~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~---~~~~~~L~~L~l~~n~  261 (319)
T cd00116         188 GLK---ANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASAL---LSPNISLLTLSLSCND  261 (319)
T ss_pred             HHH---hCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHH---hccCCCceEEEccCCC
Confidence            444   4479999999999999999999999999999999999999999998888877533   2245899999999999


Q ss_pred             CChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          425 LSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       425 l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      +++.+...+.+.+... ++|+++|+++|.+++++
T Consensus       262 i~~~~~~~l~~~~~~~-~~L~~l~l~~N~l~~~~  294 (319)
T cd00116         262 ITDDGAKDLAEVLAEK-ESLLELDLRGNKFGEEG  294 (319)
T ss_pred             CCcHHHHHHHHHHhcC-CCccEEECCCCCCcHHH
Confidence            9999999999999884 67999999999999874

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).

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

Probab=99.86  E-value=7.7e-21  Score=173.01  Aligned_cols=261  Identities=19%  Similarity=0.213  Sum_probs=156.7

Q ss_pred             ceeeeccccchH-----hhhhhhcCCCcCEEEeccCC-------ChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHH
Q 012512          177 RCLRLQNALCVE-----ETCQLLRESKLQSLVLRWIR-------FEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEG  244 (462)
Q Consensus       177 ~~l~l~~~~~~~-----~~~~l~~~~~L~~L~L~~~~-------~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~  244 (462)
                      ..++++++.+.+     +...+.+.++|++.+++.--       +...+..+.+.+.. ++.|++|+||.|-++..+++.
T Consensus        33 ~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~-~~~L~~ldLSDNA~G~~g~~~  111 (382)
T KOG1909|consen   33 TKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLG-CPKLQKLDLSDNAFGPKGIRG  111 (382)
T ss_pred             EEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhc-CCceeEeeccccccCccchHH
Confidence            334445544443     22333445566666665432       11222333333333 456777777777777666666


Q ss_pred             HHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHH-----hhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCC
Q 012512          245 ICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVS-----FLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSS  319 (462)
Q Consensus       245 l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~-----~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~  319 (462)
                      +...+.+    +..|++|.|.+|.+...+...+...+..     ....-++|+++...+|++.+.+...++..+... +.
T Consensus       112 l~~ll~s----~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~-~~  186 (382)
T KOG1909|consen  112 LEELLSS----CTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSH-PT  186 (382)
T ss_pred             HHHHHHh----ccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhc-cc
Confidence            6666555    5667777777776665444332222221     223344677777777777666666666655443 66


Q ss_pred             ccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHH
Q 012512          320 LSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIR  399 (462)
Q Consensus       320 L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~  399 (462)
                      |+.+.++.|.|.    +.+...+...+.   +|+.|+.|||.+|-++..|..++..+++.+++|++|+++++.+.+.|..
T Consensus       187 leevr~~qN~I~----~eG~~al~eal~---~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~  259 (382)
T KOG1909|consen  187 LEEVRLSQNGIR----PEGVTALAEALE---HCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAI  259 (382)
T ss_pred             cceEEEeccccc----CchhHHHHHHHH---hCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHH
Confidence            777777777665    233334444444   5567777777777777777777777777777777777777777777777


Q ss_pred             hHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCC
Q 012512          400 SLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       400 ~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                      ++..++...   .++|+.|.+.+|.|+..++..++.++.. .+.|+.|+|++|.+
T Consensus       260 a~~~al~~~---~p~L~vl~l~gNeIt~da~~~la~~~~e-k~dL~kLnLngN~l  310 (382)
T KOG1909|consen  260 AFVDALKES---APSLEVLELAGNEITRDAALALAACMAE-KPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHHHHhcc---CCCCceeccCcchhHHHHHHHHHHHHhc-chhhHHhcCCcccc
Confidence            777655433   3677777777777777777777766666 45577777777777

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

Probab=99.85  E-value=1.6e-20  Score=170.96  Aligned_cols=249  Identities=23%  Similarity=0.286  Sum_probs=199.8

Q ss_pred             hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCC---CCChhHHH---HHHHHHhcccccCCCccEEec
Q 012512          191 CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHC---KLSPSFVE---GICRSLCSKRKRIHKIENLSI  264 (462)
Q Consensus       191 ~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~---~l~~~~~~---~l~~~l~~~~~~~~~L~~L~l  264 (462)
                      ..+.....+++++|++|.+.............+.++|+..+++.-   +..+..++   .+..+|..    +++|++++|
T Consensus        24 ~~~~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~----~~~L~~ldL   99 (382)
T KOG1909|consen   24 EELEPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLG----CPKLQKLDL   99 (382)
T ss_pred             HHhcccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhc----CCceeEeec
Confidence            344466788999999999776655555555555789999999874   33334443   33444433    669999999


Q ss_pred             CCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHh--------hCCCCccEEEecCCCCCCcccc
Q 012512          265 DISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL--------EASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       265 ~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~--------~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      |+|.|...    .+..+...++++.+|++|.|.+|.++..+-..+..+|+        ...++|+++..+.|++.    +
T Consensus       100 SDNA~G~~----g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrle----n  171 (382)
T KOG1909|consen  100 SDNAFGPK----GIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLE----N  171 (382)
T ss_pred             cccccCcc----chHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccc----c
Confidence            99999884    44578888888999999999999999887777665443        34578999999999988    4


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                      .+...++..+.   .+++|+.+.++.|.|...|+..+..++.+|++|+.|||.+|.++..|..++.    ..+..++.|+
T Consensus       172 ~ga~~~A~~~~---~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~La----kaL~s~~~L~  244 (382)
T KOG1909|consen  172 GGATALAEAFQ---SHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALA----KALSSWPHLR  244 (382)
T ss_pred             ccHHHHHHHHH---hccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHH----HHhcccchhe
Confidence            66677777777   4479999999999999999999999999999999999999999999988888    4556668999


Q ss_pred             EEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          417 ELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       417 ~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      .|++++|.+...|+.++.+++...+++|++|.+.+|.|+..+
T Consensus       245 El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da  286 (382)
T KOG1909|consen  245 ELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDA  286 (382)
T ss_pred             eecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHH
Confidence            999999999999999999999987788999999999987654

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

Probab=99.79  E-value=3.7e-19  Score=196.50  Aligned_cols=229  Identities=23%  Similarity=0.225  Sum_probs=113.2

Q ss_pred             ccceeeeccccch-HhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCV-EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~-~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++... ..+..+..+++|++|++++|.+....+..    +.++++|++|+|++|.+....+..+..      
T Consensus       141 ~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~----~~~l~~L~~L~L~~n~l~~~~p~~l~~------  210 (968)
T PLN00113        141 NLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNS----LTNLTSLEFLTLASNQLVGQIPRELGQ------  210 (968)
T ss_pred             CCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChh----hhhCcCCCeeeccCCCCcCcCChHHcC------
Confidence            3455666665543 24455666677777777766644332211    234666677777666665444433322      


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                        +.+|++|++++|.+..        .++..+..+++|++|++++|.+.+..+..+     ..+++|++|++++|.+.+.
T Consensus       211 --l~~L~~L~L~~n~l~~--------~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l-----~~l~~L~~L~L~~n~l~~~  275 (968)
T PLN00113        211 --MKSLKWIYLGYNNLSG--------EIPYEIGGLTSLNHLDLVYNNLTGPIPSSL-----GNLKNLQYLFLYQNKLSGP  275 (968)
T ss_pred             --cCCccEEECcCCccCC--------cCChhHhcCCCCCEEECcCceeccccChhH-----hCCCCCCEEECcCCeeecc
Confidence              4556666666665554        344445555566666666665554444333     2345556666655555543


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                      .|        ..+.   ++.+|+.|++++|.++.    .++..+.++++|+.|++++|.+...     .|   ..+..++
T Consensus       276 ~p--------~~l~---~l~~L~~L~Ls~n~l~~----~~p~~~~~l~~L~~L~l~~n~~~~~-----~~---~~~~~l~  332 (968)
T PLN00113        276 IP--------PSIF---SLQKLISLDLSDNSLSG----EIPELVIQLQNLEILHLFSNNFTGK-----IP---VALTSLP  332 (968)
T ss_pred             Cc--------hhHh---hccCcCEEECcCCeecc----CCChhHcCCCCCcEEECCCCccCCc-----CC---hhHhcCC
Confidence            33        2222   33455555555555543    2344444555555555555554431     22   2233344


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +|+.|++++|.++..    ++..+.. ..+|+.|++++|++++
T Consensus       333 ~L~~L~L~~n~l~~~----~p~~l~~-~~~L~~L~Ls~n~l~~  370 (968)
T PLN00113        333 RLQVLQLWSNKFSGE----IPKNLGK-HNNLTVLDLSTNNLTG  370 (968)
T ss_pred             CCCEEECcCCCCcCc----CChHHhC-CCCCcEEECCCCeeEe
Confidence            455555555544432    2333333 2234444444444443

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

Probab=99.78  E-value=6.5e-19  Score=194.59  Aligned_cols=232  Identities=22%  Similarity=0.233  Sum_probs=163.9

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++....... ...+++|++|+|++|.+.......    +..+++|++|++++|.+....+..+..       
T Consensus       119 ~L~~L~Ls~n~l~~~~p-~~~l~~L~~L~Ls~n~~~~~~p~~----~~~l~~L~~L~L~~n~l~~~~p~~~~~-------  186 (968)
T PLN00113        119 SLRYLNLSNNNFTGSIP-RGSIPNLETLDLSNNMLSGEIPND----IGSFSSLKVLDLGGNVLVGKIPNSLTN-------  186 (968)
T ss_pred             CCCEEECcCCccccccC-ccccCCCCEEECcCCcccccCChH----HhcCCCCCEEECccCcccccCChhhhh-------
Confidence            44555665554432111 134567777777777655332221    345778888888888776555555544       


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                       +.+|++|++++|.+..        .++..+..+++|++|+|++|.+.+..+..+     ..+++|++|++++|.+++..
T Consensus       187 -l~~L~~L~L~~n~l~~--------~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l-----~~l~~L~~L~L~~n~l~~~~  252 (968)
T PLN00113        187 -LTSLEFLTLASNQLVG--------QIPRELGQMKSLKWIYLGYNNLSGEIPYEI-----GGLTSLNHLDLVYNNLTGPI  252 (968)
T ss_pred             -CcCCCeeeccCCCCcC--------cCChHHcCcCCccEEECcCCccCCcCChhH-----hcCCCCCEEECcCceecccc
Confidence             6778888888887766        466677778888888888888877666654     34678888888888887654


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                      |        ..+.   ++++|+.|++++|++++    .++..+..+++|++|++++|.++..     +|   ..+..+++
T Consensus       253 p--------~~l~---~l~~L~~L~L~~n~l~~----~~p~~l~~l~~L~~L~Ls~n~l~~~-----~p---~~~~~l~~  309 (968)
T PLN00113        253 P--------SSLG---NLKNLQYLFLYQNKLSG----PIPPSIFSLQKLISLDLSDNSLSGE-----IP---ELVIQLQN  309 (968)
T ss_pred             C--------hhHh---CCCCCCEEECcCCeeec----cCchhHhhccCcCEEECcCCeeccC-----CC---hhHcCCCC
Confidence            4        4555   55788889999888876    4677788888899999998887653     44   45667789


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                      |+.|++++|.++..    ++..+..+ ++|+.|++++|.+++.+|.
T Consensus       310 L~~L~l~~n~~~~~----~~~~~~~l-~~L~~L~L~~n~l~~~~p~  350 (968)
T PLN00113        310 LEILHLFSNNFTGK----IPVALTSL-PRLQVLQLWSNKFSGEIPK  350 (968)
T ss_pred             CcEEECCCCccCCc----CChhHhcC-CCCCEEECcCCCCcCcCCh
Confidence            99999999988765    55666664 5599999999999877663

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

Probab=99.72  E-value=1.3e-19  Score=174.60  Aligned_cols=180  Identities=19%  Similarity=0.148  Sum_probs=90.6

Q ss_pred             cceeeeccccchHhhhhhh-cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          176 ARCLRLQNALCVEETCQLL-RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~-~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      ++.++++.+.+.+++..-+ ...++++|+|++|.++..-.+-    +.++.+|..|.|+.|.++......+..       
T Consensus       151 lrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~----F~~lnsL~tlkLsrNrittLp~r~Fk~-------  219 (873)
T KOG4194|consen  151 LRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGH----FDSLNSLLTLKLSRNRITTLPQRSFKR-------  219 (873)
T ss_pred             hhhhhhhhchhhcccCCCCCCCCCceEEeecccccccccccc----ccccchheeeecccCcccccCHHHhhh-------
Confidence            3556666665555443333 4466777777777654432221    234556777777777776555444433       


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                       +++|+.|+|..|.+-..        -...|.++++|+.|.|..|.+..-     -.+.+..+.++++|+|+.|++....
T Consensus       220 -L~~L~~LdLnrN~iriv--------e~ltFqgL~Sl~nlklqrN~I~kL-----~DG~Fy~l~kme~l~L~~N~l~~vn  285 (873)
T KOG4194|consen  220 -LPKLESLDLNRNRIRIV--------EGLTFQGLPSLQNLKLQRNDISKL-----DDGAFYGLEKMEHLNLETNRLQAVN  285 (873)
T ss_pred             -cchhhhhhccccceeee--------hhhhhcCchhhhhhhhhhcCcccc-----cCcceeeecccceeecccchhhhhh
Confidence             66777777777766441        122334444555555554444321     1111223455555555555554211


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      .        .++.   +++.|+.|+|+.|.|..    .-+.+++.++.|++|+|++|.|+.
T Consensus       286 ~--------g~lf---gLt~L~~L~lS~NaI~r----ih~d~WsftqkL~~LdLs~N~i~~  331 (873)
T KOG4194|consen  286 E--------GWLF---GLTSLEQLDLSYNAIQR----IHIDSWSFTQKLKELDLSSNRITR  331 (873)
T ss_pred             c--------cccc---ccchhhhhccchhhhhe----eecchhhhcccceeEecccccccc
Confidence            1        1122   44555555555555544    223345555555555555555443

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

Probab=99.71  E-value=4.6e-19  Score=170.86  Aligned_cols=161  Identities=25%  Similarity=0.225  Sum_probs=118.3

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +.++++|+|+.|++..        --...+-++++|+.|+||+|.|....++.+.     .+.+|++|+|++|+|+...+
T Consensus       268 l~kme~l~L~~N~l~~--------vn~g~lfgLt~L~~L~lS~NaI~rih~d~Ws-----ftqkL~~LdLs~N~i~~l~~  334 (873)
T KOG4194|consen  268 LEKMEHLNLETNRLQA--------VNEGWLFGLTSLEQLDLSYNAIQRIHIDSWS-----FTQKLKELDLSSNRITRLDE  334 (873)
T ss_pred             ecccceeecccchhhh--------hhcccccccchhhhhccchhhhheeecchhh-----hcccceeEeccccccccCCh
Confidence            6778888888888766        3344566788999999999988776666552     25789999999999885333


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                              ..+.   .+..|++|+|++|+|+.     +.+ +|..+++|++|||++|.|+--     ++.-...+..++.
T Consensus       335 --------~sf~---~L~~Le~LnLs~Nsi~~-----l~e~af~~lssL~~LdLr~N~ls~~-----IEDaa~~f~gl~~  393 (873)
T KOG4194|consen  335 --------GSFR---VLSQLEELNLSHNSIDH-----LAEGAFVGLSSLHKLDLRSNELSWC-----IEDAAVAFNGLPS  393 (873)
T ss_pred             --------hHHH---HHHHhhhhcccccchHH-----HHhhHHHHhhhhhhhcCcCCeEEEE-----Eecchhhhccchh
Confidence                    3333   55789999999999985     444 688889999999999986531     1100034556799


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      |++|++.+|+|...    --.++..+ ..|++|||.+|.|-
T Consensus       394 LrkL~l~gNqlk~I----~krAfsgl-~~LE~LdL~~Naia  429 (873)
T KOG4194|consen  394 LRKLRLTGNQLKSI----PKRAFSGL-EALEHLDLGDNAIA  429 (873)
T ss_pred             hhheeecCceeeec----chhhhccC-cccceecCCCCcce
Confidence            99999999998774    23456664 44999999999874

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

Probab=99.69  E-value=1.6e-18  Score=168.34  Aligned_cols=216  Identities=23%  Similarity=0.203  Sum_probs=159.6

Q ss_pred             hhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCC
Q 012512          189 ETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISS  268 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~  268 (462)
                      +|..++++..|..|+||+|.+......+     ..-+++-.|+||+|.|....-..+..        +..|-.|+|++|.
T Consensus        95 iP~diF~l~dLt~lDLShNqL~EvP~~L-----E~AKn~iVLNLS~N~IetIPn~lfin--------LtDLLfLDLS~Nr  161 (1255)
T KOG0444|consen   95 IPTDIFRLKDLTILDLSHNQLREVPTNL-----EYAKNSIVLNLSYNNIETIPNSLFIN--------LTDLLFLDLSNNR  161 (1255)
T ss_pred             CCchhcccccceeeecchhhhhhcchhh-----hhhcCcEEEEcccCccccCCchHHHh--------hHhHhhhccccch
Confidence            5677888888888999888876655543     33568888899998886433333322        4556788888888


Q ss_pred             CCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCC-CcccccCcccHHHhhh
Q 012512          269 FIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIG-GWLSKYDRSGPLFSLG  347 (462)
Q Consensus       269 ~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~-~~~~~~~~~~l~~~l~  347 (462)
                      +..         ++..++.+..|++|+|++|.+.....+.+     +.+++|+.|.+|+.+-+ +.        ++..+.
T Consensus       162 Le~---------LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQL-----PsmtsL~vLhms~TqRTl~N--------~Ptsld  219 (1255)
T KOG0444|consen  162 LEM---------LPPQIRRLSMLQTLKLSNNPLNHFQLRQL-----PSMTSLSVLHMSNTQRTLDN--------IPTSLD  219 (1255)
T ss_pred             hhh---------cCHHHHHHhhhhhhhcCCChhhHHHHhcC-----ccchhhhhhhcccccchhhc--------CCCchh
Confidence            744         77778888888999999998877666654     55778888888887633 22        224455


Q ss_pred             CCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          348 AGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       348 ~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                         .+.+|..+|||.|++..     +|..+-...+|+.|+||+|.|+.      +.   .......+|++|++|.|+++.
T Consensus       220 ---~l~NL~dvDlS~N~Lp~-----vPecly~l~~LrrLNLS~N~ite------L~---~~~~~W~~lEtLNlSrNQLt~  282 (1255)
T KOG0444|consen  220 ---DLHNLRDVDLSENNLPI-----VPECLYKLRNLRRLNLSGNKITE------LN---MTEGEWENLETLNLSRNQLTV  282 (1255)
T ss_pred             ---hhhhhhhccccccCCCc-----chHHHhhhhhhheeccCcCceee------ee---ccHHHHhhhhhhccccchhcc
Confidence               55788888899988884     88888888889999999998876      22   122233688888899998888


Q ss_pred             hhHHHHHHHHhcCCCCCcEEEccCCCCCCccccCC
Q 012512          428 RGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG  462 (462)
Q Consensus       428 ~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~~~  462 (462)
                           ++++++++.+ |+.|.+.+|+++-+|..||
T Consensus       283 -----LP~avcKL~k-L~kLy~n~NkL~FeGiPSG  311 (1255)
T KOG0444|consen  283 -----LPDAVCKLTK-LTKLYANNNKLTFEGIPSG  311 (1255)
T ss_pred             -----chHHHhhhHH-HHHHHhccCcccccCCccc
Confidence                 7888888644 8888888888888888776

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

Probab=99.66  E-value=9.1e-19  Score=170.05  Aligned_cols=235  Identities=22%  Similarity=0.218  Sum_probs=144.9

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHH--------
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGIC--------  246 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~--------  246 (462)
                      .+..++++++...+.|..+..-+++-.|+||+|++......++    -++..|-.||||+|++....++.-.        
T Consensus       104 dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lf----inLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~  179 (1255)
T KOG0444|consen  104 DLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLF----INLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLK  179 (1255)
T ss_pred             cceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHH----HhhHhHhhhccccchhhhcCHHHHHHhhhhhhh
Confidence            4556677777777777777777777777777777665554442    2344455666666655422221100        


Q ss_pred             --------HHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCC
Q 012512          247 --------RSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASS  318 (462)
Q Consensus       247 --------~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~  318 (462)
                              -.|+. ...+.+|+.|++++.+-+.       ..++..+..+.+|..+|+|.|.+.. .|..+..     +.
T Consensus       180 Ls~NPL~hfQLrQ-LPsmtsL~vLhms~TqRTl-------~N~Ptsld~l~NL~dvDlS~N~Lp~-vPecly~-----l~  245 (1255)
T KOG0444|consen  180 LSNNPLNHFQLRQ-LPSMTSLSVLHMSNTQRTL-------DNIPTSLDDLHNLRDVDLSENNLPI-VPECLYK-----LR  245 (1255)
T ss_pred             cCCChhhHHHHhc-Cccchhhhhhhcccccchh-------hcCCCchhhhhhhhhccccccCCCc-chHHHhh-----hh
Confidence                    00000 0114445555555544322       2455556666778888888887765 5665533     57


Q ss_pred             CccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhH
Q 012512          319 SLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGI  398 (462)
Q Consensus       319 ~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~  398 (462)
                      +|+.|+||+|.|+.         +....+   ...+|++|+||.|+++     .+|.++..++.|+.|...+|++.-+|+
T Consensus       246 ~LrrLNLS~N~ite---------L~~~~~---~W~~lEtLNlSrNQLt-----~LP~avcKL~kL~kLy~n~NkL~FeGi  308 (1255)
T KOG0444|consen  246 NLRRLNLSGNKITE---------LNMTEG---EWENLETLNLSRNQLT-----VLPDAVCKLTKLTKLYANNNKLTFEGI  308 (1255)
T ss_pred             hhheeccCcCceee---------eeccHH---HHhhhhhhccccchhc-----cchHHHhhhHHHHHHHhccCcccccCC
Confidence            88888888888874         222223   2356777777777777     377777777777777777777666543


Q ss_pred             Hh-------------------HHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          399 RS-------------------LIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       399 ~~-------------------l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      ..                   ++|   ..++.|..|++|.|++|++-.     +++++.-+ +.|+.||+..|+
T Consensus       309 PSGIGKL~~Levf~aanN~LElVP---EglcRC~kL~kL~L~~NrLiT-----LPeaIHlL-~~l~vLDlreNp  373 (1255)
T KOG0444|consen  309 PSGIGKLIQLEVFHAANNKLELVP---EGLCRCVKLQKLKLDHNRLIT-----LPEAIHLL-PDLKVLDLRENP  373 (1255)
T ss_pred             ccchhhhhhhHHHHhhccccccCc---hhhhhhHHHHHhcccccceee-----chhhhhhc-CCcceeeccCCc
Confidence            21                   133   567777888888888888766     67777664 448888888874

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

Probab=99.63  E-value=2.1e-14  Score=126.84  Aligned_cols=254  Identities=20%  Similarity=0.220  Sum_probs=195.2

Q ss_pred             hhhhhhcCCCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCC---ChhHHHHHHHHHhcccccCCCccEEec
Q 012512          189 ETCQLLRESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKL---SPSFVEGICRSLCSKRKRIHKIENLSI  264 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l---~~~~~~~l~~~l~~~~~~~~~L~~L~l  264 (462)
                      ....+.....+.+++||+|.+... ...++..+. +-++|+..+++.-..   .+..+..+. .|.....+|++|+..+|
T Consensus        22 v~eel~~~d~~~evdLSGNtigtEA~e~l~~~ia-~~~~L~vvnfsd~ftgr~kde~~~~L~-~Ll~aLlkcp~l~~v~L   99 (388)
T COG5238          22 VVEELEMMDELVEVDLSGNTIGTEAMEELCNVIA-NVRNLRVVNFSDAFTGRDKDELYSNLV-MLLKALLKCPRLQKVDL   99 (388)
T ss_pred             HHHHHHhhcceeEEeccCCcccHHHHHHHHHHHh-hhcceeEeehhhhhhcccHHHHHHHHH-HHHHHHhcCCcceeeec
Confidence            344555678899999999997655 444544444 468999999987432   333333321 22233345899999999


Q ss_pred             CCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHh--------hCCCCccEEEecCCCCCCcccc
Q 012512          265 DISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL--------EASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       265 ~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~--------~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      |+|.|..    ..++.+...+++.++|++|.+++|.++...-..+..+++        .+-+.|+..+...|++.    .
T Consensus       100 SDNAfg~----~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRle----n  171 (388)
T COG5238         100 SDNAFGS----EFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLE----N  171 (388)
T ss_pred             cccccCc----ccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhc----c
Confidence            9999987    556689999999999999999999998766666665444        23578999999999987    3


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                      .+.+..+..+.+   ...|+++.+..|.|..+|+..+.- .+..+++|+.||+.+|.++..|-..+.    ..++..+.|
T Consensus       172 gs~~~~a~~l~s---h~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La----~al~~W~~l  244 (388)
T COG5238         172 GSKELSAALLES---HENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLA----DALCEWNLL  244 (388)
T ss_pred             CcHHHHHHHHHh---hcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHH----HHhcccchh
Confidence            455555556663   268999999999999999987654 677899999999999999999988887    556777889


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcC-CCCCcEEEccCCCCCCccc
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTL-RRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l-~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +.|++.+|-++..|+.++...+... .++|..|-..+|.+.+.+.
T Consensus       245 rEL~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i  289 (388)
T COG5238         245 RELRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGII  289 (388)
T ss_pred             hhccccchhhccccHHHHHHHhhhhcCCCccccccchhhhcCcee
Confidence            9999999999999999988887642 3568999999998866543

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

Probab=99.55  E-value=1.8e-13  Score=120.97  Aligned_cols=234  Identities=16%  Similarity=0.151  Sum_probs=185.8

Q ss_pred             HHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHH---HHHHhhcCC
Q 012512          212 HVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVV---ELVSFLSSG  288 (462)
Q Consensus       212 ~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~---~l~~~l~~l  288 (462)
                      .....+..+.. +..+.+++||+|.|+.+.+++++..+.+    -.+|+..++++-.. ......+++   .+.+++..|
T Consensus        18 Dvk~v~eel~~-~d~~~evdLSGNtigtEA~e~l~~~ia~----~~~L~vvnfsd~ft-gr~kde~~~~L~~Ll~aLlkc   91 (388)
T COG5238          18 DVKGVVEELEM-MDELVEVDLSGNTIGTEAMEELCNVIAN----VRNLRVVNFSDAFT-GRDKDELYSNLVMLLKALLKC   91 (388)
T ss_pred             hhhHHHHHHHh-hcceeEEeccCCcccHHHHHHHHHHHhh----hcceeEeehhhhhh-cccHHHHHHHHHHHHHHHhcC
Confidence            34444444454 7899999999999999999999998877    46788888876532 222222322   345567788


Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhh------CCCCCCCccEEEccC
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLG------AGKSLQSLRLLNLRG  362 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~------~~~~l~~L~~L~L~~  362 (462)
                      +.|+..+||.|-++...+..+...+.+. +.|++|.|++|.+.    ++...-+..++.      ..++-+.|++.....
T Consensus        92 p~l~~v~LSDNAfg~~~~e~L~d~is~~-t~l~HL~l~NnGlG----p~aG~rigkal~~la~nKKaa~kp~Le~vicgr  166 (388)
T COG5238          92 PRLQKVDLSDNAFGSEFPEELGDLISSS-TDLVHLKLNNNGLG----PIAGGRIGKALFHLAYNKKAADKPKLEVVICGR  166 (388)
T ss_pred             CcceeeeccccccCcccchHHHHHHhcC-CCceeEEeecCCCC----ccchhHHHHHHHHHHHHhhhccCCCceEEEecc
Confidence            9999999999999999998888776554 89999999999987    455555554332      334557899999999


Q ss_pred             CCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCC
Q 012512          363 NNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRR  442 (462)
Q Consensus       363 n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~  442 (462)
                      |++..-..+.....+..-..|+++.+..|.|..+|+..++-   ..+.++.+|+.|+|.+|-++..|...++.+++. -+
T Consensus       167 NRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~---~gl~y~~~LevLDlqDNtft~~gS~~La~al~~-W~  242 (388)
T COG5238         167 NRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAF---LGLFYSHSLEVLDLQDNTFTLEGSRYLADALCE-WN  242 (388)
T ss_pred             chhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHH---HHHHHhCcceeeeccccchhhhhHHHHHHHhcc-cc
Confidence            99987777667777776679999999999999999998875   455677999999999999999999999999998 45


Q ss_pred             CCcEEEccCCCCCCcccc
Q 012512          443 PPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       443 ~L~~L~Ls~N~l~~~~~~  460 (462)
                      .|+.|.+..|-++.+|..
T Consensus       243 ~lrEL~lnDClls~~G~~  260 (388)
T COG5238         243 LLRELRLNDCLLSNEGVK  260 (388)
T ss_pred             hhhhccccchhhccccHH
Confidence            589999999999887754

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

Probab=99.49  E-value=1.6e-16  Score=147.22  Aligned_cols=223  Identities=22%  Similarity=0.244  Sum_probs=154.2

Q ss_pred             eeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCC
Q 012512          178 CLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIH  257 (462)
Q Consensus       178 ~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~  257 (462)
                      .+.+.++...+.+.++.++..++.+++++|++.......     .....+..++.++|.+.. ....+..        +.
T Consensus        72 vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i-----~s~~~l~~l~~s~n~~~e-l~~~i~~--------~~  137 (565)
T KOG0472|consen   72 VLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQI-----GSLISLVKLDCSSNELKE-LPDSIGR--------LL  137 (565)
T ss_pred             EEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHH-----hhhhhhhhhhccccceee-cCchHHH--------Hh
Confidence            345666666777788888888888888888765554433     345678888888876652 2222322        45


Q ss_pred             CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccccc
Q 012512          258 KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       258 ~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      .++.++..+|++..         ++..+..+.+|..|++.+|++...-+..+.      +..|++||+..|.++.     
T Consensus       138 ~l~dl~~~~N~i~s---------lp~~~~~~~~l~~l~~~~n~l~~l~~~~i~------m~~L~~ld~~~N~L~t-----  197 (565)
T KOG0472|consen  138 DLEDLDATNNQISS---------LPEDMVNLSKLSKLDLEGNKLKALPENHIA------MKRLKHLDCNSNLLET-----  197 (565)
T ss_pred             hhhhhhcccccccc---------CchHHHHHHHHHHhhccccchhhCCHHHHH------HHHHHhcccchhhhhc-----
Confidence            57777777777765         566666677888888888888776666553      3678888888887764     


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccE
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE  417 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~  417 (462)
                          ++..++   ++.+|..|+|..|+|..     +| .|.+|+.|++|.++.|+|.-      +|+  +...++.++..
T Consensus       198 ----lP~~lg---~l~~L~~LyL~~Nki~~-----lP-ef~gcs~L~Elh~g~N~i~~------lpa--e~~~~L~~l~v  256 (565)
T KOG0472|consen  198 ----LPPELG---GLESLELLYLRRNKIRF-----LP-EFPGCSLLKELHVGENQIEM------LPA--EHLKHLNSLLV  256 (565)
T ss_pred             ----CChhhc---chhhhHHHHhhhccccc-----CC-CCCccHHHHHHHhcccHHHh------hHH--HHhccccccee
Confidence                345555   55778888888888773     44 67777788888888887764      554  55567777788


Q ss_pred             EEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccccC
Q 012512          418 LYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS  461 (462)
Q Consensus       418 L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~~  461 (462)
                      |||.+|++.+     ++..+..+ ++|.+||+|+|.|++--+..
T Consensus       257 LDLRdNklke-----~Pde~clL-rsL~rLDlSNN~is~Lp~sL  294 (565)
T KOG0472|consen  257 LDLRDNKLKE-----VPDEICLL-RSLERLDLSNNDISSLPYSL  294 (565)
T ss_pred             eecccccccc-----CchHHHHh-hhhhhhcccCCccccCCccc
Confidence            8888888777     56666653 45778888888777655443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.48  E-value=2.5e-14  Score=149.70  Aligned_cols=216  Identities=17%  Similarity=0.198  Sum_probs=109.0

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .+..+.+.++.+..++..+.  .+|++|++++|.+......+       ..+|+.|+|++|.+.. .+..+         
T Consensus       200 ~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~LtsLP~~l-------~~~L~~L~Ls~N~L~~-LP~~l---------  260 (754)
T PRK15370        200 QITTLILDNNELKSLPENLQ--GNIKTLYANSNQLTSIPATL-------PDTIQEMELSINRITE-LPERL---------  260 (754)
T ss_pred             CCcEEEecCCCCCcCChhhc--cCCCEEECCCCccccCChhh-------hccccEEECcCCccCc-CChhH---------
Confidence            34455555555554444433  36777777776654322211       1356677777766652 12211         


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHH--------------hhCCCCc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSL--------------LEASSSL  320 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l--------------~~~~~~L  320 (462)
                       ..+|+.|++++|.+..         ++..+.  ++|++|++++|++.. .+..+...+              ....++|
T Consensus       261 -~s~L~~L~Ls~N~L~~---------LP~~l~--~sL~~L~Ls~N~Lt~-LP~~lp~sL~~L~Ls~N~Lt~LP~~l~~sL  327 (754)
T PRK15370        261 -PSALQSLDLFHNKISC---------LPENLP--EELRYLSVYDNSIRT-LPAHLPSGITHLNVQSNSLTALPETLPPGL  327 (754)
T ss_pred             -hCCCCEEECcCCccCc---------cccccC--CCCcEEECCCCcccc-CcccchhhHHHHHhcCCccccCCccccccc
Confidence             1346666666666543         221111  356666666666553 111110000              0001345


Q ss_pred             cEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHh
Q 012512          321 SILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRS  400 (462)
Q Consensus       321 ~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~  400 (462)
                      +.|++++|.++.         ++..+.     ++|+.|++++|+|+.     ++..+.  ++|+.|++++|.|+.     
T Consensus       328 ~~L~Ls~N~Lt~---------LP~~l~-----~sL~~L~Ls~N~L~~-----LP~~lp--~~L~~LdLs~N~Lt~-----  381 (754)
T PRK15370        328 KTLEAGENALTS---------LPASLP-----PELQVLDVSKNQITV-----LPETLP--PTITTLDVSRNALTN-----  381 (754)
T ss_pred             eeccccCCcccc---------CChhhc-----CcccEEECCCCCCCc-----CChhhc--CCcCEEECCCCcCCC-----
Confidence            555555555543         112221     467777777777663     444332  467777777777664     


Q ss_pred             HHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          401 LIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       401 l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                       +|   ..+.  ..|+.|++++|+|+.. ...++..... .+.+..|++.+|+|+.
T Consensus       382 -LP---~~l~--~sL~~LdLs~N~L~~L-P~sl~~~~~~-~~~l~~L~L~~Npls~  429 (754)
T PRK15370        382 -LP---ENLP--AALQIMQASRNNLVRL-PESLPHFRGE-GPQPTRIIVEYNPFSE  429 (754)
T ss_pred             -CC---HhHH--HHHHHHhhccCCcccC-chhHHHHhhc-CCCccEEEeeCCCccH
Confidence             33   1121  3567777777777641 1112222222 2457788888888764

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=99.45  E-value=1.8e-14  Score=143.30  Aligned_cols=240  Identities=25%  Similarity=0.285  Sum_probs=196.4

Q ss_pred             cCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchh
Q 012512          199 LQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSV  277 (462)
Q Consensus       199 L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  277 (462)
                      +.++.|.+|.+... ...++..+. .+.+|+.|++++|.+++.+...++..+...   -+.+++|.+..|.++..++.  
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~-t~~~L~~L~l~~n~l~~~g~~~l~~~l~~~---~~~l~~L~l~~c~l~~~g~~--  162 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALK-TLPTLGQLDLSGNNLGDEGARLLCEGLRLP---QCLLQTLELVSCSLTSEGAA--  162 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhc-ccccHhHhhcccCCCccHhHHHHHhhcccc---hHHHHHHHhhcccccccchH--
Confidence            67788888876544 444444444 478999999999999999999999888774   26788899999999886655  


Q ss_pred             HHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhh---CCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLE---ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       278 ~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~---~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                        .+...+..+..++.++++.|.+...+...++.++..   +.+++++|.+++|.++    ..+++.+...+....  ..
T Consensus       163 --~l~~~L~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t----~~~c~~l~~~l~~~~--~~  234 (478)
T KOG4308|consen  163 --PLAAVLEKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVT----SSSCALLDEVLASGE--SL  234 (478)
T ss_pred             --HHHHHHhcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcC----hHHHHHHHHHHhccc--hh
Confidence              788888888899999999999988888888888875   6789999999999998    577778888887654  43


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcC-CCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHI-PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL  433 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~-~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l  433 (462)
                      +..|++..|.+.|.|++.+.+.+... ..+++++++.|.|++.|...+.    ..+.++..++.|.+++|.+++.+...+
T Consensus       235 ~~el~l~~n~l~d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~~~~~L~----~~l~~~~~l~~l~l~~n~l~~~~~~~~  310 (478)
T KOG4308|consen  235 LRELDLASNKLGDVGVEKLLPCLSVLSETLRVLDLSRNSITEKGVRDLA----EVLVSCRQLEELSLSNNPLTDYGVELL  310 (478)
T ss_pred             hHHHHHHhcCcchHHHHHHHHHhcccchhhhhhhhhcCCccccchHHHH----HHHhhhHHHHHhhcccCccccHHHHHH
Confidence            77799999999999999999999988 7899999999999999988887    456667899999999999999999999


Q ss_pred             HHHHhcCCCCCcEEEccCCCCCCc
Q 012512          434 LDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       434 ~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      .+.+.. ...+..+-+.++.....
T Consensus       311 ~~~l~~-~~~~~~~~l~~~~~~~~  333 (478)
T KOG4308|consen  311 LEALER-KTPLLHLVLGGTGKGTR  333 (478)
T ss_pred             HHHhhh-cccchhhhccccCccch
Confidence            988887 45577777776655443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.40  E-value=3.9e-13  Score=140.84  Aligned_cols=195  Identities=22%  Similarity=0.272  Sum_probs=122.6

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      ++++.|++++|.+......+       ..+|++|++++|.++.. +..+          ..+|+.|++++|.+..     
T Consensus       199 ~~L~~L~Ls~N~LtsLP~~l-------~~nL~~L~Ls~N~LtsL-P~~l----------~~~L~~L~Ls~N~L~~-----  255 (754)
T PRK15370        199 EQITTLILDNNELKSLPENL-------QGNIKTLYANSNQLTSI-PATL----------PDTIQEMELSINRITE-----  255 (754)
T ss_pred             cCCcEEEecCCCCCcCChhh-------ccCCCEEECCCCccccC-Chhh----------hccccEEECcCCccCc-----
Confidence            46899999999877544332       25899999999988732 2222          2468999999999876     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHh-hhC-----C-
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFS-LGA-----G-  349 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~-l~~-----~-  349 (462)
                          ++..+.  .+|+.|++++|++.. .+..+       ..+|+.|++++|.++.. |......+... +..     + 
T Consensus       256 ----LP~~l~--s~L~~L~Ls~N~L~~-LP~~l-------~~sL~~L~Ls~N~Lt~L-P~~lp~sL~~L~Ls~N~Lt~LP  320 (754)
T PRK15370        256 ----LPERLP--SALQSLDLFHNKISC-LPENL-------PEELRYLSVYDNSIRTL-PAHLPSGITHLNVQSNSLTALP  320 (754)
T ss_pred             ----CChhHh--CCCCEEECcCCccCc-ccccc-------CCCCcEEECCCCccccC-cccchhhHHHHHhcCCccccCC
Confidence                222222  479999999999985 44432       25799999999998852 10000000000 000     0 


Q ss_pred             -CCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh
Q 012512          350 -KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR  428 (462)
Q Consensus       350 -~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~  428 (462)
                       .-.++|+.|++++|.++.     ++..+.  ++|+.|++++|.|+.      +|   ..+.  ++|+.|++++|+|+. 
T Consensus       321 ~~l~~sL~~L~Ls~N~Lt~-----LP~~l~--~sL~~L~Ls~N~L~~------LP---~~lp--~~L~~LdLs~N~Lt~-  381 (754)
T PRK15370        321 ETLPPGLKTLEAGENALTS-----LPASLP--PELQVLDVSKNQITV------LP---ETLP--PTITTLDVSRNALTN-  381 (754)
T ss_pred             ccccccceeccccCCcccc-----CChhhc--CcccEEECCCCCCCc------CC---hhhc--CCcCEEECCCCcCCC-
Confidence             011456777777776663     444332  577777777777764      43   2221  577778888887775 


Q ss_pred             hHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          429 GVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       429 ~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                          ++..+..   +|+.|++++|+|.
T Consensus       382 ----LP~~l~~---sL~~LdLs~N~L~  401 (754)
T PRK15370        382 ----LPENLPA---ALQIMQASRNNLV  401 (754)
T ss_pred             ----CCHhHHH---HHHHHhhccCCcc
Confidence                4444432   3777788888776

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.39  E-value=3.5e-13  Score=140.46  Aligned_cols=210  Identities=20%  Similarity=0.148  Sum_probs=121.9

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.|++.++.+..++.   ..++|++|++++|.+.... .+       ..+|+.|++++|+++... .        .  
T Consensus       243 ~Lk~LdLs~N~LtsLP~---lp~sL~~L~Ls~N~L~~Lp-~l-------p~~L~~L~Ls~N~Lt~LP-~--------~--  300 (788)
T PRK15387        243 ELRTLEVSGNQLTSLPV---LPPGLLELSIFSNPLTHLP-AL-------PSGLCKLWIFGNQLTSLP-V--------L--  300 (788)
T ss_pred             CCcEEEecCCccCcccC---cccccceeeccCCchhhhh-hc-------hhhcCEEECcCCcccccc-c--------c--
Confidence            55677777776665442   1357788888887654322 11       246777777777776321 1        0  


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHH---------HhhcCC-CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEE
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELV---------SFLSSG-RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILD  324 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~---------~~l~~l-~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~  324 (462)
                       .++|+.|++++|.+......  +..+.         ..+..+ .+|++|+|++|+|.. .+. +       ..+|+.|+
T Consensus       301 -p~~L~~LdLS~N~L~~Lp~l--p~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~-LP~-l-------p~~L~~L~  368 (788)
T PRK15387        301 -PPGLQELSVSDNQLASLPAL--PSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLAS-LPT-L-------PSELYKLW  368 (788)
T ss_pred             -ccccceeECCCCccccCCCC--cccccccccccCccccccccccccceEecCCCccCC-CCC-C-------Ccccceeh
Confidence             35677777777776652110  00000         000001 134444444444443 111 0       13344444


Q ss_pred             ecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHH
Q 012512          325 LSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPY  404 (462)
Q Consensus       325 Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~  404 (462)
                      +++|.++.         ++.      ...+|+.|++++|+|+.     ++..   .++|+.|++++|.|+.      +|.
T Consensus       369 Ls~N~L~~---------LP~------l~~~L~~LdLs~N~Lt~-----LP~l---~s~L~~LdLS~N~Lss------IP~  419 (788)
T PRK15387        369 AYNNRLTS---------LPA------LPSGLKELIVSGNRLTS-----LPVL---PSELKELMVSGNRLTS------LPM  419 (788)
T ss_pred             hhcccccc---------Ccc------cccccceEEecCCcccC-----CCCc---ccCCCEEEccCCcCCC------CCc
Confidence            44444442         111      11468888888888874     4432   2578889999998875      542


Q ss_pred             HHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          405 FVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       405 l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                         .   ..+|+.|++++|+|+.     +++.+..+ ..|+.|+|++|+|++..+
T Consensus       420 ---l---~~~L~~L~Ls~NqLt~-----LP~sl~~L-~~L~~LdLs~N~Ls~~~~  462 (788)
T PRK15387        420 ---L---PSGLLSLSVYRNQLTR-----LPESLIHL-SSETTVNLEGNPLSERTL  462 (788)
T ss_pred             ---c---hhhhhhhhhccCcccc-----cChHHhhc-cCCCeEECCCCCCCchHH
Confidence               2   2568889999999986     77777774 459999999999987654

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=99.38  E-value=5.2e-14  Score=140.08  Aligned_cols=215  Identities=22%  Similarity=0.262  Sum_probs=186.8

Q ss_pred             ccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCC-CCCCEEecCCCCCChhh
Q 012512          227 LASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG-RSLCSLKLRHCHLDRDF  305 (462)
Q Consensus       227 L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l-~~L~~L~Ls~n~l~~~~  305 (462)
                      +..|.|.+|.+.+.+.+.++..+..    +.+|+.|++++|.+.+.+.    ..+...+... +.|++|++..|.++..+
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t----~~~L~~L~l~~n~l~~~g~----~~l~~~l~~~~~~l~~L~l~~c~l~~~g  160 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKT----LPTLGQLDLSGNNLGDEGA----RLLCEGLRLPQCLLQTLELVSCSLTSEG  160 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcc----cccHhHhhcccCCCccHhH----HHHHhhcccchHHHHHHHhhcccccccc
Confidence            7888999999999999999999888    7899999999999997444    4777777776 68999999999999999


Q ss_pred             HHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhC-CCCCCCccEEEccCCCCCcchHHHHHHHhhcCCC-C
Q 012512          306 GRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA-GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN-L  383 (462)
Q Consensus       306 ~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~-~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~-L  383 (462)
                      ...+...+.. ...++.++++.|.+.    ..+...+...+.. +...+++++|++.+|.++...+..+..++...++ +
T Consensus       161 ~~~l~~~L~~-~~~l~~l~l~~n~l~----~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~  235 (478)
T KOG4308|consen  161 AAPLAAVLEK-NEHLTELDLSLNGLI----ELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLL  235 (478)
T ss_pred             hHHHHHHHhc-ccchhHHHHHhcccc----hhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhh
Confidence            9999999877 689999999999987    3444555566664 2235899999999999999999999999999888 8


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCC-CCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERC-NPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~-~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      .+|+++.|.+.|.|++.+.+.+    ... +.++.++++.|.|++.|+..+++.+.. ++.++++.++.|.+++.+.
T Consensus       236 ~el~l~~n~l~d~g~~~L~~~l----~~~~~~l~~l~l~~nsi~~~~~~~L~~~l~~-~~~l~~l~l~~n~l~~~~~  307 (478)
T KOG4308|consen  236 RELDLASNKLGDVGVEKLLPCL----SVLSETLRVLDLSRNSITEKGVRDLAEVLVS-CRQLEELSLSNNPLTDYGV  307 (478)
T ss_pred             HHHHHHhcCcchHHHHHHHHHh----cccchhhhhhhhhcCCccccchHHHHHHHhh-hHHHHHhhcccCccccHHH
Confidence            8999999999999999999754    333 789999999999999999999999998 5689999999999988653

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

Probab=99.37  E-value=6.8e-14  Score=129.98  Aligned_cols=94  Identities=22%  Similarity=0.262  Sum_probs=71.2

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCch--------hHHhHHHH------H-HhhcCCCCCc
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDD--------GIRSLIPY------F-VQASERCNPL  415 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~--------g~~~l~~~------l-~~~l~~~~~L  415 (462)
                      .+++|..|+|++|-+.+     +|..++....|+.||+|.|++..-        +.+.++..      + .+.+..+.+|
T Consensus       433 ~l~kLt~L~L~NN~Ln~-----LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL  507 (565)
T KOG0472|consen  433 QLQKLTFLDLSNNLLND-----LPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNL  507 (565)
T ss_pred             hhhcceeeecccchhhh-----cchhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhc
Confidence            44788999999998886     888888888899999999876431        11111100      0 0235667899


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ..|+|.+|.+..     ++..+.+ ..+|++|++++|+|.
T Consensus       508 ~tLDL~nNdlq~-----IPp~Lgn-mtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  508 TTLDLQNNDLQQ-----IPPILGN-MTNLRHLELDGNPFR  541 (565)
T ss_pred             ceeccCCCchhh-----CChhhcc-ccceeEEEecCCccC
Confidence            999999999887     7888988 577999999999997

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

Probab=99.35  E-value=8e-14  Score=141.84  Aligned_cols=217  Identities=21%  Similarity=0.219  Sum_probs=144.1

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHH---------------HHhcccccCCCc
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR---------------SLCSKRKRIHKI  259 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~---------------~l~~~~~~~~~L  259 (462)
                      .-.+++.+++++|.+.... ..    ...+.+|+.++..+|.+.. .+..+..               .+.....+..+|
T Consensus       239 ~p~nl~~~dis~n~l~~lp-~w----i~~~~nle~l~~n~N~l~~-lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL  312 (1081)
T KOG0618|consen  239 VPLNLQYLDISHNNLSNLP-EW----IGACANLEALNANHNRLVA-LPLRISRITSLVSLSAAYNELEYIPPFLEGLKSL  312 (1081)
T ss_pred             ccccceeeecchhhhhcch-HH----HHhcccceEecccchhHHh-hHHHHhhhhhHHHHHhhhhhhhhCCCccccccee
Confidence            3467888888877655443 22    4557888888888887742 2222110               111111235678


Q ss_pred             cEEecCCCCCCCCCCchhHH--HHHHhh-------------c--CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccE
Q 012512          260 ENLSIDISSFIENCPSSVVV--ELVSFL-------------S--SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSI  322 (462)
Q Consensus       260 ~~L~l~~~~~~~~~~~~~~~--~l~~~l-------------~--~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~  322 (462)
                      ++|++..|.+...-...+..  .-...+             +  .++.|+.|.+.+|.+++..+..+     .+..+|+.
T Consensus       313 ~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l-----~~~~hLKV  387 (1081)
T KOG0618|consen  313 RTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVL-----VNFKHLKV  387 (1081)
T ss_pred             eeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhh-----ccccceee
Confidence            88899888876533321100  000000             0  13457778888888888777655     45688999


Q ss_pred             EEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHH
Q 012512          323 LDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI  402 (462)
Q Consensus       323 L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~  402 (462)
                      |+|++|++.....        ..+.   ++..|++|+||+|+++     .|+..+..++.|++|...+|.|..      .
T Consensus       388 LhLsyNrL~~fpa--------s~~~---kle~LeeL~LSGNkL~-----~Lp~tva~~~~L~tL~ahsN~l~~------f  445 (1081)
T KOG0618|consen  388 LHLSYNRLNSFPA--------SKLR---KLEELEELNLSGNKLT-----TLPDTVANLGRLHTLRAHSNQLLS------F  445 (1081)
T ss_pred             eeecccccccCCH--------HHHh---chHHhHHHhcccchhh-----hhhHHHHhhhhhHHHhhcCCceee------c
Confidence            9999998874222        2333   6678899999999998     488888899999999999999876      6


Q ss_pred             HHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          403 PYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       403 ~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      |.    +..++.|+.+|++.|+++...   +.++...  ++|++||++||.
T Consensus       446 Pe----~~~l~qL~~lDlS~N~L~~~~---l~~~~p~--p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  446 PE----LAQLPQLKVLDLSCNNLSEVT---LPEALPS--PNLKYLDLSGNT  487 (1081)
T ss_pred             hh----hhhcCcceEEecccchhhhhh---hhhhCCC--cccceeeccCCc
Confidence            63    345689999999999998853   3344432  569999999996

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

Probab=99.35  E-value=1.3e-13  Score=140.41  Aligned_cols=238  Identities=17%  Similarity=0.165  Sum_probs=167.5

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHH---------------H---HHhcCCCccEEEccCCC
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCK---------------L---LIQNSETLASLEFLHCK  236 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~---------------~---l~~~~~~L~~L~L~~~~  236 (462)
                      .+.++++..+....++..+..+.+|+.++.++|.+......+..               +   ...+.+.|++|+|..|.
T Consensus       242 nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~  321 (1081)
T KOG0618|consen  242 NLQYLDISHNNLSNLPEWIGACANLEALNANHNRLVALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNN  321 (1081)
T ss_pred             cceeeecchhhhhcchHHHHhcccceEecccchhHHhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhcc
Confidence            55778888888888888889999999999999986443332211               0   11135789999999998


Q ss_pred             CChhHHHHHHH------HHhcc-----------cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC
Q 012512          237 LSPSFVEGICR------SLCSK-----------RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC  299 (462)
Q Consensus       237 l~~~~~~~l~~------~l~~~-----------~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n  299 (462)
                      +.......+..      .+...           ...++.|+.|++.+|.+++        .....+.+.++|+.|+|++|
T Consensus       322 L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd--------~c~p~l~~~~hLKVLhLsyN  393 (1081)
T KOG0618|consen  322 LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTD--------SCFPVLVNFKHLKVLHLSYN  393 (1081)
T ss_pred             ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccc--------cchhhhccccceeeeeeccc
Confidence            76433221111      11000           0114568999999999998        78889999999999999999


Q ss_pred             CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhc
Q 012512          300 HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVH  379 (462)
Q Consensus       300 ~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~  379 (462)
                      +|+.-....+     .++..|++|+||+|+++.         ++..+.   .+..|++|...+|+|..     +| .+..
T Consensus       394 rL~~fpas~~-----~kle~LeeL~LSGNkL~~---------Lp~tva---~~~~L~tL~ahsN~l~~-----fP-e~~~  450 (1081)
T KOG0618|consen  394 RLNSFPASKL-----RKLEELEELNLSGNKLTT---------LPDTVA---NLGRLHTLRAHSNQLLS-----FP-ELAQ  450 (1081)
T ss_pred             ccccCCHHHH-----hchHHhHHHhcccchhhh---------hhHHHH---hhhhhHHHhhcCCceee-----ch-hhhh
Confidence            9886333332     446899999999999985         666666   66899999999999984     66 7889


Q ss_pred             CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          380 IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       380 ~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      .++|+.+|+|.|.++...+....|        -++|+.||++||.=...    -.+.+.. .+++...+++-|+.++
T Consensus       451 l~qL~~lDlS~N~L~~~~l~~~~p--------~p~LkyLdlSGN~~l~~----d~~~l~~-l~~l~~~~i~~~~~~d  514 (1081)
T KOG0618|consen  451 LPQLKVLDLSCNNLSEVTLPEALP--------SPNLKYLDLSGNTRLVF----DHKTLKV-LKSLSQMDITLNNTPD  514 (1081)
T ss_pred             cCcceEEecccchhhhhhhhhhCC--------CcccceeeccCCccccc----chhhhHH-hhhhhheecccCCCCc
Confidence            999999999999998743222221        28999999999972111    1123333 2346667776664444

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

Probab=99.31  E-value=3.3e-13  Score=125.28  Aligned_cols=131  Identities=14%  Similarity=0.083  Sum_probs=94.6

Q ss_pred             cccceeeeccccchHhhhhhh-cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccC-CCCChhHHHHHHHHHhc
Q 012512          174 HYARCLRLQNALCVEETCQLL-RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLH-CKLSPSFVEGICRSLCS  251 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~~l~-~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~-~~l~~~~~~~l~~~l~~  251 (462)
                      ...-.+++.++.+..++...+ .+.+|+.|+||+|.+....++.    +++++.+.+|-+.+ |+|++.....+..    
T Consensus        67 ~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~A----F~GL~~l~~Lvlyg~NkI~~l~k~~F~g----  138 (498)
T KOG4237|consen   67 PETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDA----FKGLASLLSLVLYGNNKITDLPKGAFGG----  138 (498)
T ss_pred             CcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHh----hhhhHhhhHHHhhcCCchhhhhhhHhhh----
Confidence            344567899999998887666 7799999999999887665554    44566777776666 8998655555544    


Q ss_pred             ccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC
Q 012512          252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS  329 (462)
Q Consensus       252 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~  329 (462)
                          +..++.|.++-|++.-        ...+.+..+++|..|.+.+|.+..     ++++.+..+..++++.+..|.
T Consensus       139 ----L~slqrLllNan~i~C--------ir~~al~dL~~l~lLslyDn~~q~-----i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  139 ----LSSLQRLLLNANHINC--------IRQDALRDLPSLSLLSLYDNKIQS-----ICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             ----HHHHHHHhcChhhhcc--------hhHHHHHHhhhcchhcccchhhhh-----hccccccchhccchHhhhcCc
Confidence                5668888888888766        677888888999999988886543     333334445667777666665

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.31  E-value=2.9e-12  Score=133.69  Aligned_cols=193  Identities=18%  Similarity=0.114  Sum_probs=113.9

Q ss_pred             cceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          176 ARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      ++.+.+.++.+..++.   ..++|++|++++|.+.....        ..++|++|++++|.+.... . +          
T Consensus       224 L~~L~L~~N~Lt~LP~---lp~~Lk~LdLs~N~LtsLP~--------lp~sL~~L~Ls~N~L~~Lp-~-l----------  280 (788)
T PRK15387        224 ITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSLPV--------LPPGLLELSIFSNPLTHLP-A-L----------  280 (788)
T ss_pred             CCEEEccCCcCCCCCC---CCCCCcEEEecCCccCcccC--------cccccceeeccCCchhhhh-h-c----------
Confidence            3445555555443332   23567777777766553221        1246677777777665211 1 1          


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      ..+|+.|++++|.+..         ++.   ..++|+.|++++|++.. .+. +       ..+|+.|++++|.+++ +|
T Consensus       281 p~~L~~L~Ls~N~Lt~---------LP~---~p~~L~~LdLS~N~L~~-Lp~-l-------p~~L~~L~Ls~N~L~~-LP  338 (788)
T PRK15387        281 PSGLCKLWIFGNQLTS---------LPV---LPPGLQELSVSDNQLAS-LPA-L-------PSELCKLWAYNNQLTS-LP  338 (788)
T ss_pred             hhhcCEEECcCCcccc---------ccc---cccccceeECCCCcccc-CCC-C-------cccccccccccCcccc-cc
Confidence            2446677777777654         221   12567777777777765 111 1       2457777777777763 11


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              .    +.  .+|+.|+|++|+|+.     +|..   .++|+.|++++|.|+.      +|.   .   ..+|
T Consensus       339 --------~----lp--~~Lq~LdLS~N~Ls~-----LP~l---p~~L~~L~Ls~N~L~~------LP~---l---~~~L  384 (788)
T PRK15387        339 --------T----LP--SGLQELSVSDNQLAS-----LPTL---PSELYKLWAYNNRLTS------LPA---L---PSGL  384 (788)
T ss_pred             --------c----cc--cccceEecCCCccCC-----CCCC---Ccccceehhhcccccc------Ccc---c---cccc
Confidence                    1    11  478899999998885     4432   2467788888888775      542   2   2568


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +.|++++|+|+.     ++..    .++|+.|++++|.|+.
T Consensus       385 ~~LdLs~N~Lt~-----LP~l----~s~L~~LdLS~N~Lss  416 (788)
T PRK15387        385 KELIVSGNRLTS-----LPVL----PSELKELMVSGNRLTS  416 (788)
T ss_pred             ceEEecCCcccC-----CCCc----ccCCCEEEccCCcCCC
Confidence            888888888775     2221    2347777887777764

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

Probab=99.29  E-value=1.8e-12  Score=122.01  Aligned_cols=227  Identities=21%  Similarity=0.190  Sum_probs=141.0

Q ss_pred             hhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCCh-hHHHHHHHHHhcccccCCCccEEecCCC
Q 012512          189 ETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSP-SFVEGICRSLCSKRKRIHKIENLSIDIS  267 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~-~~~~~l~~~l~~~~~~~~~L~~L~l~~~  267 (462)
                      +...=.++.+|+++.|.++........   .....+++++.|||++|-+.. ..+..+++.       +++|+.|+++.|
T Consensus       113 i~akQsn~kkL~~IsLdn~~V~~~~~~---~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eq-------Lp~Le~LNls~N  182 (505)
T KOG3207|consen  113 IAAKQSNLKKLREISLDNYRVEDAGIE---EYSKILPNVRDLDLSRNLFHNWFPVLKIAEQ-------LPSLENLNLSSN  182 (505)
T ss_pred             HHHHhhhHHhhhheeecCccccccchh---hhhhhCCcceeecchhhhHHhHHHHHHHHHh-------cccchhcccccc
Confidence            333444566778888877654332211   224568888888888886654 333445554       677888888888


Q ss_pred             CCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhh
Q 012512          268 SFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSL  346 (462)
Q Consensus       268 ~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l  346 (462)
                      .+..-.......       .++.|+.|.|+.|.++...+..+..    ..++|+.|+|..|. +.-           .. 
T Consensus       183 rl~~~~~s~~~~-------~l~~lK~L~l~~CGls~k~V~~~~~----~fPsl~~L~L~~N~~~~~-----------~~-  239 (505)
T KOG3207|consen  183 RLSNFISSNTTL-------LLSHLKQLVLNSCGLSWKDVQWILL----TFPSLEVLYLEANEIILI-----------KA-  239 (505)
T ss_pred             cccCCccccchh-------hhhhhheEEeccCCCCHHHHHHHHH----hCCcHHHhhhhcccccce-----------ec-
Confidence            765522221111       3468888899999988877777654    35888999998885 221           00 


Q ss_pred             hCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          347 GAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       347 ~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      .....+++|++|||++|++-+.   ........++.|+.|+++.+.|++-..-. +..+ ......++|+.|++..|+|.
T Consensus       240 ~~~~i~~~L~~LdLs~N~li~~---~~~~~~~~l~~L~~Lnls~tgi~si~~~d-~~s~-~kt~~f~kL~~L~i~~N~I~  314 (505)
T KOG3207|consen  240 TSTKILQTLQELDLSNNNLIDF---DQGYKVGTLPGLNQLNLSSTGIASIAEPD-VESL-DKTHTFPKLEYLNISENNIR  314 (505)
T ss_pred             chhhhhhHHhhccccCCccccc---ccccccccccchhhhhccccCcchhcCCC-ccch-hhhcccccceeeecccCccc
Confidence            1111337888899998887763   23466778888888888888877621000 0000 11234478889999999886


Q ss_pred             hhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          427 GRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       427 ~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +..   -...+.. ..+|+.|.+..|+|+-+
T Consensus       315 ~w~---sl~~l~~-l~nlk~l~~~~n~ln~e  341 (505)
T KOG3207|consen  315 DWR---SLNHLRT-LENLKHLRITLNYLNKE  341 (505)
T ss_pred             ccc---ccchhhc-cchhhhhhccccccccc
Confidence            632   1233434 24478888888887654

>PLN03210 Resistant to P

Probab=99.25  E-value=1.4e-11  Score=137.35  Aligned_cols=36  Identities=28%  Similarity=0.269  Sum_probs=25.7

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT  392 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~  392 (462)
                      ++|+.|+|++|....    .+|..++++++|+.|++++|.
T Consensus       778 ~sL~~L~Ls~n~~l~----~lP~si~~L~~L~~L~Ls~C~  813 (1153)
T PLN03210        778 PSLTRLFLSDIPSLV----ELPSSIQNLHKLEHLEIENCI  813 (1153)
T ss_pred             ccchheeCCCCCCcc----ccChhhhCCCCCCEEECCCCC
Confidence            467777777775443    367777888888888888764

syringae 6; Provisional

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

Probab=99.19  E-value=1.8e-11  Score=109.90  Aligned_cols=185  Identities=23%  Similarity=0.246  Sum_probs=92.7

Q ss_pred             CcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCC-CCCCCCCc
Q 012512          198 KLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDIS-SFIENCPS  275 (462)
Q Consensus       198 ~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~-~~~~~~~~  275 (462)
                      .+|+|||+...++.. ...    +...|..|+.|.|.++++++.....+++        +.+|..|+++.+ .|++    
T Consensus       186 Rlq~lDLS~s~it~stl~~----iLs~C~kLk~lSlEg~~LdD~I~~~iAk--------N~~L~~lnlsm~sG~t~----  249 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHG----ILSQCSKLKNLSLEGLRLDDPIVNTIAK--------NSNLVRLNLSMCSGFTE----  249 (419)
T ss_pred             hhHHhhcchhheeHHHHHH----HHHHHHhhhhccccccccCcHHHHHHhc--------cccceeeccccccccch----
Confidence            466666665544322 221    1334566666666666666665555555        566666666655 2333    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                         ..+.-.+.+++.|..|+|++|.+....+..+...+   ..+|+.|+|+|+.-.     +....+.....   .++.|
T Consensus       250 ---n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hi---se~l~~LNlsG~rrn-----l~~sh~~tL~~---rcp~l  315 (419)
T KOG2120|consen  250 ---NALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHI---SETLTQLNLSGYRRN-----LQKSHLSTLVR---RCPNL  315 (419)
T ss_pred             ---hHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhh---chhhhhhhhhhhHhh-----hhhhHHHHHHH---hCCce
Confidence               23444455566666666666666555554444322   245666666665411     00011212222   44566


Q ss_pred             cEEEccCC-CCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCC
Q 012512          356 RLLNLRGN-NLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENC  423 (462)
Q Consensus       356 ~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n  423 (462)
                      .+|||++| .+++    ....++.+++.|++|.++.+..-       .|...-.+...+.|.+|++.+|
T Consensus       316 ~~LDLSD~v~l~~----~~~~~~~kf~~L~~lSlsRCY~i-------~p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  316 VHLDLSDSVMLKN----DCFQEFFKFNYLQHLSLSRCYDI-------IPETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             eeeccccccccCc----hHHHHHHhcchheeeehhhhcCC-------ChHHeeeeccCcceEEEEeccc
Confidence            66666666 3333    23444555666666666665522       1110022334456666666665

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

Probab=99.18  E-value=6.9e-12  Score=118.11  Aligned_cols=194  Identities=19%  Similarity=0.154  Sum_probs=137.8

Q ss_pred             hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCC
Q 012512          192 QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIE  271 (462)
Q Consensus       192 ~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~  271 (462)
                      ....++++++|+|+.|-+.. +..++. +...+++|+.|+|+.|++....-......       ..+|+.|.++.|.++.
T Consensus       141 ~~k~~~~v~~LdLS~NL~~n-w~~v~~-i~eqLp~Le~LNls~Nrl~~~~~s~~~~~-------l~~lK~L~l~~CGls~  211 (505)
T KOG3207|consen  141 YSKILPNVRDLDLSRNLFHN-WFPVLK-IAEQLPSLENLNLSSNRLSNFISSNTTLL-------LSHLKQLVLNSCGLSW  211 (505)
T ss_pred             hhhhCCcceeecchhhhHHh-HHHHHH-HHHhcccchhcccccccccCCccccchhh-------hhhhheEEeccCCCCH
Confidence            44577899999999985443 333333 34569999999999997753222211111       5779999999999987


Q ss_pred             CCCchhHHHHHHhhcCCCCCCEEecCCCC-CC-hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCC
Q 012512          272 NCPSSVVVELVSFLSSGRSLCSLKLRHCH-LD-RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG  349 (462)
Q Consensus       272 ~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~-l~-~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~  349 (462)
                             ......+..+|+|+.|+|.+|. +. .....       ..++.|+.|||++|.+-+..          .+...
T Consensus       212 -------k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~-------~i~~~L~~LdLs~N~li~~~----------~~~~~  267 (505)
T KOG3207|consen  212 -------KDVQWILLTFPSLEVLYLEANEIILIKATST-------KILQTLQELDLSNNNLIDFD----------QGYKV  267 (505)
T ss_pred             -------HHHHHHHHhCCcHHHhhhhcccccceecchh-------hhhhHHhhccccCCcccccc----------ccccc
Confidence                   4677788889999999999994 21 11222       22478999999999976521          11223


Q ss_pred             CCCCCccEEEccCCCCCcchHHHHHHH-----hhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          350 KSLQSLRLLNLRGNNLCKADARDLGSA-----LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       350 ~~l~~L~~L~L~~n~l~~~~~~~l~~~-----l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      ..++.|..|+++.|+|++-.   +++.     ....++|+.|+++.|+|.+      .+.+ ..+..+.+|..|....|.
T Consensus       268 ~~l~~L~~Lnls~tgi~si~---~~d~~s~~kt~~f~kL~~L~i~~N~I~~------w~sl-~~l~~l~nlk~l~~~~n~  337 (505)
T KOG3207|consen  268 GTLPGLNQLNLSSTGIASIA---EPDVESLDKTHTFPKLEYLNISENNIRD------WRSL-NHLRTLENLKHLRITLNY  337 (505)
T ss_pred             ccccchhhhhccccCcchhc---CCCccchhhhcccccceeeecccCcccc------cccc-chhhccchhhhhhccccc
Confidence            36689999999999988632   2222     4567899999999999987      5544 455666888888888888


Q ss_pred             CChh
Q 012512          425 LSGR  428 (462)
Q Consensus       425 l~~~  428 (462)
                      ++.+
T Consensus       338 ln~e  341 (505)
T KOG3207|consen  338 LNKE  341 (505)
T ss_pred             cccc
Confidence            7663

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

Probab=99.16  E-value=1.2e-13  Score=113.98  Aligned_cols=157  Identities=24%  Similarity=0.288  Sum_probs=122.5

Q ss_pred             cCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCC
Q 012512          223 NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLD  302 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~  302 (462)
                      .+.+++.|.|+||+++ ..+..+++        +.+|+.|++.+|++.+         ++..++++++|+.|+++-|++.
T Consensus        31 ~~s~ITrLtLSHNKl~-~vppnia~--------l~nlevln~~nnqie~---------lp~~issl~klr~lnvgmnrl~   92 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLT-VVPPNIAE--------LKNLEVLNLSNNQIEE---------LPTSISSLPKLRILNVGMNRLN   92 (264)
T ss_pred             chhhhhhhhcccCcee-ecCCcHHH--------hhhhhhhhcccchhhh---------cChhhhhchhhhheecchhhhh
Confidence            4788999999999987 56666666        7889999999998865         7888888999999999988775


Q ss_pred             hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCC
Q 012512          303 RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN  382 (462)
Q Consensus       303 ~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~  382 (462)
                      . .++.     ++..+.|+.|||+.|++...       .++..+.   .+.+|+-|.|++|.+.     .+|+.++++++
T Consensus        93 ~-lprg-----fgs~p~levldltynnl~e~-------~lpgnff---~m~tlralyl~dndfe-----~lp~dvg~lt~  151 (264)
T KOG0617|consen   93 I-LPRG-----FGSFPALEVLDLTYNNLNEN-------SLPGNFF---YMTTLRALYLGDNDFE-----ILPPDVGKLTN  151 (264)
T ss_pred             c-Cccc-----cCCCchhhhhhccccccccc-------cCCcchh---HHHHHHHHHhcCCCcc-----cCChhhhhhcc
Confidence            5 4443     35568899999999988742       1223333   4478888888888776     58889999999


Q ss_pred             CCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          383 LEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       383 L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      |+.|.+..|.+-.      +|   ..++.+++|++|++.+|+++-
T Consensus       152 lqil~lrdndll~------lp---keig~lt~lrelhiqgnrl~v  187 (264)
T KOG0617|consen  152 LQILSLRDNDLLS------LP---KEIGDLTRLRELHIQGNRLTV  187 (264)
T ss_pred             eeEEeeccCchhh------Cc---HHHHHHHHHHHHhcccceeee
Confidence            9999999998543      55   666777899999999999876

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

Probab=99.15  E-value=2.4e-13  Score=112.35  Aligned_cols=185  Identities=19%  Similarity=0.205  Sum_probs=137.7

Q ss_pred             hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCC
Q 012512          190 TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSF  269 (462)
Q Consensus       190 ~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~  269 (462)
                      ...++..++++.|.||+|++....+.+     ..+.+|+.|++.+|++.+ .+..+.+        +++|+.|+++-|.+
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl~~vppni-----a~l~nlevln~~nnqie~-lp~~iss--------l~klr~lnvgmnrl   91 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKLTVVPPNI-----AELKNLEVLNLSNNQIEE-LPTSISS--------LPKLRILNVGMNRL   91 (264)
T ss_pred             cccccchhhhhhhhcccCceeecCCcH-----HHhhhhhhhhcccchhhh-cChhhhh--------chhhhheecchhhh
Confidence            345666788899999999987665554     346899999999999873 3333333        78899999998887


Q ss_pred             CCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHH-HHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhC
Q 012512          270 IENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR-MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA  348 (462)
Q Consensus       270 ~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~-~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~  348 (462)
                      ..         ++..+++++.|+.|||++|++++.... .++.     +..|+.|+|+.|.+.-         ++..++ 
T Consensus        92 ~~---------lprgfgs~p~levldltynnl~e~~lpgnff~-----m~tlralyl~dndfe~---------lp~dvg-  147 (264)
T KOG0617|consen   92 NI---------LPRGFGSFPALEVLDLTYNNLNENSLPGNFFY-----MTTLRALYLGDNDFEI---------LPPDVG-  147 (264)
T ss_pred             hc---------CccccCCCchhhhhhccccccccccCCcchhH-----HHHHHHHHhcCCCccc---------CChhhh-
Confidence            65         788889999999999999999875433 2221     3678889999998763         445666 


Q ss_pred             CCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCC
Q 012512          349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCEL  425 (462)
Q Consensus       349 ~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l  425 (462)
                        .+++|+.|.+.+|.+-.     +|..++.+.+|++|.+.+|+++-      +|.-...+....+=+...+++|..
T Consensus       148 --~lt~lqil~lrdndll~-----lpkeig~lt~lrelhiqgnrl~v------lppel~~l~l~~~k~v~r~E~NPw  211 (264)
T KOG0617|consen  148 --KLTNLQILSLRDNDLLS-----LPKEIGDLTRLRELHIQGNRLTV------LPPELANLDLVGNKQVMRMEENPW  211 (264)
T ss_pred             --hhcceeEEeeccCchhh-----CcHHHHHHHHHHHHhcccceeee------cChhhhhhhhhhhHHHHhhhhCCC
Confidence              66899999999998874     99999999999999999999874      331112222223445566777764

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

Probab=99.12  E-value=1.1e-11  Score=115.27  Aligned_cols=210  Identities=21%  Similarity=0.207  Sum_probs=135.1

Q ss_pred             CcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCC-CCCCCCCCch
Q 012512          198 KLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDI-SSFIENCPSS  276 (462)
Q Consensus       198 ~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~-~~~~~~~~~~  276 (462)
                      ...+++|..|.+.......    ++.+++|++|||++|.|+...+.++..        +.++.+|-+.+ |+|++     
T Consensus        68 ~tveirLdqN~I~~iP~~a----F~~l~~LRrLdLS~N~Is~I~p~AF~G--------L~~l~~Lvlyg~NkI~~-----  130 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGA----FKTLHRLRRLDLSKNNISFIAPDAFKG--------LASLLSLVLYGNNKITD-----  130 (498)
T ss_pred             cceEEEeccCCcccCChhh----ccchhhhceecccccchhhcChHhhhh--------hHhhhHHHhhcCCchhh-----
Confidence            4678999999887776655    567889999999999999888887765        45566665555 88877     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                         .-...|.++..|+.|.+.-|++.-.-...+     ..++.+..|.+-.|.+...-         .  +.+..+..++
T Consensus       131 ---l~k~~F~gL~slqrLllNan~i~Cir~~al-----~dL~~l~lLslyDn~~q~i~---------~--~tf~~l~~i~  191 (498)
T KOG4237|consen  131 ---LPKGAFGGLSSLQRLLLNANHINCIRQDAL-----RDLPSLSLLSLYDNKIQSIC---------K--GTFQGLAAIK  191 (498)
T ss_pred             ---hhhhHhhhHHHHHHHhcChhhhcchhHHHH-----HHhhhcchhcccchhhhhhc---------c--ccccchhccc
Confidence               556678888999999999998876433333     33578888888888765210         0  0111222333


Q ss_pred             EEEccCCC------------------CCcchH-------------------------HHH---------------HHHhh
Q 012512          357 LLNLRGNN------------------LCKADA-------------------------RDL---------------GSALV  378 (462)
Q Consensus       357 ~L~L~~n~------------------l~~~~~-------------------------~~l---------------~~~l~  378 (462)
                      ++.+..|.                  +.-.|+                         +.+               ...|+
T Consensus       192 tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~  271 (498)
T KOG4237|consen  192 TLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFK  271 (498)
T ss_pred             hHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHh
Confidence            33333222                  111111                         001               12366


Q ss_pred             cCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          379 HIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       379 ~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      .+++|++|+|++|.|+.      +..  ..+.....+++|.|..|+|...    -..++..+ ..|+.|+|.+|+|+-
T Consensus       272 ~L~~L~~lnlsnN~i~~------i~~--~aFe~~a~l~eL~L~~N~l~~v----~~~~f~~l-s~L~tL~L~~N~it~  336 (498)
T KOG4237|consen  272 KLPNLRKLNLSNNKITR------IED--GAFEGAAELQELYLTRNKLEFV----SSGMFQGL-SGLKTLSLYDNQITT  336 (498)
T ss_pred             hcccceEeccCCCccch------hhh--hhhcchhhhhhhhcCcchHHHH----HHHhhhcc-ccceeeeecCCeeEE
Confidence            77888888888888876      322  5566667777777777776553    12233442 337778888887754

>PLN03210 Resistant to P

Probab=99.11  E-value=3.1e-10  Score=126.80  Aligned_cols=99  Identities=21%  Similarity=0.224  Sum_probs=51.3

Q ss_pred             CCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCC-CCcchHHHHHHHhhcCCCCCEEeCCCCC-CCc
Q 012512          318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNN-LCKADARDLGSALVHIPNLEILDISDNT-IED  395 (462)
Q Consensus       318 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~  395 (462)
                      ++|+.|++++|.....+|        ..+.   ++++|+.|++++|. ++     .+|..+ .+++|+.|++++|. +..
T Consensus       778 ~sL~~L~Ls~n~~l~~lP--------~si~---~L~~L~~L~Ls~C~~L~-----~LP~~~-~L~sL~~L~Ls~c~~L~~  840 (1153)
T PLN03210        778 PSLTRLFLSDIPSLVELP--------SSIQ---NLHKLEHLEIENCINLE-----TLPTGI-NLESLESLDLSGCSRLRT  840 (1153)
T ss_pred             ccchheeCCCCCCccccC--------hhhh---CCCCCCEEECCCCCCcC-----eeCCCC-CccccCEEECCCCCcccc
Confidence            345556666555433222        3344   55677777777773 33     244433 45666666666654 221


Q ss_pred             hhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccC
Q 012512          396 DGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       396 ~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~  451 (462)
                            +|   .   ...+|+.|+|++|.|+.     ++..+..+ ++|++|++++
T Consensus       841 ------~p---~---~~~nL~~L~Ls~n~i~~-----iP~si~~l-~~L~~L~L~~  878 (1153)
T PLN03210        841 ------FP---D---ISTNISDLNLSRTGIEE-----VPWWIEKF-SNLSFLDMNG  878 (1153)
T ss_pred             ------cc---c---cccccCEeECCCCCCcc-----ChHHHhcC-CCCCEEECCC
Confidence                  22   1   11456666666666554     44445442 3366666655

syringae 6; Provisional

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

Probab=99.10  E-value=5.6e-11  Score=102.17  Aligned_cols=128  Identities=25%  Similarity=0.278  Sum_probs=44.0

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcc
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKA  368 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~  368 (462)
                      ..+++|+|.+|.|+..  +.+    -..+.+|+.|+|++|.|+.             +..+..+..|++|++++|+|++ 
T Consensus        19 ~~~~~L~L~~n~I~~I--e~L----~~~l~~L~~L~Ls~N~I~~-------------l~~l~~L~~L~~L~L~~N~I~~-   78 (175)
T PF14580_consen   19 VKLRELNLRGNQISTI--ENL----GATLDKLEVLDLSNNQITK-------------LEGLPGLPRLKTLDLSNNRISS-   78 (175)
T ss_dssp             -------------------S------TT-TT--EEE-TTS--S---------------TT----TT--EEE--SS---S-
T ss_pred             cccccccccccccccc--cch----hhhhcCCCEEECCCCCCcc-------------ccCccChhhhhhcccCCCCCCc-
Confidence            4567777877777651  222    1234678888888888764             1222355778888888888886 


Q ss_pred             hHHHHHHHh-hcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEE
Q 012512          369 DARDLGSAL-VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSL  447 (462)
Q Consensus       369 ~~~~l~~~l-~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L  447 (462)
                          +.+.+ ..+++|++|++++|.|.+      +..+ ..+..+++|+.|++.+|+++...-.. .-.+.. .++|+.|
T Consensus        79 ----i~~~l~~~lp~L~~L~L~~N~I~~------l~~l-~~L~~l~~L~~L~L~~NPv~~~~~YR-~~vi~~-lP~Lk~L  145 (175)
T PF14580_consen   79 ----ISEGLDKNLPNLQELYLSNNKISD------LNEL-EPLSSLPKLRVLSLEGNPVCEKKNYR-LFVIYK-LPSLKVL  145 (175)
T ss_dssp             -----CHHHHHH-TT--EEE-TTS---S------CCCC-GGGGG-TT--EEE-TT-GGGGSTTHH-HHHHHH--TT-SEE
T ss_pred             ----cccchHHhCCcCCEEECcCCcCCC------hHHh-HHHHcCCCcceeeccCCcccchhhHH-HHHHHH-cChhhee
Confidence                43333 357788888888888766      2211 34456688888888888877542221 123334 2448877


Q ss_pred             Ec
Q 012512          448 SI  449 (462)
Q Consensus       448 ~L  449 (462)
                      |-
T Consensus       146 D~  147 (175)
T PF14580_consen  146 DG  147 (175)
T ss_dssp             TT
T ss_pred             CC
Confidence            74

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

Probab=99.09  E-value=8.3e-11  Score=105.72  Aligned_cols=184  Identities=24%  Similarity=0.310  Sum_probs=138.3

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCCh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLDR  303 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~  303 (462)
                      ..|++|||+...|+......+.+.       |.+|+.|++.++.+.+        .+...+..+.+|+.|+|+.+ .++.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~-------C~kLk~lSlEg~~LdD--------~I~~~iAkN~~L~~lnlsm~sG~t~  249 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQ-------CSKLKNLSLEGLRLDD--------PIVNTIAKNSNLVRLNLSMCSGFTE  249 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHH-------HHhhhhccccccccCc--------HHHHHHhccccceeeccccccccch
Confidence            359999999999987766655443       8889999999999888        89999999999999999987 6887


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCC--CCCcchHHHHHHHhhcCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN--NLCKADARDLGSALVHIP  381 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n--~l~~~~~~~l~~~l~~~~  381 (462)
                      .+...+    +.+++.|..|+|+.|.++..       .....+.+.+  .+|+.|+|+++  ++.+.   .+.....+|+
T Consensus       250 n~~~ll----~~scs~L~~LNlsWc~l~~~-------~Vtv~V~his--e~l~~LNlsG~rrnl~~s---h~~tL~~rcp  313 (419)
T KOG2120|consen  250 NALQLL----LSSCSRLDELNLSWCFLFTE-------KVTVAVAHIS--ETLTQLNLSGYRRNLQKS---HLSTLVRRCP  313 (419)
T ss_pred             hHHHHH----HHhhhhHhhcCchHhhccch-------hhhHHHhhhc--hhhhhhhhhhhHhhhhhh---HHHHHHHhCC
Confidence            777766    45679999999999987631       1224445444  89999999999  45554   3555567999


Q ss_pred             CCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCCccEEEccCCCC-ChhhHHHHHHHHhcCCCCCcEEEccCC
Q 012512          382 NLEILDISDNT-IEDDGIRSLIPYFVQASERCNPLVELYLENCEL-SGRGVSQLLDTLSTLRRPPTSLSIADN  452 (462)
Q Consensus       382 ~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l-~~~~~~~l~~~l~~l~~~L~~L~Ls~N  452 (462)
                      +|.+||||+|- +++.-+..+        -..+.|++|.++.|.. -.+.   + -.+.. .++|.+||+-+.
T Consensus       314 ~l~~LDLSD~v~l~~~~~~~~--------~kf~~L~~lSlsRCY~i~p~~---~-~~l~s-~psl~yLdv~g~  373 (419)
T KOG2120|consen  314 NLVHLDLSDSVMLKNDCFQEF--------FKFNYLQHLSLSRCYDIIPET---L-LELNS-KPSLVYLDVFGC  373 (419)
T ss_pred             ceeeeccccccccCchHHHHH--------HhcchheeeehhhhcCCChHH---e-eeecc-CcceEEEEeccc
Confidence            99999999886 777433333        3448999999999973 3321   1 12334 356999998664

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

Probab=98.89  E-value=1.3e-10  Score=104.58  Aligned_cols=86  Identities=24%  Similarity=0.367  Sum_probs=38.3

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV  430 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~  430 (462)
                      .+.+|+.|||++|.++.     +...-..+.++++|.|++|.|.+      +    +.++.+-+|..|++++|+|.... 
T Consensus       327 ~L~~L~~LDLS~N~Ls~-----~~Gwh~KLGNIKtL~La~N~iE~------L----SGL~KLYSLvnLDl~~N~Ie~ld-  390 (490)
T KOG1259|consen  327 ELPQLQLLDLSGNLLAE-----CVGWHLKLGNIKTLKLAQNKIET------L----SGLRKLYSLVNLDLSSNQIEELD-  390 (490)
T ss_pred             hcccceEeecccchhHh-----hhhhHhhhcCEeeeehhhhhHhh------h----hhhHhhhhheeccccccchhhHH-
Confidence            34555555555555543     22222334455555555555544      2    22333344555555555544310 


Q ss_pred             HHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          431 SQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       431 ~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                        -...+.+++. |+++.|.+|++.
T Consensus       391 --eV~~IG~LPC-LE~l~L~~NPl~  412 (490)
T KOG1259|consen  391 --EVNHIGNLPC-LETLRLTGNPLA  412 (490)
T ss_pred             --HhcccccccH-HHHHhhcCCCcc
Confidence              1122333222 555555555554

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

Probab=98.88  E-value=1.3e-09  Score=93.72  Aligned_cols=106  Identities=25%  Similarity=0.267  Sum_probs=31.6

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .+|+.|++++|.+...          +.+..++.|++|++++|.|+..+. .+.    ..+++|++|++++|+|.+... 
T Consensus        42 ~~L~~L~Ls~N~I~~l----------~~l~~L~~L~~L~L~~N~I~~i~~-~l~----~~lp~L~~L~L~~N~I~~l~~-  105 (175)
T PF14580_consen   42 DKLEVLDLSNNQITKL----------EGLPGLPRLKTLDLSNNRISSISE-GLD----KNLPNLQELYLSNNKISDLNE-  105 (175)
T ss_dssp             TT--EEE-TTS--S------------TT----TT--EEE--SS---S-CH-HHH----HH-TT--EEE-TTS---SCCC-
T ss_pred             cCCCEEECCCCCCccc----------cCccChhhhhhcccCCCCCCcccc-chH----HhCCcCCEEECcCCcCCChHH-
Confidence            4455555555555441          123345566666666666654321 111    113556666666666553111 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeC
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDI  388 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L  388 (462)
                               +..++.+++|+.|+|.+|.+++..- .=...+..+|+|+.||-
T Consensus       106 ---------l~~L~~l~~L~~L~L~~NPv~~~~~-YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen  106 ---------LEPLSSLPKLRVLSLEGNPVCEKKN-YRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             ---------CGGGGG-TT--EEE-TT-GGGGSTT-HHHHHHHH-TT-SEETT
T ss_pred             ---------hHHHHcCCCcceeeccCCcccchhh-HHHHHHHHcChhheeCC
Confidence                     1222234555555555555553211 12233445555555553

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

Probab=98.86  E-value=1.5e-09  Score=102.04  Aligned_cols=72  Identities=33%  Similarity=0.431  Sum_probs=37.9

Q ss_pred             HHHHhhcCCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccC
Q 012512          373 LGSALVHIPNLEILDISDNT-IEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       373 l~~~l~~~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~  451 (462)
                      +...-.+|+.|+.+.++++. |+|+|++++-    ..-.....|..+.|++|+...+   +..+.+.. ++.|+.+++-+
T Consensus       364 L~sls~~C~~lr~lslshce~itD~gi~~l~----~~~c~~~~l~~lEL~n~p~i~d---~~Le~l~~-c~~Leri~l~~  435 (483)
T KOG4341|consen  364 LASLSRNCPRLRVLSLSHCELITDEGIRHLS----SSSCSLEGLEVLELDNCPLITD---ATLEHLSI-CRNLERIELID  435 (483)
T ss_pred             HhhhccCCchhccCChhhhhhhhhhhhhhhh----hccccccccceeeecCCCCchH---HHHHHHhh-Ccccceeeeec
Confidence            33334455666666666655 5666655553    3334445666666666654332   13344444 45566666554


Q ss_pred             C
Q 012512          452 N  452 (462)
Q Consensus       452 N  452 (462)
                      .
T Consensus       436 ~  436 (483)
T KOG4341|consen  436 C  436 (483)
T ss_pred             h
Confidence            4

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

Probab=98.85  E-value=7e-10  Score=99.92  Aligned_cols=130  Identities=23%  Similarity=0.263  Sum_probs=101.9

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      ..|+++++++|.++.         +.+..+-.+.++.|++|+|.|...+-  ++     .+++|++||||+|.++.    
T Consensus       284 q~LtelDLS~N~I~~---------iDESvKL~Pkir~L~lS~N~i~~v~n--La-----~L~~L~~LDLS~N~Ls~----  343 (490)
T KOG1259|consen  284 QELTELDLSGNLITQ---------IDESVKLAPKLRRLILSQNRIRTVQN--LA-----ELPQLQLLDLSGNLLAE----  343 (490)
T ss_pred             hhhhhccccccchhh---------hhhhhhhccceeEEeccccceeeehh--hh-----hcccceEeecccchhHh----
Confidence            358899999999876         66666677999999999999876433  32     26899999999999873    


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                              .-+-...+.++++|+|++|.|.+      ...+..+.+|..||+++|+|..      +... ..++.++-|+
T Consensus       344 --------~~Gwh~KLGNIKtL~La~N~iE~------LSGL~KLYSLvnLDl~~N~Ie~------ldeV-~~IG~LPCLE  402 (490)
T KOG1259|consen  344 --------CVGWHLKLGNIKTLKLAQNKIET------LSGLRKLYSLVNLDLSSNQIEE------LDEV-NHIGNLPCLE  402 (490)
T ss_pred             --------hhhhHhhhcCEeeeehhhhhHhh------hhhhHhhhhheeccccccchhh------HHHh-cccccccHHH
Confidence                    11222245689999999998875      3457778899999999999986      4433 6678889999


Q ss_pred             EEEccCCCCCh
Q 012512          417 ELYLENCELSG  427 (462)
Q Consensus       417 ~L~L~~n~l~~  427 (462)
                      .+.|.+|++..
T Consensus       403 ~l~L~~NPl~~  413 (490)
T KOG1259|consen  403 TLRLTGNPLAG  413 (490)
T ss_pred             HHhhcCCCccc
Confidence            99999999765

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

Probab=98.82  E-value=1.3e-10  Score=113.09  Aligned_cols=61  Identities=39%  Similarity=0.378  Sum_probs=31.4

Q ss_pred             CCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       352 l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      +.+|+.|++..|++.+     +++.+. .=.|..||+|.|+|+.      +|   -.+++++.|++|-|++|.+.+
T Consensus       188 l~slr~l~vrRn~l~~-----lp~El~-~LpLi~lDfScNkis~------iP---v~fr~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  188 LTSLRDLNVRRNHLED-----LPEELC-SLPLIRLDFSCNKISY------LP---VDFRKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             HHHHHHHHHhhhhhhh-----CCHHHh-CCceeeeecccCceee------cc---hhhhhhhhheeeeeccCCCCC
Confidence            3455555555555553     444444 2235555555555554      44   345555555555555555554

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

Probab=98.75  E-value=8.9e-09  Score=102.34  Aligned_cols=176  Identities=26%  Similarity=0.268  Sum_probs=100.8

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCC-CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCCh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIH-KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~-~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~  303 (462)
                      ..++.|++.+|.+++.....-         ... +|+.|++++|.+..         ++..++.++.|+.|++++|++.+
T Consensus       116 ~~l~~L~l~~n~i~~i~~~~~---------~~~~nL~~L~l~~N~i~~---------l~~~~~~l~~L~~L~l~~N~l~~  177 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPLIG---------LLKSNLKELDLSDNKIES---------LPSPLRNLPNLKNLDLSFNDLSD  177 (394)
T ss_pred             cceeEEecCCcccccCccccc---------cchhhcccccccccchhh---------hhhhhhccccccccccCCchhhh
Confidence            566777777766653222111         022 56777777776654         33455666777777777777766


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .... .     ...+.|+.|++++|.+..         ++..+.   ....|++|.+++|.+..     ++..+....++
T Consensus       178 l~~~-~-----~~~~~L~~L~ls~N~i~~---------l~~~~~---~~~~L~~l~~~~N~~~~-----~~~~~~~~~~l  234 (394)
T COG4886         178 LPKL-L-----SNLSNLNNLDLSGNKISD---------LPPEIE---LLSALEELDLSNNSIIE-----LLSSLSNLKNL  234 (394)
T ss_pred             hhhh-h-----hhhhhhhheeccCCcccc---------Cchhhh---hhhhhhhhhhcCCccee-----cchhhhhcccc
Confidence            3222 1     123667777777777664         222221   11447777777774332     45556666667


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      ..+.+++|++.+      .+   ..+..++.++.|++++|+++..     .. +.. ..+++.|++++|.+.+.
T Consensus       235 ~~l~l~~n~~~~------~~---~~~~~l~~l~~L~~s~n~i~~i-----~~-~~~-~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         235 SGLELSNNKLED------LP---ESIGNLSNLETLDLSNNQISSI-----SS-LGS-LTNLRELDLSGNSLSNA  292 (394)
T ss_pred             cccccCCceeee------cc---chhccccccceecccccccccc-----cc-ccc-cCccCEEeccCcccccc
Confidence            777777777654      12   3344556677777777777762     22 333 24477777777766544

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

Probab=98.67  E-value=3.5e-08  Score=93.05  Aligned_cols=79  Identities=23%  Similarity=0.422  Sum_probs=42.7

Q ss_pred             CCCCccEEEccCC-CCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCCccEEEccCCC-CCh
Q 012512          351 SLQSLRLLNLRGN-NLCKADARDLGSALVHIPNLEILDISDNT-IEDDGIRSLIPYFVQASERCNPLVELYLENCE-LSG  427 (462)
Q Consensus       351 ~l~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~-l~~  427 (462)
                      +++.|+.|.|++| .|+|+|+..+...-.....|..+.|++.+ |++..+        ..+..+++|+.+++-+|+ ++.
T Consensus       370 ~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~L--------e~l~~c~~Leri~l~~~q~vtk  441 (483)
T KOG4341|consen  370 NCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATL--------EHLSICRNLERIELIDCQDVTK  441 (483)
T ss_pred             CCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHH--------HHHhhCcccceeeeechhhhhh
Confidence            4556666666666 45566655555555555566666666665 333211        233445566666666664 455


Q ss_pred             hhHHHHHHHH
Q 012512          428 RGVSQLLDTL  437 (462)
Q Consensus       428 ~~~~~l~~~l  437 (462)
                      +++..+...+
T Consensus       442 ~~i~~~~~~l  451 (483)
T KOG4341|consen  442 EAISRFATHL  451 (483)
T ss_pred             hhhHHHHhhC
Confidence            5554444443

>PLN03150 hypothetical protein; Provisional

Probab=98.58  E-value=1.1e-07  Score=99.40  Aligned_cols=107  Identities=28%  Similarity=0.437  Sum_probs=62.2

Q ss_pred             ccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHH
Q 012512          320 LSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIR  399 (462)
Q Consensus       320 L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~  399 (462)
                      ++.|+|++|.+.+..|        ..+.   .+.+|+.|+|++|+++.    .++..+..+++|+.|+|++|.++..   
T Consensus       420 v~~L~L~~n~L~g~ip--------~~i~---~L~~L~~L~Ls~N~l~g----~iP~~~~~l~~L~~LdLs~N~lsg~---  481 (623)
T PLN03150        420 IDGLGLDNQGLRGFIP--------NDIS---KLRHLQSINLSGNSIRG----NIPPSLGSITSLEVLDLSYNSFNGS---  481 (623)
T ss_pred             EEEEECCCCCccccCC--------HHHh---CCCCCCEEECCCCcccC----cCChHHhCCCCCCEEECCCCCCCCC---
Confidence            5566666666665444        3444   44566666666666654    3555666666666666666666543   


Q ss_pred             hHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          400 SLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       400 ~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                        +|   ..+..+++|+.|+|++|+++..    ++..+.....++..+++++|.
T Consensus       482 --iP---~~l~~L~~L~~L~Ls~N~l~g~----iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        482 --IP---ESLGQLTSLRILNLNGNSLSGR----VPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             --Cc---hHHhcCCCCCEEECcCCccccc----CChHHhhccccCceEEecCCc
Confidence              44   4455566666666666666654    344443322235566666664

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

Probab=98.58  E-value=4.5e-08  Score=97.29  Aligned_cols=182  Identities=29%  Similarity=0.310  Sum_probs=122.1

Q ss_pred             hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcC-CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCC
Q 012512          190 TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNS-ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISS  268 (462)
Q Consensus       190 ~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~-~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~  268 (462)
                      ...+...+.++.|++.+|.+.......     ... ++|++|++++|.+.... ..+..        +++|+.|++++|.
T Consensus       109 ~~~~~~~~~l~~L~l~~n~i~~i~~~~-----~~~~~nL~~L~l~~N~i~~l~-~~~~~--------l~~L~~L~l~~N~  174 (394)
T COG4886         109 ISELLELTNLTSLDLDNNNITDIPPLI-----GLLKSNLKELDLSDNKIESLP-SPLRN--------LPNLKNLDLSFND  174 (394)
T ss_pred             chhhhcccceeEEecCCcccccCcccc-----ccchhhcccccccccchhhhh-hhhhc--------cccccccccCCch
Confidence            344455577888888888765543321     223 27888888888887432 11111        6788889998888


Q ss_pred             CCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhC
Q 012512          269 FIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA  348 (462)
Q Consensus       269 ~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~  348 (462)
                      +.+         +.......+.|+.|++++|++.+- +..+     .....|++|.+++|.+..         ....+. 
T Consensus       175 l~~---------l~~~~~~~~~L~~L~ls~N~i~~l-~~~~-----~~~~~L~~l~~~~N~~~~---------~~~~~~-  229 (394)
T COG4886         175 LSD---------LPKLLSNLSNLNNLDLSGNKISDL-PPEI-----ELLSALEELDLSNNSIIE---------LLSSLS-  229 (394)
T ss_pred             hhh---------hhhhhhhhhhhhheeccCCccccC-chhh-----hhhhhhhhhhhcCCccee---------cchhhh-
Confidence            876         444444667888899999988773 3322     113568888898885321         112223 


Q ss_pred             CCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       349 ~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                        .+.++..|.+.+|++.+     ++..+...+.++.|++++|.+++      ++    .+....+++.|++++|.++.
T Consensus       230 --~~~~l~~l~l~~n~~~~-----~~~~~~~l~~l~~L~~s~n~i~~------i~----~~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         230 --NLKNLSGLELSNNKLED-----LPESIGNLSNLETLDLSNNQISS------IS----SLGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             --hcccccccccCCceeee-----ccchhccccccceeccccccccc------cc----cccccCccCEEeccCccccc
Confidence              45677777788888775     45667777888889999888887      53    25666888888888887764

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

Probab=98.50  E-value=7.1e-09  Score=103.77  Aligned_cols=189  Identities=24%  Similarity=0.226  Sum_probs=119.1

Q ss_pred             hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc---ccCCCccEEecCC
Q 012512          190 TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR---KRIHKIENLSIDI  266 (462)
Q Consensus       190 ~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~---~~~~~L~~L~l~~  266 (462)
                      +-.++....|+.|+|+++.+.. ...+.. +.   .+|++| +-+|.++  ..+.+...-.--.   ..=..|...+.++
T Consensus       102 pi~ifpF~sLr~LElrg~~L~~-~~GL~~-lr---~qLe~L-IC~~Sl~--Al~~v~ascggd~~ns~~Wn~L~~a~fsy  173 (1096)
T KOG1859|consen  102 PISIFPFRSLRVLELRGCDLST-AKGLQE-LR---HQLEKL-ICHNSLD--ALRHVFASCGGDISNSPVWNKLATASFSY  173 (1096)
T ss_pred             CceeccccceeeEEecCcchhh-hhhhHH-HH---Hhhhhh-hhhccHH--HHHHHHHHhccccccchhhhhHhhhhcch
Confidence            4456677889999999987654 222211 11   234444 2233222  1111111100000   0012456667777


Q ss_pred             CCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhh
Q 012512          267 SSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSL  346 (462)
Q Consensus       267 ~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l  346 (462)
                      |.+..         +...+.-++.|+.|+|++|++.+-.  .+     ..++.|++|||+.|.+...          ..+
T Consensus       174 N~L~~---------mD~SLqll~ale~LnLshNk~~~v~--~L-----r~l~~LkhLDlsyN~L~~v----------p~l  227 (1096)
T KOG1859|consen  174 NRLVL---------MDESLQLLPALESLNLSHNKFTKVD--NL-----RRLPKLKHLDLSYNCLRHV----------PQL  227 (1096)
T ss_pred             hhHHh---------HHHHHHHHHHhhhhccchhhhhhhH--HH-----Hhcccccccccccchhccc----------ccc
Confidence            76643         7777777899999999999998733  33     3369999999999998731          122


Q ss_pred             hCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          347 GAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       347 ~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      ... + +.|+.|++++|-++.      ...+.++.+|+.||+++|-|++.  ..+     .-+..+..|..|.|+||.+-
T Consensus       228 ~~~-g-c~L~~L~lrnN~l~t------L~gie~LksL~~LDlsyNll~~h--seL-----~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  228 SMV-G-CKLQLLNLRNNALTT------LRGIENLKSLYGLDLSYNLLSEH--SEL-----EPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             chh-h-hhheeeeecccHHHh------hhhHHhhhhhhccchhHhhhhcc--hhh-----hHHHHHHHHHHHhhcCCccc
Confidence            222 2 569999999998884      34567888999999999998763  122     22344478899999999975


Q ss_pred             h
Q 012512          427 G  427 (462)
Q Consensus       427 ~  427 (462)
                      -
T Consensus       293 c  293 (1096)
T KOG1859|consen  293 C  293 (1096)
T ss_pred             c
Confidence            4

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=3.4e-07  Score=82.84  Aligned_cols=195  Identities=15%  Similarity=0.110  Sum_probs=93.0

Q ss_pred             hcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhh-cCCCCCCEEecCCCC
Q 012512          222 QNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFL-SSGRSLCSLKLRHCH  300 (462)
Q Consensus       222 ~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l-~~l~~L~~L~Ls~n~  300 (462)
                      ..+..++++||.+|.|++-  ..++..+.+    ++.|+.|+++.|++..        .+ ..+ .-..+|++|-|.+..
T Consensus        68 ~~~~~v~elDL~~N~iSdW--seI~~ile~----lP~l~~LNls~N~L~s--------~I-~~lp~p~~nl~~lVLNgT~  132 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDW--SEIGAILEQ----LPALTTLNLSCNSLSS--------DI-KSLPLPLKNLRVLVLNGTG  132 (418)
T ss_pred             HHhhhhhhhhcccchhccH--HHHHHHHhc----CccceEeeccCCcCCC--------cc-ccCcccccceEEEEEcCCC
Confidence            3345566666666666541  222222222    5556666666665543        11 111 122466666666666


Q ss_pred             CChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc-ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhc
Q 012512          301 LDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS-KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVH  379 (462)
Q Consensus       301 l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~-~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~  379 (462)
                      +........    ...++.++.|.+|.|.+.-... +-+.       ...+  +.+++|++..|....  ...+...-+.
T Consensus       133 L~w~~~~s~----l~~lP~vtelHmS~N~~rq~n~Dd~c~-------e~~s--~~v~tlh~~~c~~~~--w~~~~~l~r~  197 (418)
T KOG2982|consen  133 LSWTQSTSS----LDDLPKVTELHMSDNSLRQLNLDDNCI-------EDWS--TEVLTLHQLPCLEQL--WLNKNKLSRI  197 (418)
T ss_pred             CChhhhhhh----hhcchhhhhhhhccchhhhhccccccc-------cccc--hhhhhhhcCCcHHHH--HHHHHhHHhh
Confidence            655544433    2344666666666663221000 0111       1111  345555555553221  1122223334


Q ss_pred             CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          380 IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       380 ~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      .+++..+-+..|+|.+....       ......+.+.-|+|+.|+|.+...   .+++.++ +.|..|.+++|++.+.
T Consensus       198 Fpnv~sv~v~e~PlK~~s~e-------k~se~~p~~~~LnL~~~~idswas---vD~Ln~f-~~l~dlRv~~~Pl~d~  264 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLKTESSE-------KGSEPFPSLSCLNLGANNIDSWAS---VDALNGF-PQLVDLRVSENPLSDP  264 (418)
T ss_pred             cccchheeeecCcccchhhc-------ccCCCCCcchhhhhcccccccHHH---HHHHcCC-chhheeeccCCccccc
Confidence            56666666667766542110       334444666667777777766432   2334443 2367777777776654

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

Probab=98.38  E-value=1.7e-08  Score=98.60  Aligned_cols=105  Identities=15%  Similarity=0.194  Sum_probs=47.9

Q ss_pred             CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccccc
Q 012512          258 KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       258 ~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      .|+.|-+++|+++.         ++.-++..+.|..||.+.|.+.. .+..+..     +.+|+.|.++.|++.+     
T Consensus       144 pLkvli~sNNkl~~---------lp~~ig~~~tl~~ld~s~nei~s-lpsql~~-----l~slr~l~vrRn~l~~-----  203 (722)
T KOG0532|consen  144 PLKVLIVSNNKLTS---------LPEEIGLLPTLAHLDVSKNEIQS-LPSQLGY-----LTSLRDLNVRRNHLED-----  203 (722)
T ss_pred             cceeEEEecCcccc---------CCcccccchhHHHhhhhhhhhhh-chHHhhh-----HHHHHHHHHhhhhhhh-----
Confidence            34555555555443         33333444455555555554433 2322221     2445555555555443     


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                          ++..+..    -.|..||++.|+|+.     ||-.|.++.+|++|-|.+|++..
T Consensus       204 ----lp~El~~----LpLi~lDfScNkis~-----iPv~fr~m~~Lq~l~LenNPLqS  248 (722)
T KOG0532|consen  204 ----LPEELCS----LPLIRLDFSCNKISY-----LPVDFRKMRHLQVLQLENNPLQS  248 (722)
T ss_pred             ----CCHHHhC----CceeeeecccCceee-----cchhhhhhhhheeeeeccCCCCC
Confidence                2222221    235555555555552     55555555555555555555543

>PLN03150 hypothetical protein; Provisional

Probab=98.37  E-value=8.1e-07  Score=92.98  Aligned_cols=85  Identities=29%  Similarity=0.403  Sum_probs=44.3

Q ss_pred             CCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchH
Q 012512          291 LCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADA  370 (462)
Q Consensus       291 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~  370 (462)
                      ++.|+|++|.+.+..+..+     ..+++|+.|+|++|.+.+..|        ..+.   .++.|+.|+|++|+++.   
T Consensus       420 v~~L~L~~n~L~g~ip~~i-----~~L~~L~~L~Ls~N~l~g~iP--------~~~~---~l~~L~~LdLs~N~lsg---  480 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDI-----SKLRHLQSINLSGNSIRGNIP--------PSLG---SITSLEVLDLSYNSFNG---  480 (623)
T ss_pred             EEEEECCCCCccccCCHHH-----hCCCCCCEEECCCCcccCcCC--------hHHh---CCCCCCEEECCCCCCCC---
Confidence            4555555555555444433     224555555555555554433        3333   33555555555555554   


Q ss_pred             HHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          371 RDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       371 ~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                       .++..+.++++|+.|+|++|.++.
T Consensus       481 -~iP~~l~~L~~L~~L~Ls~N~l~g  504 (623)
T PLN03150        481 -SIPESLGQLTSLRILNLNGNSLSG  504 (623)
T ss_pred             -CCchHHhcCCCCCEEECcCCcccc
Confidence             345555555555555555555543

>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=98.24  E-value=2.1e-07  Score=65.64  Aligned_cols=57  Identities=35%  Similarity=0.500  Sum_probs=25.3

Q ss_pred             ccEEEccCCCCCcchHHHHH-HHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          355 LRLLNLRGNNLCKADARDLG-SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~-~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      |++|++++|+|+.     ++ .++..+++|++|++++|.|+.      ++.  ..+..+++|+.|++++|+
T Consensus         3 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    3 LESLDLSNNKLTE-----IPPDSFSNLPNLETLDLSNNNLTS------IPP--DAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             ESEEEETSSTESE-----ECTTTTTTGTTESEEEETSSSESE------EET--TTTTTSTTESEEEETSSS
T ss_pred             CcEEECCCCCCCc-----cCHHHHcCCCCCCEeEccCCccCc------cCH--HHHcCCCCCCEEeCcCCc
Confidence            4444444444443     22 234444455555555554443      221  334444455555555444

...

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

Probab=98.23  E-value=4.7e-06  Score=87.28  Aligned_cols=119  Identities=23%  Similarity=0.259  Sum_probs=51.3

Q ss_pred             CCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCc
Q 012512          288 GRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK  367 (462)
Q Consensus       288 l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~  367 (462)
                      +|+|++|.+++-.+.......+    +.+.++|..||+|+++++.         + .+++   ++.+|+.|.+.+=.+..
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~l----c~sFpNL~sLDIS~TnI~n---------l-~GIS---~LknLq~L~mrnLe~e~  209 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQL----CASFPNLRSLDISGTNISN---------L-SGIS---RLKNLQVLSMRNLEFES  209 (699)
T ss_pred             CcccceEEecCceecchhHHHH----hhccCccceeecCCCCccC---------c-HHHh---ccccHHHHhccCCCCCc
Confidence            4555555555544444333333    3344555555555555543         1 2233   33455555444443333


Q ss_pred             chHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh
Q 012512          368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR  428 (462)
Q Consensus       368 ~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~  428 (462)
                      ..   -...+.++++|+.||+|...-.+.- +.+..++ +.-..++.|+.||.|++.++..
T Consensus       210 ~~---~l~~LF~L~~L~vLDIS~~~~~~~~-~ii~qYl-ec~~~LpeLrfLDcSgTdi~~~  265 (699)
T KOG3665|consen  210 YQ---DLIDLFNLKKLRVLDISRDKNNDDT-KIIEQYL-ECGMVLPELRFLDCSGTDINEE  265 (699)
T ss_pred             hh---hHHHHhcccCCCeeeccccccccch-HHHHHHH-HhcccCccccEEecCCcchhHH
Confidence            11   1122334555555555554433221 1111111 2223345555555555555554

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

Probab=98.23  E-value=2.2e-07  Score=92.82  Aligned_cols=223  Identities=22%  Similarity=0.185  Sum_probs=131.1

Q ss_pred             hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCC
Q 012512          191 CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFI  270 (462)
Q Consensus       191 ~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~  270 (462)
                      ..+..++++..|++..|.+......     ...+++|++|++++|.|+....-.  .        +..|+.|++++|.+.
T Consensus        89 ~~l~~~~~l~~l~l~~n~i~~i~~~-----l~~~~~L~~L~ls~N~I~~i~~l~--~--------l~~L~~L~l~~N~i~  153 (414)
T KOG0531|consen   89 NHLSKLKSLEALDLYDNKIEKIENL-----LSSLVNLQVLDLSFNKITKLEGLS--T--------LTLLKELNLSGNLIS  153 (414)
T ss_pred             cccccccceeeeeccccchhhcccc-----hhhhhcchheeccccccccccchh--h--------ccchhhheeccCcch
Confidence            3455667888888888876554321     235788999999998887532221  1        456888999998886


Q ss_pred             CCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHH------H
Q 012512          271 ENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPL------F  344 (462)
Q Consensus       271 ~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~------~  344 (462)
                      ...          .+..++.|+.+++++|.+.......+     ..+..++.+++.+|.+...........+.      .
T Consensus       154 ~~~----------~~~~l~~L~~l~l~~n~i~~ie~~~~-----~~~~~l~~l~l~~n~i~~i~~~~~~~~l~~~~l~~n  218 (414)
T KOG0531|consen  154 DIS----------GLESLKSLKLLDLSYNRIVDIENDEL-----SELISLEELDLGGNSIREIEGLDLLKKLVLLSLLDN  218 (414)
T ss_pred             hcc----------CCccchhhhcccCCcchhhhhhhhhh-----hhccchHHHhccCCchhcccchHHHHHHHHhhcccc
Confidence            632          23346788888999888876444101     22477888888888766321100000000      0


Q ss_pred             hhhCCCCC---CC--ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEE
Q 012512          345 SLGAGKSL---QS--LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELY  419 (462)
Q Consensus       345 ~l~~~~~l---~~--L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~  419 (462)
                      .+....++   ..  |+.+++++|++..     ++..+..+.++..+++++|.++.      .    ..+.....+..+.
T Consensus       219 ~i~~~~~l~~~~~~~L~~l~l~~n~i~~-----~~~~~~~~~~l~~l~~~~n~~~~------~----~~~~~~~~~~~~~  283 (414)
T KOG0531|consen  219 KISKLEGLNELVMLHLRELYLSGNRISR-----SPEGLENLKNLPVLDLSSNRISN------L----EGLERLPKLSELW  283 (414)
T ss_pred             cceeccCcccchhHHHHHHhcccCcccc-----ccccccccccccccchhhccccc------c----ccccccchHHHhc
Confidence            00111111   11  6677777777774     32556667778888888887765      2    3344446667777


Q ss_pred             ccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          420 LENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       420 L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ...|++.......-...... ..+++.+.+.+|.+...-+
T Consensus       284 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  322 (414)
T KOG0531|consen  284 LNDNKLALSEAISQEYITSA-APTLVTLTLELNPIRKISS  322 (414)
T ss_pred             cCcchhcchhhhhccccccc-cccccccccccCccccccc
Confidence            77777654311111111333 3457888888887766443

>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=98.22  E-value=4.5e-07  Score=63.94  Aligned_cols=61  Identities=34%  Similarity=0.464  Sum_probs=41.9

Q ss_pred             CCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       318 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      ++|++|++++|.++...+           ..+.++++|++|++++|+++.    .-+.++..+++|++|++++|+|
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 PNLESLDLSNNKLTEIPP-----------DSFSNLPNLETLDLSNNNLTS----IPPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSSTESEECT-----------TTTTTGTTESEEEETSSSESE----EETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCCCCccCH-----------HHHcCCCCCCEeEccCCccCc----cCHHHHcCCCCCCEEeCcCCcC
Confidence            467788888887774322           223356788888888888875    1223678888888888888864

...

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

Probab=98.20  E-value=9.3e-08  Score=95.43  Aligned_cols=36  Identities=25%  Similarity=0.384  Sum_probs=24.7

Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      |+.+++++|++...     .+.+.. ...+..|+++.|++..
T Consensus       234 L~~l~l~~n~i~~~-----~~~~~~-~~~l~~l~~~~n~~~~  269 (414)
T KOG0531|consen  234 LRELYLSGNRISRS-----PEGLEN-LKNLPVLDLSSNRISN  269 (414)
T ss_pred             HHHHhcccCccccc-----cccccc-cccccccchhhccccc
Confidence            77888888887762     234444 3448888888888754

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

Probab=98.18  E-value=2.7e-06  Score=89.09  Aligned_cols=148  Identities=20%  Similarity=0.172  Sum_probs=94.8

Q ss_pred             CCcCEEEeccCCCh-HHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFE-EHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~-~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      .+|++|++++.... ..+   ....+..+|+|++|.+++-.+.......+|..       +++|..||+|++.++.    
T Consensus       122 ~nL~~LdI~G~~~~s~~W---~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~s-------FpNL~sLDIS~TnI~n----  187 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGW---PKKIGTMLPSLRSLVISGRQFDNDDFSQLCAS-------FPNLRSLDISGTNISN----  187 (699)
T ss_pred             HhhhhcCccccchhhccH---HHHHhhhCcccceEEecCceecchhHHHHhhc-------cCccceeecCCCCccC----
Confidence            56777777775422 222   22335567888888888876665555555553       6778888888888766    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCCh-hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDR-DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~-~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                           + ..++.+++|+.|.+.+=.+.. .....++.     +++|+.||+|.......     ...+...+.....++.
T Consensus       188 -----l-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~-----L~~L~vLDIS~~~~~~~-----~~ii~qYlec~~~Lpe  251 (699)
T KOG3665|consen  188 -----L-SGISRLKNLQVLSMRNLEFESYQDLIDLFN-----LKKLRVLDISRDKNNDD-----TKIIEQYLECGMVLPE  251 (699)
T ss_pred             -----c-HHHhccccHHHHhccCCCCCchhhHHHHhc-----ccCCCeeeccccccccc-----hHHHHHHHHhcccCcc
Confidence                 2 555677888888877766654 44555543     67888888888765431     1234445555556778


Q ss_pred             ccEEEccCCCCCcchHHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLG  374 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~  374 (462)
                      |+.||.|+..+.++-++.+.
T Consensus       252 LrfLDcSgTdi~~~~le~ll  271 (699)
T KOG3665|consen  252 LRFLDCSGTDINEEILEELL  271 (699)
T ss_pred             ccEEecCCcchhHHHHHHHH
Confidence            88888887777775544443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.15  E-value=9.5e-07  Score=80.01  Aligned_cols=198  Identities=18%  Similarity=0.137  Sum_probs=119.8

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      .++.+++++|.+|.+. .+..++. +..++|.|+.|+|++|.+....        .+......+|+.|-|++..+..   
T Consensus        69 ~~~~v~elDL~~N~iS-dWseI~~-ile~lP~l~~LNls~N~L~s~I--------~~lp~p~~nl~~lVLNgT~L~w---  135 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLIS-DWSEIGA-ILEQLPALTTLNLSCNSLSSDI--------KSLPLPLKNLRVLVLNGTGLSW---  135 (418)
T ss_pred             Hhhhhhhhhcccchhc-cHHHHHH-HHhcCccceEeeccCCcCCCcc--------ccCcccccceEEEEEcCCCCCh---
Confidence            5578999999998764 3444433 3456999999999999886422        1222226789999999887766   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCC-----ChhhHHHHH-------------------HHHhhCCCCccEEEecCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHL-----DRDFGRMVF-------------------SSLLEASSSLSILDLSGNSI  330 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l-----~~~~~~~l~-------------------~~l~~~~~~L~~L~Ls~n~l  330 (462)
                          ......+..+|.++.|.+|.|.+     .+.....+.                   ..+..-.+++..+-+..|.+
T Consensus       136 ----~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~Pl  211 (418)
T KOG2982|consen  136 ----TQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPL  211 (418)
T ss_pred             ----hhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcc
Confidence                34566677788888888888832     111111110                   00112234555555666655


Q ss_pred             CCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCch--hHHhHHHHHHhh
Q 012512          331 GGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDD--GIRSLIPYFVQA  408 (462)
Q Consensus       331 ~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~--g~~~l~~~l~~~  408 (462)
                      .+...    +      .....++.+..|+|+.++|.+-   +-..++.++++|+.|.+++|++.|.  |.....    -.
T Consensus       212 K~~s~----e------k~se~~p~~~~LnL~~~~idsw---asvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~----ll  274 (418)
T KOG2982|consen  212 KTESS----E------KGSEPFPSLSCLNLGANNIDSW---ASVDALNGFPQLVDLRVSENPLSDPLRGGERRF----LL  274 (418)
T ss_pred             cchhh----c------ccCCCCCcchhhhhcccccccH---HHHHHHcCCchhheeeccCCcccccccCCcceE----EE
Confidence            43111    0      1111335666788888888863   2345688888999999999988773  111100    23


Q ss_pred             cCCCCCccEEEccCCCCChh
Q 012512          409 SERCNPLVELYLENCELSGR  428 (462)
Q Consensus       409 l~~~~~L~~L~L~~n~l~~~  428 (462)
                      ++++++++.|+=+  +|++.
T Consensus       275 IaRL~~v~vLNGs--kIss~  292 (418)
T KOG2982|consen  275 IARLTKVQVLNGS--KISSR  292 (418)
T ss_pred             EeeccceEEecCc--ccchh
Confidence            5566777777633  66653

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

Probab=98.07  E-value=5.2e-07  Score=72.40  Aligned_cols=138  Identities=20%  Similarity=0.243  Sum_probs=93.9

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcc
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKA  368 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~  368 (462)
                      ..+..++|+.|.+.. ..+.+..  ......|...+|++|.+.+         ++..+..  ..+++++|+|++|.|++ 
T Consensus        27 kE~h~ldLssc~lm~-i~davy~--l~~~~el~~i~ls~N~fk~---------fp~kft~--kf~t~t~lNl~~neisd-   91 (177)
T KOG4579|consen   27 KELHFLDLSSCQLMY-IADAVYM--LSKGYELTKISLSDNGFKK---------FPKKFTI--KFPTATTLNLANNEISD-   91 (177)
T ss_pred             HHhhhcccccchhhH-HHHHHHH--HhCCceEEEEecccchhhh---------CCHHHhh--ccchhhhhhcchhhhhh-
Confidence            356788999998864 3333222  2234778889999999875         2233332  33689999999999997 


Q ss_pred             hHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEE
Q 012512          369 DARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLS  448 (462)
Q Consensus       369 ~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~  448 (462)
                          +|..+..++.|+.|+++.|++..      .|   ..+..+.++-.|+.-+|.+-+....    .+-  ....-..+
T Consensus        92 ----vPeE~Aam~aLr~lNl~~N~l~~------~p---~vi~~L~~l~~Lds~~na~~eid~d----l~~--s~~~al~~  152 (177)
T KOG4579|consen   92 ----VPEELAAMPALRSLNLRFNPLNA------EP---RVIAPLIKLDMLDSPENARAEIDVD----LFY--SSLPALIK  152 (177)
T ss_pred             ----chHHHhhhHHhhhcccccCcccc------ch---HHHHHHHhHHHhcCCCCccccCcHH----Hhc--cccHHHHH
Confidence                88889999999999999999875      33   3334457788888888887663222    121  22244455


Q ss_pred             ccCCCCCCcccc
Q 012512          449 IADNNLGRFCAN  460 (462)
Q Consensus       449 Ls~N~l~~~~~~  460 (462)
                      +.++.++++-+.
T Consensus       153 lgnepl~~~~~~  164 (177)
T KOG4579|consen  153 LGNEPLGDETKK  164 (177)
T ss_pred             hcCCcccccCcc
Confidence            677788776553

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

Probab=98.07  E-value=5.6e-07  Score=72.23  Aligned_cols=110  Identities=23%  Similarity=0.314  Sum_probs=79.1

Q ss_pred             CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccccc
Q 012512          258 KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       258 ~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      .+..++|++|++...      ......+.....|+..+|++|.+.+ .+..+..    ..+.++.|+|++|.|++     
T Consensus        28 E~h~ldLssc~lm~i------~davy~l~~~~el~~i~ls~N~fk~-fp~kft~----kf~t~t~lNl~~neisd-----   91 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMYI------ADAVYMLSKGYELTKISLSDNGFKK-FPKKFTI----KFPTATTLNLANNEISD-----   91 (177)
T ss_pred             HhhhcccccchhhHH------HHHHHHHhCCceEEEEecccchhhh-CCHHHhh----ccchhhhhhcchhhhhh-----
Confidence            466788888876530      1233445556678888999998876 4444432    34678999999999986     


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                          ++..+.   .++.|+.|+++.|.+..     .+..+..+.+|-.|+.-+|.+..
T Consensus        92 ----vPeE~A---am~aLr~lNl~~N~l~~-----~p~vi~~L~~l~~Lds~~na~~e  137 (177)
T KOG4579|consen   92 ----VPEELA---AMPALRSLNLRFNPLNA-----EPRVIAPLIKLDMLDSPENARAE  137 (177)
T ss_pred             ----chHHHh---hhHHhhhcccccCcccc-----chHHHHHHHhHHHhcCCCCcccc
Confidence                445555   55889999999999884     66666667888889988888766

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

Probab=98.02  E-value=2.1e-05  Score=80.23  Aligned_cols=177  Identities=23%  Similarity=0.172  Sum_probs=86.2

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCC--CCChhH--HHHHHHHHhcccccCCCccEEecCCCC-CC
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHC--KLSPSF--VEGICRSLCSKRKRIHKIENLSIDISS-FI  270 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~--~l~~~~--~~~l~~~l~~~~~~~~~L~~L~l~~~~-~~  270 (462)
                      ++.+++|.+..++......  ...+...+++|++|+++++  .+....  ...+...       +.+|+.|+++.+. ++
T Consensus       187 ~~~L~~l~l~~~~~~~~~~--~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~-------~~~L~~l~l~~~~~is  257 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDS--LDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSI-------CRKLKSLDLSGCGLVT  257 (482)
T ss_pred             CchhhHhhhcccccCChhh--HHHHHhhCchhheecccCcccccccchhHhhhhhhh-------cCCcCccchhhhhccC
Confidence            5667777776665322211  1112344677777777762  111111  1111111       5667777777666 44


Q ss_pred             CCCCchhHHHHHHhhcCCCCCCEEecCCCC-CChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCC
Q 012512          271 ENCPSSVVVELVSFLSSGRSLCSLKLRHCH-LDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG  349 (462)
Q Consensus       271 ~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~  349 (462)
                      +       ..+......+++|++|.+.+|. +++.+...+++.    ++.|++|++++|....      ...+.....  
T Consensus       258 d-------~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~----~~~L~~L~l~~c~~~~------d~~l~~~~~--  318 (482)
T KOG1947|consen  258 D-------IGLSALASRCPNLETLSLSNCSNLTDEGLVSIAER----CPSLRELDLSGCHGLT------DSGLEALLK--  318 (482)
T ss_pred             c-------hhHHHHHhhCCCcceEccCCCCccchhHHHHHHHh----cCcccEEeeecCccch------HHHHHHHHH--
Confidence            4       1222222236677777766665 677777766542    3557777777665321      111222222  


Q ss_pred             CCCCCccEEEccCCC----CCcchHH---------HHHHHhhcCCCCCEEeCCCCCCCchhHHhH
Q 012512          350 KSLQSLRLLNLRGNN----LCKADAR---------DLGSALVHIPNLEILDISDNTIEDDGIRSL  401 (462)
Q Consensus       350 ~~l~~L~~L~L~~n~----l~~~~~~---------~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l  401 (462)
                       +++.++.|.+....    +++.++.         .....+..+++++++.+..+.+++.|...+
T Consensus       319 -~c~~l~~l~~~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~  382 (482)
T KOG1947|consen  319 -NCPNLRELKLLSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCGISDLGLELS  382 (482)
T ss_pred             -hCcchhhhhhhhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhhccCcchHHH
Confidence             23344443333322    3333221         112234566677777777666666554333

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

Probab=97.98  E-value=8.2e-06  Score=52.90  Aligned_cols=37  Identities=41%  Similarity=0.672  Sum_probs=26.0

Q ss_pred             CccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          354 SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       354 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      +|++|++++|+|++     +++.++++++|+.|++++|+|++
T Consensus         2 ~L~~L~l~~N~i~~-----l~~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    2 NLEELDLSNNQITD-----LPPELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             T-SEEEETSSS-SS-----HGGHGTTCTTSSEEEETSSCCSB
T ss_pred             cceEEEccCCCCcc-----cCchHhCCCCCCEEEecCCCCCC
Confidence            57777777777775     66667777777777777777776

...

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

Probab=97.93  E-value=3.5e-05  Score=78.63  Aligned_cols=187  Identities=25%  Similarity=0.306  Sum_probs=124.1

Q ss_pred             HhcCCCccEEEccCC-CCChhHHHHHHHHHhcccccCCCccEEecCCC-CCCCCCCchhHHHHHHhhcCCCCCCEEecCC
Q 012512          221 IQNSETLASLEFLHC-KLSPSFVEGICRSLCSKRKRIHKIENLSIDIS-SFIENCPSSVVVELVSFLSSGRSLCSLKLRH  298 (462)
Q Consensus       221 ~~~~~~L~~L~L~~~-~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~-~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~  298 (462)
                      ...+++|+.|.+..+ .+.+.....+...       +..|+.|+++++ ......    ..........+++|+.|++++
T Consensus       184 ~~~~~~L~~l~l~~~~~~~~~~~~~~~~~-------~~~L~~L~l~~~~~~~~~~----~~~~~~~~~~~~~L~~l~l~~  252 (482)
T KOG1947|consen  184 LSSCPLLKRLSLSGCSKITDDSLDALALK-------CPNLEELDLSGCCLLITLS----PLLLLLLLSICRKLKSLDLSG  252 (482)
T ss_pred             HhhCchhhHhhhcccccCChhhHHHHHhh-------CchhheecccCcccccccc----hhHhhhhhhhcCCcCccchhh
Confidence            444789999999987 6666554444333       788999999873 222211    112333555578999999999


Q ss_pred             CC-CChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCCCCCCccEEEccCC-CCCcchHHHHHH
Q 012512          299 CH-LDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN-NLCKADARDLGS  375 (462)
Q Consensus       299 n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n-~l~~~~~~~l~~  375 (462)
                      +. +++.+...++..    ++.|++|.+.+|. +++.       ++.....   .++.|++|++++| .+++.++..+  
T Consensus       253 ~~~isd~~l~~l~~~----c~~L~~L~l~~c~~lt~~-------gl~~i~~---~~~~L~~L~l~~c~~~~d~~l~~~--  316 (482)
T KOG1947|consen  253 CGLVTDIGLSALASR----CPNLETLSLSNCSNLTDE-------GLVSIAE---RCPSLRELDLSGCHGLTDSGLEAL--  316 (482)
T ss_pred             hhccCchhHHHHHhh----CCCcceEccCCCCccchh-------HHHHHHH---hcCcccEEeeecCccchHHHHHHH--
Confidence            98 999999988763    5789999988887 6652       2333333   5578999999999 4557665444  


Q ss_pred             HhhcCCCCCEEeCCCCC----CCchhHHhHHH-----HHHhhcCCCCCccEEEccCCCCChhhHHHHHH
Q 012512          376 ALVHIPNLEILDISDNT----IEDDGIRSLIP-----YFVQASERCNPLVELYLENCELSGRGVSQLLD  435 (462)
Q Consensus       376 ~l~~~~~L~~L~Ls~N~----l~~~g~~~l~~-----~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~  435 (462)
                       ...|++|+.|.+....    |++.++..+..     .......++++++.+.+..+.+++.|...+..
T Consensus       317 -~~~c~~l~~l~~~~~~~c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~l~  384 (482)
T KOG1947|consen  317 -LKNCPNLRELKLLSLNGCPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCGISDLGLELSLR  384 (482)
T ss_pred             -HHhCcchhhhhhhhcCCCccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhhccCcchHHHhc
Confidence             4457777776654433    55554433222     11134567889999999999987776544433

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

Probab=97.91  E-value=4.7e-07  Score=91.11  Aligned_cols=177  Identities=23%  Similarity=0.210  Sum_probs=108.3

Q ss_pred             cCCCccEEEccCCCCCh-hHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCC------CCCCEEe
Q 012512          223 NSETLASLEFLHCKLSP-SFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG------RSLCSLK  295 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~-~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l------~~L~~L~  295 (462)
                      .++.|+.|.|.+|.+.. .|...+-..|          ++|.-.+ ..     ..+...+....+..      ..|.+.+
T Consensus       107 pF~sLr~LElrg~~L~~~~GL~~lr~qL----------e~LIC~~-Sl-----~Al~~v~ascggd~~ns~~Wn~L~~a~  170 (1096)
T KOG1859|consen  107 PFRSLRVLELRGCDLSTAKGLQELRHQL----------EKLICHN-SL-----DALRHVFASCGGDISNSPVWNKLATAS  170 (1096)
T ss_pred             cccceeeEEecCcchhhhhhhHHHHHhh----------hhhhhhc-cH-----HHHHHHHHHhccccccchhhhhHhhhh
Confidence            46789999999998864 3334443333          3322111 11     01111122211111      2567777


Q ss_pred             cCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH
Q 012512          296 LRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS  375 (462)
Q Consensus       296 Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~  375 (462)
                      .++|.+.-.+-. +     .-++.+++|||++|++++.          ..+.   .|+.|++|||+.|.+..     ++.
T Consensus       171 fsyN~L~~mD~S-L-----qll~ale~LnLshNk~~~v----------~~Lr---~l~~LkhLDlsyN~L~~-----vp~  226 (1096)
T KOG1859|consen  171 FSYNRLVLMDES-L-----QLLPALESLNLSHNKFTKV----------DNLR---RLPKLKHLDLSYNCLRH-----VPQ  226 (1096)
T ss_pred             cchhhHHhHHHH-H-----HHHHHhhhhccchhhhhhh----------HHHH---hcccccccccccchhcc-----ccc
Confidence            788876532211 1     1236789999999998751          2444   56889999999998874     443


Q ss_pred             H-hhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCC
Q 012512          376 A-LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       376 ~-l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                      . ...| .|..|+|++|.++.      +    ..+.++.+|+.||++.|-|++..-....-++..    |+.|+|.||++
T Consensus       227 l~~~gc-~L~~L~lrnN~l~t------L----~gie~LksL~~LDlsyNll~~hseL~pLwsLs~----L~~L~LeGNPl  291 (1096)
T KOG1859|consen  227 LSMVGC-KLQLLNLRNNALTT------L----RGIENLKSLYGLDLSYNLLSEHSELEPLWSLSS----LIVLWLEGNPL  291 (1096)
T ss_pred             cchhhh-hheeeeecccHHHh------h----hhHHhhhhhhccchhHhhhhcchhhhHHHHHHH----HHHHhhcCCcc
Confidence            2 2234 38999999998775      3    334556889999999998777543334444544    88899999986

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

Probab=97.71  E-value=4.7e-05  Score=49.34  Aligned_cols=38  Identities=39%  Similarity=0.502  Sum_probs=25.1

Q ss_pred             CCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          381 PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       381 ~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      ++|++|++++|.|++      +|   ..+.++++|+.|++++|+|++
T Consensus         1 ~~L~~L~l~~N~i~~------l~---~~l~~l~~L~~L~l~~N~i~~   38 (44)
T PF12799_consen    1 KNLEELDLSNNQITD------LP---PELSNLPNLETLNLSNNPISD   38 (44)
T ss_dssp             TT-SEEEETSSS-SS------HG---GHGTTCTTSSEEEETSSCCSB
T ss_pred             CcceEEEccCCCCcc------cC---chHhCCCCCCEEEecCCCCCC
Confidence            367777777777776      54   335667777777777777765

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.68  E-value=3.3e-05  Score=83.18  Aligned_cols=111  Identities=16%  Similarity=0.147  Sum_probs=74.1

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      .+++|..|-+..|..  ........++..++.|+.|||++|.-....|..+.+        +.+|++|+++++.+..   
T Consensus       543 ~~~~L~tLll~~n~~--~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~--------Li~LryL~L~~t~I~~---  609 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSD--WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGE--------LVHLRYLDLSDTGISH---  609 (889)
T ss_pred             CCCccceEEEeecch--hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhh--------hhhhhcccccCCCccc---
Confidence            445688888777642  111112222456889999999987555555666655        6778899999888765   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS  329 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~  329 (462)
                            ++..++.++.|.+|++..+.-....+..+     ..+++|++|.+-...
T Consensus       610 ------LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~-----~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  610 ------LPSGLGNLKKLIYLNLEVTGRLESIPGIL-----LELQSLRVLRLPRSA  653 (889)
T ss_pred             ------cchHHHHHHhhheeccccccccccccchh-----hhcccccEEEeeccc
Confidence                  88888888889999988776444332222     235788888886654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.58  E-value=1e-05  Score=72.85  Aligned_cols=105  Identities=25%  Similarity=0.216  Sum_probs=67.4

Q ss_pred             CCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCc
Q 012512          288 GRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK  367 (462)
Q Consensus       288 l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~  367 (462)
                      +.+.++|+.-+|.|++..   +    +..++.|+.|.||-|+|+.             +..+..|++|++|.|..|.|.+
T Consensus        18 l~~vkKLNcwg~~L~DIs---i----c~kMp~lEVLsLSvNkIss-------------L~pl~rCtrLkElYLRkN~I~s   77 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDIS---I----CEKMPLLEVLSLSVNKISS-------------LAPLQRCTRLKELYLRKNCIES   77 (388)
T ss_pred             HHHhhhhcccCCCccHHH---H----HHhcccceeEEeecccccc-------------chhHHHHHHHHHHHHHhccccc
Confidence            446777888888887632   2    3446888888888888764             2223366788888888888876


Q ss_pred             chHHHHHHHhhcCCCCCEEeCCCCCCCch-hHHhHHHHHHhhcCCCCCccEEE
Q 012512          368 ADARDLGSALVHIPNLEILDISDNTIEDD-GIRSLIPYFVQASERCNPLVELY  419 (462)
Q Consensus       368 ~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~-g~~~l~~~l~~~l~~~~~L~~L~  419 (462)
                      -.   =...+.++++|+.|.|..|+-... |-..-.    ..++-+++|++||
T Consensus        78 ld---EL~YLknlpsLr~LWL~ENPCc~~ag~nYR~----~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   78 LD---ELEYLKNLPSLRTLWLDENPCCGEAGQNYRR----KVLRVLPNLKKLD  123 (388)
T ss_pred             HH---HHHHHhcCchhhhHhhccCCcccccchhHHH----HHHHHcccchhcc
Confidence            21   123567788888888888874433 322222    3345557777775

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.48  E-value=0.00044  Score=67.27  Aligned_cols=137  Identities=15%  Similarity=0.276  Sum_probs=78.0

Q ss_pred             cCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CC
Q 012512          223 NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HL  301 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l  301 (462)
                      .+.++++|++++|.+....  .+          -.+|++|.+++|.-..        .++..+  ..+|++|++++| .+
T Consensus        50 ~~~~l~~L~Is~c~L~sLP--~L----------P~sLtsL~Lsnc~nLt--------sLP~~L--P~nLe~L~Ls~Cs~L  107 (426)
T PRK15386         50 EARASGRLYIKDCDIESLP--VL----------PNELTEITIENCNNLT--------TLPGSI--PEGLEKLTVCHCPEI  107 (426)
T ss_pred             HhcCCCEEEeCCCCCcccC--CC----------CCCCcEEEccCCCCcc--------cCCchh--hhhhhheEccCcccc
Confidence            4688899999988766321  11          2468888888764332        122222  147888888887 44


Q ss_pred             ChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCC-CCcchHHHHHHHhhcC
Q 012512          302 DRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNN-LCKADARDLGSALVHI  380 (462)
Q Consensus       302 ~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~~l~~~  380 (462)
                      ..     +       ..+|+.|+++++....             +..+.  .+|+.|.+.+++ ....   .++..+  -
T Consensus       108 ~s-----L-------P~sLe~L~L~~n~~~~-------------L~~LP--ssLk~L~I~~~n~~~~~---~lp~~L--P  155 (426)
T PRK15386        108 SG-----L-------PESVRSLEIKGSATDS-------------IKNVP--NGLTSLSINSYNPENQA---RIDNLI--S  155 (426)
T ss_pred             cc-----c-------ccccceEEeCCCCCcc-------------cccCc--chHhheecccccccccc---cccccc--C
Confidence            31     1       2568888887665432             12222  567777775433 1110   011111  1


Q ss_pred             CCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          381 PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       381 ~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      ++|++|++++|....      +|   ..+.  .+|+.|.++.|.
T Consensus       156 sSLk~L~Is~c~~i~------LP---~~LP--~SLk~L~ls~n~  188 (426)
T PRK15386        156 PSLKTLSLTGCSNII------LP---EKLP--ESLQSITLHIEQ  188 (426)
T ss_pred             CcccEEEecCCCccc------Cc---cccc--ccCcEEEecccc
Confidence            478899998887442      33   2222  688888887763

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

Probab=97.39  E-value=0.00017  Score=62.13  Aligned_cols=40  Identities=33%  Similarity=0.502  Sum_probs=17.9

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      ++|+.|.|.+|+|..-|  .+ .-+..|++|+.|.+-+|++++
T Consensus        88 p~l~~L~LtnNsi~~l~--dl-~pLa~~p~L~~Ltll~Npv~~  127 (233)
T KOG1644|consen   88 PNLKTLILTNNSIQELG--DL-DPLASCPKLEYLTLLGNPVEH  127 (233)
T ss_pred             cccceEEecCcchhhhh--hc-chhccCCccceeeecCCchhc
Confidence            34555555555444311  01 123445555555555555444

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

Probab=97.22  E-value=0.0001  Score=66.07  Aligned_cols=68  Identities=28%  Similarity=0.419  Sum_probs=42.9

Q ss_pred             CCCCCCccEEEccCC--CCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          349 GKSLQSLRLLNLRGN--NLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       349 ~~~l~~L~~L~L~~n--~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      +..+++|+.|.++.|  ++..    .+......+++|+++++++|+|.+      +..+ .-+..+.+|..|++.+|..+
T Consensus        61 ~P~Lp~LkkL~lsdn~~~~~~----~l~vl~e~~P~l~~l~ls~Nki~~------lstl-~pl~~l~nL~~Ldl~n~~~~  129 (260)
T KOG2739|consen   61 FPKLPKLKKLELSDNYRRVSG----GLEVLAEKAPNLKVLNLSGNKIKD------LSTL-RPLKELENLKSLDLFNCSVT  129 (260)
T ss_pred             CCCcchhhhhcccCCcccccc----cceehhhhCCceeEEeecCCcccc------cccc-chhhhhcchhhhhcccCCcc
Confidence            335577888888888  4432    244444556888888888888775      2221 23344567778888888654


Q ss_pred             h
Q 012512          427 G  427 (462)
Q Consensus       427 ~  427 (462)
                      .
T Consensus       130 ~  130 (260)
T KOG2739|consen  130 N  130 (260)
T ss_pred             c
Confidence            4

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

Probab=97.14  E-value=0.00053  Score=59.18  Aligned_cols=127  Identities=21%  Similarity=0.272  Sum_probs=86.7

Q ss_pred             CEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHH
Q 012512          292 CSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADAR  371 (462)
Q Consensus       292 ~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~  371 (462)
                      +.++|.+.++....-  +    .....+...+||++|.+..             +..+.++..|.+|.|.+|+|++    
T Consensus        22 ~e~~LR~lkip~ien--l----g~~~d~~d~iDLtdNdl~~-------------l~~lp~l~rL~tLll~nNrIt~----   78 (233)
T KOG1644|consen   22 RELDLRGLKIPVIEN--L----GATLDQFDAIDLTDNDLRK-------------LDNLPHLPRLHTLLLNNNRITR----   78 (233)
T ss_pred             cccccccccccchhh--c----cccccccceecccccchhh-------------cccCCCccccceEEecCCccee----
Confidence            456666666544221  1    2234678899999998763             3444577899999999999996    


Q ss_pred             HHHHHhh-cCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEcc
Q 012512          372 DLGSALV-HIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIA  450 (462)
Q Consensus       372 ~l~~~l~-~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls  450 (462)
                       +.+.+. -+++|..|.|.+|.|..      +..+ .-+..+++|+.|.+-+|+++...-... -.+..+ ++|++||++
T Consensus        79 -I~p~L~~~~p~l~~L~LtnNsi~~------l~dl-~pLa~~p~L~~Ltll~Npv~~k~~YR~-yvl~kl-p~l~~LDF~  148 (233)
T KOG1644|consen   79 -IDPDLDTFLPNLKTLILTNNSIQE------LGDL-DPLASCPKLEYLTLLGNPVEHKKNYRL-YVLYKL-PSLRTLDFQ  148 (233)
T ss_pred             -eccchhhhccccceEEecCcchhh------hhhc-chhccCCccceeeecCCchhcccCcee-EEEEec-CcceEeehh
Confidence             555444 35679999999999765      2222 446677999999999999877322211 134453 459999976


Q ss_pred             C
Q 012512          451 D  451 (462)
Q Consensus       451 ~  451 (462)
                      .
T Consensus       149 k  149 (233)
T KOG1644|consen  149 K  149 (233)
T ss_pred             h
Confidence            4

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.09  E-value=0.00038  Score=75.16  Aligned_cols=154  Identities=20%  Similarity=0.122  Sum_probs=94.3

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCC--CChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK--LSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~--l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      ...+...+.+|.+.....      ...++.|++|-+..|.  +.......+..        ++.|..|++++|.-..   
T Consensus       523 ~~~rr~s~~~~~~~~~~~------~~~~~~L~tLll~~n~~~l~~is~~ff~~--------m~~LrVLDLs~~~~l~---  585 (889)
T KOG4658|consen  523 NSVRRMSLMNNKIEHIAG------SSENPKLRTLLLQRNSDWLLEISGEFFRS--------LPLLRVLDLSGNSSLS---  585 (889)
T ss_pred             hheeEEEEeccchhhccC------CCCCCccceEEEeecchhhhhcCHHHHhh--------CcceEEEECCCCCccC---
Confidence            345556665555433332      1245678888888775  33222222222        7888899998875444   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                           .+++.++.+-+|++|+++++.+.. .|..+     .++..|.+||+..+.-....+        ..+.   .+++
T Consensus       586 -----~LP~~I~~Li~LryL~L~~t~I~~-LP~~l-----~~Lk~L~~Lnl~~~~~l~~~~--------~i~~---~L~~  643 (889)
T KOG4658|consen  586 -----KLPSSIGELVHLRYLDLSDTGISH-LPSGL-----GNLKKLIYLNLEVTGRLESIP--------GILL---ELQS  643 (889)
T ss_pred             -----cCChHHhhhhhhhcccccCCCccc-cchHH-----HHHHhhheecccccccccccc--------chhh---hccc
Confidence                 588888888899999999888874 55555     335788889888876432111        2222   3578


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCC
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN  391 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N  391 (462)
                      |++|.+..-......  .....+..+.+|+.+.....
T Consensus       644 Lr~L~l~~s~~~~~~--~~l~el~~Le~L~~ls~~~~  678 (889)
T KOG4658|consen  644 LRVLRLPRSALSNDK--LLLKELENLEHLENLSITIS  678 (889)
T ss_pred             ccEEEeeccccccch--hhHHhhhcccchhhheeecc
Confidence            888888776522222  34444566666666665433

>PRK15386 type III secretion protein GogB; Provisional

Probab=96.94  E-value=0.00082  Score=65.39  Aligned_cols=143  Identities=19%  Similarity=0.188  Sum_probs=77.4

Q ss_pred             hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCC
Q 012512          190 TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSF  269 (462)
Q Consensus       190 ~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~  269 (462)
                      ...+..+.++..|++++|.+.... .+       -.+|++|.+++|.--...+..+          ..+|++|++++|..
T Consensus        45 ~~r~~~~~~l~~L~Is~c~L~sLP-~L-------P~sLtsL~Lsnc~nLtsLP~~L----------P~nLe~L~Ls~Cs~  106 (426)
T PRK15386         45 TPQIEEARASGRLYIKDCDIESLP-VL-------PNELTEITIENCNNLTTLPGSI----------PEGLEKLTVCHCPE  106 (426)
T ss_pred             HHHHHHhcCCCEEEeCCCCCcccC-CC-------CCCCcEEEccCCCCcccCCchh----------hhhhhheEccCccc
Confidence            344555677888888887554432 11       2468888888753322222222          24578888887742


Q ss_pred             CCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhC
Q 012512          270 IENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGA  348 (462)
Q Consensus       270 ~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~  348 (462)
                      ..        .++      ..|++|+++.+.+..  +..+       .++|+.|.+.++. ...       ..++..+. 
T Consensus       107 L~--------sLP------~sLe~L~L~~n~~~~--L~~L-------PssLk~L~I~~~n~~~~-------~~lp~~LP-  155 (426)
T PRK15386        107 IS--------GLP------ESVRSLEIKGSATDS--IKNV-------PNGLTSLSINSYNPENQ-------ARIDNLIS-  155 (426)
T ss_pred             cc--------ccc------cccceEEeCCCCCcc--cccC-------cchHhheeccccccccc-------cccccccC-
Confidence            22        121      367778877665443  1111       2467777775433 110       00111111 


Q ss_pred             CCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC
Q 012512          349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT  392 (462)
Q Consensus       349 ~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~  392 (462)
                          .+|++|++++|....     ++..+.  .+|+.|+++.|.
T Consensus       156 ----sSLk~L~Is~c~~i~-----LP~~LP--~SLk~L~ls~n~  188 (426)
T PRK15386        156 ----PSLKTLSLTGCSNII-----LPEKLP--ESLQSITLHIEQ  188 (426)
T ss_pred             ----CcccEEEecCCCccc-----Cccccc--ccCcEEEecccc
Confidence                678888888877552     333333  477888877663

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=96.84  E-value=0.0016  Score=37.54  Aligned_cols=21  Identities=43%  Similarity=0.740  Sum_probs=10.3

Q ss_pred             CCCEEeCCCCCCCchhHHhHH
Q 012512          382 NLEILDISDNTIEDDGIRSLI  402 (462)
Q Consensus       382 ~L~~L~Ls~N~l~~~g~~~l~  402 (462)
                      +|++|||++|.|+++|+++++
T Consensus         3 ~L~~LdL~~N~i~~~G~~~L~   23 (28)
T smart00368        3 SLRELDLSNNKLGDEGARALA   23 (28)
T ss_pred             ccCEEECCCCCCCHHHHHHHH
Confidence            444455555555554444444

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.75  E-value=0.00044  Score=59.70  Aligned_cols=83  Identities=19%  Similarity=0.230  Sum_probs=48.9

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCCCCCCccEEEccCC-CCC
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN-NLC  366 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n-~l~  366 (462)
                      ..++.+|-+++.|...|.+++     ..+..++.|.+.+|. +.++.    .    ..+....  ++|+.|++++| +||
T Consensus       101 ~~IeaVDAsds~I~~eGle~L-----~~l~~i~~l~l~~ck~~dD~~----L----~~l~~~~--~~L~~L~lsgC~rIT  165 (221)
T KOG3864|consen  101 VKIEAVDASDSSIMYEGLEHL-----RDLRSIKSLSLANCKYFDDWC----L----ERLGGLA--PSLQDLDLSGCPRIT  165 (221)
T ss_pred             ceEEEEecCCchHHHHHHHHH-----hccchhhhheeccccchhhHH----H----HHhcccc--cchheeeccCCCeec
Confidence            366777777777777777776     446777777777776 33321    1    2222222  56777777766 666


Q ss_pred             cchHHHHHHHhhcCCCCCEEeCCC
Q 012512          367 KADARDLGSALVHIPNLEILDISD  390 (462)
Q Consensus       367 ~~~~~~l~~~l~~~~~L~~L~Ls~  390 (462)
                      +.|+..    +.++++|+.|.|.+
T Consensus       166 ~~GL~~----L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  166 DGGLAC----LLKLKNLRRLHLYD  185 (221)
T ss_pred             hhHHHH----HHHhhhhHHHHhcC
Confidence            665443    34455666665544

>KOG4242 consensus Predicted myosin-I-binding protein [Cell motility]

Probab=96.74  E-value=0.0047  Score=59.99  Aligned_cols=173  Identities=15%  Similarity=-0.039  Sum_probs=80.5

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCCh-hHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSP-SFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~-~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      ..+.+++++.|................ -.++.++++...+.- .....+..      .+..+++..+++.|.....-..
T Consensus       214 ~~lteldls~n~~Kddip~~~n~~a~~-~vl~~ld~s~tgirlD~l~~~l~~------g~~tkl~~~kls~ng~s~skg~  286 (553)
T KOG4242|consen  214 LWLTELDLSTNGGKDDIPRTLNKKAGT-LVLFKLDRSTTGIRLDLLTSPLAA------GRTTKLTFGKLSRNGTSPSKGE  286 (553)
T ss_pred             ccccccccccCCCCccchhHHHHhhhh-hhhhcccccccccchhhccccccc------ccccccchhhhccCCCCccccc
Confidence            345666666665444433333222221 245555555544331 11111111      0134566666666655443333


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhC-CCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEA-SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~-~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                      .+.+...+.+..-.++ +|++..+....+-+..+.-.+-.+ .+.=-++|++.|...+.          ..+..+.+=..
T Consensus       287 Egg~~~k~~fS~~~sg-hln~~~~~~psE~lks~LLgla~ne~t~g~rldl~~cp~~~a----------~vleaci~g~R  355 (553)
T KOG4242|consen  287 EGGGAEKDTFSPDPSG-HLNSRPRYTPSEKLKSMLLGLAENEATLGARLDLRRCPLERA----------EVLEACIFGQR  355 (553)
T ss_pred             ccccccccccCcCccc-ccccccccCchhhhhhhhcccccccccccccCChhhcccccc----------chhhcccccee
Confidence            3334445555555566 777777766655555543332222 11123455555544431          12222222245


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCC
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDIS  389 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls  389 (462)
                      +++|....|++..+|....  .+.+.+.++.+++.
T Consensus       356 ~q~l~~rdnnldgeg~~vg--k~~~s~s~r~l~ag  388 (553)
T KOG4242|consen  356 VQVLLQRDNNLDGEGGAVG--KRKQSKSGRILKAG  388 (553)
T ss_pred             eeEeecccccccccccccc--ceeecccccccccc
Confidence            6777777777666554322  44444555555543

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

Probab=96.63  E-value=0.00086  Score=60.27  Aligned_cols=87  Identities=25%  Similarity=0.299  Sum_probs=49.0

Q ss_pred             cCCCCCCEEecCCC--CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCC
Q 012512          286 SSGRSLCSLKLRHC--HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN  363 (462)
Q Consensus       286 ~~l~~L~~L~Ls~n--~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n  363 (462)
                      ..+++|++|.+|.|  ++.. ++..++.    .+++|++|++++|++..          ...+...+.+.+|.+|++.+|
T Consensus        62 P~Lp~LkkL~lsdn~~~~~~-~l~vl~e----~~P~l~~l~ls~Nki~~----------lstl~pl~~l~nL~~Ldl~n~  126 (260)
T KOG2739|consen   62 PKLPKLKKLELSDNYRRVSG-GLEVLAE----KAPNLKVLNLSGNKIKD----------LSTLRPLKELENLKSLDLFNC  126 (260)
T ss_pred             CCcchhhhhcccCCcccccc-cceehhh----hCCceeEEeecCCcccc----------ccccchhhhhcchhhhhcccC
Confidence            34567788888887  4433 4444443    24778888888888774          122333334567778888887


Q ss_pred             CCCcchHHHHHHHhhcCCCCCEEeC
Q 012512          364 NLCKADARDLGSALVHIPNLEILDI  388 (462)
Q Consensus       364 ~l~~~~~~~l~~~l~~~~~L~~L~L  388 (462)
                      ..+.-. ..=-..+.-+++|+.||-
T Consensus       127 ~~~~l~-dyre~vf~ll~~L~~LD~  150 (260)
T KOG2739|consen  127 SVTNLD-DYREKVFLLLPSLKYLDG  150 (260)
T ss_pred             Cccccc-cHHHHHHHHhhhhccccc
Confidence            544200 011233445566666653

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.60  E-value=0.00023  Score=64.36  Aligned_cols=108  Identities=19%  Similarity=0.248  Sum_probs=80.9

Q ss_pred             hhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       314 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      +..+.+.+.|++++|.+++           ..+.  ..++.|+.|.|+-|+|+.     + ..+.+|+.|++|.|..|.|
T Consensus        15 ~sdl~~vkKLNcwg~~L~D-----------Isic--~kMp~lEVLsLSvNkIss-----L-~pl~rCtrLkElYLRkN~I   75 (388)
T KOG2123|consen   15 CSDLENVKKLNCWGCGLDD-----------ISIC--EKMPLLEVLSLSVNKISS-----L-APLQRCTRLKELYLRKNCI   75 (388)
T ss_pred             hhHHHHhhhhcccCCCccH-----------HHHH--HhcccceeEEeecccccc-----c-hhHHHHHHHHHHHHHhccc
Confidence            4556788999999999986           3333  266899999999999994     4 4478899999999999999


Q ss_pred             CchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh-HHHHHHHHhcCCCCCcEEE
Q 012512          394 EDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG-VSQLLDTLSTLRRPPTSLS  448 (462)
Q Consensus       394 ~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~-~~~l~~~l~~l~~~L~~L~  448 (462)
                      .+      +..+ .-+.++++|+.|-|..|.=...+ -..=..++..+ ++|+.||
T Consensus        76 ~s------ldEL-~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~L-PnLkKLD  123 (388)
T KOG2123|consen   76 ES------LDEL-EYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVL-PNLKKLD  123 (388)
T ss_pred             cc------HHHH-HHHhcCchhhhHhhccCCcccccchhHHHHHHHHc-ccchhcc
Confidence            98      4433 45677899999999999854433 33334455553 4488876

>smart00368 LRR_RI Leucine rich repeat, ribonuclease inhibitor type

Probab=96.50  E-value=0.0043  Score=35.68  Aligned_cols=26  Identities=35%  Similarity=0.451  Sum_probs=23.5

Q ss_pred             CCccEEEccCCCCChhhHHHHHHHHh
Q 012512          413 NPLVELYLENCELSGRGVSQLLDTLS  438 (462)
Q Consensus       413 ~~L~~L~L~~n~l~~~~~~~l~~~l~  438 (462)
                      ++|++|+|++|.|++.|+..+++++.
T Consensus         2 ~~L~~LdL~~N~i~~~G~~~L~~~L~   27 (28)
T smart00368        2 PSLRELDLSNNKLGDEGARALAEALK   27 (28)
T ss_pred             CccCEEECCCCCCCHHHHHHHHHHhc
Confidence            68999999999999999999998875

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.46  E-value=0.0012  Score=57.15  Aligned_cols=84  Identities=27%  Similarity=0.308  Sum_probs=48.4

Q ss_pred             CccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCC-CCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCch
Q 012512          319 SLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN-NLCKADARDLGSALVHIPNLEILDISDNT-IEDD  396 (462)
Q Consensus       319 ~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~  396 (462)
                      .++.+|-++..|..           .++.++..++.++.|.+.+| .+.|.+++.+..   -.++|+.|++++|+ |++.
T Consensus       102 ~IeaVDAsds~I~~-----------eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~---~~~~L~~L~lsgC~rIT~~  167 (221)
T KOG3864|consen  102 KIEAVDASDSSIMY-----------EGLEHLRDLRSIKSLSLANCKYFDDWCLERLGG---LAPSLQDLDLSGCPRITDG  167 (221)
T ss_pred             eEEEEecCCchHHH-----------HHHHHHhccchhhhheeccccchhhHHHHHhcc---cccchheeeccCCCeechh
Confidence            45666666666553           44455555666666666666 455555555444   34566677777665 6666


Q ss_pred             hHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          397 GIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       397 g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      |+..|.        ++++|+.|.+.+=+
T Consensus       168 GL~~L~--------~lknLr~L~l~~l~  187 (221)
T KOG3864|consen  168 GLACLL--------KLKNLRRLHLYDLP  187 (221)
T ss_pred             HHHHHH--------HhhhhHHHHhcCch
Confidence            655552        22566666655543

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=96.28  E-value=0.0023  Score=35.34  Aligned_cols=21  Identities=57%  Similarity=0.953  Sum_probs=10.4

Q ss_pred             CCCCEEeCCCCCCCchhHHhH
Q 012512          381 PNLEILDISDNTIEDDGIRSL  401 (462)
Q Consensus       381 ~~L~~L~Ls~N~l~~~g~~~l  401 (462)
                      ++|++|+|++|.|+++|++++
T Consensus         2 ~~L~~L~l~~n~i~~~g~~~l   22 (24)
T PF13516_consen    2 PNLETLDLSNNQITDEGASAL   22 (24)
T ss_dssp             TT-SEEE-TSSBEHHHHHHHH
T ss_pred             CCCCEEEccCCcCCHHHHHHh
Confidence            455555555555555555444

...

>PF13516 LRR_6: Leucine Rich repeat; PDB: 3RGZ_A 3RJ0_A 3RIZ_A 3RGX_A 1DFJ_I 2BNH_A 3VQ1_A 3VQ2_A 2Z64_A 2OMX_A

Probab=95.50  E-value=0.0091  Score=32.87  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=16.3

Q ss_pred             CCCccEEEccCCCCChhhHHHHH
Q 012512          412 CNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      +++|+.|++++|+|++.|+..++
T Consensus         1 ~~~L~~L~l~~n~i~~~g~~~l~   23 (24)
T PF13516_consen    1 NPNLETLDLSNNQITDEGASALA   23 (24)
T ss_dssp             -TT-SEEE-TSSBEHHHHHHHHH
T ss_pred             CCCCCEEEccCCcCCHHHHHHhC
Confidence            36788888888888888877765

...

>KOG4242 consensus Predicted myosin-I-binding protein [Cell motility]

Probab=95.49  E-value=0.011  Score=57.55  Aligned_cols=232  Identities=16%  Similarity=0.029  Sum_probs=125.3

Q ss_pred             CCcCEEEeccCCCh--HHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          197 SKLQSLVLRWIRFE--EHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       197 ~~L~~L~L~~~~~~--~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      .-+++++.+...+.  ..+..+   +...-..++..+++.|.....-.+......+..++.-.++ +|++..++.-.   
T Consensus       241 ~vl~~ld~s~tgirlD~l~~~l---~~g~~tkl~~~kls~ng~s~skg~Egg~~~k~~fS~~~sg-hln~~~~~~ps---  313 (553)
T KOG4242|consen  241 LVLFKLDRSTTGIRLDLLTSPL---AAGRTTKLTFGKLSRNGTSPSKGEEGGGAEKDTFSPDPSG-HLNSRPRYTPS---  313 (553)
T ss_pred             hhhhcccccccccchhhccccc---ccccccccchhhhccCCCCcccccccccccccccCcCccc-ccccccccCch---
Confidence            45677777765532  222222   2333457888888888665433333333333333335566 77777766544   


Q ss_pred             chhHHHHHHhhcCC---C--CCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCC
Q 012512          275 SSVVVELVSFLSSG---R--SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG  349 (462)
Q Consensus       275 ~~~~~~l~~~l~~l---~--~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~  349 (462)
                          +.+..++-.+   .  .=-.+++..|...+..+..-    +.+-..+++|..+.|.+.+.+.        .. ...
T Consensus       314 ----E~lks~LLgla~ne~t~g~rldl~~cp~~~a~vlea----ci~g~R~q~l~~rdnnldgeg~--------~v-gk~  376 (553)
T KOG4242|consen  314 ----EKLKSMLLGLAENEATLGARLDLRRCPLERAEVLEA----CIFGQRVQVLLQRDNNLDGEGG--------AV-GKR  376 (553)
T ss_pred             ----hhhhhhhcccccccccccccCChhhccccccchhhc----cccceeeeEeeccccccccccc--------cc-cce
Confidence                2333333321   1  12346666666655333322    2223458888888888775332        11 111


Q ss_pred             CCCCCccEEEccCCC---CCcchHHHHHHHhhc--CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          350 KSLQSLRLLNLRGNN---LCKADARDLGSALVH--IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       350 ~~l~~L~~L~L~~n~---l~~~~~~~l~~~l~~--~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      ..-...+++++.+-.   +.+.+..+.+.+...  ..-+..++++.|.+... ....+    ..+..+..+.+|++++|.
T Consensus       377 ~~s~s~r~l~agrs~~kqvm~s~~~a~~v~k~~~~~g~l~el~ls~~~lka~-l~s~i----n~l~stqtl~kldisgn~  451 (553)
T KOG4242|consen  377 KQSKSGRILKAGRSGDKQVMDSSTEAPPVSKKSRTHGVLAELSLSPGPLKAG-LESAI----NKLLSTQTLAKLDISGNG  451 (553)
T ss_pred             eeccccccccccccCCceeccccccchhhhhhhcccccccCcccCCCccccc-HHHHH----HhhccCcccccccccCCC
Confidence            122556666665542   333333333333322  23467777777776643 22222    445556777777777777


Q ss_pred             CChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          425 LSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       425 l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      .++.|..-++.+++. +..++.+..+.|..++.+
T Consensus       452 mgd~gap~lpkalq~-n~rlr~ipds~n~p~~~g  484 (553)
T KOG4242|consen  452 MGDGGAPPLPKALQS-NCRLRPIPDSLNLPEDPG  484 (553)
T ss_pred             cccCCCCcCccccCC-CCccCCCCCCCCCccccc
Confidence            777777777777776 455777777777665543

>KOG3735 consensus Tropomodulin and leiomodulin [Cytoskeleton]

Probab=95.42  E-value=0.02  Score=53.45  Aligned_cols=115  Identities=19%  Similarity=0.139  Sum_probs=63.6

Q ss_pred             hhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC
Q 012512          314 LEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT  392 (462)
Q Consensus       314 ~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~  392 (462)
                      ..+-+.++..+++++. |..    .....+..++.   .-+..+...|.+-+..+...-++...+..|..|++|++.+|.
T Consensus       194 ~~nd~~l~evnlnn~~~ip~----e~lk~~~eal~---~nt~vk~Fsla~tr~~d~vA~a~a~ml~~n~sl~slnvesnF  266 (353)
T KOG3735|consen  194 KENDTGLTEVNLNNIRRIPI----ETLKQFSEALK---NNTHVKKFSLANTRSSDPVAFAIAEMLKENKSLTSLNVESNF  266 (353)
T ss_pred             hcCCCCceeeeccccccCCH----HHHHHHHHHHh---cCchhhhhhhhcccCCchhHHHHHHHHhhcchhhheeccccc
Confidence            3455677777777664 221    11111223333   224455566666666666666666667777777777777777


Q ss_pred             CCchhHHhHHHHHHhhcCCCCCccEEEccCCC--CChhhHHHHHHHHhc
Q 012512          393 IEDDGIRSLIPYFVQASERCNPLVELYLENCE--LSGRGVSQLLDTLST  439 (462)
Q Consensus       393 l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~--l~~~~~~~l~~~l~~  439 (462)
                      |+..|+-+++.    .+..+.+|..+...+-.  +....-..++..+..
T Consensus       267 Itg~gi~a~~~----al~~n~tl~el~~dnqrq~lg~~vemeia~~lee  311 (353)
T KOG3735|consen  267 ITGLGIMALLR----ALQSNKSLTELKNDNQRQVLGNAVEMEIALELEE  311 (353)
T ss_pred             cccHHHHHHHH----HHhccchhhHhhhhhHHhhcccHHHHHHHHHHHh
Confidence            77777766663    33444566655443321  333334445555555

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

Probab=93.86  E-value=0.069  Score=29.96  Aligned_cols=21  Identities=52%  Similarity=0.871  Sum_probs=10.3

Q ss_pred             CCCCEEeCCCCC-CCchhHHhH
Q 012512          381 PNLEILDISDNT-IEDDGIRSL  401 (462)
Q Consensus       381 ~~L~~L~Ls~N~-l~~~g~~~l  401 (462)
                      ++|++|+++++. |+|.|+.++
T Consensus         2 ~~L~~L~l~~C~~itD~gl~~l   23 (26)
T smart00367        2 PNLRELDLSGCTNITDEGLQAL   23 (26)
T ss_pred             CCCCEeCCCCCCCcCHHHHHHH
Confidence            445555555543 555554443

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

Probab=93.76  E-value=0.05  Score=30.52  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=18.8

Q ss_pred             CCCccEEEccCC-CCCcchHHHHH
Q 012512          352 LQSLRLLNLRGN-NLCKADARDLG  374 (462)
Q Consensus       352 l~~L~~L~L~~n-~l~~~~~~~l~  374 (462)
                      +++|+.|+|++| +|+|.|+..+.
T Consensus         1 c~~L~~L~l~~C~~itD~gl~~l~   24 (26)
T smart00367        1 CPNLRELDLSGCTNITDEGLQALA   24 (26)
T ss_pred             CCCCCEeCCCCCCCcCHHHHHHHh
Confidence            368999999999 69998887764

>KOG3735 consensus Tropomodulin and leiomodulin [Cytoskeleton]

Probab=92.97  E-value=0.19  Score=47.04  Aligned_cols=125  Identities=14%  Similarity=0.053  Sum_probs=87.7

Q ss_pred             CCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCC
Q 012512          287 SGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNL  365 (462)
Q Consensus       287 ~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l  365 (462)
                      +-+.++.++|+++ .|.......++.++..+ +..+...+.+.+..+    .....++..+.   -+.+|++|++++|.|
T Consensus       196 nd~~l~evnlnn~~~ip~e~lk~~~eal~~n-t~vk~Fsla~tr~~d----~vA~a~a~ml~---~n~sl~slnvesnFI  267 (353)
T KOG3735|consen  196 NDTGLTEVNLNNIRRIPIETLKQFSEALKNN-THVKKFSLANTRSSD----PVAFAIAEMLK---ENKSLTSLNVESNFI  267 (353)
T ss_pred             CCCCceeeeccccccCCHHHHHHHHHHHhcC-chhhhhhhhcccCCc----hhHHHHHHHHh---hcchhhheecccccc
Confidence            3468999999887 57887888888887665 788888888888774    33344445555   347999999999999


Q ss_pred             CcchHHHHHHHhhcCCCCCEEeCCCCC--CCchhHHhHHHHHHhhcCCCCCccEEEccCC
Q 012512          366 CKADARDLGSALVHIPNLEILDISDNT--IEDDGIRSLIPYFVQASERCNPLVELYLENC  423 (462)
Q Consensus       366 ~~~~~~~l~~~l~~~~~L~~L~Ls~N~--l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n  423 (462)
                      +..|+.++..++..+.+|.++.+.+-.  ++...-..++    ..+..+.+|-.+.+..-
T Consensus       268 tg~gi~a~~~al~~n~tl~el~~dnqrq~lg~~vemeia----~~leen~sllk~gy~fe  323 (353)
T KOG3735|consen  268 TGLGIMALLRALQSNKSLTELKNDNQRQVLGNAVEMEIA----LELEENASLLKFGYHFE  323 (353)
T ss_pred             ccHHHHHHHHHHhccchhhHhhhhhHHhhcccHHHHHHH----HHHHhcccccccccccC
Confidence            999999999999999999998664322  3322111111    34455556655554443

>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=91.93  E-value=0.056  Score=28.98  Aligned_cols=16  Identities=25%  Similarity=0.252  Sum_probs=11.3

Q ss_pred             CcEEEccCCCCCCcccc
Q 012512          444 PTSLSIADNNLGRFCAN  460 (462)
Q Consensus       444 L~~L~Ls~N~l~~~~~~  460 (462)
                      |++||+++|+|+ .+|.
T Consensus         2 L~~Ldls~n~l~-~ip~   17 (22)
T PF00560_consen    2 LEYLDLSGNNLT-SIPS   17 (22)
T ss_dssp             ESEEEETSSEES-EEGT
T ss_pred             ccEEECCCCcCE-eCCh
Confidence            677888888777 5553

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

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

Probab=89.73  E-value=0.26  Score=24.49  Aligned_cols=13  Identities=23%  Similarity=0.404  Sum_probs=6.8

Q ss_pred             CCcEEEccCCCCC
Q 012512          443 PPTSLSIADNNLG  455 (462)
Q Consensus       443 ~L~~L~Ls~N~l~  455 (462)
                      +|+.|++++|+|+
T Consensus         2 ~L~~L~l~~n~L~   14 (17)
T PF13504_consen    2 NLRTLDLSNNRLT   14 (17)
T ss_dssp             T-SEEEETSS--S
T ss_pred             ccCEEECCCCCCC
Confidence            3677777777764

...

>PF07525 SOCS_box: SOCS box; InterPro: IPR001496 The SOCS box was first identified in SH2-domain-containing proteins of the suppressor of cytokines signalling (SOCS) family [] but was later also found in: the WSB (WD-40-repeat-containing proteins with a SOCS box) family, the SSB (SPRY domain-containing proteins with a SOCS box) family, the ASB (ankyrin-repeat-containing proteins with a SOCS box) family, and ras and ras-like GTPases []

Probab=86.42  E-value=0.65  Score=29.13  Aligned_cols=16  Identities=50%  Similarity=0.771  Sum_probs=12.0

Q ss_pred             CccHHHHHHHHHHHHH
Q 012512            4 APSLISLAALAVKREL   19 (462)
Q Consensus         4 ~p~L~~l~~~~~~~~l   19 (462)
                      ||||++||..+|-+++
T Consensus         1 p~sLq~LCR~~Ir~~l   16 (40)
T PF07525_consen    1 PPSLQHLCRLAIRRSL   16 (40)
T ss_dssp             ---HHHHHHHHHHHHS
T ss_pred             CccHHHHHHHHHHHHh
Confidence            6899999999988886

The SOCS box found in these proteins is an about 50 amino acid carboxy-terminal domain composed of two blocks of well-conserved residues separated by between 2 and 10 non-conserved residues []. The C-terminal conserved region is an L/P-rich sequence of unknown function, whereas the N-terminal conserved region is a consensus BC box [], which binds to the Elongin BC complex [, ]. It has been proposed that this association could couple bound proteins to the ubiquitination or proteasomal compartments [].; GO: 0035556 intracellular signal transduction; PDB: 2XAI_A 2JZ3_A 2C9W_A 2FNJ_A 2IZV_A.

>cd03716 SOCS_ASB_like SOCS (suppressors of cytokine signaling) box of ASB (ankyrin repeat and SOCS box) and SSB (SPRY domain-containing SOCS box proteins) protein families

Probab=84.91  E-value=1.7  Score=27.62  Aligned_cols=20  Identities=35%  Similarity=0.298  Sum_probs=16.5

Q ss_pred             CCccHHHHHHHHHHHHHccC
Q 012512            3 KAPSLISLAALAVKRELLLG   22 (462)
Q Consensus         3 ~~p~L~~l~~~~~~~~l~~~   22 (462)
                      .|+||++||..+|-+.+-.+
T Consensus         2 ~P~sLq~LCR~~Ir~~lg~~   21 (42)
T cd03716           2 TPRSLQHLCRLAIRRCLGRR   21 (42)
T ss_pred             CCCCHHHHHHHHHHHHhCcc
Confidence            58999999999988887433

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence of a variable number of repeats. SSB proteins contain a central SPRY domain and a C-terminal SOCS. Recently, it has been shown that all four SSB proteins interact with the MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF), and that SSB-1, SSB-2, and SSB-4 interact with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain.

>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]

Probab=84.29  E-value=1.7  Score=43.76  Aligned_cols=15  Identities=47%  Similarity=0.487  Sum_probs=8.1

Q ss_pred             CCccEEEccCCCCCh
Q 012512          413 NPLVELYLENCELSG  427 (462)
Q Consensus       413 ~~L~~L~L~~n~l~~  427 (462)
                      ..|++|-+.||++..
T Consensus       270 l~Leel~l~GNPlc~  284 (585)
T KOG3763|consen  270 LPLEELVLEGNPLCT  284 (585)
T ss_pred             CCHHHeeecCCcccc
Confidence            345566666665433

>cd03717 SOCS_SOCS_like SOCS (suppressors of cytokine signaling) box of SOCS-like proteins

Probab=81.76  E-value=2.5  Score=26.34  Aligned_cols=17  Identities=18%  Similarity=0.245  Sum_probs=15.0

Q ss_pred             CCccHHHHHHHHHHHHH
Q 012512            3 KAPSLISLAALAVKREL   19 (462)
Q Consensus         3 ~~p~L~~l~~~~~~~~l   19 (462)
                      .||||++||..+|-+++
T Consensus         2 ~~~sLq~LCR~~Ir~~~   18 (39)
T cd03717           2 SVRSLQHLCRFVIRQCT   18 (39)
T ss_pred             CCCCHHHHHHHHHHHHc
Confidence            57999999999988776

The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain.

>cd03587 SOCS SOCS (suppressors of cytokine signaling) box

Probab=80.25  E-value=3  Score=26.23  Aligned_cols=18  Identities=39%  Similarity=0.403  Sum_probs=15.3

Q ss_pred             CCccHHHHHHHHHHHHHc
Q 012512            3 KAPSLISLAALAVKRELL   20 (462)
Q Consensus         3 ~~p~L~~l~~~~~~~~l~   20 (462)
                      .||||++||..+|-+.+-
T Consensus         1 ~p~sLq~LCR~~Ir~~lg   18 (41)
T cd03587           1 NPRSLQHLCRLAIRRCLG   18 (41)
T ss_pred             CCcCHHHHHHHHHHHHHC
Confidence            379999999999888863

The SOCS box is found in the C-terminal region of CIS/SOCS family proteins (in combination with a SH2 domain), ASBs (ankyrin repeat-containing proteins with a SOCS box), SSBs (SPRY domain-containing proteins with a SOCS box), and WSBs (WD40 repeat-containing proteins with a SOCS box), as well as, other miscellaneous proteins. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

---

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	462
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	1e-22
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	7e-18
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	2e-17
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	6e-17
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-21
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	3e-20
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	7e-20
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	9e-18
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-14
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	1e-09
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-20
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-16
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	3e-11
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	3e-08
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	1e-18
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	1e-12
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	2e-10
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	4e-05
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	6e-12
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	1e-09
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	1e-09
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	2e-08
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	2e-06
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	1e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	5e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-05
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-04
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-05
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	6e-06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	6e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	9e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	8e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	4e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	5e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	4e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	5e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	4e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	6e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-04

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 97.5 bits (243), Expect = 1e-22
 Identities = 54/289 (18%), Positives = 94/289 (32%), Gaps = 35/289 (12%)

Query: 181 LQNALCVEETCQLLRE-----SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLH 234
           +   L +      + E       + SL L            L +       ++ SL    
Sbjct: 1   MNYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSG 60

Query: 235 CKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSV-VVELVSFLSSG-RSLC 292
             L     + + + L +    +  + NLS        N  S     ELV  L++   ++ 
Sbjct: 61  NSLGFKNSDELVQILAAIPANVTSL-NLS-------GNFLSYKSSDELVKTLAAIPFTIT 112

Query: 293 SLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL 352
            L L               +     +S++ L+L GN +G       +S            
Sbjct: 113 VLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLG------IKSSDELIQILAAIP 166

Query: 353 QSLRLLNLRGNNLCKADARDLGSALVHIP-NLEILDISDNTIEDDGIRSLIPYFVQASER 411
            ++  LNLRGNNL   +  +L   L  IP ++  LD+S N +       L          
Sbjct: 167 ANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAEL----AYIFSS 222

Query: 412 CNP-LVELYLENCELSGRGVSQL---LDTLSTLRRPPTSLSIADNNLGR 456
               +V L L    L G  +  L    D+L  L     ++ +  + +  
Sbjct: 223 IPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHL----QTVYLDYDIVKN 267

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 84.0 bits (208), Expect = 7e-18
 Identities = 39/181 (21%), Positives = 67/181 (37%), Gaps = 12/181 (6%)

Query: 281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRS 340
           +  F S    + SL L   +L       +  +     +S++ L+LSGNS+G       ++
Sbjct: 14  VEEFTSIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLG------FKN 67

Query: 341 GPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIP-NLEILDISDNTIEDDGIR 399
                        ++  LNL GN L    + +L   L  IP  + +LD+  N        
Sbjct: 68  SDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSS 127

Query: 400 SLIPYFVQASERCNP-LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC 458
                  QA       +  L L   +L  +   +L+  L+ +     SL++  NNL    
Sbjct: 128 EFK----QAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKN 183

Query: 459 A 459
            
Sbjct: 184 C 184

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 82.4 bits (204), Expect = 2e-17
 Identities = 42/266 (15%), Positives = 76/266 (28%), Gaps = 26/266 (9%)

Query: 197 SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
             +  L L W  F  +      +       ++ SL      L     + + + L +    
Sbjct: 109 FTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPAN 168

Query: 256 IHKIENLSIDISSFIENCP--SSVVVELVSFLSSG-RSLCSLKLRHCHLDRDFGRMVFSS 312
           ++ + NL              S    EL  FL+S   S+ SL L    L       +   
Sbjct: 169 VNSL-NLR--------GNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYI 219

Query: 313 LLEASSSLSILDLSGNSIGGWLSKYDRSGPLFS--LGAGKSLQSLRLLNLRGNNLCKADA 370
                + +  L+L  N +         S         + K LQ++ L      N+ K   
Sbjct: 220 FSSIPNHVVSLNLCLNCLH------GPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQC 273

Query: 371 RDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE-LYLENCELSGRG 429
           + LG+A  +I  + ++D +   I       +           +   +   L N  L    
Sbjct: 274 KALGAAFPNIQKIILVDKNGKEIHPSHSIPIS----NLIRELSGKADVPSLLNQCLIFAQ 329

Query: 430 VSQLLDTLSTLRRPPTSLSIADNNLG 455
             Q       +             L 
Sbjct: 330 KHQTNIEDLNIPDELRESIQTCKPLL 355

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 80.9 bits (200), Expect = 6e-17
 Identities = 37/164 (22%), Positives = 61/164 (37%), Gaps = 12/164 (7%)

Query: 298 HCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL 357
           +  L    G             ++ LDLS N++         S          +  S+  
Sbjct: 2   NYKLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLY------SISTVELIQAFANTPASVTS 55

Query: 358 LNLRGNNLCKADARDLGSALVHIP-NLEILDISDNTIEDDGIRSLIPYFVQASERCN-PL 415
           LNL GN+L   ++ +L   L  IP N+  L++S N +       L    V+        +
Sbjct: 56  LNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDEL----VKTLAAIPFTI 111

Query: 416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
             L L   + S +  S+     S L    TSL++  N+LG   +
Sbjct: 112 TVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSS 155

>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 Length = 461

 Score = 95.8 bits (239), Expect = 2e-21
 Identities = 59/262 (22%), Positives = 95/262 (36%), Gaps = 27/262 (10%)

Query: 197 SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
             +QSL ++     +     L  LL    +    +    C L+ +  + I  +L      
Sbjct: 3   LDIQSLDIQCEELSDARWAELLPLL----QQCQVVRLDDCGLTEARCKDISSALRVNPA- 57

Query: 256 IHKIENLSIDISSFIENCPSSVVVELVS--FLSSGRSLCSLKLRHCHLDRDFGRMVFSSL 313
              +  L++       N    V V  V     +    +  L L++C L    G  V SS 
Sbjct: 58  ---LAELNLR-----SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLT-GAGCGVLSST 108

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L    +L  L LS N +G      D    L   G       L  L L   +L  A    L
Sbjct: 109 LRTLPTLQELHLSDNLLG------DAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPL 162

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
            S L   P+ + L +S+N I + G+R L      +  +   L  L LE+C ++      L
Sbjct: 163 ASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQ---LEALKLESCGVTSDNCRDL 219

Query: 434 LDTLSTLRRPPTSLSIADNNLG 455
              +++       L++  N LG
Sbjct: 220 CGIVASKAS-LRELALGSNKLG 240

>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 Length = 461

 Score = 91.9 bits (229), Expect = 3e-20
 Identities = 56/273 (20%), Positives = 86/273 (31%), Gaps = 23/273 (8%)

Query: 191 CQLLRES--KLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR 247
            Q L+    K+Q L L+           L   L     TL  L      L  + ++ +C 
Sbjct: 77  LQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLP-TLQELHLSDNLLGDAGLQLLCE 135

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR 307
            L   +    ++E L ++  S            L S L +      L + +  ++    R
Sbjct: 136 GLLDPQC---RLEKLQLEYCSLSAAS----CEPLASVLRAKPDFKELTVSNNDINEAGVR 188

Query: 308 MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK 367
           ++   L ++   L  L L    +         +          S  SLR L L  N L  
Sbjct: 189 VLCQGLKDSPCQLEALKLESCGVT------SDNCRDLCG-IVASKASLRELALGSNKLGD 241

Query: 368 ADARDLGSALVHI-PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS 426
               +L   L+H    L  L I +  I   G   L     +       L EL L   EL 
Sbjct: 242 VGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDL----CRVLRAKESLKELSLAGNELG 297

Query: 427 GRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
             G   L +TL        SL +   +    C 
Sbjct: 298 DEGARLLCETLLEPGCQLESLWVKSCSFTAACC 330

>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 Length = 461

 Score = 90.8 bits (226), Expect = 7e-20
 Identities = 53/231 (22%), Positives = 87/231 (37%), Gaps = 23/231 (9%)

Query: 211 EHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFI 270
             +  LC  L+  S  L +L    C ++      +CR L +K      ++ LS+      
Sbjct: 242 VGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKES----LKELSLA----- 292

Query: 271 ENCPSSVVVELVS--FLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGN 328
            N        L+    L  G  L SL ++ C          FSS+L  +  L  L +S N
Sbjct: 293 GNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAA-CCSHFSSVLAQNRFLLELQISNN 351

Query: 329 SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDI 388
            +       D        G G+    LR+L L   ++  +    L + L+   +L  LD+
Sbjct: 352 RLE------DAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDL 405

Query: 389 SDNTIEDDGIRSLIPYFVQASERCNP-LVELYLENCELSGRGVSQLLDTLS 438
           S+N + D GI  L    V++  +    L +L L +   S     +L     
Sbjct: 406 SNNCLGDAGILQL----VESVRQPGCLLEQLVLYDIYWSEEMEDRLQALEK 452

>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 Length = 461

 Score = 84.2 bits (209), Expect = 9e-18
 Identities = 58/274 (21%), Positives = 98/274 (35%), Gaps = 25/274 (9%)

Query: 191 CQLLRES--KLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR 247
           CQ L++S  +L++L L       ++ + LC ++   + +L  L     KL    +  +C 
Sbjct: 191 CQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKA-SLRELALGSNKLGDVGMAELCP 249

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSV-VVELVSFLSSGRSLCSLKLRHCHLDRDFG 306
            L     R+  +  +        E   ++    +L   L +  SL  L L    L  +  
Sbjct: 250 GLLHPSSRLRTL-WIW-------ECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGA 301

Query: 307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC 366
           R++  +LLE    L  L +   S              FS       + L  L +  N L 
Sbjct: 302 RLLCETLLEPGCQLESLWVKSCSFT------AACCSHFSS-VLAQNRFLLELQISNNRLE 354

Query: 367 KADARDLGSALVHI-PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCEL 425
            A  R+L   L      L +L ++D  + D    SL           + L EL L N  L
Sbjct: 355 DAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSL----AATLLANHSLRELDLSNNCL 410

Query: 426 SGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA 459
              G+ QL++++         L + D        
Sbjct: 411 GDAGILQLVESVRQPGCLLEQLVLYDIYWSEEME 444

>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 Length = 461

 Score = 74.6 bits (184), Expect = 1e-14
 Identities = 38/144 (26%), Positives = 60/144 (41%), Gaps = 24/144 (16%)

Query: 317 SSSLSILDLSGNSIG--GWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLG 374
           S  +  LD+    +    W                  LQ  +++ L    L +A  +D+ 
Sbjct: 2   SLDIQSLDIQCEELSDARWAE------------LLPLLQQCQVVRLDDCGLTEARCKDIS 49

Query: 375 SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL- 433
           SAL   P L  L++  N + D G+  ++      +  C  + +L L+NC L+G G   L 
Sbjct: 50  SALRVNPALAELNLRSNELGDVGVHCVLQGL--QTPSCK-IQKLSLQNCCLTGAGCGVLS 106

Query: 434 --LDTLSTLRRPPTSLSIADNNLG 455
             L TL TL      L ++DN LG
Sbjct: 107 STLRTLPTL----QELHLSDNLLG 126

>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 Length = 461

 Score = 59.2 bits (144), Expect = 1e-09
 Identities = 38/214 (17%), Positives = 69/214 (32%), Gaps = 33/214 (15%)

Query: 197 SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
           S+L++L +       +    LC++L     +L  L     +L       +C +L     +
Sbjct: 256 SRLRTLWIWECGITAKGCGDLCRVLRAKE-SLKELSLAGNELGDEGARLLCETLLEPGCQ 314

Query: 256 IHKIENLS---------IDISSFIENCPSSVVVEL---------VSFLSSG-----RSLC 292
           +  +  +             SS +      + +++         V  L  G       L 
Sbjct: 315 LESL-WVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLR 373

Query: 293 SLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL 352
            L L  C +  D      ++ L A+ SL  LDLS N +G      D           +  
Sbjct: 374 VLWLADCDV-SDSSCSSLAATLLANHSLRELDLSNNCLG------DAGILQLVESVRQPG 426

Query: 353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEIL 386
             L  L L      +     L +     P+L ++
Sbjct: 427 CLLEQLVLYDIYWSEEMEDRLQALEKDKPSLRVI 460

>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 Length = 386

 Score = 92.1 bits (229), Expect = 1e-20
 Identities = 48/267 (17%), Positives = 81/267 (30%), Gaps = 44/267 (16%)

Query: 193 LLRESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCS 251
           LL+  KL ++ L    F     + L   L +++  L  L   +  L P     I R+L  
Sbjct: 90  LLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHT-PLEHLYLHNNGLGPQAGAKIARALQE 148

Query: 252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFS 311
                                                  L S+      L+ +     ++
Sbjct: 149 LAVNKKAKNA---------------------------PPLRSIICGRNRLE-NGSMKEWA 180

Query: 312 SLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG-KSLQSLRLLNLRGNNLCKADA 370
              ++   L  + +  N I          G    L  G    Q L++L+L+ N      +
Sbjct: 181 KTFQSHRLLHTVKMVQNGIRP-------EGIEHLLLEGLAYCQELKVLDLQDNTFTHLGS 233

Query: 371 RDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP--LVELYLENCELSGR 428
             L  AL   PNL  L ++D  +   G  ++    V A  +     L  L L+  E+   
Sbjct: 234 SALAIALKSWPNLRELGLNDCLLSARGAAAV----VDAFSKLENIGLQTLRLQYNEIELD 289

Query: 429 GVSQLLDTLSTLRRPPTSLSIADNNLG 455
            V  L   +         L +  N   
Sbjct: 290 AVRTLKTVIDEKMPDLLFLELNGNRFS 316

>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 Length = 386

 Score = 80.1 bits (198), Expect = 1e-16
 Identities = 24/186 (12%), Positives = 50/186 (26%), Gaps = 14/186 (7%)

Query: 278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY 337
              + + L    S+  + L    +         S  + +   L I + S    G    + 
Sbjct: 21  EKSVFAVLLEDDSVKEIVLSGNTIG-TEAARWLSENIASKKDLEIAEFSDIFTGRVKDEI 79

Query: 338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDG 397
             +  L    A      L  + L  N         L   L     LE L + +N +    
Sbjct: 80  PEALRLLL-QALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQA 138

Query: 398 IRSL-----IPYFVQASERCNPLVELYLENCELSGRGVSQL---LDTLSTLRRPPTSLSI 449
              +          + ++   PL  +      L    + +      +   L     ++ +
Sbjct: 139 GAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLL----HTVKM 194

Query: 450 ADNNLG 455
             N + 
Sbjct: 195 VQNGIR 200

>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 Length = 386

 Score = 63.6 bits (155), Expect = 3e-11
 Identities = 32/145 (22%), Positives = 50/145 (34%), Gaps = 16/145 (11%)

Query: 316 ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS 375
           A  S+    L  ++I                       S++ + L GN +    AR L  
Sbjct: 2   ARFSIEGKSLKLDAITT-------EDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSE 54

Query: 376 ALVHIPNLEILDISDNTIED--DGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
            +    +LEI + SD       D I   +   +QA  +C  L  + L +          L
Sbjct: 55  NIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPL 114

Query: 434 LDTLS---TLRRPPTSLSIADNNLG 455
           +D LS    L      L + +N LG
Sbjct: 115 IDFLSKHTPL----EHLYLHNNGLG 135

>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 Length = 386

 Score = 54.3 bits (131), Expect = 3e-08
 Identities = 36/205 (17%), Positives = 64/205 (31%), Gaps = 20/205 (9%)

Query: 197 SKLQSLVLRWIRFE-EHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
             L+S++    R E   ++   K    +   L +++ +   + P   EGI   L      
Sbjct: 159 PPLRSIICGRNRLENGSMKEWAKTFQSHR-LLHTVKMVQNGIRP---EGIEHLLLEGLAY 214

Query: 256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLE 315
             +++ L +  ++F           L   L S  +L  L L  C L    G         
Sbjct: 215 CQELKVLDLQDNTFTHLG----SSALAIALKSWPNLRELGLNDCLL-SARGAAAVVDAFS 269

Query: 316 --ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADA--R 371
              +  L  L L  N I         +         + +  L  L L GN   + D    
Sbjct: 270 KLENIGLQTLRLQYNEIE------LDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDDVVD 323

Query: 372 DLGSALVHIPNLEILDISDNTIEDD 396
           ++          E+ ++ D     D
Sbjct: 324 EIREVFSTRGRGELDELDDMEELTD 348

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 86.3 bits (214), Expect = 1e-18
 Identities = 47/248 (18%), Positives = 83/248 (33%), Gaps = 24/248 (9%)

Query: 197 SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
           S L+ L L  +R        +  +L      L  +    C+L P+ +  +       RK 
Sbjct: 72  SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARK- 130

Query: 256 IHKIENLSIDISSFIENCPSSVVVELVS--FLSSGRSLCSLKLRHCHLDRDFGRMVFSSL 313
                   + +     N       + +    L     + +L+L +  L    G  V    
Sbjct: 131 --------LGLQ---LNSLGPEACKDLRDLLLHDQCQITTLRLSNNPL-TAAGVAVLMEG 178

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L  ++S++ L L    +G      D    L +       + L+ LN+  N      A  L
Sbjct: 179 LAGNTSVTHLSLLHTGLG------DEGLELLAA-QLDRNRQLQELNVAYNGAGDTAALAL 231

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
             A    P+LE+L +  N +  +G + L      A+E    +V    E   +S      L
Sbjct: 232 ARAAREHPSLELLHLYFNELSSEGRQVLRDLG-GAAEGGARVVVSLTEGTAVSEYWSVIL 290

Query: 434 LDTLSTLR 441
            +    L 
Sbjct: 291 SEVQRNLN 298

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 68.2 bits (167), Expect = 1e-12
 Identities = 35/178 (19%), Positives = 59/178 (33%), Gaps = 28/178 (15%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL  L L    +      +V + L     +L  ++L+   +                G 
Sbjct: 72  SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLD-------------PAGL 118

Query: 349 ---GKSLQSLRLLNLRGNNLCKADARDLGSALVH-IPNLEILDISDNTIEDDGIRSLIPY 404
                     R L L+ N+L     +DL   L+H    +  L +S+N +   G+  L   
Sbjct: 119 RTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVL--- 175

Query: 405 FVQASERCNPLVELYLENCELSGRGVSQLLDTL---STLRRPPTSLSIADNNLGRFCA 459
            ++       +  L L +  L   G+  L   L     L      L++A N  G   A
Sbjct: 176 -MEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQL----QELNVAYNGAGDTAA 228

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 60.9 bits (148), Expect = 2e-10
 Identities = 36/221 (16%), Positives = 67/221 (30%), Gaps = 20/221 (9%)

Query: 191 CQLLRE--SKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR 247
             LL     ++ +L L         V  L + L  N+ ++  L  LH  L    +E +  
Sbjct: 147 RDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNT-SVTHLSLLHTGLGDEGLELLAA 205

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR 307
            L   R+    ++ L++  +   +       + L        SL  L L    L    GR
Sbjct: 206 QLDRNRQ----LQELNVAYNGAGDTA----ALALARAAREHPSLELLHLYFNELS-SEGR 256

Query: 308 MVFSSLLEASSS---LSILDLSGNSIG----GWLSKYDRSGPLFSLGAGKSLQSLRLLNL 360
            V   L  A+     + +    G ++       LS+  R+   +     +    L L +L
Sbjct: 257 QVLRDLGGAAEGGARVVVSLTEGTAVSEYWSVILSEVQRNLNSWDRARVQRHLELLLRDL 316

Query: 361 RGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSL 401
             +     +       L     +  L     +         
Sbjct: 317 EDSRGATLNPWRKAQLLRVEGEVRALLEQLGSSGSPSGSWS 357

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens} Length = 372

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 23/196 (11%), Positives = 50/196 (25%), Gaps = 32/196 (16%)

Query: 197 SKLQSLVLRWIRF-EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
           + +  L L      +E ++ L   L +N   L  L   +     +    + R+       
Sbjct: 183 TSVTHLSLLHTGLGDEGLELLAAQLDRNR-QLQELNVAYNGAGDTAALALARAAREHPS- 240

Query: 256 IHKIENLSIDISSFIENCPSSV-VVELVSFLSSGRSLCSLKLR--HCHLDRDFGRMVFSS 312
              +E L +       N  SS     L     +      + +         ++  ++ S 
Sbjct: 241 ---LELLHLY-----FNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAVSEYWSVILSE 292

Query: 313 LLEASSS-----------LSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLR 361
           +    +S           L + DL  +             P       +    +R L  +
Sbjct: 293 VQRNLNSWDRARVQRHLELLLRDLEDSRGATL-------NPWRKAQLLRVEGEVRALLEQ 345

Query: 362 GNNLCKADARDLGSAL 377
             +             
Sbjct: 346 LGSSGSPSGSWSHPQF 361

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 65.7 bits (159), Expect = 6e-12
 Identities = 25/147 (17%), Positives = 48/147 (32%), Gaps = 10/147 (6%)

Query: 291 LCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGK 350
           L SL++    L       +  S L     L +     +                 L +  
Sbjct: 195 LKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFD-----GDMNVFRPLFSKD 249

Query: 351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE 410
              +L+ L +               + + +P LE +DIS   + D+G R L+       +
Sbjct: 250 RFPNLKWLGIVDAEEQNVVVEMFLESDI-LPQLETMDISAGVLTDEGARLLL----DHVD 304

Query: 411 RCNPLVELYLENCELSGRGVSQLLDTL 437
           +   L  + ++   LS     +L  +L
Sbjct: 305 KIKHLKFINMKYNYLSDEMKKELQKSL 331

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 58.8 bits (141), Expect = 1e-09
 Identities = 33/183 (18%), Positives = 62/183 (33%), Gaps = 23/183 (12%)

Query: 219 LLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVV 278
           +  +    L SLE +   L  S VE I  S     +++     L + +  +  +     +
Sbjct: 187 IGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKL----VLYVGVEDYGFDGD---M 239

Query: 279 VELVSFLSSGR--SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK 336
                  S  R  +L  L +           M   S +     L  +D+S   +      
Sbjct: 240 NVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDI--LPQLETMDISAGVLTD---- 293

Query: 337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDD 396
               G    L     ++ L+ +N++ N L     ++L  +L        +D+SD+   DD
Sbjct: 294 ---EGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSLPM-----KIDVSDSQEYDD 345

Query: 397 GIR 399
              
Sbjct: 346 DYS 348

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1 Length = 185

 Score = 56.5 bits (137), Expect = 1e-09
 Identities = 27/149 (18%), Positives = 52/149 (34%), Gaps = 21/149 (14%)

Query: 313 LLEASSSLSILDLSG-NSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADAR 371
           +      L  ++L+   +I         +    +  A K+   ++  ++ G       A 
Sbjct: 31  IQNNDPDLEEVNLNNIMNIP------VPTLKACA-EALKTNTYVKKFSIVGTRSNDPVAF 83

Query: 372 DLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENC--ELSGRG 429
            L   L     L+ L++  N I   GI +L    V+A +    L+EL ++N    L    
Sbjct: 84  ALAEMLKVNNTLKSLNVESNFISGSGILAL----VEALQSNTSLIELRIDNQSQPLGNNV 139

Query: 430 VSQLLDTL---STLRRPPTSLSIADNNLG 455
             ++ + L   +TL              G
Sbjct: 140 EMEIANMLEKNTTL----LKFGYHFTQQG 164

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1 Length = 185

 Score = 56.2 bits (136), Expect = 2e-09
 Identities = 24/162 (14%), Positives = 52/162 (32%), Gaps = 16/162 (9%)

Query: 285 LSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLF 344
            ++   L  + L +            +  L+ ++ +    + G          D     F
Sbjct: 32  QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSN------DPVA--F 83

Query: 345 SLGAG-KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN--TIEDDGIRSL 401
           +L    K   +L+ LN+  N +  +    L  AL    +L  L I +    + ++    +
Sbjct: 84  ALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEI 143

Query: 402 IPYFVQASERCNPLVELYLENCELSGRG-VSQLLDTLSTLRR 442
                   E+   L++      +   R   S  +   + L R
Sbjct: 144 A----NMLEKNTTLLKFGYHFTQQGPRLRASNAMMNNNDLVR 181

>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 = 58.4 bits (142), Expect = 3e-09
 Identities = 53/192 (27%), Positives = 80/192 (41%), Gaps = 33/192 (17%)

Query: 263 SIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSI 322
           SID+SS      +     + S L S   L SL L + H++         S  + S+SL+ 
Sbjct: 54  SIDLSS---KPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSV------SGFKCSASLTS 104

Query: 323 LDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN 382
           LDLS NS+ G ++       L SLG   S   L+ LN+  N L   D     S  + + +
Sbjct: 105 LDLSRNSLSGPVT------TLTSLG---SCSGLKFLNVSSNTL---DFPGKVSGGLKLNS 152

Query: 383 LEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRR 442
           LE+LD+S N+I               S+ C  L  L +   ++SG      +     L  
Sbjct: 153 LEVLDLSANSIS-----GANVVGWVLSDGCGELKHLAISGNKISG---DVDVSRCVNLE- 203

Query: 443 PPTSLSIADNNL 454
               L ++ NN 
Sbjct: 204 ---FLDVSSNNF 212

>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 = 5e-06
 Identities = 54/248 (21%), Positives = 85/248 (34%), Gaps = 51/248 (20%)

Query: 224 SETLASLEFL---HCKLS---PSFVEGICRSLCSKRKRIHKIEN-LSIDISSFIENCPSS 276
              L SL++L     K +   P F+ G C +L      +    N     +  F  +C   
Sbjct: 265 PLPLKSLQYLSLAENKFTGEIPDFLSGACDTL----TGLDLSGNHFYGAVPPFFGSCSLL 320

Query: 277 VVVEL----------VSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLS 326
             + L          +  L   R L  L L         G  +  SL   S+SL  LDLS
Sbjct: 321 ESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFS---GE-LPESLTNLSASLLTLDLS 376

Query: 327 GNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEIL 386
            N+          SGP+          +L+ L L+ N         +   L +   L  L
Sbjct: 377 SNNF---------SGPILPNLCQNPKNTLQELYLQNNGFT----GKIPPTLSNCSELVSL 423

Query: 387 DISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTS 446
            +S N +   G    IP  +      + L +L L    L G    ++   L  ++    +
Sbjct: 424 HLSFNYLS--GT---IPSSLG---SLSKLRDLKLWLNMLEG----EIPQELMYVKT-LET 470

Query: 447 LSIADNNL 454
           L +  N+L
Sbjct: 471 LILDFNDL 478

>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 = 47.2 bits (113), Expect = 8e-06
 Identities = 38/176 (21%), Positives = 66/176 (37%), Gaps = 47/176 (26%)

Query: 285 LSSGRSLCSLKLRHCHLDRDFGRM-VFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPL 343
           +S   +L  L +   +       +          S+L  LD+SGN + G  S+       
Sbjct: 196 VSRCVNLEFLDVSSNNF---STGIPFLGDC----SALQHLDISGNKLSGDFSR------- 241

Query: 344 FSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIP-----NLEILDISDNTIEDDGI 398
            ++    +   L+LLN+  N         +G     IP     +L+ L +++N    +  
Sbjct: 242 -AIS---TCTELKLLNISSNQF-------VGP----IPPLPLKSLQYLSLAENKFTGE-- 284

Query: 399 RSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
              IP F+  +  C+ L  L L      G  V     + S L     SL+++ NN 
Sbjct: 285 ---IPDFLSGA--CDTLTGLDLSGNHFYGA-VPPFFGSCSLL----ESLALSSNNF 330

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 42.2 bits (100), Expect = 3e-04
 Identities = 26/145 (17%), Positives = 52/145 (35%), Gaps = 39/145 (26%)

Query: 261 NLSIDISSFIENCPSSVVVELV---------SFLSSGRSLCSLKLRHCHLD----RDFGR 307
            LS  I S + +      ++L            L   ++L +L L    L          
Sbjct: 429 YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSN 488

Query: 308 MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPL-FSLGAGKSLQSLRLLNLRGNNLC 366
                     ++L+ + LS N +         +G +   +G    L++L +L L  N+  
Sbjct: 489 C---------TNLNWISLSNNRL---------TGEIPKWIG---RLENLAILKLSNNSF- 526

Query: 367 KADARDLGSALVHIPNLEILDISDN 391
              + ++ + L    +L  LD++ N
Sbjct: 527 ---SGNIPAELGDCRSLIWLDLNTN 548

>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 = 57.7 bits (140), Expect = 4e-09
 Identities = 37/205 (18%), Positives = 61/205 (29%), Gaps = 35/205 (17%)

Query: 261 NLSIDISSFIENCPS-----------SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMV 309
                  +     PS             V    S     R+L  L L + ++  +    +
Sbjct: 441 KYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNI-ANINDDM 499

Query: 310 FSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD 369
              L      L ILDL  N++       +  GP++ L   K L  L +LNL  N   +  
Sbjct: 500 LEGL----EKLEILDLQHNNLARLWKHANPGGPIYFL---KGLSHLHILNLESNGFDEIP 552

Query: 370 ARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG 429
                     +  L+I+D+  N      + +L             L  L L+   ++   
Sbjct: 553 V----EVFKDLFELKIIDLGLN-----NLNTLPASVFNNQVS---LKSLNLQKNLITSVE 600

Query: 430 VSQLLDTLSTLRRPPTSLSIADNNL 454
                     L    T L +  N  
Sbjct: 601 KKVFGPAFRNL----TELDMRFNPF 621

>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 = 49.6 bits (119), Expect = 1e-06
 Identities = 34/173 (19%), Positives = 57/173 (32%), Gaps = 26/173 (15%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            +L  L L +  + +            A+SSL  L+LS N I             FS G 
Sbjct: 145 ENLQELLLSNNKI-QALKSEELDIF--ANSSLKKLELSSNQIKE-----------FSPGC 190

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
             ++  L  L L    L  +    L   L    ++  L +S++      + +        
Sbjct: 191 FHAIGRLFGLFLNNVQLGPSLTEKLCLEL-ANTSIRNLSLSNS-----QLSTTSNTTFLG 244

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
            +  N L  L L    L+  G +     L  L        +  NN+    ++S
Sbjct: 245 LKWTN-LTMLDLSYNNLNVVG-NDSFAWLPQLE----YFFLEYNNIQHLFSHS 291

>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 = 48.1 bits (115), Expect = 5e-06
 Identities = 53/273 (19%), Positives = 92/273 (33%), Gaps = 47/273 (17%)

Query: 188 EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR 247
            E   +   S L+ L L   + +E               L  L   + +L PS  E +C 
Sbjct: 162 SEELDIFANSSLKKLELSSNQIKE----FSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCL 217

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR 307
            L +       I NLS+  +S +    ++  + L        +L  L L + +L    G 
Sbjct: 218 ELANT-----SIRNLSLS-NSQLSTTSNTTFLGL-----KWTNLTMLDLSYNNL-NVVGN 265

Query: 308 MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK 367
             F+ L      L    L  N+I                 +   L ++R LNL+ +   +
Sbjct: 266 DSFAWL----PQLEYFFLEYNNIQH-----------LFSHSLHGLFNVRYLNLKRSFTKQ 310

Query: 368 ADARDL-----GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLEN 422
           + +          +   +  LE L++ DN I       +             L  L L N
Sbjct: 311 SISLASLPKIDDFSFQWLKCLEHLNMEDNDIP-----GIKS---NMFTGLINLKYLSLSN 362

Query: 423 CELSGRGVSQLLDTLSTLRRPP-TSLSIADNNL 454
              S R ++   +T  +L   P   L++  N +
Sbjct: 363 SFTSLRTLT--NETFVSLAHSPLHILNLTKNKI 393

>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 = 57.6 bits (138), Expect = 5e-09
 Identities = 74/530 (13%), Positives = 159/530 (30%), Gaps = 154/530 (29%)

Query: 20  LLGDDVIPYVYELPAD------LFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCF-- 71
           +L  + I ++            LF  LL+       Q+   +    +       +Y F  
Sbjct: 45  ILSKEEIDHIIMSKDAVSGTLRLFWTLLS------KQEEMVQKFVEEVLR---INYKFLM 95

Query: 72  ------ENGR---------KRGRYGNFNTVWKKLFKTRWSGFTD------QIEPVDWQQR 110
                 +            +R R  N N V+ K   +R   +        ++ P      
Sbjct: 96  SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN--- 152

Query: 111 YWEAHVQG-------CLDEAAELV----VLPSFRGLISDINIS-----DTILNYIGYEQQ 154
                + G        +  A ++     V       I  +N+      +T+L      + 
Sbjct: 153 ---VLIDGVLGSGKTWV--ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL------EM 201

Query: 155 MNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQS--LVLRWIRFEEH 212
           +  L     ++  +      ++  ++L+      E  +LL+    ++  LVL  ++  + 
Sbjct: 202 LQKL---LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258

Query: 213 VQAL---CKLLI-----QNSETLASLEFLHCKL---SPSFVEGICRSLCSK--------- 252
             A    CK+L+     Q ++ L++    H  L   S +      +SL  K         
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318

Query: 253 RKRIHKIENLSID-ISSFIENCPS-------SVVVELVSFLSSGRSLCSLK---LRHCHL 301
            + +       +  I+  I +  +           +L + + S  SL  L+    R    
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES--SLNVLEPAEYRKMF- 375

Query: 302 DRDFGRMVF--SSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLN 359
                  VF  S+ +  +  LS++         W     +S  +  +     L    L+ 
Sbjct: 376 -DRLS--VFPPSAHIP-TILLSLI---------WFDV-IKSDVMVVV---NKLHKYSLVE 418

Query: 360 LRGNN--------LCKADARDLGSALVH---IPNLEILDISDN----TIEDDG-IRSLIP 403
            +             +   +      +H   + +  I    D+        D    S I 
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478

Query: 404 Y---FVQASERCNPLVELYL---------ENCELSGRGVSQLLDTLSTLR 441
           +    ++  ER      ++L          +   +      +L+TL  L+
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528

>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 = 52.9 bits (126), Expect = 1e-07
 Identities = 42/307 (13%), Positives = 83/307 (27%), Gaps = 80/307 (26%)

Query: 31  ELPADLFDILLTCLPPLALQK--LQTKM---PFRDGDDCGSPDYCFENGRKRGRYGNFNT 85
            L     D     LP   L     +  +     RDG                  + N+  
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA---------------TWDNWKH 349

Query: 86  VWKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTI 145
           V      T      + +EP ++++ +              L V P         +I   +
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFD------------RLSVFP------PSAHIPTIL 391

Query: 146 L-----NYIGYEQQ--MNHLACDYS---------KLSYHCQQFGHYARCLRLQ--NALCV 187
           L     + I  +    +N L   YS          +S          +       +   V
Sbjct: 392 LSLIWFDVIKSDVMVVVNKL-HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450

Query: 188 EETCQLLRESKLQSLVLRWIR------FEEHVQALCKLLIQNSETLASLEFLHCKLSPSF 241
           +    + +      L+  ++          H++      I++ E +     +   L   F
Sbjct: 451 DHY-NIPKTFDSDDLIPPYLDQYFYSHIGHHLKN-----IEHPERMTLFRMVF--LDFRF 502

Query: 242 VEGICRSLCSKRKRIHKIENLSIDI---SSFI-ENCP--SSVVVELVSFLSSGRSLCSLK 295
           +E   R   +       I N    +     +I +N P    +V  ++ FL          
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL--- 559

Query: 296 LRHCHLD 302
           +   + D
Sbjct: 560 ICSKYTD 566

>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 = 46.8 bits (110), Expect = 1e-05
 Identities = 72/473 (15%), Positives = 137/473 (28%), Gaps = 141/473 (29%)

Query: 9   SLAALAVKRELLLG--DDVIPYV----YELPADLFDILLTCLPPLALQKLQTKMPFRDGD 62
            +A        +    D  I ++       P  + ++L         QKL  ++   D +
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML---------QKLLYQI---DPN 212

Query: 63  DCGSPDYC------FENGRKRGR-------YGN----FNTVW------------KKLFKT 93
                D+         + +   R       Y N       V             K L  T
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272

Query: 94  RWSGFTDQIEPVDWQQRYWEAHVQG-CLDEAAELVV---------LPSFRGLISDIN--- 140
           R+   TD +          + H      DE   L++         LP     +   N   
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR---EVLTTNPRR 329

Query: 141 ---ISDTILNYIGYEQQMNHLACD----YSKLSYHCQQFGHYARCLRLQNALCVEETCQL 193
              I+++I + +       H+ CD      + S +  +   Y +           +   +
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF---------DRLSV 380

Query: 194 LRES---KLQSLVLRWIRFEEH-----VQALC-KLLI--QNSETLASLEFLHCKLSPSFV 242
              S       L L W    +      V  L    L+  Q  E+  S+  ++ +L     
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL----- 435

Query: 243 EGICRSLCSKRKRIHK--IENLSIDISSFIENCPSSVVVE-LVSFLSSGRSLCSLKLRHC 299
               +        +H+  +++ +I  +   ++     + +   S +  G  L    + H 
Sbjct: 436 ----KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI--GHHL--KNIEHP 487

Query: 300 HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL-SKYDRSGPLFSLGAGKSLQSLRLL 358
                F RMVF            LD        +L  K       ++  +G  L +L+ L
Sbjct: 488 ERMTLF-RMVF------------LDFR------FLEQKIRHDSTAWN-ASGSILNTLQQL 527

Query: 359 NLRGNNLCKADA------RDL-------GSALVHIPNLEILDISDNTIEDDGI 398
                 +C  D         +          L+     ++L I+    ED+ I
Sbjct: 528 KFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMA-EDEAI 579

>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 Length = 197

 Score = 52.9 bits (127), Expect = 2e-08
 Identities = 22/139 (15%), Positives = 47/139 (33%), Gaps = 16/139 (11%)

Query: 268 SFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSG 327
           + ++      +  L+    + + +    L +  +  D        L+E S SL +L++  
Sbjct: 49  NNMKRVSKERIRSLIEAACNSKHIEKFSLANTAIS-DSEARGLIELIETSPSLRVLNVES 107

Query: 328 NSIGG----WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL 383
           N +       L +        S    +S+   +  N R + L      D+  A+    +L
Sbjct: 108 NFLTPELLARLLR--------STLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESL 159

Query: 384 EILDISDNTIEDDGIRSLI 402
             + IS         R  +
Sbjct: 160 LRVGIS---FASMEARHRV 175

>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 Length = 197

 Score = 47.1 bits (112), Expect = 2e-06
 Identities = 16/109 (14%), Positives = 43/109 (39%), Gaps = 14/109 (12%)

Query: 353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERC 412
           + +   +L    +  ++AR L   +   P+L +L++  N +  + +  L    ++++   
Sbjct: 70  KHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL----LRSTLVT 125

Query: 413 NPLVELYLENCELSGRGV------SQLLDTLSTLRRPPTSLSIADNNLG 455
             +VE   +N   S  G          ++   +L      + I+  ++ 
Sbjct: 126 QSIVEFKADNQRQSVLGNQVEMDMMMAIEENESL----LRVGISFASME 170

>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 Length = 197

 Score = 44.8 bits (106), Expect = 1e-05
 Identities = 22/157 (14%), Positives = 47/157 (29%), Gaps = 15/157 (9%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
            L  + + +                  S  +    L+  +I       D           
Sbjct: 42  DLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAIS------DSEARGL----I 91

Query: 350 KSLQ---SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFV 406
           + ++   SLR+LN+  N L       L  + +   ++      +      G +  +   +
Sbjct: 92  ELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEM-DMM 150

Query: 407 QASERCNPLVELYLENCELSGRG-VSQLLDTLSTLRR 442
            A E    L+ + +    +  R  VS+ L+      R
Sbjct: 151 MAIEENESLLRVGISFASMEARHRVSEALERNYERVR 187

>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 = 54.3 bits (131), Expect = 5e-08
 Identities = 37/173 (21%), Positives = 60/173 (34%), Gaps = 29/173 (16%)

Query: 283 SFLSSGRSLCSLKLRHCHLDR-DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSG 341
             L +  +L  L L H  ++  D   +   +L    S L  L+LS N             
Sbjct: 344 GCLENLENLRELDLSHDDIETSDCCNLQLRNL----SHLQSLNLSYNEPLS--------- 390

Query: 342 PLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSL 401
                 A K    L LL+L    L   DA+   S   ++  L++L++S +      +   
Sbjct: 391 --LKTEAFKECPQLELLDLAFTRLKVKDAQ---SPFQNLHLLKVLNLSHS-----LLDIS 440

Query: 402 IPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                        L  L L+       G  Q  ++L TL R    L ++  +L
Sbjct: 441 SEQLFDGLPA---LQHLNLQGNHFPK-GNIQKTNSLQTLGR-LEILVLSFCDL 488

>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 = 52.3 bits (126), Expect = 2e-07
 Identities = 33/166 (19%), Positives = 63/166 (37%), Gaps = 30/166 (18%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
             L  L L    L     +  F +L      L +L+LS + +              S   
Sbjct: 400 PQLELLDLAFTRLKVKDAQSPFQNL----HLLKVLNLSHSLLDI-----------SSEQL 444

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
              L +L+ LNL+GN+  K + +    +L  +  LEIL +S        + S+  +   +
Sbjct: 445 FDGLPALQHLNLQGNHFPKGNIQKTN-SLQTLGRLEILVLSFC-----DLSSIDQHAFTS 498

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
            +    +  + L +  L+     + L  L  +      L++A N++
Sbjct: 499 LKM---MNHVDLSHNRLTS-SSIEALSHLKGIY-----LNLASNHI 535

>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 = 34/170 (20%), Positives = 58/170 (34%), Gaps = 30/170 (17%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
            LC + +   +L + +   + S+     S L  LDL+   +               L +G
Sbjct: 250 GLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLS-------------ELPSG 296

Query: 350 -KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
              L +L+ L L  N            +  + P+L  L I  NT         +      
Sbjct: 297 LVGLSTLKKLVLSANKF----ENLCQISASNFPSLTHLSIKGNTK-------RLELGTGC 345

Query: 409 SERCNPLVELYLENCELSGRGV-SQLLDTLSTLRRPPTSLSIADNNLGRF 457
            E    L EL L + ++      +  L  LS L+    SL+++ N     
Sbjct: 346 LENLENLRELDLSHDDIETSDCCNLQLRNLSHLQ----SLNLSYNEPLSL 391

>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 = 41.9 bits (99), Expect = 3e-04
 Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 21/117 (17%)

Query: 275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL 334
               ++  + L +   L  L L  C L     +  F+SL      ++ +DLS N +    
Sbjct: 462 PKGNIQKTNSLQTLGRLEILVLSFCDL-SSIDQHAFTSL----KMMNHVDLSHNRLTS-- 514

Query: 335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN 391
                     S+ A   L+ + L NL  N++         S L  +     +++  N
Sbjct: 515 ---------SSIEALSHLKGIYL-NLASNHISIILP----SLLPILSQQRTINLRQN 557

>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 = 41.2 bits (97), Expect = 7e-04
 Identities = 26/170 (15%), Positives = 47/170 (27%), Gaps = 32/170 (18%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
           ++L  L      +       +    L    +L  L L  N I               L  
Sbjct: 105 KALKHLFFIQTGI-----SSIDFIPLHNQKTLESLYLGSNHISS-----------IKLPK 148

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
           G   + L++L+ + N +      D+ S L    NL  L+++ N I               
Sbjct: 149 GFPTEKLKVLDFQNNAIHYLSKEDMSS-LQQATNLS-LNLNGNDIAG---------IEPG 197

Query: 409 SERCNPLVELYLENCELSGRGVSQL-LDTLSTLRRPPTSLSIADNNLGRF 457
           +        L     +        L   T+ +L       +  D +    
Sbjct: 198 AFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLW----LGTFEDMDDEDI 243

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 53.3 bits (128), Expect = 1e-07
 Identities = 42/200 (21%), Positives = 67/200 (33%), Gaps = 26/200 (13%)

Query: 197 SKLQSLVLRWIRFEE-HVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
            KLQ+L LR       H       +  +   L +L  ++   +   +             
Sbjct: 362 EKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYF 421

Query: 256 IHKIENL-SIDISS-FIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSL 313
           + ++ +L  + ++     +C            S   SL  L L    L   +   +   +
Sbjct: 422 LLRVPHLQILILNQNRFSSCSGD------QTPSENPSLEQLFLGENMLQLAWETELCWDV 475

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
            E  S L +L L+ N +                G    L +LR L+L  N L      DL
Sbjct: 476 FEGLSHLQVLYLNHNYLNS-----------LPPGVFSHLTALRGLSLNSNRLTVLSHNDL 524

Query: 374 GSALVHIPNLEILDISDNTI 393
                   NLEILDIS N +
Sbjct: 525 ------PANLEILDISRNQL 538

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 32/167 (19%), Positives = 52/167 (31%), Gaps = 29/167 (17%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
             L  L+L   +      +  F +L     +L ILDL  + I                 A
Sbjct: 48  EQLQLLELGSQYTPLTIDKEAFRNL----PNLRILDLGSSKIYF-----------LHPDA 92

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
            + L  L  L L    L  +DA        ++  L  LD+S N I    +          
Sbjct: 93  FQGLFHLFELRLYFCGL--SDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNS- 149

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPP-TSLSIADNNL 454
                 L  +   + ++           L  L+    +  S+A N+L
Sbjct: 150 ------LKSIDFSSNQIF----LVCEHELEPLQGKTLSFFSLAANSL 186

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 48.6 bits (116), Expect = 3e-06
 Identities = 46/293 (15%), Positives = 80/293 (27%), Gaps = 45/293 (15%)

Query: 188 EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICR 247
           E   + L+   L    L        V       +     +  LE L   +S +       
Sbjct: 165 EHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNM-VLEILD--VSGNGWTVDIT 221

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG---RSLCSLKLRHCHLDRD 304
              S      +  +L +             + +      +G    S+  L L H  +   
Sbjct: 222 GNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFV-FS 280

Query: 305 FGRMVFSSLLEASSSLSILDLSGNSIG----------GWLSKYDRSGPLFSL---GAGKS 351
               VF +L      L +L+L+ N I             L   + S  L           
Sbjct: 281 LNSRVFETL----KDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYG 336

Query: 352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER 411
           L  +  ++L+ N++              +  L+ LD+ DN +        IP        
Sbjct: 337 LPKVAYIDLQKNHIAIIQD----QTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFL---S 389

Query: 412 CNPLVE----------LYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
            N LV           ++L    L    +   L  +  L      L +  N  
Sbjct: 390 GNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHL----QILILNQNRF 438

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 48.3 bits (115), Expect = 5e-06
 Identities = 34/176 (19%), Positives = 62/176 (35%), Gaps = 18/176 (10%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
            +  + ++L  L L    +   +    F  L    +SL  +D S N I            
Sbjct: 117 GYFRNLKALTRLDLSKNQIRSLYLHPSFGKL----NSLKSIDFSSNQI-----FLVCEHE 167

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN--LEILDISDNTIEDDGIRS 400
           L  L      ++L   +L  N+L    + D G  +    N  LEILD+S N    D I  
Sbjct: 168 LEPL----QGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVD-ITG 222

Query: 401 LIPYFVQASERCNPLVELYLENCELSGRGVSQL-LDTLSTLRRPP-TSLSIADNNL 454
                +  S+  + ++  ++         +     +T + L R     L ++   +
Sbjct: 223 NFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFV 278

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 42.1 bits (99), Expect = 4e-04
 Identities = 26/166 (15%), Positives = 57/166 (34%), Gaps = 28/166 (16%)

Query: 310 FSSLLEASSSLSILDLSGNSIG----------GWLSKYDRSGPLFSL----GAGKSLQSL 355
            + + +  ++   L LS N I             L   +       L     A ++L +L
Sbjct: 16  LTQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNL 75

Query: 356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL 415
           R+L+L  + +          A   + +L  L +    + D  ++      ++A      L
Sbjct: 76  RILDLGSSKIYFLHP----DAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKA------L 125

Query: 416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
             L L   ++    +      L++L+    S+  + N +   C + 
Sbjct: 126 TRLDLSKNQIRSLYLHPSFGKLNSLK----SIDFSSNQIFLVCEHE 167

>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 = 52.0 bits (125), Expect = 3e-07
 Identities = 35/166 (21%), Positives = 58/166 (34%), Gaps = 28/166 (16%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
             L  L L  C +     + +     ++ S LS L L+GN I              +LGA
Sbjct: 52  PELQVLDLSRCEI-----QTIEDGAYQSLSHLSTLILTGNPIQS-----------LALGA 95

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
              L SL+ L     NL    A      + H+  L+ L+++ N I+   +          
Sbjct: 96  FSGLSSLQKLVAVETNL----ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN- 150

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                 L  L L + ++        L  L  +     SL ++ N +
Sbjct: 151 ------LEHLDLSSNKIQSI-YCTDLRVLHQMPLLNLSLDLSLNPM 189

>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 = 51.2 bits (123), Expect = 4e-07
 Identities = 41/265 (15%), Positives = 76/265 (28%), Gaps = 30/265 (11%)

Query: 193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSE--TLASLEFLHCKLSPSFVEGICRSLC 250
             +E +L  L LR      +V   C   +   E   L   EF +      F +     LC
Sbjct: 196 AFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLC 255

Query: 251 SKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVF 310
           +            + I  F        + +++   +   ++ S  L    ++R       
Sbjct: 256 N------------LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYN 303

Query: 311 SSLLEAS-SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD 369
                    +          +         S    +  +   L SL  L+L  N L    
Sbjct: 304 FGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKG 363

Query: 370 ARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG 429
                 +     +L+ LD+S N     G+ ++   F         L  L  ++  L    
Sbjct: 364 C--CSQSDFGTTSLKYLDLSFN-----GVITMSSNF----LGLEQLEHLDFQHSNLKQMS 412

Query: 430 VSQLLDTLSTLRRPPTSLSIADNNL 454
              +  +L  L      L I+  + 
Sbjct: 413 EFSVFLSLRNLIY----LDISHTHT 433

>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 = 50.4 bits (121), Expect = 7e-07
 Identities = 48/208 (23%), Positives = 69/208 (33%), Gaps = 48/208 (23%)

Query: 220 LIQNSETLASLEFL---HCKLSPSFVEGICRSLCSKRKRIHKIENL-SIDISS-FIENCP 274
           +  N   L  LE L   H  L       +  SL           NL  +DIS        
Sbjct: 388 MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSL----------RNLIYLDISHTHTRVAF 437

Query: 275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL 334
           + +   L        SL  LK+       +F   +F+ L     +L+ LDLS   +    
Sbjct: 438 NGIFNGL-------SSLEVLKMAGNSFQENFLPDIFTEL----RNLTFLDLSQCQLEQ-- 484

Query: 335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIE 394
                     S  A  SL SL++LN+  NN    D          + +L++LD S N I 
Sbjct: 485 ---------LSPTAFNSLSSLQVLNMSHNNFFSLDT----FPYKCLNSLQVLDYSLNHIM 531

Query: 395 DDGIRSLIPYFVQASERCNPLVELYLEN 422
                +     +Q       L  L L  
Sbjct: 532 -----TSKKQELQHFPS--SLAFLNLTQ 552

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

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 29/138 (21%), Positives = 50/138 (36%), Gaps = 28/138 (20%)

Query: 317 SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSA 376
             S   LDLS N +        R    +S     S   L++L+L    +   +      A
Sbjct: 27  PFSTKNLDLSFNPL--------RHLGSYSFF---SFPELQVLDLSRCEIQTIED----GA 71

Query: 377 LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT 436
              + +L  L ++ N      I+SL      A    + L +L      L+    +  +  
Sbjct: 72  YQSLSHLSTLILTGN-----PIQSLAL---GAFSGLSSLQKLVAVETNLASL-ENFPIGH 122

Query: 437 LSTLRRPPTSLSIADNNL 454
           L TL+     L++A N +
Sbjct: 123 LKTLK----ELNVAHNLI 136

>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 = 50.8 bits (122), Expect = 6e-07
 Identities = 33/138 (23%), Positives = 52/138 (37%), Gaps = 27/138 (19%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL +LK+       +    VF++     ++L+ LDLS   +              S G 
Sbjct: 448 TSLNTLKMAGNSFKDNTLSNVFANT----TNLTFLDLSKCQLEQ-----------ISWGV 492

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
             +L  L+LLN+  NNL   D+    S    + +L  LD S N IE     +        
Sbjct: 493 FDTLHRLQLLNMSHNNLLFLDS----SHYNQLYSLSTLDCSFNRIE-----TSKGILQHF 543

Query: 409 SERCNPLVELYLENCELS 426
            +    L    L N  ++
Sbjct: 544 PKS---LAFFNLTNNSVA 558

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 55/289 (19%), Positives = 89/289 (30%), Gaps = 55/289 (19%)

Query: 193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSET--LASLEFLHCKLSPSFVEGICRSLC 250
             +  KL  L LR      ++   C   +       L   EF   +    F   I   LC
Sbjct: 200 AFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLC 259

Query: 251 SKRK---RIHKIENLSIDISSFIENCPSSVVVEL-------VSFLSSGRSLCSLKLRHCH 300
                  R+    + S DI  F     +   + L       +  +       SL +  C 
Sbjct: 260 DVTIDEFRLTYTNDFSDDIVKF-HCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQ 318

Query: 301 LDRDFGRMVFSSL---------------LEASSSLSILDLSGNSIGGWLSKYDRSGPLFS 345
           L + F  +    L                 A  SLS LDLS N++      +        
Sbjct: 319 L-KQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNAL-----SFSGCCSYSD 372

Query: 346 LGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYF 405
           LG      SLR L+L  N         + +  + +  L+ LD   +T++       +  F
Sbjct: 373 LG----TNSLRHLDLSFNGA-----IIMSANFMGLEELQHLDFQHSTLKR------VTEF 417

Query: 406 VQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
             A      L+ L +            +   L++L      L +A N+ 
Sbjct: 418 -SAFLSLEKLLYLDISYTNTKID-FDGIFLGLTSLNT----LKMAGNSF 460

>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 = 47.7 bits (114), Expect = 6e-06
 Identities = 30/174 (17%), Positives = 53/174 (30%), Gaps = 34/174 (19%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            S  ++ L    L +      FS+     S L  LDLS   I                 A
Sbjct: 32  SSTKNIDLSFNPL-KILKSYSFSNF----SELQWLDLSRCEIET-----------IEDKA 75

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQ 407
              L  L  L L GN +     +     +   + +LE L   +       + SL  + + 
Sbjct: 76  WHGLHHLSNLILTGNPI-----QSFSPGSFSGLTSLENLVAVET-----KLASLESFPIG 125

Query: 408 ASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
                  L +L + +  +    +      L+ L      + ++ N +     N 
Sbjct: 126 QLIT---LKKLNVAHNFIHSCKLPAYFSNLTNLVH----VDLSYNYIQTITVND 172

>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 = 44.3 bits (105), Expect = 7e-05
 Identities = 31/156 (19%), Positives = 51/156 (32%), Gaps = 30/156 (19%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL +L      L       + S  +    +L  L+++ N I        +    FS   
Sbjct: 104 TSLENLVAVETKL-----ASLESFPIGQLITLKKLNVAHNFI-----HSCKLPAYFS--- 150

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN---TIEDDGIRSLIPYF 405
             +L +L  ++L  N +      DL     +      LD+S N    I+D   + +    
Sbjct: 151 --NLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGI---- 204

Query: 406 VQASERCNPLVELYLENCELSGRGVSQLLDTLSTLR 441
                    L EL L     S   +   L  L+ L 
Sbjct: 205 --------KLHELTLRGNFNSSNIMKTCLQNLAGLH 232

>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 = 50.5 bits (120), Expect = 7e-07
 Identities = 31/148 (20%), Positives = 49/148 (33%), Gaps = 34/148 (22%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L     L  L L  N I               +     L  L  L+L  N +      D+
Sbjct: 127 LVHLPQLESLYLGNNKI-------------TDITVLSRLTKLDTLSLEDNQI-----SDI 168

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
              L  +  L+ L +S N I D  +R+L             L  L L + E     +++ 
Sbjct: 169 -VPLAGLTKLQNLYLSKNHISD--LRAL--------AGLKNLDVLELFSQEC----LNKP 213

Query: 434 LDTLSTLRRPPTSLSIADNNLGRFCANS 461
           ++  S L  P  ++   D +L      S
Sbjct: 214 INHQSNLVVPN-TVKNTDGSLVTPEIIS 240

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

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 32/258 (12%), Positives = 78/258 (30%), Gaps = 31/258 (12%)

Query: 197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRI 256
           S ++ L LR               +   E  + ++ L  + S    +     L    + I
Sbjct: 196 SSVRYLELRDTNLAR----FQFSPLPVDEVSSPMKKLAFRGS-VLTDESFNELLKLLRYI 250

Query: 257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEA 316
            ++  +  D  +   N            +S    + ++ +R  H+ + +     S++   
Sbjct: 251 LELSEVEFDDCTL--NGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSL 308

Query: 317 SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSA 376
              +  + +  + +            L      + L+SL  L+L  N +   +     + 
Sbjct: 309 LEKVKRITVENSKV-----------FLVPCSFSQHLKSLEFLDLSENLM-VEEYLKNSAC 356

Query: 377 LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT 436
               P+L+ L +S N +        +    +       L  L +          S     
Sbjct: 357 KGAWPSLQTLVLSQNHLRS------MQKTGEILLTLKNLTSLDISRNTFHPMPDS--CQW 408

Query: 437 LSTLRRPPTSLSIADNNL 454
              +R     L+++   +
Sbjct: 409 PEKMR----FLNLSSTGI 422

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

 Score = 46.3 bits (110), Expect = 2e-05
 Identities = 40/201 (19%), Positives = 65/201 (32%), Gaps = 47/201 (23%)

Query: 272 NCPSSVVVELVSFLSSGRSLCS-----------LKLRHCHLDRDFGRMVFSSLLEASSSL 320
           +C +S V +        RS  S           L L    +    G     +     ++L
Sbjct: 3   SCDASGVCDG-----RSRSFTSIPSGLTAAMKSLDLSFNKI-TYIGHGDLRAC----ANL 52

Query: 321 SILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHI 380
            +L L  + I                 A  SL SL  L+L  N+L    +    S    +
Sbjct: 53  QVLILKSSRINT-----------IEGDAFYSLGSLEHLDLSDNHLSSLSS----SWFGPL 97

Query: 381 PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTL 440
            +L+ L++  N  +  G+ SL P           L  L + N E            L++L
Sbjct: 98  SSLKYLNLMGNPYQTLGVTSLFPNLTN-------LQTLRIGNVETFSEIRRIDFAGLTSL 150

Query: 441 RRPPTSLSIADNNLGRFCANS 461
                 L I   +L  + + S
Sbjct: 151 NE----LEIKALSLRNYQSQS 167

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 47.7 bits (114), Expect = 1e-06
 Identities = 30/142 (21%), Positives = 53/142 (37%), Gaps = 18/142 (12%)

Query: 255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL 314
           +I  IENL   +  F     S   +  +      R L +L + +  + R     +   L 
Sbjct: 30  KIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICR-----IGEGLD 84

Query: 315 EASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK-ADARDL 373
           +A   L+ L L+ NS+            L  L    SL+SL  L +  N +      R  
Sbjct: 85  QALPDLTELILTNNSLVELGD-------LDPL---ASLKSLTYLCILRNPVTNKKHYRL- 133

Query: 374 GSALVHIPNLEILDISDNTIED 395
              +  +P + +LD     +++
Sbjct: 134 -YVIYKVPQVRVLDFQKVKLKE 154

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 48.4 bits (115), Expect = 2e-06
 Identities = 34/234 (14%), Positives = 68/234 (29%), Gaps = 31/234 (13%)

Query: 193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK 252
           +++   L+ L +R  R    +      ++  S  L  L   + +++ +    +  +    
Sbjct: 64  IIKSLSLKRLTVRAARIPSRILFGALRVLGIS-GLQELTLENLEVTGTAPPPLLEATGPD 122

Query: 253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSS 312
              ++          +++                    L  L +   H            
Sbjct: 123 LNILNLRNVSWATRDAWLAELQQW----------LKPGLKVLSIAQAHSLN-----FSCE 167

Query: 313 LLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARD 372
            +    +LS LDLS N   G          L S        +L++L LR   +       
Sbjct: 168 QVRVFPALSTLDLSDNPELGER-------GLISALCPLKFPTLQVLALRNAGMETPS-GV 219

Query: 373 LGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS 426
             +       L+ LD+S N      +R        + +  + L  L L    L 
Sbjct: 220 CSALAAARVQLQGLDLSHN-----SLRDAAG--APSCDWPSQLNSLNLSFTGLK 266

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 45.7 bits (108), Expect = 2e-05
 Identities = 41/232 (17%), Positives = 71/232 (30%), Gaps = 20/232 (8%)

Query: 223 NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELV 282
           N    A +E      S  ++     +     +    I++LS+   +       S ++   
Sbjct: 29  NCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRILFGA 88

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
             +     L  L L +  +    G      L      L+IL+L   S     +       
Sbjct: 89  LRVLGISGLQELTLENLEVT---GTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQ 145

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI 402
                       L++L++   +        +       P L  LD+SDN     G R LI
Sbjct: 146 W-------LKPGLKVLSIAQAHSLNFSCEQVR----VFPALSTLDLSDNPEL--GERGLI 192

Query: 403 PYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                       L  L L N  +     S +   L+  R     L ++ N+L
Sbjct: 193 SALCPLKFPT--LQVLALRNAGME--TPSGVCSALAAARVQLQGLDLSHNSL 240

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 41.4 bits (97), Expect = 4e-04
 Identities = 30/117 (25%), Positives = 42/117 (35%), Gaps = 19/117 (16%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP--LFSLG 347
           +L  L LR+  ++   G  V S+L  A   L  LDLS NS+           P  L SL 
Sbjct: 202 TLQVLALRNAGMETPSG--VCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLN 259

Query: 348 A---------GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED 395
                           L +L+L  N L      D   +   +P +  L +  N   D
Sbjct: 260 LSFTGLKQVPKGLPAKLSVLDLSYNRL------DRNPSPDELPQVGNLSLKGNPFLD 310

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

 Score = 47.7 bits (114), Expect = 5e-06
 Identities = 23/141 (16%), Positives = 47/141 (33%), Gaps = 28/141 (19%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLG--S 375
             + +++++ N         D    L     G+ +Q    + +  NNL     +     +
Sbjct: 273 PEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQI---IYIGYNNL-----KTFPVET 324

Query: 376 ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG--RGVSQL 433
           +L  +  L +L+   N +E       +P F         L  L L   +++         
Sbjct: 325 SLQKMKKLGMLECLYNQLE-----GKLPAF----GSEIKLASLNLAYNQITEIPANFCGF 375

Query: 434 LDTLSTLRRPPTSLSIADNNL 454
            + +        +LS A N L
Sbjct: 376 TEQV-------ENLSFAHNKL 389

>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 = 45.4 bits (108), Expect = 3e-05
 Identities = 26/150 (17%), Positives = 44/150 (29%), Gaps = 25/150 (16%)

Query: 284 FLSSGRSLCSLKLRHCHLDRDFGRMVFSSL---LEASSSLSILDLSGNSIGGWLSKYDRS 340
              S   + ++   +  +        F  L        ++S ++LS N I          
Sbjct: 397 DAKSVSVMSAIDFSYNEI-GSVDGKNFDPLDPTPFKGINVSSINLSNNQISK-------- 447

Query: 341 GPLFSLGAGKSLQSLRLLNLRGNNLC---KADARDLGSALVHIPNLEILDISDNTIEDDG 397
              F      +   L  +NL GN L    K   +D      +   L  +D+  N      
Sbjct: 448 ---FPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFN-----K 499

Query: 398 IRSLIPYFVQASERCNPLVELYLENCELSG 427
           +  L   F   +     LV + L     S 
Sbjct: 500 LTKLSDDFRATT--LPYLVGIDLSYNSFSK 527

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

 Score = 47.3 bits (113), Expect = 5e-06
 Identities = 36/192 (18%), Positives = 61/192 (31%), Gaps = 51/192 (26%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSL---------------LEASSSLSILDLSG 327
           S L+   ++  L   H  +       V   L               L     L  +DLS 
Sbjct: 199 STLAIPIAVEELDASHNSI-NVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSY 257

Query: 328 NSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILD 387
           N +                     +Q L  L +  N L       L      IP L++LD
Sbjct: 258 NELE-----------KIMYHPFVKMQRLERLYISNNRL-----VALNLYGQPIPTLKVLD 301

Query: 388 ISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL-LDTLSTLRRPPTS 446
           +S N +        +    +   + + L  LYL++  +       L L T  TL+    +
Sbjct: 302 LSHNHLLH------VE---RNQPQFDRLENLYLDHNSI-----VTLKLSTHHTLK----N 343

Query: 447 LSIADNNLGRFC 458
           L+++ N+     
Sbjct: 344 LTLSHNDWDCNS 355

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

 Score = 44.3 bits (105), Expect = 5e-05
 Identities = 37/166 (22%), Positives = 58/166 (34%), Gaps = 44/166 (26%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL    + +  L          S L    ++  LD S NSI               +  
Sbjct: 186 PSLFHANVSYNLL----------STLAIPIAVEELDASHNSIN-------------VVRG 222

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
                 L +L L+ NNL      D    L++ P L  +D+S N +E       I Y    
Sbjct: 223 P-VNVELTILKLQHNNL-----TDTA-WLLNYPGLVEVDLSYNELEK------IMY--HP 267

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
             +   L  LY+ N  L    ++     + TL+     L ++ N+L
Sbjct: 268 FVKMQRLERLYISNNRLV--ALNLYGQPIPTLKV----LDLSHNHL 307

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

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 25/144 (17%), Positives = 46/144 (31%), Gaps = 28/144 (19%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
           + L S R +  L L    +  +     F+       ++  L +  N+I            
Sbjct: 63  ALLDSFRQVELLNLNDLQI-EEIDTYAFAYA----HTIQKLYMGFNAIR----------- 106

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI 402
                  +++  L +L L  N+L             + P L  L +S+N +E       I
Sbjct: 107 YLPPHVFQNVPLLTVLVLERNDLSSLPRG----IFHNTPKLTTLSMSNNNLER------I 156

Query: 403 PYFVQASERCNPLVELYLENCELS 426
                  +    L  L L +  L+
Sbjct: 157 E--DDTFQATTSLQNLQLSSNRLT 178

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 45.5 bits (108), Expect = 6e-06
 Identities = 34/150 (22%), Positives = 57/150 (38%), Gaps = 18/150 (12%)

Query: 247 RSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFG 306
             L + +    KIE L+ +  +       +V +  VS L     L  L+L    +     
Sbjct: 29  LVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFG--- 85

Query: 307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC 366
                 L E   +L+ L+LSGN +    +       L  L   K L+ L+ L+L    + 
Sbjct: 86  --GLDMLAEKLPNLTHLNLSGNKLKDIST-------LEPL---KKLECLKSLDLFNCEVT 133

Query: 367 KADA-RDLGSALVHIPNLEILDISDNTIED 395
             +  R+  S    +P L  LD  D   ++
Sbjct: 134 NLNDYRE--SVFKLLPQLTYLDGYDREDQE 161

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 28/138 (20%), Positives = 47/138 (34%), Gaps = 30/138 (21%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
           ++  L L +C  +          L     +L  L L    +              S+   
Sbjct: 25  AVRELVLDNCKSNDG----KIEGLTAEFVNLEFLSLINVGLI-------------SVSNL 67

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED-DGIRSLIPYFVQA 408
             L  L+ L L  N +       L      +PNL  L++S N ++D   +  L       
Sbjct: 68  PKLPKLKKLELSENRIFGG----LDMLAEKLPNLTHLNLSGNKLKDISTLEPL------- 116

Query: 409 SERCNPLVELYLENCELS 426
            ++   L  L L NCE++
Sbjct: 117 -KKLECLKSLDLFNCEVT 133

>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 = 47.6 bits (113), Expect = 6e-06
 Identities = 40/303 (13%), Positives = 83/303 (27%), Gaps = 46/303 (15%)

Query: 177 RCLRLQNALCVEETCQLLRESKLQSLVLRWIR-----------FEEHVQALCKLLIQNSE 225
             + +             R   L+SL L+              +  +V      +  N  
Sbjct: 53  EHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLR 112

Query: 226 TLASLEFLHCKLSPSFVEGICRSLCSKRKR--IHKIENLSID-ISSFIENCPSSVVVEL- 281
            L S+ F    +S   ++ + ++     +   + K    + D + S + +C     + + 
Sbjct: 113 QLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLME 172

Query: 282 ------------VSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS 329
                               SL  L                 ++     SL  + +    
Sbjct: 173 ESSFSEKDGKWLHELAQHNTSLEVLNFYMTEF-AKISPKDLETIARNCRSLVSVKVGDFE 231

Query: 330 IGGWLSKYDRSGPLFSLGAG----------KSLQSLRLLNLRGNNLCKADARDLGSALVH 379
           I   +  +  +  L     G          K +  +    L    L      ++      
Sbjct: 232 ILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPF 291

Query: 380 IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLST 439
              +  LD+    +E +   +LI       ++C  L  L   N  +  RG+  L      
Sbjct: 292 AAQIRKLDLLYALLETEDHCTLI-------QKCPNLEVLETRNV-IGDRGLEVLAQYCKQ 343

Query: 440 LRR 442
           L+R
Sbjct: 344 LKR 346

>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 = 46.9 bits (111), Expect = 9e-06
 Identities = 42/291 (14%), Positives = 91/291 (31%), Gaps = 32/291 (10%)

Query: 160 CDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRE-----SKLQSLVLRWIRFEEHVQ 214
              ++     +++ +     +L            +       ++++ L L +        
Sbjct: 251 GSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL---LET 307

Query: 215 ALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP 274
                LIQ    L  LE  +  +    +E + +  C + KR+     +            
Sbjct: 308 EDHCTLIQKCPNLEVLETRNV-IGDRGLEVLAQY-CKQLKRLR----IERGADEQGMEDE 361

Query: 275 SSVVVE--LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGG 332
             +V +  L++     + L  + + +     +       S+     +L    L       
Sbjct: 362 EGLVSQRGLIALAQGCQELEYMAV-YVSDITNES---LESIGTYLKNLCDFRLVLLDREE 417

Query: 333 WLSKYDRSGPLFSLGAG-KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN 391
            ++       + SL  G K L+      LR   L       +G    + PN+  + +   
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLRRFAFY-LRQGGLTDLGLSYIGQ---YSPNVRWMLLGYV 473

Query: 392 TIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRR 442
              D+G+          S  C  L +L +  C  S R ++  +  L +LR 
Sbjct: 474 GESDEGLMEF-------SRGCPNLQKLEMRGCCFSERAIAAAVTKLPSLRY 517

>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 = 47.4 bits (113), Expect = 7e-06
 Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 21/104 (20%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL  LK+       +F   +F+ L     +L+ LDLS   +              S  A
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTEL----RNLTFLDLSQCQLEQ-----------LSPTA 489

Query: 349 GKSLQSLRLLNLRGNNLCKADARDL-GSALVHIPNLEILDISDN 391
             SL SL++LN+  N L     + +       + +L+ + +  N
Sbjct: 490 FNSLSSLQVLNMASNQL-----KSVPDGIFDRLTSLQKIWLHTN 528

>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 = 46.6 bits (111), Expect = 1e-05
 Identities = 47/276 (17%), Positives = 82/276 (29%), Gaps = 54/276 (19%)

Query: 194 LRESKLQSLVLRWIRFEEHVQALCKLLIQNSE--TLASLEFLHCKLSPSFVEGICRSLCS 251
            +E +L  L LR      +V   C   +   E   L   EF +      F +     LC+
Sbjct: 197 FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

Query: 252 ---KRKRIHKIENLSIDISSFIENCPSSVVVEL----------VSFLSSGRSLCSLKLRH 298
              +  R+  ++    DI        +     L           S+    + L  +  + 
Sbjct: 257 LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKF 316

Query: 299 CHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLL 358
                         L     SL  L  + N  G             +  +   L SL  L
Sbjct: 317 GQFP-------TLKL----KSLKRLTFTSNKGG-------------NAFSEVDLPSLEFL 352

Query: 359 NLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL 418
           +L  N L          +     +L+ LD+S N     G+ ++   F+   +    L  L
Sbjct: 353 DLSRNGLSFKG--CCSQSDFGTTSLKYLDLSFN-----GVITMSSNFLGLEQ----LEHL 401

Query: 419 YLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
             ++  L       +  +L  L      L I+  + 
Sbjct: 402 DFQHSNLKQMSEFSVFLSLRNL----IYLDISHTHT 433

>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 = 44.7 bits (106), Expect = 5e-05
 Identities = 35/173 (20%), Positives = 56/173 (32%), Gaps = 32/173 (18%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            S  +L L    L R  G   F S       L +LDLS   I                GA
Sbjct: 28  FSTKNLDLSFNPL-RHLGSYSFFSF----PELQVLDLSRCEIQT-----------IEDGA 71

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
            +SL  L  L L GN +          A   + +L+ L   +       + SL  + +  
Sbjct: 72  YQSLSHLSTLILTGNPIQSLALG----AFSGLSSLQKLVAVET-----NLASLENFPIGH 122

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS 461
            +    L EL + +  +    + +    L+ L      L ++ N +       
Sbjct: 123 LKT---LKELNVAHNLIQSFKLPEYFSNLTNLE----HLDLSSNKIQSIYCTD 168

>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 = 33/172 (19%), Positives = 54/172 (31%), Gaps = 38/172 (22%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
             L +L L    + +      FS L    SSL  L     ++                  
Sbjct: 76  SHLSTLILTGNPI-QSLALGAFSGL----SSLQKLVAVETNLAS-----------LENFP 119

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED------DGIRSLI 402
              L++L+ LN+  N +       L     ++ NLE LD+S N I+         +  + 
Sbjct: 120 IGHLKTLKELNVAHNLIQSFK---LPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMP 176

Query: 403 PYFVQASERCNP-------------LVELYLENCELSGRGVSQLLDTLSTLR 441
              +      NP             L +L L N   S   +   +  L+ L 
Sbjct: 177 LLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLE 228

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 45.7 bits (109), Expect = 8e-06
 Identities = 19/137 (13%), Positives = 48/137 (35%), Gaps = 32/137 (23%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSAL 377
           +SL+ + L+  ++               L   +   +++ L +   +       +  + +
Sbjct: 44  NSLTYITLANINVT-------------DLTGIEYAHNIKDLTINNIHA-----TNY-NPI 84

Query: 378 VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTL 437
             + NLE L I    +  D I +L             L  L + +       +++ ++TL
Sbjct: 85  SGLSNLERLRIMGKDVTSDKIPNL--------SGLTSLTLLDISHSAHDDSILTK-INTL 135

Query: 438 STLRRPPTSLSIADNNL 454
             +     S+ ++ N  
Sbjct: 136 PKV----NSIDLSYNGA 148

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 44.9 bits (107), Expect = 1e-05
 Identities = 21/143 (14%), Positives = 47/143 (32%), Gaps = 35/143 (24%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           +E + ++  L ++                  +      L +L  L + G ++        
Sbjct: 62  IEYAHNIKDLTINNIHAT-------------NYNPISGLSNLERLRIMGKDVTSDKI--- 105

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
              L  + +L +LDIS +  +D  +  +             +  + L         ++ +
Sbjct: 106 -PNLSGLTSLTLLDISHSAHDDSILTKI--------NTLPKVNSIDLSYNGA----ITDI 152

Query: 434 --LDTLSTLRRPPTSLSIADNNL 454
             L TL  L     SL+I  + +
Sbjct: 153 MPLKTLPEL----KSLNIQFDGV 171

>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 = 43.4 bits (103), Expect = 4e-05
 Identities = 27/146 (18%), Positives = 53/146 (36%), Gaps = 31/146 (21%)

Query: 282 VSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSG 341
            + +S   +L  L++    +         S L    +SL++LD+S ++            
Sbjct: 81  YNPISGLSNLERLRIMGKDV-TSDKIPNLSGL----TSLTLLDISHSAHDDS-------- 127

Query: 342 PLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSL 401
               L    +L  +  ++L  N        D+   L  +P L+ L+I  + + D   R +
Sbjct: 128 ---ILTKINTLPKVNSIDLSYNGAIT----DI-MPLKTLPELKSLNIQFDGVHD--YRGI 177

Query: 402 IPYFVQASERCNPLVELYLENCELSG 427
                   E    L +LY  +  + G
Sbjct: 178 --------EDFPKLNQLYAFSQTIGG 195

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 39.9 bits (94), Expect = 6e-04
 Identities = 19/104 (18%), Positives = 40/104 (38%), Gaps = 23/104 (22%)

Query: 352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED-DGIRSLIPYFVQASE 410
           + SL  + L   N+      DL + + +  N++ L I++    + + I  L         
Sbjct: 43  MNSLTYITLANINV-----TDL-TGIEYAHNIKDLTINNIHATNYNPISGLS-------- 88

Query: 411 RCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
               L  L +   +++   +   L  L++L    T L I+ +  
Sbjct: 89  ---NLERLRIMGKDVTSDKIPN-LSGLTSL----TLLDISHSAH 124

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 46.7 bits (111), Expect = 1e-05
 Identities = 28/172 (16%), Positives = 56/172 (32%), Gaps = 38/172 (22%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
             L  L++    L + +      S+     ++S L L                 L     
Sbjct: 174 TFLEELEIDASDL-QSYEPKSLKSI----QNVSHLILHMKQH-----------ILLLEIF 217

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGS----ALVHIPNLEILDISDNTIEDDGIRSLIPY 404
                S+  L LR  +L      +L +    +L+       + I+D ++       ++  
Sbjct: 218 VDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESL-----FQVMKL 272

Query: 405 FVQASERCNPLVELYLENCELSG--RGVSQLLDTLSTLRRPPTSLSIADNNL 454
             Q S     L+EL     +L     G+    D L++L++    + +  N  
Sbjct: 273 LNQISG----LLELEFSRNQLKSVPDGI---FDRLTSLQK----IWLHTNPW 313

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 28/172 (16%), Positives = 60/172 (34%), Gaps = 25/172 (14%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
           S  S    L  L++ +        R  F+ L    + L  L++  + +        +S  
Sbjct: 143 SLFSHLTKLQILRVGNMDTFTKIQRKDFAGL----TFLEELEIDASDL--------QSYE 190

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI 402
             SL   KS+Q++  L L                +    ++E L++ D  ++      L 
Sbjct: 191 PKSL---KSIQNVSHLILHMKQHILLLE----IFVDVTSSVECLELRDTDLDTFHFSEL- 242

Query: 403 PYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                  E  + + +    N +++   + Q++  L+ +      L  + N L
Sbjct: 243 ----STGETNSLIKKFTFRNVKITDESLFQVMKLLNQISG-LLELEFSRNQL 289

>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 = 46.0 bits (110), Expect = 1e-05
 Identities = 26/137 (18%), Positives = 53/137 (38%), Gaps = 34/137 (24%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSAL 377
           S L+ L++  N I               + A K L  L++LN+  N +      D+ S L
Sbjct: 243 SQLTWLEIGTNQIS-------------DINAVKDLTKLKMLNVGSNQI-----SDI-SVL 283

Query: 378 VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTL 437
            ++  L  L +++N + ++ +  +             L  L+L    ++     + L +L
Sbjct: 284 NNLSQLNSLFLNNNQLGNEDMEVI--------GGLTNLTTLFLSQNHITD---IRPLASL 332

Query: 438 STLRRPPTSLSIADNNL 454
           S +     S   A+  +
Sbjct: 333 SKM----DSADFANQVI 345

>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 = 45.2 bits (108), Expect = 3e-05
 Identities = 36/209 (17%), Positives = 74/209 (35%), Gaps = 47/209 (22%)

Query: 248 SLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR 307
           +L +    I++I   + D++  I        V  V       S+  L +    +      
Sbjct: 4   TLATLPAPINQIFPDA-DLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKV------ 56

Query: 308 MVFSSL--LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNL 365
              +S+  +E  ++L  L+L+GN I               +    +L  L  L +  N +
Sbjct: 57  ---ASIQGIEYLTNLEYLNLNGNQIT-------------DISPLSNLVKLTNLYIGTNKI 100

Query: 366 CKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCEL 425
                 D+ SAL ++ NL  L ++++ I D      I      ++    +  L L     
Sbjct: 101 -----TDI-SALQNLTNLRELYLNEDNISD------ISPLANLTK----MYSLNLGANHN 144

Query: 426 SGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                   L  ++ L      L++ ++ +
Sbjct: 145 L--SDLSPLSNMTGL----NYLTVTESKV 167

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

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 23/141 (16%), Positives = 49/141 (34%), Gaps = 35/141 (24%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L   + +  L+L  N     LS          L    ++  L  L +  + +     +D+
Sbjct: 128 LANLTKMYSLNLGANHNLSDLS---------PLS---NMTGLNYLTVTESKV-----KDV 170

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
            + + ++ +L  L ++ N IED      I      +     L        +++       
Sbjct: 171 -TPIANLTDLYSLSLNYNQIED------ISPLASLTS----LHYFTAYVNQITD---ITP 216

Query: 434 LDTLSTLRRPPTSLSIADNNL 454
           +  ++ L     SL I +N +
Sbjct: 217 VANMTRL----NSLKIGNNKI 233

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

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 29/137 (21%), Positives = 47/137 (34%), Gaps = 36/137 (26%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSAL 377
           +SL       N I               +    ++  L  L +  N +      DL S L
Sbjct: 199 TSLHYFTAYVNQIT-------------DITPVANMTRLNSLKIGNNKI-----TDL-SPL 239

Query: 378 VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTL 437
            ++  L  L+I  N I D      I       +    L  L + + ++S      +L+ L
Sbjct: 240 ANLSQLTWLEIGTNQISD------INAV----KDLTKLKMLNVGSNQISD---ISVLNNL 286

Query: 438 STLRRPPTSLSIADNNL 454
           S L     SL + +N L
Sbjct: 287 SQL----NSLFLNNNQL 299

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

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 26/199 (13%), Positives = 54/199 (27%), Gaps = 38/199 (19%)

Query: 280 ELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR 339
            L     +G  +    + + +L+          +      L +LD   N     +   + 
Sbjct: 539 RLADDEDTGPKIQIFYMGYNNLEEFPASASLQKM----VKLGLLDCVHNK----VRHLEA 590

Query: 340 SGPLFSL---------------GAGKSLQSLRLLNLRGNNLCKADARDL--GSALVHIPN 382
            G    L                       +  L    N L     + +        +  
Sbjct: 591 FGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKL-----KYIPNIFNAKSVYV 645

Query: 383 LEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRR 442
           +  +D S N I        I   +   +  N    + L   E+     ++L  T S +  
Sbjct: 646 MGSVDFSYNKIG--SEGRNISCSMDDYKGIN-ASTVTLSYNEIQKF-PTELFATGSPIST 701

Query: 443 PPTSLSIADNNLGRFCANS 461
               + +++N +     NS
Sbjct: 702 ----IILSNNLMTSIPENS 716

>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 = 3e-05
 Identities = 40/251 (15%), Positives = 72/251 (28%), Gaps = 42/251 (16%)

Query: 216 LCKLLIQNSETLASLEFLHCKLS--PSFVEGICRSLCS-KRKRIHKIENLSIDISSFIEN 272
             K+ +   + L   + L   ++  P        S  S K  +I  + N    IS  I+ 
Sbjct: 387 YKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQR 446

Query: 273 CPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEAS----SSLSILDLSGN 328
                   L     +        +     D +          E S      L+ ++L   
Sbjct: 447 LTK-----LQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNC 501

Query: 329 SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNL-----CKADARDLGSALVHIPNL 383
                L           L     L  L+ LN+  N        KAD   L       P +
Sbjct: 502 PNMTQLPD--------FLY---DLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKI 550

Query: 384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRP 443
           +I  +  N +E+    + +        +   L  L   + ++        L+   T  + 
Sbjct: 551 QIFYMGYNNLEEFPASASLQ-------KMVKLGLLDCVHNKVRH------LEAFGTNVK- 596

Query: 444 PTSLSIADNNL 454
            T L +  N +
Sbjct: 597 LTDLKLDYNQI 607

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

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 35/229 (15%), Positives = 71/229 (31%), Gaps = 43/229 (18%)

Query: 197 SKLQSLVLRWIRFEE-HVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR 255
             + S+   + +         C +        +++   + ++   F   +  +       
Sbjct: 644 YVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQ-KFPTELFATG------ 696

Query: 256 IHKIENLSI-DISS-FIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSL 313
                 +S   +S+  + + P + +        +   L ++ LR   L         ++L
Sbjct: 697 ----SPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTL 752

Query: 314 LEASSSLSILDLSGNSIGG---------WLSKYDRSGPLFSLGAGKS---------LQSL 355
                 LS +D+S N              L  +       + G               SL
Sbjct: 753 ----PYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSL 808

Query: 356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPY 404
             L +  N++ K D +         P L ILDI+DN      + S+ PY
Sbjct: 809 IQLQIGSNDIRKVDEKLT-------PQLYILDIADNPNISIDVTSVCPY 850

>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 = 46.5 bits (110), Expect = 1e-05
 Identities = 38/192 (19%), Positives = 60/192 (31%), Gaps = 51/192 (26%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSL---------------LEASSSLSILDLSG 327
           S L+   ++  L   H  +       V   L               L     L  +DLS 
Sbjct: 205 STLAIPIAVEELDASHNSI-NVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSY 263

Query: 328 NSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILD 387
           N +                     +Q L  L +  N L       L      IP L++LD
Sbjct: 264 NELEK-----------IMYHPFVKMQRLERLYISNNRL-----VALNLYGQPIPTLKVLD 307

Query: 388 ISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL-LDTLSTLRRPPTS 446
           +S N +    +    P F +       L  LYL++  +       L L T  TL+     
Sbjct: 308 LSHNHLLH--VERNQPQFDR-------LENLYLDHNSI-----VTLKLSTHHTLKN---- 349

Query: 447 LSIADNNLGRFC 458
           L+++ N+     
Sbjct: 350 LTLSHNDWDCNS 361

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 37/166 (22%), Positives = 58/166 (34%), Gaps = 44/166 (26%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL    + +  L          S L    ++  LD S NSI               +  
Sbjct: 192 PSLFHANVSYNLL----------STLAIPIAVEELDASHNSIN-------------VVRG 228

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
                 L +L L+ NNL      D    L++ P L  +D+S N +E       I Y    
Sbjct: 229 P-VNVELTILKLQHNNL-----TDTA-WLLNYPGLVEVDLSYNELEK------IMY--HP 273

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
             +   L  LY+ N  L    ++     + TL+     L ++ N+L
Sbjct: 274 FVKMQRLERLYISNNRLV--ALNLYGQPIPTLKV----LDLSHNHL 313

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 41.5 bits (97), Expect = 5e-04
 Identities = 20/113 (17%), Positives = 38/113 (33%), Gaps = 20/113 (17%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
           + L S R +  L L    +  +     F+       ++  L +  N+I            
Sbjct: 69  ALLDSFRQVELLNLNDLQI-EEIDTYAFAYA----HTIQKLYMGFNAIRY---------- 113

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED 395
                  +++  L +L L  N+L             + P L  L +S+N +E 
Sbjct: 114 -LPPHVFQNVPLLTVLVLERNDLSSLPRG----IFHNTPKLTTLSMSNNNLER 161

>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 = 45.8 bits (109), Expect = 2e-05
 Identities = 29/105 (27%), Positives = 43/105 (40%), Gaps = 19/105 (18%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
           SL  LK+       +F   +F+ L     +L+ LDLS   +              S  A 
Sbjct: 151 SLEVLKMAGNSFQENFLPDIFTEL----RNLTFLDLSQCQLEQ-----------LSPTAF 195

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIE 394
            SL SL++LN+  NN    D          + +L++LD S N I 
Sbjct: 196 NSLSSLQVLNMSHNNFFSLDT----FPYKCLNSLQVLDYSLNHIM 236

>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 = 45.0 bits (107), Expect = 3e-05
 Identities = 31/165 (18%), Positives = 56/165 (33%), Gaps = 31/165 (18%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
           S   L+L    L       VF  L    + L+ L LS N +         S       + 
Sbjct: 29  SATRLELESNKLQS-LPHGVFDKL----TQLTKLSLSSNGL---------SFKGCCSQSD 74

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQAS 409
               SL+ L+L  N +       + S  + +  LE LD   +      ++ +  +     
Sbjct: 75  FGTTSLKYLDLSFNGV-----ITMSSNFLGLEQLEHLDFQHS-----NLKQMSEF--SVF 122

Query: 410 ERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
                L+ L + +        + + + LS+L      L +A N+ 
Sbjct: 123 LSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEV----LKMAGNSF 162

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

 Score = 41.2 bits (97), Expect = 4e-04
 Identities = 27/145 (18%), Positives = 53/145 (36%), Gaps = 28/145 (19%)

Query: 311 SSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADA 370
           SS       L  LD   +++            +       SL++L  L++   +   A  
Sbjct: 94  SSNFLGLEQLEHLDFQHSNLKQ----------MSEFSVFLSLRNLIYLDISHTHTRVAFN 143

Query: 371 RDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV 430
                    + +LE+L ++ N+       + +P           L  L L  C+L    +
Sbjct: 144 G----IFNGLSSLEVLKMAGNSF----QENFLPD---IFTELRNLTFLDLSQCQL--EQL 190

Query: 431 SQ-LLDTLSTLRRPPTSLSIADNNL 454
           S    ++LS+L+     L+++ NN 
Sbjct: 191 SPTAFNSLSSLQV----LNMSHNNF 211

>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 = 40.8 bits (96), Expect = 6e-04
 Identities = 28/140 (20%), Positives = 47/140 (33%), Gaps = 30/140 (21%)

Query: 317 SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG--KSLQSLRLLNLRGNNLCKADARDLG 374
            SS + L+L  N +              SL  G    L  L  L+L  N L         
Sbjct: 27  PSSATRLELESNKLQ-------------SLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQ- 72

Query: 375 SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL 434
            +     +L+ LD+S N     G+ ++   F+   +    L  L  ++  L       + 
Sbjct: 73  -SDFGTTSLKYLDLSFN-----GVITMSSNFLGLEQ----LEHLDFQHSNLKQMSEFSVF 122

Query: 435 DTLSTLRRPPTSLSIADNNL 454
            +L  L      L I+  + 
Sbjct: 123 LSLRNLIY----LDISHTHT 138

>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 = 2e-05
 Identities = 17/124 (13%), Positives = 37/124 (29%), Gaps = 24/124 (19%)

Query: 285 LSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLF 344
            S G+   ++ L +  +      +         S +  LDL  N I   ++  + +    
Sbjct: 116 CSRGQGKKNIYLANNKI-TMLRDLDEGCR----SRVQYLDLKLNEIDT-VNFAELAASSD 169

Query: 345 SL-------------GAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN 391
           +L                     L+ L+L  N L       +G        +  + + +N
Sbjct: 170 TLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKL-----AFMGPEFQSAAGVTWISLRNN 224

Query: 392 TIED 395
            +  
Sbjct: 225 KLVL 228

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

 Score = 43.4 bits (103), Expect = 7e-05
 Identities = 26/147 (17%), Positives = 51/147 (34%), Gaps = 35/147 (23%)

Query: 311 SSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADA 370
             + +  +   I  ++ +S+                   +S  +++ L+L GN L +  A
Sbjct: 3   HEIKQNGNRYKIEKVTDSSLKQ-----------ALASLRQSAWNVKELDLSGNPLSQISA 51

Query: 371 RDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV 430
               + L     LE+L++S N + +             S     L  L L N  +     
Sbjct: 52  ----ADLAPFTKLELLNLSSNVLYE------TLDLESLST----LRTLDLNNNYVQ---- 93

Query: 431 SQLLDTLSTLRRPPTSLSIADNNLGRF 457
              L    ++     +L  A+NN+ R 
Sbjct: 94  --ELLVGPSIE----TLHAANNNISRV 114

>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 = 45.5 bits (108), Expect = 3e-05
 Identities = 35/166 (21%), Positives = 61/166 (36%), Gaps = 33/166 (19%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            +L +L LR   L +     VF+ L    S+L+ LD+S N I            +     
Sbjct: 80  FNLRTLGLRSNRL-KLIPLGVFTGL----SNLTKLDISENKIV-----------ILLDYM 123

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
            + L +L+ L +  N+L     R    A   + +LE L +    +      + IP   +A
Sbjct: 124 FQDLYNLKSLEVGDNDLVYISHR----AFSGLNSLEQLTLEKCNL------TSIP--TEA 171

Query: 409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
               + L+ L L +  ++          L  L+     L I+    
Sbjct: 172 LSHLHGLIVLRLRHLNINAIR-DYSFKRLYRLKV----LEISHWPY 212

>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 = 42.4 bits (100), Expect = 2e-04
 Identities = 24/110 (21%), Positives = 39/110 (35%), Gaps = 24/110 (21%)

Query: 287 SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSL 346
            G +L SL + HC+L      +    L      L  L+LS N I              ++
Sbjct: 222 YGLNLTSLSITHCNL-TAVPYLAVRHL----VYLRFLNLSYNPIS-------------TI 263

Query: 347 GAG--KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIE 394
                  L  L+ + L G  L   +      A   +  L +L++S N + 
Sbjct: 264 EGSMLHELLRLQEIQLVGGQLAVVEPY----AFRGLNYLRVLNVSGNQLT 309

>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 = 45.3 bits (107), Expect = 3e-05
 Identities = 38/248 (15%), Positives = 80/248 (32%), Gaps = 28/248 (11%)

Query: 197 SKLQSLVLRW--IRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK 254
           S+L +L L +  ++  + V+ LC+           L+ L   +     +     L S  K
Sbjct: 289 SRLTTLNLSYATVQSYDLVKLLCQCP--------KLQRLW--VLDYIEDAGLEVLASTCK 338

Query: 255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL 314
            + ++  +       +E   +     LVS       L S+ L  C    +       ++ 
Sbjct: 339 DLREL-RVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAA---LITIA 393

Query: 315 EASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLG 374
               +++   L                 +      +  + LR L+L G      D     
Sbjct: 394 RNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSG---LLTDK-VFE 449

Query: 375 SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL 434
               +   +E+L ++     D G+  +          C+ L +L + +C    + +    
Sbjct: 450 YIGTYAKKMEMLSVAFAGDSDLGMHHV-------LSGCDSLRKLEIRDCPFGDKALLANA 502

Query: 435 DTLSTLRR 442
             L T+R 
Sbjct: 503 SKLETMRS 510

>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 = 44.9 bits (106), Expect = 4e-05
 Identities = 45/257 (17%), Positives = 74/257 (28%), Gaps = 47/257 (18%)

Query: 197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEF--LHCKLSPSFVEGICRSLCSKRK 254
             L+ L LR    ++              +L SL    L  ++S S +E +         
Sbjct: 156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRC----- 210

Query: 255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL 314
               +++L +             + +L + L     L  L       +     +     +
Sbjct: 211 --PNLKSLKL------NRAVP--LEKLATLLQRAPQLEELGTGGYTAEVR-PDVYSGLSV 259

Query: 315 EASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLG 374
             S    +  LSG              P            L  LNL         + DL 
Sbjct: 260 ALSGCKELRCLSGFWDAV-----PAYLPAV----YSVCSRLTTLNLSY---ATVQSYDLV 307

Query: 375 SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE---------L 425
             L   P L+ L + D  IED G+  L       +  C  L EL +   E         L
Sbjct: 308 KLLCQCPKLQRLWVLDY-IEDAGLEVL-------ASTCKDLRELRVFPSEPFVMEPNVAL 359

Query: 426 SGRGVSQLLDTLSTLRR 442
           + +G+  +      L  
Sbjct: 360 TEQGLVSVSMGCPKLES 376

>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 = 44.7 bits (105), Expect = 5e-05
 Identities = 39/176 (22%), Positives = 67/176 (38%), Gaps = 34/176 (19%)

Query: 280 ELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR 339
           E + + S+ +++  ++  +    R    +  S L    + + +L L+   +         
Sbjct: 403 ETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLT-------- 454

Query: 340 SGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED-DGI 398
                 L   + L  +  L+L  N L     R L  AL  +  LE+L  SDN +E+ DG+
Sbjct: 455 -----VLCHLEQLLLVTHLDLSHNRL-----RALPPALAALRCLEVLQASDNALENVDGV 504

Query: 399 RSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
            +L             L EL L N  L      Q L +   L      L++  N+L
Sbjct: 505 ANL-----------PRLQELLLCNNRLQQSAAIQPLVSCPRLVL----LNLQGNSL 545

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 44/308 (14%), Positives = 89/308 (28%), Gaps = 41/308 (13%)

Query: 87  WKKLFKTRWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTIL 146
             +                   Q  +     G   +   +++         D    + + 
Sbjct: 293 RNRPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLF 352

Query: 147 NYIGYEQQMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRW 206
                 ++              C++       L  +N  C+     L+R           
Sbjct: 353 RCELSVEKSTV----LQSELESCKELQE----LEPENKWCLLTIILLMRALDPLLYEKET 404

Query: 207 IRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLS--- 263
           +++   ++A+  +     + L S   L   +       + R L    K +  + +L    
Sbjct: 405 LQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADV-RVLHLAHKDLTVLCHLEQLL 463

Query: 264 ----IDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSS 319
               +D+S    N     +  L   L++ R L  L+     L+   G       +     
Sbjct: 464 LVTHLDLSH---NR----LRALPPALAALRCLEVLQASDNALENVDG-------VANLPR 509

Query: 320 LSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVH 379
           L  L L  N +           PL       S   L LLNL+GN+LC+ +          
Sbjct: 510 LQELLLCNNRLQQS----AAIQPL------VSCPRLVLLNLQGNSLCQEEGI-QERLAEM 558

Query: 380 IPNLEILD 387
           +P++  + 
Sbjct: 559 LPSVSSIL 566

>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 = 41.3 bits (96), Expect = 6e-04
 Identities = 34/188 (18%), Positives = 66/188 (35%), Gaps = 33/188 (17%)

Query: 216 LCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS 275
             K  +Q   TL +++ +             RS       + K+E   + +         
Sbjct: 400 YEKETLQYFSTLKAVDPMRAAYLDD-----LRSKFLLENSVLKMEYADVRVLHLAHKD-- 452

Query: 276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS 335
              + ++  L     +  L L H  L            L A   L +L  S N++     
Sbjct: 453 ---LTVLCHLEQLLLVTHLDLSHNRLRA------LPPALAALRCLEVLQASDNAL----- 498

Query: 336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI-E 394
                    ++    +L  L+ L L  N L ++ A      LV  P L +L++  N++ +
Sbjct: 499 --------ENVDGVANLPRLQELLLCNNRLQQSAAIQ---PLVSCPRLVLLNLQGNSLCQ 547

Query: 395 DDGIRSLI 402
           ++GI+  +
Sbjct: 548 EEGIQERL 555

>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 = 44.1 bits (104), Expect = 7e-05
 Identities = 27/153 (17%), Positives = 53/153 (34%), Gaps = 35/153 (22%)

Query: 310 FSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD 369
              + +  +   I  ++ +S+                   +S  +++ L+L GN L +  
Sbjct: 2   IHEIKQNGNRYKIEKVTDSSLKQ-----------ALASLRQSAWNVKELDLSGNPLSQIS 50

Query: 370 ARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG 429
           A    + L     LE+L++S N + +             S     L  L L N  +    
Sbjct: 51  A----ADLAPFTKLELLNLSSNVLYE------TLDLESLST----LRTLDLNNNYVQE-- 94

Query: 430 VSQLLDTLSTLRRPPTSLSIADNNLGRFCANSG 462
               L    ++     +L  A+NN+ R   + G
Sbjct: 95  ----LLVGPSIE----TLHAANNNISRVSCSRG 119

>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 = 43.8 bits (104), Expect = 7e-05
 Identities = 25/165 (15%), Positives = 50/165 (30%), Gaps = 28/165 (16%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL  L L    +           L    ++L+ L LS NSI                G+
Sbjct: 192 PSLTELHLDGNKI-TKVDAASLKGL----NNLAKLGLSFNSISA-----------VDNGS 235

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
             +   LR L+L  N L       +   L     ++++ + +N I   G     P     
Sbjct: 236 LANTPHLRELHLNNNKL-----VKVPGGLADHKYIQVVYLHNNNISAIGSNDFCP--PGY 288

Query: 409 SERCNPLVELYLENCELSGRGVSQ-LLDTLSTLRRPPTSLSIADN 452
           + +      + L +  +    +       +        ++ + + 
Sbjct: 289 NTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRA----AVQLGNY 329

>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 = 40.4 bits (95), Expect = 7e-04
 Identities = 21/138 (15%), Positives = 48/138 (34%), Gaps = 29/138 (21%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
           ++L +L L +  +        F+ L      L  L LS N +               L  
Sbjct: 76  KNLHTLILINNKI-SKISPGAFAPL----VKLERLYLSKNQLK-------------ELPE 117

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA 408
               ++L+ L +  N + K       S    +  + ++++  N ++  GI +       A
Sbjct: 118 K-MPKTLQELRVHENEITKVRK----SVFNGLNQMIVVELGTNPLKSSGIEN------GA 166

Query: 409 SERCNPLVELYLENCELS 426
            +    L  + + +  ++
Sbjct: 167 FQGMKKLSYIRIADTNIT 184

>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 = 43.4 bits (103), Expect = 1e-04
 Identities = 23/137 (16%), Positives = 48/137 (35%), Gaps = 36/137 (26%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSAL 377
           ++L+ L+L+ N +               +    +L++L  L L  NN+      D+ S +
Sbjct: 287 TALTNLELNENQLE-------------DISPISNLKNLTYLTLYFNNI-----SDI-SPV 327

Query: 378 VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTL 437
             +  L+ L   +N + D      +            +  L   + ++S       L  L
Sbjct: 328 SSLTKLQRLFFYNNKVSD------VSSL----ANLTNINWLSAGHNQISD---LTPLANL 374

Query: 438 STLRRPPTSLSIADNNL 454
           + +    T L + D   
Sbjct: 375 TRI----TQLGLNDQAW 387

>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 = 40.7 bits (96), Expect = 8e-04
 Identities = 19/110 (17%), Positives = 40/110 (36%), Gaps = 29/110 (26%)

Query: 318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSAL 377
           ++L+ ++ S N +               +   K+L  L  + +  N +      D+ + L
Sbjct: 68  NNLTQINFSNNQLT-------------DITPLKNLTKLVDILMNNNQI-----ADI-TPL 108

Query: 378 VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG 427
            ++ NL  L + +N I D          +   +    L  L L +  +S 
Sbjct: 109 ANLTNLTGLTLFNNQITD----------IDPLKNLTNLNRLELSSNTISD 148

>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 = 42.0 bits (99), Expect = 2e-04
 Identities = 19/88 (21%), Positives = 30/88 (34%), Gaps = 19/88 (21%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L   + L  L L  N I               +     L  L+ L L  N++      DL
Sbjct: 152 LSRLTKLDTLSLEDNQI-------------SDIVPLAGLTKLQNLYLSKNHI-----SDL 193

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSL 401
             AL  + NL++L++      +  I   
Sbjct: 194 -RALAGLKNLDVLELFSQECLNKPINHQ 220

>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 = 41.6 bits (98), Expect = 3e-04
 Identities = 25/113 (22%), Positives = 43/113 (38%), Gaps = 29/113 (25%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L   S+L +L L  N I              ++     L +L+ L++    +      DL
Sbjct: 125 LAGLSNLQVLYLDLNQIT-------------NISPLAGLTNLQYLSIGNAQV-----SDL 166

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS 426
            + L ++  L  L   DN I D      I            L+E++L+N ++S
Sbjct: 167 -TPLANLSKLTTLKADDNKISD------ISPL----ASLPNLIEVHLKNNQIS 208

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 39.7 bits (93), Expect = 4e-04
 Identities = 28/138 (20%), Positives = 43/138 (31%), Gaps = 30/138 (21%)

Query: 290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG 349
            +  L L +   +          L +    L  L      +              S+   
Sbjct: 18  DVKELVLDNSRSNE----GKLEGLTDEFEELEFLSTINVGLT-------------SIANL 60

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED-DGIRSLIPYFVQA 408
             L  L+ L L  N +       L       PNL  L++S N I+D   I  L       
Sbjct: 61  PKLNKLKKLELSDNRVSGG----LEVLAEKCPNLTHLNLSGNKIKDLSTIEPL------- 109

Query: 409 SERCNPLVELYLENCELS 426
            ++   L  L L NCE++
Sbjct: 110 -KKLENLKSLDLFNCEVT 126

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 32/170 (18%), Positives = 61/170 (35%), Gaps = 35/170 (20%)

Query: 219 LLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVV 278
           L  +    +  L   + + +   +EG+            ++E LS            +V 
Sbjct: 11  LRNRTPSDVKELVLDNSRSNEGKLEGLTDEFE-------ELEFLST----------INVG 53

Query: 279 VELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD 338
           +  ++ L     L  L+L    +           L E   +L+ L+LSGN I    +   
Sbjct: 54  LTSIANLPKLNKLKKLELSDNRVSG-----GLEVLAEKCPNLTHLNLSGNKIKDLST--- 105

Query: 339 RSGPLFSLGAGKSLQSLRLLNLRGNNLCKADA-RDLGSALVHIPNLEILD 387
               +  L   K L++L+ L+L    +   +  R+  +    +P L  LD
Sbjct: 106 ----IEPL---KKLENLKSLDLFNCEVTNLNDYRE--NVFKLLPQLTYLD 146

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 41.4 bits (97), Expect = 4e-04
 Identities = 34/167 (20%), Positives = 60/167 (35%), Gaps = 41/167 (24%)

Query: 294 LKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAG--KS 351
           L L H +L R       + L    ++L  L LS N +               + +     
Sbjct: 44  LDLSHNNLSRLRAEWTPTRL----TNLHSLLLSHNHLN-------------FISSEAFVP 86

Query: 352 LQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPY-FVQAS 409
           + +LR L+L  N+L       L       +  LE+L + +N I       +    F   +
Sbjct: 87  VPNLRYLDLSSNHL-----HTLDEFLFSDLQALEVLLLYNNHIV-----VVDRNAFEDMA 136

Query: 410 ERCNPLVELYLENCELSG--RGVSQLLDTLSTLRRPPTSLSIADNNL 454
           +    L +LYL   ++S     + +  + L  L      L ++ N L
Sbjct: 137 Q----LQKLYLSQNQISRFPVELIKDGNKLPKLML----LDLSSNKL 175

>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 = 41.8 bits (98), Expect = 4e-04
 Identities = 40/179 (22%), Positives = 59/179 (32%), Gaps = 53/179 (29%)

Query: 286 SSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFS 345
                + +L +   +L         +SL      L  L++SGN              L S
Sbjct: 58  CLPAHITTLVIPDNNL---------TSLPALPPELRTLEVSGNQ-------------LTS 95

Query: 346 LGAG-KSLQSLRLLNLRGN-------NLCKADARD--LGSALVHIPNLEILDISDNTIED 395
           L      L  L + +            LCK       L S  V  P L+ L +SDN +  
Sbjct: 96  LPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLA- 154

Query: 396 DGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL 454
               SL     +       L +L+  N +L     + L    S L      LS++DN L
Sbjct: 155 ----SLPALPSE-------LCKLWAYNNQL-----TSLPMLPSGL----QELSVSDNQL 193

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 40.8 bits (96), Expect = 5e-04
 Identities = 27/141 (19%), Positives = 48/141 (34%), Gaps = 37/141 (26%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L+  + L  L ++ N +                   K+L  +    L    L   + RD 
Sbjct: 81  LKDLTKLEELSVNRNRL-------------------KNLNGIPSACLSRLFLDNNELRDT 121

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
             +L+H+ NLEIL I +N ++   I  L           + L  L L   E++    +  
Sbjct: 122 -DSLIHLKNLEILSIRNNKLKS--IVML--------GFLSKLEVLDLHGNEIT---NTGG 167

Query: 434 LDTLSTLRRPPTSLSIADNNL 454
           L  L  +      + +     
Sbjct: 168 LTRLKKV----NWIDLTGQKC 184

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 40.4 bits (95), Expect = 6e-04
 Identities = 14/88 (15%), Positives = 30/88 (34%), Gaps = 19/88 (21%)

Query: 314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDL 373
           L    +L IL +  N +              S+     L  L +L+L GN +        
Sbjct: 124 LIHLKNLEILSIRNNKLK-------------SIVMLGFLSKLEVLDLHGNEITNT----- 165

Query: 374 GSALVHIPNLEILDISDNTIEDDGIRSL 401
              L  +  +  +D++     ++ ++  
Sbjct: 166 -GGLTRLKKVNWIDLTGQKCVNEPVKYQ 192

>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 = 40.9 bits (96), Expect = 8e-04
 Identities = 30/158 (18%), Positives = 46/158 (29%), Gaps = 37/158 (23%)

Query: 289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGA 348
            SL  L L             F  L     +L  L+L   +I               +  
Sbjct: 171 PSLMRLDLGELKKLEYISEGAFEGL----FNLKYLNLGMCNI-------------KDMPN 213

Query: 349 GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN---TIEDDGIRSLIPYF 405
              L  L  L + GN+           +   + +L+ L + ++    IE +    L    
Sbjct: 214 LTPLVGLEELEMSGNHF----PEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGL---- 265

Query: 406 VQASERCNPLVELYLENCELSG--RGVSQLLDTLSTLR 441
                    LVEL L +  LS     +   L  L  L 
Sbjct: 266 -------ASLVELNLAHNNLSSLPHDLFTPLRYLVELH 296

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	462
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.94
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.94
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.93
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.93
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.93
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.93
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.88
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.86
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.85
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.85
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.84
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.82
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.82
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.82
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.81
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.8
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.8
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.79
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.79
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.79
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.79
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.79
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.78
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.78
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.78
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.78
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.77
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.77
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.77
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.76
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.76
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.76
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.76
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	99.76
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.76
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.75
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.75
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.75
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.75
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.75
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.75
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.75
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.75
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.74
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.74
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.74
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.74
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.74
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.74
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.74
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.74
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.74
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.73
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.73
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.73
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.73
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.73
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.72
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.72
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.72
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.72
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.72
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	99.71
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.71
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.71
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.71
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.7
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.69
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.69
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.68
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.68
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.68
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.68
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.68
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.68
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.68
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.68
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.68
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.67
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.67
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	99.67
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.66
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.66
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.66
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.66
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.65
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.65
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.65
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.64
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.64
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.64
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.63
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.61
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.61
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.59
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.58
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.57
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.57
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.57
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.56
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.55
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.55
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	99.54
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.54
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.52
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.52
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	99.5
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.47
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.47
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.46
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.46
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.45
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.45
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.44
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.42
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.42
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.41
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.41
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.41
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.4
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.4
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.39
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.38
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.38
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.38
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.36
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.35
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	99.34
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.29
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.27
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.25
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.24
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.23
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.22
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.2
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.18
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.18
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.15
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.14
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.11
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	99.09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.03
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.98
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.98
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.96
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.95
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.9
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.88
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.77
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.59
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.46
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.41
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.12
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.95
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.91
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	95.02
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.82
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.38
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.25
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.16
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	91.06
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	89.09
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	83.03

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.94  E-value=5.6e-26  Score=221.75  Aligned_cols=266  Identities=16%  Similarity=0.133  Sum_probs=215.8

Q ss_pred             cceeeeccccchHh-----hhhhhcCC-CcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHH
Q 012512          176 ARCLRLQNALCVEE-----TCQLLRES-KLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRS  248 (462)
Q Consensus       176 ~~~l~l~~~~~~~~-----~~~l~~~~-~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~  248 (462)
                      ++.+++.++.....     ...+.+++ +|++|+|++|.+... ...+...+....++|++|+|++|.+++.++..++..
T Consensus        24 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  103 (362)
T 3goz_A           24 VTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKT  103 (362)
T ss_dssp             CCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHH
T ss_pred             ceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHH
Confidence            45555555554442     25566777 899999999997665 444444444434899999999999999888888887


Q ss_pred             HhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCC-CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecC
Q 012512          249 LCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG-RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSG  327 (462)
Q Consensus       249 l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l-~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~  327 (462)
                      +...   .++|++|++++|.+...+.    ..+...+..+ ++|++|+|++|.+++.++..++..+....++|++|+|++
T Consensus       104 l~~~---~~~L~~L~Ls~N~l~~~~~----~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~  176 (362)
T 3goz_A          104 LAAI---PFTITVLDLGWNDFSSKSS----SEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRG  176 (362)
T ss_dssp             HHTS---CTTCCEEECCSSCGGGSCH----HHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTT
T ss_pred             HHhC---CCCccEEECcCCcCCcHHH----HHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecC
Confidence            7662   1789999999999988443    3677777774 699999999999999999999888766545999999999


Q ss_pred             CCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhc-CCCCCEEeCCCCCCCchhHHhHHHHHH
Q 012512          328 NSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVH-IPNLEILDISDNTIEDDGIRSLIPYFV  406 (462)
Q Consensus       328 n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~N~l~~~g~~~l~~~l~  406 (462)
                      |.+++    .++..+...+....  ++|++|+|++|+|++.|+..++.++.. +++|++|++++|.|++.|...+.    
T Consensus       177 n~l~~----~~~~~l~~~l~~~~--~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~----  246 (362)
T 3goz_A          177 NNLAS----KNCAELAKFLASIP--ASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLK----  246 (362)
T ss_dssp             SCGGG----SCHHHHHHHHHTSC--TTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHH----
T ss_pred             CCCch----hhHHHHHHHHHhCC--CCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHH----
Confidence            99984    45555666777432  599999999999999999999999988 45999999999999999887776    


Q ss_pred             hhcCCCCCccEEEccCCC---CChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          407 QASERCNPLVELYLENCE---LSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       407 ~~l~~~~~L~~L~L~~n~---l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ..+..+++|+.|++++|.   ++..++..+.+.+.. .++|+.||+++|+|++..+
T Consensus       247 ~~~~~l~~L~~L~L~~n~l~~i~~~~~~~l~~~~~~-l~~L~~LdL~~N~l~~~~~  301 (362)
T 3goz_A          247 LLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPN-IQKIILVDKNGKEIHPSHS  301 (362)
T ss_dssp             HTTTTTTTCSEEEEEHHHHTTCCHHHHHHHHTTSTT-CCEEEEECTTSCBCCGGGC
T ss_pred             HHHhcCCCccEEEeccCCccccCHHHHHHHHHHhcc-CCceEEEecCCCcCCCcch
Confidence            556778999999999998   888888888888887 5669999999999998743

>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=99.94  E-value=4.5e-25  Score=217.25  Aligned_cols=265  Identities=17%  Similarity=0.143  Sum_probs=206.3

Q ss_pred             cceeeeccccchH-----hhhhhhcCCCcCEEEeccCCCh-------HHHHHHHHHHHhcCCCccEEEccCCCCChhHHH
Q 012512          176 ARCLRLQNALCVE-----ETCQLLRESKLQSLVLRWIRFE-------EHVQALCKLLIQNSETLASLEFLHCKLSPSFVE  243 (462)
Q Consensus       176 ~~~l~l~~~~~~~-----~~~~l~~~~~L~~L~L~~~~~~-------~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~  243 (462)
                      ++.+++.++.+..     +...+..+++|++|+|++|.+.       ..+..+...+ ..+++|++|+|++|.+++.+..
T Consensus        34 L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l-~~~~~L~~L~Ls~n~l~~~~~~  112 (386)
T 2ca6_A           34 VKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQAL-LKCPKLHTVRLSDNAFGPTAQE  112 (386)
T ss_dssp             CCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHH-TTCTTCCEEECCSCCCCTTTHH
T ss_pred             ccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHH-hhCCcccEEECCCCcCCHHHHH
Confidence            4455555554443     3344567899999999987432       3444444443 4589999999999999998777


Q ss_pred             HHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCC---------CCCCEEecCCCCCChhhHHHHHHHHh
Q 012512          244 GICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSG---------RSLCSLKLRHCHLDRDFGRMVFSSLL  314 (462)
Q Consensus       244 ~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l---------~~L~~L~Ls~n~l~~~~~~~l~~~l~  314 (462)
                      .+...+..    +++|++|++++|.+..    .....+...+..+         ++|++|++++|.+++.++..++..+.
T Consensus       113 ~l~~~l~~----~~~L~~L~L~~n~l~~----~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~  184 (386)
T 2ca6_A          113 PLIDFLSK----HTPLEHLYLHNNGLGP----QAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQ  184 (386)
T ss_dssp             HHHHHHHH----CTTCCEEECCSSCCHH----HHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHH
T ss_pred             HHHHHHHh----CCCCCEEECcCCCCCH----HHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHH
Confidence            77766655    7899999999999875    2223455566666         89999999999999878887777654


Q ss_pred             hCCCCccEEEecCCCCCCcccccCcccHHH-hhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          315 EASSSLSILDLSGNSIGGWLSKYDRSGPLF-SLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       315 ~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~-~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      . +++|++|++++|.+++    .+...+.. .+.   ++++|+.|+|++|.+++.|+..++..+..+++|++|+|++|.|
T Consensus       185 ~-~~~L~~L~L~~n~l~~----~g~~~l~~~~l~---~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i  256 (386)
T 2ca6_A          185 S-HRLLHTVKMVQNGIRP----EGIEHLLLEGLA---YCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLL  256 (386)
T ss_dssp             H-CTTCCEEECCSSCCCH----HHHHHHHHTTGG---GCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCC
T ss_pred             h-CCCcCEEECcCCCCCH----hHHHHHHHHHhh---cCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCC
Confidence            4 5899999999999983    11111222 444   6689999999999999999999999999999999999999999


Q ss_pred             CchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          394 EDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       394 ~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++.|...+...+.  ...+++|+.|+|++|+++..|+..++..+....++|++|++++|+|++.++
T Consensus       257 ~~~~~~~l~~~l~--~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~~~  320 (386)
T 2ca6_A          257 SARGAAAVVDAFS--KLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDD  320 (386)
T ss_dssp             CHHHHHHHHHHHH--TCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTSH
T ss_pred             chhhHHHHHHHHh--hccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcchh
Confidence            9999888775321  134799999999999999999999999984423679999999999998764

>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=99.93  E-value=4.3e-25  Score=217.39  Aligned_cols=258  Identities=20%  Similarity=0.188  Sum_probs=207.2

Q ss_pred             eeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCC---h---hHHHHHHHHHhccc
Q 012512          180 RLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLS---P---SFVEGICRSLCSKR  253 (462)
Q Consensus       180 ~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~---~---~~~~~l~~~l~~~~  253 (462)
                      .+.......+...+..+++|++|+|++|.+...........+..+++|++|+|++|.+.   +   .+...++..+..  
T Consensus        15 ~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~--   92 (386)
T 2ca6_A           15 AITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLK--   92 (386)
T ss_dssp             SCCSHHHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTT--
T ss_pred             CCCHHHHHHHHHHHhcCCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeCcccccCccccchhHHHHHHHHHHhh--
Confidence            44444455566777889999999999999776544333333456899999999997544   2   355556666555  


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCC---------CCccEEE
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEAS---------SSLSILD  324 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~---------~~L~~L~  324 (462)
                        +++|++|++++|.+...+..    .++..+..+++|++|+|++|.+++.++..++..+.. +         ++|++|+
T Consensus        93 --~~~L~~L~Ls~n~l~~~~~~----~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~-l~~~~~~~~~~~L~~L~  165 (386)
T 2ca6_A           93 --CPKLHTVRLSDNAFGPTAQE----PLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQE-LAVNKKAKNAPPLRSII  165 (386)
T ss_dssp             --CTTCCEEECCSCCCCTTTHH----HHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHH-HHHHHHHHTCCCCCEEE
T ss_pred             --CCcccEEECCCCcCCHHHHH----HHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHH-HhhhhhcccCCCCcEEE
Confidence              79999999999999884433    677888899999999999999998888888776433 3         7999999


Q ss_pred             ecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHH
Q 012512          325 LSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIP  403 (462)
Q Consensus       325 Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~  403 (462)
                      +++|.+++    .+...+...+.   .+++|++|+|++|+|++.|+..+.+ .+..+++|+.|+|++|.|++.|+..+. 
T Consensus       166 L~~n~l~~----~~~~~l~~~l~---~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~-  237 (386)
T 2ca6_A          166 CGRNRLEN----GSMKEWAKTFQ---SHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA-  237 (386)
T ss_dssp             CCSSCCTG----GGHHHHHHHHH---HCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH-
T ss_pred             CCCCCCCc----HHHHHHHHHHH---hCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHH-
Confidence            99999983    22233445565   4579999999999999999988888 999999999999999999999887776 


Q ss_pred             HHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhc-CCCCCcEEEccCCCCCCc
Q 012512          404 YFVQASERCNPLVELYLENCELSGRGVSQLLDTLST-LRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       404 ~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~-l~~~L~~L~Ls~N~l~~~  457 (462)
                         ..+..+++|+.|+|++|+|++.|+..++..+.. ..++|++|+|++|.|++.
T Consensus       238 ---~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~  289 (386)
T 2ca6_A          238 ---IALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELD  289 (386)
T ss_dssp             ---HHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHH
T ss_pred             ---HHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHH
Confidence               456778999999999999999999999999853 145699999999999884

>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=99.93  E-value=2.7e-24  Score=216.62  Aligned_cols=264  Identities=22%  Similarity=0.266  Sum_probs=200.6

Q ss_pred             cceeeeccccchH-----hhhhhhcCCCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHH
Q 012512          176 ARCLRLQNALCVE-----ETCQLLRESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSL  249 (462)
Q Consensus       176 ~~~l~l~~~~~~~-----~~~~l~~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l  249 (462)
                      ++.+++.++....     +...+..+++|++|++++|.+... ...+...+....++|++|++++|.+++.+...+...+
T Consensus       144 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l  223 (461)
T 1z7x_W          144 LEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIV  223 (461)
T ss_dssp             CCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHH
T ss_pred             ceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHH
Confidence            6667777665543     345556778888888888886544 4445555555567888888888888887777666666


Q ss_pred             hcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhc-CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCC
Q 012512          250 CSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLS-SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGN  328 (462)
Q Consensus       250 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n  328 (462)
                      ..    +++|++|++++|.+.+.+    ...+...+. .+++|++|++++|.+++.+...+...+.. +++|++|++++|
T Consensus       224 ~~----~~~L~~L~Ls~n~l~~~~----~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~n  294 (461)
T 1z7x_W          224 AS----KASLRELALGSNKLGDVG----MAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRA-KESLKELSLAGN  294 (461)
T ss_dssp             HH----CTTCCEEECCSSBCHHHH----HHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHH-CTTCCEEECTTC
T ss_pred             Hh----CCCccEEeccCCcCChHH----HHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhh-CCCcceEECCCC
Confidence            54    688889999888876611    123333333 47889999999999988887777776543 588999999999


Q ss_pred             CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhh
Q 012512          329 SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA  408 (462)
Q Consensus       329 ~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~  408 (462)
                      .+++    .+...+...+..  ..++|++|++++|.+++.++..++..+..+++|++|++++|.+++.|+..+...+   
T Consensus       295 ~i~~----~~~~~l~~~l~~--~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l---  365 (461)
T 1z7x_W          295 ELGD----EGARLLCETLLE--PGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGL---  365 (461)
T ss_dssp             CCHH----HHHHHHHHHHTS--TTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHH---
T ss_pred             CCch----HHHHHHHHHhcc--CCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHH---
Confidence            8874    333344455443  2268999999999999999999999999999999999999999999888877532   


Q ss_pred             cCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       409 l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      ...+++|++|++++|++++.|+..++..+.. +++|++|++++|+|++.+
T Consensus       366 ~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~-~~~L~~L~l~~N~i~~~~  414 (461)
T 1z7x_W          366 GQPGSVLRVLWLADCDVSDSSCSSLAATLLA-NHSLRELDLSNNCLGDAG  414 (461)
T ss_dssp             TSTTCCCCEEECTTSCCCHHHHHHHHHHHHH-CCCCCEEECCSSSCCHHH
T ss_pred             cCCCCceEEEECCCCCCChhhHHHHHHHHHh-CCCccEEECCCCCCCHHH
Confidence            1235799999999999999999999999988 677999999999998764

>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=99.93  E-value=1.7e-24  Score=218.07  Aligned_cols=265  Identities=24%  Similarity=0.255  Sum_probs=187.6

Q ss_pred             cceeeeccccch-----HhhhhhhcCCCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHH
Q 012512          176 ARCLRLQNALCV-----EETCQLLRESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSL  249 (462)
Q Consensus       176 ~~~l~l~~~~~~-----~~~~~l~~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l  249 (462)
                      ++.+++.++...     .++..+..+++|++|++++|.+... ...+...+....++|++|++++|.+++.+...+...+
T Consensus        87 L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l  166 (461)
T 1z7x_W           87 IQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVL  166 (461)
T ss_dssp             CCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHH
T ss_pred             eeEEEccCCCCCHHHHHHHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHH
Confidence            566667666655     2355556777777777777776543 3444444444456777777777777777766666655


Q ss_pred             hcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhc-CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCC
Q 012512          250 CSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLS-SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGN  328 (462)
Q Consensus       250 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n  328 (462)
                      ..    +++|++|++++|.+.+.    ....+...+. ..++|++|++++|.+++.+...+...+. .+++|++|++++|
T Consensus       167 ~~----~~~L~~L~L~~n~i~~~----~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~-~~~~L~~L~Ls~n  237 (461)
T 1z7x_W          167 RA----KPDFKELTVSNNDINEA----GVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVA-SKASLRELALGSN  237 (461)
T ss_dssp             HH----CTTCCEEECCSSBCHHH----HHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHHHHH-HCTTCCEEECCSS
T ss_pred             hh----CCCCCEEECcCCCcchH----HHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHHHHH-hCCCccEEeccCC
Confidence            54    56777888887776551    1123333333 3557788888888877777666666543 3477888888888


Q ss_pred             CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhh
Q 012512          329 SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA  408 (462)
Q Consensus       329 ~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~  408 (462)
                      .+++    .+...+...+..  .+++|++|++++|++++.++..++..+..+++|++|++++|.+++.|...+...   .
T Consensus       238 ~l~~----~~~~~l~~~~~~--~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~---l  308 (461)
T 1z7x_W          238 KLGD----VGMAELCPGLLH--PSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCET---L  308 (461)
T ss_dssp             BCHH----HHHHHHHHHHTS--TTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHH---H
T ss_pred             cCCh----HHHHHHHHHHhc--CCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHH---h
Confidence            7763    222223333332  357899999999999998888899999999999999999999998888877652   2


Q ss_pred             cCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       409 l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ....++|+.|++++|.+++.++..++..+.. +++|++|++++|.|++.++
T Consensus       309 ~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~n~i~~~~~  358 (461)
T 1z7x_W          309 LEPGCQLESLWVKSCSFTAACCSHFSSVLAQ-NRFLLELQISNNRLEDAGV  358 (461)
T ss_dssp             TSTTCCCCEEECTTSCCBGGGHHHHHHHHHH-CSSCCEEECCSSBCHHHHH
T ss_pred             ccCCccceeeEcCCCCCchHHHHHHHHHHhh-CCCccEEEccCCccccccH
Confidence            2344699999999999999999999999888 5679999999999987654

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.93  E-value=7.6e-25  Score=213.70  Aligned_cols=258  Identities=19%  Similarity=0.180  Sum_probs=207.1

Q ss_pred             eeccccchHhhhhhh-cCCCcCEEEeccCCChHH-HHHHHHHHHhcCC-CccEEEccCCCCChhHHHHHHHHHhcccccC
Q 012512          180 RLQNALCVEETCQLL-RESKLQSLVLRWIRFEEH-VQALCKLLIQNSE-TLASLEFLHCKLSPSFVEGICRSLCSKRKRI  256 (462)
Q Consensus       180 ~l~~~~~~~~~~~l~-~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~-~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~  256 (462)
                      ++..+.....+..+. ..++|++|++++|.+... ...++..+ ..++ +|++|+|++|.+++.++..++..+...   .
T Consensus         4 ~ls~n~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l-~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~---~   79 (362)
T 3goz_A            4 KLTLHPGSNPVEEFTSIPHGVTSLDLSLNNLYSISTVELIQAF-ANTPASVTSLNLSGNSLGFKNSDELVQILAAI---P   79 (362)
T ss_dssp             ECCCCTTCCHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHH-HTCCTTCCEEECCSSCGGGSCHHHHHHHHHTS---C
T ss_pred             ccccccchHHHHHHHhCCCCceEEEccCCCCChHHHHHHHHHH-HhCCCceeEEECcCCCCCHHHHHHHHHHHhcc---C
Confidence            444444444444444 445699999999997654 33343443 4577 899999999999999898888877653   3


Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCC-CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSG-RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l-~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      ++|++|++++|.+....    +..+...+..+ ++|++|++++|.+++.++..++..+....++|++|+|++|.+++   
T Consensus        80 ~~L~~L~Ls~n~l~~~~----~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~---  152 (362)
T 3goz_A           80 ANVTSLNLSGNFLSYKS----SDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGI---  152 (362)
T ss_dssp             TTCCEEECCSSCGGGSC----HHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGG---
T ss_pred             CCccEEECcCCcCChHH----HHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCH---
Confidence            88999999999998744    34677788887 79999999999999999998888765434699999999999984   


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCC-CCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIP-NLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~-~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                       .+...++..+....  ++|++|+|++|++++.+...+...+..++ +|++|++++|.|++.|+..+...+.   ...++
T Consensus       153 -~~~~~l~~~l~~~~--~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~---~~~~~  226 (362)
T 3goz_A          153 -KSSDELIQILAAIP--ANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFS---SIPNH  226 (362)
T ss_dssp             -SCHHHHHHHHHTSC--TTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHH---HSCTT
T ss_pred             -HHHHHHHHHHhcCC--ccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHh---cCCCC
Confidence             55566777777443  59999999999999999999999999995 9999999999999999888876432   22369


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      |+.|+|++|++++.|...+...+.. .++|++|++++|.++
T Consensus       227 L~~L~Ls~N~l~~~~~~~l~~~~~~-l~~L~~L~L~~n~l~  266 (362)
T 3goz_A          227 VVSLNLCLNCLHGPSLENLKLLKDS-LKHLQTVYLDYDIVK  266 (362)
T ss_dssp             CCEEECCSSCCCCCCHHHHHHTTTT-TTTCSEEEEEHHHHT
T ss_pred             ceEEECcCCCCCcHHHHHHHHHHhc-CCCccEEEeccCCcc
Confidence            9999999999999999988877777 566999999999843

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.88  E-value=2.7e-22  Score=195.52  Aligned_cols=187  Identities=20%  Similarity=0.251  Sum_probs=97.5

Q ss_pred             CCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      +.|++|+|++|.+... ...+...+....++|++|+|++|.+++.+...++..+       .+|++|++++|.+++.   
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L-------~~L~~L~Ls~n~l~~~---  141 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVF-------LRARKLGLQLNSLGPE---  141 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHH-------HTEEEEECCSSCCCHH---
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHH-------HhccHhhcCCCCCCHH---
Confidence            4466677766665443 3333333333335667777777666666666555543       2355556665555441   


Q ss_pred             hhHHHHHHhhc-CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          276 SVVVELVSFLS-SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       276 ~~~~~l~~~l~-~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                       ....+...+. ..++|++|+|++|.+++.+...++.++.. .++|++|+|++|.+++    .+...++..+.   ..++
T Consensus       142 -~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~-~~~L~~L~Ls~N~l~~----~g~~~L~~~L~---~~~~  212 (372)
T 3un9_A          142 -ACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAG-NTSVTHLSLLHTGLGD----EGLELLAAQLD---RNRQ  212 (372)
T ss_dssp             -HHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHT-CSSCCEEECTTSSCHH----HHHHHHHHHGG---GCSC
T ss_pred             -HHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHhc-CCCcCEEeCCCCCCCc----HHHHHHHHHHh---cCCC
Confidence             1223333332 24555555555555555555555554432 3455555555555552    22233334444   2245


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI  402 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~  402 (462)
                      |++|+|++|.|++.|+..++.++..+++|++|+|++|.|++.|+..+.
T Consensus       213 L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~g~~~L~  260 (372)
T 3un9_A          213 LQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELSSEGRQVLR  260 (372)
T ss_dssp             CCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCCHHHHHHHH
T ss_pred             cCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCCHHHHHHHH
Confidence            555555555555555555555555555555555555555555555443

>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=99.86  E-value=7.9e-21  Score=183.15  Aligned_cols=216  Identities=18%  Similarity=0.208  Sum_probs=166.6

Q ss_pred             hhhcCCCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCC-CC
Q 012512          192 QLLRESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDIS-SF  269 (462)
Q Consensus       192 ~l~~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~-~~  269 (462)
                      .++.+++|++|++++|.+... ....    ...+++|++|++++|.+++..+..+..        +++|++|++++| .+
T Consensus        88 ~~~~~~~L~~L~L~~~~l~~~~~~~~----~~~~~~L~~L~L~~~~l~~~~~~~l~~--------~~~L~~L~L~~~~~l  155 (336)
T 2ast_B           88 EHFSPFRVQHMDLSNSVIEVSTLHGI----LSQCSKLQNLSLEGLRLSDPIVNTLAK--------NSNLVRLNLSGCSGF  155 (336)
T ss_dssp             SCCCCBCCCEEECTTCEECHHHHHHH----HTTBCCCSEEECTTCBCCHHHHHHHTT--------CTTCSEEECTTCBSC
T ss_pred             hhccCCCCCEEEccCCCcCHHHHHHH----HhhCCCCCEEeCcCcccCHHHHHHHhc--------CCCCCEEECCCCCCC
Confidence            355678899999999986543 4333    567899999999999999877776644        789999999999 56


Q ss_pred             CCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCC-CccEEEecCC--CCCCcccccCcccHHHh
Q 012512          270 IENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASS-SLSILDLSGN--SIGGWLSKYDRSGPLFS  345 (462)
Q Consensus       270 ~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~-~L~~L~Ls~n--~l~~~~~~~~~~~l~~~  345 (462)
                      ++       ..+...+..+++|++|++++| .+++.+...+..    .++ +|++|++++|  .+++       ..++..
T Consensus       156 ~~-------~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~----~l~~~L~~L~l~~~~~~~~~-------~~l~~~  217 (336)
T 2ast_B          156 SE-------FALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVA----HVSETITQLNLSGYRKNLQK-------SDLSTL  217 (336)
T ss_dssp             CH-------HHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHH----HSCTTCCEEECCSCGGGSCH-------HHHHHH
T ss_pred             CH-------HHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHH----hcccCCCEEEeCCCcccCCH-------HHHHHH
Confidence            54       347777888999999999999 999876555433    357 9999999999  4542       123455


Q ss_pred             hhCCCCCCCccEEEccCCC-CCcchHHHHHHHhhcCCCCCEEeCCCC-CCCchhHHhHHHHHHhhcCCCCCccEEEccCC
Q 012512          346 LGAGKSLQSLRLLNLRGNN-LCKADARDLGSALVHIPNLEILDISDN-TIEDDGIRSLIPYFVQASERCNPLVELYLENC  423 (462)
Q Consensus       346 l~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~N-~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n  423 (462)
                      +.   ++++|++|++++|. +++.    .+..+.++++|++|++++| .+.+.++.        .+..+++|+.|++++|
T Consensus       218 ~~---~~~~L~~L~l~~~~~l~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~--------~l~~~~~L~~L~l~~~  282 (336)
T 2ast_B          218 VR---RCPNLVHLDLSDSVMLKND----CFQEFFQLNYLQHLSLSRCYDIIPETLL--------ELGEIPTLKTLQVFGI  282 (336)
T ss_dssp             HH---HCTTCSEEECTTCTTCCGG----GGGGGGGCTTCCEEECTTCTTCCGGGGG--------GGGGCTTCCEEECTTS
T ss_pred             Hh---hCCCCCEEeCCCCCcCCHH----HHHHHhCCCCCCEeeCCCCCCCCHHHHH--------HHhcCCCCCEEeccCc
Confidence            55   45899999999999 7874    3456788999999999999 57765542        3455799999999999


Q ss_pred             CCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          424 ELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       424 ~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                       +++.+...+...       ++.|++++|++++..|.
T Consensus       283 -i~~~~~~~l~~~-------l~~L~l~~n~l~~~~~~  311 (336)
T 2ast_B          283 -VPDGTLQLLKEA-------LPHLQINCSHFTTIARP  311 (336)
T ss_dssp             -SCTTCHHHHHHH-------STTSEESCCCSCCTTCS
T ss_pred             -cCHHHHHHHHhh-------CcceEEecccCccccCC
Confidence             888776665432       55577899999987764

>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=99.85  E-value=7.9e-23  Score=218.72  Aligned_cols=244  Identities=21%  Similarity=0.224  Sum_probs=160.9

Q ss_pred             ceeeeccccch-HhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          177 RCLRLQNALCV-EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       177 ~~l~l~~~~~~-~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      +.+++.++... ..+..+..+++|++|++++|.+....+..    +..+++|++|++++|.++...+..+..        
T Consensus       421 ~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~----~~~l~~L~~L~L~~N~l~~~~p~~l~~--------  488 (768)
T 3rgz_A          421 VSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQE----LMYVKTLETLILDFNDLTGEIPSGLSN--------  488 (768)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGG----GGGCTTCCEEECCSSCCCSCCCGGGGG--------
T ss_pred             CEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHH----HcCCCCceEEEecCCcccCcCCHHHhc--------
Confidence            33444444333 23334445555555555555443221111    234556666666666555433332222        


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|.+..        .++..+..+++|++|+|++|.+.+..+..+     ..+++|+.|++++|.+++.+|
T Consensus       489 l~~L~~L~L~~N~l~~--------~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l-----~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          489 CTNLNWISLSNNRLTG--------EIPKWIGRLENLAILKLSNNSFSGNIPAEL-----GDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             CTTCCEEECCSSCCCS--------CCCGGGGGCTTCCEEECCSSCCEEECCGGG-----GGCTTCCEEECCSSEEESBCC
T ss_pred             CCCCCEEEccCCccCC--------cCChHHhcCCCCCEEECCCCcccCcCCHHH-----cCCCCCCEEECCCCccCCcCC
Confidence            5667777777777765        355566677778888888887776555543     346778888888887776554


Q ss_pred             ccCcccH--------------------------------------HH---------------------hhhCCCCCCCcc
Q 012512          336 KYDRSGP--------------------------------------LF---------------------SLGAGKSLQSLR  356 (462)
Q Consensus       336 ~~~~~~l--------------------------------------~~---------------------~l~~~~~l~~L~  356 (462)
                      .......                                      +.                     ....+..+.+|+
T Consensus       556 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~  635 (768)
T 3rgz_A          556 AAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMM  635 (768)
T ss_dssp             GGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCC
T ss_pred             hHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhcccccc
Confidence            2100000                                      00                     000123457899


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHH
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT  436 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~  436 (462)
                      .|+|++|+++.    .+|..++.+++|+.|+|++|.++..     +|   ..++.+++|+.|+|++|++++.    +++.
T Consensus       636 ~LdLs~N~l~g----~ip~~l~~l~~L~~L~Ls~N~l~g~-----ip---~~l~~L~~L~~LdLs~N~l~g~----ip~~  699 (768)
T 3rgz_A          636 FLDMSYNMLSG----YIPKEIGSMPYLFILNLGHNDISGS-----IP---DEVGDLRGLNILDLSSNKLDGR----IPQA  699 (768)
T ss_dssp             EEECCSSCCBS----CCCGGGGGCTTCCEEECCSSCCCSC-----CC---GGGGGCTTCCEEECCSSCCEEC----CCGG
T ss_pred             EEECcCCcccc----cCCHHHhccccCCEEeCcCCccCCC-----CC---hHHhCCCCCCEEECCCCcccCc----CChH
Confidence            99999999997    4888999999999999999999864     66   6788889999999999999976    7778


Q ss_pred             HhcCCCCCcEEEccCCCCCCccccCC
Q 012512          437 LSTLRRPPTSLSIADNNLGRFCANSG  462 (462)
Q Consensus       437 l~~l~~~L~~L~Ls~N~l~~~~~~~~  462 (462)
                      +..+ ++|++||+++|++++.+|..|
T Consensus       700 l~~l-~~L~~L~ls~N~l~g~iP~~~  724 (768)
T 3rgz_A          700 MSAL-TMLTEIDLSNNNLSGPIPEMG  724 (768)
T ss_dssp             GGGC-CCCSEEECCSSEEEEECCSSS
T ss_pred             HhCC-CCCCEEECcCCcccccCCCch
Confidence            8885 569999999999999998764

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=99.85  E-value=4.8e-21  Score=186.70  Aligned_cols=213  Identities=18%  Similarity=0.157  Sum_probs=172.9

Q ss_pred             CCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCCh
Q 012512          224 SETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       224 ~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~  303 (462)
                      +++|++|+|++|.+++.....++..+...   ..+|++|++++|.+.+       ..+......+++|++|+|++|.+++
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~---~~~L~~L~Ls~n~l~~-------~~~~~l~~~L~~L~~L~Ls~n~l~~  140 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSG---RHALDEVNLASCQLDP-------AGLRTLLPVFLRARKLGLQLNSLGP  140 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSC---SSCEEEEECTTCCCCH-------HHHHHTHHHHHTEEEEECCSSCCCH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhC---CCCceEEEecCCCCCH-------HHHHHHHHHHHhccHhhcCCCCCCH
Confidence            46899999999999999999998887753   4689999999999876       2233333345689999999999999


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .++..++..+....++|++|+|++|.+++    .+...++..+.   .+++|++|+|++|.|++.|+..++.++..+++|
T Consensus       141 ~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~----~~~~~l~~~L~---~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L  213 (372)
T 3un9_A          141 EACKDLRDLLLHDQCQITTLRLSNNPLTA----AGVAVLMEGLA---GNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQL  213 (372)
T ss_dssp             HHHHHHHHHHHSTTCCCCEEECCSSCCHH----HHHHHHHHHHH---TCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCC
T ss_pred             HHHHHHHHHHHhcCCccceeeCCCCCCCh----HHHHHHHHHHh---cCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCc
Confidence            99999999887667899999999999983    45566777777   457899999999999999999999999999999


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEE--ccCCCCCCc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLS--IADNNLGRF  457 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~--Ls~N~l~~~  457 (462)
                      ++|+|++|.|++.|+..+..    .+..+++|++|+|++|.|++.|+..+.+........|+.+.  +..|.++++
T Consensus       214 ~~L~Ls~N~i~~~g~~~l~~----~L~~~~~L~~L~Ls~N~i~~~g~~~L~~~~~~~~~~L~~l~~ll~~~~~~~~  285 (372)
T 3un9_A          214 QELNVAYNGAGDTAALALAR----AAREHPSLELLHLYFNELSSEGRQVLRDLGGAAEGGARVVVSLTEGTAVSEY  285 (372)
T ss_dssp             CEEECCSSCCCHHHHHHHHH----HHHHCSSCCEEECTTSSCCHHHHHHHHHCC------CEEECCCC----CHHH
T ss_pred             CeEECCCCCCCHHHHHHHHH----HHHhCCCCCEEeccCCCCCHHHHHHHHHHhcCCCccchhhHhhhcCCccCHH
Confidence            99999999999999988875    44566899999999999999999988875543112388888  888877654

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

Probab=99.84  E-value=4e-23  Score=197.30  Aligned_cols=232  Identities=18%  Similarity=0.163  Sum_probs=171.7

Q ss_pred             ccceeeeccccch---HhhhhhhcCCCcCEEEecc-CCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHh
Q 012512          175 YARCLRLQNALCV---EETCQLLRESKLQSLVLRW-IRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLC  250 (462)
Q Consensus       175 ~~~~l~l~~~~~~---~~~~~l~~~~~L~~L~L~~-~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~  250 (462)
                      .++.+++.++...   .++..+.++++|++|++++ |.+....+..    +..+++|++|++++|.++...+..+..   
T Consensus        51 ~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L~~~n~l~~~~p~~----l~~l~~L~~L~Ls~n~l~~~~p~~~~~---  123 (313)
T 1ogq_A           51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA----IAKLTQLHYLYITHTNVSGAIPDFLSQ---  123 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG----GGGCTTCSEEEEEEECCEEECCGGGGG---
T ss_pred             eEEEEECCCCCccCCcccChhHhCCCCCCeeeCCCCCcccccCChh----HhcCCCCCEEECcCCeeCCcCCHHHhC---
Confidence            4555666666555   3566778889999999984 6654332211    356889999999999887544444332   


Q ss_pred             cccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCC-CccEEEecCCC
Q 012512          251 SKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASS-SLSILDLSGNS  329 (462)
Q Consensus       251 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~-~L~~L~Ls~n~  329 (462)
                           +.+|++|++++|.+..        .++..+..+++|++|++++|.+++..+..+     ..+. .|++|++++|.
T Consensus       124 -----l~~L~~L~Ls~N~l~~--------~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l-----~~l~~~L~~L~L~~N~  185 (313)
T 1ogq_A          124 -----IKTLVTLDFSYNALSG--------TLPPSISSLPNLVGITFDGNRISGAIPDSY-----GSFSKLFTSMTISRNR  185 (313)
T ss_dssp             -----CTTCCEEECCSSEEES--------CCCGGGGGCTTCCEEECCSSCCEEECCGGG-----GCCCTTCCEEECCSSE
T ss_pred             -----CCCCCEEeCCCCccCC--------cCChHHhcCCCCCeEECcCCcccCcCCHHH-----hhhhhcCcEEECcCCe
Confidence                 7889999999998875        355667788999999999999886555544     3345 89999999999


Q ss_pred             CCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhc
Q 012512          330 IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQAS  409 (462)
Q Consensus       330 l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l  409 (462)
                      +++..|        ..+..   +. |+.|++++|++++    .++..+..+++|+.|++++|.++..     .    ..+
T Consensus       186 l~~~~~--------~~~~~---l~-L~~L~Ls~N~l~~----~~~~~~~~l~~L~~L~L~~N~l~~~-----~----~~~  240 (313)
T 1ogq_A          186 LTGKIP--------PTFAN---LN-LAFVDLSRNMLEG----DASVLFGSDKNTQKIHLAKNSLAFD-----L----GKV  240 (313)
T ss_dssp             EEEECC--------GGGGG---CC-CSEEECCSSEEEE----CCGGGCCTTSCCSEEECCSSEECCB-----G----GGC
T ss_pred             eeccCC--------hHHhC---Cc-ccEEECcCCcccC----cCCHHHhcCCCCCEEECCCCceeee-----c----Ccc
Confidence            886555        45553   33 9999999998886    3566788889999999999998752     3    235


Q ss_pred             CCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccccC
Q 012512          410 ERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCANS  461 (462)
Q Consensus       410 ~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~~  461 (462)
                      ..+++|++|++++|++++.    ++..+..+ ++|++|++++|+|++.+|..
T Consensus       241 ~~l~~L~~L~Ls~N~l~~~----~p~~l~~l-~~L~~L~Ls~N~l~~~ip~~  287 (313)
T 1ogq_A          241 GLSKNLNGLDLRNNRIYGT----LPQGLTQL-KFLHSLNVSFNNLCGEIPQG  287 (313)
T ss_dssp             CCCTTCCEEECCSSCCEEC----CCGGGGGC-TTCCEEECCSSEEEEECCCS
T ss_pred             cccCCCCEEECcCCcccCc----CChHHhcC-cCCCEEECcCCcccccCCCC
Confidence            6678999999999998854    56667774 56999999999998877754

>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=99.82  E-value=1.3e-21  Score=209.31  Aligned_cols=232  Identities=24%  Similarity=0.274  Sum_probs=168.7

Q ss_pred             cceeeeccccch-HhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          176 ARCLRLQNALCV-EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       176 ~~~l~l~~~~~~-~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      ++.+.+.++... ..+..+.++++|++|++++|.+....+..    +..+++|++|++++|.+....+..+..       
T Consensus       396 L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~----l~~l~~L~~L~L~~n~l~~~~p~~~~~-------  464 (768)
T 3rgz_A          396 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSS----LGSLSKLRDLKLWLNMLEGEIPQELMY-------  464 (768)
T ss_dssp             CCEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGG----GGGCTTCCEEECCSSCCCSCCCGGGGG-------
T ss_pred             ccEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHH----HhcCCCCCEEECCCCcccCcCCHHHcC-------
Confidence            556666666554 34556677888888888888755332211    345778888888888777554444332       


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                       +++|++|++++|.+..        .++..+..+++|++|++++|++.+..+..+     ..+++|++|++++|.+++..
T Consensus       465 -l~~L~~L~L~~N~l~~--------~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~-----~~l~~L~~L~L~~N~l~~~~  530 (768)
T 3rgz_A          465 -VKTLETLILDFNDLTG--------EIPSGLSNCTNLNWISLSNNRLTGEIPKWI-----GRLENLAILKLSNNSFSGNI  530 (768)
T ss_dssp             -CTTCCEEECCSSCCCS--------CCCGGGGGCTTCCEEECCSSCCCSCCCGGG-----GGCTTCCEEECCSSCCEEEC
T ss_pred             -CCCceEEEecCCcccC--------cCCHHHhcCCCCCEEEccCCccCCcCChHH-----hcCCCCCEEECCCCcccCcC
Confidence             6788888888888876        455667778888888888888887666544     34688888888888888765


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH---------------------------------------
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS---------------------------------------  375 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~---------------------------------------  375 (462)
                      |        ..+.   .+++|+.|++++|.++..    +|.                                       
T Consensus       531 p--------~~l~---~l~~L~~L~Ls~N~l~g~----ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  595 (768)
T 3rgz_A          531 P--------AELG---DCRSLIWLDLNTNLFNGT----IPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLE  595 (768)
T ss_dssp             C--------GGGG---GCTTCCEEECCSSEEESB----CCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEE
T ss_pred             C--------HHHc---CCCCCCEEECCCCccCCc----CChHHhcccchhhhhccccccccccccccccccccccccccc
Confidence            5        5555   557888999988876531    222                                       


Q ss_pred             -------------------------------HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          376 -------------------------------ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       376 -------------------------------~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                                                     .+..+++|+.||+++|.++..     +|   ..++.++.|+.|+|++|+
T Consensus       596 ~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~-----ip---~~l~~l~~L~~L~Ls~N~  667 (768)
T 3rgz_A          596 FQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGY-----IP---KEIGSMPYLFILNLGHND  667 (768)
T ss_dssp             CTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSC-----CC---GGGGGCTTCCEEECCSSC
T ss_pred             cccccchhhhccccccccccccceecccCchhhhccccccEEECcCCccccc-----CC---HHHhccccCCEEeCcCCc
Confidence                                           233456788999999988754     55   667888999999999999


Q ss_pred             CChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          425 LSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       425 l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                      +++.    +++.+..+ ++|++|||++|++++.+|.
T Consensus       668 l~g~----ip~~l~~L-~~L~~LdLs~N~l~g~ip~  698 (768)
T 3rgz_A          668 ISGS----IPDEVGDL-RGLNILDLSSNKLDGRIPQ  698 (768)
T ss_dssp             CCSC----CCGGGGGC-TTCCEEECCSSCCEECCCG
T ss_pred             cCCC----CChHHhCC-CCCCEEECCCCcccCcCCh
Confidence            9875    77788885 5599999999999988875

>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=99.82  E-value=2.3e-20  Score=187.65  Aligned_cols=251  Identities=18%  Similarity=0.144  Sum_probs=128.9

Q ss_pred             ccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++..... +..+.++++|++|++++|.+......  ...+..+++|++|++++|.++...+..+.       
T Consensus        80 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~--~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-------  150 (455)
T 3v47_A           80 SLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLS--GNFFKPLTSLEMLVLRDNNIKKIQPASFF-------  150 (455)
T ss_dssp             TCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHH--SSTTTTCTTCCEEECCSSBCCSCCCCGGG-------
T ss_pred             cCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccC--cccccCcccCCEEECCCCccCccCccccc-------
Confidence            345566666655443 44555667777777777766543211  01123466777777777766543322211       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchh--------------------------HHHHHHhhcCCCCCCEEecCCCCCChhhHH
Q 012512          254 KRIHKIENLSIDISSFIENCPSSV--------------------------VVELVSFLSSGRSLCSLKLRHCHLDRDFGR  307 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~--------------------------~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~  307 (462)
                      ..+.+|++|++++|.+.......+                          .......+..+++|++|++++|.+.+..+.
T Consensus       151 ~~l~~L~~L~L~~n~l~~~~~~~l~~l~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~  230 (455)
T 3v47_A          151 LNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAK  230 (455)
T ss_dssp             GGCTTCCEEECTTCCBSCCCTTTSGGGTTCEEEEEECTTCBCTTCSTTCTTHHHHCCTTTTCEEEEEECTTSCCCHHHHH
T ss_pred             CCCCcccEEeCCCCcccccChhhhhccccccccccccccCcccccchhhccccccccccccceeeeEecCCCcccccchh
Confidence            115666666666666554222110                          001111123446788888888888777776


Q ss_pred             HHHHHHhh----------------------------------CCCCccEEEecCCCCCCcccccCcccHHHhhh------
Q 012512          308 MVFSSLLE----------------------------------ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLG------  347 (462)
Q Consensus       308 ~l~~~l~~----------------------------------~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~------  347 (462)
                      .+...+..                                  ..++|++|++++|.+++..+        ..+.      
T Consensus       231 ~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~--------~~~~~l~~L~  302 (455)
T 3v47_A          231 RFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLK--------SVFSHFTDLE  302 (455)
T ss_dssp             HHHHHTTTCCEEEEECTTCTTTSCCTTCCSSCCCCTTTTGGGTTSCCCEEECCSSCCCEECT--------TTTTTCTTCC
T ss_pred             hhhccccccceeeEeeccccccccccchhhhccCcccccccccccCceEEEecCccccccch--------hhcccCCCCC
Confidence            66543110                                  01244444444444443222        1111      


Q ss_pred             ---------------CCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCC
Q 012512          348 ---------------AGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERC  412 (462)
Q Consensus       348 ---------------~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~  412 (462)
                                     .+.++++|++|+|++|.+++.    .+..+..+++|++|++++|.|++.     .+   ..+..+
T Consensus       303 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~----~~~~~~~l~~L~~L~Ls~N~l~~~-----~~---~~~~~l  370 (455)
T 3v47_A          303 QLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSI----DSRMFENLDKLEVLDLSYNHIRAL-----GD---QSFLGL  370 (455)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEE----CGGGGTTCTTCCEEECCSSCCCEE-----CT---TTTTTC
T ss_pred             EEECCCCcccccChhHhcCcccCCEEECCCCccCCc----ChhHhcCcccCCEEECCCCccccc-----Ch---hhcccc
Confidence                           122445566666666665541    234455566666666666666541     12   345555


Q ss_pred             CCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          413 NPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       413 ~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++|+.|++++|+++..    ..+.+.. .++|++|++++|++++..+
T Consensus       371 ~~L~~L~L~~N~l~~~----~~~~~~~-l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          371 PNLKELALDTNQLKSV----PDGIFDR-LTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             TTCCEEECCSSCCSCC----CTTTTTT-CTTCCEEECCSSCBCCCTT
T ss_pred             ccccEEECCCCccccC----CHhHhcc-CCcccEEEccCCCcccCCC
Confidence            6666666666666652    1122333 2446777777777666554

>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=99.82  E-value=2.1e-20  Score=187.94  Aligned_cols=115  Identities=17%  Similarity=0.185  Sum_probs=55.6

Q ss_pred             cceeeeccccchH-h-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          176 ARCLRLQNALCVE-E-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       176 ~~~l~l~~~~~~~-~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      ++.+++.++.... + +..+.++++|++|++++|.+.......    +.++++|++|++++|.+++..+..      ...
T Consensus        56 L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~~~~~~------~~~  125 (455)
T 3v47_A           56 LQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGA----FNGLANLEVLTLTQCNLDGAVLSG------NFF  125 (455)
T ss_dssp             CCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTT----TTTCTTCCEEECTTSCCBTHHHHS------STT
T ss_pred             ccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhh----ccCcccCCEEeCCCCCCCccccCc------ccc
Confidence            3445555544321 1 233445566666666666543321111    234566666666666665433221      001


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHH
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR  307 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~  307 (462)
                      ..+.+|++|++++|.+.....       ...+..+++|++|++++|.+.+..+.
T Consensus       126 ~~l~~L~~L~L~~n~l~~~~~-------~~~~~~l~~L~~L~L~~n~l~~~~~~  172 (455)
T 3v47_A          126 KPLTSLEMLVLRDNNIKKIQP-------ASFFLNMRRFHVLDLTFNKVKSICEE  172 (455)
T ss_dssp             TTCTTCCEEECCSSBCCSCCC-------CGGGGGCTTCCEEECTTCCBSCCCTT
T ss_pred             cCcccCCEEECCCCccCccCc-------ccccCCCCcccEEeCCCCcccccChh
Confidence            114566666666666554111       11245556666666666666554333

>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=99.81  E-value=4.5e-20  Score=179.23  Aligned_cols=235  Identities=17%  Similarity=0.143  Sum_probs=142.7

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....++. .+.++++|++|++++|.+.......    +.++++|++|++++|.++......+..      
T Consensus        53 ~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~Ls~n~l~~~~~~~~~~------  122 (353)
T 2z80_A           53 AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDS----FSSLGSLEHLDLSYNYLSNLSSSWFKP------  122 (353)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTT----TTTCTTCCEEECCSSCCSSCCHHHHTT------
T ss_pred             cCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhh----cCCCCCCCEEECCCCcCCcCCHhHhCC------
Confidence            56677777776665554 5667888899999888765432221    346788899999988887544443332      


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCC
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGG  332 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  332 (462)
                        +++|++|++++|.+.....       ...+..+++|++|++++| .+....+..     +..+++|++|++++|.+++
T Consensus       123 --l~~L~~L~L~~n~l~~l~~-------~~~~~~l~~L~~L~l~~n~~~~~~~~~~-----~~~l~~L~~L~l~~n~l~~  188 (353)
T 2z80_A          123 --LSSLTFLNLLGNPYKTLGE-------TSLFSHLTKLQILRVGNMDTFTKIQRKD-----FAGLTFLEELEIDASDLQS  188 (353)
T ss_dssp             --CTTCSEEECTTCCCSSSCS-------SCSCTTCTTCCEEEEEESSSCCEECTTT-----TTTCCEEEEEEEEETTCCE
T ss_pred             --CccCCEEECCCCCCcccCc-------hhhhccCCCCcEEECCCCccccccCHHH-----ccCCCCCCEEECCCCCcCc
Confidence              6788899998888876221       024567788888888888 455533332     2446788888888888876


Q ss_pred             cccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCC
Q 012512          333 WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER  411 (462)
Q Consensus       333 ~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~  411 (462)
                      ..+        ..+.   .+++|++|++++|+++.     ++. .+..+++|+.|++++|.+++.+...+     .....
T Consensus       189 ~~~--------~~l~---~l~~L~~L~l~~n~l~~-----~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l-----~~~~~  247 (353)
T 2z80_A          189 YEP--------KSLK---SIQNVSHLILHMKQHIL-----LLEIFVDVTSSVECLELRDTDLDTFHFSEL-----STGET  247 (353)
T ss_dssp             ECT--------TTTT---TCSEEEEEEEECSCSTT-----HHHHHHHHTTTEEEEEEESCBCTTCCCC-----------C
T ss_pred             cCH--------HHHh---ccccCCeecCCCCcccc-----chhhhhhhcccccEEECCCCcccccccccc-----ccccc
Confidence            433        3333   55788888888888865     443 34457788888888887765321111     11122


Q ss_pred             CCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          412 CNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ...++.++++++.+++.+...+++.+.. .++|++|++++|+|+
T Consensus       248 ~~~l~~l~L~~~~l~~~~l~~l~~~l~~-l~~L~~L~Ls~N~l~  290 (353)
T 2z80_A          248 NSLIKKFTFRNVKITDESLFQVMKLLNQ-ISGLLELEFSRNQLK  290 (353)
T ss_dssp             CCCCCEEEEESCBCCHHHHHHHHHHHHT-CTTCCEEECCSSCCC
T ss_pred             cchhhccccccccccCcchhhhHHHHhc-ccCCCEEECCCCCCC
Confidence            2344444444444444444444444444 223444444444443

>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=99.80  E-value=5.3e-21  Score=183.71  Aligned_cols=223  Identities=19%  Similarity=0.183  Sum_probs=133.9

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .+..+++.++....++..+.++++|++|++++|.+......     +..+++|++|+|++|.++ ..+..+.        
T Consensus        82 ~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~-----~~~l~~L~~L~Ls~n~l~-~lp~~l~--------  147 (328)
T 4fcg_A           82 GRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDT-----MQQFAGLETLTLARNPLR-ALPASIA--------  147 (328)
T ss_dssp             TCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSC-----GGGGTTCSEEEEESCCCC-CCCGGGG--------
T ss_pred             ceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHH-----HhccCCCCEEECCCCccc-cCcHHHh--------
Confidence            34555666665555566666677777777777765522211     245677777777777766 2222221        


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHh---------hcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEe
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSF---------LSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDL  325 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~---------l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L  325 (462)
                      .+.+|++|++++|.+..        .++..         +..+++|++|++++|.++. .+..+     ..+++|++|++
T Consensus       148 ~l~~L~~L~L~~n~~~~--------~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~-lp~~l-----~~l~~L~~L~L  213 (328)
T 4fcg_A          148 SLNRLRELSIRACPELT--------ELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS-LPASI-----ANLQNLKSLKI  213 (328)
T ss_dssp             GCTTCCEEEEEEETTCC--------CCCSCSEEEC-CCCEEESTTCCEEEEEEECCCC-CCGGG-----GGCTTCCEEEE
T ss_pred             cCcCCCEEECCCCCCcc--------ccChhHhhccchhhhccCCCCCEEECcCCCcCc-chHhh-----cCCCCCCEEEc
Confidence            15677777777765544        22222         2336777777777777662 33322     33567777777


Q ss_pred             cCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHH
Q 012512          326 SGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYF  405 (462)
Q Consensus       326 s~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l  405 (462)
                      ++|.+++         ++..+.   ++++|++|+|++|++..    .++..+..+++|+.|++++|.+...     +|  
T Consensus       214 ~~N~l~~---------l~~~l~---~l~~L~~L~Ls~n~~~~----~~p~~~~~l~~L~~L~L~~n~~~~~-----~p--  270 (328)
T 4fcg_A          214 RNSPLSA---------LGPAIH---HLPKLEELDLRGCTALR----NYPPIFGGRAPLKRLILKDCSNLLT-----LP--  270 (328)
T ss_dssp             ESSCCCC---------CCGGGG---GCTTCCEEECTTCTTCC----BCCCCTTCCCCCCEEECTTCTTCCB-----CC--
T ss_pred             cCCCCCc---------Cchhhc---cCCCCCEEECcCCcchh----hhHHHhcCCCCCCEEECCCCCchhh-----cc--
Confidence            7777764         112333   44677777777776665    3555667777777777777665432     43  


Q ss_pred             HhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCC
Q 012512          406 VQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       406 ~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                       ..+..+++|+.|++++|++...    +++.+..+ ++|+.+++..|.+
T Consensus       271 -~~~~~l~~L~~L~L~~n~~~~~----iP~~l~~L-~~L~~l~l~~~~~  313 (328)
T 4fcg_A          271 -LDIHRLTQLEKLDLRGCVNLSR----LPSLIAQL-PANCIILVPPHLQ  313 (328)
T ss_dssp             -TTGGGCTTCCEEECTTCTTCCC----CCGGGGGS-CTTCEEECCGGGS
T ss_pred             -hhhhcCCCCCEEeCCCCCchhh----ccHHHhhc-cCceEEeCCHHHH
Confidence             4455667777777777776554    56666664 3477777766654

>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=99.80  E-value=3.2e-20  Score=174.69  Aligned_cols=206  Identities=20%  Similarity=0.191  Sum_probs=137.1

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCC-CCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISS-FIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~  275 (462)
                      +++++|++++|.+.......    +..+++|++|++++|.++...+..+..        +++|++|++++|. +..    
T Consensus        32 ~~l~~L~l~~n~i~~~~~~~----~~~~~~L~~L~l~~n~l~~~~~~~~~~--------l~~L~~L~l~~n~~l~~----   95 (285)
T 1ozn_A           32 AASQRIFLHGNRISHVPAAS----FRACRNLTILWLHSNVLARIDAAAFTG--------LALLEQLDLSDNAQLRS----   95 (285)
T ss_dssp             TTCSEEECTTSCCCEECTTT----TTTCTTCCEEECCSSCCCEECTTTTTT--------CTTCCEEECCSCTTCCC----
T ss_pred             CCceEEEeeCCcCCccCHHH----cccCCCCCEEECCCCccceeCHhhcCC--------ccCCCEEeCCCCCCccc----
Confidence            56788888887765433221    345778888888888776543333322        6778888888886 554    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                          .....+..+++|++|++++|.+....+..     +..+++|++|++++|.+++..+        ..+.   .+++|
T Consensus        96 ----~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~~~~~--------~~~~---~l~~L  155 (285)
T 1ozn_A           96 ----VDPATFHGLGRLHTLHLDRCGLQELGPGL-----FRGLAALQYLYLQDNALQALPD--------DTFR---DLGNL  155 (285)
T ss_dssp             ----CCTTTTTTCTTCCEEECTTSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--------TTTT---TCTTC
T ss_pred             ----cCHHHhcCCcCCCEEECCCCcCCEECHhH-----hhCCcCCCEEECCCCcccccCH--------hHhc---cCCCc
Confidence                12345666778888888888877644432     2446788888888888775322        2222   55778


Q ss_pred             cEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHH
Q 012512          356 RLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      ++|+|++|+++.     ++. .+..+++|++|++++|.+++.     .+   ..+..+++|+.|++++|+++..    ..
T Consensus       156 ~~L~l~~n~l~~-----~~~~~~~~l~~L~~L~l~~n~l~~~-----~~---~~~~~l~~L~~L~l~~n~l~~~----~~  218 (285)
T 1ozn_A          156 THLFLHGNRISS-----VPERAFRGLHSLDRLLLHQNRVAHV-----HP---HAFRDLGRLMTLYLFANNLSAL----PT  218 (285)
T ss_dssp             CEEECCSSCCCE-----ECTTTTTTCTTCCEEECCSSCCCEE-----CT---TTTTTCTTCCEEECCSSCCSCC----CH
T ss_pred             cEEECCCCcccc-----cCHHHhcCccccCEEECCCCccccc-----CH---hHccCcccccEeeCCCCcCCcC----CH
Confidence            888888888875     333 467778888888888887762     22   4566677888888888888774    23


Q ss_pred             HHHhcCCCCCcEEEccCCCCCC
Q 012512          435 DTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +.+.. .++|++|++++|++..
T Consensus       219 ~~~~~-l~~L~~L~l~~N~~~c  239 (285)
T 1ozn_A          219 EALAP-LRALQYLRLNDNPWVC  239 (285)
T ss_dssp             HHHTT-CTTCCEEECCSSCEEC
T ss_pred             HHccc-CcccCEEeccCCCccC
Confidence            44555 3558888888887754

>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=99.79  E-value=1.7e-20  Score=178.51  Aligned_cols=231  Identities=19%  Similarity=0.198  Sum_probs=174.0

Q ss_pred             cccceeeeccccchHhhhh-hhcCCCcCEEEeccCCChHH---HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHH
Q 012512          174 HYARCLRLQNALCVEETCQ-LLRESKLQSLVLRWIRFEEH---VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSL  249 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~~-l~~~~~L~~L~L~~~~~~~~---~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l  249 (462)
                      ..++.+++.++....++.. +.++++|++|++++|.+...   ...     ...+++|++|++++|.+...         
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~-----~~~~~~L~~L~Ls~n~i~~l---------   93 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQS-----DFGTTSLKYLDLSFNGVITM---------   93 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHH-----HHSCSCCCEEECCSCSEEEE---------
T ss_pred             CCCCEEECCCCccCccCHhHhhccccCCEEECCCCccCcccCcccc-----cccccccCEEECCCCccccC---------
Confidence            3567778888777766655 45889999999999986532   111     23579999999999987631         


Q ss_pred             hcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC
Q 012512          250 CSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS  329 (462)
Q Consensus       250 ~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~  329 (462)
                      ......+.+|++|++++|.+.....       ...+..+++|++|++++|.+....+..     +..+++|++|++++|.
T Consensus        94 ~~~~~~l~~L~~L~l~~n~l~~~~~-------~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~  161 (306)
T 2z66_A           94 SSNFLGLEQLEHLDFQHSNLKQMSE-------FSVFLSLRNLIYLDISHTHTRVAFNGI-----FNGLSSLEVLKMAGNS  161 (306)
T ss_dssp             EEEEETCTTCCEEECTTSEEESSTT-------TTTTTTCTTCCEEECTTSCCEECSTTT-----TTTCTTCCEEECTTCE
T ss_pred             hhhcCCCCCCCEEECCCCccccccc-------chhhhhccCCCEEECCCCcCCccchhh-----cccCcCCCEEECCCCc
Confidence            1222337899999999998877221       145678899999999999987654443     3457899999999999


Q ss_pred             CCC-cccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhh
Q 012512          330 IGG-WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA  408 (462)
Q Consensus       330 l~~-~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~  408 (462)
                      +++ ..+        .   .+..+++|++|++++|++++.    .+..+..+++|++|++++|.+++      ++.  ..
T Consensus       162 l~~~~~~--------~---~~~~l~~L~~L~Ls~n~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~  218 (306)
T 2z66_A          162 FQENFLP--------D---IFTELRNLTFLDLSQCQLEQL----SPTAFNSLSSLQVLNMSHNNFFS------LDT--FP  218 (306)
T ss_dssp             EGGGEEC--------S---CCTTCTTCCEEECTTSCCCEE----CTTTTTTCTTCCEEECTTSCCSB------CCS--GG
T ss_pred             cccccch--------h---HHhhCcCCCEEECCCCCcCCc----CHHHhcCCCCCCEEECCCCccCc------cCh--hh
Confidence            875 222        2   233668999999999999972    35678889999999999999987      321  34


Q ss_pred             cCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          409 SERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       409 l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +..+++|+.|++++|+++..    .+..+..+.++|++|++++|+++..
T Consensus       219 ~~~l~~L~~L~L~~N~l~~~----~~~~~~~~~~~L~~L~L~~N~~~~~  263 (306)
T 2z66_A          219 YKCLNSLQVLDYSLNHIMTS----KKQELQHFPSSLAFLNLTQNDFACT  263 (306)
T ss_dssp             GTTCTTCCEEECTTSCCCBC----SSSSCCCCCTTCCEEECTTCCEECS
T ss_pred             ccCcccCCEeECCCCCCccc----CHHHHHhhhccCCEEEccCCCeecc
Confidence            67789999999999999885    3445555445799999999999754

>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=99.79  E-value=4.3e-20  Score=177.65  Aligned_cols=64  Identities=23%  Similarity=0.378  Sum_probs=32.7

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      ++++|+.|+|++|++++.    .+..+..+++|++|++++|.++.      +|   ..+..+++|+.|++++|+|+.
T Consensus       214 ~l~~L~~L~Ls~n~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------lp---~~l~~l~~L~~L~l~~N~i~~  277 (330)
T 1xku_A          214 GLNNLAKLGLSFNSISAV----DNGSLANTPHLRELHLNNNKLVK------VP---GGLADHKYIQVVYLHNNNISA  277 (330)
T ss_dssp             TCTTCCEEECCSSCCCEE----CTTTGGGSTTCCEEECCSSCCSS------CC---TTTTTCSSCCEEECCSSCCCC
T ss_pred             CCCCCCEEECCCCcCcee----ChhhccCCCCCCEEECCCCcCcc------CC---hhhccCCCcCEEECCCCcCCc
Confidence            334555555555555541    12234555555555555555553      33   334445555555555555554

>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=99.79  E-value=5.7e-20  Score=185.93  Aligned_cols=88  Identities=22%  Similarity=0.147  Sum_probs=57.3

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHH
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQ  432 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~  432 (462)
                      .+|++|++++|+++..    -...+..+++|+.|++++|.|+.      ++.  ..+..+++|+.|++++|+++..    
T Consensus       224 ~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~Ls~n~l~~------~~~--~~~~~l~~L~~L~L~~n~l~~~----  287 (477)
T 2id5_A          224 LNLTSLSITHCNLTAV----PYLAVRHLVYLRFLNLSYNPIST------IEG--SMLHELLRLQEIQLVGGQLAVV----  287 (477)
T ss_dssp             CCCSEEEEESSCCCSC----CHHHHTTCTTCCEEECCSSCCCE------ECT--TSCTTCTTCCEEECCSSCCSEE----
T ss_pred             ccccEEECcCCccccc----CHHHhcCccccCeeECCCCcCCc------cCh--hhccccccCCEEECCCCccceE----
Confidence            3677777777777752    12456777888888888888775      221  3456667777777777777664    


Q ss_pred             HHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          433 LLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       433 l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      .+..+.. .++|++|++++|+|++.
T Consensus       288 ~~~~~~~-l~~L~~L~L~~N~l~~~  311 (477)
T 2id5_A          288 EPYAFRG-LNYLRVLNVSGNQLTTL  311 (477)
T ss_dssp             CTTTBTT-CTTCCEEECCSSCCSCC
T ss_pred             CHHHhcC-cccCCEEECCCCcCcee
Confidence            2334444 34577777777777653

>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=99.79  E-value=1.4e-18  Score=168.22  Aligned_cols=217  Identities=19%  Similarity=0.231  Sum_probs=115.2

Q ss_pred             cceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          176 ARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      ++.+++.++.....+. +..+++|++|++++|........     ...+++|++|++++|.+.....      +.    .
T Consensus       112 L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~-----~~~l~~L~~L~l~~~~~~~~~~------~~----~  175 (347)
T 4fmz_A          112 LRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP-----LSNMTGLNYLTVTESKVKDVTP------IA----N  175 (347)
T ss_dssp             CSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG-----GTTCTTCCEEECCSSCCCCCGG------GG----G
T ss_pred             CCEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc-----hhhCCCCcEEEecCCCcCCchh------hc----c
Confidence            3444555444433322 44555556666555532222111     2345566666666665543322      11    1


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|.+...         .. +..+++|++|++++|.+.+...       ...+++|++|++++|.+++.  
T Consensus       176 l~~L~~L~l~~n~l~~~---------~~-~~~l~~L~~L~l~~n~l~~~~~-------~~~~~~L~~L~l~~n~l~~~--  236 (347)
T 4fmz_A          176 LTDLYSLSLNYNQIEDI---------SP-LASLTSLHYFTAYVNQITDITP-------VANMTRLNSLKIGNNKITDL--  236 (347)
T ss_dssp             CTTCSEEECTTSCCCCC---------GG-GGGCTTCCEEECCSSCCCCCGG-------GGGCTTCCEEECCSSCCCCC--
T ss_pred             CCCCCEEEccCCccccc---------cc-ccCCCccceeecccCCCCCCch-------hhcCCcCCEEEccCCccCCC--
Confidence            55666666666665541         11 4455666666666666555332       12346666666666666541  


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                             +. +.   .+++|++|++++|.+++     + +.+..+++|++|++++|.+++      +    ..+..+++|
T Consensus       237 -------~~-~~---~l~~L~~L~l~~n~l~~-----~-~~~~~l~~L~~L~l~~n~l~~------~----~~~~~l~~L  289 (347)
T 4fmz_A          237 -------SP-LA---NLSQLTWLEIGTNQISD-----I-NAVKDLTKLKMLNVGSNQISD------I----SVLNNLSQL  289 (347)
T ss_dssp             -------GG-GT---TCTTCCEEECCSSCCCC-----C-GGGTTCTTCCEEECCSSCCCC------C----GGGGGCTTC
T ss_pred             -------cc-hh---cCCCCCEEECCCCccCC-----C-hhHhcCCCcCEEEccCCccCC------C----hhhcCCCCC
Confidence                   11 22   44666666666666665     1 345666666677776666665      3    223445666


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +.|++++|+++..    .+..+.. .++|++|++++|++++..+
T Consensus       290 ~~L~L~~n~l~~~----~~~~l~~-l~~L~~L~L~~n~l~~~~~  328 (347)
T 4fmz_A          290 NSLFLNNNQLGNE----DMEVIGG-LTNLTTLFLSQNHITDIRP  328 (347)
T ss_dssp             SEEECCSSCCCGG----GHHHHHT-CTTCSEEECCSSSCCCCGG
T ss_pred             CEEECcCCcCCCc----ChhHhhc-cccCCEEEccCCccccccC
Confidence            7777777766664    2334444 2446677777766665443

>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=99.79  E-value=6e-21  Score=183.33  Aligned_cols=212  Identities=21%  Similarity=0.240  Sum_probs=144.1

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      ..++++|++++|.+......     ...+++|++|+|++|.++ ..+..+.        .+.+|++|++++|.+..    
T Consensus        80 ~~~l~~L~L~~n~l~~lp~~-----l~~l~~L~~L~L~~n~l~-~lp~~~~--------~l~~L~~L~Ls~n~l~~----  141 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQ-----AFRLSHLQHMTIDAAGLM-ELPDTMQ--------QFAGLETLTLARNPLRA----  141 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSC-----GGGGTTCSEEEEESSCCC-CCCSCGG--------GGTTCSEEEEESCCCCC----
T ss_pred             ccceeEEEccCCCchhcChh-----hhhCCCCCEEECCCCCcc-chhHHHh--------ccCCCCEEECCCCcccc----
Confidence            46788888888876533222     234778888888888776 3222222        26778888888888765    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHH----HHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCC
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFS----SLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKS  351 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~----~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~  351 (462)
                           ++..+..+++|++|++++|.+.+..+..+..    ..+..+++|++|++++|.++. +|        ..+.   +
T Consensus       142 -----lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~-lp--------~~l~---~  204 (328)
T 4fcg_A          142 -----LPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS-LP--------ASIA---N  204 (328)
T ss_dssp             -----CCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCC-CC--------GGGG---G
T ss_pred             -----CcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCc-ch--------Hhhc---C
Confidence                 4455777888888888887665544433210    001125788888888888773 23        4444   4


Q ss_pred             CCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHH
Q 012512          352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVS  431 (462)
Q Consensus       352 l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~  431 (462)
                      +++|++|+|++|+++.     +++.+..+++|++|++++|.+...     +|   ..+..+++|+.|++++|++...   
T Consensus       205 l~~L~~L~L~~N~l~~-----l~~~l~~l~~L~~L~Ls~n~~~~~-----~p---~~~~~l~~L~~L~L~~n~~~~~---  268 (328)
T 4fcg_A          205 LQNLKSLKIRNSPLSA-----LGPAIHHLPKLEELDLRGCTALRN-----YP---PIFGGRAPLKRLILKDCSNLLT---  268 (328)
T ss_dssp             CTTCCEEEEESSCCCC-----CCGGGGGCTTCCEEECTTCTTCCB-----CC---CCTTCCCCCCEEECTTCTTCCB---
T ss_pred             CCCCCEEEccCCCCCc-----CchhhccCCCCCEEECcCCcchhh-----hH---HHhcCCCCCCEEECCCCCchhh---
Confidence            5788888888888885     666788888888888888776543     44   4566778888888888876664   


Q ss_pred             HHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          432 QLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       432 ~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                       ++..+..+ ++|++|++++|++.+.+|.
T Consensus       269 -~p~~~~~l-~~L~~L~L~~n~~~~~iP~  295 (328)
T 4fcg_A          269 -LPLDIHRL-TQLEKLDLRGCVNLSRLPS  295 (328)
T ss_dssp             -CCTTGGGC-TTCCEEECTTCTTCCCCCG
T ss_pred             -cchhhhcC-CCCCEEeCCCCCchhhccH
Confidence             55556663 5588888888888777764

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

Probab=99.78  E-value=3.5e-20  Score=176.82  Aligned_cols=220  Identities=17%  Similarity=0.086  Sum_probs=157.4

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      ++++|++|++++|.+.......+  +...+++|++|+|++|.++.. +..+.. +...  ..++|++|++++|.+..   
T Consensus        93 ~l~~L~~L~L~~n~l~~~~~~~~--~~~~l~~L~~L~Ls~N~l~~~-~~~~~~-l~~~--~~~~L~~L~L~~N~l~~---  163 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGTAPPPL--LEATGPDLNILNLRNVSWATR-DAWLAE-LQQW--LKPGLKVLSIAQAHSLN---  163 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSCCCCCS--SSCCSCCCSEEEEESCBCSSS-SSHHHH-HHTT--CCTTCCEEEEESCSCCC---
T ss_pred             CcCCccEEEccCCcccchhHHHH--HHhcCCCccEEEccCCCCcch-hHHHHH-HHHh--hcCCCcEEEeeCCCCcc---
Confidence            67899999999998764322100  025688999999999999866 443333 1110  03789999999999987   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                           .....+..+++|++|++++|++.+... .+.......+++|++|++++|.+++...      ++..+.  .++++
T Consensus       164 -----~~~~~~~~l~~L~~L~Ls~N~l~~~~~-~~~~~~~~~l~~L~~L~L~~N~l~~~~~------~~~~~~--~~l~~  229 (312)
T 1wwl_A          164 -----FSCEQVRVFPALSTLDLSDNPELGERG-LISALCPLKFPTLQVLALRNAGMETPSG------VCSALA--AARVQ  229 (312)
T ss_dssp             -----CCTTTCCCCSSCCEEECCSCTTCHHHH-HHHHSCTTSCTTCCEEECTTSCCCCHHH------HHHHHH--HTTCC
T ss_pred             -----chHHHhccCCCCCEEECCCCCcCcchH-HHHHHHhccCCCCCEEECCCCcCcchHH------HHHHHH--hcCCC
Confidence                 334567889999999999999876421 1111112567999999999999985211      222221  14579


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      |++|+|++|++++..   -...+..+++|++|++++|.|+.      +|   ..+.  ++|+.|++++|+|++.     +
T Consensus       230 L~~L~Ls~N~l~~~~---~~~~~~~l~~L~~L~Ls~N~l~~------ip---~~~~--~~L~~L~Ls~N~l~~~-----p  290 (312)
T 1wwl_A          230 LQGLDLSHNSLRDAA---GAPSCDWPSQLNSLNLSFTGLKQ------VP---KGLP--AKLSVLDLSYNRLDRN-----P  290 (312)
T ss_dssp             CSEEECTTSCCCSSC---CCSCCCCCTTCCEEECTTSCCSS------CC---SSCC--SEEEEEECCSSCCCSC-----C
T ss_pred             CCEEECCCCcCCccc---chhhhhhcCCCCEEECCCCccCh------hh---hhcc--CCceEEECCCCCCCCC-----h
Confidence            999999999999732   01345567899999999999985      55   3443  7999999999999983     3


Q ss_pred             HHHhcCCCCCcEEEccCCCCCCcc
Q 012512          435 DTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      . +..+ ++|++|++++|+|++.+
T Consensus       291 ~-~~~l-~~L~~L~L~~N~l~~~~  312 (312)
T 1wwl_A          291 S-PDEL-PQVGNLSLKGNPFLDSE  312 (312)
T ss_dssp             C-TTTS-CEEEEEECTTCTTTCCC
T ss_pred             h-HhhC-CCCCEEeccCCCCCCCC
Confidence            3 5553 55999999999998753

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

Probab=99.78  E-value=4.5e-20  Score=181.77  Aligned_cols=233  Identities=18%  Similarity=0.085  Sum_probs=137.4

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....++. .+..+++|++|++++|.+.......    +..+++|++|++++|.++......+.       
T Consensus        70 ~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~l~~~~~~-------  138 (390)
T 3o6n_A           70 QVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHV----FQNVPLLTVLVLERNDLSSLPRGIFH-------  138 (390)
T ss_dssp             CCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTT----TTTCTTCCEEECCSSCCCCCCTTTTT-------
T ss_pred             cCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHH----hcCCCCCCEEECCCCccCcCCHHHhc-------
Confidence            45667777766655443 5667788888888888765443222    35678888888888877733222111       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       .+++|++|++++|.+..        .....+..+++|++|++++|.+......        .+++|++|++++|.+++.
T Consensus       139 -~l~~L~~L~L~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~--------~l~~L~~L~l~~n~l~~~  201 (390)
T 3o6n_A          139 -NTPKLTTLSMSNNNLER--------IEDDTFQATTSLQNLQLSSNRLTHVDLS--------LIPSLFHANVSYNLLSTL  201 (390)
T ss_dssp             -TCTTCCEEECCSSCCCB--------CCTTTTSSCTTCCEEECCSSCCSBCCGG--------GCTTCSEEECCSSCCSEE
T ss_pred             -CCCCCcEEECCCCccCc--------cChhhccCCCCCCEEECCCCcCCccccc--------cccccceeeccccccccc
Confidence             26788888888888876        2334567788888888888888764322        234444444444443321


Q ss_pred             ccccCcc----------------------------cH--HHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          334 LSKYDRS----------------------------GP--LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       334 ~~~~~~~----------------------------~l--~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      ......+                            .+  ...+.   .+++|++|++++|.+++.    .+..+..+++|
T Consensus       202 ~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~---~l~~L~~L~Ls~n~l~~~----~~~~~~~l~~L  274 (390)
T 3o6n_A          202 AIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLL---NYPGLVEVDLSYNELEKI----MYHPFVKMQRL  274 (390)
T ss_dssp             ECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGG---GCTTCSEEECCSSCCCEE----ESGGGTTCSSC
T ss_pred             CCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHc---CCCCccEEECCCCcCCCc----ChhHccccccC
Confidence            0000000                            00  01122   345666666666666652    34456666677


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      ++|++++|.++.      ++   .....+++|+.|++++|+++.     ++..+..+ ++|++|++++|+|++.
T Consensus       275 ~~L~L~~n~l~~------~~---~~~~~l~~L~~L~L~~n~l~~-----~~~~~~~l-~~L~~L~L~~N~i~~~  333 (390)
T 3o6n_A          275 ERLYISNNRLVA------LN---LYGQPIPTLKVLDLSHNHLLH-----VERNQPQF-DRLENLYLDHNSIVTL  333 (390)
T ss_dssp             CEEECCSSCCCE------EE---CSSSCCTTCCEEECCSSCCCC-----CGGGHHHH-TTCSEEECCSSCCCCC
T ss_pred             CEEECCCCcCcc------cC---cccCCCCCCCEEECCCCccee-----cCcccccc-CcCCEEECCCCcccee
Confidence            777777776665      32   233455777777777777765     23333332 3477777777777653

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

Probab=99.78  E-value=3.6e-20  Score=185.40  Aligned_cols=227  Identities=18%  Similarity=0.139  Sum_probs=169.3

Q ss_pred             cccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++.+..+. ..+.++++|++|+|++|.+.......    +.++++|++|+|++|.++......+       
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~-------  132 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGA----FNGLANLNTLELFDNRLTTIPNGAF-------  132 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGG----GTTCSSCCEEECCSSCCSSCCTTTS-------
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhh----ccCCccCCEEECCCCcCCeeCHhHh-------
Confidence            45677788877776654 45668899999999999865433222    4568999999999998875433222       


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCC-CChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCH-LDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                       ..+.+|++|++++|.+..        .....+..+++|++|++++|. +.. .....    +..+++|++|++++|.++
T Consensus       133 -~~l~~L~~L~L~~N~i~~--------~~~~~~~~l~~L~~L~l~~~~~l~~-i~~~~----~~~l~~L~~L~L~~n~l~  198 (440)
T 3zyj_A          133 -VYLSKLKELWLRNNPIES--------IPSYAFNRIPSLRRLDLGELKRLSY-ISEGA----FEGLSNLRYLNLAMCNLR  198 (440)
T ss_dssp             -CSCSSCCEEECCSCCCCE--------ECTTTTTTCTTCCEEECCCCTTCCE-ECTTT----TTTCSSCCEEECTTSCCS
T ss_pred             -hccccCceeeCCCCcccc--------cCHHHhhhCcccCEeCCCCCCCcce-eCcch----hhcccccCeecCCCCcCc
Confidence             227899999999999876        233456788999999999854 443 22211    355789999999999988


Q ss_pred             CcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCC
Q 012512          332 GWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER  411 (462)
Q Consensus       332 ~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~  411 (462)
                      ..             ..+..+.+|+.|+|++|+|++.    .+..+..+++|+.|++++|.|++      ++.  ..+..
T Consensus       199 ~~-------------~~~~~l~~L~~L~Ls~N~l~~~----~~~~~~~l~~L~~L~L~~n~l~~------~~~--~~~~~  253 (440)
T 3zyj_A          199 EI-------------PNLTPLIKLDELDLSGNHLSAI----RPGSFQGLMHLQKLWMIQSQIQV------IER--NAFDN  253 (440)
T ss_dssp             SC-------------CCCTTCSSCCEEECTTSCCCEE----CTTTTTTCTTCCEEECTTCCCCE------ECT--TSSTT
T ss_pred             cc-------------cccCCCcccCEEECCCCccCcc----ChhhhccCccCCEEECCCCceeE------ECh--hhhcC
Confidence            41             1234668999999999999972    35678899999999999999987      321  56778


Q ss_pred             CCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          412 CNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      +++|+.|+|++|+|+..    ..+.+.. .++|+.|+|++|++.
T Consensus       254 l~~L~~L~L~~N~l~~~----~~~~~~~-l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          254 LQSLVEINLAHNNLTLL----PHDLFTP-LHHLERIHLHHNPWN  292 (440)
T ss_dssp             CTTCCEEECTTSCCCCC----CTTTTSS-CTTCCEEECCSSCEE
T ss_pred             CCCCCEEECCCCCCCcc----ChhHhcc-ccCCCEEEcCCCCcc
Confidence            89999999999999874    2233455 356999999999873

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.78  E-value=1.7e-18  Score=166.85  Aligned_cols=211  Identities=20%  Similarity=0.248  Sum_probs=162.6

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      .+++.|++++|.+......     ...+++|++|++++|.+++.........       +++|++|++++|.+.+     
T Consensus        70 ~~l~~L~l~~n~l~~~~~~-----~~~~~~L~~L~L~~~~l~~~~~~~~~~~-------~~~L~~L~L~~~~l~~-----  132 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAE-----HFSPFRVQHMDLSNSVIEVSTLHGILSQ-------CSKLQNLSLEGLRLSD-----  132 (336)
T ss_dssp             TTCSEEECTTCEECSCCCS-----CCCCBCCCEEECTTCEECHHHHHHHHTT-------BCCCSEEECTTCBCCH-----
T ss_pred             ccceEEEcCCccccccchh-----hccCCCCCEEEccCCCcCHHHHHHHHhh-------CCCCCEEeCcCcccCH-----
Confidence            6789999998876544332     2357899999999999887644443222       7899999999999876     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCC-CCCCcccccCcccHHHhhhCCCCCC-
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGN-SIGGWLSKYDRSGPLFSLGAGKSLQ-  353 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~~~~~l~~~l~~~~~l~-  353 (462)
                         .....+..+++|++|++++| .+++.+...+..    .+++|++|++++| .+++.       .++..+.   .++ 
T Consensus       133 ---~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~----~~~~L~~L~l~~~~~l~~~-------~~~~~~~---~l~~  195 (336)
T 2ast_B          133 ---PIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLS----SCSRLDELNLSWCFDFTEK-------HVQVAVA---HVSE  195 (336)
T ss_dssp             ---HHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHH----HCTTCCEEECCCCTTCCHH-------HHHHHHH---HSCT
T ss_pred             ---HHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHh----cCCCCCEEcCCCCCCcChH-------HHHHHHH---hccc
Confidence               67778888999999999999 798866655433    3689999999999 88742       1234455   457 


Q ss_pred             CccEEEccCC--CCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCCccEEEccCC-CCChhh
Q 012512          354 SLRLLNLRGN--NLCKADARDLGSALVHIPNLEILDISDNT-IEDDGIRSLIPYFVQASERCNPLVELYLENC-ELSGRG  429 (462)
Q Consensus       354 ~L~~L~L~~n--~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n-~l~~~~  429 (462)
                      +|++|++++|  .+++.   .++..+.++++|++|++++|. +++.+..        .+..+++|+.|++++| .+++.+
T Consensus       196 ~L~~L~l~~~~~~~~~~---~l~~~~~~~~~L~~L~l~~~~~l~~~~~~--------~l~~l~~L~~L~l~~~~~~~~~~  264 (336)
T 2ast_B          196 TITQLNLSGYRKNLQKS---DLSTLVRRCPNLVHLDLSDSVMLKNDCFQ--------EFFQLNYLQHLSLSRCYDIIPET  264 (336)
T ss_dssp             TCCEEECCSCGGGSCHH---HHHHHHHHCTTCSEEECTTCTTCCGGGGG--------GGGGCTTCCEEECTTCTTCCGGG
T ss_pred             CCCEEEeCCCcccCCHH---HHHHHHhhCCCCCEEeCCCCCcCCHHHHH--------HHhCCCCCCEeeCCCCCCCCHHH
Confidence            9999999999  67754   466778889999999999999 8876433        3455699999999999 577764


Q ss_pred             HHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          430 VSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       430 ~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      .    ..+.. .++|++|++++| +++++
T Consensus       265 ~----~~l~~-~~~L~~L~l~~~-i~~~~  287 (336)
T 2ast_B          265 L----LELGE-IPTLKTLQVFGI-VPDGT  287 (336)
T ss_dssp             G----GGGGG-CTTCCEEECTTS-SCTTC
T ss_pred             H----HHHhc-CCCCCEEeccCc-cCHHH
Confidence            4    34555 466999999999 77654

>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=99.77  E-value=2.7e-20  Score=177.10  Aligned_cols=211  Identities=18%  Similarity=0.150  Sum_probs=161.8

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhH--HHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSF--VEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~--~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      +++++|++++|.+.......    +.++++|++|++++|.++..+  +..+..        +.+|++|++++|.+..   
T Consensus        28 ~~l~~L~L~~n~l~~i~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~~~~~--------~~~L~~L~Ls~n~i~~---   92 (306)
T 2z66_A           28 SSATRLELESNKLQSLPHGV----FDKLTQLTKLSLSSNGLSFKGCCSQSDFG--------TTSLKYLDLSFNGVIT---   92 (306)
T ss_dssp             TTCCEEECCSSCCCCCCTTT----TTTCTTCSEEECCSSCCCEEEEEEHHHHS--------CSCCCEEECCSCSEEE---
T ss_pred             CCCCEEECCCCccCccCHhH----hhccccCCEEECCCCccCcccCccccccc--------ccccCEEECCCCcccc---
Confidence            57999999999876433322    457899999999999998543  223322        7899999999999875   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                            +...+..+++|++|++++|.+.+......    +..+++|++|++++|.+++..+        ..+.   ++++
T Consensus        93 ------l~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~~l~~L~~L~l~~n~l~~~~~--------~~~~---~l~~  151 (306)
T 2z66_A           93 ------MSSNFLGLEQLEHLDFQHSNLKQMSEFSV----FLSLRNLIYLDISHTHTRVAFN--------GIFN---GLSS  151 (306)
T ss_dssp             ------EEEEEETCTTCCEEECTTSEEESSTTTTT----TTTCTTCCEEECTTSCCEECST--------TTTT---TCTT
T ss_pred             ------ChhhcCCCCCCCEEECCCCcccccccchh----hhhccCCCEEECCCCcCCccch--------hhcc---cCcC
Confidence                  44457788999999999998876433111    3557899999999999885433        3333   6689


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      |++|++++|.+++.   .++..+..+++|++|++++|.+++.     .+   ..+..+++|+.|++++|+++...    .
T Consensus       152 L~~L~l~~n~l~~~---~~~~~~~~l~~L~~L~Ls~n~l~~~-----~~---~~~~~l~~L~~L~L~~N~l~~~~----~  216 (306)
T 2z66_A          152 LEVLKMAGNSFQEN---FLPDIFTELRNLTFLDLSQCQLEQL-----SP---TAFNSLSSLQVLNMSHNNFFSLD----T  216 (306)
T ss_dssp             CCEEECTTCEEGGG---EECSCCTTCTTCCEEECTTSCCCEE-----CT---TTTTTCTTCCEEECTTSCCSBCC----S
T ss_pred             CCEEECCCCccccc---cchhHHhhCcCCCEEECCCCCcCCc-----CH---HHhcCCCCCCEEECCCCccCccC----h
Confidence            99999999998752   1456788899999999999999872     23   56777899999999999998742    2


Q ss_pred             HHHhcCCCCCcEEEccCCCCCCccc
Q 012512          435 DTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ..+.. .++|++|++++|+|++.++
T Consensus       217 ~~~~~-l~~L~~L~L~~N~l~~~~~  240 (306)
T 2z66_A          217 FPYKC-LNSLQVLDYSLNHIMTSKK  240 (306)
T ss_dssp             GGGTT-CTTCCEEECTTSCCCBCSS
T ss_pred             hhccC-cccCCEeECCCCCCcccCH
Confidence            23555 4569999999999988765

>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=99.77  E-value=5.3e-20  Score=184.85  Aligned_cols=228  Identities=18%  Similarity=0.119  Sum_probs=169.5

Q ss_pred             ccccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhc
Q 012512          173 GHYARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCS  251 (462)
Q Consensus       173 ~~~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~  251 (462)
                      ...++.+++.++.+..+ +..+.++++|++|+|++|.+.......    +.++++|++|+|++|.++......+      
T Consensus        74 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~------  143 (452)
T 3zyi_A           74 PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGA----FNGLASLNTLELFDNWLTVIPSGAF------  143 (452)
T ss_dssp             CTTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT----TTTCTTCCEEECCSSCCSBCCTTTS------
T ss_pred             CCCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhh----ccCcccCCEEECCCCcCCccChhhh------
Confidence            34667888888877665 345678899999999999876543222    4568899999999998875433322      


Q ss_pred             ccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCC
Q 012512          252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSI  330 (462)
Q Consensus       252 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l  330 (462)
                        ..+.+|++|++++|.+..        .....+..+++|++|++++| .+.. .....    +..+++|++|++++|.+
T Consensus       144 --~~l~~L~~L~L~~N~l~~--------~~~~~~~~l~~L~~L~l~~~~~l~~-i~~~~----~~~l~~L~~L~L~~n~l  208 (452)
T 3zyi_A          144 --EYLSKLRELWLRNNPIES--------IPSYAFNRVPSLMRLDLGELKKLEY-ISEGA----FEGLFNLKYLNLGMCNI  208 (452)
T ss_dssp             --SSCTTCCEEECCSCCCCE--------ECTTTTTTCTTCCEEECCCCTTCCE-ECTTT----TTTCTTCCEEECTTSCC
T ss_pred             --cccCCCCEEECCCCCcce--------eCHhHHhcCCcccEEeCCCCCCccc-cChhh----ccCCCCCCEEECCCCcc
Confidence              127889999999999876        23345678899999999985 4443 22211    34578999999999998


Q ss_pred             CCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcC
Q 012512          331 GGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE  410 (462)
Q Consensus       331 ~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~  410 (462)
                      ++.             ..+..+.+|+.|+|++|++++    ..+..+..+++|+.|++++|.|+..     .+   ..+.
T Consensus       209 ~~~-------------~~~~~l~~L~~L~Ls~N~l~~----~~~~~~~~l~~L~~L~L~~n~l~~~-----~~---~~~~  263 (452)
T 3zyi_A          209 KDM-------------PNLTPLVGLEELEMSGNHFPE----IRPGSFHGLSSLKKLWVMNSQVSLI-----ER---NAFD  263 (452)
T ss_dssp             SSC-------------CCCTTCTTCCEEECTTSCCSE----ECGGGGTTCTTCCEEECTTSCCCEE-----CT---TTTT
T ss_pred             ccc-------------ccccccccccEEECcCCcCcc----cCcccccCccCCCEEEeCCCcCceE-----CH---HHhc
Confidence            852             123466899999999999997    2466788999999999999999872     22   5577


Q ss_pred             CCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          411 RCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       411 ~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      .+++|+.|+|++|+|+..    ....+.. .++|++|++++|++.
T Consensus       264 ~l~~L~~L~L~~N~l~~~----~~~~~~~-l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          264 GLASLVELNLAHNNLSSL----PHDLFTP-LRYLVELHLHHNPWN  303 (452)
T ss_dssp             TCTTCCEEECCSSCCSCC----CTTSSTT-CTTCCEEECCSSCEE
T ss_pred             CCCCCCEEECCCCcCCcc----ChHHhcc-ccCCCEEEccCCCcC
Confidence            789999999999999873    2233444 356999999999864

>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=99.77  E-value=7.7e-20  Score=190.07  Aligned_cols=233  Identities=18%  Similarity=0.085  Sum_probs=146.4

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+.+.++.+..++. .+..+++|++|+|++|.+.......    +.++++|++|+|++|.++......+.       
T Consensus        76 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~l~~~~~~-------  144 (597)
T 3oja_B           76 QVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHV----FQNVPLLTVLVLERNDLSSLPRGIFH-------  144 (597)
T ss_dssp             CCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTT----TTTCTTCCEEECCSSCCCCCCTTTTT-------
T ss_pred             CCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHH----HcCCCCCCEEEeeCCCCCCCCHHHhc-------
Confidence            45677777776665443 5667888888888888765543322    35678888888888887743322221       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       .+++|++|++++|.+..        ..+..+..+++|++|++++|.+....+.        .+++|++|++++|.+++.
T Consensus       145 -~l~~L~~L~Ls~N~l~~--------~~~~~~~~l~~L~~L~L~~N~l~~~~~~--------~l~~L~~L~l~~n~l~~l  207 (597)
T 3oja_B          145 -NTPKLTTLSMSNNNLER--------IEDDTFQATTSLQNLQLSSNRLTHVDLS--------LIPSLFHANVSYNLLSTL  207 (597)
T ss_dssp             -TCTTCCEEECCSSCCCB--------CCTTTTTTCTTCCEEECTTSCCSBCCGG--------GCTTCSEEECCSSCCSEE
T ss_pred             -cCCCCCEEEeeCCcCCC--------CChhhhhcCCcCcEEECcCCCCCCcChh--------hhhhhhhhhcccCccccc
Confidence             26788899998888876        3344567788899999999888774322        234444444444433321


Q ss_pred             ccccC----------------------------cccH--HHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          334 LSKYD----------------------------RSGP--LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       334 ~~~~~----------------------------~~~l--~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .....                            ...+  ...+.   .+++|+.|+|++|.+++    ..+..+..+++|
T Consensus       208 ~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~---~l~~L~~L~Ls~N~l~~----~~~~~~~~l~~L  280 (597)
T 3oja_B          208 AIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLL---NYPGLVEVDLSYNELEK----IMYHPFVKMQRL  280 (597)
T ss_dssp             ECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGG---GCTTCSEEECCSSCCCE----EESGGGTTCSSC
T ss_pred             cCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhc---cCCCCCEEECCCCccCC----CCHHHhcCccCC
Confidence            00000                            0000  01122   45677777777777776    245567777788


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +.|+|++|.++.      ++   .....+++|+.|+|++|+++.     ++..+..+ ++|++|++++|.|++.
T Consensus       281 ~~L~Ls~N~l~~------l~---~~~~~l~~L~~L~Ls~N~l~~-----i~~~~~~l-~~L~~L~L~~N~l~~~  339 (597)
T 3oja_B          281 ERLYISNNRLVA------LN---LYGQPIPTLKVLDLSHNHLLH-----VERNQPQF-DRLENLYLDHNSIVTL  339 (597)
T ss_dssp             CEEECTTSCCCE------EE---CSSSCCTTCCEEECCSSCCCC-----CGGGHHHH-TTCSEEECCSSCCCCC
T ss_pred             CEEECCCCCCCC------CC---cccccCCCCcEEECCCCCCCc-----cCcccccC-CCCCEEECCCCCCCCc
Confidence            888888887775      33   344556788888888888775     33344442 3488888888877653

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

Probab=99.76  E-value=6.3e-21  Score=182.05  Aligned_cols=210  Identities=17%  Similarity=0.214  Sum_probs=164.5

Q ss_pred             CCcCEEEeccCCChH--HHHHHHHHHHhcCCCccEEEccC-CCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCC
Q 012512          197 SKLQSLVLRWIRFEE--HVQALCKLLIQNSETLASLEFLH-CKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENC  273 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~--~~~~l~~~l~~~~~~L~~L~L~~-~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~  273 (462)
                      .++++|++++|.+..  .....    +..+++|++|++++ |.+....+..+..        +.+|++|++++|.+..  
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~----l~~l~~L~~L~L~~~n~l~~~~p~~l~~--------l~~L~~L~Ls~n~l~~--  115 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSS----LANLPYLNFLYIGGINNLVGPIPPAIAK--------LTQLHYLYITHTNVSG--  115 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGG----GGGCTTCSEEEEEEETTEESCCCGGGGG--------CTTCSEEEEEEECCEE--
T ss_pred             ceEEEEECCCCCccCCcccChh----HhCCCCCCeeeCCCCCcccccCChhHhc--------CCCCCEEECcCCeeCC--
Confidence            568999999998764  22221    45689999999995 8776554444432        7999999999999985  


Q ss_pred             CchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCC
Q 012512          274 PSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQ  353 (462)
Q Consensus       274 ~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~  353 (462)
                            .++..+..+++|++|++++|.+.+..+..+     ..+++|++|++++|.+++..|        ..+..+.  .
T Consensus       116 ------~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~-----~~l~~L~~L~L~~N~l~~~~p--------~~l~~l~--~  174 (313)
T 1ogq_A          116 ------AIPDFLSQIKTLVTLDFSYNALSGTLPPSI-----SSLPNLVGITFDGNRISGAIP--------DSYGSFS--K  174 (313)
T ss_dssp             ------ECCGGGGGCTTCCEEECCSSEEESCCCGGG-----GGCTTCCEEECCSSCCEEECC--------GGGGCCC--T
T ss_pred             ------cCCHHHhCCCCCCEEeCCCCccCCcCChHH-----hcCCCCCeEECcCCcccCcCC--------HHHhhhh--h
Confidence                  456678889999999999999886555544     447999999999999987655        5566332  3


Q ss_pred             CccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHH
Q 012512          354 SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL  433 (462)
Q Consensus       354 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l  433 (462)
                      .|+.|++++|+++.    .++..+..++ |+.|++++|.+++.     .+   ..+..+++|+.|++++|+++..     
T Consensus       175 ~L~~L~L~~N~l~~----~~~~~~~~l~-L~~L~Ls~N~l~~~-----~~---~~~~~l~~L~~L~L~~N~l~~~-----  236 (313)
T 1ogq_A          175 LFTSMTISRNRLTG----KIPPTFANLN-LAFVDLSRNMLEGD-----AS---VLFGSDKNTQKIHLAKNSLAFD-----  236 (313)
T ss_dssp             TCCEEECCSSEEEE----ECCGGGGGCC-CSEEECCSSEEEEC-----CG---GGCCTTSCCSEEECCSSEECCB-----
T ss_pred             cCcEEECcCCeeec----cCChHHhCCc-ccEEECcCCcccCc-----CC---HHHhcCCCCCEEECCCCceeee-----
Confidence            89999999999986    3667788776 99999999998763     33   5678889999999999999863     


Q ss_pred             HHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          434 LDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       434 ~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                      ...+.. .++|++|++++|+|++.+|.
T Consensus       237 ~~~~~~-l~~L~~L~Ls~N~l~~~~p~  262 (313)
T 1ogq_A          237 LGKVGL-SKNLNGLDLRNNRIYGTLPQ  262 (313)
T ss_dssp             GGGCCC-CTTCCEEECCSSCCEECCCG
T ss_pred             cCcccc-cCCCCEEECcCCcccCcCCh
Confidence            223455 46699999999999877664

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.76  E-value=5.2e-20  Score=175.44  Aligned_cols=217  Identities=16%  Similarity=0.059  Sum_probs=152.5

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHH-hcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLI-QNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENC  273 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~-~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~  273 (462)
                      ..++|++|++++|.+.......   +. ..+++|++|+|++|.++......-...+.    .+++|++|++++|.+..  
T Consensus        89 ~~~~L~~L~l~~n~l~~~~~~~---~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~----~~~~L~~L~Ls~n~l~~--  159 (310)
T 4glp_A           89 AYSRLKELTLEDLKITGTMPPL---PLEATGLALSSLRLRNVSWATGRSWLAELQQW----LKPGLKVLSIAQAHSPA--  159 (310)
T ss_dssp             HHSCCCEEEEESCCCBSCCCCC---SSSCCCBCCSSCEEESCCCSSTTSSHHHHHTT----BCSCCCEEEEECCSSCC--
T ss_pred             ccCceeEEEeeCCEeccchhhh---hhhccCCCCCEEEeecccccchhhhhHHHHhh----hccCCCEEEeeCCCcch--
Confidence            4567999999999865433211   01 56789999999999988633211111111    27899999999999877  


Q ss_pred             CchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHh-hhCCCCC
Q 012512          274 PSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFS-LGAGKSL  352 (462)
Q Consensus       274 ~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~-l~~~~~l  352 (462)
                            .....+..+++|++|+|++|++........ ......+++|++|++++|.++....      .+.. +.   ++
T Consensus       160 ------~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~-~~~~~~l~~L~~L~Ls~N~l~~l~~------~~~~l~~---~l  223 (310)
T 4glp_A          160 ------FSCEQVRAFPALTSLDLSDNPGLGERGLMA-ALCPHKFPAIQNLALRNTGMETPTG------VCAALAA---AG  223 (310)
T ss_dssp             ------CCTTSCCCCTTCCEEECCSCTTCHHHHHHT-TSCTTSSCCCCSCBCCSSCCCCHHH------HHHHHHH---HT
T ss_pred             ------hhHHHhccCCCCCEEECCCCCCccchhhhH-HHhhhcCCCCCEEECCCCCCCchHH------HHHHHHh---cC
Confidence                  344567788999999999999765322111 0012457889999999999974111      1122 23   45


Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcC---CCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHI---PNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG  429 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~---~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~  429 (462)
                      ++|++|+|++|++++.    .++.+..+   ++|++|++++|.|+.      +|   ..+.  ++|+.|++++|+|++. 
T Consensus       224 ~~L~~L~Ls~N~l~~~----~p~~~~~~~~~~~L~~L~Ls~N~l~~------lp---~~~~--~~L~~L~Ls~N~l~~~-  287 (310)
T 4glp_A          224 VQPHSLDLSHNSLRAT----VNPSAPRCMWSSALNSLNLSFAGLEQ------VP---KGLP--AKLRVLDLSSNRLNRA-  287 (310)
T ss_dssp             CCCSSEECTTSCCCCC----CCSCCSSCCCCTTCCCEECCSSCCCS------CC---SCCC--SCCSCEECCSCCCCSC-
T ss_pred             CCCCEEECCCCCCCcc----chhhHHhccCcCcCCEEECCCCCCCc------hh---hhhc--CCCCEEECCCCcCCCC-
Confidence            7899999999999972    35555665   699999999999985      55   3333  7999999999999872 


Q ss_pred             HHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          430 VSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       430 ~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                          +. +.. .++|+.|++++|+|++++
T Consensus       288 ----~~-~~~-l~~L~~L~L~~N~l~~~g  310 (310)
T 4glp_A          288 ----PQ-PDE-LPEVDNLTLDGNPFLVPG  310 (310)
T ss_dssp             ----CC-TTS-CCCCSCEECSSTTTSCCC
T ss_pred             ----ch-hhh-CCCccEEECcCCCCCCCC
Confidence                11 344 356999999999998864

>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=99.76  E-value=2.4e-17  Score=171.09  Aligned_cols=239  Identities=15%  Similarity=0.114  Sum_probs=174.1

Q ss_pred             eeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCC
Q 012512          179 LRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHK  258 (462)
Q Consensus       179 l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~  258 (462)
                      +.+.+......+..+..+++|++|++++|.+.....   ..+...+++|++|+++ +.+.+.+...+...       +++
T Consensus       275 L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~---~~~~~~~~~L~~L~L~-~~~~~~~l~~~~~~-------~~~  343 (592)
T 3ogk_B          275 LGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDH---CTLIQKCPNLEVLETR-NVIGDRGLEVLAQY-------CKQ  343 (592)
T ss_dssp             EEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHH---HHHHTTCTTCCEEEEE-GGGHHHHHHHHHHH-------CTT
T ss_pred             cCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHH---HHHHHhCcCCCEEecc-CccCHHHHHHHHHh-------CCC
Confidence            344443333445556678899999999998544321   2235679999999999 66666666666543       788


Q ss_pred             ccEEecCC-----------CCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEec-
Q 012512          259 IENLSIDI-----------SSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLS-  326 (462)
Q Consensus       259 L~~L~l~~-----------~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls-  326 (462)
                      |++|++++           +.++.       ..+......+++|++|+++.|.+++.++..+..    .+++|++|+++ 
T Consensus       344 L~~L~L~~g~~~~~~~~~~~~~~~-------~~~~~l~~~~~~L~~L~l~~~~l~~~~~~~l~~----~~~~L~~L~l~~  412 (592)
T 3ogk_B          344 LKRLRIERGADEQGMEDEEGLVSQ-------RGLIALAQGCQELEYMAVYVSDITNESLESIGT----YLKNLCDFRLVL  412 (592)
T ss_dssp             CCEEEEECCCCSSTTSSTTCCCCH-------HHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHH----HCCSCCEEEEEE
T ss_pred             CCEEEeecCccccccccccCccCH-------HHHHHHHhhCccCeEEEeecCCccHHHHHHHHh----hCCCCcEEEEee
Confidence            99999993           45554       345555667899999999999999988888754    35899999997 


Q ss_pred             ---CCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCC--CCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhH
Q 012512          327 ---GNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNN--LCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSL  401 (462)
Q Consensus       327 ---~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~--l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l  401 (462)
                         .|.+++.   ...+.+...+.   ++++|+.|+++.|.  +++.++..+   ...+++|+.|++++|.+++.|+..+
T Consensus       413 ~~~~n~l~~~---p~~~~~~~~~~---~~~~L~~L~L~~~~~~l~~~~~~~~---~~~~~~L~~L~L~~n~l~~~~~~~~  483 (592)
T 3ogk_B          413 LDREERITDL---PLDNGVRSLLI---GCKKLRRFAFYLRQGGLTDLGLSYI---GQYSPNVRWMLLGYVGESDEGLMEF  483 (592)
T ss_dssp             CSCCSCCSSC---CCHHHHHHHHH---HCTTCCEEEEECCGGGCCHHHHHHH---HHSCTTCCEEEECSCCSSHHHHHHH
T ss_pred             cCCCccccCc---hHHHHHHHHHH---hCCCCCEEEEecCCCCccHHHHHHH---HHhCccceEeeccCCCCCHHHHHHH
Confidence               5566641   01112334444   46899999998764  888665444   3458899999999999998775554


Q ss_pred             HHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          402 IPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       402 ~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +       ..+++|++|++++|.+++.++..+...+    ++|++|++++|++++.+.
T Consensus       484 ~-------~~~~~L~~L~l~~n~l~~~~~~~~~~~l----~~L~~L~ls~n~it~~~~  530 (592)
T 3ogk_B          484 S-------RGCPNLQKLEMRGCCFSERAIAAAVTKL----PSLRYLWVQGYRASMTGQ  530 (592)
T ss_dssp             H-------TCCTTCCEEEEESCCCBHHHHHHHHHHC----SSCCEEEEESCBCCTTCT
T ss_pred             H-------hcCcccCeeeccCCCCcHHHHHHHHHhc----CccCeeECcCCcCCHHHH
Confidence            3       4568999999999999887766655443    449999999999998753

>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=99.76  E-value=3.1e-18  Score=165.76  Aligned_cols=229  Identities=16%  Similarity=0.217  Sum_probs=173.5

Q ss_pred             ccccccceeecccc--------cccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEE
Q 012512          160 CDYSKLSYHCQQFG--------HYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLE  231 (462)
Q Consensus       160 ~~l~~L~l~~~~~~--------~~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~  231 (462)
                      .+++.+.++...+.        ..++.+++.++.....+..+..+++|++|++++|.+.....      ...+++|++|+
T Consensus       110 ~~L~~L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~------~~~l~~L~~L~  183 (347)
T 4fmz_A          110 TNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP------IANLTDLYSLS  183 (347)
T ss_dssp             TTCSEEECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG------GGGCTTCSEEE
T ss_pred             CcCCEEECcCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh------hccCCCCCEEE
Confidence            45566655544221        14567777777555555668889999999999998654432      35689999999


Q ss_pred             ccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHH
Q 012512          232 FLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFS  311 (462)
Q Consensus       232 L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~  311 (462)
                      +++|.+.+...  +    .    .+.+|+.|++++|.+...         .. +..+++|++|++++|.+.+...     
T Consensus       184 l~~n~l~~~~~--~----~----~l~~L~~L~l~~n~l~~~---------~~-~~~~~~L~~L~l~~n~l~~~~~-----  238 (347)
T 4fmz_A          184 LNYNQIEDISP--L----A----SLTSLHYFTAYVNQITDI---------TP-VANMTRLNSLKIGNNKITDLSP-----  238 (347)
T ss_dssp             CTTSCCCCCGG--G----G----GCTTCCEEECCSSCCCCC---------GG-GGGCTTCCEEECCSSCCCCCGG-----
T ss_pred             ccCCccccccc--c----c----CCCccceeecccCCCCCC---------ch-hhcCCcCCEEEccCCccCCCcc-----
Confidence            99999875433  1    1    278999999999998872         11 6788999999999999987543     


Q ss_pred             HHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCC
Q 012512          312 SLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN  391 (462)
Q Consensus       312 ~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N  391 (462)
                        ...+++|++|++++|.+++.          ..+.   .+++|+.|++++|++++     + +.+..+++|+.|++++|
T Consensus       239 --~~~l~~L~~L~l~~n~l~~~----------~~~~---~l~~L~~L~l~~n~l~~-----~-~~~~~l~~L~~L~L~~n  297 (347)
T 4fmz_A          239 --LANLSQLTWLEIGTNQISDI----------NAVK---DLTKLKMLNVGSNQISD-----I-SVLNNLSQLNSLFLNNN  297 (347)
T ss_dssp             --GTTCTTCCEEECCSSCCCCC----------GGGT---TCTTCCEEECCSSCCCC-----C-GGGGGCTTCSEEECCSS
T ss_pred             --hhcCCCCCEEECCCCccCCC----------hhHh---cCCCcCEEEccCCccCC-----C-hhhcCCCCCCEEECcCC
Confidence              24579999999999999851          2233   66899999999999997     3 46889999999999999


Q ss_pred             CCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          392 TIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       392 ~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      .+++.+.        ..+..+++|+.|++++|++++.     .. +.. .++|++|++++|.|+
T Consensus       298 ~l~~~~~--------~~l~~l~~L~~L~L~~n~l~~~-----~~-~~~-l~~L~~L~l~~N~i~  346 (347)
T 4fmz_A          298 QLGNEDM--------EVIGGLTNLTTLFLSQNHITDI-----RP-LAS-LSKMDSADFANQVIK  346 (347)
T ss_dssp             CCCGGGH--------HHHHTCTTCSEEECCSSSCCCC-----GG-GGG-CTTCSEESSSCC---
T ss_pred             cCCCcCh--------hHhhccccCCEEEccCCccccc-----cC-hhh-hhccceeehhhhccc
Confidence            9987532        3455679999999999999984     22 566 456999999999986

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=99.76  E-value=7.9e-18  Score=147.52  Aligned_cols=139  Identities=14%  Similarity=0.074  Sum_probs=88.0

Q ss_pred             HHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          279 VELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       279 ~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                      +.+...+..+++|++|+|++| .+++.+...++.++.. .++|++|+|++|.+++    .+...++..+.   ..++|++
T Consensus        26 ~~l~~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~-~~~L~~L~Ls~n~i~~----~g~~~l~~~L~---~n~~L~~   97 (185)
T 1io0_A           26 ETLKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKT-NTYVKKFSIVGTRSND----PVAFALAEMLK---VNNTLKS   97 (185)
T ss_dssp             HHHHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTT-CCSCCEEECTTSCCCH----HHHHHHHHHHH---HCSSCCE
T ss_pred             HHHHHHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHh-CCCcCEEECcCCCCCh----HHHHHHHHHHH---hCCCcCE
Confidence            467777888888889999888 8888888888877644 3566666666666652    33344444444   2245666


Q ss_pred             EEccCCCCCcchHHHHHHHhhcCCCCCEEeC--CCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh
Q 012512          358 LNLRGNNLCKADARDLGSALVHIPNLEILDI--SDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG  429 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L--s~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~  429 (462)
                      |+|++|.|++.|+..++.++..+++|++|+|  ++|.|+++|+..+..    .+..+++|++|+|++|.++..|
T Consensus        98 L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~----~L~~n~~L~~L~L~~n~i~~~~  167 (185)
T 1io0_A           98 LNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIAN----MLEKNTTLLKFGYHFTQQGPRL  167 (185)
T ss_dssp             EECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHH----HHHHCSSCCEEECCCSSHHHHH
T ss_pred             EECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHH----HHHhCCCcCEEeccCCCCChHH
Confidence            6666666666666666666666666666666  556666666555553    3334455666666666665554

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

Probab=99.76  E-value=7.9e-20  Score=179.99  Aligned_cols=229  Identities=21%  Similarity=0.218  Sum_probs=164.0

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++.....+. .+.++++|++|++++|.+.......    +..+++|++|++++|.++...+..+.       
T Consensus        94 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~~-------  162 (390)
T 3o6n_A           94 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGI----FHNTPKLTTLSMSNNNLERIEDDTFQ-------  162 (390)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT----TTTCTTCCEEECCSSCCCBCCTTTTS-------
T ss_pred             CcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHH----hcCCCCCcEEECCCCccCccChhhcc-------
Confidence            56788888887776554 4668899999999999876443322    35689999999999998764443332       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHH---------hh---------------------cCCCCCCEEecCCCCCCh
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVS---------FL---------------------SSGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~---------~l---------------------~~l~~L~~L~Ls~n~l~~  303 (462)
                       .+++|++|++++|.+.......++. +..         .+                     ...++|++|++++|.+.+
T Consensus       163 -~l~~L~~L~l~~n~l~~~~~~~l~~-L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~  240 (390)
T 3o6n_A          163 -ATTSLQNLQLSSNRLTHVDLSLIPS-LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD  240 (390)
T ss_dssp             -SCTTCCEEECCSSCCSBCCGGGCTT-CSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCC
T ss_pred             -CCCCCCEEECCCCcCCccccccccc-cceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcc
Confidence             2789999999999998743221100 000         00                     001256666677776665


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .  ..     ...+++|++|++++|.+++..+        ..+.   ++++|++|+|++|+++.     ++..+..+++|
T Consensus       241 ~--~~-----l~~l~~L~~L~Ls~n~l~~~~~--------~~~~---~l~~L~~L~L~~n~l~~-----~~~~~~~l~~L  297 (390)
T 3o6n_A          241 T--AW-----LLNYPGLVEVDLSYNELEKIMY--------HPFV---KMQRLERLYISNNRLVA-----LNLYGQPIPTL  297 (390)
T ss_dssp             C--GG-----GGGCTTCSEEECCSSCCCEEES--------GGGT---TCSSCCEEECCSSCCCE-----EECSSSCCTTC
T ss_pred             c--HH-----HcCCCCccEEECCCCcCCCcCh--------hHcc---ccccCCEEECCCCcCcc-----cCcccCCCCCC
Confidence            3  11     3456889999999999886444        4444   66899999999999996     55556778999


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      ++|++++|.++.      +|   ..+..+++|+.|++++|+++...       +.. .++|++|++++|++..
T Consensus       298 ~~L~L~~n~l~~------~~---~~~~~l~~L~~L~L~~N~i~~~~-------~~~-~~~L~~L~l~~N~~~~  353 (390)
T 3o6n_A          298 KVLDLSHNHLLH------VE---RNQPQFDRLENLYLDHNSIVTLK-------LST-HHTLKNLTLSHNDWDC  353 (390)
T ss_dssp             CEEECCSSCCCC------CG---GGHHHHTTCSEEECCSSCCCCCC-------CCT-TCCCSEEECCSSCEEH
T ss_pred             CEEECCCCccee------cC---ccccccCcCCEEECCCCccceeC-------chh-hccCCEEEcCCCCccc
Confidence            999999999986      33   23344589999999999998842       444 4569999999999864

>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=99.75  E-value=1.4e-19  Score=188.53  Aligned_cols=94  Identities=24%  Similarity=0.293  Sum_probs=53.9

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV  430 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~  430 (462)
                      ++++|++|++++|.+++..+ ..+..+..+++|++|++++|.+++.     .|   ..+..+++|+.|++++|+++..  
T Consensus       447 ~l~~L~~L~L~~n~l~~~~~-~~~~~~~~l~~L~~L~Ls~n~l~~~-----~~---~~~~~l~~L~~L~Ls~N~l~~~--  515 (606)
T 3t6q_A          447 GLPALQHLNLQGNHFPKGNI-QKTNSLQTLGRLEILVLSFCDLSSI-----DQ---HAFTSLKMMNHVDLSHNRLTSS--  515 (606)
T ss_dssp             TCTTCCEEECTTCBCGGGEE-CSSCGGGGCTTCCEEECTTSCCCEE-----CT---TTTTTCTTCCEEECCSSCCCGG--
T ss_pred             CCCCCCEEECCCCCCCcccc-ccchhhccCCCccEEECCCCccCcc-----Ch---hhhccccCCCEEECCCCccCcC--
Confidence            44566666666666654110 0112355666666666666666652     12   4455667777777777777664  


Q ss_pred             HHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          431 SQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       431 ~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                        .++.+..+ +.| +|++++|++++..+
T Consensus       516 --~~~~l~~l-~~L-~L~L~~N~l~~~~~  540 (606)
T 3t6q_A          516 --SIEALSHL-KGI-YLNLASNHISIILP  540 (606)
T ss_dssp             --GGGGGTTC-CSC-EEECCSSCCCCCCG
T ss_pred             --ChhHhCcc-ccc-EEECcCCcccccCH
Confidence              34455553 446 77777777765543

>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=99.75  E-value=3.8e-19  Score=179.91  Aligned_cols=232  Identities=17%  Similarity=0.107  Sum_probs=140.3

Q ss_pred             ccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....+ +..+.++++|++|+|++|.+.......    +.++++|++|+|++|.+....+..+.       
T Consensus        57 ~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~Ls~n~i~~~~~~~~~-------  125 (477)
T 2id5_A           57 HLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGV----FTGLSNLTKLDISENKIVILLDYMFQ-------  125 (477)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTS----STTCTTCCEEECTTSCCCEECTTTTT-------
T ss_pred             CCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCccc----ccCCCCCCEEECCCCccccCChhHcc-------
Confidence            345556665555443 344556666666666666654322211    23456667777776666543322221       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       .+.+|++|++++|.+..        .....+..+++|++|++++|.+.......+     ..+++|+.|++++|.+.+.
T Consensus       126 -~l~~L~~L~l~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l-----~~l~~L~~L~l~~n~i~~~  191 (477)
T 2id5_A          126 -DLYNLKSLEVGDNDLVY--------ISHRAFSGLNSLEQLTLEKCNLTSIPTEAL-----SHLHGLIVLRLRHLNINAI  191 (477)
T ss_dssp             -TCTTCCEEEECCTTCCE--------ECTTSSTTCTTCCEEEEESCCCSSCCHHHH-----TTCTTCCEEEEESCCCCEE
T ss_pred             -ccccCCEEECCCCccce--------eChhhccCCCCCCEEECCCCcCcccChhHh-----cccCCCcEEeCCCCcCcEe
Confidence             15667777777766655        223345566677777777777665433322     3456777777777776642


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                      .+           ..+..+++|+.|++++|.+.+    .+++......+|++|++++|.++.      ++.  ..+..++
T Consensus       192 ~~-----------~~~~~l~~L~~L~l~~~~~~~----~~~~~~~~~~~L~~L~l~~n~l~~------~~~--~~~~~l~  248 (477)
T 2id5_A          192 RD-----------YSFKRLYRLKVLEISHWPYLD----TMTPNCLYGLNLTSLSITHCNLTA------VPY--LAVRHLV  248 (477)
T ss_dssp             CT-----------TCSCSCTTCCEEEEECCTTCC----EECTTTTTTCCCSEEEEESSCCCS------CCH--HHHTTCT
T ss_pred             Ch-----------hhcccCcccceeeCCCCcccc----ccCcccccCccccEEECcCCcccc------cCH--HHhcCcc
Confidence            22           223355677777777776554    244444445578888888888876      332  3456778


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +|+.|++++|+++...    ...+.. .++|++|++++|++++..+
T Consensus       249 ~L~~L~Ls~n~l~~~~----~~~~~~-l~~L~~L~L~~n~l~~~~~  289 (477)
T 2id5_A          249 YLRFLNLSYNPISTIE----GSMLHE-LLRLQEIQLVGGQLAVVEP  289 (477)
T ss_dssp             TCCEEECCSSCCCEEC----TTSCTT-CTTCCEEECCSSCCSEECT
T ss_pred             ccCeeECCCCcCCccC----hhhccc-cccCCEEECCCCccceECH
Confidence            8999999999888742    233455 3559999999998877544

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

Probab=99.75  E-value=2.5e-19  Score=167.42  Aligned_cols=203  Identities=16%  Similarity=0.112  Sum_probs=153.6

Q ss_pred             hcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCC
Q 012512          194 LRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENC  273 (462)
Q Consensus       194 ~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~  273 (462)
                      ..+++|++|+++++.+.....      ...+++|++|++++|.+++..  .    +.    .+++|++|++++|.+..  
T Consensus        38 ~~l~~L~~L~l~~~~i~~~~~------l~~l~~L~~L~l~~n~l~~~~--~----l~----~l~~L~~L~L~~n~l~~--   99 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSVQG------IQYLPNVRYLALGGNKLHDIS--A----LK----ELTNLTYLILTGNQLQS--   99 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCCTT------GGGCTTCCEEECTTSCCCCCG--G----GT----TCTTCCEEECTTSCCCC--
T ss_pred             ccccceeeeeeCCCCcccccc------cccCCCCcEEECCCCCCCCch--h----hc----CCCCCCEEECCCCccCc--
Confidence            345678999999887654321      346899999999999887531  1    22    27889999999999887  


Q ss_pred             CchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCC
Q 012512          274 PSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQ  353 (462)
Q Consensus       274 ~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~  353 (462)
                            .....+..+++|++|++++|.+....+..     +..+++|++|++++|.+++..+        ..+   .+++
T Consensus       100 ------~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-----~~~l~~L~~L~L~~n~l~~~~~--------~~~---~~l~  157 (272)
T 3rfs_A          100 ------LPNGVFDKLTNLKELVLVENQLQSLPDGV-----FDKLTNLTYLNLAHNQLQSLPK--------GVF---DKLT  157 (272)
T ss_dssp             ------CCTTTTTTCTTCCEEECTTSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--------TTT---TTCT
T ss_pred             ------cChhHhcCCcCCCEEECCCCcCCccCHHH-----hccCCCCCEEECCCCccCccCH--------HHh---ccCc
Confidence                  33345677899999999999998644332     3457899999999999886433        223   3668


Q ss_pred             CccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHH
Q 012512          354 SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL  433 (462)
Q Consensus       354 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l  433 (462)
                      +|+.|++++|++++.    .+..+..+++|++|++++|.+++      ++.  ..+..+++|+.|++++|+++..     
T Consensus       158 ~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L~l~~N~~~~~-----  220 (272)
T 3rfs_A          158 NLTELDLSYNQLQSL----PEGVFDKLTQLKDLRLYQNQLKS------VPD--GVFDRLTSLQYIWLHDNPWDCT-----  220 (272)
T ss_dssp             TCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCCEEECCSSCBCCC-----
T ss_pred             cCCEEECCCCCcCcc----CHHHhcCCccCCEEECCCCcCCc------cCH--HHHhCCcCCCEEEccCCCcccc-----
Confidence            999999999999862    23456889999999999999886      332  4567789999999999998752     


Q ss_pred             HHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          434 LDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       434 ~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                             ++.|+.|+++.|.+++.+|.
T Consensus       221 -------~~~l~~l~~~~n~~~g~ip~  240 (272)
T 3rfs_A          221 -------CPGIRYLSEWINKHSGVVRN  240 (272)
T ss_dssp             -------TTTTHHHHHHHHHTGGGBBC
T ss_pred             -------CcHHHHHHHHHHhCCCcccC
Confidence                   34588888999998888775

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

Probab=99.75  E-value=1.1e-18  Score=166.44  Aligned_cols=210  Identities=22%  Similarity=0.156  Sum_probs=152.0

Q ss_pred             ccceeeeccccch-Hhhhhh--hcCCCcCEEEeccCCChHHHHHHHHHH-HhcCCCccEEEccCCCCChhHHHHHHHHHh
Q 012512          175 YARCLRLQNALCV-EETCQL--LRESKLQSLVLRWIRFEEHVQALCKLL-IQNSETLASLEFLHCKLSPSFVEGICRSLC  250 (462)
Q Consensus       175 ~~~~l~l~~~~~~-~~~~~l--~~~~~L~~L~L~~~~~~~~~~~l~~~l-~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~  250 (462)
                      .++.+++.++... ..+..+  ..+++|++|++++|.+......+ ..+ ...+++|++|++++|.++...+..+.    
T Consensus        96 ~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~----  170 (312)
T 1wwl_A           96 GLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWL-AELQQWLKPGLKVLSIAQAHSLNFSCEQVR----  170 (312)
T ss_dssp             CCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHH-HHHHTTCCTTCCEEEEESCSCCCCCTTTCC----
T ss_pred             CccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHH-HHHHHhhcCCCcEEEeeCCCCccchHHHhc----
Confidence            4455566665554 234444  57799999999999976542222 111 11238999999999998765444332    


Q ss_pred             cccccCCCccEEecCCCCCCCCCCchhHHHHHHhh--cCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCC
Q 012512          251 SKRKRIHKIENLSIDISSFIENCPSSVVVELVSFL--SSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGN  328 (462)
Q Consensus       251 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l--~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n  328 (462)
                          .+++|++|++++|.+..      ...+...+  ..+++|++|++++|.++...  .+...+...+++|++|++++|
T Consensus       171 ----~l~~L~~L~Ls~N~l~~------~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~--~~~~~~~~~l~~L~~L~Ls~N  238 (312)
T 1wwl_A          171 ----VFPALSTLDLSDNPELG------ERGLISALCPLKFPTLQVLALRNAGMETPS--GVCSALAAARVQLQGLDLSHN  238 (312)
T ss_dssp             ----CCSSCCEEECCSCTTCH------HHHHHHHSCTTSCTTCCEEECTTSCCCCHH--HHHHHHHHTTCCCSEEECTTS
T ss_pred             ----cCCCCCEEECCCCCcCc------chHHHHHHHhccCCCCCEEECCCCcCcchH--HHHHHHHhcCCCCCEEECCCC
Confidence                27899999999999765      01234444  78899999999999998421  233333556799999999999


Q ss_pred             CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhh
Q 012512          329 SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQA  408 (462)
Q Consensus       329 ~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~  408 (462)
                      .+++..+          ...+..+++|++|+|++|+|+.     ++..+.  ++|++|++++|.|++      +|   . 
T Consensus       239 ~l~~~~~----------~~~~~~l~~L~~L~Ls~N~l~~-----ip~~~~--~~L~~L~Ls~N~l~~------~p---~-  291 (312)
T 1wwl_A          239 SLRDAAG----------APSCDWPSQLNSLNLSFTGLKQ-----VPKGLP--AKLSVLDLSYNRLDR------NP---S-  291 (312)
T ss_dssp             CCCSSCC----------CSCCCCCTTCCEEECTTSCCSS-----CCSSCC--SEEEEEECCSSCCCS------CC---C-
T ss_pred             cCCcccc----------hhhhhhcCCCCEEECCCCccCh-----hhhhcc--CCceEEECCCCCCCC------Ch---h-
Confidence            9987432          1223356899999999999994     666555  899999999999997      44   3 


Q ss_pred             cCCCCCccEEEccCCCCChh
Q 012512          409 SERCNPLVELYLENCELSGR  428 (462)
Q Consensus       409 l~~~~~L~~L~L~~n~l~~~  428 (462)
                      +..+++|+.|++++|++++.
T Consensus       292 ~~~l~~L~~L~L~~N~l~~~  311 (312)
T 1wwl_A          292 PDELPQVGNLSLKGNPFLDS  311 (312)
T ss_dssp             TTTSCEEEEEECTTCTTTCC
T ss_pred             HhhCCCCCEEeccCCCCCCC
Confidence            66779999999999999864

>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=99.75  E-value=5.2e-19  Score=184.27  Aligned_cols=135  Identities=15%  Similarity=0.084  Sum_probs=94.7

Q ss_pred             ccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....+ +..+.++++|++|++++|.+....+..    +.++++|++|++++|.++...+..+.       
T Consensus        58 ~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~----~~~l~~L~~L~L~~n~i~~l~~~~~~-------  126 (606)
T 3t6q_A           58 NLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETA----LSGPKALKHLFFIQTGISSIDFIPLH-------  126 (606)
T ss_dssp             TCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTT----TSSCTTCCEEECTTSCCSCGGGSCCT-------
T ss_pred             cceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhh----hcccccccEeeccccCcccCCcchhc-------
Confidence            456777777766554 455678888888888888765432221    35678888899888888764333322       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCcc--EEEecCCCCC
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLS--ILDLSGNSIG  331 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~--~L~Ls~n~l~  331 (462)
                       .+.+|++|++++|.+.....        ..+..+++|++|++++|.+....+..+     ..+++|+  +|++++|.++
T Consensus       127 -~l~~L~~L~L~~n~l~~~~~--------~~~~~l~~L~~L~L~~n~l~~~~~~~~-----~~l~~L~~l~L~l~~n~l~  192 (606)
T 3t6q_A          127 -NQKTLESLYLGSNHISSIKL--------PKGFPTEKLKVLDFQNNAIHYLSKEDM-----SSLQQATNLSLNLNGNDIA  192 (606)
T ss_dssp             -TCTTCCEEECCSSCCCCCCC--------CTTCCCTTCCEEECCSSCCCEECHHHH-----HTTTTCCSEEEECTTCCCC
T ss_pred             -cCCcccEEECCCCcccccCc--------ccccCCcccCEEEcccCcccccChhhh-----hhhcccceeEEecCCCccC
Confidence             27889999999998876321        122347899999999999987666554     3467788  8899999887


Q ss_pred             Ccc
Q 012512          332 GWL  334 (462)
Q Consensus       332 ~~~  334 (462)
                      +..
T Consensus       193 ~~~  195 (606)
T 3t6q_A          193 GIE  195 (606)
T ss_dssp             EEC
T ss_pred             ccC
Confidence            543

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

Probab=99.75  E-value=9.7e-20  Score=175.34  Aligned_cols=241  Identities=17%  Similarity=0.137  Sum_probs=123.2

Q ss_pred             ccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....++ ..+.++++|++|++++|.+.......    +..+++|++|++++|.++.....         .
T Consensus        55 ~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~l~~~---------~  121 (332)
T 2ft3_A           55 DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKA----FSPLRKLQKLYISKNHLVEIPPN---------L  121 (332)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGG----STTCTTCCEEECCSSCCCSCCSS---------C
T ss_pred             CCeEEECCCCcCCccCHhHhhCCCCCcEEECCCCccCccCHhH----hhCcCCCCEEECCCCcCCccCcc---------c
Confidence            4556666666555443 34556777777777777655432111    34567777777777766521110         0


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                        ..+|++|++++|.+...        ....+..+++|++|++++|.+...+...   ..+..+ +|++|++++|.+++.
T Consensus       122 --~~~L~~L~l~~n~i~~~--------~~~~~~~l~~L~~L~l~~n~l~~~~~~~---~~~~~l-~L~~L~l~~n~l~~l  187 (332)
T 2ft3_A          122 --PSSLVELRIHDNRIRKV--------PKGVFSGLRNMNCIEMGGNPLENSGFEP---GAFDGL-KLNYLRISEAKLTGI  187 (332)
T ss_dssp             --CTTCCEEECCSSCCCCC--------CSGGGSSCSSCCEEECCSCCCBGGGSCT---TSSCSC-CCSCCBCCSSBCSSC
T ss_pred             --cccCCEEECCCCccCcc--------CHhHhCCCccCCEEECCCCccccCCCCc---ccccCC-ccCEEECcCCCCCcc
Confidence              24677777777776651        2234556677777777777665321110   001222 444555555444421


Q ss_pred             cccc---------CcccHH-HhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHH
Q 012512          334 LSKY---------DRSGPL-FSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIP  403 (462)
Q Consensus       334 ~~~~---------~~~~l~-~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~  403 (462)
                      ....         +...+. .....+..+++|++|+|++|++++.    .+..+..+++|++|++++|.++.      +|
T Consensus       188 ~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------lp  257 (332)
T 2ft3_A          188 PKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMI----ENGSLSFLPTLRELHLDNNKLSR------VP  257 (332)
T ss_dssp             CSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCC----CTTGGGGCTTCCEEECCSSCCCB------CC
T ss_pred             CccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcC----ChhHhhCCCCCCEEECCCCcCee------cC
Confidence            0000         000000 0001222456666777777766651    22346666677777777776664      44


Q ss_pred             HHHhhcCCCCCccEEEccCCCCChhhHHHHHHHH-hcCCCCCcEEEccCCCCC
Q 012512          404 YFVQASERCNPLVELYLENCELSGRGVSQLLDTL-STLRRPPTSLSIADNNLG  455 (462)
Q Consensus       404 ~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l-~~l~~~L~~L~Ls~N~l~  455 (462)
                         ..+..+++|+.|++++|+|+..+...+.... ......|+.|++++|++.
T Consensus       258 ---~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~~~  307 (332)
T 2ft3_A          258 ---AGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVP  307 (332)
T ss_dssp             ---TTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSSSC
T ss_pred             ---hhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCccc
Confidence               3455566777777777776664322211110 000233667777777665

>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=99.75  E-value=2e-19  Score=186.93  Aligned_cols=229  Identities=21%  Similarity=0.226  Sum_probs=166.4

Q ss_pred             ccceeeeccccchHhhhh-hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETCQ-LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~-l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++.+..++.. +.++++|++|+|++|.+......+    +..+++|++|+|++|.++...+..+..      
T Consensus       100 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~----~~~l~~L~~L~Ls~N~l~~~~~~~~~~------  169 (597)
T 3oja_B          100 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGI----FHNTPKLTTLSMSNNNLERIEDDTFQA------  169 (597)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTT----TTTCTTCCEEECCSSCCCBCCTTTTTT------
T ss_pred             CCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHH----hccCCCCCEEEeeCCcCCCCChhhhhc------
Confidence            567888888887776554 468899999999999876543322    457899999999999998655443332      


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHH---------Hhhc---------------------CCCCCCEEecCCCCCCh
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELV---------SFLS---------------------SGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~---------~~l~---------------------~l~~L~~L~Ls~n~l~~  303 (462)
                        +++|++|++++|.+.......++. +.         ..+.                     ..++|+.|+|++|.+++
T Consensus       170 --l~~L~~L~L~~N~l~~~~~~~l~~-L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~  246 (597)
T 3oja_B          170 --TTSLQNLQLSSNRLTHVDLSLIPS-LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTD  246 (597)
T ss_dssp             --CTTCCEEECTTSCCSBCCGGGCTT-CSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCC
T ss_pred             --CCcCcEEECcCCCCCCcChhhhhh-hhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCC
Confidence              789999999999998743221100 00         0000                     01246666666666665


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .  ..     ...+++|++|+|++|.+++..|        ..+.   ++++|+.|+|++|+++.     ++..+..+++|
T Consensus       247 ~--~~-----l~~l~~L~~L~Ls~N~l~~~~~--------~~~~---~l~~L~~L~Ls~N~l~~-----l~~~~~~l~~L  303 (597)
T 3oja_B          247 T--AW-----LLNYPGLVEVDLSYNELEKIMY--------HPFV---KMQRLERLYISNNRLVA-----LNLYGQPIPTL  303 (597)
T ss_dssp             C--GG-----GGGCTTCSEEECCSSCCCEEES--------GGGT---TCSSCCEEECTTSCCCE-----EECSSSCCTTC
T ss_pred             C--hh-----hccCCCCCEEECCCCccCCCCH--------HHhc---CccCCCEEECCCCCCCC-----CCcccccCCCC
Confidence            2  11     3456889999999999987554        4455   66899999999999996     56666778999


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +.|+|++|.++.      +|   ..+..+++|+.|++++|+++...       +.. .++|+.|++++|++..
T Consensus       304 ~~L~Ls~N~l~~------i~---~~~~~l~~L~~L~L~~N~l~~~~-------~~~-~~~L~~L~l~~N~~~~  359 (597)
T 3oja_B          304 KVLDLSHNHLLH------VE---RNQPQFDRLENLYLDHNSIVTLK-------LST-HHTLKNLTLSHNDWDC  359 (597)
T ss_dssp             CEEECCSSCCCC------CG---GGHHHHTTCSEEECCSSCCCCCC-------CCT-TCCCSEEECCSSCEEH
T ss_pred             cEEECCCCCCCc------cC---cccccCCCCCEEECCCCCCCCcC-------hhh-cCCCCEEEeeCCCCCC
Confidence            999999999986      44   33455689999999999998842       444 3569999999999864

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

Probab=99.75  E-value=4.5e-19  Score=169.52  Aligned_cols=215  Identities=20%  Similarity=0.143  Sum_probs=135.4

Q ss_pred             ccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++.....+ ..+..+++|++|++++|.+.....      +..+++|++|++++|.++...            
T Consensus        35 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~------~~~l~~L~~L~Ls~n~l~~l~------------   96 (317)
T 3o53_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD------LESLSTLRTLDLNNNYVQELL------------   96 (317)
T ss_dssp             GCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEE------ETTCTTCCEEECCSSEEEEEE------------
T ss_pred             CCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchh------hhhcCCCCEEECcCCcccccc------------
Confidence            3445555555544433 345566677777777666543221      234666777777776655211            


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       ..++|++|++++|.+.....           ..+++|++|++++|.++...+..+     ..+++|++|++++|.+++.
T Consensus        97 -~~~~L~~L~l~~n~l~~~~~-----------~~~~~L~~L~l~~N~l~~~~~~~~-----~~l~~L~~L~Ls~N~l~~~  159 (317)
T 3o53_A           97 -VGPSIETLHAANNNISRVSC-----------SRGQGKKNIYLANNKITMLRDLDE-----GCRSRVQYLDLKLNEIDTV  159 (317)
T ss_dssp             -ECTTCCEEECCSSCCSEEEE-----------CCCSSCEEEECCSSCCCSGGGBCT-----GGGSSEEEEECTTSCCCEE
T ss_pred             -CCCCcCEEECCCCccCCcCc-----------cccCCCCEEECCCCCCCCccchhh-----hccCCCCEEECCCCCCCcc
Confidence             14567777777777655211           235678888888888776433322     3357788888888887753


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                      .+        ..+..  .+++|++|+|++|++++.      +....+++|++|++++|.|++      ++   ..+..++
T Consensus       160 ~~--------~~~~~--~l~~L~~L~L~~N~l~~~------~~~~~l~~L~~L~Ls~N~l~~------l~---~~~~~l~  214 (317)
T 3o53_A          160 NF--------AELAA--SSDTLEHLNLQYNFIYDV------KGQVVFAKLKTLDLSSNKLAF------MG---PEFQSAA  214 (317)
T ss_dssp             EG--------GGGGG--GTTTCCEEECTTSCCCEE------ECCCCCTTCCEEECCSSCCCE------EC---GGGGGGT
T ss_pred             cH--------HHHhh--ccCcCCEEECCCCcCccc------ccccccccCCEEECCCCcCCc------ch---hhhcccC
Confidence            32        22211  346788888888888762      223357788888888888876      33   3355668


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      +|+.|++++|+|+.     ++..+.. .++|+.|++++|++.
T Consensus       215 ~L~~L~L~~N~l~~-----l~~~~~~-l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          215 GVTWISLRNNKLVL-----IEKALRF-SQNLEHFDLRGNGFH  250 (317)
T ss_dssp             TCSEEECTTSCCCE-----ECTTCCC-CTTCCEEECTTCCCB
T ss_pred             cccEEECcCCcccc-----hhhHhhc-CCCCCEEEccCCCcc
Confidence            88888888888886     4555655 356888888888886

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

Probab=99.74  E-value=3.4e-19  Score=186.45  Aligned_cols=136  Identities=14%  Similarity=0.096  Sum_probs=76.8

Q ss_pred             ccceeeeccccchH------------------hhhhhh--cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccC
Q 012512          175 YARCLRLQNALCVE------------------ETCQLL--RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLH  234 (462)
Q Consensus       175 ~~~~l~l~~~~~~~------------------~~~~l~--~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~  234 (462)
                      .++.+++.++....                  ++..+.  ++++|++|++++|.+....+..    +.++++|++|++++
T Consensus       207 ~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~----l~~l~~L~~L~Ls~  282 (636)
T 4eco_A          207 KLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTF----LKALPEMQLINVAC  282 (636)
T ss_dssp             TCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTT----TTTCSSCCEEECTT
T ss_pred             CCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHH----HhcCCCCCEEECcC
Confidence            44556666665555                  566666  7777777777777644332211    34567777777777


Q ss_pred             CC-CCh-hHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHH--hhcCCCCCCEEecCCCCCChhhHHHHH
Q 012512          235 CK-LSP-SFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVS--FLSSGRSLCSLKLRHCHLDRDFGRMVF  310 (462)
Q Consensus       235 ~~-l~~-~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~--~l~~l~~L~~L~Ls~n~l~~~~~~~l~  310 (462)
                      |. ++. ..+..+... . ....+.+|++|++++|.+..         ++.  .+..+++|++|++++|.+.+..+ .  
T Consensus       283 n~~l~~~~lp~~~~~L-~-~~~~l~~L~~L~L~~n~l~~---------ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~--  348 (636)
T 4eco_A          283 NRGISGEQLKDDWQAL-A-DAPVGEKIQIIYIGYNNLKT---------FPVETSLQKMKKLGMLECLYNQLEGKLP-A--  348 (636)
T ss_dssp             CTTSCHHHHHHHHHHH-H-HSGGGGTCCEEECCSSCCSS---------CCCHHHHTTCTTCCEEECCSCCCEEECC-C--
T ss_pred             CCCCccccchHHHHhh-h-ccccCCCCCEEECCCCcCCc---------cCchhhhccCCCCCEEeCcCCcCccchh-h--
Confidence            76 665 455544331 0 00013667777777776654         333  55666677777777776663333 1  


Q ss_pred             HHHhhCCCCccEEEecCCCCC
Q 012512          311 SSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       311 ~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                         +..+++|++|++++|.++
T Consensus       349 ---~~~l~~L~~L~L~~N~l~  366 (636)
T 4eco_A          349 ---FGSEIKLASLNLAYNQIT  366 (636)
T ss_dssp             ---CEEEEEESEEECCSSEEE
T ss_pred             ---hCCCCCCCEEECCCCccc
Confidence               123345555555555544

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

Probab=99.74  E-value=7.2e-19  Score=188.00  Aligned_cols=199  Identities=16%  Similarity=0.140  Sum_probs=121.1

Q ss_pred             HhcCCCccEEEccCCCCChhHH---------HHHHHHHhcccc--cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCC
Q 012512          221 IQNSETLASLEFLHCKLSPSFV---------EGICRSLCSKRK--RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGR  289 (462)
Q Consensus       221 ~~~~~~L~~L~L~~~~l~~~~~---------~~l~~~l~~~~~--~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~  289 (462)
                      +.++++|++|+|++|.++....         ..+...+.....  .+.+|++|++++|.+..        .++..+..++
T Consensus       444 l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~--------~iP~~l~~L~  515 (876)
T 4ecn_A          444 IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMT--------QLPDFLYDLP  515 (876)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCC--------SCCGGGGGCS
T ss_pred             HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCc--------cChHHHhCCC
Confidence            3457778888888887775200         111111222222  36778888888877666        4556677778


Q ss_pred             CCCEEecCCCC-CCh-hhHHHHHHH--HhhCCCCccEEEecCCCCCCcccccCcccHHH--hhhCCCCCCCccEEEccCC
Q 012512          290 SLCSLKLRHCH-LDR-DFGRMVFSS--LLEASSSLSILDLSGNSIGGWLSKYDRSGPLF--SLGAGKSLQSLRLLNLRGN  363 (462)
Q Consensus       290 ~L~~L~Ls~n~-l~~-~~~~~l~~~--l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~--~l~~~~~l~~L~~L~L~~n  363 (462)
                      +|++|+|++|+ +++ ..+..+...  .+..+++|++|+|++|.++ .+|        .  .+.   ++++|+.|+|++|
T Consensus       516 ~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip--------~~~~l~---~L~~L~~L~Ls~N  583 (876)
T 4ecn_A          516 ELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFP--------ASASLQ---KMVKLGLLDCVHN  583 (876)
T ss_dssp             SCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCC--------CHHHHT---TCTTCCEEECTTS
T ss_pred             CCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccC--------Chhhhh---cCCCCCEEECCCC
Confidence            88888888887 776 556555431  1233457888888888777 333        3  444   4567777777777


Q ss_pred             CCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC-ccEEEccCCCCChhhHHHHHHHHhcCC-
Q 012512          364 NLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP-LVELYLENCELSGRGVSQLLDTLSTLR-  441 (462)
Q Consensus       364 ~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~-L~~L~L~~n~l~~~~~~~l~~~l~~l~-  441 (462)
                      +++.     ++ .+..+++|+.|++++|.++.      +|   ..+..+++ |+.|++++|+++.     ++..+.... 
T Consensus       584 ~l~~-----lp-~~~~L~~L~~L~Ls~N~l~~------lp---~~l~~l~~~L~~L~Ls~N~L~~-----lp~~~~~~~~  643 (876)
T 4ecn_A          584 KVRH-----LE-AFGTNVKLTDLKLDYNQIEE------IP---EDFCAFTDQVEGLGFSHNKLKY-----IPNIFNAKSV  643 (876)
T ss_dssp             CCCB-----CC-CCCTTSEESEEECCSSCCSC------CC---TTSCEECTTCCEEECCSSCCCS-----CCSCCCTTCS
T ss_pred             Cccc-----ch-hhcCCCcceEEECcCCcccc------ch---HHHhhccccCCEEECcCCCCCc-----Cchhhhcccc
Confidence            7773     44 66677777777777777663      44   44555566 7777777777664     333333311 


Q ss_pred             CCCcEEEccCCCCCCccc
Q 012512          442 RPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       442 ~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++|+.|++++|+|++.+|
T Consensus       644 ~~L~~L~Ls~N~l~g~ip  661 (876)
T 4ecn_A          644 YVMGSVDFSYNKIGSEGR  661 (876)
T ss_dssp             SCEEEEECCSSCTTTTSS
T ss_pred             CCCCEEECcCCcCCCccc
Confidence            226666777666665543

>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=99.74  E-value=3e-18  Score=163.04  Aligned_cols=192  Identities=20%  Similarity=0.242  Sum_probs=128.6

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      +++|++|+++++.+.... .     ...+++|++|++++|.+++...  +.        .+.+|++|++++|.+..    
T Consensus        40 l~~L~~L~l~~~~i~~l~-~-----~~~l~~L~~L~L~~n~i~~~~~--~~--------~l~~L~~L~L~~n~l~~----   99 (308)
T 1h6u_A           40 LDGITTLSAFGTGVTTIE-G-----VQYLNNLIGLELKDNQITDLAP--LK--------NLTKITELELSGNPLKN----   99 (308)
T ss_dssp             HHTCCEEECTTSCCCCCT-T-----GGGCTTCCEEECCSSCCCCCGG--GT--------TCCSCCEEECCSCCCSC----
T ss_pred             cCCcCEEEeeCCCccCch-h-----hhccCCCCEEEccCCcCCCChh--Hc--------cCCCCCEEEccCCcCCC----
Confidence            355777777777654421 1     3457788888888887765432  11        16778888888887765    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                           + ..+..+++|++|++++|.+.+...       ...+++|++|++++|.+++..         . +.   .+++|
T Consensus       100 -----~-~~~~~l~~L~~L~l~~n~l~~~~~-------l~~l~~L~~L~l~~n~l~~~~---------~-l~---~l~~L  153 (308)
T 1h6u_A          100 -----V-SAIAGLQSIKTLDLTSTQITDVTP-------LAGLSNLQVLYLDLNQITNIS---------P-LA---GLTNL  153 (308)
T ss_dssp             -----C-GGGTTCTTCCEEECTTSCCCCCGG-------GTTCTTCCEEECCSSCCCCCG---------G-GG---GCTTC
T ss_pred             -----c-hhhcCCCCCCEEECCCCCCCCchh-------hcCCCCCCEEECCCCccCcCc---------c-cc---CCCCc
Confidence                 1 246667788888888888776321       345678888888888877521         1 33   45778


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHH
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLD  435 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~  435 (462)
                      +.|++++|++++     +++ +..+++|+.|++++|.+++      ++    .+..+++|+.|++++|++++..      
T Consensus       154 ~~L~l~~n~l~~-----~~~-l~~l~~L~~L~l~~n~l~~------~~----~l~~l~~L~~L~L~~N~l~~~~------  211 (308)
T 1h6u_A          154 QYLSIGNAQVSD-----LTP-LANLSKLTTLKADDNKISD------IS----PLASLPNLIEVHLKNNQISDVS------  211 (308)
T ss_dssp             CEEECCSSCCCC-----CGG-GTTCTTCCEEECCSSCCCC------CG----GGGGCTTCCEEECTTSCCCBCG------
T ss_pred             cEEEccCCcCCC-----Chh-hcCCCCCCEEECCCCccCc------Ch----hhcCCCCCCEEEccCCccCccc------
Confidence            888888888876     333 7777888888888888776      32    2455678888888888887742      


Q ss_pred             HHhcCCCCCcEEEccCCCCCC
Q 012512          436 TLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       436 ~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      .+.. .++|++|++++|++++
T Consensus       212 ~l~~-l~~L~~L~l~~N~i~~  231 (308)
T 1h6u_A          212 PLAN-TSNLFIVTLTNQTITN  231 (308)
T ss_dssp             GGTT-CTTCCEEEEEEEEEEC
T ss_pred             cccC-CCCCCEEEccCCeeec
Confidence            2555 3558888888887765

>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=99.74  E-value=9.5e-19  Score=168.23  Aligned_cols=225  Identities=19%  Similarity=0.155  Sum_probs=115.7

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++....++. .+.++++|++|++++|.+.......    +..+++|++|++++|.++.....         .
T Consensus        53 ~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~----~~~l~~L~~L~Ls~n~l~~l~~~---------~  119 (330)
T 1xku_A           53 DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGA----FAPLVKLERLYLSKNQLKELPEK---------M  119 (330)
T ss_dssp             TCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTT----TTTCTTCCEEECCSSCCSBCCSS---------C
T ss_pred             CCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHH----hcCCCCCCEEECCCCcCCccChh---------h
Confidence            33445555554444333 3445566666666666544321111    23456666666666655421100         0


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                        ..+|++|++++|.+..        .....+..+++|++|++++|.+...+...   ..+..+++|++|++++|.++..
T Consensus       120 --~~~L~~L~l~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~---~~~~~l~~L~~L~l~~n~l~~l  186 (330)
T 1xku_A          120 --PKTLQELRVHENEITK--------VRKSVFNGLNQMIVVELGTNPLKSSGIEN---GAFQGMKKLSYIRIADTNITTI  186 (330)
T ss_dssp             --CTTCCEEECCSSCCCB--------BCHHHHTTCTTCCEEECCSSCCCGGGBCT---TGGGGCTTCCEEECCSSCCCSC
T ss_pred             --cccccEEECCCCcccc--------cCHhHhcCCccccEEECCCCcCCccCcCh---hhccCCCCcCEEECCCCccccC
Confidence              2456666666666655        23344555666666666666664321110   0023346666666666666531


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                       |        ..+.     ++|++|++++|++++.    .+..+..+++|++|++++|.+++.      +.  ..+..++
T Consensus       187 -~--------~~~~-----~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~Ls~n~l~~~------~~--~~~~~l~  240 (330)
T 1xku_A          187 -P--------QGLP-----PSLTELHLDGNKITKV----DAASLKGLNNLAKLGLSFNSISAV------DN--GSLANTP  240 (330)
T ss_dssp             -C--------SSCC-----TTCSEEECTTSCCCEE----CTGGGTTCTTCCEEECCSSCCCEE------CT--TTGGGST
T ss_pred             -C--------cccc-----ccCCEEECCCCcCCcc----CHHHhcCCCCCCEEECCCCcCcee------Ch--hhccCCC
Confidence             1        1111     4566666666666652    234455666666666666666542      11  2344456


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +|+.|++++|+++.     ++..+.. .++|++|++++|+|++.
T Consensus       241 ~L~~L~L~~N~l~~-----lp~~l~~-l~~L~~L~l~~N~i~~~  278 (330)
T 1xku_A          241 HLRELHLNNNKLVK-----VPGGLAD-HKYIQVVYLHNNNISAI  278 (330)
T ss_dssp             TCCEEECCSSCCSS-----CCTTTTT-CSSCCEEECCSSCCCCC
T ss_pred             CCCEEECCCCcCcc-----CChhhcc-CCCcCEEECCCCcCCcc
Confidence            66666666666664     4444444 34466666666666543

>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=99.74  E-value=9.5e-19  Score=175.71  Aligned_cols=208  Identities=20%  Similarity=0.143  Sum_probs=161.0

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      +++++|+|++|.+.......    +.++++|++|+|++|.++...+..+..        +.+|++|++++|.+..     
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~----~~~l~~L~~L~Ls~n~i~~~~~~~~~~--------l~~L~~L~L~~n~l~~-----  137 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADT----FRHLHHLEVLQLGRNSIRQIEVGAFNG--------LASLNTLELFDNWLTV-----  137 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTT----TTTCTTCCEEECCSSCCCEECTTTTTT--------CTTCCEEECCSSCCSB-----
T ss_pred             CCccEEECcCCcCceECHHH----cCCCCCCCEEECCCCccCCcChhhccC--------cccCCEEECCCCcCCc-----
Confidence            57999999999876543222    457899999999999998654444332        7899999999999887     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                         .....+..+++|++|+|++|.+.......     +..+++|++|++++|...+..+        .  ..+.++++|+
T Consensus       138 ---~~~~~~~~l~~L~~L~L~~N~l~~~~~~~-----~~~l~~L~~L~l~~~~~l~~i~--------~--~~~~~l~~L~  199 (452)
T 3zyi_A          138 ---IPSGAFEYLSKLRELWLRNNPIESIPSYA-----FNRVPSLMRLDLGELKKLEYIS--------E--GAFEGLFNLK  199 (452)
T ss_dssp             ---CCTTTSSSCTTCCEEECCSCCCCEECTTT-----TTTCTTCCEEECCCCTTCCEEC--------T--TTTTTCTTCC
T ss_pred             ---cChhhhcccCCCCEEECCCCCcceeCHhH-----HhcCCcccEEeCCCCCCccccC--------h--hhccCCCCCC
Confidence               23445778899999999999998643322     3567999999999965443222        1  2233678999


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHH
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT  436 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~  436 (462)
                      .|+|++|++++     + +.+..+++|++|++++|.|++.     .+   ..+..+++|+.|++++|+++..    ....
T Consensus       200 ~L~L~~n~l~~-----~-~~~~~l~~L~~L~Ls~N~l~~~-----~~---~~~~~l~~L~~L~L~~n~l~~~----~~~~  261 (452)
T 3zyi_A          200 YLNLGMCNIKD-----M-PNLTPLVGLEELEMSGNHFPEI-----RP---GSFHGLSSLKKLWVMNSQVSLI----ERNA  261 (452)
T ss_dssp             EEECTTSCCSS-----C-CCCTTCTTCCEEECTTSCCSEE-----CG---GGGTTCTTCCEEECTTSCCCEE----CTTT
T ss_pred             EEECCCCcccc-----c-ccccccccccEEECcCCcCccc-----Cc---ccccCccCCCEEEeCCCcCceE----CHHH
Confidence            99999999996     3 3578899999999999999872     23   5678889999999999999885    2445


Q ss_pred             HhcCCCCCcEEEccCCCCCCcc
Q 012512          437 LSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       437 l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      +.. .++|++|+|++|+|++..
T Consensus       262 ~~~-l~~L~~L~L~~N~l~~~~  282 (452)
T 3zyi_A          262 FDG-LASLVELNLAHNNLSSLP  282 (452)
T ss_dssp             TTT-CTTCCEEECCSSCCSCCC
T ss_pred             hcC-CCCCCEEECCCCcCCccC
Confidence            666 356999999999998644

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.74  E-value=5.5e-19  Score=168.36  Aligned_cols=212  Identities=19%  Similarity=0.141  Sum_probs=151.0

Q ss_pred             cceeeeccccchH-hhhhh--hcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          176 ARCLRLQNALCVE-ETCQL--LRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       176 ~~~l~l~~~~~~~-~~~~l--~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ++.+.+.++.... .+..+  ..+++|++|++++|.+......+.......+++|++|+|++|.+....+..+       
T Consensus        93 L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~-------  165 (310)
T 4glp_A           93 LKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQV-------  165 (310)
T ss_dssp             CCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSC-------
T ss_pred             eeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHh-------
Confidence            4555666555443 23333  5678999999999997653221111113468999999999999875443332       


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHH--HhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELV--SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSI  330 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~--~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l  330 (462)
                       ..+.+|++|++++|.+..      ...+.  ..+..+++|++|++++|.++...  ..+..+...+++|++|+|++|.+
T Consensus       166 -~~l~~L~~L~Ls~N~l~~------~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~--~~~~~l~~~l~~L~~L~Ls~N~l  236 (310)
T 4glp_A          166 -RAFPALTSLDLSDNPGLG------ERGLMAALCPHKFPAIQNLALRNTGMETPT--GVCAALAAAGVQPHSLDLSHNSL  236 (310)
T ss_dssp             -CCCTTCCEEECCSCTTCH------HHHHHTTSCTTSSCCCCSCBCCSSCCCCHH--HHHHHHHHHTCCCSSEECTTSCC
T ss_pred             -ccCCCCCEEECCCCCCcc------chhhhHHHhhhcCCCCCEEECCCCCCCchH--HHHHHHHhcCCCCCEEECCCCCC
Confidence             227899999999999764      01122  22357889999999999997422  22223344569999999999999


Q ss_pred             CCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcC
Q 012512          331 GGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE  410 (462)
Q Consensus       331 ~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~  410 (462)
                      ++..|        ..+..+..+++|++|+|++|+|+.     ++..+.  ++|++|++++|.|++      +|    .+.
T Consensus       237 ~~~~p--------~~~~~~~~~~~L~~L~Ls~N~l~~-----lp~~~~--~~L~~L~Ls~N~l~~------~~----~~~  291 (310)
T 4glp_A          237 RATVN--------PSAPRCMWSSALNSLNLSFAGLEQ-----VPKGLP--AKLRVLDLSSNRLNR------AP----QPD  291 (310)
T ss_dssp             CCCCC--------SCCSSCCCCTTCCCEECCSSCCCS-----CCSCCC--SCCSCEECCSCCCCS------CC----CTT
T ss_pred             Cccch--------hhHHhccCcCcCCEEECCCCCCCc-----hhhhhc--CCCCEEECCCCcCCC------Cc----hhh
Confidence            97544        444544444799999999999995     555553  799999999999996      43    256


Q ss_pred             CCCCccEEEccCCCCChh
Q 012512          411 RCNPLVELYLENCELSGR  428 (462)
Q Consensus       411 ~~~~L~~L~L~~n~l~~~  428 (462)
                      .+++|+.|++++|++++.
T Consensus       292 ~l~~L~~L~L~~N~l~~~  309 (310)
T 4glp_A          292 ELPEVDNLTLDGNPFLVP  309 (310)
T ss_dssp             SCCCCSCEECSSTTTSCC
T ss_pred             hCCCccEEECcCCCCCCC
Confidence            679999999999999874

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

Probab=99.74  E-value=1.6e-19  Score=188.95  Aligned_cols=215  Identities=15%  Similarity=0.173  Sum_probs=115.9

Q ss_pred             hhhhhhcCCCcCEEEeccCCChHH-------------HHHHHHHHHh--cCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          189 ETCQLLRESKLQSLVLRWIRFEEH-------------VQALCKLLIQ--NSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~~~~-------------~~~l~~~l~~--~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      ++..+.++++|++|+|++|.+...             .....+....  ++++|++|+|++|.+....+..+..      
T Consensus       198 ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~------  271 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKA------  271 (636)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTT------
T ss_pred             CCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhc------
Confidence            344555666666666666665441             0000111122  4566666666666665544433322      


Q ss_pred             ccCCCccEEecCCCC-CCCCCCchhHHHHHHhhcCC------CCCCEEecCCCCCChhhHH--HHHHHHhhCCCCccEEE
Q 012512          254 KRIHKIENLSIDISS-FIENCPSSVVVELVSFLSSG------RSLCSLKLRHCHLDRDFGR--MVFSSLLEASSSLSILD  324 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~-~~~~~~~~~~~~l~~~l~~l------~~L~~L~Ls~n~l~~~~~~--~l~~~l~~~~~~L~~L~  324 (462)
                        +.+|++|++++|. +..       ..++..+..+      ++|++|++++|.++ ..+.  .+     ..+++|++|+
T Consensus       272 --l~~L~~L~Ls~n~~l~~-------~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l-----~~l~~L~~L~  336 (636)
T 4eco_A          272 --LPEMQLINVACNRGISG-------EQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSL-----QKMKKLGMLE  336 (636)
T ss_dssp             --CSSCCEEECTTCTTSCH-------HHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHH-----TTCTTCCEEE
T ss_pred             --CCCCCEEECcCCCCCcc-------ccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhh-----ccCCCCCEEe
Confidence              5666666666665 331       1233333333      56666666666665 2332  22     3356666666


Q ss_pred             ecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCC-CCEEeCCCCCCCchhHHhHHH
Q 012512          325 LSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN-LEILDISDNTIEDDGIRSLIP  403 (462)
Q Consensus       325 Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~-L~~L~Ls~N~l~~~g~~~l~~  403 (462)
                      +++|.+++.+|            .+..+++|+.|++++|+++.     ++..+..+++ |++|++++|.++.      +|
T Consensus       337 L~~N~l~g~ip------------~~~~l~~L~~L~L~~N~l~~-----lp~~l~~l~~~L~~L~Ls~N~l~~------lp  393 (636)
T 4eco_A          337 CLYNQLEGKLP------------AFGSEIKLASLNLAYNQITE-----IPANFCGFTEQVENLSFAHNKLKY------IP  393 (636)
T ss_dssp             CCSCCCEEECC------------CCEEEEEESEEECCSSEEEE-----CCTTSEEECTTCCEEECCSSCCSS------CC
T ss_pred             CcCCcCccchh------------hhCCCCCCCEEECCCCcccc-----ccHhhhhhcccCcEEEccCCcCcc------cc
Confidence            66666653221            11234566667777766663     5556666666 7777777777664      44


Q ss_pred             HHHhhcCCCC--CccEEEccCCCCChhhHHHHHHHHh-------cCCCCCcEEEccCCCCC
Q 012512          404 YFVQASERCN--PLVELYLENCELSGRGVSQLLDTLS-------TLRRPPTSLSIADNNLG  455 (462)
Q Consensus       404 ~l~~~l~~~~--~L~~L~L~~n~l~~~~~~~l~~~l~-------~l~~~L~~L~Ls~N~l~  455 (462)
                         ..+...+  +|+.|++++|+++..    ++..+.       . ..+|++|++++|.|+
T Consensus       394 ---~~~~~~~l~~L~~L~Ls~N~l~~~----~p~~l~~~~~~~~~-~~~L~~L~Ls~N~l~  446 (636)
T 4eco_A          394 ---NIFDAKSVSVMSAIDFSYNEIGSV----DGKNFDPLDPTPFK-GINVSSINLSNNQIS  446 (636)
T ss_dssp             ---SCCCTTCSSCEEEEECCSSCTTTT----TTCSSCTTCSSCCC-CCCEEEEECCSSCCC
T ss_pred             ---hhhhhcccCccCEEECcCCcCCCc----chhhhccccccccc-CCCCCEEECcCCccC
Confidence               3333322  677777777777653    223333       2 234777777777776

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

Probab=99.74  E-value=8.1e-19  Score=175.58  Aligned_cols=209  Identities=18%  Similarity=0.148  Sum_probs=161.5

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      ++++.|+|++|.+.......    +.++++|++|+|++|.++......+..        +.+|++|++++|.+..     
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~----~~~l~~L~~L~Ls~n~i~~i~~~~~~~--------l~~L~~L~L~~n~l~~-----  126 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNS----FKHLRHLEILQLSRNHIRTIEIGAFNG--------LANLNTLELFDNRLTT-----  126 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTT----TSSCSSCCEEECCSSCCCEECGGGGTT--------CSSCCEEECCSSCCSS-----
T ss_pred             CCCcEEEccCCcCCeeCHHH----hhCCCCCCEEECCCCcCCccChhhccC--------CccCCEEECCCCcCCe-----
Confidence            57899999999876543222    457899999999999998655444332        7899999999999987     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                         .....+..+++|++|+|++|.+.......     +..+++|++|++++|...+..+        .  ..+.++++|+
T Consensus       127 ---~~~~~~~~l~~L~~L~L~~N~i~~~~~~~-----~~~l~~L~~L~l~~~~~l~~i~--------~--~~~~~l~~L~  188 (440)
T 3zyj_A          127 ---IPNGAFVYLSKLKELWLRNNPIESIPSYA-----FNRIPSLRRLDLGELKRLSYIS--------E--GAFEGLSNLR  188 (440)
T ss_dssp             ---CCTTTSCSCSSCCEEECCSCCCCEECTTT-----TTTCTTCCEEECCCCTTCCEEC--------T--TTTTTCSSCC
T ss_pred             ---eCHhHhhccccCceeeCCCCcccccCHHH-----hhhCcccCEeCCCCCCCcceeC--------c--chhhcccccC
Confidence               23346778899999999999998744332     3567999999999965443222        1  2233678999


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHH
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT  436 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~  436 (462)
                      +|+|++|+++.     ++ .+..+++|++|++++|.|++.     .+   ..+..+++|+.|++++|+++..    ....
T Consensus       189 ~L~L~~n~l~~-----~~-~~~~l~~L~~L~Ls~N~l~~~-----~~---~~~~~l~~L~~L~L~~n~l~~~----~~~~  250 (440)
T 3zyj_A          189 YLNLAMCNLRE-----IP-NLTPLIKLDELDLSGNHLSAI-----RP---GSFQGLMHLQKLWMIQSQIQVI----ERNA  250 (440)
T ss_dssp             EEECTTSCCSS-----CC-CCTTCSSCCEEECTTSCCCEE-----CT---TTTTTCTTCCEEECTTCCCCEE----CTTS
T ss_pred             eecCCCCcCcc-----cc-ccCCCcccCEEECCCCccCcc-----Ch---hhhccCccCCEEECCCCceeEE----Chhh
Confidence            99999999996     33 478899999999999999872     23   5678889999999999999885    2345


Q ss_pred             HhcCCCCCcEEEccCCCCCCccc
Q 012512          437 LSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       437 l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +.. .++|++|+|++|+|++..+
T Consensus       251 ~~~-l~~L~~L~L~~N~l~~~~~  272 (440)
T 3zyj_A          251 FDN-LQSLVEINLAHNNLTLLPH  272 (440)
T ss_dssp             STT-CTTCCEEECTTSCCCCCCT
T ss_pred             hcC-CCCCCEEECCCCCCCccCh
Confidence            556 4569999999999986543

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.74  E-value=3.7e-19  Score=166.63  Aligned_cols=208  Identities=16%  Similarity=0.126  Sum_probs=128.4

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      +++++|++++|.+.......    +..+++|++|++++|.++......+..        +.+|++|++++|.+..     
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~----~~~l~~L~~L~l~~n~l~~~~~~~~~~--------l~~L~~L~L~~n~l~~-----   90 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYS----FFSFPELQVLDLSRCEIQTIEDGAYQS--------LSHLSTLILTGNPIQS-----   90 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTT----TTTCTTCSEEECTTCCCCEECTTTTTT--------CTTCCEEECTTCCCCE-----
T ss_pred             CCccEEECCCCcccccCHhH----hccccCCcEEECCCCcCCccCHHHccC--------CcCCCEEECCCCccCc-----
Confidence            35777888777755432211    345777888888888776443322221        6778888888887766     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc-ccccCcccHHHhhhCCCCCCCc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW-LSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~-~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                         .....+..+++|++|++++|.+.......     ...+++|++|++++|.+++. .|        ..+.   ++++|
T Consensus        91 ---~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~~~~l~--------~~~~---~l~~L  151 (276)
T 2z62_A           91 ---LALGAFSGLSSLQKLVAVETNLASLENFP-----IGHLKTLKELNVAHNLIQSFKLP--------EYFS---NLTNL  151 (276)
T ss_dssp             ---ECTTTTTTCTTCCEEECTTSCCCCSTTCC-----CTTCTTCCEEECCSSCCCCCCCC--------GGGG---GCTTC
T ss_pred             ---cChhhhcCCccccEEECCCCCccccCchh-----cccCCCCCEEECcCCccceecCc--------hhhc---cCCCC
Confidence               23345666778888888888776633322     24467788888888887652 12        3444   45778


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCC----EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHH
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLE----ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVS  431 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~----~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~  431 (462)
                      ++|++++|++++...    ..+..+++|+    .|++++|.++.      ++   .......+|+.|++++|+++..   
T Consensus       152 ~~L~Ls~N~l~~~~~----~~~~~l~~L~~l~l~L~ls~n~l~~------~~---~~~~~~~~L~~L~L~~n~l~~~---  215 (276)
T 2z62_A          152 EHLDLSSNKIQSIYC----TDLRVLHQMPLLNLSLDLSLNPMNF------IQ---PGAFKEIRLKELALDTNQLKSV---  215 (276)
T ss_dssp             CEEECCSSCCCEECG----GGGHHHHTCTTCCEEEECCSSCCCE------EC---TTSSCSCCEEEEECCSSCCSCC---
T ss_pred             CEEECCCCCCCcCCH----HHhhhhhhccccceeeecCCCcccc------cC---ccccCCCcccEEECCCCceeec---
Confidence            888888888776321    2233333343    78888888775      32   1222234788888888887763   


Q ss_pred             HHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          432 QLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       432 ~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                       ....+.. .++|++|++++|++....
T Consensus       216 -~~~~~~~-l~~L~~L~l~~N~~~c~c  240 (276)
T 2z62_A          216 -PDGIFDR-LTSLQKIWLHTNPWDCSC  240 (276)
T ss_dssp             -CTTTTTT-CCSCCEEECCSSCBCCCT
T ss_pred             -CHhHhcc-cccccEEEccCCcccccC
Confidence             1223344 345888888888877554

>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=99.73  E-value=7.7e-19  Score=165.24  Aligned_cols=231  Identities=16%  Similarity=0.093  Sum_probs=169.3

Q ss_pred             cccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCC-CChhHHHHHHHHHhc
Q 012512          174 HYARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK-LSPSFVEGICRSLCS  251 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~-l~~~~~~~l~~~l~~  251 (462)
                      ..++.+.+.++....++. .+..+++|++|++++|.+.......    +..+++|++|++++|. ++...+..+..    
T Consensus        32 ~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~----~~~l~~L~~L~l~~n~~l~~~~~~~~~~----  103 (285)
T 1ozn_A           32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA----FTGLALLEQLDLSDNAQLRSVDPATFHG----  103 (285)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT----TTTCTTCCEEECCSCTTCCCCCTTTTTT----
T ss_pred             CCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhh----cCCccCCCEEeCCCCCCccccCHHHhcC----
Confidence            356777888877766553 4668899999999999876542221    3568999999999997 76543333322    


Q ss_pred             ccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       252 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                          +.+|++|++++|.+..        .....+..+++|++|++++|.+.......     +..+++|++|++++|.++
T Consensus       104 ----l~~L~~L~l~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~  166 (285)
T 1ozn_A          104 ----LGRLHTLHLDRCGLQE--------LGPGLFRGLAALQYLYLQDNALQALPDDT-----FRDLGNLTHLFLHGNRIS  166 (285)
T ss_dssp             ----CTTCCEEECTTSCCCC--------CCTTTTTTCTTCCEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCC
T ss_pred             ----CcCCCEEECCCCcCCE--------ECHhHhhCCcCCCEEECCCCcccccCHhH-----hccCCCccEEECCCCccc
Confidence                7899999999999887        33456778899999999999998744432     245789999999999998


Q ss_pred             CcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCC
Q 012512          332 GWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER  411 (462)
Q Consensus       332 ~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~  411 (462)
                      +..+        ..+.   ++++|+.|++++|++++.    .+..+..+++|+.|++++|.+++      ++.  ..+..
T Consensus       167 ~~~~--------~~~~---~l~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~l~~n~l~~------~~~--~~~~~  223 (285)
T 1ozn_A          167 SVPE--------RAFR---GLHSLDRLLLHQNRVAHV----HPHAFRDLGRLMTLYLFANNLSA------LPT--EALAP  223 (285)
T ss_dssp             EECT--------TTTT---TCTTCCEEECCSSCCCEE----CTTTTTTCTTCCEEECCSSCCSC------CCH--HHHTT
T ss_pred             ccCH--------HHhc---CccccCEEECCCCccccc----CHhHccCcccccEeeCCCCcCCc------CCH--HHccc
Confidence            5332        2233   668999999999999973    46678899999999999999987      321  44677


Q ss_pred             CCCccEEEccCCCCChhh-HHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          412 CNPLVELYLENCELSGRG-VSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~~~-~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +++|+.|++++|+++... ...+...+..       +..+.|.+....|
T Consensus       224 l~~L~~L~l~~N~~~c~~~~~~~~~~l~~-------~~~~~~~~~c~~p  265 (285)
T 1ozn_A          224 LRALQYLRLNDNPWVCDCRARPLWAWLQK-------FRGSSSEVPCSLP  265 (285)
T ss_dssp             CTTCCEEECCSSCEECSGGGHHHHHHHHH-------CCSEECCCBEEES
T ss_pred             CcccCEEeccCCCccCCCCcHHHHHHHHh-------cccccCccccCCc
Confidence            899999999999986432 2233344433       3345555544433

>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=3.4e-19  Score=173.05  Aligned_cols=67  Identities=16%  Similarity=0.260  Sum_probs=32.2

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      ..++.++|+++.+++.++..++..+..+++|++|++++|.|+.      +|.  ..+..+++|+.|++++|+++.
T Consensus       249 ~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~l~~------i~~--~~~~~l~~L~~L~L~~N~~~~  315 (353)
T 2z80_A          249 SLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKS------VPD--GIFDRLTSLQKIWLHTNPWDC  315 (353)
T ss_dssp             CCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSCCCC------CCT--TTTTTCTTCCEEECCSSCBCC
T ss_pred             chhhccccccccccCcchhhhHHHHhcccCCCEEECCCCCCCc------cCH--HHHhcCCCCCEEEeeCCCccC
Confidence            3444555555555554444455555555555555555555443      321  123444555555555555444

>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=99.73  E-value=5.6e-19  Score=166.51  Aligned_cols=37  Identities=32%  Similarity=0.444  Sum_probs=16.7

Q ss_pred             CCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCC
Q 012512          353 QSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~  394 (462)
                      ++|+.|+|++|+|+.     ++. .+..+++|+.|++++|.|+
T Consensus       148 ~~L~~L~L~~N~l~~-----l~~~~~~~l~~L~~L~L~~N~l~  185 (290)
T 1p9a_G          148 PKLEKLSLANNNLTE-----LPAGLLNGLENLDTLLLQENSLY  185 (290)
T ss_dssp             TTCCEEECTTSCCSC-----CCTTTTTTCTTCCEEECCSSCCC
T ss_pred             cCCCEEECCCCcCCc-----cCHHHhcCcCCCCEEECCCCcCC
Confidence            444455555554443     222 2334444555555555444

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

Probab=99.73  E-value=4.4e-19  Score=169.58  Aligned_cols=213  Identities=17%  Similarity=0.101  Sum_probs=164.1

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++.....+. +..+++|++|++++|.+...         ...++|++|++++|.++.....           
T Consensus        59 ~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~Ls~n~l~~l---------~~~~~L~~L~l~~n~l~~~~~~-----------  117 (317)
T 3o53_A           59 KLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQEL---------LVGPSIETLHAANNNISRVSCS-----------  117 (317)
T ss_dssp             TCCEEECTTSCCEEEEE-ETTCTTCCEEECCSSEEEEE---------EECTTCCEEECCSSCCSEEEEC-----------
T ss_pred             cCCEEECCCCcCCcchh-hhhcCCCCEEECcCCccccc---------cCCCCcCEEECCCCccCCcCcc-----------
Confidence            45666676666554333 67889999999999986642         2358999999999999854321           


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+.+|++|++++|.+..        .....+..+++|++|++++|.+.+..+..+    ...+++|++|++++|.+++. 
T Consensus       118 ~~~~L~~L~l~~N~l~~--------~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~~l~~L~~L~L~~N~l~~~-  184 (317)
T 3o53_A          118 RGQGKKNIYLANNKITM--------LRDLDEGCRSRVQYLDLKLNEIDTVNFAEL----AASSDTLEHLNLQYNFIYDV-  184 (317)
T ss_dssp             CCSSCEEEECCSSCCCS--------GGGBCTGGGSSEEEEECTTSCCCEEEGGGG----GGGTTTCCEEECTTSCCCEE-
T ss_pred             ccCCCCEEECCCCCCCC--------ccchhhhccCCCCEEECCCCCCCcccHHHH----hhccCcCCEEECCCCcCccc-
Confidence            16789999999999987        334456778999999999999998665544    23468999999999999852 


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                                  .....+++|++|+|++|+++.     +++.+..+++|+.|++++|.|+.      +|   ..+..+++
T Consensus       185 ------------~~~~~l~~L~~L~Ls~N~l~~-----l~~~~~~l~~L~~L~L~~N~l~~------l~---~~~~~l~~  238 (317)
T 3o53_A          185 ------------KGQVVFAKLKTLDLSSNKLAF-----MGPEFQSAAGVTWISLRNNKLVL------IE---KALRFSQN  238 (317)
T ss_dssp             ------------ECCCCCTTCCEEECCSSCCCE-----ECGGGGGGTTCSEEECTTSCCCE------EC---TTCCCCTT
T ss_pred             ------------ccccccccCCEEECCCCcCCc-----chhhhcccCcccEEECcCCcccc------hh---hHhhcCCC
Confidence                        111245899999999999996     66678899999999999999996      55   56788899


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~  451 (462)
                      |+.|++++|+++...   ++..+.. .+.|+.|++++
T Consensus       239 L~~L~l~~N~~~~~~---~~~~~~~-~~~L~~l~l~~  271 (317)
T 3o53_A          239 LEHFDLRGNGFHCGT---LRDFFSK-NQRVQTVAKQT  271 (317)
T ss_dssp             CCEEECTTCCCBHHH---HHHHHHT-CHHHHHHHHHH
T ss_pred             CCEEEccCCCccCcC---HHHHHhc-cccceEEECCC
Confidence            999999999999432   4455555 23478887773

>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=99.73  E-value=3.6e-18  Score=174.61  Aligned_cols=127  Identities=18%  Similarity=0.158  Sum_probs=97.1

Q ss_pred             cccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++.....+ ..+.++++|++|++++|.+....+..    +.++++|++|+|++|.++.....         
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~----~~~l~~L~~L~Ls~N~l~~lp~~---------   87 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISV----FKFNQELEYLDLSHNKLVKISCH---------   87 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGG----GTTCTTCCEEECCSSCCCEEECC---------
T ss_pred             ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHH----hhcccCCCEEecCCCceeecCcc---------
Confidence            57788899988877655 56779999999999999976543222    45789999999999999842111         


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCc--cEEEecCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSL--SILDLSGNSI  330 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L--~~L~Ls~n~l  330 (462)
                        .+.+|++|++++|.+...       .++..++.+++|++|++++|.+.+.....        +++|  ++|++++|.+
T Consensus        88 --~l~~L~~L~L~~N~l~~~-------~~p~~~~~l~~L~~L~L~~n~l~~~~~~~--------l~~L~L~~L~l~~n~l  150 (520)
T 2z7x_B           88 --PTVNLKHLDLSFNAFDAL-------PICKEFGNMSQLKFLGLSTTHLEKSSVLP--------IAHLNISKVLLVLGET  150 (520)
T ss_dssp             --CCCCCSEEECCSSCCSSC-------CCCGGGGGCTTCCEEEEEESSCCGGGGGG--------GTTSCEEEEEEEECTT
T ss_pred             --ccCCccEEeccCCccccc-------cchhhhccCCcceEEEecCcccchhhccc--------cccceeeEEEeecccc
Confidence              278999999999998762       13467788999999999999998743332        3555  8888877776

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

Probab=99.72  E-value=9.5e-19  Score=177.06  Aligned_cols=215  Identities=20%  Similarity=0.143  Sum_probs=155.2

Q ss_pred             ccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++.....+ ..+..+++|+.|+|++|.+....+      +..+++|++|+|++|.++...            
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~------l~~l~~L~~L~Ls~N~l~~l~------------   96 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLD------LESLSTLRTLDLNNNYVQELL------------   96 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEE------CTTCTTCCEEECCSSEEEEEE------------
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcc------cccCCCCCEEEecCCcCCCCC------------
Confidence            4566677776665543 456688888888888888654332      346788888888888776321            


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       ..++|++|++++|.+.....           ..+++|++|++++|.+++..+..+     ..+++|++|+|++|.+++.
T Consensus        97 -~~~~L~~L~L~~N~l~~~~~-----------~~l~~L~~L~L~~N~l~~~~~~~~-----~~l~~L~~L~Ls~N~l~~~  159 (487)
T 3oja_A           97 -VGPSIETLHAANNNISRVSC-----------SRGQGKKNIYLANNKITMLRDLDE-----GCRSRVQYLDLKLNEIDTV  159 (487)
T ss_dssp             -ECTTCCEEECCSSCCCCEEE-----------CCCSSCEEEECCSSCCCSGGGBCG-----GGGSSEEEEECTTSCCCEE
T ss_pred             -CCCCcCEEECcCCcCCCCCc-----------cccCCCCEEECCCCCCCCCCchhh-----cCCCCCCEEECCCCCCCCc
Confidence             14778889998888876222           235788999999999887544433     3358899999999998864


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                      .+        ..+..  .+++|++|+|++|.|++.      +.+..+++|+.|++++|.|++      ++   ..+..++
T Consensus       160 ~~--------~~l~~--~l~~L~~L~Ls~N~l~~~------~~~~~l~~L~~L~Ls~N~l~~------~~---~~~~~l~  214 (487)
T 3oja_A          160 NF--------AELAA--SSDTLEHLNLQYNFIYDV------KGQVVFAKLKTLDLSSNKLAF------MG---PEFQSAA  214 (487)
T ss_dssp             EG--------GGGGG--GTTTCCEEECTTSCCCEE------ECCCCCTTCCEEECCSSCCCE------EC---GGGGGGT
T ss_pred             Ch--------HHHhh--hCCcccEEecCCCccccc------cccccCCCCCEEECCCCCCCC------CC---HhHcCCC
Confidence            44        33321  347899999999998863      234468899999999999886      43   3356678


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      +|+.|++++|.|+.     ++..+.. .++|+.|++++|++.
T Consensus       215 ~L~~L~Ls~N~l~~-----lp~~l~~-l~~L~~L~l~~N~l~  250 (487)
T 3oja_A          215 GVTWISLRNNKLVL-----IEKALRF-SQNLEHFDLRGNGFH  250 (487)
T ss_dssp             TCSEEECTTSCCCE-----ECTTCCC-CTTCCEEECTTCCBC
T ss_pred             CccEEEecCCcCcc-----cchhhcc-CCCCCEEEcCCCCCc
Confidence            99999999999886     5555655 356999999999887

>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=99.72  E-value=6.5e-19  Score=183.56  Aligned_cols=161  Identities=17%  Similarity=0.162  Sum_probs=109.5

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHH-HhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc-
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELV-SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW-  333 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~-~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~-  333 (462)
                      +.+|++|++++|.+..        ... ..+..+++|++|++++|.+....+..+     ..+++|++|++++|.+++. 
T Consensus       398 l~~L~~L~l~~n~l~~--------~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~-----~~l~~L~~L~l~~n~l~~~~  464 (606)
T 3vq2_A          398 LEELQHLDFQHSTLKR--------VTEFSAFLSLEKLLYLDISYTNTKIDFDGIF-----LGLTSLNTLKMAGNSFKDNT  464 (606)
T ss_dssp             CTTCCEEECTTSEEES--------TTTTTTTTTCTTCCEEECTTSCCEECCTTTT-----TTCTTCCEEECTTCEEGGGE
T ss_pred             CCCCCeeECCCCccCC--------ccChhhhhccccCCEEECcCCCCCccchhhh-----cCCCCCCEEECCCCcCCCcc
Confidence            4556666666665554        122 345566677777777777665444332     3456777777777776642 


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN  413 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~  413 (462)
                      .+        .   .+.++++|++|+|++|++++    ..+..+..+++|++|++++|.+++.     .|   ..+..++
T Consensus       465 ~~--------~---~~~~l~~L~~L~Ls~n~l~~----~~~~~~~~l~~L~~L~Ls~N~l~~~-----~~---~~~~~l~  521 (606)
T 3vq2_A          465 LS--------N---VFANTTNLTFLDLSKCQLEQ----ISWGVFDTLHRLQLLNMSHNNLLFL-----DS---SHYNQLY  521 (606)
T ss_dssp             EC--------S---CCTTCTTCCEEECTTSCCCE----ECTTTTTTCTTCCEEECCSSCCSCE-----EG---GGTTTCT
T ss_pred             hH--------H---hhccCCCCCEEECCCCcCCc----cChhhhcccccCCEEECCCCcCCCc-----CH---HHccCCC
Confidence            22        2   23366888889999998886    2455678888899999999988762     23   5667778


Q ss_pred             CccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          414 PLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       414 ~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +|+.|++++|+++.     ++..+..+.++|++|++++|++...
T Consensus       522 ~L~~L~l~~N~l~~-----~p~~~~~l~~~L~~l~l~~N~~~c~  560 (606)
T 3vq2_A          522 SLSTLDCSFNRIET-----SKGILQHFPKSLAFFNLTNNSVACI  560 (606)
T ss_dssp             TCCEEECTTSCCCC-----EESCGGGSCTTCCEEECCSCCCCCS
T ss_pred             cCCEEECCCCcCcc-----cCHhHhhhcccCcEEEccCCCcccC
Confidence            89999999998886     5555666555689999999988754

>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=99.72  E-value=6.9e-19  Score=183.36  Aligned_cols=226  Identities=18%  Similarity=0.100  Sum_probs=176.1

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhH--HHHHHHHHhcc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSF--VEGICRSLCSK  252 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~--~~~l~~~l~~~  252 (462)
                      .++.+.+.++....++ .+ .+++|++|++++|.......      ...+++|++|++++|.++...  +..+..     
T Consensus       308 ~L~~L~l~~n~l~~lp-~~-~l~~L~~L~l~~n~~~~~~~------~~~l~~L~~L~ls~n~l~~~~~~~~~~~~-----  374 (606)
T 3vq2_A          308 KWQSLSIIRCQLKQFP-TL-DLPFLKSLTLTMNKGSISFK------KVALPSLSYLDLSRNALSFSGCCSYSDLG-----  374 (606)
T ss_dssp             CCSEEEEESCCCSSCC-CC-CCSSCCEEEEESCSSCEECC------CCCCTTCCEEECCSSCEEEEEECCHHHHC-----
T ss_pred             cCCEEEcccccCcccc-cC-CCCccceeeccCCcCccchh------hccCCCCCEEECcCCccCCCcchhhhhcc-----
Confidence            5677888888886555 45 88999999999995433221      346899999999999887542  333332     


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGG  332 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  332 (462)
                         +++|++|++++|.+..         +...+..+++|++|++++|.+.+..+...    +..+++|++|++++|.+++
T Consensus       375 ---~~~L~~L~L~~n~l~~---------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~~l~~L~~L~l~~n~l~~  438 (606)
T 3vq2_A          375 ---TNSLRHLDLSFNGAII---------MSANFMGLEELQHLDFQHSTLKRVTEFSA----FLSLEKLLYLDISYTNTKI  438 (606)
T ss_dssp             ---CSCCCEEECCSCSEEE---------ECCCCTTCTTCCEEECTTSEEESTTTTTT----TTTCTTCCEEECTTSCCEE
T ss_pred             ---CCcccEeECCCCcccc---------chhhccCCCCCCeeECCCCccCCccChhh----hhccccCCEEECcCCCCCc
Confidence               7899999999999776         33567788999999999999877544211    3457999999999999986


Q ss_pred             cccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCC
Q 012512          333 WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERC  412 (462)
Q Consensus       333 ~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~  412 (462)
                      ..+        ..+.   ++++|++|++++|++++..   ++..+..+++|++|++++|.+++.     .+   ..+..+
T Consensus       439 ~~~--------~~~~---~l~~L~~L~l~~n~l~~~~---~~~~~~~l~~L~~L~Ls~n~l~~~-----~~---~~~~~l  496 (606)
T 3vq2_A          439 DFD--------GIFL---GLTSLNTLKMAGNSFKDNT---LSNVFANTTNLTFLDLSKCQLEQI-----SW---GVFDTL  496 (606)
T ss_dssp             CCT--------TTTT---TCTTCCEEECTTCEEGGGE---ECSCCTTCTTCCEEECTTSCCCEE-----CT---TTTTTC
T ss_pred             cch--------hhhc---CCCCCCEEECCCCcCCCcc---hHHhhccCCCCCEEECCCCcCCcc-----Ch---hhhccc
Confidence            444        3334   6789999999999998621   456788999999999999999872     23   567788


Q ss_pred             CCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          413 NPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       413 ~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      ++|+.|++++|+++..    .+..+..+ ++|++|++++|+|+.
T Consensus       497 ~~L~~L~Ls~N~l~~~----~~~~~~~l-~~L~~L~l~~N~l~~  535 (606)
T 3vq2_A          497 HRLQLLNMSHNNLLFL----DSSHYNQL-YSLSTLDCSFNRIET  535 (606)
T ss_dssp             TTCCEEECCSSCCSCE----EGGGTTTC-TTCCEEECTTSCCCC
T ss_pred             ccCCEEECCCCcCCCc----CHHHccCC-CcCCEEECCCCcCcc
Confidence            9999999999999985    35667663 569999999999983

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

Probab=99.72  E-value=3.3e-18  Score=182.92  Aligned_cols=168  Identities=17%  Similarity=0.147  Sum_probs=92.6

Q ss_pred             hhhhhh--cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCC-CCh-hHHHHHHHHHhcccccCCCccEEec
Q 012512          189 ETCQLL--RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK-LSP-SFVEGICRSLCSKRKRIHKIENLSI  264 (462)
Q Consensus       189 ~~~~l~--~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~-l~~-~~~~~l~~~l~~~~~~~~~L~~L~l  264 (462)
                      ++..+.  ++++|++|+|++|.+....+..    +.++++|++|+|++|. ++. ..+..+.. +......+++|++|++
T Consensus       481 iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~----l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~-L~~~~~~l~~L~~L~L  555 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDF----LYDLPELQSLNIACNRGISAAQLKADWTR-LADDEDTGPKIQIFYM  555 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGG----GGGCSSCCEEECTTCTTSCHHHHHHHHHH-HHHCTTTTTTCCEEEC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHH----HhCCCCCCEEECcCCCCcccccchHHHHh-hhhcccccCCccEEEe
Confidence            555555  6777777777777644332211    3456777777777776 665 44444432 2111112456777777


Q ss_pred             CCCCCCCCCCchhHHHHHH--hhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccH
Q 012512          265 DISSFIENCPSSVVVELVS--FLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP  342 (462)
Q Consensus       265 ~~~~~~~~~~~~~~~~l~~--~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l  342 (462)
                      ++|.+..         ++.  .+..+++|++|+|++|.+. ..+ .     +..+++|++|+|++|.++ .+|       
T Consensus       556 s~N~L~~---------ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~-----~~~L~~L~~L~Ls~N~l~-~lp-------  611 (876)
T 4ecn_A          556 GYNNLEE---------FPASASLQKMVKLGLLDCVHNKVR-HLE-A-----FGTNVKLTDLKLDYNQIE-EIP-------  611 (876)
T ss_dssp             CSSCCCB---------CCCHHHHTTCTTCCEEECTTSCCC-BCC-C-----CCTTSEESEEECCSSCCS-CCC-------
T ss_pred             eCCcCCc---------cCChhhhhcCCCCCEEECCCCCcc-cch-h-----hcCCCcceEEECcCCccc-cch-------
Confidence            7777664         333  5566677777777777766 233 1     344566777777777666 222       


Q ss_pred             HHhhhCCCCCCC-ccEEEccCCCCCcchHHHHHHHhhcCC--CCCEEeCCCCCCC
Q 012512          343 LFSLGAGKSLQS-LRLLNLRGNNLCKADARDLGSALVHIP--NLEILDISDNTIE  394 (462)
Q Consensus       343 ~~~l~~~~~l~~-L~~L~L~~n~l~~~~~~~l~~~l~~~~--~L~~L~Ls~N~l~  394 (462)
                       ..+.   ++++ |+.|+|++|+++.     ++..+...+  +|+.|++++|.++
T Consensus       612 -~~l~---~l~~~L~~L~Ls~N~L~~-----lp~~~~~~~~~~L~~L~Ls~N~l~  657 (876)
T 4ecn_A          612 -EDFC---AFTDQVEGLGFSHNKLKY-----IPNIFNAKSVYVMGSVDFSYNKIG  657 (876)
T ss_dssp             -TTSC---EECTTCCEEECCSSCCCS-----CCSCCCTTCSSCEEEEECCSSCTT
T ss_pred             -HHHh---hccccCCEEECcCCCCCc-----CchhhhccccCCCCEEECcCCcCC
Confidence             2222   3344 6666666665552     343333332  2555555555544

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

Probab=99.72  E-value=1.4e-18  Score=162.07  Aligned_cols=182  Identities=19%  Similarity=0.200  Sum_probs=87.2

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      .++++|++++|.+.......    +..+++|++|++++|.++......+        ..+++|++|++++|.+...    
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~----~~~l~~L~~L~l~~n~l~~i~~~~~--------~~l~~L~~L~l~~n~l~~~----  100 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKA----FHRLTKLRLLYLNDNKLQTLPAGIF--------KELKNLETLWVTDNKLQAL----  100 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTS----SSSCTTCCEEECCSSCCSCCCTTTT--------SSCTTCCEEECCSSCCCCC----
T ss_pred             CCCCEEECcCCCCCeeCHHH----hcCCCCCCEEECCCCccCeeChhhh--------cCCCCCCEEECCCCcCCcC----
Confidence            34566666665543322111    2345566666666665542211111        1145566666666655541    


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                          ....+..+++|++|++++|.+....+..     +..+++|++|++++|.+++..+        ..+   ..+++|+
T Consensus       101 ----~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~Ls~n~l~~~~~--------~~~---~~l~~L~  160 (270)
T 2o6q_A          101 ----PIGVFDQLVNLAELRLDRNQLKSLPPRV-----FDSLTKLTYLSLGYNELQSLPK--------GVF---DKLTSLK  160 (270)
T ss_dssp             ----CTTTTTTCSSCCEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--------TTT---TTCTTCC
T ss_pred             ----CHhHcccccCCCEEECCCCccCeeCHHH-----hCcCcCCCEEECCCCcCCccCH--------hHc---cCCcccc
Confidence                1223444556666666666555433221     1334556666666665553211        111   2345566


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      .|+|++|+++..    .+.++..+++|++|++++|.|+.      ++.  ..+..+++|+.|++++|++.
T Consensus       161 ~L~L~~n~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          161 ELRLYNNQLKRV----PEGAFDKLTELKTLKLDNNQLKR------VPE--GAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             EEECCSSCCSCC----CTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCCEEECCSSCBC
T ss_pred             eeEecCCcCcEe----ChhHhccCCCcCEEECCCCcCCc------CCH--HHhccccCCCEEEecCCCee
Confidence            666666655541    11234555566666666665554      221  23444555666666666543

>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=99.71  E-value=9e-17  Score=139.73  Aligned_cols=134  Identities=12%  Similarity=0.160  Sum_probs=75.8

Q ss_pred             HHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          279 VELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       279 ~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                      +.+...+...+.|++|+|++| .|++.+...++++|..+ +.|++|+|++|.++    +.++..++..|...   ++|++
T Consensus        31 ~~l~~ll~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N-~~L~~L~L~~n~ig----d~ga~alA~aL~~N---~tL~~  102 (197)
T 1pgv_A           31 SCINRLREDDTDLKEVNINNMKRVSKERIRSLIEAACNS-KHIEKFSLANTAIS----DSEARGLIELIETS---PSLRV  102 (197)
T ss_dssp             HHHHHHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTC-SCCCEEECTTSCCB----HHHHTTHHHHHHHC---SSCCE
T ss_pred             HHHHHHHhcCCCccEEECCCCCCCCHHHHHHHHHHHhhC-CCcCEEEccCCCCC----hHHHHHHHHHHhcC---CccCe
Confidence            467777777888999999885 88888888888887544 55555555555555    23444444444422   34555


Q ss_pred             EEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCC---CCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          358 LNLRGNNLCKADARDLGSALVHIPNLEILDISDN---TIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N---~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      |+|++|.|+++|+.+|..++..+++|++|+|++|   .+++.|..++..    .+..+++|.+|+++.|.
T Consensus       103 L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~----aL~~N~tL~~L~l~~~~  168 (197)
T 1pgv_A          103 LNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMM----AIEENESLLRVGISFAS  168 (197)
T ss_dssp             EECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHH----HHHHCSSCCEEECCCCC
T ss_pred             EecCCCcCCHHHHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHH----HHHhCCCcCeEeccCCC
Confidence            5555555555555555555555555555555432   344444444442    23333445555554443

>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=99.71  E-value=9e-17  Score=161.93  Aligned_cols=106  Identities=19%  Similarity=0.195  Sum_probs=47.7

Q ss_pred             hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCC
Q 012512          193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIEN  272 (462)
Q Consensus       193 l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~  272 (462)
                      +.++++|++|++++|.+.....      ...+++|++|++++|.+....+  +    .    .+.+|++|++++|.+...
T Consensus       173 ~~~l~~L~~L~l~~n~l~~~~~------l~~l~~L~~L~l~~n~l~~~~~--~----~----~l~~L~~L~l~~n~l~~~  236 (466)
T 1o6v_A          173 LANLTTLERLDISSNKVSDISV------LAKLTNLESLIATNNQISDITP--L----G----ILTNLDELSLNGNQLKDI  236 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG------GGGCTTCSEEECCSSCCCCCGG--G----G----GCTTCCEEECCSSCCCCC
T ss_pred             hccCCCCCEEECcCCcCCCChh------hccCCCCCEEEecCCccccccc--c----c----ccCCCCEEECCCCCcccc
Confidence            4445555555555555332210      2335555555555555543222  0    0    144455555555554431


Q ss_pred             CCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          273 CPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       273 ~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                                ..+..+++|++|++++|.+.+..+       ...+++|++|++++|.++
T Consensus       237 ----------~~l~~l~~L~~L~l~~n~l~~~~~-------~~~l~~L~~L~l~~n~l~  278 (466)
T 1o6v_A          237 ----------GTLASLTNLTDLDLANNQISNLAP-------LSGLTKLTELKLGANQIS  278 (466)
T ss_dssp             ----------GGGGGCTTCSEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCC
T ss_pred             ----------hhhhcCCCCCEEECCCCccccchh-------hhcCCCCCEEECCCCccC
Confidence                      123344555555555555444222       123344555555555544

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

Probab=99.71  E-value=2.1e-18  Score=174.58  Aligned_cols=212  Identities=17%  Similarity=0.105  Sum_probs=165.3

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++.....+. +..+++|++|+|++|.+....         ..++|++|++++|.++.....           
T Consensus        59 ~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~---------~~~~L~~L~L~~N~l~~~~~~-----------  117 (487)
T 3oja_A           59 KLELLNLSSNVLYETLD-LESLSTLRTLDLNNNYVQELL---------VGPSIETLHAANNNISRVSCS-----------  117 (487)
T ss_dssp             TCCEEECTTSCCEEEEE-CTTCTTCCEEECCSSEEEEEE---------ECTTCCEEECCSSCCCCEEEC-----------
T ss_pred             CCCEEEeeCCCCCCCcc-cccCCCCCEEEecCCcCCCCC---------CCCCcCEEECcCCcCCCCCcc-----------
Confidence            45677777776654443 778899999999999876422         358999999999999854321           


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+++|++|++++|.+..        ..+..+..+++|++|+|++|.+++..+..+    ...+++|++|+|++|.+++..
T Consensus       118 ~l~~L~~L~L~~N~l~~--------~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l----~~~l~~L~~L~Ls~N~l~~~~  185 (487)
T 3oja_A          118 RGQGKKNIYLANNKITM--------LRDLDEGCRSRVQYLDLKLNEIDTVNFAEL----AASSDTLEHLNLQYNFIYDVK  185 (487)
T ss_dssp             CCSSCEEEECCSSCCCS--------GGGBCGGGGSSEEEEECTTSCCCEEEGGGG----GGGTTTCCEEECTTSCCCEEE
T ss_pred             ccCCCCEEECCCCCCCC--------CCchhhcCCCCCCEEECCCCCCCCcChHHH----hhhCCcccEEecCCCcccccc
Confidence            16789999999999987        345567788999999999999998766554    234689999999999998631


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                      +             ...+++|+.|+|++|++++     +++.+..+++|+.|++++|.|+.      +|   ..+..+++
T Consensus       186 ~-------------~~~l~~L~~L~Ls~N~l~~-----~~~~~~~l~~L~~L~Ls~N~l~~------lp---~~l~~l~~  238 (487)
T 3oja_A          186 G-------------QVVFAKLKTLDLSSNKLAF-----MGPEFQSAAGVTWISLRNNKLVL------IE---KALRFSQN  238 (487)
T ss_dssp             C-------------CCCCTTCCEEECCSSCCCE-----ECGGGGGGTTCSEEECTTSCCCE------EC---TTCCCCTT
T ss_pred             c-------------cccCCCCCEEECCCCCCCC-----CCHhHcCCCCccEEEecCCcCcc------cc---hhhccCCC
Confidence            1             2246899999999999996     66778899999999999999996      55   56778899


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEcc
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIA  450 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls  450 (462)
                      |+.|++++|+++...   ++..+.. .+.|+.++++
T Consensus       239 L~~L~l~~N~l~c~~---~~~~~~~-l~~L~~l~~~  270 (487)
T 3oja_A          239 LEHFDLRGNGFHCGT---LRDFFSK-NQRVQTVAKQ  270 (487)
T ss_dssp             CCEEECTTCCBCHHH---HHHHHTT-CHHHHHHHHH
T ss_pred             CCEEEcCCCCCcCcc---hHHHHHh-CCCCcEEecc
Confidence            999999999998432   4445554 3346666665

>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=99.71  E-value=1.5e-17  Score=170.03  Aligned_cols=228  Identities=18%  Similarity=0.176  Sum_probs=159.4

Q ss_pred             ccceeeeccccch-Hhhhhh-----hcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHH
Q 012512          175 YARCLRLQNALCV-EETCQL-----LRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRS  248 (462)
Q Consensus       175 ~~~~l~l~~~~~~-~~~~~l-----~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~  248 (462)
                      .++.+++.++... .++..+     .++++|+.+++++|.+ .........+.. ..+|++|++++|.+.....      
T Consensus       248 ~L~~L~l~~n~l~~~~p~~~~~~~~~~l~~L~~l~l~~n~~-~~p~~~~~~~~~-~~~L~~L~l~~n~l~~~~~------  319 (520)
T 2z7x_B          248 TVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVF-GFPQSYIYEIFS-NMNIKNFTVSGTRMVHMLC------  319 (520)
T ss_dssp             SCSEEEEEEEEEESCCCCCCCCCCSCCCCEEEEEEEEECCC-CSCTHHHHHHHH-TCCCSEEEEESSCCCCCCC------
T ss_pred             cccEEEeecccccCccccchhhcccccCceeEeccccccce-ecchhhhhcccc-cCceeEEEcCCCccccccc------
Confidence            3455566655544 344444     5667777777777765 111011111122 2578888888887764321      


Q ss_pred             HhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCCh--hhHHHHHHHHhhCCCCccEEEec
Q 012512          249 LCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDR--DFGRMVFSSLLEASSSLSILDLS  326 (462)
Q Consensus       249 l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~--~~~~~l~~~l~~~~~~L~~L~Ls  326 (462)
                          ...+++|++|++++|.+..        ..+..+..+++|++|++++|.+.+  ..+..     +..+++|++|+++
T Consensus       320 ----~~~l~~L~~L~Ls~n~l~~--------~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~-----~~~l~~L~~L~Ls  382 (520)
T 2z7x_B          320 ----PSKISPFLHLDFSNNLLTD--------TVFENCGHLTELETLILQMNQLKELSKIAEM-----TTQMKSLQQLDIS  382 (520)
T ss_dssp             ----CSSCCCCCEEECCSSCCCT--------TTTTTCCCCSSCCEEECCSSCCCBHHHHHHH-----HTTCTTCCEEECC
T ss_pred             ----hhhCCcccEEEeECCccCh--------hhhhhhccCCCCCEEEccCCccCccccchHH-----HhhCCCCCEEECC
Confidence                0127889999999999887        455667889999999999999986  22232     3557999999999


Q ss_pred             CCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHH
Q 012512          327 GNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFV  406 (462)
Q Consensus       327 ~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~  406 (462)
                      +|.+++.+|        .  ..+..+++|++|++++|++++.    ++..+.  ++|+.|++++|.|+.      +|   
T Consensus       383 ~N~l~~~l~--------~--~~~~~l~~L~~L~Ls~N~l~~~----~~~~l~--~~L~~L~Ls~N~l~~------ip---  437 (520)
T 2z7x_B          383 QNSVSYDEK--------K--GDCSWTKSLLSLNMSSNILTDT----IFRCLP--PRIKVLDLHSNKIKS------IP---  437 (520)
T ss_dssp             SSCCBCCGG--------G--CSCCCCTTCCEEECCSSCCCGG----GGGSCC--TTCCEEECCSSCCCC------CC---
T ss_pred             CCcCCcccc--------c--chhccCccCCEEECcCCCCCcc----hhhhhc--ccCCEEECCCCcccc------cc---
Confidence            999986443        2  1233668999999999999863    333332  689999999999985      65   


Q ss_pred             hhcCCCCCccEEEccCCCCChhhHHHHHHH-HhcCCCCCcEEEccCCCCCCcc
Q 012512          407 QASERCNPLVELYLENCELSGRGVSQLLDT-LSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       407 ~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~-l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      ..+..+++|+.|++++|+++.     ++.. +.. .++|++|++++|++....
T Consensus       438 ~~~~~l~~L~~L~L~~N~l~~-----l~~~~~~~-l~~L~~L~l~~N~~~c~c  484 (520)
T 2z7x_B          438 KQVVKLEALQELNVASNQLKS-----VPDGIFDR-LTSLQKIWLHTNPWDCSC  484 (520)
T ss_dssp             GGGGGCTTCCEEECCSSCCCC-----CCTTTTTT-CTTCCEEECCSSCBCCCH
T ss_pred             hhhhcCCCCCEEECCCCcCCc-----cCHHHhcc-CCcccEEECcCCCCcccC
Confidence            445578999999999999987     4443 555 356999999999997653

>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=99.70  E-value=3.4e-16  Score=162.44  Aligned_cols=223  Identities=16%  Similarity=0.142  Sum_probs=152.9

Q ss_pred             hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCC------
Q 012512          193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDI------  266 (462)
Q Consensus       193 l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~------  266 (462)
                      +..+++|++|++++|.+....   ...+...+++|++|++++| +++.+...+...       +++|++|++++      
T Consensus       285 ~~~~~~L~~L~L~~~~l~~~~---l~~~~~~~~~L~~L~l~~~-~~~~~l~~l~~~-------~~~L~~L~L~~~~~~g~  353 (594)
T 2p1m_B          285 YSVCSRLTTLNLSYATVQSYD---LVKLLCQCPKLQRLWVLDY-IEDAGLEVLAST-------CKDLRELRVFPSEPFVM  353 (594)
T ss_dssp             HHHHTTCCEEECTTCCCCHHH---HHHHHTTCTTCCEEEEEGG-GHHHHHHHHHHH-------CTTCCEEEEECSCTTCS
T ss_pred             HHhhCCCCEEEccCCCCCHHH---HHHHHhcCCCcCEEeCcCc-cCHHHHHHHHHh-------CCCCCEEEEecCccccc
Confidence            336688999999988855332   2233557889999999988 666666655543       67899998833      


Q ss_pred             ---CCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEec--C----CCCCCccccc
Q 012512          267 ---SSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLS--G----NSIGGWLSKY  337 (462)
Q Consensus       267 ---~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls--~----n~l~~~~~~~  337 (462)
                         +.+++       ..+......+++|++|.++.|.+++.++..++.    .+++|++|+++  +    +.+++.   .
T Consensus       354 ~~~~~l~~-------~~l~~l~~~~~~L~~L~~~~~~l~~~~~~~l~~----~~~~L~~L~L~~~~~~~~~~l~~~---~  419 (594)
T 2p1m_B          354 EPNVALTE-------QGLVSVSMGCPKLESVLYFCRQMTNAALITIAR----NRPNMTRFRLCIIEPKAPDYLTLE---P  419 (594)
T ss_dssp             SCSSCCCH-------HHHHHHHHHCTTCCEEEEEESCCCHHHHHHHHH----HCTTCCEEEEEESSTTCCCTTTCC---C
T ss_pred             ccCCCCCH-------HHHHHHHHhchhHHHHHHhcCCcCHHHHHHHHh----hCCCcceeEeecccCCCcccccCC---c
Confidence               34443       234444445789999988888998888777754    25789999998  3    445421   0


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccE
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE  417 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~  417 (462)
                      ..+.+...+.   ++++|+.|+|++ .+++.++..+..   .+++|+.|++++|.+++.|+..++.       .+++|+.
T Consensus       420 ~~~~~~~l~~---~~~~L~~L~L~~-~l~~~~~~~l~~---~~~~L~~L~L~~~~i~~~~~~~l~~-------~~~~L~~  485 (594)
T 2p1m_B          420 LDIGFGAIVE---HCKDLRRLSLSG-LLTDKVFEYIGT---YAKKMEMLSVAFAGDSDLGMHHVLS-------GCDSLRK  485 (594)
T ss_dssp             THHHHHHHHH---HCTTCCEEECCS-SCCHHHHHHHHH---HCTTCCEEEEESCCSSHHHHHHHHH-------HCTTCCE
T ss_pred             hhhHHHHHHh---hCCCccEEeecC-cccHHHHHHHHH---hchhccEeeccCCCCcHHHHHHHHh-------cCCCcCE
Confidence            0122333344   457889999977 788866554433   4778999999999998887766642       2478999


Q ss_pred             EEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          418 LYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       418 L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      |++++|++++.+...+...+.    +|++|++++|++++++
T Consensus       486 L~L~~n~~~~~~~~~~~~~l~----~L~~L~l~~~~~~~~~  522 (594)
T 2p1m_B          486 LEIRDCPFGDKALLANASKLE----TMRSLWMSSCSVSFGA  522 (594)
T ss_dssp             EEEESCSCCHHHHHHTGGGGG----GSSEEEEESSCCBHHH
T ss_pred             EECcCCCCcHHHHHHHHHhCC----CCCEEeeeCCCCCHHH
Confidence            999999988776655544333    4899999999886544

>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=99.69  E-value=3.7e-18  Score=159.75  Aligned_cols=220  Identities=15%  Similarity=0.124  Sum_probs=160.2

Q ss_pred             cccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++....++. .+.++++|++|++++|.+.......    +..+++|++|++++|.++...+..+..     
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~~~-----   98 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA----YQSLSHLSTLILTGNPIQSLALGAFSG-----   98 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTT----TTTCTTCCEEECTTCCCCEECTTTTTT-----
T ss_pred             CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHH----ccCCcCCCEEECCCCccCccChhhhcC-----
Confidence            356778888887766554 5678899999999999876443221    356899999999999998654443322     


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhh-HHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDF-GRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                         +.+|++|++++|.+....        ...+..+++|++|++++|.+.... +..     +..+++|++|++++|.++
T Consensus        99 ---l~~L~~L~l~~n~l~~~~--------~~~~~~l~~L~~L~l~~n~l~~~~l~~~-----~~~l~~L~~L~Ls~N~l~  162 (276)
T 2z62_A           99 ---LSSLQKLVAVETNLASLE--------NFPIGHLKTLKELNVAHNLIQSFKLPEY-----FSNLTNLEHLDLSSNKIQ  162 (276)
T ss_dssp             ---CTTCCEEECTTSCCCCST--------TCCCTTCTTCCEEECCSSCCCCCCCCGG-----GGGCTTCCEEECCSSCCC
T ss_pred             ---CccccEEECCCCCccccC--------chhcccCCCCCEEECcCCccceecCchh-----hccCCCCCEEECCCCCCC
Confidence               789999999999988722        224678899999999999997633 333     245789999999999998


Q ss_pred             CcccccCcccHHHhhhCCCCCCCcc-EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcC
Q 012512          332 GWLSKYDRSGPLFSLGAGKSLQSLR-LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE  410 (462)
Q Consensus       332 ~~~~~~~~~~l~~~l~~~~~l~~L~-~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~  410 (462)
                      +..+        ..+..+..+..|. .|++++|.++.     +++......+|++|++++|.++.      ++.  ..+.
T Consensus       163 ~~~~--------~~~~~l~~L~~l~l~L~ls~n~l~~-----~~~~~~~~~~L~~L~L~~n~l~~------~~~--~~~~  221 (276)
T 2z62_A          163 SIYC--------TDLRVLHQMPLLNLSLDLSLNPMNF-----IQPGAFKEIRLKELALDTNQLKS------VPD--GIFD  221 (276)
T ss_dssp             EECG--------GGGHHHHTCTTCCEEEECCSSCCCE-----ECTTSSCSCCEEEEECCSSCCSC------CCT--TTTT
T ss_pred             cCCH--------HHhhhhhhccccceeeecCCCcccc-----cCccccCCCcccEEECCCCceee------cCH--hHhc
Confidence            6333        2333222334444 89999999996     44445556689999999999986      432  4567


Q ss_pred             CCCCccEEEccCCCCChhh--HHHHHHHHhc
Q 012512          411 RCNPLVELYLENCELSGRG--VSQLLDTLST  439 (462)
Q Consensus       411 ~~~~L~~L~L~~n~l~~~~--~~~l~~~l~~  439 (462)
                      .+++|+.|++++|+++...  ...+...+..
T Consensus       222 ~l~~L~~L~l~~N~~~c~c~~l~~l~~~~~~  252 (276)
T 2z62_A          222 RLTSLQKIWLHTNPWDCSCPRIDYLSRWLNK  252 (276)
T ss_dssp             TCCSCCEEECCSSCBCCCTTTTHHHHHHHHH
T ss_pred             ccccccEEEccCCcccccCCchHHHHHHHHh
Confidence            7899999999999988643  2334444433

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

Probab=99.69  E-value=2.3e-18  Score=177.96  Aligned_cols=228  Identities=18%  Similarity=0.163  Sum_probs=160.9

Q ss_pred             ceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhH--HHHHHHHHhcccc
Q 012512          177 RCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSF--VEGICRSLCSKRK  254 (462)
Q Consensus       177 ~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~--~~~l~~~l~~~~~  254 (462)
                      +.+.+.++....++.  ..+++|++|++++|.......      ...+++|++|++++|.++...  +..+..       
T Consensus       307 ~~L~l~~n~~~~l~~--~~l~~L~~L~l~~n~~~~~~~------~~~~~~L~~L~l~~n~l~~~~~~~~~~~~-------  371 (570)
T 2z63_A          307 QHLELVNCKFGQFPT--LKLKSLKRLTFTSNKGGNAFS------EVDLPSLEFLDLSRNGLSFKGCCSQSDFG-------  371 (570)
T ss_dssp             SEEEEESCBCSSCCB--CBCSSCCEEEEESCBSCCBCC------CCBCTTCCEEECCSSCCBEEEEEEHHHHT-------
T ss_pred             cEEeeccCcccccCc--ccccccCEEeCcCCccccccc------cccCCCCCEEeCcCCccCccccccccccc-------
Confidence            444455444432222  345667777777666433221      135788888888888887543  233322       


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                       +++|++|++++|.+..         +...+..+++|++|++++|.+.+..+...    +..+++|++|++++|.+.+..
T Consensus       372 -~~~L~~L~l~~n~l~~---------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~~l~~L~~L~l~~n~l~~~~  437 (570)
T 2z63_A          372 -TTSLKYLDLSFNGVIT---------MSSNFLGLEQLEHLDFQHSNLKQMSEFSV----FLSLRNLIYLDISHTHTRVAF  437 (570)
T ss_dssp             -CSCCCEEECCSCSEEE---------EEEEEETCTTCCEEECTTSEEESCTTSCT----TTTCTTCCEEECTTSCCEECC
T ss_pred             -cCccCEEECCCCcccc---------ccccccccCCCCEEEccCCccccccchhh----hhcCCCCCEEeCcCCcccccc
Confidence             6889999999988766         22236778899999999998776433211    345789999999999887643


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                      +        ..+.   ++++|++|++++|.+++.   .++..+..+++|++|++++|.+++.     .|   ..+..+++
T Consensus       438 ~--------~~~~---~l~~L~~L~l~~n~l~~~---~~p~~~~~l~~L~~L~l~~n~l~~~-----~~---~~~~~l~~  495 (570)
T 2z63_A          438 N--------GIFN---GLSSLEVLKMAGNSFQEN---FLPDIFTELRNLTFLDLSQCQLEQL-----SP---TAFNSLSS  495 (570)
T ss_dssp             T--------TTTT---TCTTCCEEECTTCEEGGG---EECSCCTTCTTCCEEECTTSCCCEE-----CT---TTTTTCTT
T ss_pred             h--------hhhh---cCCcCcEEECcCCcCccc---cchhhhhcccCCCEEECCCCccccC-----Ch---hhhhcccC
Confidence            3        3333   678999999999998742   2567788999999999999999872     23   56778899


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                      |+.|++++|+++..    .+..+.. .++|++|++++|++++..+.
T Consensus       496 L~~L~l~~n~l~~~----~~~~~~~-l~~L~~L~l~~N~~~~~~~~  536 (570)
T 2z63_A          496 LQVLNMASNQLKSV----PDGIFDR-LTSLQKIWLHTNPWDCSCPR  536 (570)
T ss_dssp             CCEEECCSSCCSCC----CTTTTTT-CTTCCEEECCSSCBCCCTTT
T ss_pred             CCEEeCCCCcCCCC----CHHHhhc-ccCCcEEEecCCcccCCCcc
Confidence            99999999999884    2344556 45699999999999887653

>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=99.68  E-value=4.6e-17  Score=171.94  Aligned_cols=239  Identities=21%  Similarity=0.122  Sum_probs=165.3

Q ss_pred             cccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++....++. .+.++++|++|++++|.+.......    +.++++|++|+|++|.++......+.      
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~----~~~l~~L~~L~L~~n~l~~l~~~~~~------   94 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPEL----CQKLPMLKVLNLQHNELSQLSDKTFA------   94 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTH----HHHCTTCCEEECCSSCCCCCCTTTTT------
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHH----HhcccCcCEEECCCCccCccChhhhc------
Confidence            466777888777666554 4667888899999888765443222    34578889999988887743332222      


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGG  332 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  332 (462)
                        .+.+|++|++++|.+...        ....+..+++|++|++++|.+....+..     +..+++|++|++++|.+++
T Consensus        95 --~l~~L~~L~L~~n~l~~~--------~~~~~~~l~~L~~L~Ls~n~l~~~~~~~-----~~~l~~L~~L~L~~n~l~~  159 (680)
T 1ziw_A           95 --FCTNLTELHLMSNSIQKI--------KNNPFVKQKNLITLDLSHNGLSSTKLGT-----QVQLENLQELLLSNNKIQA  159 (680)
T ss_dssp             --TCTTCSEEECCSSCCCCC--------CSCTTTTCTTCCEEECCSSCCSCCCCCS-----SSCCTTCCEEECCSSCCCC
T ss_pred             --cCCCCCEEECCCCccCcc--------ChhHccccCCCCEEECCCCcccccCchh-----hcccccCCEEEccCCcccc
Confidence              278888999988888662        2245677888899999888887654433     2456888899998888876


Q ss_pred             cccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCC
Q 012512          333 WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERC  412 (462)
Q Consensus       333 ~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~  412 (462)
                      ..+        ..+... .+++|+.|++++|.+++.    .+..+..+++|+.|++++|.+.......+...    + ..
T Consensus       160 ~~~--------~~~~~~-~~~~L~~L~L~~n~l~~~----~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~~----l-~~  221 (680)
T 1ziw_A          160 LKS--------EELDIF-ANSSLKKLELSSNQIKEF----SPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLE----L-AN  221 (680)
T ss_dssp             BCH--------HHHGGG-TTCEESEEECTTCCCCCB----CTTGGGGSSEECEEECTTCCCHHHHHHHHHHH----H-TT
T ss_pred             cCH--------HHhhcc-ccccccEEECCCCccccc----ChhhhhhhhhhhhhhccccccChhhHHHHHHH----h-hh
Confidence            433        222211 346888899999888862    34567788888889998888877665555432    2 23


Q ss_pred             CCccEEEccCCCCChhhHHHHHHHHhcCC-CCCcEEEccCCCCCCccc
Q 012512          413 NPLVELYLENCELSGRGVSQLLDTLSTLR-RPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       413 ~~L~~L~L~~n~l~~~~~~~l~~~l~~l~-~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++|+.|++++|.++...    +..+..+. ++|++|++++|.+++..+
T Consensus       222 ~~L~~L~L~~n~l~~~~----~~~~~~l~~~~L~~L~Ls~n~l~~~~~  265 (680)
T 1ziw_A          222 TSIRNLSLSNSQLSTTS----NTTFLGLKWTNLTMLDLSYNNLNVVGN  265 (680)
T ss_dssp             SCCCEEECTTSCCCEEC----TTTTGGGGGSCCCEEECTTSCCCEECT
T ss_pred             ccccEEEccCCcccccC----hhHhhccCcCCCCEEECCCCCcCccCc
Confidence            78999999999988752    22333321 349999999999987654

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

Probab=99.68  E-value=2.1e-18  Score=165.95  Aligned_cols=228  Identities=20%  Similarity=0.139  Sum_probs=138.3

Q ss_pred             cceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          176 ARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      ++.+++.++....++..+.  ++|++|++++|.+.......    +..+++|++|++++|.++..+...      .....
T Consensus       104 L~~L~L~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~----~~~l~~L~~L~l~~n~l~~~~~~~------~~~~~  171 (332)
T 2ft3_A          104 LQKLYISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGV----FSGLRNMNCIEMGGNPLENSGFEP------GAFDG  171 (332)
T ss_dssp             CCEEECCSSCCCSCCSSCC--TTCCEEECCSSCCCCCCSGG----GSSCSSCCEEECCSCCCBGGGSCT------TSSCS
T ss_pred             CCEEECCCCcCCccCcccc--ccCCEEECCCCccCccCHhH----hCCCccCCEEECCCCccccCCCCc------ccccC
Confidence            3445555544443333332  45666666655543322111    234566666666666554311100      00000


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      + +|++|++++|.+.....         .+  .++|++|++++|.+.+..+..+     ..+++|++|++++|.+++..+
T Consensus       172 l-~L~~L~l~~n~l~~l~~---------~~--~~~L~~L~l~~n~i~~~~~~~l-----~~l~~L~~L~L~~N~l~~~~~  234 (332)
T 2ft3_A          172 L-KLNYLRISEAKLTGIPK---------DL--PETLNELHLDHNKIQAIELEDL-----LRYSKLYRLGLGHNQIRMIEN  234 (332)
T ss_dssp             C-CCSCCBCCSSBCSSCCS---------SS--CSSCSCCBCCSSCCCCCCTTSS-----TTCTTCSCCBCCSSCCCCCCT
T ss_pred             C-ccCEEECcCCCCCccCc---------cc--cCCCCEEECCCCcCCccCHHHh-----cCCCCCCEEECCCCcCCcCCh
Confidence            2 56666666666554211         11  2588899999998887554433     456899999999999986433


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              ..+.   .+++|+.|+|++|+++.     ++..+..+++|+.|++++|.|++.+...+.+.  ........|
T Consensus       235 --------~~~~---~l~~L~~L~L~~N~l~~-----lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~--~~~~~~~~l  296 (332)
T 2ft3_A          235 --------GSLS---FLPTLRELHLDNNKLSR-----VPAGLPDLKLLQVVYLHTNNITKVGVNDFCPV--GFGVKRAYY  296 (332)
T ss_dssp             --------TGGG---GCTTCCEEECCSSCCCB-----CCTTGGGCTTCCEEECCSSCCCBCCTTSSSCS--SCCSSSCCB
T ss_pred             --------hHhh---CCCCCCEEECCCCcCee-----cChhhhcCccCCEEECCCCCCCccChhHcccc--ccccccccc
Confidence                    3344   56899999999999995     77889999999999999999998443333210  000114679


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      +.|++++|+++..++  .+.++.. .+.|+.+++++|+
T Consensus       297 ~~L~l~~N~~~~~~~--~~~~~~~-l~~L~~l~l~~n~  331 (332)
T 2ft3_A          297 NGISLFNNPVPYWEV--QPATFRC-VTDRLAIQFGNYK  331 (332)
T ss_dssp             SEEECCSSSSCGGGS--CGGGGTT-BCCSTTEEC----
T ss_pred             cceEeecCccccccc--Ccccccc-cchhhhhhccccc
Confidence            999999999884322  2345666 4669999999885

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

Probab=99.68  E-value=8.7e-18  Score=156.74  Aligned_cols=202  Identities=17%  Similarity=0.162  Sum_probs=146.4

Q ss_pred             CcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchh
Q 012512          198 KLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSV  277 (462)
Q Consensus       198 ~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  277 (462)
                      ..+.++++++.+......       -.+++++|+|++|.++......+        ..+.+|++|++++|.+...     
T Consensus        17 ~~~~l~~~~~~l~~ip~~-------~~~~l~~L~l~~n~l~~~~~~~~--------~~l~~L~~L~l~~n~l~~i-----   76 (270)
T 2o6q_A           17 NKNSVDCSSKKLTAIPSN-------IPADTKKLDLQSNKLSSLPSKAF--------HRLTKLRLLYLNDNKLQTL-----   76 (270)
T ss_dssp             TTTEEECTTSCCSSCCSC-------CCTTCSEEECCSSCCSCCCTTSS--------SSCTTCCEEECCSSCCSCC-----
T ss_pred             CCCEEEccCCCCCccCCC-------CCCCCCEEECcCCCCCeeCHHHh--------cCCCCCCEEECCCCccCee-----
Confidence            357788888776543221       13579999999998875433222        2278899999999988762     


Q ss_pred             HHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       278 ~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                         ....+..+++|++|++++|.+.......     +..+++|++|++++|.+++..+        ..+   .++++|++
T Consensus        77 ---~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~~~~~--------~~~---~~l~~L~~  137 (270)
T 2o6q_A           77 ---PAGIFKELKNLETLWVTDNKLQALPIGV-----FDQLVNLAELRLDRNQLKSLPP--------RVF---DSLTKLTY  137 (270)
T ss_dssp             ---CTTTTSSCTTCCEEECCSSCCCCCCTTT-----TTTCSSCCEEECCSSCCCCCCT--------TTT---TTCTTCCE
T ss_pred             ---ChhhhcCCCCCCEEECCCCcCCcCCHhH-----cccccCCCEEECCCCccCeeCH--------HHh---CcCcCCCE
Confidence               2344567889999999999988644322     3456889999999999886433        223   36689999


Q ss_pred             EEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHH
Q 012512          358 LNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDT  436 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~  436 (462)
                      |+|++|+++.     ++. .+..+++|++|++++|.|+.      ++.  ..+..+++|+.|++++|+++...    ...
T Consensus       138 L~Ls~n~l~~-----~~~~~~~~l~~L~~L~L~~n~l~~------~~~--~~~~~l~~L~~L~L~~N~l~~~~----~~~  200 (270)
T 2o6q_A          138 LSLGYNELQS-----LPKGVFDKLTSLKELRLYNNQLKR------VPE--GAFDKLTELKTLKLDNNQLKRVP----EGA  200 (270)
T ss_dssp             EECCSSCCCC-----CCTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCCEEECCSSCCSCCC----TTT
T ss_pred             EECCCCcCCc-----cCHhHccCCcccceeEecCCcCcE------eCh--hHhccCCCcCEEECCCCcCCcCC----HHH
Confidence            9999999986     333 47888999999999999886      332  44677789999999999988731    223


Q ss_pred             HhcCCCCCcEEEccCCCCCC
Q 012512          437 LSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       437 l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +.. .++|+.|++++|++..
T Consensus       201 ~~~-l~~L~~L~l~~N~~~c  219 (270)
T 2o6q_A          201 FDS-LEKLKMLQLQENPWDC  219 (270)
T ss_dssp             TTT-CTTCCEEECCSSCBCC
T ss_pred             hcc-ccCCCEEEecCCCeeC
Confidence            555 3569999999998754

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

Probab=99.68  E-value=7.6e-17  Score=161.66  Aligned_cols=182  Identities=19%  Similarity=0.080  Sum_probs=96.7

Q ss_pred             cceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          176 ARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      ++.+++.++....++  +..+++|++|++++|.+....       +..+++|++|++++|.++...           ...
T Consensus        66 L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~-------~~~l~~L~~L~L~~N~l~~l~-----------~~~  125 (457)
T 3bz5_A           66 LTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD-------VTPLTKLTYLNCDTNKLTKLD-----------VSQ  125 (457)
T ss_dssp             CSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC-------CTTCTTCCEEECCSSCCSCCC-----------CTT
T ss_pred             CCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee-------cCCCCcCCEEECCCCcCCeec-----------CCC
Confidence            344444444444331  445556666666665544321       234556666666666555321           111


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|.+...           .+..+++|++|++++|......  .     ...+++|++|++++|.+++   
T Consensus       126 l~~L~~L~l~~N~l~~l-----------~l~~l~~L~~L~l~~n~~~~~~--~-----~~~l~~L~~L~ls~n~l~~---  184 (457)
T 3bz5_A          126 NPLLTYLNCARNTLTEI-----------DVSHNTQLTELDCHLNKKITKL--D-----VTPQTQLTTLDCSFNKITE---  184 (457)
T ss_dssp             CTTCCEEECTTSCCSCC-----------CCTTCTTCCEEECTTCSCCCCC--C-----CTTCTTCCEEECCSSCCCC---
T ss_pred             CCcCCEEECCCCcccee-----------ccccCCcCCEEECCCCCccccc--c-----cccCCcCCEEECCCCccce---
Confidence            45566666666665541           1345556666666666322211  0     2334566666666666654   


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                            ++     +..+++|+.|++++|++++.       .+..+++|+.|++++|.+++      +|     +..+++|
T Consensus       185 ------l~-----l~~l~~L~~L~l~~N~l~~~-------~l~~l~~L~~L~Ls~N~l~~------ip-----~~~l~~L  235 (457)
T 3bz5_A          185 ------LD-----VSQNKLLNRLNCDTNNITKL-------DLNQNIQLTFLDCSSNKLTE------ID-----VTPLTQL  235 (457)
T ss_dssp             ------CC-----CTTCTTCCEEECCSSCCSCC-------CCTTCTTCSEEECCSSCCSC------CC-----CTTCTTC
T ss_pred             ------ec-----cccCCCCCEEECcCCcCCee-------ccccCCCCCEEECcCCcccc------cC-----ccccCCC
Confidence                  10     22445666666666666652       25566667777777776665      32     3455667


Q ss_pred             cEEEccCCCCCh
Q 012512          416 VELYLENCELSG  427 (462)
Q Consensus       416 ~~L~L~~n~l~~  427 (462)
                      +.|++++|+++.
T Consensus       236 ~~L~l~~N~l~~  247 (457)
T 3bz5_A          236 TYFDCSVNPLTE  247 (457)
T ss_dssp             SEEECCSSCCSC
T ss_pred             CEEEeeCCcCCC
Confidence            777777776665

>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=99.68  E-value=1.7e-16  Score=159.82  Aligned_cols=212  Identities=17%  Similarity=0.187  Sum_probs=167.7

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++..... ..+..+++|++|++++|.+.....      ...+++|++|++++|.+++..      .+.    
T Consensus       178 ~L~~L~l~~n~l~~~-~~l~~l~~L~~L~l~~n~l~~~~~------~~~l~~L~~L~l~~n~l~~~~------~l~----  240 (466)
T 1o6v_A          178 TLERLDISSNKVSDI-SVLAKLTNLESLIATNNQISDITP------LGILTNLDELSLNGNQLKDIG------TLA----  240 (466)
T ss_dssp             TCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG------GGGCTTCCEEECCSSCCCCCG------GGG----
T ss_pred             CCCEEECcCCcCCCC-hhhccCCCCCEEEecCCccccccc------ccccCCCCEEECCCCCcccch------hhh----
Confidence            456777777766543 347788999999999998765432      346899999999999988641      122    


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+++|++|++++|.+...         .. +..+++|++|++++|.+.+..+       ...+++|++|++++|.+++..
T Consensus       241 ~l~~L~~L~l~~n~l~~~---------~~-~~~l~~L~~L~l~~n~l~~~~~-------~~~l~~L~~L~L~~n~l~~~~  303 (466)
T 1o6v_A          241 SLTNLTDLDLANNQISNL---------AP-LSGLTKLTELKLGANQISNISP-------LAGLTALTNLELNENQLEDIS  303 (466)
T ss_dssp             GCTTCSEEECCSSCCCCC---------GG-GTTCTTCSEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCSCCG
T ss_pred             cCCCCCEEECCCCccccc---------hh-hhcCCCCCEEECCCCccCcccc-------ccCCCccCeEEcCCCcccCch
Confidence            278999999999998772         11 6788999999999999987443       245799999999999998622


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                      +          +.   .+++|+.|++++|++++.     .+ +..+++|+.|++++|.+++      +    ..+..+++
T Consensus       304 ~----------~~---~l~~L~~L~L~~n~l~~~-----~~-~~~l~~L~~L~l~~n~l~~------~----~~l~~l~~  354 (466)
T 1o6v_A          304 P----------IS---NLKNLTYLTLYFNNISDI-----SP-VSSLTKLQRLFFYNNKVSD------V----SSLANLTN  354 (466)
T ss_dssp             G----------GG---GCTTCSEEECCSSCCSCC-----GG-GGGCTTCCEEECCSSCCCC------C----GGGTTCTT
T ss_pred             h----------hc---CCCCCCEEECcCCcCCCc-----hh-hccCccCCEeECCCCccCC------c----hhhccCCC
Confidence            1          33   568999999999999973     22 7889999999999999987      4    34677899


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      |+.|++++|++++..    +  +.. .++|+.|++++|.+++
T Consensus       355 L~~L~l~~n~l~~~~----~--~~~-l~~L~~L~l~~n~~~~  389 (466)
T 1o6v_A          355 INWLSAGHNQISDLT----P--LAN-LTRITQLGLNDQAWTN  389 (466)
T ss_dssp             CCEEECCSSCCCBCG----G--GTT-CTTCCEEECCCEEEEC
T ss_pred             CCEEeCCCCccCccc----h--hhc-CCCCCEEeccCCcccC
Confidence            999999999999852    2  566 4569999999998877

>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=99.68  E-value=7.7e-17  Score=153.23  Aligned_cols=189  Identities=17%  Similarity=0.211  Sum_probs=147.3

Q ss_pred             cceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccccc
Q 012512          176 ARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKR  255 (462)
Q Consensus       176 ~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~  255 (462)
                      ++.+.+.++....++ .+..+++|++|++++|.+.....      ...+++|++|++++|.++...  .    +    ..
T Consensus        43 L~~L~l~~~~i~~l~-~~~~l~~L~~L~L~~n~i~~~~~------~~~l~~L~~L~L~~n~l~~~~--~----~----~~  105 (308)
T 1h6u_A           43 ITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP------LKNLTKITELELSGNPLKNVS--A----I----AG  105 (308)
T ss_dssp             CCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG------GTTCCSCCEEECCSCCCSCCG--G----G----TT
T ss_pred             cCEEEeeCCCccCch-hhhccCCCCEEEccCCcCCCChh------HccCCCCCEEEccCCcCCCch--h----h----cC
Confidence            344455555444333 46678999999999998765432      356899999999999988632  1    2    22


Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +.+|++|++++|.+..         +. .+..+++|++|++++|.+.+...       ...+++|++|++++|.+++.  
T Consensus       106 l~~L~~L~l~~n~l~~---------~~-~l~~l~~L~~L~l~~n~l~~~~~-------l~~l~~L~~L~l~~n~l~~~--  166 (308)
T 1h6u_A          106 LQSIKTLDLTSTQITD---------VT-PLAGLSNLQVLYLDLNQITNISP-------LAGLTNLQYLSIGNAQVSDL--  166 (308)
T ss_dssp             CTTCCEEECTTSCCCC---------CG-GGTTCTTCCEEECCSSCCCCCGG-------GGGCTTCCEEECCSSCCCCC--
T ss_pred             CCCCCEEECCCCCCCC---------ch-hhcCCCCCCEEECCCCccCcCcc-------ccCCCCccEEEccCCcCCCC--
Confidence            7899999999999877         22 27889999999999999987443       24578999999999999862  


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                             +. +.   .+++|+.|++++|++++     +++ +..+++|++|++++|.+++      ++    .+..+++|
T Consensus       167 -------~~-l~---~l~~L~~L~l~~n~l~~-----~~~-l~~l~~L~~L~L~~N~l~~------~~----~l~~l~~L  219 (308)
T 1h6u_A          167 -------TP-LA---NLSKLTTLKADDNKISD-----ISP-LASLPNLIEVHLKNNQISD------VS----PLANTSNL  219 (308)
T ss_dssp             -------GG-GT---TCTTCCEEECCSSCCCC-----CGG-GGGCTTCCEEECTTSCCCB------CG----GGTTCTTC
T ss_pred             -------hh-hc---CCCCCCEEECCCCccCc-----Chh-hcCCCCCCEEEccCCccCc------cc----cccCCCCC
Confidence                   12 33   66899999999999997     333 8899999999999999997      43    35778999


Q ss_pred             cEEEccCCCCCh
Q 012512          416 VELYLENCELSG  427 (462)
Q Consensus       416 ~~L~L~~n~l~~  427 (462)
                      +.|++++|+++.
T Consensus       220 ~~L~l~~N~i~~  231 (308)
T 1h6u_A          220 FIVTLTNQTITN  231 (308)
T ss_dssp             CEEEEEEEEEEC
T ss_pred             CEEEccCCeeec
Confidence            999999999876

>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=99.68  E-value=1.9e-17  Score=174.88  Aligned_cols=234  Identities=15%  Similarity=0.074  Sum_probs=145.0

Q ss_pred             ccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++..... +..+.++++|++|++++|.+.......    +.++++|++|++++|.++...+..+.       
T Consensus        50 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~----~~~l~~L~~L~L~~n~l~~~~~~~~~-------  118 (680)
T 1ziw_A           50 QLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKT----FAFCTNLTELHLMSNSIQKIKNNPFV-------  118 (680)
T ss_dssp             TCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTT----TTTCTTCSEEECCSSCCCCCCSCTTT-------
T ss_pred             cCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhh----hccCCCCCEEECCCCccCccChhHcc-------
Confidence            456677777666554 445678999999999999876433221    35689999999999988754333332       


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       .+.+|++|++++|.+..        .....+..+++|++|++++|.+....+..+..   ...++|++|++++|.+++.
T Consensus       119 -~l~~L~~L~Ls~n~l~~--------~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~---~~~~~L~~L~L~~n~l~~~  186 (680)
T 1ziw_A          119 -KQKNLITLDLSHNGLSS--------TKLGTQVQLENLQELLLSNNKIQALKSEELDI---FANSSLKKLELSSNQIKEF  186 (680)
T ss_dssp             -TCTTCCEEECCSSCCSC--------CCCCSSSCCTTCCEEECCSSCCCCBCHHHHGG---GTTCEESEEECTTCCCCCB
T ss_pred             -ccCCCCEEECCCCcccc--------cCchhhcccccCCEEEccCCcccccCHHHhhc---cccccccEEECCCCccccc
Confidence             27899999999999877        23345677899999999999998765554421   2347899999999999865


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-----------------------HhhcCC--CCCEEeC
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-----------------------ALVHIP--NLEILDI  388 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-----------------------~l~~~~--~L~~L~L  388 (462)
                      .+        ..+.   .+.+|+.|++++|.++......++.                       .+..++  +|++|++
T Consensus       187 ~~--------~~~~---~l~~L~~L~l~~~~l~~~~~~~~~~~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~L  255 (680)
T 1ziw_A          187 SP--------GCFH---AIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDL  255 (680)
T ss_dssp             CT--------TGGG---GSSEECEEECTTCCCHHHHHHHHHHHHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEEC
T ss_pred             Ch--------hhhh---hhhhhhhhhccccccChhhHHHHHHHhhhccccEEEccCCcccccChhHhhccCcCCCCEEEC
Confidence            44        2222   2234444444444444333333332                       333332  3666666


Q ss_pred             CCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          389 SDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       389 s~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ++|.++..     .+   ..+..+++|+.|++++|+++..    .+..+.. .++|++|++++|..+
T Consensus       256 s~n~l~~~-----~~---~~~~~l~~L~~L~L~~n~l~~~----~~~~~~~-l~~L~~L~L~~~~~~  309 (680)
T 1ziw_A          256 SYNNLNVV-----GN---DSFAWLPQLEYFFLEYNNIQHL----FSHSLHG-LFNVRYLNLKRSFTK  309 (680)
T ss_dssp             TTSCCCEE-----CT---TTTTTCTTCCEEECCSCCBSEE----CTTTTTT-CTTCCEEECTTCBCC
T ss_pred             CCCCcCcc-----Cc---ccccCcccccEeeCCCCccCcc----ChhhhcC-CCCccEEeccchhhh
Confidence            66655541     11   3344555666666666665543    2233444 234666666655443

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

Probab=99.68  E-value=4.2e-17  Score=152.22  Aligned_cols=184  Identities=18%  Similarity=0.194  Sum_probs=143.8

Q ss_pred             cCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCC
Q 012512          223 NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLD  302 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~  302 (462)
                      .+++|++|++++|.+....  .    +..    +++|++|++++|.+..         + ..+..+++|++|++++|.++
T Consensus        39 ~l~~L~~L~l~~~~i~~~~--~----l~~----l~~L~~L~l~~n~l~~---------~-~~l~~l~~L~~L~L~~n~l~   98 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKSVQ--G----IQY----LPNVRYLALGGNKLHD---------I-SALKELTNLTYLILTGNQLQ   98 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCT--T----GGG----CTTCCEEECTTSCCCC---------C-GGGTTCTTCCEEECTTSCCC
T ss_pred             cccceeeeeeCCCCccccc--c----ccc----CCCCcEEECCCCCCCC---------c-hhhcCCCCCCEEECCCCccC
Confidence            3679999999999887432  1    222    7899999999999876         2 35778899999999999998


Q ss_pred             hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCC
Q 012512          303 RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN  382 (462)
Q Consensus       303 ~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~  382 (462)
                      +..+..     +..+++|++|++++|.+++..+        ..+.   .+++|++|++++|+++..    .+..+..+++
T Consensus        99 ~~~~~~-----~~~l~~L~~L~L~~n~l~~~~~--------~~~~---~l~~L~~L~L~~n~l~~~----~~~~~~~l~~  158 (272)
T 3rfs_A           99 SLPNGV-----FDKLTNLKELVLVENQLQSLPD--------GVFD---KLTNLTYLNLAHNQLQSL----PKGVFDKLTN  158 (272)
T ss_dssp             CCCTTT-----TTTCTTCCEEECTTSCCCCCCT--------TTTT---TCTTCCEEECCSSCCCCC----CTTTTTTCTT
T ss_pred             ccChhH-----hcCCcCCCEEECCCCcCCccCH--------HHhc---cCCCCCEEECCCCccCcc----CHHHhccCcc
Confidence            744432     3457899999999999986433        2233   668999999999999962    2345788999


Q ss_pred             CCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          383 LEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       383 L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      |++|++++|.+++      ++.  ..+..+++|+.|++++|+++..    .+..+.. .++|++|++++|++.+..+
T Consensus       159 L~~L~l~~n~l~~------~~~--~~~~~l~~L~~L~L~~N~l~~~----~~~~~~~-l~~L~~L~l~~N~~~~~~~  222 (272)
T 3rfs_A          159 LTELDLSYNQLQS------LPE--GVFDKLTQLKDLRLYQNQLKSV----PDGVFDR-LTSLQYIWLHDNPWDCTCP  222 (272)
T ss_dssp             CCEEECCSSCCCC------CCT--TTTTTCTTCCEEECCSSCCSCC----CTTTTTT-CTTCCEEECCSSCBCCCTT
T ss_pred             CCEEECCCCCcCc------cCH--HHhcCCccCCEEECCCCcCCcc----CHHHHhC-CcCCCEEEccCCCccccCc
Confidence            9999999999986      332  4467889999999999999874    2334555 4569999999999987665

>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=99.68  E-value=2.4e-17  Score=170.06  Aligned_cols=67  Identities=16%  Similarity=0.176  Sum_probs=35.4

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      .+++|++|++++|++++    .++..+..+++|+.|++++|.+++      ++.+...+..+++|+.|++++|+++.
T Consensus       351 ~l~~L~~L~l~~n~l~~----~~~~~~~~l~~L~~L~L~~N~l~~------~~~~~~~~~~l~~L~~L~l~~N~l~~  417 (562)
T 3a79_B          351 SPSSFTFLNFTQNVFTD----SVFQGCSTLKRLQTLILQRNGLKN------FFKVALMTKNMSSLETLDVSLNSLNS  417 (562)
T ss_dssp             SCCCCCEEECCSSCCCT----TTTTTCCSCSSCCEEECCSSCCCB------TTHHHHTTTTCTTCCEEECTTSCCBS
T ss_pred             CCCCceEEECCCCcccc----chhhhhcccCCCCEEECCCCCcCC------cccchhhhcCCCCCCEEECCCCcCCC
Confidence            44566666666666665    244455556666666666666554      21111334444555555555555443

>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=99.67  E-value=1.4e-17  Score=171.78  Aligned_cols=247  Identities=16%  Similarity=0.091  Sum_probs=163.8

Q ss_pred             cccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++....++ ..+.++++|++|++++|.+.......    +.++++|++|+|++|.++.....         
T Consensus        52 ~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~----~~~l~~L~~L~Ls~N~l~~lp~~---------  118 (562)
T 3a79_B           52 PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHV----FLFNQDLEYLDVSHNRLQNISCC---------  118 (562)
T ss_dssp             TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTT----TTTCTTCCEEECTTSCCCEECSC---------
T ss_pred             CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHH----hCCCCCCCEEECCCCcCCccCcc---------
Confidence            45677788888777655 46778899999999999876543222    35689999999999998732211         


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCC--
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSI--  330 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l--  330 (462)
                        .+.+|++|++++|.+....       .+..++.+++|++|++++|.+.......+     ..+ +|++|++++|.+  
T Consensus       119 --~l~~L~~L~Ls~N~l~~l~-------~p~~~~~l~~L~~L~L~~n~l~~~~~~~l-----~~L-~L~~L~L~~n~l~~  183 (562)
T 3a79_B          119 --PMASLRHLDLSFNDFDVLP-------VCKEFGNLTKLTFLGLSAAKFRQLDLLPV-----AHL-HLSCILLDLVSYHI  183 (562)
T ss_dssp             --CCTTCSEEECCSSCCSBCC-------CCGGGGGCTTCCEEEEECSBCCTTTTGGG-----TTS-CEEEEEEEESSCCC
T ss_pred             --ccccCCEEECCCCCccccC-------chHhhcccCcccEEecCCCccccCchhhh-----hhc-eeeEEEeecccccc
Confidence              2789999999999987622       23567888999999999999987443322     222 349999999988  


Q ss_pred             CCccccc----C---------------------------------------cccHHHh---hhCCC--------------
Q 012512          331 GGWLSKY----D---------------------------------------RSGPLFS---LGAGK--------------  350 (462)
Q Consensus       331 ~~~~~~~----~---------------------------------------~~~l~~~---l~~~~--------------  350 (462)
                      ++..+..    .                                       +..+...   +....              
T Consensus       184 ~~~~~~~l~~l~~~~l~l~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~l~~~~~~l~~l~~L~~L~L~~~~l~~  263 (562)
T 3a79_B          184 KGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTW  263 (562)
T ss_dssp             CSSSCCEEEECCEEEEEEEECSSSCCCCCCEEEESSEEEEEEEEEECCSTTHHHHHHHHHHHHSCSSCEEEEEEEEEECH
T ss_pred             cccCcccccccCcceEEEEecCccchhhhhhhcccccceEEEecccccccccchHHHHHHHHhccCcceEEEecCCcCcH
Confidence            4322200    0                                       0000000   00000              


Q ss_pred             ----------CCCCccEEEccCCCCCcc---hH-------------------------HHHHHH----------------
Q 012512          351 ----------SLQSLRLLNLRGNNLCKA---DA-------------------------RDLGSA----------------  376 (462)
Q Consensus       351 ----------~l~~L~~L~L~~n~l~~~---~~-------------------------~~l~~~----------------  376 (462)
                                ...+|++|++++|.+++.   .+                         ..+...                
T Consensus       264 ~~~~~~~~~~~~~~L~~L~l~~n~l~~~ip~~~~~~~~~~L~~L~~~~~~~~~~~~p~~~~~~~~~~~~L~~L~l~~n~~  343 (562)
T 3a79_B          264 KCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPF  343 (562)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEEEEEECSCCCCCCCCCCSCSCCEEEEEEEEECCCSSCHHHHHHHHHTCCCSEEEEESSCC
T ss_pred             HHHHHHHHhhhcccccEEEEeccEeeccccchhhhcccccchheehhhcccceeecChhhhhhhhccCcceEEEccCCCc
Confidence                      012566666666655421   00                         111111                


Q ss_pred             -----hhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccC
Q 012512          377 -----LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       377 -----l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~  451 (462)
                           ...+++|++|++++|.+++.     .+   ..+..+++|+.|++++|+++...  .++..+.. .++|++|++++
T Consensus       344 ~~~~~~~~l~~L~~L~l~~n~l~~~-----~~---~~~~~l~~L~~L~L~~N~l~~~~--~~~~~~~~-l~~L~~L~l~~  412 (562)
T 3a79_B          344 IHMVCPPSPSSFTFLNFTQNVFTDS-----VF---QGCSTLKRLQTLILQRNGLKNFF--KVALMTKN-MSSLETLDVSL  412 (562)
T ss_dssp             CCCCCCSSCCCCCEEECCSSCCCTT-----TT---TTCCSCSSCCEEECCSSCCCBTT--HHHHTTTT-CTTCCEEECTT
T ss_pred             ccccCccCCCCceEEECCCCccccc-----hh---hhhcccCCCCEEECCCCCcCCcc--cchhhhcC-CCCCCEEECCC
Confidence                 05678999999999999863     33   56788899999999999998621  24556666 35699999999


Q ss_pred             CCCCCccc
Q 012512          452 NNLGRFCA  459 (462)
Q Consensus       452 N~l~~~~~  459 (462)
                      |++++.++
T Consensus       413 N~l~~~~~  420 (562)
T 3a79_B          413 NSLNSHAY  420 (562)
T ss_dssp             SCCBSCCS
T ss_pred             CcCCCccC
Confidence            99987554

>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=99.67  E-value=1.8e-16  Score=163.00  Aligned_cols=206  Identities=15%  Similarity=0.168  Sum_probs=144.4

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      ..+|++|++++|.+......+    ...+++|++|++++|.+.+..+....     ....+++|++|++++|.+...   
T Consensus       309 ~~~L~~L~l~~n~l~~ip~~~----~~~l~~L~~L~Ls~N~l~~~~~~~~~-----~~~~l~~L~~L~Ls~N~l~~~---  376 (549)
T 2z81_A          309 LEKVKRITVENSKVFLVPCSF----SQHLKSLEFLDLSENLMVEEYLKNSA-----CKGAWPSLQTLVLSQNHLRSM---  376 (549)
T ss_dssp             STTCCEEEEESSCCCCCCHHH----HHHCTTCCEEECCSSCCCHHHHHHHT-----CTTSSTTCCEEECTTSCCCCH---
T ss_pred             cccceEEEeccCccccCCHHH----HhcCccccEEEccCCccccccccchh-----hhhccccCcEEEccCCccccc---
Confidence            456788888887765433222    34578889999999888865443210     011267888999998888761   


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                         ......+..+++|++|++++|+++. .+..     +..+++|++|++++|.+++.         +..+.     ++|
T Consensus       377 ---~~~~~~~~~l~~L~~L~Ls~N~l~~-lp~~-----~~~~~~L~~L~Ls~N~l~~l---------~~~~~-----~~L  433 (549)
T 2z81_A          377 ---QKTGEILLTLKNLTSLDISRNTFHP-MPDS-----CQWPEKMRFLNLSSTGIRVV---------KTCIP-----QTL  433 (549)
T ss_dssp             ---HHHHHHGGGCTTCCEEECTTCCCCC-CCSC-----CCCCTTCCEEECTTSCCSCC---------CTTSC-----TTC
T ss_pred             ---ccchhhhhcCCCCCEEECCCCCCcc-CChh-----hcccccccEEECCCCCcccc---------cchhc-----CCc
Confidence               1123557788889999999988874 3322     23467889999999888741         11111     578


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHH
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLD  435 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~  435 (462)
                      ++|+|++|++++.        ...+++|++|++++|.|+.      +|.    ...+++|+.|++++|+++..    .++
T Consensus       434 ~~L~Ls~N~l~~~--------~~~l~~L~~L~Ls~N~l~~------ip~----~~~l~~L~~L~Ls~N~l~~~----~~~  491 (549)
T 2z81_A          434 EVLDVSNNNLDSF--------SLFLPRLQELYISRNKLKT------LPD----ASLFPVLLVMKISRNQLKSV----PDG  491 (549)
T ss_dssp             SEEECCSSCCSCC--------CCCCTTCCEEECCSSCCSS------CCC----GGGCTTCCEEECCSSCCCCC----CTT
T ss_pred             eEEECCCCChhhh--------cccCChhcEEECCCCccCc------CCC----cccCccCCEEecCCCccCCc----CHH
Confidence            9999999998862        2578899999999999885      552    24568999999999999874    334


Q ss_pred             HHhcCCCCCcEEEccCCCCCCccc
Q 012512          436 TLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       436 ~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      .+.. .++|++|++++|++....+
T Consensus       492 ~~~~-l~~L~~L~l~~N~~~~~~~  514 (549)
T 2z81_A          492 IFDR-LTSLQKIWLHTNPWDCSCP  514 (549)
T ss_dssp             GGGG-CTTCCEEECCSSCBCCCHH
T ss_pred             HHhc-CcccCEEEecCCCccCCCc
Confidence            4666 3569999999999877654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=99.67  E-value=1.1e-15  Score=133.85  Aligned_cols=135  Identities=13%  Similarity=0.076  Sum_probs=106.5

Q ss_pred             HHhcCCCccEEEccCC-CCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCC
Q 012512          220 LIQNSETLASLEFLHC-KLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRH  298 (462)
Q Consensus       220 l~~~~~~L~~L~L~~~-~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~  298 (462)
                      .....++|++|+|++| .+++.+...++.                                    .+..+++|++|+|++
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~------------------------------------~L~~~~~L~~L~Ls~   74 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAE------------------------------------ALKTNTYVKKFSIVG   74 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHH------------------------------------HHTTCCSCCEEECTT
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHH------------------------------------HHHhCCCcCEEECcC
Confidence            3445667777777777 777666665544                                    444557788888888


Q ss_pred             CCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEc--cCCCCCcchHHHHHHH
Q 012512          299 CHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNL--RGNNLCKADARDLGSA  376 (462)
Q Consensus       299 n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L--~~n~l~~~~~~~l~~~  376 (462)
                      |.+++.+...++.++..+ ++|++|+|++|.+++    .+...+...+.   ..++|++|+|  ++|.|+++|+..+..+
T Consensus        75 n~i~~~g~~~l~~~L~~n-~~L~~L~L~~N~i~~----~g~~~l~~~L~---~n~~L~~L~L~~~~N~i~~~g~~~l~~~  146 (185)
T 1io0_A           75 TRSNDPVAFALAEMLKVN-NTLKSLNVESNFISG----SGILALVEALQ---SNTSLIELRIDNQSQPLGNNVEMEIANM  146 (185)
T ss_dssp             SCCCHHHHHHHHHHHHHC-SSCCEEECCSSCCCH----HHHHHHHHGGG---GCSSCCEEECCCCSSCCCHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHhC-CCcCEEECcCCcCCH----HHHHHHHHHHH---hCCCceEEEecCCCCCCCHHHHHHHHHH
Confidence            888888888888887654 778888888888883    44555666666   4478999999  8999999999999999


Q ss_pred             hhcCCCCCEEeCCCCCCCchhH
Q 012512          377 LVHIPNLEILDISDNTIEDDGI  398 (462)
Q Consensus       377 l~~~~~L~~L~Ls~N~l~~~g~  398 (462)
                      +..+++|++|++++|.|++.|.
T Consensus       147 L~~n~~L~~L~L~~n~i~~~~~  168 (185)
T 1io0_A          147 LEKNTTLLKFGYHFTQQGPRLR  168 (185)
T ss_dssp             HHHCSSCCEEECCCSSHHHHHH
T ss_pred             HHhCCCcCEEeccCCCCChHHH
Confidence            9999999999999999998873

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

Probab=99.66  E-value=8.1e-18  Score=181.75  Aligned_cols=243  Identities=15%  Similarity=0.095  Sum_probs=130.1

Q ss_pred             ccceeeeccccc-hHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          175 YARCLRLQNALC-VEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       175 ~~~~l~l~~~~~-~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      .++.+++.++.. ..+ +..+.++++|+.|+|++|.+....+..    +.++++|++|+|++|.+++..+..      ..
T Consensus        49 ~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~----~~~l~~L~~L~Ls~n~l~~~~~~~------~~  118 (844)
T 3j0a_A           49 QLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDA----FQGLFHLFELRLYFCGLSDAVLKD------GY  118 (844)
T ss_dssp             SCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTS----SCSCSSCCCEECTTCCCSSCCSTT------CC
T ss_pred             cCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhH----ccCCcccCEeeCcCCCCCcccccC------cc
Confidence            345556655522 222 344556677777777777654332211    345667777777777665422211      00


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCC-------------
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSS-------------  319 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~-------------  319 (462)
                      ...+.+|++|++++|.+....       ....++.+++|++|+|++|.+....+..+... ..  ++             
T Consensus       119 ~~~L~~L~~L~Ls~N~l~~~~-------~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l-~~--~~L~~L~L~~n~l~~  188 (844)
T 3j0a_A          119 FRNLKALTRLDLSKNQIRSLY-------LHPSFGKLNSLKSIDFSSNQIFLVCEHELEPL-QG--KTLSFFSLAANSLYS  188 (844)
T ss_dssp             CSSCSSCCEEEEESCCCCCCC-------CCGGGGTCSSCCEEEEESSCCCCCCSGGGHHH-HH--CSSCCCEECCSBSCC
T ss_pred             ccccCCCCEEECCCCcccccc-------cchhHhhCCCCCEEECCCCcCCeeCHHHcccc-cC--CccceEECCCCcccc
Confidence            112566777777777765521       12345667777777777776655333332210 00  23             


Q ss_pred             -----------------ccEEEecCCCCCCcccccCcccHHHhhh-----------------------------CCCC--
Q 012512          320 -----------------LSILDLSGNSIGGWLSKYDRSGPLFSLG-----------------------------AGKS--  351 (462)
Q Consensus       320 -----------------L~~L~Ls~n~l~~~~~~~~~~~l~~~l~-----------------------------~~~~--  351 (462)
                                       |++|++++|.+++..+.    .+...+.                             .+.+  
T Consensus       189 ~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~----~~~~~l~~~~l~~L~l~~~~~~~~~~~~~l~~~~~~~f~~l~  264 (844)
T 3j0a_A          189 RVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITG----NFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLA  264 (844)
T ss_dssp             CCCCCCCSSSCTTTTCCBSEEBCSSCCSSTTTTS----GGGGTSCSCCBSEEECCSSCCBCSSSCSSSTTGGGTTTTTTT
T ss_pred             ccccchhhcCCccccCceeEEecCCCcCchhHHH----HHHhhcCcccccceecccccccccccccccCCCChhhhhccc
Confidence                             44445544444432221    0111000                             0001  


Q ss_pred             CCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHH
Q 012512          352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVS  431 (462)
Q Consensus       352 l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~  431 (462)
                      .++|+.|++++|.++..    .+..+..+++|+.|++++|.|+..     .+   ..+..+++|+.|++++|+++..   
T Consensus       265 ~~~L~~L~Ls~n~l~~~----~~~~~~~l~~L~~L~L~~n~i~~~-----~~---~~~~~l~~L~~L~Ls~N~l~~~---  329 (844)
T 3j0a_A          265 RSSVRHLDLSHGFVFSL----NSRVFETLKDLKVLNLAYNKINKI-----AD---EAFYGLDNLQVLNLSYNLLGEL---  329 (844)
T ss_dssp             TSCCCEEECTTCCCCEE----CSCCSSSCCCCCEEEEESCCCCEE-----CT---TTTTTCSSCCEEEEESCCCSCC---
T ss_pred             cCCccEEECCCCccccc----ChhhhhcCCCCCEEECCCCcCCCC-----Ch---HHhcCCCCCCEEECCCCCCCcc---
Confidence            14577777777776652    344566677777777777777652     22   4456667777777777777653   


Q ss_pred             HHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          432 QLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       432 ~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                       .+..+.. .++|++|++++|.|++..
T Consensus       330 -~~~~~~~-l~~L~~L~L~~N~i~~~~  354 (844)
T 3j0a_A          330 -YSSNFYG-LPKVAYIDLQKNHIAIIQ  354 (844)
T ss_dssp             -CSCSCSS-CTTCCEEECCSCCCCCCC
T ss_pred             -CHHHhcC-CCCCCEEECCCCCCCccC
Confidence             2334555 345777888777776543

>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=99.66  E-value=1.8e-17  Score=170.44  Aligned_cols=237  Identities=16%  Similarity=0.165  Sum_probs=175.9

Q ss_pred             cccceeeeccccchHh-hhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          174 HYARCLRLQNALCVEE-TCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~-~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      ..++.+++.++....+ +..+.++++|++|++++|.+.......    +..+++|++|++++|.++...+..+..     
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~----~~~l~~L~~L~Ls~n~l~~~~~~~~~~-----   96 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDA----FYSLGSLEHLDLSDNHLSSLSSSWFGP-----   96 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTT----TTTCTTCCEEECTTSCCCSCCHHHHTT-----
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhh----ccccccCCEEECCCCccCccCHHHhcc-----
Confidence            4667778887776654 346778899999999999876543222    356899999999999998766665543     


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCC-CChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCH-LDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                         +.+|++|++++|.+....       ....+..+++|++|++++|. ++......     +..+++|++|++++|.++
T Consensus        97 ---l~~L~~L~Ls~n~l~~~~-------~~~~~~~l~~L~~L~L~~n~~~~~~~~~~-----~~~l~~L~~L~L~~n~l~  161 (549)
T 2z81_A           97 ---LSSLKYLNLMGNPYQTLG-------VTSLFPNLTNLQTLRIGNVETFSEIRRID-----FAGLTSLNELEIKALSLR  161 (549)
T ss_dssp             ---CTTCCEEECTTCCCSSSC-------SSCSCTTCTTCCEEEEEESSSCCEECTTT-----TTTCCEEEEEEEEETTCC
T ss_pred             ---CCCCcEEECCCCcccccc-------hhhhhhccCCccEEECCCCccccccCHhh-----hhcccccCeeeccCCccc
Confidence               789999999999987522       23456788999999999998 44322222     345789999999999998


Q ss_pred             CcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHH-hhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcC
Q 012512          332 GWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSA-LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASE  410 (462)
Q Consensus       332 ~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~-l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~  410 (462)
                      +..+        ..+.   .+++|++|++++|.++.     ++.. +..+++|+.|++++|.++.....   +.  ....
T Consensus       162 ~~~~--------~~l~---~l~~L~~L~l~~n~~~~-----~~~~~~~~l~~L~~L~L~~n~l~~~~~~---~~--~~~~  220 (549)
T 2z81_A          162 NYQS--------QSLK---SIRDIHHLTLHLSESAF-----LLEIFADILSSVRYLELRDTNLARFQFS---PL--PVDE  220 (549)
T ss_dssp             EECT--------TTTT---TCSEEEEEEEECSBSTT-----HHHHHHHSTTTBSEEEEESCBCTTCCCC---CC--SSCC
T ss_pred             ccCh--------hhhh---ccccCceEecccCcccc-----cchhhHhhcccccEEEccCCcccccccc---cc--chhh
Confidence            7544        3444   66899999999999875     4444 35689999999999998752100   00  1234


Q ss_pred             CCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          411 RCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       411 ~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      .+++|+.|++++|.+++.+...+...+.. ..+|+.+++++|.+.+
T Consensus       221 ~~~~L~~L~l~~n~l~~~~~~~l~~~~~~-~~~L~~l~l~~~~~~~  265 (549)
T 2z81_A          221 VSSPMKKLAFRGSVLTDESFNELLKLLRY-ILELSEVEFDDCTLNG  265 (549)
T ss_dssp             CCCCCCEEEEESCEEEHHHHHHHHGGGGG-CTTCCEEEEESCEEEC
T ss_pred             hhhcccceeccccccchhHHHHHHHHhhh-hccccccccccccccc
Confidence            56899999999999999888778777766 4568999998887654

>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=99.66  E-value=3.7e-17  Score=150.72  Aligned_cols=203  Identities=17%  Similarity=0.171  Sum_probs=136.9

Q ss_pred             CcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchh
Q 012512          198 KLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSV  277 (462)
Q Consensus       198 ~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  277 (462)
                      ..++++++++.+......+       .+++++|+|++|.++......+..        +.+|++|++++|.+..      
T Consensus        15 ~~~~l~~~~~~l~~~p~~~-------~~~l~~L~L~~n~l~~~~~~~~~~--------l~~L~~L~L~~n~l~~------   73 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGI-------PADTEKLDLQSTGLATLSDATFRG--------LTKLTWLNLDYNQLQT------   73 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCC-------CTTCCEEECTTSCCCCCCTTTTTT--------CTTCCEEECTTSCCCC------
T ss_pred             CCeEEecCCCCccccCCCC-------CCCCCEEEccCCCcCccCHhHhcC--------cccCCEEECCCCcCCc------
Confidence            3567777777655433221       357888888888887544433322        6888899999888877      


Q ss_pred             HHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       278 ~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                        .....+..+++|++|+|++|.+....+..     +..+++|++|+|++|.+++..+        ..+   .++++|+.
T Consensus        74 --~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-----~~~l~~L~~L~L~~N~l~~~~~--------~~~---~~l~~L~~  135 (251)
T 3m19_A           74 --LSAGVFDDLTELGTLGLANNQLASLPLGV-----FDHLTQLDKLYLGGNQLKSLPS--------GVF---DRLTKLKE  135 (251)
T ss_dssp             --CCTTTTTTCTTCCEEECTTSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--------TTT---TTCTTCCE
T ss_pred             --cCHhHhccCCcCCEEECCCCcccccChhH-----hcccCCCCEEEcCCCcCCCcCh--------hHh---ccCCcccE
Confidence              33445677889999999999988643332     3456889999999999886333        222   35688999


Q ss_pred             EEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh--hHHHHH
Q 012512          358 LNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR--GVSQLL  434 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~--~~~~l~  434 (462)
                      |+|++|+|+.     +++ ++..+++|++|++++|.|+.      ++.  ..+..+++|+.|++++|+++..  ....+.
T Consensus       136 L~Ls~N~l~~-----~~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L~l~~N~~~c~~~~~~~l~  202 (251)
T 3m19_A          136 LRLNTNQLQS-----IPAGAFDKLTNLQTLSLSTNQLQS------VPH--GAFDRLGKLQTITLFGNQFDCSRCEILYLS  202 (251)
T ss_dssp             EECCSSCCCC-----CCTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCCEEECCSCCBCTTSTTHHHHH
T ss_pred             EECcCCcCCc-----cCHHHcCcCcCCCEEECCCCcCCc------cCH--HHHhCCCCCCEEEeeCCceeCCccccHHHH
Confidence            9999999986     444 68888999999999999886      332  4567778999999999998764  333455


Q ss_pred             HHHhcCCCCCcEEEccCCCC
Q 012512          435 DTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l  454 (462)
                      ..+.. +. .+..+..+|.+
T Consensus       203 ~~~~~-~~-~~~~~~~~~~~  220 (251)
T 3m19_A          203 QWIRE-NS-NKVKDGTGQNL  220 (251)
T ss_dssp             HHHHH-SG-GGBCC------
T ss_pred             HHHHh-cc-cceeeccCccc
Confidence            54544 11 33334444444

>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=99.66  E-value=2e-16  Score=164.23  Aligned_cols=196  Identities=12%  Similarity=0.068  Sum_probs=120.6

Q ss_pred             cCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecC-----
Q 012512          223 NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLR-----  297 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls-----  297 (462)
                      .+++|++|+|++|.+++.....+..   .    +++|++|+++ +.+.+       ..+......+++|++|+++     
T Consensus       291 ~~~~L~~L~Ls~~~l~~~~~~~~~~---~----~~~L~~L~L~-~~~~~-------~~l~~~~~~~~~L~~L~L~~g~~~  355 (592)
T 3ogk_B          291 FAAQIRKLDLLYALLETEDHCTLIQ---K----CPNLEVLETR-NVIGD-------RGLEVLAQYCKQLKRLRIERGADE  355 (592)
T ss_dssp             GGGGCCEEEETTCCCCHHHHHHHHT---T----CTTCCEEEEE-GGGHH-------HHHHHHHHHCTTCCEEEEECCCCS
T ss_pred             hcCCCcEEecCCCcCCHHHHHHHHH---h----CcCCCEEecc-CccCH-------HHHHHHHHhCCCCCEEEeecCccc
Confidence            3456666666666655544432211   1    5566666666 32222       2344444556777777777     


Q ss_pred             ------CCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEcc----CCCCCc
Q 012512          298 ------HCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLR----GNNLCK  367 (462)
Q Consensus       298 ------~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~----~n~l~~  367 (462)
                            .|.+++.++..++.    .+++|++|+++.|.+++...        ..+..  ++++|+.|+++    .|.+++
T Consensus       356 ~~~~~~~~~~~~~~~~~l~~----~~~~L~~L~l~~~~l~~~~~--------~~l~~--~~~~L~~L~l~~~~~~n~l~~  421 (592)
T 3ogk_B          356 QGMEDEEGLVSQRGLIALAQ----GCQELEYMAVYVSDITNESL--------ESIGT--YLKNLCDFRLVLLDREERITD  421 (592)
T ss_dssp             STTSSTTCCCCHHHHHHHHH----HCTTCSEEEEEESCCCHHHH--------HHHHH--HCCSCCEEEEEECSCCSCCSS
T ss_pred             cccccccCccCHHHHHHHHh----hCccCeEEEeecCCccHHHH--------HHHHh--hCCCCcEEEEeecCCCccccC
Confidence                  35666666665543    24677777777777764222        22321  24678888886    556775


Q ss_pred             chH-HHHHHHhhcCCCCCEEeCCCCC--CCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCC
Q 012512          368 ADA-RDLGSALVHIPNLEILDISDNT--IEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPP  444 (462)
Q Consensus       368 ~~~-~~l~~~l~~~~~L~~L~Ls~N~--l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L  444 (462)
                      ... ..++..+..+++|+.|++++|.  +++.++..+.       ..+++|+.|++++|++++.+...+   +.. .++|
T Consensus       422 ~p~~~~~~~~~~~~~~L~~L~L~~~~~~l~~~~~~~~~-------~~~~~L~~L~L~~n~l~~~~~~~~---~~~-~~~L  490 (592)
T 3ogk_B          422 LPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSYIG-------QYSPNVRWMLLGYVGESDEGLMEF---SRG-CPNL  490 (592)
T ss_dssp             CCCHHHHHHHHHHCTTCCEEEEECCGGGCCHHHHHHHH-------HSCTTCCEEEECSCCSSHHHHHHH---HTC-CTTC
T ss_pred             chHHHHHHHHHHhCCCCCEEEEecCCCCccHHHHHHHH-------HhCccceEeeccCCCCCHHHHHHH---Hhc-Cccc
Confidence            210 0134446668888888887543  7877665553       235889999999999998765444   344 4569


Q ss_pred             cEEEccCCCCCCcc
Q 012512          445 TSLSIADNNLGRFC  458 (462)
Q Consensus       445 ~~L~Ls~N~l~~~~  458 (462)
                      ++|++++|.|++.+
T Consensus       491 ~~L~l~~n~l~~~~  504 (592)
T 3ogk_B          491 QKLEMRGCCFSERA  504 (592)
T ss_dssp             CEEEEESCCCBHHH
T ss_pred             CeeeccCCCCcHHH
Confidence            99999999987654

>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=99.65  E-value=3.7e-17  Score=169.21  Aligned_cols=212  Identities=20%  Similarity=0.145  Sum_probs=125.1

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++.+..++.   .+++|++|++++|.+.....        .+++|++|++++|.++...         .   
T Consensus        82 ~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~l~~l~~--------~l~~L~~L~L~~N~l~~lp---------~---  138 (622)
T 3g06_A           82 ELRTLEVSGNQLTSLPV---LPPGLLELSIFSNPLTHLPA--------LPSGLCKLWIFGNQLTSLP---------V---  138 (622)
T ss_dssp             TCCEEEECSCCCSCCCC---CCTTCCEEEECSCCCCCCCC--------CCTTCCEEECCSSCCSCCC---------C---
T ss_pred             CCCEEEcCCCcCCcCCC---CCCCCCEEECcCCcCCCCCC--------CCCCcCEEECCCCCCCcCC---------C---
Confidence            44556666655544333   45666666666665443211        2456666666666655311         0   


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      ..++|++|++++|.+.....            ..++|+.|++++|.++.- +        ..+++|+.|++++|.+++..
T Consensus       139 ~l~~L~~L~Ls~N~l~~l~~------------~~~~L~~L~L~~N~l~~l-~--------~~~~~L~~L~Ls~N~l~~l~  197 (622)
T 3g06_A          139 LPPGLQELSVSDNQLASLPA------------LPSELCKLWAYNNQLTSL-P--------MLPSGLQELSVSDNQLASLP  197 (622)
T ss_dssp             CCTTCCEEECCSSCCSCCCC------------CCTTCCEEECCSSCCSCC-C--------CCCTTCCEEECCSSCCSCCC
T ss_pred             CCCCCCEEECcCCcCCCcCC------------ccCCCCEEECCCCCCCCC-c--------ccCCCCcEEECCCCCCCCCC
Confidence            13567777777776655211            123445555555544431 1        12355666666666555311


Q ss_pred             ccc--------CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHH
Q 012512          335 SKY--------DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFV  406 (462)
Q Consensus       335 ~~~--------~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~  406 (462)
                      ...        ....+. .+..  .+++|++|+|++|+|+.     ++   ..+++|+.|++++|.|+.      +|   
T Consensus       198 ~~~~~L~~L~L~~N~l~-~l~~--~~~~L~~L~Ls~N~L~~-----lp---~~l~~L~~L~Ls~N~L~~------lp---  257 (622)
T 3g06_A          198 TLPSELYKLWAYNNRLT-SLPA--LPSGLKELIVSGNRLTS-----LP---VLPSELKELMVSGNRLTS------LP---  257 (622)
T ss_dssp             CCCTTCCEEECCSSCCS-SCCC--CCTTCCEEECCSSCCSC-----CC---CCCTTCCEEECCSSCCSC------CC---
T ss_pred             CccchhhEEECcCCccc-ccCC--CCCCCCEEEccCCccCc-----CC---CCCCcCcEEECCCCCCCc------CC---
Confidence            000        000000 0010  22678899999998886     33   456789999999999886      54   


Q ss_pred             hhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          407 QASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       407 ~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      .   .+++|+.|++++|+|+.     ++..+..+ ++|+.|++++|+|++..+
T Consensus       258 ~---~~~~L~~L~Ls~N~L~~-----lp~~l~~l-~~L~~L~L~~N~l~~~~~  301 (622)
T 3g06_A          258 M---LPSGLLSLSVYRNQLTR-----LPESLIHL-SSETTVNLEGNPLSERTL  301 (622)
T ss_dssp             C---CCTTCCEEECCSSCCCS-----CCGGGGGS-CTTCEEECCSCCCCHHHH
T ss_pred             c---ccccCcEEeCCCCCCCc-----CCHHHhhc-cccCEEEecCCCCCCcCH
Confidence            2   45889999999999996     66777774 569999999999987654

>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=99.65  E-value=6.4e-17  Score=152.37  Aligned_cols=203  Identities=17%  Similarity=0.141  Sum_probs=148.0

Q ss_pred             hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCC
Q 012512          193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIEN  272 (462)
Q Consensus       193 l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~  272 (462)
                      +.+++++++++++++.+......+       .++++.|+|++|.++...+..+..        +.+|++|++++|.+...
T Consensus         6 ~~~l~~l~~l~~~~~~l~~ip~~~-------~~~l~~L~L~~N~l~~~~~~~~~~--------l~~L~~L~L~~n~l~~~   70 (290)
T 1p9a_G            6 VSKVASHLEVNCDKRNLTALPPDL-------PKDTTILHLSENLLYTFSLATLMP--------YTRLTQLNLDRAELTKL   70 (290)
T ss_dssp             EECSTTCCEEECTTSCCSSCCSCC-------CTTCCEEECTTSCCSEEEGGGGTT--------CTTCCEEECTTSCCCEE
T ss_pred             ccccCCccEEECCCCCCCcCCCCC-------CCCCCEEEcCCCcCCccCHHHhhc--------CCCCCEEECCCCccCcc
Confidence            445677888888888766433221       357899999999887654443332        78899999999988762


Q ss_pred             CCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCC
Q 012512          273 CPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL  352 (462)
Q Consensus       273 ~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l  352 (462)
                      .         . ...+++|++|++++|.+.. .+..     ...+++|++|++++|.+++..+        ..   +.++
T Consensus        71 ~---------~-~~~l~~L~~L~Ls~N~l~~-l~~~-----~~~l~~L~~L~l~~N~l~~l~~--------~~---~~~l  123 (290)
T 1p9a_G           71 Q---------V-DGTLPVLGTLDLSHNQLQS-LPLL-----GQTLPALTVLDVSFNRLTSLPL--------GA---LRGL  123 (290)
T ss_dssp             E---------C-CSCCTTCCEEECCSSCCSS-CCCC-----TTTCTTCCEEECCSSCCCCCCS--------ST---TTTC
T ss_pred             c---------C-CCCCCcCCEEECCCCcCCc-Cchh-----hccCCCCCEEECCCCcCcccCH--------HH---HcCC
Confidence            1         1 1567899999999998874 2221     2456889999999999886433        22   3366


Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHH
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQ  432 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~  432 (462)
                      ++|++|+|++|+|+..    .+..+..+++|+.|++++|.|+.      ++.  ..+..+++|+.|++++|+|+.     
T Consensus       124 ~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------l~~--~~~~~l~~L~~L~L~~N~l~~-----  186 (290)
T 1p9a_G          124 GELQELYLKGNELKTL----PPGLLTPTPKLEKLSLANNNLTE------LPA--GLLNGLENLDTLLLQENSLYT-----  186 (290)
T ss_dssp             TTCCEEECTTSCCCCC----CTTTTTTCTTCCEEECTTSCCSC------CCT--TTTTTCTTCCEEECCSSCCCC-----
T ss_pred             CCCCEEECCCCCCCcc----ChhhcccccCCCEEECCCCcCCc------cCH--HHhcCcCCCCEEECCCCcCCc-----
Confidence            8899999999998862    23356788899999999999886      442  456778899999999999886     


Q ss_pred             HHHHHhcCCCCCcEEEccCCCCC
Q 012512          433 LLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       433 l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ++..+.. ..+|+.|++++|++.
T Consensus       187 ip~~~~~-~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          187 IPKGFFG-SHLLPFAFLHGNPWL  208 (290)
T ss_dssp             CCTTTTT-TCCCSEEECCSCCBC
T ss_pred             cChhhcc-cccCCeEEeCCCCcc
Confidence            5666666 456999999999875

>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=99.65  E-value=7.2e-16  Score=160.00  Aligned_cols=191  Identities=14%  Similarity=0.112  Sum_probs=113.2

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEec--------
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKL--------  296 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~L--------  296 (462)
                      ++|++|++++|.+++.....+...       +++|++|++++| +.+       ..+......+++|++|++        
T Consensus       289 ~~L~~L~L~~~~l~~~~l~~~~~~-------~~~L~~L~l~~~-~~~-------~~l~~l~~~~~~L~~L~L~~~~~~g~  353 (594)
T 2p1m_B          289 SRLTTLNLSYATVQSYDLVKLLCQ-------CPKLQRLWVLDY-IED-------AGLEVLASTCKDLRELRVFPSEPFVM  353 (594)
T ss_dssp             TTCCEEECTTCCCCHHHHHHHHTT-------CTTCCEEEEEGG-GHH-------HHHHHHHHHCTTCCEEEEECSCTTCS
T ss_pred             CCCCEEEccCCCCCHHHHHHHHhc-------CCCcCEEeCcCc-cCH-------HHHHHHHHhCCCCCEEEEecCccccc
Confidence            445555555555444333322111       445555555544 221       223333334556666665        


Q ss_pred             -CCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEcc--C----CCCC---
Q 012512          297 -RHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLR--G----NNLC---  366 (462)
Q Consensus       297 -s~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~--~----n~l~---  366 (462)
                       +.+.+++.++..++.    .+++|++|+++.|.+++...        ..+..  .+++|+.|+++  +    +.++   
T Consensus       354 ~~~~~l~~~~l~~l~~----~~~~L~~L~~~~~~l~~~~~--------~~l~~--~~~~L~~L~L~~~~~~~~~~l~~~~  419 (594)
T 2p1m_B          354 EPNVALTEQGLVSVSM----GCPKLESVLYFCRQMTNAAL--------ITIAR--NRPNMTRFRLCIIEPKAPDYLTLEP  419 (594)
T ss_dssp             SCSSCCCHHHHHHHHH----HCTTCCEEEEEESCCCHHHH--------HHHHH--HCTTCCEEEEEESSTTCCCTTTCCC
T ss_pred             ccCCCCCHHHHHHHHH----hchhHHHHHHhcCCcCHHHH--------HHHHh--hCCCcceeEeecccCCCcccccCCc
Confidence             234555555554433    23566666666666553211        12221  34678888888  4    5676   


Q ss_pred             -cchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCc
Q 012512          367 -KADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPT  445 (462)
Q Consensus       367 -~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~  445 (462)
                       +.|   +...+..+++|+.|++++ .+++.++..+..       .+++|+.|++++|.+++.+...+...+    ++|+
T Consensus       420 ~~~~---~~~l~~~~~~L~~L~L~~-~l~~~~~~~l~~-------~~~~L~~L~L~~~~i~~~~~~~l~~~~----~~L~  484 (594)
T 2p1m_B          420 LDIG---FGAIVEHCKDLRRLSLSG-LLTDKVFEYIGT-------YAKKMEMLSVAFAGDSDLGMHHVLSGC----DSLR  484 (594)
T ss_dssp             THHH---HHHHHHHCTTCCEEECCS-SCCHHHHHHHHH-------HCTTCCEEEEESCCSSHHHHHHHHHHC----TTCC
T ss_pred             hhhH---HHHHHhhCCCccEEeecC-cccHHHHHHHHH-------hchhccEeeccCCCCcHHHHHHHHhcC----CCcC
Confidence             444   334466778888888877 788877666542       248899999999999998877765543    4499


Q ss_pred             EEEccCCCCCCccc
Q 012512          446 SLSIADNNLGRFCA  459 (462)
Q Consensus       446 ~L~Ls~N~l~~~~~  459 (462)
                      +|++++|.+++.+.
T Consensus       485 ~L~L~~n~~~~~~~  498 (594)
T 2p1m_B          485 KLEIRDCPFGDKAL  498 (594)
T ss_dssp             EEEEESCSCCHHHH
T ss_pred             EEECcCCCCcHHHH
Confidence            99999999976553

>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=99.64  E-value=9.8e-17  Score=147.88  Aligned_cols=180  Identities=19%  Similarity=0.194  Sum_probs=140.1

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRD  304 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~  304 (462)
                      .+.++++++++.++... ..+          ..++++|++++|.+..        .....+..+++|++|+|++|.+.+.
T Consensus        14 ~~~~~l~~~~~~l~~~p-~~~----------~~~l~~L~L~~n~l~~--------~~~~~~~~l~~L~~L~L~~n~l~~~   74 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVP-SGI----------PADTEKLDLQSTGLAT--------LSDATFRGLTKLTWLNLDYNQLQTL   74 (251)
T ss_dssp             GGGTEEECTTCCCSSCC-SCC----------CTTCCEEECTTSCCCC--------CCTTTTTTCTTCCEEECTTSCCCCC
T ss_pred             CCCeEEecCCCCccccC-CCC----------CCCCCEEEccCCCcCc--------cCHhHhcCcccCCEEECCCCcCCcc
Confidence            45789999998876321 111          3579999999999987        3344677889999999999999875


Q ss_pred             hHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCC
Q 012512          305 FGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNL  383 (462)
Q Consensus       305 ~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L  383 (462)
                      .+..     +..+++|++|++++|.+++..+        ..+   .++++|++|+|++|+|+.     +++ .+..+++|
T Consensus        75 ~~~~-----~~~l~~L~~L~L~~n~l~~~~~--------~~~---~~l~~L~~L~L~~N~l~~-----~~~~~~~~l~~L  133 (251)
T 3m19_A           75 SAGV-----FDDLTELGTLGLANNQLASLPL--------GVF---DHLTQLDKLYLGGNQLKS-----LPSGVFDRLTKL  133 (251)
T ss_dssp             CTTT-----TTTCTTCCEEECTTSCCCCCCT--------TTT---TTCTTCCEEECCSSCCCC-----CCTTTTTTCTTC
T ss_pred             CHhH-----hccCCcCCEEECCCCcccccCh--------hHh---cccCCCCEEEcCCCcCCC-----cChhHhccCCcc
Confidence            4433     3557899999999999986433        223   366899999999999996     443 46889999


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      ++|++++|.|+.      ++.  ..+..+++|+.|+|++|+++..    ....+.. .++|++|++++|++...
T Consensus       134 ~~L~Ls~N~l~~------~~~--~~~~~l~~L~~L~L~~N~l~~~----~~~~~~~-l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          134 KELRLNTNQLQS------IPA--GAFDKLTNLQTLSLSTNQLQSV----PHGAFDR-LGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             CEEECCSSCCCC------CCT--TTTTTCTTCCEEECCSSCCSCC----CTTTTTT-CTTCCEEECCSCCBCTT
T ss_pred             cEEECcCCcCCc------cCH--HHcCcCcCCCEEECCCCcCCcc----CHHHHhC-CCCCCEEEeeCCceeCC
Confidence            999999999986      442  4577889999999999999874    2235555 35699999999999765

>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=99.64  E-value=3.8e-16  Score=138.33  Aligned_cols=152  Identities=15%  Similarity=0.184  Sum_probs=117.2

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +.+|++|++++|.+..         +. .+..+++|++|++++|.+....  .     ...+++|++|++++|.+++..+
T Consensus        43 l~~L~~L~l~~n~i~~---------l~-~l~~l~~L~~L~l~~n~~~~~~--~-----l~~l~~L~~L~l~~n~l~~~~~  105 (197)
T 4ezg_A           43 MNSLTYITLANINVTD---------LT-GIEYAHNIKDLTINNIHATNYN--P-----ISGLSNLERLRIMGKDVTSDKI  105 (197)
T ss_dssp             HHTCCEEEEESSCCSC---------CT-TGGGCTTCSEEEEESCCCSCCG--G-----GTTCTTCCEEEEECTTCBGGGS
T ss_pred             cCCccEEeccCCCccC---------hH-HHhcCCCCCEEEccCCCCCcch--h-----hhcCCCCCEEEeECCccCcccC
Confidence            4568888888888775         22 4677889999999999876532  2     3557899999999999986333


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT-IEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                                 ..+..+++|++|++++|++++.    .+..+..+++|++|++++|. +++      ++    .+..+++
T Consensus       106 -----------~~l~~l~~L~~L~Ls~n~i~~~----~~~~l~~l~~L~~L~L~~n~~i~~------~~----~l~~l~~  160 (197)
T 4ezg_A          106 -----------PNLSGLTSLTLLDISHSAHDDS----ILTKINTLPKVNSIDLSYNGAITD------IM----PLKTLPE  160 (197)
T ss_dssp             -----------CCCTTCTTCCEEECCSSBCBGG----GHHHHTTCSSCCEEECCSCTBCCC------CG----GGGGCSS
T ss_pred             -----------hhhcCCCCCCEEEecCCccCcH----hHHHHhhCCCCCEEEccCCCCccc------cH----hhcCCCC
Confidence                       3344678999999999999973    56678899999999999998 887      53    4567799


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      |+.|++++|++++.     . .+..+ ++|++|++++|+|++
T Consensus       161 L~~L~l~~n~i~~~-----~-~l~~l-~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          161 LKSLNIQFDGVHDY-----R-GIEDF-PKLNQLYAFSQTIGG  195 (197)
T ss_dssp             CCEEECTTBCCCCC-----T-TGGGC-SSCCEEEECBC----
T ss_pred             CCEEECCCCCCcCh-----H-HhccC-CCCCEEEeeCcccCC
Confidence            99999999999883     2 56663 569999999999976

>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=99.64  E-value=2.8e-16  Score=148.03  Aligned_cols=171  Identities=23%  Similarity=0.198  Sum_probs=87.2

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      .+++|++|++++|.+.... .     ...+++|++|++++|.+++...  +.        .+.+|++|++++|.+..   
T Consensus        44 ~l~~L~~L~l~~~~i~~~~-~-----~~~l~~L~~L~L~~n~l~~~~~--l~--------~l~~L~~L~l~~n~l~~---  104 (291)
T 1h6t_A           44 ELNSIDQIIANNSDIKSVQ-G-----IQYLPNVTKLFLNGNKLTDIKP--LA--------NLKNLGWLFLDENKVKD---  104 (291)
T ss_dssp             HHHTCCEEECTTSCCCCCT-T-----GGGCTTCCEEECCSSCCCCCGG--GT--------TCTTCCEEECCSSCCCC---
T ss_pred             hcCcccEEEccCCCcccCh-h-----HhcCCCCCEEEccCCccCCCcc--cc--------cCCCCCEEECCCCcCCC---
Confidence            3455666666666543321 1     2345666666666666654322  11        14556666666665544   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                            + ..+..+++|++|++++|.+.+.  ..     ...+++|++|++++|.+++.          ..+.   .+++
T Consensus       105 ------~-~~l~~l~~L~~L~L~~n~i~~~--~~-----l~~l~~L~~L~l~~n~l~~~----------~~l~---~l~~  157 (291)
T 1h6t_A          105 ------L-SSLKDLKKLKSLSLEHNGISDI--NG-----LVHLPQLESLYLGNNKITDI----------TVLS---RLTK  157 (291)
T ss_dssp             ------G-GGGTTCTTCCEEECTTSCCCCC--GG-----GGGCTTCCEEECCSSCCCCC----------GGGG---GCTT
T ss_pred             ------C-hhhccCCCCCEEECCCCcCCCC--hh-----hcCCCCCCEEEccCCcCCcc----------hhhc---cCCC
Confidence                  1 1245555666666666655542  11     22345566666666655531          1122   3355


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      |+.|++++|++++     +++ +..+++|+.|++++|.|++      ++    .+..+++|+.|++++|+++.
T Consensus       158 L~~L~L~~N~l~~-----~~~-l~~l~~L~~L~L~~N~i~~------l~----~l~~l~~L~~L~l~~n~i~~  214 (291)
T 1h6t_A          158 LDTLSLEDNQISD-----IVP-LAGLTKLQNLYLSKNHISD------LR----ALAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             CSEEECCSSCCCC-----CGG-GTTCTTCCEEECCSSCCCB------CG----GGTTCTTCSEEEEEEEEEEC
T ss_pred             CCEEEccCCcccc-----chh-hcCCCccCEEECCCCcCCC------Ch----hhccCCCCCEEECcCCcccC
Confidence            6666666666554     222 5555566666666666554      32    23445556666666665544

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

Probab=99.63  E-value=2.6e-17  Score=177.79  Aligned_cols=61  Identities=15%  Similarity=0.004  Sum_probs=29.0

Q ss_pred             cceeeeccccchH-hhhh--hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCCh
Q 012512          176 ARCLRLQNALCVE-ETCQ--LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSP  239 (462)
Q Consensus       176 ~~~l~l~~~~~~~-~~~~--l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~  239 (462)
                      ++.+++.++.... .+..  +..+++|++|+|++|.+.....   ...+.++++|++|+|++|.++.
T Consensus        99 L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~---~~~~~~L~~L~~L~Ls~N~i~~  162 (844)
T 3j0a_A           99 LFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYL---HPSFGKLNSLKSIDFSSNQIFL  162 (844)
T ss_dssp             CCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCC---CGGGGTCSSCCEEEEESSCCCC
T ss_pred             cCEeeCcCCCCCcccccCccccccCCCCEEECCCCccccccc---chhHhhCCCCCEEECCCCcCCe
Confidence            3445555554432 1222  4455666666666665433210   0012345666666666665544

>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=6.4e-16  Score=145.59  Aligned_cols=172  Identities=19%  Similarity=0.221  Sum_probs=122.6

Q ss_pred             CCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCCh
Q 012512          224 SETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       224 ~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~  303 (462)
                      +++|++|++++|.+....  .    +..    +.+|++|++++|.+..         +.. +..+++|++|++++|.+.+
T Consensus        45 l~~L~~L~l~~~~i~~~~--~----~~~----l~~L~~L~L~~n~l~~---------~~~-l~~l~~L~~L~l~~n~l~~  104 (291)
T 1h6t_A           45 LNSIDQIIANNSDIKSVQ--G----IQY----LPNVTKLFLNGNKLTD---------IKP-LANLKNLGWLFLDENKVKD  104 (291)
T ss_dssp             HHTCCEEECTTSCCCCCT--T----GGG----CTTCCEEECCSSCCCC---------CGG-GTTCTTCCEEECCSSCCCC
T ss_pred             cCcccEEEccCCCcccCh--h----Hhc----CCCCCEEEccCCccCC---------Ccc-cccCCCCCEEECCCCcCCC
Confidence            457888888888776431  1    111    6788888888888876         222 6778888888888888876


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      ..  .     ...+++|++|++++|.+++.          ..+.   .+++|+.|++++|++++     + +.+..+++|
T Consensus       105 ~~--~-----l~~l~~L~~L~L~~n~i~~~----------~~l~---~l~~L~~L~l~~n~l~~-----~-~~l~~l~~L  158 (291)
T 1h6t_A          105 LS--S-----LKDLKKLKSLSLEHNGISDI----------NGLV---HLPQLESLYLGNNKITD-----I-TVLSRLTKL  158 (291)
T ss_dssp             GG--G-----GTTCTTCCEEECTTSCCCCC----------GGGG---GCTTCCEEECCSSCCCC-----C-GGGGGCTTC
T ss_pred             Ch--h-----hccCCCCCEEECCCCcCCCC----------hhhc---CCCCCCEEEccCCcCCc-----c-hhhccCCCC
Confidence            21  1     34568888888888888751          1233   45788888888888886     3 567788888


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      ++|++++|.|++      ++    .+..+++|+.|++++|++++.     . .+.. .++|+.|++++|++++..
T Consensus       159 ~~L~L~~N~l~~------~~----~l~~l~~L~~L~L~~N~i~~l-----~-~l~~-l~~L~~L~l~~n~i~~~~  216 (291)
T 1h6t_A          159 DTLSLEDNQISD------IV----PLAGLTKLQNLYLSKNHISDL-----R-ALAG-LKNLDVLELFSQECLNKP  216 (291)
T ss_dssp             SEEECCSSCCCC------CG----GGTTCTTCCEEECCSSCCCBC-----G-GGTT-CTTCSEEEEEEEEEECCC
T ss_pred             CEEEccCCcccc------ch----hhcCCCccCEEECCCCcCCCC-----h-hhcc-CCCCCEEECcCCcccCCc
Confidence            888888888876      32    256678888888888888873     2 3556 355888888888876543

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

Probab=99.61  E-value=1.3e-15  Score=152.59  Aligned_cols=207  Identities=17%  Similarity=0.089  Sum_probs=162.2

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++.....+ .+..+++|++|++++|.+....       ...+++|++|++++|.++...           ..
T Consensus        43 ~L~~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~~~-------~~~l~~L~~L~Ls~N~l~~~~-----------~~  103 (457)
T 3bz5_A           43 TLTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTLD-------LSQNTNLTYLACDSNKLTNLD-----------VT  103 (457)
T ss_dssp             TCCEEECCSSCCCCCT-TGGGCTTCSEEECCSSCCSCCC-------CTTCTTCSEEECCSSCCSCCC-----------CT
T ss_pred             CCCEEEccCCCcccCh-hhcccCCCCEEEccCCcCCeEc-------cccCCCCCEEECcCCCCceee-----------cC
Confidence            4455666666555443 5778899999999999876531       356899999999999988641           12


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+++|++|++++|.+...         .  +..+++|++|++++|.+++..        ...+++|++|++++|...+..
T Consensus       104 ~l~~L~~L~L~~N~l~~l---------~--~~~l~~L~~L~l~~N~l~~l~--------l~~l~~L~~L~l~~n~~~~~~  164 (457)
T 3bz5_A          104 PLTKLTYLNCDTNKLTKL---------D--VSQNPLLTYLNCARNTLTEID--------VSHNTQLTELDCHLNKKITKL  164 (457)
T ss_dssp             TCTTCCEEECCSSCCSCC---------C--CTTCTTCCEEECTTSCCSCCC--------CTTCTTCCEEECTTCSCCCCC
T ss_pred             CCCcCCEEECCCCcCCee---------c--CCCCCcCCEEECCCCccceec--------cccCCcCCEEECCCCCccccc
Confidence            278999999999998772         1  678899999999999998732        245789999999999644311


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                                   .+..+++|+.|++++|++++     ++  +..+++|+.|++++|.+++      +     .+..+++
T Consensus       165 -------------~~~~l~~L~~L~ls~n~l~~-----l~--l~~l~~L~~L~l~~N~l~~------~-----~l~~l~~  213 (457)
T 3bz5_A          165 -------------DVTPQTQLTTLDCSFNKITE-----LD--VSQNKLLNRLNCDTNNITK------L-----DLNQNIQ  213 (457)
T ss_dssp             -------------CCTTCTTCCEEECCSSCCCC-----CC--CTTCTTCCEEECCSSCCSC------C-----CCTTCTT
T ss_pred             -------------ccccCCcCCEEECCCCccce-----ec--cccCCCCCEEECcCCcCCe------e-----ccccCCC
Confidence                         13366899999999999997     33  7889999999999999987      3     2567799


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      |+.|++++|++++     ++  +.. .++|++|++++|+|++..
T Consensus       214 L~~L~Ls~N~l~~-----ip--~~~-l~~L~~L~l~~N~l~~~~  249 (457)
T 3bz5_A          214 LTFLDCSSNKLTE-----ID--VTP-LTQLTYFDCSVNPLTELD  249 (457)
T ss_dssp             CSEEECCSSCCSC-----CC--CTT-CTTCSEEECCSSCCSCCC
T ss_pred             CCEEECcCCcccc-----cC--ccc-cCCCCEEEeeCCcCCCcC
Confidence            9999999999998     33  555 456999999999998753

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

Probab=99.59  E-value=8.2e-17  Score=166.31  Aligned_cols=229  Identities=17%  Similarity=0.134  Sum_probs=161.0

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++....++..+..+ +|++|++++|.+....       ...+++|++|++++|.+......          .
T Consensus       283 ~L~~L~l~~~~l~~l~~~~~~~-~L~~L~l~~n~~~~l~-------~~~l~~L~~L~l~~n~~~~~~~~----------~  344 (570)
T 2z63_A          283 NVSSFSLVSVTIERVKDFSYNF-GWQHLELVNCKFGQFP-------TLKLKSLKRLTFTSNKGGNAFSE----------V  344 (570)
T ss_dssp             TCSEEEEESCEECSCCBCCSCC-CCSEEEEESCBCSSCC-------BCBCSSCCEEEEESCBSCCBCCC----------C
T ss_pred             cccEEEecCccchhhhhhhccC-CccEEeeccCcccccC-------cccccccCEEeCcCCcccccccc----------c
Confidence            3455566666555555555555 7777777777655221       12467788888888765532211          1


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+++|++|++++|.+.....      ....+..+++|++|++++|.+......      ...+++|++|++++|.+++..
T Consensus       345 ~~~~L~~L~l~~n~l~~~~~------~~~~~~~~~~L~~L~l~~n~l~~~~~~------~~~l~~L~~L~l~~n~l~~~~  412 (570)
T 2z63_A          345 DLPSLEFLDLSRNGLSFKGC------CSQSDFGTTSLKYLDLSFNGVITMSSN------FLGLEQLEHLDFQHSNLKQMS  412 (570)
T ss_dssp             BCTTCCEEECCSSCCBEEEE------EEHHHHTCSCCCEEECCSCSEEEEEEE------EETCTTCCEEECTTSEEESCT
T ss_pred             cCCCCCEEeCcCCccCcccc------ccccccccCccCEEECCCCcccccccc------ccccCCCCEEEccCCcccccc
Confidence            26888999999888765211      134556778899999999987763322      245688999999998877532


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                      +          ...+.++++|++|++++|.++..    .+..+..+++|++|++++|.+++..    +|   ..+..+++
T Consensus       413 ~----------~~~~~~l~~L~~L~l~~n~l~~~----~~~~~~~l~~L~~L~l~~n~l~~~~----~p---~~~~~l~~  471 (570)
T 2z63_A          413 E----------FSVFLSLRNLIYLDISHTHTRVA----FNGIFNGLSSLEVLKMAGNSFQENF----LP---DIFTELRN  471 (570)
T ss_dssp             T----------SCTTTTCTTCCEEECTTSCCEEC----CTTTTTTCTTCCEEECTTCEEGGGE----EC---SCCTTCTT
T ss_pred             c----------hhhhhcCCCCCEEeCcCCccccc----chhhhhcCCcCcEEECcCCcCcccc----ch---hhhhcccC
Confidence            2          11233678999999999999873    5567889999999999999987311    33   56778899


Q ss_pred             ccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          415 LVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       415 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      |+.|++++|++++.    .+..+.. .++|++|++++|++++..+
T Consensus       472 L~~L~l~~n~l~~~----~~~~~~~-l~~L~~L~l~~n~l~~~~~  511 (570)
T 2z63_A          472 LTFLDLSQCQLEQL----SPTAFNS-LSSLQVLNMASNQLKSVPD  511 (570)
T ss_dssp             CCEEECTTSCCCEE----CTTTTTT-CTTCCEEECCSSCCSCCCT
T ss_pred             CCEEECCCCccccC----Chhhhhc-ccCCCEEeCCCCcCCCCCH
Confidence            99999999999984    3556666 4669999999999988654

>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=99.58  E-value=8.7e-16  Score=136.04  Aligned_cols=130  Identities=21%  Similarity=0.279  Sum_probs=77.2

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|.+..         + ..+..+++|++|++++|.+++..+..+     ..+++|++|++++|.+++..+
T Consensus        65 l~~L~~L~l~~n~~~~---------~-~~l~~l~~L~~L~l~~n~l~~~~~~~l-----~~l~~L~~L~Ls~n~i~~~~~  129 (197)
T 4ezg_A           65 AHNIKDLTINNIHATN---------Y-NPISGLSNLERLRIMGKDVTSDKIPNL-----SGLTSLTLLDISHSAHDDSIL  129 (197)
T ss_dssp             CTTCSEEEEESCCCSC---------C-GGGTTCTTCCEEEEECTTCBGGGSCCC-----TTCTTCCEEECCSSBCBGGGH
T ss_pred             CCCCCEEEccCCCCCc---------c-hhhhcCCCCCEEEeECCccCcccChhh-----cCCCCCCEEEecCCccCcHhH
Confidence            4556666666664433         1 234556677777777777665444433     335667777777777664322


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCC-CCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNN-LCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                              ..+.   .+++|++|++++|. +++     ++ .+..+++|++|++++|.|++      +    ..+..+++
T Consensus       130 --------~~l~---~l~~L~~L~L~~n~~i~~-----~~-~l~~l~~L~~L~l~~n~i~~------~----~~l~~l~~  182 (197)
T 4ezg_A          130 --------TKIN---TLPKVNSIDLSYNGAITD-----IM-PLKTLPELKSLNIQFDGVHD------Y----RGIEDFPK  182 (197)
T ss_dssp             --------HHHT---TCSSCCEEECCSCTBCCC-----CG-GGGGCSSCCEEECTTBCCCC------C----TTGGGCSS
T ss_pred             --------HHHh---hCCCCCEEEccCCCCccc-----cH-hhcCCCCCCEEECCCCCCcC------h----HHhccCCC
Confidence                    3344   44677777777776 665     33 46677777777777777776      3    23445577


Q ss_pred             ccEEEccCCCCCh
Q 012512          415 LVELYLENCELSG  427 (462)
Q Consensus       415 L~~L~L~~n~l~~  427 (462)
                      |+.|++++|+|++
T Consensus       183 L~~L~l~~N~i~~  195 (197)
T 4ezg_A          183 LNQLYAFSQTIGG  195 (197)
T ss_dssp             CCEEEECBC----
T ss_pred             CCEEEeeCcccCC
Confidence            7777777777654

>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=99.57  E-value=9e-17  Score=146.95  Aligned_cols=198  Identities=14%  Similarity=0.043  Sum_probs=131.9

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCC-CChhHHHHHHHHHhcccccCCCccEEecCC-CCCCCCCC
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK-LSPSFVEGICRSLCSKRKRIHKIENLSIDI-SSFIENCP  274 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~-l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~-~~~~~~~~  274 (462)
                      .++++|++++|.+.......    +..+++|++|++++|. ++......+        ..+.+|++|++++ |.+..   
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~----~~~l~~L~~L~l~~n~~l~~i~~~~f--------~~l~~L~~L~l~~~n~l~~---   95 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHA----FSNLPNISRIYVSIDVTLQQLESHSF--------YNLSKVTHIEIRNTRNLTY---   95 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTT----TTTCTTCCEEEEECCSSCCEECTTTE--------ESCTTCCEEEEEEETTCCE---
T ss_pred             CcccEEEEeCCcceEECHHH----ccCCCCCcEEeCCCCCCcceeCHhHc--------CCCcCCcEEECCCCCCeeE---
Confidence            36888888888765443221    3467888888888886 764332222        2267888888887 77766   


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCcc---EEEecCC-CCCCcccccCcccHHHhhhCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLS---ILDLSGN-SIGGWLSKYDRSGPLFSLGAGK  350 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~---~L~Ls~n-~l~~~~~~~~~~~l~~~l~~~~  350 (462)
                           .....+..+++|++|++++|.+.. .+.      +..+++|+   +|++++| .+++..+        .   .+.
T Consensus        96 -----i~~~~f~~l~~L~~L~l~~n~l~~-lp~------~~~l~~L~~L~~L~l~~N~~l~~i~~--------~---~~~  152 (239)
T 2xwt_C           96 -----IDPDALKELPLLKFLGIFNTGLKM-FPD------LTKVYSTDIFFILEITDNPYMTSIPV--------N---AFQ  152 (239)
T ss_dssp             -----ECTTSEECCTTCCEEEEEEECCCS-CCC------CTTCCBCCSEEEEEEESCTTCCEECT--------T---TTT
T ss_pred             -----cCHHHhCCCCCCCEEeCCCCCCcc-ccc------cccccccccccEEECCCCcchhhcCc--------c---ccc
Confidence                 223456677888888888888876 222      23456676   8889888 7775322        2   233


Q ss_pred             CCCCcc-EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCC-CCccEEEccCCCCCh
Q 012512          351 SLQSLR-LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT-IEDDGIRSLIPYFVQASERC-NPLVELYLENCELSG  427 (462)
Q Consensus       351 ~l~~L~-~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~-~~L~~L~L~~n~l~~  427 (462)
                      ++++|+ +|++++|+++.     ++......++|++|++++|+ ++.      ++.  ..+..+ ++|+.|++++|+++.
T Consensus       153 ~l~~L~~~L~l~~n~l~~-----i~~~~~~~~~L~~L~L~~n~~l~~------i~~--~~~~~l~~~L~~L~l~~N~l~~  219 (239)
T 2xwt_C          153 GLCNETLTLKLYNNGFTS-----VQGYAFNGTKLDAVYLNKNKYLTV------IDK--DAFGGVYSGPSLLDVSQTSVTA  219 (239)
T ss_dssp             TTBSSEEEEECCSCCCCE-----ECTTTTTTCEEEEEECTTCTTCCE------ECT--TTTTTCSBCCSEEECTTCCCCC
T ss_pred             chhcceeEEEcCCCCCcc-----cCHhhcCCCCCCEEEcCCCCCccc------CCH--HHhhccccCCcEEECCCCcccc
Confidence            567888 88998888885     44433333788889998885 775      432  456667 788899999988876


Q ss_pred             hhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          428 RGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       428 ~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      .     +..  . -++|+.|+++++.
T Consensus       220 l-----~~~--~-~~~L~~L~l~~~~  237 (239)
T 2xwt_C          220 L-----PSK--G-LEHLKELIARNTW  237 (239)
T ss_dssp             C-----CCT--T-CTTCSEEECTTC-
T ss_pred             C-----Chh--H-hccCceeeccCcc
Confidence            2     222  2 2348888887763

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

Probab=99.57  E-value=4.6e-16  Score=159.09  Aligned_cols=165  Identities=20%  Similarity=0.194  Sum_probs=118.0

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      ++|++|+|++|.+....        ..+++|++|++++|.++.. +. +          ..+|++|++++|.++..    
T Consensus        80 ~~L~~L~Ls~N~l~~ip--------~~l~~L~~L~Ls~N~l~~i-p~-l----------~~~L~~L~Ls~N~l~~l----  135 (571)
T 3cvr_A           80 PQITVLEITQNALISLP--------ELPASLEYLDACDNRLSTL-PE-L----------PASLKHLDVDNNQLTML----  135 (571)
T ss_dssp             TTCSEEECCSSCCSCCC--------CCCTTCCEEECCSSCCSCC-CC-C----------CTTCCEEECCSSCCSCC----
T ss_pred             CCCCEEECcCCCCcccc--------cccCCCCEEEccCCCCCCc-ch-h----------hcCCCEEECCCCcCCCC----
Confidence            67899999998876322        2367899999999988752 11 1          23789999999988762    


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                           +.   .+++|++|++++|.++. .+.        .+++|++|+|++|.+++ +|        . +.     ++|+
T Consensus       136 -----p~---~l~~L~~L~Ls~N~l~~-lp~--------~l~~L~~L~Ls~N~L~~-lp--------~-l~-----~~L~  183 (571)
T 3cvr_A          136 -----PE---LPALLEYINADNNQLTM-LPE--------LPTSLEVLSVRNNQLTF-LP--------E-LP-----ESLE  183 (571)
T ss_dssp             -----CC---CCTTCCEEECCSSCCSC-CCC--------CCTTCCEEECCSSCCSC-CC--------C-CC-----TTCC
T ss_pred             -----CC---cCccccEEeCCCCccCc-CCC--------cCCCcCEEECCCCCCCC-cc--------h-hh-----CCCC
Confidence                 22   46789999999998876 222        25789999999999886 22        2 22     6889


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCC-------CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNL-------EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG  429 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L-------~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~  429 (462)
                      .|+|++|+|+.     ++. +..  +|       +.|+|++|.|+.      +|   ..+..+++|+.|+|++|+++...
T Consensus       184 ~L~Ls~N~L~~-----lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~------lp---~~l~~l~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          184 ALDVSTNLLES-----LPA-VPV--RNHHSEETEIFFRCRENRITH------IP---ENILSLDPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             EEECCSSCCSS-----CCC-CC----------CCEEEECCSSCCCC------CC---GGGGGSCTTEEEECCSSSCCHHH
T ss_pred             EEECcCCCCCc-----hhh-HHH--hhhcccccceEEecCCCccee------cC---HHHhcCCCCCEEEeeCCcCCCcC
Confidence            99999998885     444 332  55       899999999886      55   44555789999999999998864


Q ss_pred             HHHHH
Q 012512          430 VSQLL  434 (462)
Q Consensus       430 ~~~l~  434 (462)
                      ...+.
T Consensus       247 p~~l~  251 (571)
T 3cvr_A          247 RESLS  251 (571)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.57  E-value=2.2e-15  Score=139.75  Aligned_cols=81  Identities=25%  Similarity=0.304  Sum_probs=37.8

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHH
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQ  432 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~  432 (462)
                      .+|+.|+|++|++++     + +.+..+++|+.|++++|.|++      ++    .+..+++|+.|++++|++++.    
T Consensus       106 ~~L~~L~L~~N~l~~-----~-~~l~~l~~L~~L~Ls~N~i~~------~~----~l~~l~~L~~L~L~~N~i~~~----  165 (263)
T 1xeu_A          106 ACLSRLFLDNNELRD-----T-DSLIHLKNLEILSIRNNKLKS------IV----MLGFLSKLEVLDLHGNEITNT----  165 (263)
T ss_dssp             SSCCEEECCSSCCSB-----S-GGGTTCTTCCEEECTTSCCCB------CG----GGGGCTTCCEEECTTSCCCBC----
T ss_pred             CcccEEEccCCccCC-----C-hhhcCcccccEEECCCCcCCC------Ch----HHccCCCCCEEECCCCcCcch----
Confidence            445555555555554     1 234455555555555555554      21    233345555555555555542    


Q ss_pred             HHHHHhcCCCCCcEEEccCCCCCC
Q 012512          433 LLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       433 l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                        ..+.. .++|+.|++++|++++
T Consensus       166 --~~l~~-l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          166 --GGLTR-LKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             --TTSTT-CCCCCEEEEEEEEEEC
T ss_pred             --HHhcc-CCCCCEEeCCCCcccC
Confidence              23333 2335555555555443

>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=99.56  E-value=1.4e-16  Score=145.64  Aligned_cols=180  Identities=14%  Similarity=0.176  Sum_probs=135.8

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCC-CCCCCCchhHHHHHHhhcCCCCCCEEecCC-CCCC
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISS-FIENCPSSVVVELVSFLSSGRSLCSLKLRH-CHLD  302 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~-~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~-n~l~  302 (462)
                      ++|++|++++|.++......+..        +++|++|++++|. +..        .....+..+++|++|++++ |.+.
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~~~~--------l~~L~~L~l~~n~~l~~--------i~~~~f~~l~~L~~L~l~~~n~l~   94 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHAFSN--------LPNISRIYVSIDVTLQQ--------LESHSFYNLSKVTHIEIRNTRNLT   94 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTTTTT--------CTTCCEEEEECCSSCCE--------ECTTTEESCTTCCEEEEEEETTCC
T ss_pred             CcccEEEEeCCcceEECHHHccC--------CCCCcEEeCCCCCCcce--------eCHhHcCCCcCCcEEECCCCCCee
Confidence            48999999999998654433322        7899999999997 765        2233677899999999999 9998


Q ss_pred             hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc---EEEccCC-CCCcchHHHHH-HHh
Q 012512          303 RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR---LLNLRGN-NLCKADARDLG-SAL  377 (462)
Q Consensus       303 ~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~---~L~L~~n-~l~~~~~~~l~-~~l  377 (462)
                      ......     +..+++|++|++++|.+++ .|        . +.   .+.+|+   +|++++| +++.     ++ ..+
T Consensus        95 ~i~~~~-----f~~l~~L~~L~l~~n~l~~-lp--------~-~~---~l~~L~~L~~L~l~~N~~l~~-----i~~~~~  151 (239)
T 2xwt_C           95 YIDPDA-----LKELPLLKFLGIFNTGLKM-FP--------D-LT---KVYSTDIFFILEITDNPYMTS-----IPVNAF  151 (239)
T ss_dssp             EECTTS-----EECCTTCCEEEEEEECCCS-CC--------C-CT---TCCBCCSEEEEEEESCTTCCE-----ECTTTT
T ss_pred             EcCHHH-----hCCCCCCCEEeCCCCCCcc-cc--------c-cc---cccccccccEEECCCCcchhh-----cCcccc
Confidence            744332     3567899999999999985 22        2 33   445555   9999999 9986     33 358


Q ss_pred             hcCCCCC-EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC-CChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          378 VHIPNLE-ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE-LSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       378 ~~~~~L~-~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ..+++|+ +|++++|.++.      +|.  ..+.. ++|+.|++++|+ ++...    ...+..+.++|++|++++|+|+
T Consensus       152 ~~l~~L~~~L~l~~n~l~~------i~~--~~~~~-~~L~~L~L~~n~~l~~i~----~~~~~~l~~~L~~L~l~~N~l~  218 (239)
T 2xwt_C          152 QGLCNETLTLKLYNNGFTS------VQG--YAFNG-TKLDAVYLNKNKYLTVID----KDAFGGVYSGPSLLDVSQTSVT  218 (239)
T ss_dssp             TTTBSSEEEEECCSCCCCE------ECT--TTTTT-CEEEEEECTTCTTCCEEC----TTTTTTCSBCCSEEECTTCCCC
T ss_pred             cchhcceeEEEcCCCCCcc------cCH--hhcCC-CCCCEEEcCCCCCcccCC----HHHhhccccCCcEEECCCCccc
Confidence            8899999 99999999986      542  33444 799999999995 88731    2345552156999999999997


Q ss_pred             C
Q 012512          456 R  456 (462)
Q Consensus       456 ~  456 (462)
                      +
T Consensus       219 ~  219 (239)
T 2xwt_C          219 A  219 (239)
T ss_dssp             C
T ss_pred             c
Confidence            5

>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=99.55  E-value=1.1e-15  Score=158.03  Aligned_cols=197  Identities=18%  Similarity=0.079  Sum_probs=133.4

Q ss_pred             cccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          174 HYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      ..++.+.+.++.+..++.   .+++|++|+|++|.+....        ..+++|++|++++|.++....           
T Consensus        61 ~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp--------~~l~~L~~L~Ls~N~l~~l~~-----------  118 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSLP--------VLPPGLLELSIFSNPLTHLPA-----------  118 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC---CCTTCCEEEECSCCCSCCC--------CCCTTCCEEEECSCCCCCCCC-----------
T ss_pred             CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCCcCCcCC--------CCCCCCCEEECcCCcCCCCCC-----------
Confidence            466778888877765544   5688999999999876422        157899999999998874211           


Q ss_pred             ccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCc
Q 012512          254 KRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW  333 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~  333 (462)
                       ...+|++|++++|.+.....            ..++|++|++++|.++.. +        ....+|+.|++++|.+++.
T Consensus       119 -~l~~L~~L~L~~N~l~~lp~------------~l~~L~~L~Ls~N~l~~l-~--------~~~~~L~~L~L~~N~l~~l  176 (622)
T 3g06_A          119 -LPSGLCKLWIFGNQLTSLPV------------LPPGLQELSVSDNQLASL-P--------ALPSELCKLWAYNNQLTSL  176 (622)
T ss_dssp             -CCTTCCEEECCSSCCSCCCC------------CCTTCCEEECCSSCCSCC-C--------CCCTTCCEEECCSSCCSCC
T ss_pred             -CCCCcCEEECCCCCCCcCCC------------CCCCCCEEECcCCcCCCc-C--------CccCCCCEEECCCCCCCCC
Confidence             16789999999998876321            248999999999998762 1        1247899999999998851


Q ss_pred             ccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHH---hh--------------cCCCCCEEeCCCCCCCch
Q 012512          334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSA---LV--------------HIPNLEILDISDNTIEDD  396 (462)
Q Consensus       334 ~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~---l~--------------~~~~L~~L~Ls~N~l~~~  396 (462)
                               +      ..+++|+.|++++|+|+.     ++..   +.              ..++|+.|++++|.|+. 
T Consensus       177 ---------~------~~~~~L~~L~Ls~N~l~~-----l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~L~~-  235 (622)
T 3g06_A          177 ---------P------MLPSGLQELSVSDNQLAS-----LPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRLTS-  235 (622)
T ss_dssp             ---------C------CCCTTCCEEECCSSCCSC-----CCCCCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSC-
T ss_pred             ---------c------ccCCCCcEEECCCCCCCC-----CCCccchhhEEECcCCcccccCCCCCCCCEEEccCCccCc-
Confidence                     1      123566677777776664     2111   11              12566677777776664 


Q ss_pred             hHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          397 GIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       397 g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                           +|      ..+++|+.|++++|+|+.     ++.   . .++|++|++++|+|+
T Consensus       236 -----lp------~~l~~L~~L~Ls~N~L~~-----lp~---~-~~~L~~L~Ls~N~L~  274 (622)
T 3g06_A          236 -----LP------VLPSELKELMVSGNRLTS-----LPM---L-PSGLLSLSVYRNQLT  274 (622)
T ss_dssp             -----CC------CCCTTCCEEECCSSCCSC-----CCC---C-CTTCCEEECCSSCCC
T ss_pred             -----CC------CCCCcCcEEECCCCCCCc-----CCc---c-cccCcEEeCCCCCCC
Confidence                 32      334677777777777775     332   2 345888888888777

>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=99.55  E-value=3.9e-15  Score=153.82  Aligned_cols=172  Identities=22%  Similarity=0.177  Sum_probs=117.3

Q ss_pred             hcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCC
Q 012512          194 LRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENC  273 (462)
Q Consensus       194 ~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~  273 (462)
                      ..+.+|+.|++++|.+.... .     +..+++|+.|+|++|.+....+  +    .    .+.+|+.|+|++|.+... 
T Consensus        40 ~~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           40 NELNSIDQIIANNSDIKSVQ-G-----IQYLPNVTKLFLNGNKLTDIKP--L----T----NLKNLGWLFLDENKIKDL-  102 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCCCT-T-----GGGCTTCCEEECTTSCCCCCGG--G----G----GCTTCCEEECCSSCCCCC-
T ss_pred             hcCCCCCEEECcCCCCCCCh-H-----HccCCCCCEEEeeCCCCCCChh--h----c----cCCCCCEEECcCCCCCCC-
Confidence            35567888888887755432 1     3457888888888887775433  1    1    267788888888877651 


Q ss_pred             CchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCC
Q 012512          274 PSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQ  353 (462)
Q Consensus       274 ~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~  353 (462)
                               ..+..+++|++|+|++|.+.+.  ..     +..+++|+.|+|++|.+++.          ..+.   .++
T Consensus       103 ---------~~l~~l~~L~~L~Ls~N~l~~l--~~-----l~~l~~L~~L~Ls~N~l~~l----------~~l~---~l~  153 (605)
T 1m9s_A          103 ---------SSLKDLKKLKSLSLEHNGISDI--NG-----LVHLPQLESLYLGNNKITDI----------TVLS---RLT  153 (605)
T ss_dssp             ---------TTSTTCTTCCEEECTTSCCCCC--GG-----GGGCTTCSEEECCSSCCCCC----------GGGG---SCT
T ss_pred             ---------hhhccCCCCCEEEecCCCCCCC--cc-----ccCCCccCEEECCCCccCCc----------hhhc---ccC
Confidence                     1456677888888888887762  11     24467788888888887751          2233   557


Q ss_pred             CccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          354 SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       354 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      +|+.|+|++|.|++     +++ +..+++|+.|+|++|.|++      ++    .+..+++|+.|+|++|+++.
T Consensus       154 ~L~~L~Ls~N~l~~-----~~~-l~~l~~L~~L~Ls~N~i~~------l~----~l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          154 KLDTLSLEDNQISD-----IVP-LAGLTKLQNLYLSKNHISD------LR----ALAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             TCSEEECCSSCCCC-----CGG-GTTCTTCCEEECCSSCCCB------CG----GGTTCTTCSEEECCSEEEEC
T ss_pred             CCCEEECcCCcCCC-----chh-hccCCCCCEEECcCCCCCC------Ch----HHccCCCCCEEEccCCcCcC
Confidence            78888888888876     333 7777888888888888776      32    35666788888888887665

>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=99.55  E-value=4.1e-15  Score=153.60  Aligned_cols=151  Identities=22%  Similarity=0.244  Sum_probs=80.0

Q ss_pred             hhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCC
Q 012512          193 LLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIEN  272 (462)
Q Consensus       193 l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~  272 (462)
                      +..+++|+.|+|++|.+.....      +..+++|+.|+|++|.+....  .        ...+.+|+.|+|++|.+...
T Consensus        61 l~~l~~L~~L~Ls~N~l~~~~~------l~~l~~L~~L~Ls~N~l~~l~--~--------l~~l~~L~~L~Ls~N~l~~l  124 (605)
T 1m9s_A           61 IQYLPNVTKLFLNGNKLTDIKP------LTNLKNLGWLFLDENKIKDLS--S--------LKDLKKLKSLSLEHNGISDI  124 (605)
T ss_dssp             GGGCTTCCEEECTTSCCCCCGG------GGGCTTCCEEECCSSCCCCCT--T--------STTCTTCCEEECTTSCCCCC
T ss_pred             HccCCCCCEEEeeCCCCCCChh------hccCCCCCEEECcCCCCCCCh--h--------hccCCCCCEEEecCCCCCCC
Confidence            4455666666666665443221      234566666666666555311  1        11255666666666665541


Q ss_pred             CCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCC
Q 012512          273 CPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL  352 (462)
Q Consensus       273 ~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l  352 (462)
                                ..+..+++|+.|+|++|.+.+.  ..     +..+++|+.|+|++|.+++..         . +.   .+
T Consensus       125 ----------~~l~~l~~L~~L~Ls~N~l~~l--~~-----l~~l~~L~~L~Ls~N~l~~~~---------~-l~---~l  174 (605)
T 1m9s_A          125 ----------NGLVHLPQLESLYLGNNKITDI--TV-----LSRLTKLDTLSLEDNQISDIV---------P-LA---GL  174 (605)
T ss_dssp             ----------GGGGGCTTCSEEECCSSCCCCC--GG-----GGSCTTCSEEECCSSCCCCCG---------G-GT---TC
T ss_pred             ----------ccccCCCccCEEECCCCccCCc--hh-----hcccCCCCEEECcCCcCCCch---------h-hc---cC
Confidence                      2245556666666666666552  11     234556666666666665411         1 22   44


Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      ++|+.|+|++|+|++     + +.+..+++|+.|+|++|.+.+
T Consensus       175 ~~L~~L~Ls~N~i~~-----l-~~l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          175 TKLQNLYLSKNHISD-----L-RALAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             TTCCEEECCSSCCCB-----C-GGGTTCTTCSEEECCSEEEEC
T ss_pred             CCCCEEECcCCCCCC-----C-hHHccCCCCCEEEccCCcCcC
Confidence            566666666666664     2 245556666666666666544

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=99.54  E-value=2.9e-14  Score=137.72  Aligned_cols=198  Identities=17%  Similarity=0.170  Sum_probs=138.1

Q ss_pred             cCCCccEEEccCCCCChhHH-----HHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecC
Q 012512          223 NSETLASLEFLHCKLSPSFV-----EGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLR  297 (462)
Q Consensus       223 ~~~~L~~L~L~~~~l~~~~~-----~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls  297 (462)
                      .+++|+.|.+..........     ..+...+..    +++|+.|+++++.-..         +.. + .+++|++|+|.
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~----~P~L~~L~L~g~~~l~---------l~~-~-~~~~L~~L~L~  201 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDA----MPLLNNLKIKGTNNLS---------IGK-K-PRPNLKSLEII  201 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHT----CTTCCEEEEECCBTCB---------CCS-C-BCTTCSEEEEE
T ss_pred             hcchhhheeecCcchhhcccccccccCHHHHHhc----CCCCcEEEEeCCCCce---------ecc-c-cCCCCcEEEEe
Confidence            46788888886543211000     011112222    6889999998873111         111 2 26899999999


Q ss_pred             CCCCChhhHHHHHHHHhhCCCCccEEEecCC--CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH
Q 012512          298 HCHLDRDFGRMVFSSLLEASSSLSILDLSGN--SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS  375 (462)
Q Consensus       298 ~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n--~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~  375 (462)
                      .|.++..++..++.   ..+++|++|+|+.+  ...+   ..+.+.+...+.. ..+++|+.|+|++|.+++.++..+..
T Consensus       202 ~~~l~~~~l~~l~~---~~lp~L~~L~L~~~~~~~~~---~~~~~~l~~~l~~-~~~p~Lr~L~L~~~~i~~~~~~~la~  274 (362)
T 2ra8_A          202 SGGLPDSVVEDILG---SDLPNLEKLVLYVGVEDYGF---DGDMNVFRPLFSK-DRFPNLKWLGIVDAEEQNVVVEMFLE  274 (362)
T ss_dssp             CSBCCHHHHHHHHH---SBCTTCCEEEEECBCGGGTC---CSCGGGTGGGSCT-TTCTTCCEEEEESCTTHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHH---ccCCCCcEEEEecccccccc---chhHHHHHHHHhc-CCCCCcCEEeCCCCCCchHHHHHHHh
Confidence            99999988887764   34789999999742  2222   1222223333332 24689999999999999877766665


Q ss_pred             HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          376 ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       376 ~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      + ..+++|++|+|+.|.|++.|+.++.    ..+.++++|+.|++++|.|++.++..+.+++      ...+++++|+
T Consensus       275 a-~~~~~L~~LdLs~n~L~d~G~~~L~----~~L~~l~~L~~L~L~~n~i~d~~~~~l~~al------g~~~~~~~~~  341 (362)
T 2ra8_A          275 S-DILPQLETMDISAGVLTDEGARLLL----DHVDKIKHLKFINMKYNYLSDEMKKELQKSL------PMKIDVSDSQ  341 (362)
T ss_dssp             C-SSGGGCSEEECCSSCCBHHHHHHHH----TTHHHHTTCSEEECCSBBCCHHHHHHHHHHC------CSEEECCSBC
T ss_pred             C-ccCCCCCEEECCCCCCChHHHHHHH----hhcccCCcceEEECCCCcCCHHHHHHHHHHc------CCEEEecCCc
Confidence            4 4578999999999999999988886    3445668999999999999999988887766      3458998887

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.54  E-value=2.1e-15  Score=134.75  Aligned_cols=156  Identities=19%  Similarity=0.168  Sum_probs=93.1

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .+|++|++++|.+..        .....+..+++|++|++++|.+.......     +..+++|++|++++|.+++..+ 
T Consensus        28 ~~l~~L~l~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~Ls~n~l~~~~~-   93 (208)
T 2o6s_A           28 AQTTYLDLETNSLKS--------LPNGVFDELTSLTQLYLGGNKLQSLPNGV-----FNKLTSLTYLNLSTNQLQSLPN-   93 (208)
T ss_dssp             TTCSEEECCSSCCCC--------CCTTTTTTCTTCSEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT-
T ss_pred             CCCcEEEcCCCccCc--------CChhhhcccccCcEEECCCCccCccChhh-----cCCCCCcCEEECCCCcCCccCH-
Confidence            345555555555544        12223455667777777777766432221     2345677777777777764222 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                             ..+   .++++|+.|++++|+++..    .+..+..+++|++|++++|.+++      ++.  ..+..+++|+
T Consensus        94 -------~~~---~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~l~~N~l~~------~~~--~~~~~l~~L~  151 (208)
T 2o6s_A           94 -------GVF---DKLTQLKELALNTNQLQSL----PDGVFDKLTQLKDLRLYQNQLKS------VPD--GVFDRLTSLQ  151 (208)
T ss_dssp             -------TTT---TTCTTCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCC
T ss_pred             -------hHh---cCccCCCEEEcCCCcCccc----CHhHhccCCcCCEEECCCCccce------eCH--HHhccCCCcc
Confidence                   112   2456777777777777751    22235667777777777777765      321  3355667777


Q ss_pred             EEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcccc
Q 012512          417 ELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCAN  460 (462)
Q Consensus       417 ~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~~  460 (462)
                      .|++++|.+...            .+.|++|+++.|++++.+|.
T Consensus       152 ~L~l~~N~~~~~------------~~~l~~L~~~~n~~~g~ip~  183 (208)
T 2o6s_A          152 YIWLHDNPWDCT------------CPGIRYLSEWINKHSGVVRN  183 (208)
T ss_dssp             EEECCSCCBCCC------------TTTTHHHHHHHHHCTTTBBC
T ss_pred             EEEecCCCeecC------------CCCHHHHHHHHHhCCceeec
Confidence            777777776642            23477777777777776664

>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=99.52  E-value=1e-14  Score=145.98  Aligned_cols=119  Identities=13%  Similarity=0.045  Sum_probs=60.7

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+++.++....++ .+.++++|++|++++|.+....        ....+|++|++++|.++...  .+        .
T Consensus       132 ~L~~L~L~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~lp--------~~~~~L~~L~L~~n~l~~l~--~~--------~  192 (454)
T 1jl5_A          132 LLEYLGVSNNQLEKLP-ELQNSSFLKIIDVDNNSLKKLP--------DLPPSLEFIAAGNNQLEELP--EL--------Q  192 (454)
T ss_dssp             TCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSCCC--------CCCTTCCEEECCSSCCSSCC--CC--------T
T ss_pred             CCCEEECcCCCCCCCc-ccCCCCCCCEEECCCCcCcccC--------CCcccccEEECcCCcCCcCc--cc--------c
Confidence            4455666666555444 4556666777777666654311        11346666666666665311  11        1


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                      .+++|++|++++|.+.....            ..++|++|++++|.+.. .+.      ...+++|++|++++|.++
T Consensus       193 ~l~~L~~L~l~~N~l~~l~~------------~~~~L~~L~l~~n~l~~-lp~------~~~l~~L~~L~l~~N~l~  250 (454)
T 1jl5_A          193 NLPFLTAIYADNNSLKKLPD------------LPLSLESIVAGNNILEE-LPE------LQNLPFLTTIYADNNLLK  250 (454)
T ss_dssp             TCTTCCEEECCSSCCSSCCC------------CCTTCCEEECCSSCCSS-CCC------CTTCTTCCEEECCSSCCS
T ss_pred             CCCCCCEEECCCCcCCcCCC------------CcCcccEEECcCCcCCc-ccc------cCCCCCCCEEECCCCcCC
Confidence            25566666666666544111            01355555555555542 221      123455566666655554

>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=99.52  E-value=2e-14  Score=143.88  Aligned_cols=32  Identities=13%  Similarity=-0.014  Sum_probs=14.2

Q ss_pred             ceeeeccccchHhhhhhhcCCCcCEEEeccCCC
Q 012512          177 RCLRLQNALCVEETCQLLRESKLQSLVLRWIRF  209 (462)
Q Consensus       177 ~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~  209 (462)
                      +.+++.++....++ .+.++++|++|++++|.+
T Consensus       176 ~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l  207 (454)
T 1jl5_A          176 EFIAAGNNQLEELP-ELQNLPFLTAIYADNNSL  207 (454)
T ss_dssp             CEEECCSSCCSSCC-CCTTCTTCCEEECCSSCC
T ss_pred             cEEECcCCcCCcCc-cccCCCCCCEEECCCCcC
Confidence            44444444433322 344445555555555443

>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=99.50  E-value=4.8e-14  Score=122.57  Aligned_cols=133  Identities=14%  Similarity=0.215  Sum_probs=117.6

Q ss_pred             HHhhCCCCccEEEecCC-CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCC
Q 012512          312 SLLEASSSLSILDLSGN-SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISD  390 (462)
Q Consensus       312 ~l~~~~~~L~~L~Ls~n-~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~  390 (462)
                      .+..+.+.|++|+|++| .|.    +.+...+..++..   -++|+.|+|++|+|+|+|+++|+.++..+++|++|+|+.
T Consensus        35 ~ll~~n~~L~~L~L~~nn~ig----d~ga~~la~aL~~---N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~  107 (197)
T 1pgv_A           35 RLREDDTDLKEVNINNMKRVS----KERIRSLIEAACN---SKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVES  107 (197)
T ss_dssp             HHHTTCSSCCEEECTTCCSSC----HHHHHHHHHHHTT---CSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCS
T ss_pred             HHHhcCCCccEEECCCCCCCC----HHHHHHHHHHHhh---CCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCC
Confidence            33455689999999996 887    4566778888884   379999999999999999999999999999999999999


Q ss_pred             CCCCchhHHhHHHHHHhhcCCCCCccEEEccCC---CCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          391 NTIEDDGIRSLIPYFVQASERCNPLVELYLENC---ELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       391 N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n---~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      |.|+++|+.+++    ..+..++.|++|+|++|   .+++.|..++++++.. +++|+.|+++.|.+++
T Consensus       108 N~Ig~~Ga~ala----~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~-N~tL~~L~l~~~~~g~  171 (197)
T 1pgv_A          108 NFLTPELLARLL----RSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEE-NESLLRVGISFASMEA  171 (197)
T ss_dssp             SBCCHHHHHHHH----HHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHH-CSSCCEEECCCCCHHH
T ss_pred             CcCCHHHHHHHH----HHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHh-CCCcCeEeccCCCccH
Confidence            999999999998    56777889999999875   7899999999999999 8889999999987654

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

Probab=99.47  E-value=2.6e-14  Score=146.19  Aligned_cols=141  Identities=22%  Similarity=0.266  Sum_probs=67.8

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +.+|++|++++|.++.         ++. +..  +|++|++++|.++. .+.        .+++|+.|++++|.+++ +|
T Consensus        99 l~~L~~L~Ls~N~l~~---------ip~-l~~--~L~~L~Ls~N~l~~-lp~--------~l~~L~~L~Ls~N~l~~-lp  156 (571)
T 3cvr_A           99 PASLEYLDACDNRLST---------LPE-LPA--SLKHLDVDNNQLTM-LPE--------LPALLEYINADNNQLTM-LP  156 (571)
T ss_dssp             CTTCCEEECCSSCCSC---------CCC-CCT--TCCEEECCSSCCSC-CCC--------CCTTCCEEECCSSCCSC-CC
T ss_pred             cCCCCEEEccCCCCCC---------cch-hhc--CCCEEECCCCcCCC-CCC--------cCccccEEeCCCCccCc-CC
Confidence            3555566666555544         111 111  55566666555554 111        23555666666655553 11


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              .      .+++|++|+|++|+|+.     ++. +.  ++|+.|++++|.|+.      +|   . +.  .+|
T Consensus       157 --------~------~l~~L~~L~Ls~N~L~~-----lp~-l~--~~L~~L~Ls~N~L~~------lp---~-~~--~~L  202 (571)
T 3cvr_A          157 --------E------LPTSLEVLSVRNNQLTF-----LPE-LP--ESLEALDVSTNLLES------LP---A-VP--VRN  202 (571)
T ss_dssp             --------C------CCTTCCEEECCSSCCSC-----CCC-CC--TTCCEEECCSSCCSS------CC---C-CC-----
T ss_pred             --------C------cCCCcCEEECCCCCCCC-----cch-hh--CCCCEEECcCCCCCc------hh---h-HH--Hhh
Confidence                    1      22455556666665554     333 32  555666666665553      32   1 11  133


Q ss_pred             -------cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          416 -------VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       416 -------~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                             +.|+|++|+|+.     ++..+.. .++|++|+|++|+|++.+
T Consensus       203 ~~~~~~L~~L~Ls~N~l~~-----lp~~l~~-l~~L~~L~L~~N~l~~~~  246 (571)
T 3cvr_A          203 HHSEETEIFFRCRENRITH-----IPENILS-LDPTCTIILEDNPLSSRI  246 (571)
T ss_dssp             -----CCEEEECCSSCCCC-----CCGGGGG-SCTTEEEECCSSSCCHHH
T ss_pred             hcccccceEEecCCCccee-----cCHHHhc-CCCCCEEEeeCCcCCCcC
Confidence                   555666665554     4444444 234566666666555443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.47  E-value=1.2e-14  Score=141.23  Aligned_cols=177  Identities=20%  Similarity=0.171  Sum_probs=105.7

Q ss_pred             CEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHH
Q 012512          200 QSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVV  279 (462)
Q Consensus       200 ~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  279 (462)
                      +.++++++.+......       -.+.++.|+|++|.++......+.       ..+.+|++|++++|.+..        
T Consensus        21 ~~l~c~~~~l~~iP~~-------~~~~l~~L~Ls~N~l~~l~~~~~~-------~~l~~L~~L~L~~N~i~~--------   78 (361)
T 2xot_A           21 NILSCSKQQLPNVPQS-------LPSYTALLDLSHNNLSRLRAEWTP-------TRLTNLHSLLLSHNHLNF--------   78 (361)
T ss_dssp             TEEECCSSCCSSCCSS-------CCTTCSEEECCSSCCCEECTTSSS-------SCCTTCCEEECCSSCCCE--------
T ss_pred             CEEEeCCCCcCccCcc-------CCCCCCEEECCCCCCCccChhhhh-------hcccccCEEECCCCcCCc--------
Confidence            5777777766543321       134678888888887753322211       026777788888777766        


Q ss_pred             HHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEE
Q 012512          280 ELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLN  359 (462)
Q Consensus       280 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~  359 (462)
                      .....+..+++|++|+|++|.|.......     +..+++|++|+|++|.+++..+        ..+   .++++|+.|+
T Consensus        79 i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-----~~~l~~L~~L~L~~N~i~~~~~--------~~~---~~l~~L~~L~  142 (361)
T 2xot_A           79 ISSEAFVPVPNLRYLDLSSNHLHTLDEFL-----FSDLQALEVLLLYNNHIVVVDR--------NAF---EDMAQLQKLY  142 (361)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCCCEECTTT-----TTTCTTCCEEECCSSCCCEECT--------TTT---TTCTTCCEEE
T ss_pred             cChhhccCCCCCCEEECCCCcCCcCCHHH-----hCCCcCCCEEECCCCcccEECH--------HHh---CCcccCCEEE
Confidence            22334566777777777777776533222     2445777777777777775333        222   3557777777


Q ss_pred             ccCCCCCcchHHHHHHHh----hcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC--ccEEEccCCCCCh
Q 012512          360 LRGNNLCKADARDLGSAL----VHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP--LVELYLENCELSG  427 (462)
Q Consensus       360 L~~n~l~~~~~~~l~~~l----~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~--L~~L~L~~n~l~~  427 (462)
                      |++|+|+.     ++..+    ..+++|+.|+|++|.|+.-..        ..+..++.  ++.|+|++|++..
T Consensus       143 L~~N~l~~-----l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~--------~~~~~l~~~~l~~l~l~~N~~~C  203 (361)
T 2xot_A          143 LSQNQISR-----FPVELIKDGNKLPKLMLLDLSSNKLKKLPL--------TDLQKLPAWVKNGLYLHNNPLEC  203 (361)
T ss_dssp             CCSSCCCS-----CCGGGTC----CTTCCEEECCSSCCCCCCH--------HHHHHSCHHHHTTEECCSSCEEC
T ss_pred             CCCCcCCe-----eCHHHhcCcccCCcCCEEECCCCCCCccCH--------HHhhhccHhhcceEEecCCCccC
Confidence            77777775     33322    456777777777777765221        12222233  3667777777664

>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=99.46  E-value=2.3e-14  Score=129.09  Aligned_cols=155  Identities=16%  Similarity=0.175  Sum_probs=96.2

Q ss_pred             ccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhH
Q 012512          227 LASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFG  306 (462)
Q Consensus       227 L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~  306 (462)
                      -+++++++|.++.         +....  ...+++|++++|.+.....       ...+..+++|++|+|++|.++....
T Consensus        13 ~~~l~~s~n~l~~---------iP~~~--~~~~~~L~L~~N~l~~~~~-------~~~~~~l~~L~~L~L~~N~i~~i~~   74 (220)
T 2v70_A           13 GTTVDCSNQKLNK---------IPEHI--PQYTAELRLNNNEFTVLEA-------TGIFKKLPQLRKINFSNNKITDIEE   74 (220)
T ss_dssp             TTEEECCSSCCSS---------CCSCC--CTTCSEEECCSSCCCEECC-------CCCGGGCTTCCEEECCSSCCCEECT
T ss_pred             CCEeEeCCCCccc---------CccCC--CCCCCEEEcCCCcCCccCc-------hhhhccCCCCCEEECCCCcCCEECH
Confidence            3577777777762         11111  3456777777777765210       1235566777777777777766433


Q ss_pred             HHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEE
Q 012512          307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEIL  386 (462)
Q Consensus       307 ~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  386 (462)
                      ..     +..+++|++|+|++|.+++..+        ..+.   ++++|++|+|++|+|+.    ..+..+..+++|+.|
T Consensus        75 ~~-----~~~l~~L~~L~Ls~N~l~~~~~--------~~~~---~l~~L~~L~Ls~N~l~~----~~~~~~~~l~~L~~L  134 (220)
T 2v70_A           75 GA-----FEGASGVNEILLTSNRLENVQH--------KMFK---GLESLKTLMLRSNRITC----VGNDSFIGLSSVRLL  134 (220)
T ss_dssp             TT-----TTTCTTCCEEECCSSCCCCCCG--------GGGT---TCSSCCEEECTTSCCCC----BCTTSSTTCTTCSEE
T ss_pred             HH-----hCCCCCCCEEECCCCccCccCH--------hHhc---CCcCCCEEECCCCcCCe----ECHhHcCCCccCCEE
Confidence            22     2446777777777777775333        2333   55677777777777775    224556677777777


Q ss_pred             eCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          387 DISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       387 ~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      +|++|.|+.-     .|   ..+..+++|+.|++++|+++.
T Consensus       135 ~L~~N~l~~~-----~~---~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A          135 SLYDNQITTV-----AP---GAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             ECTTSCCCCB-----CT---TTTTTCTTCCEEECCSCCEEC
T ss_pred             ECCCCcCCEE-----CH---HHhcCCCCCCEEEecCcCCcC
Confidence            7777777651     13   455666777777777777654

>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=4.4e-14  Score=128.09  Aligned_cols=166  Identities=18%  Similarity=0.162  Sum_probs=117.9

Q ss_pred             CccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhh
Q 012512          226 TLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDF  305 (462)
Q Consensus       226 ~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~  305 (462)
                      ..+.++.+++.++ ..+        ..  -..+|++|++++|.+..        .....+..+++|++|+|++|.++...
T Consensus        20 s~~~v~c~~~~l~-~ip--------~~--~~~~L~~L~Ls~n~i~~--------~~~~~~~~l~~L~~L~L~~N~l~~i~   80 (229)
T 3e6j_A           20 SGTTVDCRSKRHA-SVP--------AG--IPTNAQILYLHDNQITK--------LEPGVFDSLINLKELYLGSNQLGALP   80 (229)
T ss_dssp             ETTEEECTTSCCS-SCC--------SC--CCTTCSEEECCSSCCCC--------CCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             eCCEeEccCCCcC-ccC--------CC--CCCCCCEEEcCCCccCc--------cCHHHhhCccCCcEEECCCCCCCCcC
Confidence            4667777777765 111        11  14678999999998877        33456677889999999999886633


Q ss_pred             HHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCE
Q 012512          306 GRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEI  385 (462)
Q Consensus       306 ~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~  385 (462)
                      ...     +..+++|++|+|++|.+++..+        ..+.   .+++|+.|+|++|+|+.     ++..+..+++|+.
T Consensus        81 ~~~-----~~~l~~L~~L~Ls~N~l~~l~~--------~~~~---~l~~L~~L~Ls~N~l~~-----lp~~~~~l~~L~~  139 (229)
T 3e6j_A           81 VGV-----FDSLTQLTVLDLGTNQLTVLPS--------AVFD---RLVHLKELFMCCNKLTE-----LPRGIERLTHLTH  139 (229)
T ss_dssp             TTT-----TTTCTTCCEEECCSSCCCCCCT--------TTTT---TCTTCCEEECCSSCCCS-----CCTTGGGCTTCSE
T ss_pred             hhh-----cccCCCcCEEECCCCcCCccCh--------hHhC---cchhhCeEeccCCcccc-----cCcccccCCCCCE
Confidence            222     3456889999999998886333        2223   56889999999999884     6777888899999


Q ss_pred             EeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh--HHHHHHHHhc
Q 012512          386 LDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG--VSQLLDTLST  439 (462)
Q Consensus       386 L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~--~~~l~~~l~~  439 (462)
                      |++++|.|+.      ++.  ..+..+++|+.|++++|+++...  ...+...+..
T Consensus       140 L~L~~N~l~~------~~~--~~~~~l~~L~~L~l~~N~~~c~c~~~~~l~~~~~~  187 (229)
T 3e6j_A          140 LALDQNQLKS------IPH--GAFDRLSSLTHAYLFGNPWDCECRDIMYLRNWVAD  187 (229)
T ss_dssp             EECCSSCCCC------CCT--TTTTTCTTCCEEECTTSCBCTTBGGGHHHHHHHHH
T ss_pred             EECCCCcCCc------cCH--HHHhCCCCCCEEEeeCCCccCCcchhHHHHHHHHh
Confidence            9999998886      332  45677788999999999887542  3444444544

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.45  E-value=7.9e-14  Score=129.19  Aligned_cols=147  Identities=20%  Similarity=0.224  Sum_probs=83.0

Q ss_pred             CCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCCh
Q 012512          224 SETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDR  303 (462)
Q Consensus       224 ~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~  303 (462)
                      +++|++|++++|.++...  .+    ..    +.+|++|++++|.+..         +.. +..+++|++|++++|.+.+
T Consensus        40 l~~L~~L~l~~n~i~~l~--~l----~~----l~~L~~L~L~~N~i~~---------~~~-l~~l~~L~~L~L~~N~l~~   99 (263)
T 1xeu_A           40 LSGVQNFNGDNSNIQSLA--GM----QF----FTNLKELHLSHNQISD---------LSP-LKDLTKLEELSVNRNRLKN   99 (263)
T ss_dssp             HTTCSEEECTTSCCCCCT--TG----GG----CTTCCEEECCSSCCCC---------CGG-GTTCSSCCEEECCSSCCSC
T ss_pred             cCcCcEEECcCCCcccch--HH----hh----CCCCCEEECCCCccCC---------Chh-hccCCCCCEEECCCCccCC
Confidence            455666666666555321  11    11    4566666666666554         111 5556666666666666655


Q ss_pred             hhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCC
Q 012512          304 DFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNL  383 (462)
Q Consensus       304 ~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  383 (462)
                      .. .      ... ++|++|++++|.+++.          ..+.   .+++|+.|++++|++++     + +.+..+++|
T Consensus       100 l~-~------~~~-~~L~~L~L~~N~l~~~----------~~l~---~l~~L~~L~Ls~N~i~~-----~-~~l~~l~~L  152 (263)
T 1xeu_A          100 LN-G------IPS-ACLSRLFLDNNELRDT----------DSLI---HLKNLEILSIRNNKLKS-----I-VMLGFLSKL  152 (263)
T ss_dssp             CT-T------CCC-SSCCEEECCSSCCSBS----------GGGT---TCTTCCEEECTTSCCCB-----C-GGGGGCTTC
T ss_pred             cC-c------ccc-CcccEEEccCCccCCC----------hhhc---CcccccEEECCCCcCCC-----C-hHHccCCCC
Confidence            21 1      112 5667777777766641          1122   44667777777777665     2 246666677


Q ss_pred             CEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          384 EILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       384 ~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      +.|++++|.|++      .    ..+..+++|+.|++++|+++.
T Consensus       153 ~~L~L~~N~i~~------~----~~l~~l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          153 EVLDLHGNEITN------T----GGLTRLKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             CEEECTTSCCCB------C----TTSTTCCCCCEEEEEEEEEEC
T ss_pred             CEEECCCCcCcc------h----HHhccCCCCCEEeCCCCcccC
Confidence            777777777665      2    234555667777777766554

>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=99.45  E-value=1.2e-13  Score=125.30  Aligned_cols=133  Identities=16%  Similarity=0.092  Sum_probs=90.8

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRD  304 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~  304 (462)
                      ++|++|+|++|.++...+..+..        +.+|++|++++|.+...        ....+..+++|++|+|++|.++..
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~--------l~~L~~L~L~~N~l~~i--------~~~~~~~l~~L~~L~Ls~N~l~~l  103 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDS--------LINLKELYLGSNQLGAL--------PVGVFDSLTQLTVLDLGTNQLTVL  103 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTT--------CTTCCEEECCSSCCCCC--------CTTTTTTCTTCCEEECCSSCCCCC
T ss_pred             CCCCEEEcCCCccCccCHHHhhC--------ccCCcEEECCCCCCCCc--------ChhhcccCCCcCEEECCCCcCCcc
Confidence            67888888888887644443322        67788888888887652        223456678888888888887753


Q ss_pred             hHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHH-HHhhcCCCC
Q 012512          305 FGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLG-SALVHIPNL  383 (462)
Q Consensus       305 ~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~-~~l~~~~~L  383 (462)
                      ....     +..+++|++|+|++|.++. +|        ..+.   .+++|+.|+|++|+|+.     ++ ..+..+++|
T Consensus       104 ~~~~-----~~~l~~L~~L~Ls~N~l~~-lp--------~~~~---~l~~L~~L~L~~N~l~~-----~~~~~~~~l~~L  161 (229)
T 3e6j_A          104 PSAV-----FDRLVHLKELFMCCNKLTE-LP--------RGIE---RLTHLTHLALDQNQLKS-----IPHGAFDRLSSL  161 (229)
T ss_dssp             CTTT-----TTTCTTCCEEECCSSCCCS-CC--------TTGG---GCTTCSEEECCSSCCCC-----CCTTTTTTCTTC
T ss_pred             ChhH-----hCcchhhCeEeccCCcccc-cC--------cccc---cCCCCCEEECCCCcCCc-----cCHHHHhCCCCC
Confidence            3222     2446788888888888773 22        3343   45778888888888875     33 356777888


Q ss_pred             CEEeCCCCCCCc
Q 012512          384 EILDISDNTIED  395 (462)
Q Consensus       384 ~~L~Ls~N~l~~  395 (462)
                      +.|++++|++..
T Consensus       162 ~~L~l~~N~~~c  173 (229)
T 3e6j_A          162 THAYLFGNPWDC  173 (229)
T ss_dssp             CEEECTTSCBCT
T ss_pred             CEEEeeCCCccC
Confidence            888888888764

>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=4.6e-14  Score=127.15  Aligned_cols=135  Identities=19%  Similarity=0.174  Sum_probs=88.0

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .++++|++++|.+..        .....+..+++|++|+|++|.++...+..+     ..+++|++|+|++|.++...+ 
T Consensus        32 ~~l~~L~l~~n~i~~--------i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~-----~~l~~L~~L~Ls~N~l~~l~~-   97 (220)
T 2v9t_B           32 ETITEIRLEQNTIKV--------IPPGAFSPYKKLRRIDLSNNQISELAPDAF-----QGLRSLNSLVLYGNKITELPK-   97 (220)
T ss_dssp             TTCCEEECCSSCCCE--------ECTTSSTTCTTCCEEECCSSCCCEECTTTT-----TTCSSCCEEECCSSCCCCCCT-
T ss_pred             cCCCEEECCCCcCCC--------cCHhHhhCCCCCCEEECCCCcCCCcCHHHh-----hCCcCCCEEECCCCcCCccCH-
Confidence            467778888777765        222355667777888888877776444432     446777888888877774222 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                             ..   +.++++|+.|+|++|+|+..    .+.++..+++|+.|+|++|.|+.      ++.  ..+..+++|+
T Consensus        98 -------~~---f~~l~~L~~L~L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~  155 (220)
T 2v9t_B           98 -------SL---FEGLFSLQLLLLNANKINCL----RVDAFQDLHNLNLLSLYDNKLQT------IAK--GTFSPLRAIQ  155 (220)
T ss_dssp             -------TT---TTTCTTCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCC
T ss_pred             -------hH---ccCCCCCCEEECCCCCCCEe----CHHHcCCCCCCCEEECCCCcCCE------ECH--HHHhCCCCCC
Confidence                   11   22557777888888877762    24456777778888888777765      321  3455667777


Q ss_pred             EEEccCCCCCh
Q 012512          417 ELYLENCELSG  427 (462)
Q Consensus       417 ~L~L~~n~l~~  427 (462)
                      .|++++|++..
T Consensus       156 ~L~L~~N~~~c  166 (220)
T 2v9t_B          156 TMHLAQNPFIC  166 (220)
T ss_dssp             EEECCSSCEEC
T ss_pred             EEEeCCCCcCC
Confidence            78887777644

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.42  E-value=1.2e-14  Score=141.22  Aligned_cols=179  Identities=21%  Similarity=0.138  Sum_probs=111.4

Q ss_pred             eeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHh-cCCCccEEEccCCCCChhHHHHHHHHHhcccccC
Q 012512          178 CLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQ-NSETLASLEFLHCKLSPSFVEGICRSLCSKRKRI  256 (462)
Q Consensus       178 ~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~-~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~  256 (462)
                      .++..+.....++..+.  ..++.|+|++|.+.......    +. .+++|++|+|++|.|+......+..        +
T Consensus        22 ~l~c~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~----~~~~l~~L~~L~L~~N~i~~i~~~~~~~--------l   87 (361)
T 2xot_A           22 ILSCSKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEW----TPTRLTNLHSLLLSHNHLNFISSEAFVP--------V   87 (361)
T ss_dssp             EEECCSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTS----SSSCCTTCCEEECCSSCCCEECTTTTTT--------C
T ss_pred             EEEeCCCCcCccCccCC--CCCCEEECCCCCCCccChhh----hhhcccccCEEECCCCcCCccChhhccC--------C
Confidence            44555554444444332  34788888888765433221    22 5778888888888877544333322        6


Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .+|++|++++|.+..        .....+..+++|++|+|++|.+....+..     +..+++|++|+|++|.+++..+ 
T Consensus        88 ~~L~~L~Ls~N~l~~--------~~~~~~~~l~~L~~L~L~~N~i~~~~~~~-----~~~l~~L~~L~L~~N~l~~l~~-  153 (361)
T 2xot_A           88 PNLRYLDLSSNHLHT--------LDEFLFSDLQALEVLLLYNNHIVVVDRNA-----FEDMAQLQKLYLSQNQISRFPV-  153 (361)
T ss_dssp             TTCCEEECCSSCCCE--------ECTTTTTTCTTCCEEECCSSCCCEECTTT-----TTTCTTCCEEECCSSCCCSCCG-
T ss_pred             CCCCEEECCCCcCCc--------CCHHHhCCCcCCCEEECCCCcccEECHHH-----hCCcccCCEEECCCCcCCeeCH-
Confidence            778888888888766        23345667788888888888887644433     2456788888888888875222 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCC--CCEEeCCCCCCCc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPN--LEILDISDNTIED  395 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~--L~~L~Ls~N~l~~  395 (462)
                             ..+.....+++|+.|+|++|+|+.-.    ...+..++.  ++.|++++|++.-
T Consensus       154 -------~~~~~~~~l~~L~~L~L~~N~l~~l~----~~~~~~l~~~~l~~l~l~~N~~~C  203 (361)
T 2xot_A          154 -------ELIKDGNKLPKLMLLDLSSNKLKKLP----LTDLQKLPAWVKNGLYLHNNPLEC  203 (361)
T ss_dssp             -------GGTC----CTTCCEEECCSSCCCCCC----HHHHHHSCHHHHTTEECCSSCEEC
T ss_pred             -------HHhcCcccCCcCCEEECCCCCCCccC----HHHhhhccHhhcceEEecCCCccC
Confidence                   22211124578888888888888632    234555554  4778888888654

>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=99.42  E-value=2.8e-15  Score=153.94  Aligned_cols=87  Identities=29%  Similarity=0.326  Sum_probs=42.8

Q ss_pred             CCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHH
Q 012512          352 LQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVS  431 (462)
Q Consensus       352 l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~  431 (462)
                      +++|+.|+|++|+|+.     +|..++.+++|+.|+|++|.|+.      +|    .+..+++|+.|+|++|+|+...  
T Consensus       462 l~~L~~L~Ls~N~l~~-----lp~~~~~l~~L~~L~Ls~N~l~~------lp----~l~~l~~L~~L~Ls~N~l~~~~--  524 (567)
T 1dce_A          462 LLLVTHLDLSHNRLRA-----LPPALAALRCLEVLQASDNALEN------VD----GVANLPRLQELLLCNNRLQQSA--  524 (567)
T ss_dssp             GTTCCEEECCSSCCCC-----CCGGGGGCTTCCEEECCSSCCCC------CG----GGTTCSSCCEEECCSSCCCSSS--
T ss_pred             cccCcEeecCcccccc-----cchhhhcCCCCCEEECCCCCCCC------Cc----ccCCCCCCcEEECCCCCCCCCC--
Confidence            3455555555555552     44455555555555555555553      32    2344455555555555555420  


Q ss_pred             HHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          432 QLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       432 ~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                       .+..+..+ ++|++|++++|+|++.
T Consensus       525 -~p~~l~~l-~~L~~L~L~~N~l~~~  548 (567)
T 1dce_A          525 -AIQPLVSC-PRLVLLNLQGNSLCQE  548 (567)
T ss_dssp             -TTGGGGGC-TTCCEEECTTSGGGGS
T ss_pred             -CcHHHhcC-CCCCEEEecCCcCCCC
Confidence             03344442 3355555555555443

>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=99.41  E-value=1.6e-13  Score=143.31  Aligned_cols=186  Identities=18%  Similarity=0.107  Sum_probs=111.6

Q ss_pred             CcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchh
Q 012512          198 KLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSV  277 (462)
Q Consensus       198 ~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~  277 (462)
                      ++++|+|++|.+.......    +.++++|++|+|++|.|+.....++..        +.+|++|+|++|++..      
T Consensus        53 ~~~~LdLs~N~i~~l~~~~----f~~l~~L~~L~Ls~N~i~~i~~~~f~~--------L~~L~~L~Ls~N~l~~------  114 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYS----FFSFPELQVLDLSRCEIQTIEDGAYQS--------LSHLSTLILTGNPIQS------  114 (635)
T ss_dssp             TCCEEECTTSCCCEECTTT----TTTCTTCCEEECTTCCCCEECTTTTTT--------CTTCCEEECTTCCCCE------
T ss_pred             CCCEEEeeCCCCCCCCHHH----HhCCCCCCEEECCCCcCCCcChhHhcC--------CCCCCEEEccCCcCCC------
Confidence            4677888877765433221    345778888888888776443333322        6778888888887765      


Q ss_pred             HHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          278 VVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       278 ~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                        .....|.++++|++|+|++|.+.......     +..+++|++|++++|.++...       ++..+.   .++.|++
T Consensus       115 --l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~-----~~~L~~L~~L~Ls~N~l~~~~-------~~~~~~---~l~~L~~  177 (635)
T 4g8a_A          115 --LALGAFSGLSSLQKLVAVETNLASLENFP-----IGHLKTLKELNVAHNLIQSFK-------LPEYFS---NLTNLEH  177 (635)
T ss_dssp             --ECGGGGTTCTTCCEEECTTSCCCCSTTCC-----CTTCTTCCEEECCSSCCCCCC-------CCGGGG---GCTTCCE
T ss_pred             --CCHHHhcCCCCCCEEECCCCcCCCCChhh-----hhcCcccCeeccccCccccCC-------Cchhhc---cchhhhh
Confidence              22345677788888888888776532221     345677888888888776421       113333   4567888


Q ss_pred             EEccCCCCCcchHHHHHHHhhcCC-CCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh
Q 012512          358 LNLRGNNLCKADARDLGSALVHIP-NLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR  428 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~~l~~~~-~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~  428 (462)
                      |+|++|+|+......+. .+.+.+ .+..++++.|.++.      ++   ........+..+++.+|..+..
T Consensus       178 L~L~~N~l~~~~~~~l~-~L~~l~~~~~~~~ls~n~l~~------i~---~~~~~~~~~~~l~l~~n~~~~~  239 (635)
T 4g8a_A          178 LDLSSNKIQSIYCTDLR-VLHQMPLLNLSLDLSLNPMNF------IQ---PGAFKEIRLHKLTLRNNFDSLN  239 (635)
T ss_dssp             EECCSSCCCEECGGGGH-HHHTCTTCCCEEECTTCCCCE------EC---TTTTTTCEEEEEEEESCCSSHH
T ss_pred             hcccCcccccccccccc-chhhhhhhhhhhhcccCcccc------cC---cccccchhhhhhhhhccccccc
Confidence            88888877753221111 122222 34567788887765      22   2222334566777777766543

>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=99.41  E-value=7.8e-14  Score=125.62  Aligned_cols=155  Identities=17%  Similarity=0.160  Sum_probs=110.2

Q ss_pred             cCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhH
Q 012512          199 LQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVV  278 (462)
Q Consensus       199 L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~  278 (462)
                      -+.++++++.+......       -...+++|+|++|.++.......       +..+.+|++|++++|.+..       
T Consensus        13 ~~~l~~s~n~l~~iP~~-------~~~~~~~L~L~~N~l~~~~~~~~-------~~~l~~L~~L~L~~N~i~~-------   71 (220)
T 2v70_A           13 GTTVDCSNQKLNKIPEH-------IPQYTAELRLNNNEFTVLEATGI-------FKKLPQLRKINFSNNKITD-------   71 (220)
T ss_dssp             TTEEECCSSCCSSCCSC-------CCTTCSEEECCSSCCCEECCCCC-------GGGCTTCCEEECCSSCCCE-------
T ss_pred             CCEeEeCCCCcccCccC-------CCCCCCEEEcCCCcCCccCchhh-------hccCCCCCEEECCCCcCCE-------
Confidence            36888888876553321       13467899999998875422110       1127889999999998876       


Q ss_pred             HHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEE
Q 012512          279 VELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLL  358 (462)
Q Consensus       279 ~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L  358 (462)
                       .....+..+++|++|+|++|.+....+..     +..+++|++|+|++|.+++..+        ..+   .++++|+.|
T Consensus        72 -i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~-----~~~l~~L~~L~Ls~N~l~~~~~--------~~~---~~l~~L~~L  134 (220)
T 2v70_A           72 -IEEGAFEGASGVNEILLTSNRLENVQHKM-----FKGLESLKTLMLRSNRITCVGN--------DSF---IGLSSVRLL  134 (220)
T ss_dssp             -ECTTTTTTCTTCCEEECCSSCCCCCCGGG-----GTTCSSCCEEECTTSCCCCBCT--------TSS---TTCTTCSEE
T ss_pred             -ECHHHhCCCCCCCEEECCCCccCccCHhH-----hcCCcCCCEEECCCCcCCeECH--------hHc---CCCccCCEE
Confidence             23346677889999999999887754433     3457889999999999886444        333   366889999


Q ss_pred             EccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          359 NLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       359 ~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      +|++|+|+.    ..+..+..+++|+.|++++|++..
T Consensus       135 ~L~~N~l~~----~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A          135 SLYDNQITT----VAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             ECTTSCCCC----BCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             ECCCCcCCE----ECHHHhcCCCCCCEEEecCcCCcC
Confidence            999998886    235678888899999999998754

>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=99.41  E-value=6.2e-15  Score=151.32  Aligned_cols=206  Identities=18%  Similarity=0.142  Sum_probs=132.4

Q ss_pred             hcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCC-------------CChhHHHHHHHHHhcccccCCCcc
Q 012512          194 LRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCK-------------LSPSFVEGICRSLCSKRKRIHKIE  260 (462)
Q Consensus       194 ~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~-------------l~~~~~~~l~~~l~~~~~~~~~L~  260 (462)
                      ..+++|+.|+|++|.+......     ...+++|++|++++|.             +....+..+..        +.+|+
T Consensus       346 ~~~~~L~~L~Ls~n~L~~Lp~~-----i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~--------l~~L~  412 (567)
T 1dce_A          346 ATDEQLFRCELSVEKSTVLQSE-----LESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQY--------FSTLK  412 (567)
T ss_dssp             STTTTSSSCCCCHHHHHHHHHH-----HHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHH--------HHHHH
T ss_pred             ccCccceeccCChhhHHhhHHH-----HHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHH--------HHhcc
Confidence            3567788888888766543332     3456778888886653             22222222221        45566


Q ss_pred             EEe-cCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCc
Q 012512          261 NLS-IDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR  339 (462)
Q Consensus       261 ~L~-l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~  339 (462)
                      .|+ ++.|.+.......+...-...+. ...|+.|+|++|.|+. .+.      +..+++|+.|+|++|.++. +|    
T Consensus       413 ~L~~l~~n~~~~L~~l~l~~n~i~~l~-~~~L~~L~Ls~n~l~~-lp~------~~~l~~L~~L~Ls~N~l~~-lp----  479 (567)
T 1dce_A          413 AVDPMRAAYLDDLRSKFLLENSVLKME-YADVRVLHLAHKDLTV-LCH------LEQLLLVTHLDLSHNRLRA-LP----  479 (567)
T ss_dssp             HHCGGGHHHHHHHHHHHHHHHHHHHHH-HTTCSEEECTTSCCSS-CCC------GGGGTTCCEEECCSSCCCC-CC----
T ss_pred             cCcchhhcccchhhhhhhhcccccccC-ccCceEEEecCCCCCC-CcC------ccccccCcEeecCcccccc-cc----
Confidence            666 44443322100000000011111 1369999999999987 332      2446899999999999983 33    


Q ss_pred             ccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHH--HHHHhhcCCCCCccE
Q 012512          340 SGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLI--PYFVQASERCNPLVE  417 (462)
Q Consensus       340 ~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~--~~l~~~l~~~~~L~~  417 (462)
                          ..+.   ++++|+.|+|++|+|+.     ++ .+..+++|+.|+|++|.|++      +  |   ..+..+++|+.
T Consensus       480 ----~~~~---~l~~L~~L~Ls~N~l~~-----lp-~l~~l~~L~~L~Ls~N~l~~------~~~p---~~l~~l~~L~~  537 (567)
T 1dce_A          480 ----PALA---ALRCLEVLQASDNALEN-----VD-GVANLPRLQELLLCNNRLQQ------SAAI---QPLVSCPRLVL  537 (567)
T ss_dssp             ----GGGG---GCTTCCEEECCSSCCCC-----CG-GGTTCSSCCEEECCSSCCCS------SSTT---GGGGGCTTCCE
T ss_pred             ----hhhh---cCCCCCEEECCCCCCCC-----Cc-ccCCCCCCcEEECCCCCCCC------CCCc---HHHhcCCCCCE
Confidence                5556   56899999999999996     55 89999999999999999987      3  4   56778899999


Q ss_pred             EEccCCCCChhhHHHHHHHHhcCCCCCcEEEc
Q 012512          418 LYLENCELSGRGVSQLLDTLSTLRRPPTSLSI  449 (462)
Q Consensus       418 L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~L  449 (462)
                      |+|++|+++.... .....+.. .++|+.||+
T Consensus       538 L~L~~N~l~~~~~-~~~~l~~~-lp~L~~L~l  567 (567)
T 1dce_A          538 LNLQGNSLCQEEG-IQERLAEM-LPSVSSILT  567 (567)
T ss_dssp             EECTTSGGGGSSS-CTTHHHHH-CTTCSEEEC
T ss_pred             EEecCCcCCCCcc-HHHHHHHH-CcccCccCC
Confidence            9999999876311 11122223 244888875

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.40  E-value=5.7e-13  Score=118.80  Aligned_cols=157  Identities=18%  Similarity=0.147  Sum_probs=116.2

Q ss_pred             ccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccC
Q 012512          259 IENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD  338 (462)
Q Consensus       259 L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~  338 (462)
                      -+.++.+++.+.....           ...++|++|++++|.+.......     +..+++|++|++++|.+++..+   
T Consensus         9 ~~~v~c~~~~l~~~p~-----------~~~~~l~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~~~~~---   69 (208)
T 2o6s_A            9 GTTVECYSQGRTSVPT-----------GIPAQTTYLDLETNSLKSLPNGV-----FDELTSLTQLYLGGNKLQSLPN---   69 (208)
T ss_dssp             TTEEECCSSCCSSCCS-----------CCCTTCSEEECCSSCCCCCCTTT-----TTTCTTCSEEECCSSCCCCCCT---
T ss_pred             CCEEEecCCCccCCCC-----------CCCCCCcEEEcCCCccCcCChhh-----hcccccCcEEECCCCccCccCh---
Confidence            3566677766655221           12358999999999998643332     3457899999999999986332   


Q ss_pred             cccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEE
Q 012512          339 RSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL  418 (462)
Q Consensus       339 ~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L  418 (462)
                           ..   +.++++|++|++++|+++..    .+..+..+++|++|++++|.|+.      ++.  ..+..+++|+.|
T Consensus        70 -----~~---~~~l~~L~~L~Ls~n~l~~~----~~~~~~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L  129 (208)
T 2o6s_A           70 -----GV---FNKLTSLTYLNLSTNQLQSL----PNGVFDKLTQLKELALNTNQLQS------LPD--GVFDKLTQLKDL  129 (208)
T ss_dssp             -----TT---TTTCTTCCEEECCSSCCCCC----CTTTTTTCTTCCEEECCSSCCCC------CCT--TTTTTCTTCCEE
T ss_pred             -----hh---cCCCCCcCEEECCCCcCCcc----CHhHhcCccCCCEEEcCCCcCcc------cCH--hHhccCCcCCEE
Confidence                 22   23668999999999999962    23347889999999999999986      332  446778999999


Q ss_pred             EccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          419 YLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       419 ~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++++|+++..    ....+.. .++|++|++++|++.+..+
T Consensus       130 ~l~~N~l~~~----~~~~~~~-l~~L~~L~l~~N~~~~~~~  165 (208)
T 2o6s_A          130 RLYQNQLKSV----PDGVFDR-LTSLQYIWLHDNPWDCTCP  165 (208)
T ss_dssp             ECCSSCCSCC----CTTTTTT-CTTCCEEECCSCCBCCCTT
T ss_pred             ECCCCcccee----CHHHhcc-CCCccEEEecCCCeecCCC
Confidence            9999999873    2233555 4569999999999987654

>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=99.40  E-value=1.3e-13  Score=143.79  Aligned_cols=185  Identities=16%  Similarity=0.039  Sum_probs=129.8

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRD  304 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~  304 (462)
                      +++++|+|++|.|+......+..        +++|++|+|++|.+..        .-..+|.++++|++|+|++|+|...
T Consensus        52 ~~~~~LdLs~N~i~~l~~~~f~~--------l~~L~~L~Ls~N~i~~--------i~~~~f~~L~~L~~L~Ls~N~l~~l  115 (635)
T 4g8a_A           52 FSTKNLDLSFNPLRHLGSYSFFS--------FPELQVLDLSRCEIQT--------IEDGAYQSLSHLSTLILTGNPIQSL  115 (635)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTT--------CTTCCEEECTTCCCCE--------ECTTTTTTCTTCCEEECTTCCCCEE
T ss_pred             cCCCEEEeeCCCCCCCCHHHHhC--------CCCCCEEECCCCcCCC--------cChhHhcCCCCCCEEEccCCcCCCC
Confidence            47999999999998654444332        7899999999999876        2234678899999999999999874


Q ss_pred             hHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCC
Q 012512          305 FGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLE  384 (462)
Q Consensus       305 ~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  384 (462)
                      .+..     +..+++|++|+|++|.+++..+           ..+.++++|++|+|++|.++...   ++..+..+++|+
T Consensus       116 ~~~~-----f~~L~~L~~L~Ls~N~l~~l~~-----------~~~~~L~~L~~L~Ls~N~l~~~~---~~~~~~~l~~L~  176 (635)
T 4g8a_A          116 ALGA-----FSGLSSLQKLVAVETNLASLEN-----------FPIGHLKTLKELNVAHNLIQSFK---LPEYFSNLTNLE  176 (635)
T ss_dssp             CGGG-----GTTCTTCCEEECTTSCCCCSTT-----------CCCTTCTTCCEEECCSSCCCCCC---CCGGGGGCTTCC
T ss_pred             CHHH-----hcCCCCCCEEECCCCcCCCCCh-----------hhhhcCcccCeeccccCccccCC---Cchhhccchhhh
Confidence            3332     4567999999999999986333           22347789999999999987531   456788899999


Q ss_pred             EEeCCCCCCCchhHHhHHHHHHhhcCCC-CCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          385 ILDISDNTIEDDGIRSLIPYFVQASERC-NPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       385 ~L~Ls~N~l~~~g~~~l~~~l~~~l~~~-~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      +|++++|.|+.-....+     ..+... .....++++.|.++..     ...... ...++.+++++|...
T Consensus       177 ~L~L~~N~l~~~~~~~l-----~~L~~l~~~~~~~~ls~n~l~~i-----~~~~~~-~~~~~~l~l~~n~~~  237 (635)
T 4g8a_A          177 HLDLSSNKIQSIYCTDL-----RVLHQMPLLNLSLDLSLNPMNFI-----QPGAFK-EIRLHKLTLRNNFDS  237 (635)
T ss_dssp             EEECCSSCCCEECGGGG-----HHHHTCTTCCCEEECTTCCCCEE-----CTTTTT-TCEEEEEEEESCCSS
T ss_pred             hhcccCccccccccccc-----cchhhhhhhhhhhhcccCccccc-----Cccccc-chhhhhhhhhccccc
Confidence            99999999876321111     112111 3456789999998763     112222 123566666666543

>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=99.39  E-value=2e-13  Score=122.95  Aligned_cols=153  Identities=18%  Similarity=0.146  Sum_probs=107.3

Q ss_pred             CEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHH
Q 012512          200 QSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVV  279 (462)
Q Consensus       200 ~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~  279 (462)
                      +.++++++.+......       -.+++++|++++|.++......+.        .+.+|++|++++|.+..        
T Consensus        14 ~~v~c~~~~l~~iP~~-------l~~~l~~L~l~~n~i~~i~~~~~~--------~l~~L~~L~Ls~N~i~~--------   70 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTN-------LPETITEIRLEQNTIKVIPPGAFS--------PYKKLRRIDLSNNQISE--------   70 (220)
T ss_dssp             TEEECTTSCCSSCCSS-------CCTTCCEEECCSSCCCEECTTSST--------TCTTCCEEECCSSCCCE--------
T ss_pred             CEEEcCCCCcCcCCCc-------cCcCCCEEECCCCcCCCcCHhHhh--------CCCCCCEEECCCCcCCC--------
Confidence            4566666654433221       125789999999988864443332        26789999999998876        


Q ss_pred             HHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEE
Q 012512          280 ELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLN  359 (462)
Q Consensus       280 ~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~  359 (462)
                      .....+..+++|++|+|++|.+...... +    +..+++|++|+|++|.+++..+        ..+.   .+++|+.|+
T Consensus        71 ~~~~~~~~l~~L~~L~Ls~N~l~~l~~~-~----f~~l~~L~~L~L~~N~l~~~~~--------~~~~---~l~~L~~L~  134 (220)
T 2v9t_B           71 LAPDAFQGLRSLNSLVLYGNKITELPKS-L----FEGLFSLQLLLLNANKINCLRV--------DAFQ---DLHNLNLLS  134 (220)
T ss_dssp             ECTTTTTTCSSCCEEECCSSCCCCCCTT-T----TTTCTTCCEEECCSSCCCCCCT--------TTTT---TCTTCCEEE
T ss_pred             cCHHHhhCCcCCCEEECCCCcCCccCHh-H----ccCCCCCCEEECCCCCCCEeCH--------HHcC---CCCCCCEEE
Confidence            3355677888999999999988753222 1    3456889999999999886444        3333   668899999


Q ss_pred             ccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          360 LRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       360 L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      |++|+|+..    .+..+..+++|+.|++++|++..
T Consensus       135 L~~N~l~~~----~~~~~~~l~~L~~L~L~~N~~~c  166 (220)
T 2v9t_B          135 LYDNKLQTI----AKGTFSPLRAIQTMHLAQNPFIC  166 (220)
T ss_dssp             CCSSCCSCC----CTTTTTTCTTCCEEECCSSCEEC
T ss_pred             CCCCcCCEE----CHHHHhCCCCCCEEEeCCCCcCC
Confidence            999988862    22357778889999999998653

>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=2.1e-13  Score=117.24  Aligned_cols=138  Identities=21%  Similarity=0.226  Sum_probs=91.4

Q ss_pred             CCCCCEEecCCCCCC-hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCC
Q 012512          288 GRSLCSLKLRHCHLD-RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC  366 (462)
Q Consensus       288 l~~L~~L~Ls~n~l~-~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~  366 (462)
                      .++|++|++++|.+. +..+..     ...+++|++|++++|.+++.             ..+..+++|++|+|++|+++
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~-----~~~l~~L~~L~l~~n~l~~~-------------~~~~~l~~L~~L~Ls~N~l~   84 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGL-----TAEFVNLEFLSLINVGLISV-------------SNLPKLPKLKKLELSENRIF   84 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSC-----CGGGGGCCEEEEESSCCCCC-------------SSCCCCSSCCEEEEESCCCC
T ss_pred             cccCCEEECCCCCCChhhHHHH-----HHhCCCCCEEeCcCCCCCCh-------------hhhccCCCCCEEECcCCcCc
Confidence            357777777777776 222221     13357788888888887741             33346678888888888887


Q ss_pred             cchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcE
Q 012512          367 KADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTS  446 (462)
Q Consensus       367 ~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~  446 (462)
                      +.    ++..+..+++|+.|++++|.|++      ++.+ ..+..+++|+.|++++|+++..... ....+.. .++|++
T Consensus        85 ~~----~~~~~~~l~~L~~L~Ls~N~l~~------~~~~-~~l~~l~~L~~L~l~~N~l~~~~~~-~~~~~~~-l~~L~~  151 (168)
T 2ell_A           85 GG----LDMLAEKLPNLTHLNLSGNKLKD------ISTL-EPLKKLECLKSLDLFNCEVTNLNDY-RESVFKL-LPQLTY  151 (168)
T ss_dssp             SC----CCHHHHHCTTCCEEECBSSSCCS------SGGG-GGGSSCSCCCEEECCSSGGGTSTTH-HHHHHTT-CSSCCE
T ss_pred             hH----HHHHHhhCCCCCEEeccCCccCc------chhH-HHHhcCCCCCEEEeeCCcCcchHHH-HHHHHHh-CccCcE
Confidence            62    45556668888888888888876      3211 3456778888888888887763210 1135555 355888


Q ss_pred             EEccCCCCCC
Q 012512          447 LSIADNNLGR  456 (462)
Q Consensus       447 L~Ls~N~l~~  456 (462)
                      |++++|.+..
T Consensus       152 L~l~~n~~~~  161 (168)
T 2ell_A          152 LDGYDREDQE  161 (168)
T ss_dssp             ETTEETTSCB
T ss_pred             ecCCCCChhh
Confidence            8888887754

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.38  E-value=3.7e-14  Score=150.01  Aligned_cols=115  Identities=23%  Similarity=0.215  Sum_probs=59.7

Q ss_pred             HHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEcc
Q 012512          282 VSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLR  361 (462)
Q Consensus       282 ~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~  361 (462)
                      ...+..++.|+.|+|++|.+.. .+..+    + .+++|++|+|++|.++ .+|        ..+.   ++.+|+.|+|+
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~~-l~~~~----~-~l~~L~~L~Ls~N~l~-~lp--------~~~~---~l~~L~~L~Ls  278 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIFN-ISANI----F-KYDFLTRLYLNGNSLT-ELP--------AEIK---NLSNLRVLDLS  278 (727)
T ss_dssp             -----CCCCCCEEECTTSCCSC-CCGGG----G-GCCSCSCCBCTTSCCS-CCC--------GGGG---GGTTCCEEECT
T ss_pred             hhhhccCCCCcEEECCCCCCCC-CChhh----c-CCCCCCEEEeeCCcCc-ccC--------hhhh---CCCCCCEEeCc
Confidence            3444555566666666665543 22222    1 2455666666666655 222        3333   34556666666


Q ss_pred             CCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh
Q 012512          362 GNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR  428 (462)
Q Consensus       362 ~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~  428 (462)
                      +|+|+.     ++..+..+++|++|+|++|.|+.      +|   ..+..+++|+.|+|++|+|+..
T Consensus       279 ~N~l~~-----lp~~~~~l~~L~~L~L~~N~l~~------lp---~~~~~l~~L~~L~L~~N~l~~~  331 (727)
T 4b8c_D          279 HNRLTS-----LPAELGSCFQLKYFYFFDNMVTT------LP---WEFGNLCNLQFLGVEGNPLEKQ  331 (727)
T ss_dssp             TSCCSS-----CCSSGGGGTTCSEEECCSSCCCC------CC---SSTTSCTTCCCEECTTSCCCSH
T ss_pred             CCcCCc-----cChhhcCCCCCCEEECCCCCCCc------cC---hhhhcCCCccEEeCCCCccCCC
Confidence            666653     45555666666666666666554      44   3455556666666666666543

>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=2e-13  Score=117.40  Aligned_cols=137  Identities=22%  Similarity=0.115  Sum_probs=80.4

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      ++|++|++++|.+..       +.++..+..+++|++|++++|.+.+.  ..     +..+++|++|++++|.+++..+ 
T Consensus        24 ~~L~~L~l~~n~l~~-------~~i~~~~~~l~~L~~L~l~~n~l~~~--~~-----~~~l~~L~~L~Ls~N~l~~~~~-   88 (168)
T 2ell_A           24 AAVRELVLDNCKSND-------GKIEGLTAEFVNLEFLSLINVGLISV--SN-----LPKLPKLKKLELSENRIFGGLD-   88 (168)
T ss_dssp             TSCSEEECCSCBCBT-------TBCSSCCGGGGGCCEEEEESSCCCCC--SS-----CCCCSSCCEEEEESCCCCSCCC-
T ss_pred             ccCCEEECCCCCCCh-------hhHHHHHHhCCCCCEEeCcCCCCCCh--hh-----hccCCCCCEEECcCCcCchHHH-
Confidence            445555555555541       01333345556777777777776653  11     3445677777777777765333 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHH-HHhhcCCCCCc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPY-FVQASERCNPL  415 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~-l~~~l~~~~~L  415 (462)
                             ..+.   ++++|++|+|++|.+++..   .+..+..+++|+.|++++|.+++.      +. ....+..+++|
T Consensus        89 -------~~~~---~l~~L~~L~Ls~N~l~~~~---~~~~l~~l~~L~~L~l~~N~l~~~------~~~~~~~~~~l~~L  149 (168)
T 2ell_A           89 -------MLAE---KLPNLTHLNLSGNKLKDIS---TLEPLKKLECLKSLDLFNCEVTNL------NDYRESVFKLLPQL  149 (168)
T ss_dssp             -------HHHH---HCTTCCEEECBSSSCCSSG---GGGGGSSCSCCCEEECCSSGGGTS------TTHHHHHHTTCSSC
T ss_pred             -------HHHh---hCCCCCEEeccCCccCcch---hHHHHhcCCCCCEEEeeCCcCcch------HHHHHHHHHhCccC
Confidence                   3333   3467777777777777511   114566777777777777776652      21 00245566777


Q ss_pred             cEEEccCCCCCh
Q 012512          416 VELYLENCELSG  427 (462)
Q Consensus       416 ~~L~L~~n~l~~  427 (462)
                      +.|++++|.+..
T Consensus       150 ~~L~l~~n~~~~  161 (168)
T 2ell_A          150 TYLDGYDREDQE  161 (168)
T ss_dssp             CEETTEETTSCB
T ss_pred             cEecCCCCChhh
Confidence            777777777654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.36  E-value=5e-13  Score=112.40  Aligned_cols=132  Identities=20%  Similarity=0.226  Sum_probs=81.2

Q ss_pred             CCCCEEecCCCCCC-hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCc
Q 012512          289 RSLCSLKLRHCHLD-RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK  367 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~-~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~  367 (462)
                      ++|++|++++|.+. +..+..     ...+++|++|++++|.+++.             ..+..+++|++|++++|.+++
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~-----~~~l~~L~~L~l~~n~l~~~-------------~~~~~l~~L~~L~Ls~n~i~~   78 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGL-----TDEFEELEFLSTINVGLTSI-------------ANLPKLNKLKKLELSDNRVSG   78 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSC-----CTTCTTCCEEECTTSCCCCC-------------TTCCCCTTCCEEECCSSCCCS
T ss_pred             ccCeEEEccCCcCChhHHHHH-----HhhcCCCcEEECcCCCCCCc-------------hhhhcCCCCCEEECCCCcccc
Confidence            45666777766665 222221     23456777777777777641             223355777888888887775


Q ss_pred             chHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEE
Q 012512          368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSL  447 (462)
Q Consensus       368 ~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L  447 (462)
                      .    ++..+..+++|++|++++|.+++      ++.. ..+..+++|+.|++++|+++..... ....+.. .++|++|
T Consensus        79 ~----~~~~~~~l~~L~~L~ls~N~i~~------~~~~-~~~~~l~~L~~L~l~~N~l~~~~~~-~~~~~~~-l~~L~~L  145 (149)
T 2je0_A           79 G----LEVLAEKCPNLTHLNLSGNKIKD------LSTI-EPLKKLENLKSLDLFNCEVTNLNDY-RENVFKL-LPQLTYL  145 (149)
T ss_dssp             C----THHHHHHCTTCCEEECTTSCCCS------HHHH-GGGGGCTTCCEEECTTCGGGGSTTH-HHHHHHH-CTTCCEE
T ss_pred             h----HHHHhhhCCCCCEEECCCCcCCC------hHHH-HHHhhCCCCCEEeCcCCcccchHHH-HHHHHHH-CCCcccc
Confidence            2    55666667788888888888776      2211 3456667888888888877764220 0124444 3448888


Q ss_pred             EccC
Q 012512          448 SIAD  451 (462)
Q Consensus       448 ~Ls~  451 (462)
                      |+++
T Consensus       146 ~l~d  149 (149)
T 2je0_A          146 DGYD  149 (149)
T ss_dssp             TTBC
T ss_pred             cCCC
Confidence            7763

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.35  E-value=8.4e-13  Score=111.03  Aligned_cols=134  Identities=22%  Similarity=0.136  Sum_probs=102.3

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      ..+|++|++++|.+..       +.++..+..+++|++|++++|.+.+.  ..     ...+++|++|++++|.+++..|
T Consensus        16 ~~~l~~L~l~~n~l~~-------~~~~~~~~~l~~L~~L~l~~n~l~~~--~~-----~~~l~~L~~L~Ls~n~i~~~~~   81 (149)
T 2je0_A           16 PSDVKELVLDNSRSNE-------GKLEGLTDEFEELEFLSTINVGLTSI--AN-----LPKLNKLKKLELSDNRVSGGLE   81 (149)
T ss_dssp             GGGCSEEECTTCBCBT-------TBCCSCCTTCTTCCEEECTTSCCCCC--TT-----CCCCTTCCEEECCSSCCCSCTH
T ss_pred             CccCeEEEccCCcCCh-------hHHHHHHhhcCCCcEEECcCCCCCCc--hh-----hhcCCCCCEEECCCCcccchHH
Confidence            5789999999999882       02455667889999999999999874  21     4567999999999999986433


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              ..+.   ++++|++|++++|++++.   ..+..+..+++|++|++++|.+++....  .   ...+..+++|
T Consensus        82 --------~~~~---~l~~L~~L~ls~N~i~~~---~~~~~~~~l~~L~~L~l~~N~l~~~~~~--~---~~~~~~l~~L  142 (149)
T 2je0_A           82 --------VLAE---KCPNLTHLNLSGNKIKDL---STIEPLKKLENLKSLDLFNCEVTNLNDY--R---ENVFKLLPQL  142 (149)
T ss_dssp             --------HHHH---HCTTCCEEECTTSCCCSH---HHHGGGGGCTTCCEEECTTCGGGGSTTH--H---HHHHHHCTTC
T ss_pred             --------HHhh---hCCCCCEEECCCCcCCCh---HHHHHHhhCCCCCEEeCcCCcccchHHH--H---HHHHHHCCCc
Confidence                    4455   457899999999999972   1337789999999999999998863210  0   0235566899


Q ss_pred             cEEEccC
Q 012512          416 VELYLEN  422 (462)
Q Consensus       416 ~~L~L~~  422 (462)
                      +.|++++
T Consensus       143 ~~L~l~d  149 (149)
T 2je0_A          143 TYLDGYD  149 (149)
T ss_dssp             CEETTBC
T ss_pred             ccccCCC
Confidence            9998864

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=99.34  E-value=6.3e-13  Score=128.34  Aligned_cols=198  Identities=15%  Similarity=0.094  Sum_probs=131.5

Q ss_pred             hhhhhcCCCcCEEEeccCCChH---HH-H-HHHHHHHhcCCCccEEEccCCC-CChhHHHHHHHHHhcccccCCCccEEe
Q 012512          190 TCQLLRESKLQSLVLRWIRFEE---HV-Q-ALCKLLIQNSETLASLEFLHCK-LSPSFVEGICRSLCSKRKRIHKIENLS  263 (462)
Q Consensus       190 ~~~l~~~~~L~~L~L~~~~~~~---~~-~-~l~~~l~~~~~~L~~L~L~~~~-l~~~~~~~l~~~l~~~~~~~~~L~~L~  263 (462)
                      ..++.++++|++|.+..+....   .+ . .-...+...+++|++|+|++|. +.          +..  ...++|++|+
T Consensus       132 ~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~----------l~~--~~~~~L~~L~  199 (362)
T 2ra8_A          132 VENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLS----------IGK--KPRPNLKSLE  199 (362)
T ss_dssp             HTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCB----------CCS--CBCTTCSEEE
T ss_pred             HHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCce----------ecc--ccCCCCcEEE
Confidence            3345567788888886543210   00 0 0011224567899999998872 21          011  1267899999


Q ss_pred             cCCCCCCCCCCchhHHHHHHhhc--CCCCCCEEecCCC---CCChhhHHHHHHHHh-hCCCCccEEEecCCCCCCccccc
Q 012512          264 IDISSFIENCPSSVVVELVSFLS--SGRSLCSLKLRHC---HLDRDFGRMVFSSLL-EASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       264 l~~~~~~~~~~~~~~~~l~~~l~--~l~~L~~L~Ls~n---~l~~~~~~~l~~~l~-~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      +..+.+..        .....+.  .+++|++|+|+.+   ...+.++..+...+. ..+++|++|+|++|.+++..+  
T Consensus       200 L~~~~l~~--------~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~--  269 (362)
T 2ra8_A          200 IISGGLPD--------SVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVV--  269 (362)
T ss_dssp             EECSBCCH--------HHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHH--
T ss_pred             EecCCCCh--------HHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHH--
Confidence            98888765        3334443  6889999998632   222222322322222 236899999999999875222  


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccE
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE  417 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~  417 (462)
                            ..+.....+++|++|+|+.|.+++.|+..++..+..+++|+.|++++|.|++.|++++..    .+     ..+
T Consensus       270 ------~~la~a~~~~~L~~LdLs~n~L~d~G~~~L~~~L~~l~~L~~L~L~~n~i~d~~~~~l~~----al-----g~~  334 (362)
T 2ra8_A          270 ------EMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQK----SL-----PMK  334 (362)
T ss_dssp             ------HHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSBBCCHHHHHHHHH----HC-----CSE
T ss_pred             ------HHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCCcCCHHHHHHHHH----Hc-----CCE
Confidence                  333322345899999999999999999999988889999999999999999999888863    22     355


Q ss_pred             EEccCCC
Q 012512          418 LYLENCE  424 (462)
Q Consensus       418 L~L~~n~  424 (462)
                      +++++++
T Consensus       335 ~~~~~~~  341 (362)
T 2ra8_A          335 IDVSDSQ  341 (362)
T ss_dssp             EECCSBC
T ss_pred             EEecCCc
Confidence            8888887

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.29  E-value=1.5e-12  Score=112.84  Aligned_cols=82  Identities=21%  Similarity=0.184  Sum_probs=37.7

Q ss_pred             CCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcch
Q 012512          290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD  369 (462)
Q Consensus       290 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~  369 (462)
                      +|++|++++|.+++.  ..     +..+++|++|++++|.+++..+        ..+.   .+++|+.|+|++|+|++  
T Consensus        43 ~L~~L~Ls~N~l~~~--~~-----l~~l~~L~~L~Ls~N~l~~~~~--------~~~~---~l~~L~~L~L~~N~i~~--  102 (176)
T 1a9n_A           43 QFDAIDFSDNEIRKL--DG-----FPLLRRLKTLLVNNNRICRIGE--------GLDQ---ALPDLTELILTNNSLVE--  102 (176)
T ss_dssp             CCSEEECCSSCCCEE--CC-----CCCCSSCCEEECCSSCCCEECS--------CHHH---HCTTCCEEECCSCCCCC--
T ss_pred             CCCEEECCCCCCCcc--cc-----cccCCCCCEEECCCCcccccCc--------chhh---cCCCCCEEECCCCcCCc--
Confidence            555555555555442  11     2334555555555555543111        1112   23455555555555543  


Q ss_pred             HHHHHH--HhhcCCCCCEEeCCCCCCC
Q 012512          370 ARDLGS--ALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       370 ~~~l~~--~l~~~~~L~~L~Ls~N~l~  394 (462)
                         ++.  .+..+++|+.|++++|+++
T Consensus       103 ---~~~~~~l~~l~~L~~L~l~~N~i~  126 (176)
T 1a9n_A          103 ---LGDLDPLASLKSLTYLCILRNPVT  126 (176)
T ss_dssp             ---GGGGGGGGGCTTCCEEECCSSGGG
T ss_pred             ---chhhHhhhcCCCCCEEEecCCCCC
Confidence               332  4445555555555555544

>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=99.27  E-value=1.7e-12  Score=114.26  Aligned_cols=132  Identities=18%  Similarity=0.166  Sum_probs=95.9

Q ss_pred             ccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccC
Q 012512          259 IENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD  338 (462)
Q Consensus       259 L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~  338 (462)
                      -+.++++++.+...         +..+  ...|++|++++|.++...+...    +..+++|++|+|++|.+++..+   
T Consensus        10 ~~~l~~s~~~l~~i---------p~~~--~~~l~~L~l~~n~i~~~~~~~~----~~~l~~L~~L~Ls~N~l~~~~~---   71 (192)
T 1w8a_A           10 GTTVDCTGRGLKEI---------PRDI--PLHTTELLLNDNELGRISSDGL----FGRLPHLVKLELKRNQLTGIEP---   71 (192)
T ss_dssp             TTEEECTTSCCSSC---------CSCC--CTTCSEEECCSCCCCSBCCSCS----GGGCTTCCEEECCSSCCCCBCT---
T ss_pred             CCEEEcCCCCcCcC---------ccCC--CCCCCEEECCCCcCCccCCccc----cccCCCCCEEECCCCCCCCcCH---
Confidence            47888988888662         2222  2388999999998876443211    2446889999999999887544   


Q ss_pred             cccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEE
Q 012512          339 RSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL  418 (462)
Q Consensus       339 ~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L  418 (462)
                           ..+.   ++.+|+.|+|++|+|+..    .+..+..+++|++|++++|.|+..     .+   ..+..+++|+.|
T Consensus        72 -----~~~~---~l~~L~~L~Ls~N~l~~~----~~~~~~~l~~L~~L~L~~N~l~~~-----~~---~~~~~l~~L~~L  131 (192)
T 1w8a_A           72 -----NAFE---GASHIQELQLGENKIKEI----SNKMFLGLHQLKTLNLYDNQISCV-----MP---GSFEHLNSLTSL  131 (192)
T ss_dssp             -----TTTT---TCTTCCEEECCSCCCCEE----CSSSSTTCTTCCEEECCSSCCCEE-----CT---TSSTTCTTCCEE
T ss_pred             -----hHcC---CcccCCEEECCCCcCCcc----CHHHhcCCCCCCEEECCCCcCCee-----CH---HHhhcCCCCCEE
Confidence                 3333   668899999999998862    334577888999999999998862     23   566777889999


Q ss_pred             EccCCCCChh
Q 012512          419 YLENCELSGR  428 (462)
Q Consensus       419 ~L~~n~l~~~  428 (462)
                      ++++|+++..
T Consensus       132 ~L~~N~l~c~  141 (192)
T 1w8a_A          132 NLASNPFNCN  141 (192)
T ss_dssp             ECTTCCBCCS
T ss_pred             EeCCCCccCc
Confidence            9999988753

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.25  E-value=1.6e-12  Score=112.72  Aligned_cols=135  Identities=16%  Similarity=0.199  Sum_probs=77.0

Q ss_pred             CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCC
Q 012512          287 SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC  366 (462)
Q Consensus       287 ~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~  366 (462)
                      ...+|++|++++|.+...  ..+    ....++|++|++++|.+++.             ..+.++++|++|+|++|+|+
T Consensus        17 ~~~~L~~L~l~~n~l~~i--~~~----~~~~~~L~~L~Ls~N~l~~~-------------~~l~~l~~L~~L~Ls~N~l~   77 (176)
T 1a9n_A           17 NAVRDRELDLRGYKIPVI--ENL----GATLDQFDAIDFSDNEIRKL-------------DGFPLLRRLKTLLVNNNRIC   77 (176)
T ss_dssp             CTTSCEEEECTTSCCCSC--CCG----GGGTTCCSEEECCSSCCCEE-------------CCCCCCSSCCEEECCSSCCC
T ss_pred             CcCCceEEEeeCCCCchh--HHh----hhcCCCCCEEECCCCCCCcc-------------cccccCCCCCEEECCCCccc
Confidence            345666777777666642  111    12223677777777776631             23335567777777777776


Q ss_pred             cchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCc
Q 012512          367 KADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPT  445 (462)
Q Consensus       367 ~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~  445 (462)
                      .     +++ .+..+++|+.|++++|.|++      ++.+ ..+..+++|+.|++++|+++..... -...+.. .++|+
T Consensus        78 ~-----~~~~~~~~l~~L~~L~L~~N~i~~------~~~~-~~l~~l~~L~~L~l~~N~i~~~~~~-~~~~~~~-l~~L~  143 (176)
T 1a9n_A           78 R-----IGEGLDQALPDLTELILTNNSLVE------LGDL-DPLASLKSLTYLCILRNPVTNKKHY-RLYVIYK-VPQVR  143 (176)
T ss_dssp             E-----ECSCHHHHCTTCCEEECCSCCCCC------GGGG-GGGGGCTTCCEEECCSSGGGGSTTH-HHHHHHH-CTTCS
T ss_pred             c-----cCcchhhcCCCCCEEECCCCcCCc------chhh-HhhhcCCCCCEEEecCCCCCCcHhH-HHHHHHH-CCccc
Confidence            4     332 23667777777777777765      3321 2455567777777777776652111 0112444 24477


Q ss_pred             EEEccCCCC
Q 012512          446 SLSIADNNL  454 (462)
Q Consensus       446 ~L~Ls~N~l  454 (462)
                      +||+++|.+
T Consensus       144 ~Ld~~~n~~  152 (176)
T 1a9n_A          144 VLDFQKVKL  152 (176)
T ss_dssp             EETTEECCH
T ss_pred             eeCCCcCCH
Confidence            777777765

>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=99.24  E-value=3.7e-12  Score=112.00  Aligned_cols=131  Identities=17%  Similarity=0.155  Sum_probs=96.4

Q ss_pred             ccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhH
Q 012512          227 LASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFG  306 (462)
Q Consensus       227 L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~  306 (462)
                      -++++++++.++ ..+.        ..  ..++++|++++|.+......       ..+..+++|++|+|++|.++...+
T Consensus        10 ~~~l~~s~~~l~-~ip~--------~~--~~~l~~L~l~~n~i~~~~~~-------~~~~~l~~L~~L~Ls~N~l~~~~~   71 (192)
T 1w8a_A           10 GTTVDCTGRGLK-EIPR--------DI--PLHTTELLLNDNELGRISSD-------GLFGRLPHLVKLELKRNQLTGIEP   71 (192)
T ss_dssp             TTEEECTTSCCS-SCCS--------CC--CTTCSEEECCSCCCCSBCCS-------CSGGGCTTCCEEECCSSCCCCBCT
T ss_pred             CCEEEcCCCCcC-cCcc--------CC--CCCCCEEECCCCcCCccCCc-------cccccCCCCCEEECCCCCCCCcCH
Confidence            378889888885 2221        11  34789999999988762211       136778899999999999987545


Q ss_pred             HHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEE
Q 012512          307 RMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEIL  386 (462)
Q Consensus       307 ~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L  386 (462)
                      ..+     ..+++|++|+|++|.+++..+        .   .+.++++|++|+|++|+|+.    ..+..+..+++|++|
T Consensus        72 ~~~-----~~l~~L~~L~Ls~N~l~~~~~--------~---~~~~l~~L~~L~L~~N~l~~----~~~~~~~~l~~L~~L  131 (192)
T 1w8a_A           72 NAF-----EGASHIQELQLGENKIKEISN--------K---MFLGLHQLKTLNLYDNQISC----VMPGSFEHLNSLTSL  131 (192)
T ss_dssp             TTT-----TTCTTCCEEECCSCCCCEECS--------S---SSTTCTTCCEEECCSSCCCE----ECTTSSTTCTTCCEE
T ss_pred             hHc-----CCcccCCEEECCCCcCCccCH--------H---HhcCCCCCCEEECCCCcCCe----eCHHHhhcCCCCCEE
Confidence            443     457889999999999886433        2   23366889999999999987    245678888999999


Q ss_pred             eCCCCCCCc
Q 012512          387 DISDNTIED  395 (462)
Q Consensus       387 ~Ls~N~l~~  395 (462)
                      ++++|++..
T Consensus       132 ~L~~N~l~c  140 (192)
T 1w8a_A          132 NLASNPFNC  140 (192)
T ss_dssp             ECTTCCBCC
T ss_pred             EeCCCCccC
Confidence            999999774

>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=99.23  E-value=1.4e-13  Score=133.14  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=9.5

Q ss_pred             hhcCCCCCEEeCCCCCCCc
Q 012512          377 LVHIPNLEILDISDNTIED  395 (462)
Q Consensus       377 l~~~~~L~~L~Ls~N~l~~  395 (462)
                      +..+++|+.||+++|.|+.
T Consensus       198 f~~l~~L~~LdLs~N~l~~  216 (350)
T 4ay9_X          198 FHGASGPVILDISRTRIHS  216 (350)
T ss_dssp             TTTEECCSEEECTTSCCCC
T ss_pred             hccCcccchhhcCCCCcCc
Confidence            4444555555555555443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.22  E-value=3e-13  Score=119.69  Aligned_cols=142  Identities=18%  Similarity=0.172  Sum_probs=99.3

Q ss_pred             HHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEc
Q 012512          281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNL  360 (462)
Q Consensus       281 l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L  360 (462)
                      ++..+..+++|++|++++|.+.+ .+ .+     ..+++|++|++++|.++. .|        ..+.   .+++|++|++
T Consensus        40 l~~~~~~l~~L~~L~ls~n~l~~-l~-~~-----~~l~~L~~L~l~~n~l~~-l~--------~~~~---~~~~L~~L~L  100 (198)
T 1ds9_A           40 MDATLSTLKACKHLALSTNNIEK-IS-SL-----SGMENLRILSLGRNLIKK-IE--------NLDA---VADTLEELWI  100 (198)
T ss_dssp             CHHHHHHTTTCSEEECSEEEESC-CC-CH-----HHHTTCCEEEEEEEEECS-CS--------SHHH---HHHHCSEEEE
T ss_pred             hhHHHhcCCCCCEEECCCCCCcc-cc-cc-----ccCCCCCEEECCCCCccc-cc--------chhh---cCCcCCEEEC
Confidence            34466777899999999988877 22 33     224789999999998874 12        2333   2367899999


Q ss_pred             cCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh------HHHHH
Q 012512          361 RGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG------VSQLL  434 (462)
Q Consensus       361 ~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~------~~~l~  434 (462)
                      ++|++++     ++ .+..+++|+.|++++|.|++      ++.+ ..+..+++|+.|++++|+++...      .....
T Consensus       101 ~~N~l~~-----l~-~~~~l~~L~~L~l~~N~i~~------~~~~-~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~  167 (198)
T 1ds9_A          101 SYNQIAS-----LS-GIEKLVNLRVLYMSNNKITN------WGEI-DKLAALDKLEDLLLAGNPLYNDYKENNATSEYRI  167 (198)
T ss_dssp             EEEECCC-----HH-HHHHHHHSSEEEESEEECCC------HHHH-HHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHH
T ss_pred             cCCcCCc-----CC-ccccCCCCCEEECCCCcCCc------hhHH-HHHhcCCCCCEEEecCCccccccccccchHHHHH
Confidence            9999986     44 57788899999999999887      3322 34567789999999999886642      11223


Q ss_pred             HHHhcCCCCCcEEEccCCCCCCc
Q 012512          435 DTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      ..+.. .++|++||  +|.++++
T Consensus       168 ~~~~~-l~~L~~Ld--~~~i~~~  187 (198)
T 1ds9_A          168 EVVKR-LPNLKKLD--GMPVDVD  187 (198)
T ss_dssp             HHHHH-CSSCSEEC--CGGGTTT
T ss_pred             HHHHh-CCCcEEEC--CcccCHH
Confidence            34566 45599887  6777653

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.20  E-value=2.9e-12  Score=135.54  Aligned_cols=114  Identities=25%  Similarity=0.291  Sum_probs=95.4

Q ss_pred             hhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       314 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      +..+..|+.|+|++|.+.. ++        ..+.   ++++|++|+|++|.|+.     ++..+..+++|+.|+|++|.|
T Consensus       220 ~~~l~~L~~L~Ls~n~l~~-l~--------~~~~---~l~~L~~L~Ls~N~l~~-----lp~~~~~l~~L~~L~Ls~N~l  282 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQIFN-IS--------ANIF---KYDFLTRLYLNGNSLTE-----LPAEIKNLSNLRVLDLSHNRL  282 (727)
T ss_dssp             --CCCCCCEEECTTSCCSC-CC--------GGGG---GCCSCSCCBCTTSCCSC-----CCGGGGGGTTCCEEECTTSCC
T ss_pred             hccCCCCcEEECCCCCCCC-CC--------hhhc---CCCCCCEEEeeCCcCcc-----cChhhhCCCCCCEEeCcCCcC
Confidence            3557899999999999884 22        4444   45899999999999994     788899999999999999999


Q ss_pred             CchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          394 EDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       394 ~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +.      +|   ..+..+++|+.|+|++|.|+.     ++..+..+ ++|++|+|++|.|++.++
T Consensus       283 ~~------lp---~~~~~l~~L~~L~L~~N~l~~-----lp~~~~~l-~~L~~L~L~~N~l~~~~p  333 (727)
T 4b8c_D          283 TS------LP---AELGSCFQLKYFYFFDNMVTT-----LPWEFGNL-CNLQFLGVEGNPLEKQFL  333 (727)
T ss_dssp             SS------CC---SSGGGGTTCSEEECCSSCCCC-----CCSSTTSC-TTCCCEECTTSCCCSHHH
T ss_pred             Cc------cC---hhhcCCCCCCEEECCCCCCCc-----cChhhhcC-CCccEEeCCCCccCCCCh
Confidence            85      66   667888999999999999986     66677774 569999999999998665

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.18  E-value=7.8e-12  Score=110.00  Aligned_cols=129  Identities=19%  Similarity=0.128  Sum_probs=97.8

Q ss_pred             ccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccC
Q 012512          259 IENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYD  338 (462)
Q Consensus       259 L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~  338 (462)
                      -+.++++++.+....         ..+  .+.|++|++++|.++. .+..     +..+++|++|+|++|.+++..+   
T Consensus        12 ~~~l~~~~~~l~~ip---------~~~--~~~l~~L~L~~n~i~~-ip~~-----~~~l~~L~~L~Ls~N~i~~i~~---   71 (193)
T 2wfh_A           12 DTVVRCSNKGLKVLP---------KGI--PRDVTELYLDGNQFTL-VPKE-----LSNYKHLTLIDLSNNRISTLSN---   71 (193)
T ss_dssp             TTEEECTTSCCSSCC---------SCC--CTTCCEEECCSSCCCS-CCGG-----GGGCTTCCEEECCSSCCCCCCT---
T ss_pred             CCEEEcCCCCCCcCC---------CCC--CCCCCEEECCCCcCch-hHHH-----hhcccCCCEEECCCCcCCEeCH---
Confidence            467899998887622         211  2589999999999875 3332     3557899999999999986433   


Q ss_pred             cccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEE
Q 012512          339 RSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL  418 (462)
Q Consensus       339 ~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L  418 (462)
                           .   .+.++++|++|+|++|+|+..    .+.++..+++|+.|+|++|.|+.      ++.  ..+..+++|+.|
T Consensus        72 -----~---~f~~l~~L~~L~Ls~N~l~~i----~~~~f~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L  131 (193)
T 2wfh_A           72 -----Q---SFSNMTQLLTLILSYNRLRCI----PPRTFDGLKSLRLLSLHGNDISV------VPE--GAFNDLSALSHL  131 (193)
T ss_dssp             -----T---TTTTCTTCCEEECCSSCCCBC----CTTTTTTCTTCCEEECCSSCCCB------CCT--TTTTTCTTCCEE
T ss_pred             -----h---HccCCCCCCEEECCCCccCEe----CHHHhCCCCCCCEEECCCCCCCe------eCh--hhhhcCccccEE
Confidence                 2   233678999999999999972    33468889999999999999886      442  457778999999


Q ss_pred             EccCCCCCh
Q 012512          419 YLENCELSG  427 (462)
Q Consensus       419 ~L~~n~l~~  427 (462)
                      ++++|++..
T Consensus       132 ~L~~N~~~C  140 (193)
T 2wfh_A          132 AIGANPLYC  140 (193)
T ss_dssp             ECCSSCEEC
T ss_pred             EeCCCCeec
Confidence            999999764

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.18  E-value=1.6e-11  Score=106.32  Aligned_cols=144  Identities=17%  Similarity=0.182  Sum_probs=103.5

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      +..+.++++++.+....         .  ...++|++|++++|.+.......     +..+++|++|++++|.+++..+ 
T Consensus         7 C~~~~l~~~~~~l~~~p---------~--~~~~~l~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~n~l~~~~~-   69 (177)
T 2o6r_A            7 CSGTEIRCNSKGLTSVP---------T--GIPSSATRLELESNKLQSLPHGV-----FDKLTQLTKLSLSQNQIQSLPD-   69 (177)
T ss_dssp             EETTEEECCSSCCSSCC---------T--TCCTTCSEEECCSSCCCCCCTTT-----TTTCTTCSEEECCSSCCCCCCT-
T ss_pred             eCCCEEEecCCCCccCC---------C--CCCCCCcEEEeCCCcccEeCHHH-----hcCcccccEEECCCCcceEeCh-
Confidence            35678999998887622         1  12368999999999988643322     3456899999999999886333 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                             ..+   .++++|++|++++|+++.    ..+..+..+++|++|++++|.|+.      ++.  ..+..+++|+
T Consensus        70 -------~~~---~~l~~L~~L~l~~N~l~~----~~~~~~~~l~~L~~L~l~~N~l~~------~~~--~~~~~l~~L~  127 (177)
T 2o6r_A           70 -------GVF---DKLTKLTILYLHENKLQS----LPNGVFDKLTQLKELALDTNQLKS------VPD--GIFDRLTSLQ  127 (177)
T ss_dssp             -------TTT---TTCTTCCEEECCSSCCCC----CCTTTTTTCTTCCEEECCSSCCSC------CCT--TTTTTCTTCC
T ss_pred             -------hHc---cCCCccCEEECCCCCccc----cCHHHhhCCcccCEEECcCCcceE------eCH--HHhcCCcccC
Confidence                   222   366899999999999986    223356888999999999999886      442  4456778999


Q ss_pred             EEEccCCCCChhh--HHHHHHHHhc
Q 012512          417 ELYLENCELSGRG--VSQLLDTLST  439 (462)
Q Consensus       417 ~L~L~~n~l~~~~--~~~l~~~l~~  439 (462)
                      .|++++|+++...  ...+...+..
T Consensus       128 ~L~l~~N~~~~~~~~l~~l~~~~~~  152 (177)
T 2o6r_A          128 KIWLHTNPWDCSCPRIDYLSRWLNK  152 (177)
T ss_dssp             EEECCSSCBCCCHHHHHHHHHHHHH
T ss_pred             EEEecCCCeeccCccHHHHHHHHhh
Confidence            9999999987643  3344444544

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.15  E-value=3.1e-11  Score=106.15  Aligned_cols=126  Identities=21%  Similarity=0.228  Sum_probs=90.5

Q ss_pred             cEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHH
Q 012512          228 ASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGR  307 (462)
Q Consensus       228 ~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~  307 (462)
                      +.++++++.++ ..+        ...  ..+|++|++++|.+..         ++..+..+++|++|+|++|.|+.....
T Consensus        13 ~~l~~~~~~l~-~ip--------~~~--~~~l~~L~L~~n~i~~---------ip~~~~~l~~L~~L~Ls~N~i~~i~~~   72 (193)
T 2wfh_A           13 TVVRCSNKGLK-VLP--------KGI--PRDVTELYLDGNQFTL---------VPKELSNYKHLTLIDLSNNRISTLSNQ   72 (193)
T ss_dssp             TEEECTTSCCS-SCC--------SCC--CTTCCEEECCSSCCCS---------CCGGGGGCTTCCEEECCSSCCCCCCTT
T ss_pred             CEEEcCCCCCC-cCC--------CCC--CCCCCEEECCCCcCch---------hHHHhhcccCCCEEECCCCcCCEeCHh
Confidence            57788888776 221        111  3578889998888875         335677788889999998888764433


Q ss_pred             HHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEE
Q 012512          308 MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEIL  386 (462)
Q Consensus       308 ~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L  386 (462)
                      .     +..+++|++|+|++|.+++..+        ..+   .++++|+.|+|++|+|+.     +++ ++..+++|+.|
T Consensus        73 ~-----f~~l~~L~~L~Ls~N~l~~i~~--------~~f---~~l~~L~~L~L~~N~l~~-----~~~~~~~~l~~L~~L  131 (193)
T 2wfh_A           73 S-----FSNMTQLLTLILSYNRLRCIPP--------RTF---DGLKSLRLLSLHGNDISV-----VPEGAFNDLSALSHL  131 (193)
T ss_dssp             T-----TTTCTTCCEEECCSSCCCBCCT--------TTT---TTCTTCCEEECCSSCCCB-----CCTTTTTTCTTCCEE
T ss_pred             H-----ccCCCCCCEEECCCCccCEeCH--------HHh---CCCCCCCEEECCCCCCCe-----eChhhhhcCccccEE
Confidence            3     3456888999999988886433        223   366788899999998885     443 57778888999


Q ss_pred             eCCCCCCC
Q 012512          387 DISDNTIE  394 (462)
Q Consensus       387 ~Ls~N~l~  394 (462)
                      ++++|++.
T Consensus       132 ~L~~N~~~  139 (193)
T 2wfh_A          132 AIGANPLY  139 (193)
T ss_dssp             ECCSSCEE
T ss_pred             EeCCCCee
Confidence            99988864

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.14  E-value=3.9e-11  Score=103.91  Aligned_cols=110  Identities=15%  Similarity=0.169  Sum_probs=58.5

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .+|++|++++|.+..        .....+..+++|++|++++|.++......     +..+++|++|++++|.+++..+ 
T Consensus        28 ~~l~~L~l~~n~l~~--------~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-----~~~l~~L~~L~l~~N~l~~~~~-   93 (177)
T 2o6r_A           28 SSATRLELESNKLQS--------LPHGVFDKLTQLTKLSLSQNQIQSLPDGV-----FDKLTKLTILYLHENKLQSLPN-   93 (177)
T ss_dssp             TTCSEEECCSSCCCC--------CCTTTTTTCTTCSEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT-
T ss_pred             CCCcEEEeCCCcccE--------eCHHHhcCcccccEEECCCCcceEeChhH-----ccCCCccCEEECCCCCccccCH-
Confidence            456666666666554        12223455566666666666665422211     2334566666666666654222 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~  395 (462)
                             ..+.   .+++|++|++++|+++.     +++ .+..+++|++|++++|++..
T Consensus        94 -------~~~~---~l~~L~~L~l~~N~l~~-----~~~~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           94 -------GVFD---KLTQLKELALDTNQLKS-----VPDGIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             -------TTTT---TCTTCCEEECCSSCCSC-----CCTTTTTTCTTCCEEECCSSCBCC
T ss_pred             -------HHhh---CCcccCEEECcCCcceE-----eCHHHhcCCcccCEEEecCCCeec
Confidence                   1122   44566666666666654     222 24556666666666666554

>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=99.11  E-value=2.3e-12  Score=124.63  Aligned_cols=221  Identities=13%  Similarity=0.052  Sum_probs=144.5

Q ss_pred             ccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccE
Q 012512          182 QNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIEN  261 (462)
Q Consensus       182 ~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~  261 (462)
                      .+....++|..+  .+++++|+|++|.+.......    +.++++|++|+|++|.+.......       .+..+.++++
T Consensus        17 ~~~~Lt~iP~~l--~~~l~~L~Ls~N~i~~i~~~~----f~~l~~L~~L~Ls~N~i~~~i~~~-------~f~~L~~l~~   83 (350)
T 4ay9_X           17 QESKVTEIPSDL--PRNAIELRFVLTKLRVIQKGA----FSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHE   83 (350)
T ss_dssp             ESTTCCSCCTTC--CTTCSEEEEESCCCSEECTTS----STTCTTCCEEEEECCTTCCEECTT-------SBCSCTTCCE
T ss_pred             cCCCCCccCcCc--CCCCCEEEccCCcCCCcCHHH----HcCCCCCCEEECcCCCCCCccChh-------Hhhcchhhhh
Confidence            334444444444  357999999999976543322    457899999999999875322211       1112556554


Q ss_pred             -EecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCC-CCCCcccccCc
Q 012512          262 -LSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGN-SIGGWLSKYDR  339 (462)
Q Consensus       262 -L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~~~  339 (462)
                       +.+++|.+..        .....+..+++|++|++++|.+.......     .....++..|+++++ .+....+    
T Consensus        84 ~l~~~~N~l~~--------l~~~~f~~l~~L~~L~l~~n~l~~~~~~~-----~~~~~~l~~l~l~~~~~i~~l~~----  146 (350)
T 4ay9_X           84 IRIEKANNLLY--------INPEAFQNLPNLQYLLISNTGIKHLPDVH-----KIHSLQKVLLDIQDNINIHTIER----  146 (350)
T ss_dssp             EEEEEETTCCE--------ECTTSBCCCTTCCEEEEEEECCSSCCCCT-----TCCBSSCEEEEEESCTTCCEECT----
T ss_pred             hhcccCCcccc--------cCchhhhhccccccccccccccccCCchh-----hcccchhhhhhhccccccccccc----
Confidence             5666777776        23456788899999999999987633221     123456788998775 4553111    


Q ss_pred             ccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCC-CCCCchhHHhHHHHHHhhcCCCCCccEE
Q 012512          340 SGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISD-NTIEDDGIRSLIPYFVQASERCNPLVEL  418 (462)
Q Consensus       340 ~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~-N~l~~~g~~~l~~~l~~~l~~~~~L~~L  418 (462)
                          ..+...  ...++.|+|++|+|+.     ++.......+|+++++++ |.++.      +|.  ..+..+++|+.|
T Consensus       147 ----~~f~~~--~~~l~~L~L~~N~i~~-----i~~~~f~~~~L~~l~l~~~n~l~~------i~~--~~f~~l~~L~~L  207 (350)
T 4ay9_X          147 ----NSFVGL--SFESVILWLNKNGIQE-----IHNSAFNGTQLDELNLSDNNNLEE------LPN--DVFHGASGPVIL  207 (350)
T ss_dssp             ----TSSTTS--BSSCEEEECCSSCCCE-----ECTTSSTTEEEEEEECTTCTTCCC------CCT--TTTTTEECCSEE
T ss_pred             ----cchhhc--chhhhhhccccccccC-----CChhhccccchhHHhhccCCcccC------CCH--HHhccCcccchh
Confidence                112211  1468999999999996     666555677899999985 66776      553  567788999999


Q ss_pred             EccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          419 YLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       419 ~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      ++++|+|+.     ++...   -..|+.|.+.++.--..+|
T Consensus       208 dLs~N~l~~-----lp~~~---~~~L~~L~~l~~~~l~~lP  240 (350)
T 4ay9_X          208 DISRTRIHS-----LPSYG---LENLKKLRARSTYNLKKLP  240 (350)
T ss_dssp             ECTTSCCCC-----CCSSS---CTTCCEEECTTCTTCCCCC
T ss_pred             hcCCCCcCc-----cChhh---hccchHhhhccCCCcCcCC
Confidence            999999987     33221   2348888876664333333

>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=99.09  E-value=1.2e-10  Score=99.17  Aligned_cols=102  Identities=15%  Similarity=0.163  Sum_probs=72.8

Q ss_pred             CCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCC-CCCcchHHHHHHHhhcCCCCCEEeCCCCC-CCc
Q 012512          318 SSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN-NLCKADARDLGSALVHIPNLEILDISDNT-IED  395 (462)
Q Consensus       318 ~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~  395 (462)
                      ..|++||+++|.+++           .++..+.++++|++|+|++| .|+|.|++.+...-..+++|++|++++|. |+|
T Consensus        61 ~~L~~LDLs~~~Itd-----------~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD  129 (176)
T 3e4g_A           61 YKIQAIDATDSCIMS-----------IGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTD  129 (176)
T ss_dssp             CCEEEEEEESCCCCG-----------GGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCH
T ss_pred             ceEeEEeCcCCCccH-----------HHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCH
Confidence            468888888888876           33444457788999999998 58998877765421124578999999886 999


Q ss_pred             hhHHhHHHHHHhhcCCCCCccEEEccCCC-CChhhH--HHHHHHHh
Q 012512          396 DGIRSLIPYFVQASERCNPLVELYLENCE-LSGRGV--SQLLDTLS  438 (462)
Q Consensus       396 ~g~~~l~~~l~~~l~~~~~L~~L~L~~n~-l~~~~~--~~l~~~l~  438 (462)
                      .|+.++.        ++++|++|++++|. +++.|.  ..+-+++.
T Consensus       130 ~Gl~~L~--------~~~~L~~L~L~~c~~Itd~gl~~~~L~~~lP  167 (176)
T 3e4g_A          130 KGIIALH--------HFRNLKYLFLSDLPGVKEKEKIVQAFKTSLP  167 (176)
T ss_dssp             HHHHHGG--------GCTTCCEEEEESCTTCCCHHHHHHHHHHHCT
T ss_pred             HHHHHHh--------cCCCCCEEECCCCCCCCchHHHHHHHHHHCC
Confidence            8876652        35889999999985 887653  33444443

>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=1.1e-12  Score=115.93  Aligned_cols=137  Identities=25%  Similarity=0.246  Sum_probs=99.9

Q ss_pred             hcCCCCCCEEecCCCCCChhhHH------HHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEE
Q 012512          285 LSSGRSLCSLKLRHCHLDRDFGR------MVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLL  358 (462)
Q Consensus       285 l~~l~~L~~L~Ls~n~l~~~~~~------~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L  358 (462)
                      +.....++.++++.+.+.+..+.      .+     ..+++|++|++++|.+++         ++ .+.   ++++|+.|
T Consensus        14 ~~~~~~l~~l~l~~~~l~~~~~~l~~l~~~~-----~~l~~L~~L~ls~n~l~~---------l~-~~~---~l~~L~~L   75 (198)
T 1ds9_A           14 FEERKSVVATEAEKVELHGMIPPIEKMDATL-----STLKACKHLALSTNNIEK---------IS-SLS---GMENLRIL   75 (198)
T ss_dssp             HHHTTCCCCTTCSEEECCBCCTTCCCCHHHH-----HHTTTCSEEECSEEEESC---------CC-CHH---HHTTCCEE
T ss_pred             HHhcccccCcchheeEeccccCcHhhhhHHH-----hcCCCCCEEECCCCCCcc---------cc-ccc---cCCCCCEE
Confidence            34445666666666655544332      33     236899999999999885         11 233   45789999


Q ss_pred             EccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHh
Q 012512          359 NLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLS  438 (462)
Q Consensus       359 ~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~  438 (462)
                      ++++|++++     ++..+..+++|+.|++++|.+++      ++.    +..+++|+.|++++|+++..+.   ...+.
T Consensus        76 ~l~~n~l~~-----l~~~~~~~~~L~~L~L~~N~l~~------l~~----~~~l~~L~~L~l~~N~i~~~~~---~~~l~  137 (198)
T 1ds9_A           76 SLGRNLIKK-----IENLDAVADTLEELWISYNQIAS------LSG----IEKLVNLRVLYMSNNKITNWGE---IDKLA  137 (198)
T ss_dssp             EEEEEEECS-----CSSHHHHHHHCSEEEEEEEECCC------HHH----HHHHHHSSEEEESEEECCCHHH---HHHHT
T ss_pred             ECCCCCccc-----ccchhhcCCcCCEEECcCCcCCc------CCc----cccCCCCCEEECCCCcCCchhH---HHHHh
Confidence            999999985     66667777899999999999997      443    3344899999999999997422   13566


Q ss_pred             cCCCCCcEEEccCCCCCCcc
Q 012512          439 TLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       439 ~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      . .++|++|++++|++++.+
T Consensus       138 ~-l~~L~~L~l~~N~l~~~~  156 (198)
T 1ds9_A          138 A-LDKLEDLLLAGNPLYNDY  156 (198)
T ss_dssp             T-TTTCSEEEECSCHHHHHH
T ss_pred             c-CCCCCEEEecCCcccccc
Confidence            6 456999999999987653

>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=98.98  E-value=6.9e-11  Score=113.10  Aligned_cols=125  Identities=15%  Similarity=0.143  Sum_probs=79.1

Q ss_pred             CCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcch
Q 012512          290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD  369 (462)
Q Consensus       290 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~  369 (462)
                      +++.+.+.++ +.......+.    ..+++|+.++|++|.++....           ..+.+|.+|+.|+|.+| ++.-+
T Consensus       203 ~~~~l~~~~~-l~~~~~~~l~----~~~~~L~~l~L~~n~i~~I~~-----------~aF~~~~~L~~l~l~~n-i~~I~  265 (329)
T 3sb4_A          203 DINFLTIEGK-LDNADFKLIR----DYMPNLVSLDISKTNATTIPD-----------FTFAQKKYLLKIKLPHN-LKTIG  265 (329)
T ss_dssp             GCSEEEEEEC-CCHHHHHHHH----HHCTTCCEEECTTBCCCEECT-----------TTTTTCTTCCEEECCTT-CCEEC
T ss_pred             ccceEEEeee-ecHHHHHHHH----HhcCCCeEEECCCCCcceecH-----------hhhhCCCCCCEEECCcc-cceeh
Confidence            4445555443 3333444332    235788888888888774322           23346788888888887 66421


Q ss_pred             HHHHHHHhhcCCCCC-EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEE
Q 012512          370 ARDLGSALVHIPNLE-ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLS  448 (462)
Q Consensus       370 ~~~l~~~l~~~~~L~-~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~  448 (462)
                          ..+|.+|++|+ .+++.+ .++.      ++.  ..+..+++|+.+++++|+++..+    ..++.. +.+|+.++
T Consensus       266 ----~~aF~~~~~L~~~l~l~~-~l~~------I~~--~aF~~c~~L~~l~l~~n~i~~I~----~~aF~~-~~~L~~ly  327 (329)
T 3sb4_A          266 ----QRVFSNCGRLAGTLELPA-SVTA------IEF--GAFMGCDNLRYVLATGDKITTLG----DELFGN-GVPSKLIY  327 (329)
T ss_dssp             ----TTTTTTCTTCCEEEEECT-TCCE------ECT--TTTTTCTTEEEEEECSSCCCEEC----TTTTCT-TCCCCEEE
T ss_pred             ----HHHhhCChhccEEEEEcc-cceE------Ech--hhhhCCccCCEEEeCCCccCccc----hhhhcC-Ccchhhhc
Confidence                23578888888 888887 5544      322  56778888888888888877742    224555 55687775


Q ss_pred             c
Q 012512          449 I  449 (462)
Q Consensus       449 L  449 (462)
                      .
T Consensus       328 ~  328 (329)
T 3sb4_A          328 K  328 (329)
T ss_dssp             C
T ss_pred             c
Confidence            3

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.98  E-value=1.4e-10  Score=99.78  Aligned_cols=119  Identities=21%  Similarity=0.222  Sum_probs=91.5

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcc
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKA  368 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~  368 (462)
                      ...+.+++++|.+.. .+..+       ..+|++|+|++|.+++..+        ..+.   ++.+|++|+|++|+|+. 
T Consensus         9 C~~~~l~~s~n~l~~-ip~~~-------~~~l~~L~L~~N~i~~~~~--------~~~~---~l~~L~~L~Ls~N~l~~-   68 (170)
T 3g39_A            9 CSGTTVDCSGKSLAS-VPTGI-------PTTTQVLYLYDNQITKLEP--------GVFD---RLTQLTRLDLDNNQLTV-   68 (170)
T ss_dssp             EETTEEECTTSCCSS-CCSCC-------CTTCSEEECCSSCCCCCCT--------TTTT---TCTTCSEEECCSSCCCC-
T ss_pred             cCCCEEEeCCCCcCc-cCccC-------CCCCcEEEcCCCcCCccCh--------hhhc---CcccCCEEECCCCCcCc-
Confidence            367899999999987 33322       3789999999999987444        3333   66899999999999996 


Q ss_pred             hHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh--hHHHHHHHHhc
Q 012512          369 DARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR--GVSQLLDTLST  439 (462)
Q Consensus       369 ~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~--~~~~l~~~l~~  439 (462)
                          +++ .+..+++|++|+|++|.|+.      ++.  ..+..+++|+.|+|++|+++..  ....+...+..
T Consensus        69 ----l~~~~f~~l~~L~~L~L~~N~l~~------~~~--~~~~~l~~L~~L~L~~N~~~c~c~~l~~l~~~l~~  130 (170)
T 3g39_A           69 ----LPAGVFDKLTQLTQLSLNDNQLKS------IPR--GAFDNLKSLTHIWLLNNPWDCACSDILYLSRWISQ  130 (170)
T ss_dssp             ----CCTTTTTTCTTCCEEECCSSCCCC------CCT--TTTTTCTTCCEEECCSSCBCTTBGGGHHHHHHHHH
T ss_pred             ----cChhhccCCCCCCEEECCCCccCE------eCH--HHhcCCCCCCEEEeCCCCCCCCchhHHHHHHHHHh
Confidence                444 46889999999999999986      432  4577889999999999998765  34556666655

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.96  E-value=6.8e-10  Score=95.37  Aligned_cols=108  Identities=16%  Similarity=0.079  Sum_probs=81.8

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      +..+.+++++|.+....         ..+  .+.|++|+|++|.|....+..+     ..+++|++|+|++|.+++..+ 
T Consensus         9 C~~~~l~~s~n~l~~ip---------~~~--~~~l~~L~L~~N~i~~~~~~~~-----~~l~~L~~L~Ls~N~l~~l~~-   71 (170)
T 3g39_A            9 CSGTTVDCSGKSLASVP---------TGI--PTTTQVLYLYDNQITKLEPGVF-----DRLTQLTRLDLDNNQLTVLPA-   71 (170)
T ss_dssp             EETTEEECTTSCCSSCC---------SCC--CTTCSEEECCSSCCCCCCTTTT-----TTCTTCSEEECCSSCCCCCCT-
T ss_pred             cCCCEEEeCCCCcCccC---------ccC--CCCCcEEEcCCCcCCccChhhh-----cCcccCCEEECCCCCcCccCh-
Confidence            35688999999887722         222  2689999999999987544433     457899999999999986333 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCch
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIEDD  396 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~  396 (462)
                             ..   +.++++|++|+|++|+|+.     +++ .+..+++|+.|+|++|++...
T Consensus        72 -------~~---f~~l~~L~~L~L~~N~l~~-----~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           72 -------GV---FDKLTQLTQLSLNDNQLKS-----IPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             -------TT---TTTCTTCCEEECCSSCCCC-----CCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             -------hh---ccCCCCCCEEECCCCccCE-----eCHHHhcCCCCCCEEEeCCCCCCCC
Confidence                   22   2366899999999999986     444 588899999999999998643

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.95  E-value=2.7e-10  Score=98.25  Aligned_cols=118  Identities=19%  Similarity=0.243  Sum_probs=89.9

Q ss_pred             CCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcch
Q 012512          290 SLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD  369 (462)
Q Consensus       290 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~  369 (462)
                      .-+.+++++|.+.. .+..+       .++|++|+|++|.+++..+        ..+.   ++++|+.|+|++|+|+.  
T Consensus        13 ~~~~l~~~~n~l~~-iP~~~-------~~~L~~L~Ls~N~l~~~~~--------~~~~---~l~~L~~L~Ls~N~l~~--   71 (174)
T 2r9u_A           13 DQTLVNCQNIRLAS-VPAGI-------PTDKQRLWLNNNQITKLEP--------GVFD---HLVNLQQLYFNSNKLTA--   71 (174)
T ss_dssp             CSSEEECCSSCCSS-CCSCC-------CTTCSEEECCSSCCCCCCT--------TTTT---TCTTCCEEECCSSCCCC--
T ss_pred             CCcEEEeCCCCCCc-cCCCc-------CCCCcEEEeCCCCccccCH--------HHhc---CCcCCCEEECCCCCCCc--
Confidence            45789999999976 44322       3789999999999987444        3333   66899999999999996  


Q ss_pred             HHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh--hHHHHHHHHhc
Q 012512          370 ARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR--GVSQLLDTLST  439 (462)
Q Consensus       370 ~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~--~~~~l~~~l~~  439 (462)
                         +++ .+..+++|+.|+|++|.|+.      ++.  ..+..+++|+.|+|++|++...  .+..+...+..
T Consensus        72 ---i~~~~~~~l~~L~~L~L~~N~l~~------l~~--~~~~~l~~L~~L~L~~N~~~c~~~~~~~l~~~~~~  133 (174)
T 2r9u_A           72 ---IPTGVFDKLTQLTQLDLNDNHLKS------IPR--GAFDNLKSLTHIYLYNNPWDCECRDIMYLRNWVAD  133 (174)
T ss_dssp             ---CCTTTTTTCTTCCEEECCSSCCCC------CCT--TTTTTCTTCSEEECCSSCBCTTBGGGHHHHHHHHH
T ss_pred             ---cChhHhCCcchhhEEECCCCccce------eCH--HHhccccCCCEEEeCCCCcccccccHHHHHHHHHh
Confidence               554 46889999999999999986      442  4477889999999999998764  23445555544

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.90  E-value=9.8e-10  Score=94.71  Aligned_cols=106  Identities=13%  Similarity=0.087  Sum_probs=80.5

Q ss_pred             CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccccc
Q 012512          258 KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       258 ~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      .-+.++++++.+..         ++..+  .++|++|+|++|.+....+..     +..+++|++|+|++|.+++..+  
T Consensus        13 ~~~~l~~~~n~l~~---------iP~~~--~~~L~~L~Ls~N~l~~~~~~~-----~~~l~~L~~L~Ls~N~l~~i~~--   74 (174)
T 2r9u_A           13 DQTLVNCQNIRLAS---------VPAGI--PTDKQRLWLNNNQITKLEPGV-----FDHLVNLQQLYFNSNKLTAIPT--   74 (174)
T ss_dssp             CSSEEECCSSCCSS---------CCSCC--CTTCSEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--
T ss_pred             CCcEEEeCCCCCCc---------cCCCc--CCCCcEEEeCCCCccccCHHH-----hcCCcCCCEEECCCCCCCccCh--
Confidence            34789999998876         22222  268999999999998754443     3457899999999999986322  


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCCc
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~  395 (462)
                            ..   +.++++|++|+|++|+|+.     +++ .+..+++|+.|+|++|++..
T Consensus        75 ------~~---~~~l~~L~~L~L~~N~l~~-----l~~~~~~~l~~L~~L~L~~N~~~c  119 (174)
T 2r9u_A           75 ------GV---FDKLTQLTQLDLNDNHLKS-----IPRGAFDNLKSLTHIYLYNNPWDC  119 (174)
T ss_dssp             ------TT---TTTCTTCCEEECCSSCCCC-----CCTTTTTTCTTCSEEECCSSCBCT
T ss_pred             ------hH---hCCcchhhEEECCCCccce-----eCHHHhccccCCCEEEeCCCCccc
Confidence                  22   2366899999999999986     554 48889999999999999874

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.88  E-value=9e-10  Score=93.80  Aligned_cols=94  Identities=14%  Similarity=0.037  Sum_probs=65.4

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCC-CCCCccEEEccCC-CC
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGK-SLQSLRLLNLRGN-NL  365 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~-~l~~L~~L~L~~n-~l  365 (462)
                      ..|++||+++|.+++.++..+     ..+++|++|+|++|. +++..-        ..+.... .+++|++|+|++| +|
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L-----~~~~~L~~L~L~~C~~ItD~gL--------~~L~~~~~~~~~L~~L~Ls~C~~I  127 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHM-----EGLQYVEKIRLCKCHYIEDGCL--------ERLSQLENLQKSMLEMEIISCGNV  127 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGG-----TTCSCCCEEEEESCTTCCHHHH--------HHHHTCHHHHHHCCEEEEESCTTC
T ss_pred             ceEeEEeCcCCCccHHHHHHh-----cCCCCCCEEEeCCCCccCHHHH--------HHHHhcccccCCCCEEEcCCCCcC
Confidence            367888888888888777765     346788888888885 765221        2222110 0146889999998 59


Q ss_pred             CcchHHHHHHHhhcCCCCCEEeCCCCC-CCchhHH
Q 012512          366 CKADARDLGSALVHIPNLEILDISDNT-IEDDGIR  399 (462)
Q Consensus       366 ~~~~~~~l~~~l~~~~~L~~L~Ls~N~-l~~~g~~  399 (462)
                      ||.|+..    +.++++|++|++++++ |+|.|+.
T Consensus       128 TD~Gl~~----L~~~~~L~~L~L~~c~~Itd~gl~  158 (176)
T 3e4g_A          128 TDKGIIA----LHHFRNLKYLFLSDLPGVKEKEKI  158 (176)
T ss_dssp             CHHHHHH----GGGCTTCCEEEEESCTTCCCHHHH
T ss_pred             CHHHHHH----HhcCCCCCEEECCCCCCCCchHHH
Confidence            9988765    4568899999999886 8887643

>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=2.3e-09  Score=102.41  Aligned_cols=86  Identities=12%  Similarity=0.183  Sum_probs=67.6

Q ss_pred             CCCccEEEccCCCCCcchHHHHH-HHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc-EEEccCCCCChhh
Q 012512          352 LQSLRLLNLRGNNLCKADARDLG-SALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV-ELYLENCELSGRG  429 (462)
Q Consensus       352 l~~L~~L~L~~n~l~~~~~~~l~-~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~-~L~L~~n~l~~~~  429 (462)
                      +.+|+.|+|++|+++.     ++ .+|.+|++|++++|.+| +..      ++.  ..+..+.+|+ .+++.+ .++..+
T Consensus       225 ~~~L~~l~L~~n~i~~-----I~~~aF~~~~~L~~l~l~~n-i~~------I~~--~aF~~~~~L~~~l~l~~-~l~~I~  289 (329)
T 3sb4_A          225 MPNLVSLDISKTNATT-----IPDFTFAQKKYLLKIKLPHN-LKT------IGQ--RVFSNCGRLAGTLELPA-SVTAIE  289 (329)
T ss_dssp             CTTCCEEECTTBCCCE-----ECTTTTTTCTTCCEEECCTT-CCE------ECT--TTTTTCTTCCEEEEECT-TCCEEC
T ss_pred             cCCCeEEECCCCCcce-----ecHhhhhCCCCCCEEECCcc-cce------ehH--HHhhCChhccEEEEEcc-cceEEc
Confidence            5799999999999986     43 36889999999999998 654      433  6788889999 999998 666532


Q ss_pred             HHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          430 VSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       430 ~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                          ..++.. +.+|+.+++++|.++.-
T Consensus       290 ----~~aF~~-c~~L~~l~l~~n~i~~I  312 (329)
T 3sb4_A          290 ----FGAFMG-CDNLRYVLATGDKITTL  312 (329)
T ss_dssp             ----TTTTTT-CTTEEEEEECSSCCCEE
T ss_pred             ----hhhhhC-CccCCEEEeCCCccCcc
Confidence                245666 67799999999988653

>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=98.59  E-value=1.9e-08  Score=96.67  Aligned_cols=106  Identities=22%  Similarity=0.246  Sum_probs=80.0

Q ss_pred             CEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecC-CCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcch
Q 012512          292 CSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSG-NSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKAD  369 (462)
Q Consensus       292 ~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~  369 (462)
                      ..++.+++ .|.. .+. +     ..+++|++|+|++ |.+++..+        ..+.   ++.+|+.|+|++|+|+.  
T Consensus        11 ~~v~~~~~n~l~~-ip~-l-----~~~~~L~~L~l~~~n~l~~~~~--------~~~~---~l~~L~~L~l~~N~l~~--   70 (347)
T 2ifg_A           11 SGLRCTRDGALDS-LHH-L-----PGAENLTELYIENQQHLQHLEL--------RDLR---GLGELRNLTIVKSGLRF--   70 (347)
T ss_dssp             SCEECCSSCCCTT-TTT-S-----CSCSCCSEEECCSCSSCCEECG--------GGSC---SCCCCSEEECCSSCCCE--
T ss_pred             CEEEcCCCCCCCc-cCC-C-----CCCCCeeEEEccCCCCCCCcCh--------hHhc---cccCCCEEECCCCccce--
Confidence            46788888 8876 444 3     4568899999996 99886433        3333   67899999999999997  


Q ss_pred             HHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh
Q 012512          370 ARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR  428 (462)
Q Consensus       370 ~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~  428 (462)
                        ..+.+|.++++|+.|+|++|.|+.      +|.  ..+..++ |+.|+|.+|++...
T Consensus        71 --~~~~~~~~l~~L~~L~l~~N~l~~------~~~--~~~~~~~-L~~l~l~~N~~~c~  118 (347)
T 2ifg_A           71 --VAPDAFHFTPRLSRLNLSFNALES------LSW--KTVQGLS-LQELVLSGNPLHCS  118 (347)
T ss_dssp             --ECTTGGGSCSCCCEEECCSSCCSC------CCS--TTTCSCC-CCEEECCSSCCCCC
T ss_pred             --eCHHHhcCCcCCCEEeCCCCccce------eCH--HHcccCC-ceEEEeeCCCccCC
Confidence              234578899999999999999886      442  3444444 99999999998753

>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=98.46  E-value=1e-07  Score=91.56  Aligned_cols=89  Identities=24%  Similarity=0.146  Sum_probs=49.8

Q ss_pred             hcCCCCCCEEecCC-CCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCC
Q 012512          285 LSSGRSLCSLKLRH-CHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN  363 (462)
Q Consensus       285 l~~l~~L~~L~Ls~-n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n  363 (462)
                      +..+++|++|+|++ |.|.......     +..+++|++|+|++|.|++..+        ..+.   ++++|+.|+|++|
T Consensus        27 l~~~~~L~~L~l~~~n~l~~~~~~~-----~~~l~~L~~L~l~~N~l~~~~~--------~~~~---~l~~L~~L~l~~N   90 (347)
T 2ifg_A           27 LPGAENLTELYIENQQHLQHLELRD-----LRGLGELRNLTIVKSGLRFVAP--------DAFH---FTPRLSRLNLSFN   90 (347)
T ss_dssp             SCSCSCCSEEECCSCSSCCEECGGG-----SCSCCCCSEEECCSSCCCEECT--------TGGG---SCSCCCEEECCSS
T ss_pred             CCCCCCeeEEEccCCCCCCCcChhH-----hccccCCCEEECCCCccceeCH--------HHhc---CCcCCCEEeCCCC
Confidence            55566666666664 6665533222     2345666677777666665333        2333   4466666777777


Q ss_pred             CCCcchHHHHHHHhhcCCCCCEEeCCCCCCC
Q 012512          364 NLCKADARDLGSALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       364 ~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~  394 (462)
                      +|+.     +++.+.....|+.|+|++|.+.
T Consensus        91 ~l~~-----~~~~~~~~~~L~~l~l~~N~~~  116 (347)
T 2ifg_A           91 ALES-----LSWKTVQGLSLQELVLSGNPLH  116 (347)
T ss_dssp             CCSC-----CCSTTTCSCCCCEEECCSSCCC
T ss_pred             ccce-----eCHHHcccCCceEEEeeCCCcc
Confidence            6664     3332222223667777776655

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.41  E-value=3e-08  Score=97.17  Aligned_cols=207  Identities=11%  Similarity=0.091  Sum_probs=115.2

Q ss_pred             hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCC
Q 012512          191 CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFI  270 (462)
Q Consensus       191 ~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~  270 (462)
                      ...+...+|+++.+..+ +......    .+.+|.+|+.++|++|.++......+.         +.+|+.+.+.++ +.
T Consensus       151 ~~aF~~~~L~~i~lp~~-l~~I~~~----aF~~c~~L~~l~l~~n~l~~I~~~aF~---------~~~L~~l~lp~~-l~  215 (401)
T 4fdw_A          151 DMAFFNSTVQEIVFPST-LEQLKED----IFYYCYNLKKADLSKTKITKLPASTFV---------YAGIEEVLLPVT-LK  215 (401)
T ss_dssp             TTTTTTCCCCEEECCTT-CCEECSS----TTTTCTTCCEEECTTSCCSEECTTTTT---------TCCCSEEECCTT-CC
T ss_pred             HHhcCCCCceEEEeCCC-ccEehHH----HhhCcccCCeeecCCCcceEechhhEe---------ecccCEEEeCCc-hh
Confidence            33333356777777652 2111111    135677888888887766643333321         466777777644 33


Q ss_pred             CCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCC
Q 012512          271 ENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGK  350 (462)
Q Consensus       271 ~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~  350 (462)
                      ..        -..++.++++|+.+++..+ +..-+...     +.. ++|+.+.+.+ .++....           ..+.
T Consensus       216 ~I--------~~~aF~~~~~L~~l~l~~~-l~~I~~~a-----F~~-~~L~~i~lp~-~i~~I~~-----------~aF~  268 (401)
T 4fdw_A          216 EI--------GSQAFLKTSQLKTIEIPEN-VSTIGQEA-----FRE-SGITTVKLPN-GVTNIAS-----------RAFY  268 (401)
T ss_dssp             EE--------CTTTTTTCTTCCCEECCTT-CCEECTTT-----TTT-CCCSEEEEET-TCCEECT-----------TTTT
T ss_pred             ee--------hhhHhhCCCCCCEEecCCC-ccCccccc-----ccc-CCccEEEeCC-CccEECh-----------hHhh
Confidence            31        2245566778888888764 33222221     233 6778887743 3332111           2333


Q ss_pred             CCCCccEEEccCCCCCcchHHHH-HHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhh
Q 012512          351 SLQSLRLLNLRGNNLCKADARDL-GSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRG  429 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l-~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~  429 (462)
                      +|.+|+.+++.+|.+.......+ ..+|..|++|+.+++.++ +..      ++.  ..+..+.+|+.+.+..+ ++..+
T Consensus       269 ~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~-i~~------I~~--~aF~~c~~L~~l~lp~~-l~~I~  338 (401)
T 4fdw_A          269 YCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPES-IRI------LGQ--GLLGGNRKVTQLTIPAN-VTQIN  338 (401)
T ss_dssp             TCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTT-CCE------ECT--TTTTTCCSCCEEEECTT-CCEEC
T ss_pred             CCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCc-eEE------Ehh--hhhcCCCCccEEEECcc-ccEEc
Confidence            66788888888776541111112 235777888888888743 444      222  55677778888888554 44421


Q ss_pred             HHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          430 VSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       430 ~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                          ..++.. + +|+.+++++|.+.
T Consensus       339 ----~~aF~~-~-~L~~l~l~~n~~~  358 (401)
T 4fdw_A          339 ----FSAFNN-T-GIKEVKVEGTTPP  358 (401)
T ss_dssp             ----TTSSSS-S-CCCEEEECCSSCC
T ss_pred             ----HHhCCC-C-CCCEEEEcCCCCc
Confidence                124444 4 5888888877654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.12  E-value=3.6e-07  Score=89.49  Aligned_cols=209  Identities=9%  Similarity=0.016  Sum_probs=133.9

Q ss_pred             hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCC
Q 012512          191 CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFI  270 (462)
Q Consensus       191 ~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~  270 (462)
                      ..+.++.+|+.++++.|.+.......    +. +.+|+++.|..+ +...+..++..        +.+|+.+++.++ +.
T Consensus       174 ~aF~~c~~L~~l~l~~n~l~~I~~~a----F~-~~~L~~l~lp~~-l~~I~~~aF~~--------~~~L~~l~l~~~-l~  238 (401)
T 4fdw_A          174 DIFYYCYNLKKADLSKTKITKLPAST----FV-YAGIEEVLLPVT-LKEIGSQAFLK--------TSQLKTIEIPEN-VS  238 (401)
T ss_dssp             STTTTCTTCCEEECTTSCCSEECTTT----TT-TCCCSEEECCTT-CCEECTTTTTT--------CTTCCCEECCTT-CC
T ss_pred             HHhhCcccCCeeecCCCcceEechhh----Ee-ecccCEEEeCCc-hheehhhHhhC--------CCCCCEEecCCC-cc
Confidence            34558899999999988755433322    22 579999999854 44333333322        778999999864 33


Q ss_pred             CCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCC
Q 012512          271 ENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGK  350 (462)
Q Consensus       271 ~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~  350 (462)
                      ..+        ..++.+ .+|+.+.+.+ .+..-+...     +..+.+|+.+++.++.+....    ...+..  ..+.
T Consensus       239 ~I~--------~~aF~~-~~L~~i~lp~-~i~~I~~~a-----F~~c~~L~~l~l~~~~~~~~~----~~~I~~--~aF~  297 (401)
T 4fdw_A          239 TIG--------QEAFRE-SGITTVKLPN-GVTNIASRA-----FYYCPELAEVTTYGSTFNDDP----EAMIHP--YCLE  297 (401)
T ss_dssp             EEC--------TTTTTT-CCCSEEEEET-TCCEECTTT-----TTTCTTCCEEEEESSCCCCCT----TCEECT--TTTT
T ss_pred             Ccc--------cccccc-CCccEEEeCC-CccEEChhH-----hhCCCCCCEEEeCCccccCCc----ccEECH--HHhh
Confidence            321        123334 6899999954 344322222     456789999999998765100    000111  3344


Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV  430 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~  430 (462)
                      +|.+|+.++|.. +++.-+    ..+|.+|++|+.+++..| +..      ++.  ..+..+ +|+.+++.+|.+.... 
T Consensus       298 ~c~~L~~l~l~~-~i~~I~----~~aF~~c~~L~~l~lp~~-l~~------I~~--~aF~~~-~L~~l~l~~n~~~~l~-  361 (401)
T 4fdw_A          298 GCPKLARFEIPE-SIRILG----QGLLGGNRKVTQLTIPAN-VTQ------INF--SAFNNT-GIKEVKVEGTTPPQVF-  361 (401)
T ss_dssp             TCTTCCEECCCT-TCCEEC----TTTTTTCCSCCEEEECTT-CCE------ECT--TSSSSS-CCCEEEECCSSCCBCC-
T ss_pred             CCccCCeEEeCC-ceEEEh----hhhhcCCCCccEEEECcc-ccE------EcH--HhCCCC-CCCEEEEcCCCCcccc-
Confidence            778999999994 566522    236888999999999766 443      322  567887 9999999999866531 


Q ss_pred             HHHHHHHhcCCCCCcEEEccCCCC
Q 012512          431 SQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       431 ~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                         ..++..++.+++.|.+..|.+
T Consensus       362 ---~~~F~~~~~~l~~l~vp~~~~  382 (401)
T 4fdw_A          362 ---EKVWYGFPDDITVIRVPAESV  382 (401)
T ss_dssp             ---CSSCCCSCTTCCEEEECGGGH
T ss_pred             ---cccccCCCCCccEEEeCHHHH
Confidence               223444445688888876543

>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=97.95  E-value=2.6e-05  Score=71.27  Aligned_cols=16  Identities=38%  Similarity=0.293  Sum_probs=7.7

Q ss_pred             CCCCCEEecCCCCCCh
Q 012512          288 GRSLCSLKLRHCHLDR  303 (462)
Q Consensus       288 l~~L~~L~Ls~n~l~~  303 (462)
                      ++.|++|+|++|.|.+
T Consensus       169 l~~L~~L~Ls~N~l~~  184 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYR  184 (267)
T ss_dssp             CTTCCEEECTTSCCCC
T ss_pred             CCCCCEEECCCCCCCC
Confidence            4445555555554443

>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=97.91  E-value=1.5e-05  Score=72.91  Aligned_cols=37  Identities=16%  Similarity=0.084  Sum_probs=20.1

Q ss_pred             EecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCC
Q 012512          294 LKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGG  332 (462)
Q Consensus       294 L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~  332 (462)
                      ++++.|..  ..+..+......++++|+.|+|++|.+++
T Consensus       148 l~l~~N~~--~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~  184 (267)
T 3rw6_A          148 IDVVLNRR--SCMAATLRIIEENIPELLSLNLSNNRLYR  184 (267)
T ss_dssp             CCCCTTSH--HHHHHHHHHHHHHCTTCCEEECTTSCCCC
T ss_pred             ccccCCHH--HHHHHHHHHHHhhCCCCCEEECCCCCCCC
Confidence            44555532  23333333333456677777777777764

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=95.02  E-value=0.0043  Score=60.19  Aligned_cols=82  Identities=15%  Similarity=0.175  Sum_probs=46.4

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV  430 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~  430 (462)
                      .+.+|+.+.+..+ ++.-|    ..++..|.+|+.+++..+ ++.      ++.  .++..|.+|+.+++..+ ++..| 
T Consensus       295 ~~~~L~~i~l~~~-i~~I~----~~aF~~c~~L~~i~lp~~-v~~------I~~--~aF~~c~~L~~i~lp~~-l~~I~-  358 (394)
T 4fs7_A          295 GCSSLTEVKLLDS-VKFIG----EEAFESCTSLVSIDLPYL-VEE------IGK--RSFRGCTSLSNINFPLS-LRKIG-  358 (394)
T ss_dssp             TCTTCCEEEECTT-CCEEC----TTTTTTCTTCCEECCCTT-CCE------ECT--TTTTTCTTCCEECCCTT-CCEEC-
T ss_pred             ccccccccccccc-cceec----hhhhcCCCCCCEEEeCCc-ccE------EhH--HhccCCCCCCEEEECcc-ccEeh-
Confidence            5567777777654 33211    124667777777777644 332      211  45666777777777655 44422 


Q ss_pred             HHHHHHHhcCCCCCcEEEccCC
Q 012512          431 SQLLDTLSTLRRPPTSLSIADN  452 (462)
Q Consensus       431 ~~l~~~l~~l~~~L~~L~Ls~N  452 (462)
                         ..++.. +.+|+.+++..+
T Consensus       359 ---~~aF~~-C~~L~~i~lp~~  376 (394)
T 4fs7_A          359 ---ANAFQG-CINLKKVELPKR  376 (394)
T ss_dssp             ---TTTBTT-CTTCCEEEEEGG
T ss_pred             ---HHHhhC-CCCCCEEEECCC
Confidence               124444 556777777543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.82  E-value=0.013  Score=47.05  Aligned_cols=37  Identities=30%  Similarity=0.344  Sum_probs=24.9

Q ss_pred             CCccEEEccCCCCCcchHHHHHH-HhhcCCCCCEEeCCCCCCC
Q 012512          353 QSLRLLNLRGNNLCKADARDLGS-ALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~  394 (462)
                      .+|+.|+|++|+|+.     ++. .|..+++|+.|+|++|++.
T Consensus        31 ~~l~~L~Ls~N~l~~-----l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           31 VDTTELVLTGNNLTA-----LPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             TTCSEEECTTSCCSS-----CCTTTGGGCTTCCEEECCSSCCB
T ss_pred             cCCCEEECCCCcCCc-----cChhhhhhccccCEEEecCCCee
Confidence            467777777777774     333 4566777777777777754

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.38  E-value=0.017  Score=46.33  Aligned_cols=69  Identities=16%  Similarity=0.115  Sum_probs=47.2

Q ss_pred             cEEEccCCCCC--cchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh-hHHH
Q 012512          356 RLLNLRGNNLC--KADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR-GVSQ  432 (462)
Q Consensus       356 ~~L~L~~n~l~--~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~-~~~~  432 (462)
                      ..++.++++++  .     +|..+  -++|++|+|++|.|+.      ++.  ..+..+++|+.|+|++|.+.-. ....
T Consensus        11 ~~v~Cs~~~L~~~~-----vP~~l--p~~l~~L~Ls~N~l~~------l~~--~~f~~l~~L~~L~L~~NP~~CdC~l~~   75 (130)
T 3rfe_A           11 TLVDCGRRGLTWAS-----LPTAF--PVDTTELVLTGNNLTA------LPP--GLLDALPALRTAHLGANPWRCDCRLVP   75 (130)
T ss_dssp             TEEECCSSCCCTTT-----SCSCC--CTTCSEEECTTSCCSS------CCT--TTGGGCTTCCEEECCSSCCBCSGGGHH
T ss_pred             CEEEeCCCCCcccc-----CCCCC--CcCCCEEECCCCcCCc------cCh--hhhhhccccCEEEecCCCeeccCccHH
Confidence            46778888877  3     44322  2379999999999987      543  5677788999999999987542 2233


Q ss_pred             HHHHHhc
Q 012512          433 LLDTLST  439 (462)
Q Consensus       433 l~~~l~~  439 (462)
                      +..-+..
T Consensus        76 l~~wl~~   82 (130)
T 3rfe_A           76 LRAWLAG   82 (130)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            4444443

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.25  E-value=0.055  Score=52.24  Aligned_cols=132  Identities=17%  Similarity=0.202  Sum_probs=79.1

Q ss_pred             HhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccC
Q 012512          283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRG  362 (462)
Q Consensus       283 ~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~  362 (462)
                      .++..+..|+.+.+..+...- +.     ..+.++..|+.+.+... ++....           ..+.+|.+|+.+++..
T Consensus       259 ~aF~~c~~L~~i~lp~~~~~I-~~-----~aF~~c~~L~~i~l~~~-i~~I~~-----------~aF~~c~~L~~i~lp~  320 (394)
T 4gt6_A          259 HAFDSCAYLASVKMPDSVVSI-GT-----GAFMNCPALQDIEFSSR-ITELPE-----------SVFAGCISLKSIDIPE  320 (394)
T ss_dssp             TTTTTCSSCCEEECCTTCCEE-CT-----TTTTTCTTCCEEECCTT-CCEECT-----------TTTTTCTTCCEEECCT
T ss_pred             ceeeecccccEEeccccccee-cC-----cccccccccccccCCCc-ccccCc-----------eeecCCCCcCEEEeCC
Confidence            345677889999987654321 11     12455788999999643 332111           2344778999999986


Q ss_pred             CCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCC
Q 012512          363 NNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRR  442 (462)
Q Consensus       363 n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~  442 (462)
                      + ++.-|    ..+|.+|.+|+.+.+..+ ++.      ++.  .++..|.+|+.+++.++..       ...++.. +.
T Consensus       321 ~-v~~I~----~~aF~~C~~L~~i~ip~s-v~~------I~~--~aF~~C~~L~~i~~~~~~~-------~~~~~~~-~~  378 (394)
T 4gt6_A          321 G-ITQIL----DDAFAGCEQLERIAIPSS-VTK------IPE--SAFSNCTALNNIEYSGSRS-------QWNAIST-DS  378 (394)
T ss_dssp             T-CCEEC----TTTTTTCTTCCEEEECTT-CCB------CCG--GGGTTCTTCCEEEESSCHH-------HHHTCBC-CC
T ss_pred             c-ccEeh----HhHhhCCCCCCEEEECcc-cCE------EhH--hHhhCCCCCCEEEECCcee-------ehhhhhc-cC
Confidence            5 44321    236889999999999765 332      221  6788899999999998742       2245555 66


Q ss_pred             CCcEEEccCCCC
Q 012512          443 PPTSLSIADNNL  454 (462)
Q Consensus       443 ~L~~L~Ls~N~l  454 (462)
                      .|+.+.+..|.+
T Consensus       379 ~L~~i~i~~~~~  390 (394)
T 4gt6_A          379 GLQNLPVAPGSI  390 (394)
T ss_dssp             CC----------
T ss_pred             CCCEEEeCCCCE
Confidence            799998877755

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.16  E-value=0.14  Score=49.41  Aligned_cols=108  Identities=13%  Similarity=0.215  Sum_probs=62.3

Q ss_pred             hhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       314 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      +..+..|+.+.+..+... .           .-..+.++..|+.+.+.. .++.-+    ..+|.+|.+|+.++|..+ +
T Consensus       261 F~~c~~L~~i~lp~~~~~-I-----------~~~aF~~c~~L~~i~l~~-~i~~I~----~~aF~~c~~L~~i~lp~~-v  322 (394)
T 4gt6_A          261 FDSCAYLASVKMPDSVVS-I-----------GTGAFMNCPALQDIEFSS-RITELP----ESVFAGCISLKSIDIPEG-I  322 (394)
T ss_dssp             TTTCSSCCEEECCTTCCE-E-----------CTTTTTTCTTCCEEECCT-TCCEEC----TTTTTTCTTCCEEECCTT-C
T ss_pred             eeecccccEEecccccce-e-----------cCcccccccccccccCCC-cccccC----ceeecCCCCcCEEEeCCc-c
Confidence            344577788877655322 0           012233667788888763 344311    135777888888888654 2


Q ss_pred             CchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCC
Q 012512          394 EDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNN  453 (462)
Q Consensus       394 ~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~  453 (462)
                      +.      +..  ..+..|.+|+.+.+..+ ++..|    ..++.. +.+|+.+++.+|.
T Consensus       323 ~~------I~~--~aF~~C~~L~~i~ip~s-v~~I~----~~aF~~-C~~L~~i~~~~~~  368 (394)
T 4gt6_A          323 TQ------ILD--DAFAGCEQLERIAIPSS-VTKIP----ESAFSN-CTALNNIEYSGSR  368 (394)
T ss_dssp             CE------ECT--TTTTTCTTCCEEEECTT-CCBCC----GGGGTT-CTTCCEEEESSCH
T ss_pred             cE------ehH--hHhhCCCCCCEEEECcc-cCEEh----HhHhhC-CCCCCEEEECCce
Confidence            22      111  56777788888888554 43321    134555 5668888887663

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=91.06  E-value=0.23  Score=47.77  Aligned_cols=83  Identities=18%  Similarity=0.092  Sum_probs=56.5

Q ss_pred             hCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCC
Q 012512          315 EASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       315 ~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~  394 (462)
                      ..+.+|+.+.+..+ ++....           ..+.+|.+|+.+++..+ ++.-|    ..+|.+|.+|+.+++..| +.
T Consensus       294 ~~~~~L~~i~l~~~-i~~I~~-----------~aF~~c~~L~~i~lp~~-v~~I~----~~aF~~c~~L~~i~lp~~-l~  355 (394)
T 4fs7_A          294 YGCSSLTEVKLLDS-VKFIGE-----------EAFESCTSLVSIDLPYL-VEEIG----KRSFRGCTSLSNINFPLS-LR  355 (394)
T ss_dssp             TTCTTCCEEEECTT-CCEECT-----------TTTTTCTTCCEECCCTT-CCEEC----TTTTTTCTTCCEECCCTT-CC
T ss_pred             cccccccccccccc-cceech-----------hhhcCCCCCCEEEeCCc-ccEEh----HHhccCCCCCCEEEECcc-cc
Confidence            44577888877654 332111           23447789999999754 55422    246889999999999877 44


Q ss_pred             chhHHhHHHHHHhhcCCCCCccEEEccCC
Q 012512          395 DDGIRSLIPYFVQASERCNPLVELYLENC  423 (462)
Q Consensus       395 ~~g~~~l~~~l~~~l~~~~~L~~L~L~~n  423 (462)
                      .      ++.  .++..|.+|+.+++..+
T Consensus       356 ~------I~~--~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          356 K------IGA--NAFQGCINLKKVELPKR  376 (394)
T ss_dssp             E------ECT--TTBTTCTTCCEEEEEGG
T ss_pred             E------ehH--HHhhCCCCCCEEEECCC
Confidence            3      322  67888999999999765

>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=89.09  E-value=0.22  Score=47.51  Aligned_cols=59  Identities=10%  Similarity=0.207  Sum_probs=29.6

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccC
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLEN  422 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~  422 (462)
                      +|.+|+.+.+.++.++.-+    ..++.+|.+|+.++|..+ +..      ++.  .++..|.+|+.+.+..
T Consensus       284 ~c~~L~~i~l~~~~i~~I~----~~aF~~c~~L~~i~lp~~-l~~------I~~--~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          284 GCSNLTKVVMDNSAIETLE----PRVFMDCVKLSSVTLPTA-LKT------IQV--YAFKNCKALSTISYPK  342 (379)
T ss_dssp             TCTTCCEEEECCTTCCEEC----TTTTTTCTTCCEEECCTT-CCE------ECT--TTTTTCTTCCCCCCCT
T ss_pred             cccccccccccccccceeh----hhhhcCCCCCCEEEcCcc-ccE------EHH--HHhhCCCCCCEEEECC
Confidence            4556666666655554311    124556666666666543 222      111  3455556666665543

>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=83.03  E-value=0.89  Score=43.23  Aligned_cols=130  Identities=15%  Similarity=0.126  Sum_probs=78.4

Q ss_pred             cCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCC
Q 012512          286 SSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNL  365 (462)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l  365 (462)
                      ..+..|+.+.+..+ +...+...     +..+..|+.+.+..+ ++....           ..+.++..|+.+.+..+ +
T Consensus       214 ~~~~~l~~i~~~~~-~~~i~~~~-----f~~~~~L~~i~lp~~-v~~I~~-----------~aF~~~~~l~~i~l~~~-i  274 (379)
T 4h09_A          214 SYGKNLKKITITSG-VTTLGDGA-----FYGMKALDEIAIPKN-VTSIGS-----------FLLQNCTALKTLNFYAK-V  274 (379)
T ss_dssp             TTCSSCSEEECCTT-CCEECTTT-----TTTCSSCCEEEECTT-CCEECT-----------TTTTTCTTCCEEEECCC-C
T ss_pred             ccccccceeeeccc-eeEEcccc-----ccCCccceEEEcCCC-ccEeCc-----------cccceeehhcccccccc-c
Confidence            34456666666544 22111111     234577888888665 332111           22336678899888754 4


Q ss_pred             CcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCc
Q 012512          366 CKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPT  445 (462)
Q Consensus       366 ~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~  445 (462)
                      +.-+    ..++..|++|+.+.+.++.+..      ++.  ..+..|.+|+.+.+..+ ++..|.    .++.. +.+|+
T Consensus       275 ~~i~----~~aF~~c~~L~~i~l~~~~i~~------I~~--~aF~~c~~L~~i~lp~~-l~~I~~----~aF~~-C~~L~  336 (379)
T 4h09_A          275 KTVP----YLLCSGCSNLTKVVMDNSAIET------LEP--RVFMDCVKLSSVTLPTA-LKTIQV----YAFKN-CKALS  336 (379)
T ss_dssp             SEEC----TTTTTTCTTCCEEEECCTTCCE------ECT--TTTTTCTTCCEEECCTT-CCEECT----TTTTT-CTTCC
T ss_pred             eecc----ccccccccccccccccccccce------ehh--hhhcCCCCCCEEEcCcc-ccEEHH----HHhhC-CCCCC
Confidence            4321    1357889999999999887664      322  56888899999999754 444221    24555 56688


Q ss_pred             EEEccCC
Q 012512          446 SLSIADN  452 (462)
Q Consensus       446 ~L~Ls~N  452 (462)
                      .+.+..+
T Consensus       337 ~i~ip~~  343 (379)
T 4h09_A          337 TISYPKS  343 (379)
T ss_dssp             CCCCCTT
T ss_pred             EEEECCc
Confidence            8877543

---

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	462
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	1e-09
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	2e-08
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	4e-06
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	5e-05
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	8e-05
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	8e-05
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	4e-04
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	0.001
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-04

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 57.7 bits (137), Expect = 1e-09
 Identities = 23/107 (21%), Positives = 41/107 (38%), Gaps = 13/107 (12%)

Query: 317 SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSA 376
           S  +  LD+    +               L     LQ  +++ L    L +A  +D+ SA
Sbjct: 1   SLDIQSLDIQCEELS--------DARWAELL--PLLQQCQVVRLDDCGLTEARCKDISSA 50

Query: 377 LVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENC 423
           L   P L  L++  N + D G+  ++            + +L L+NC
Sbjct: 51  LRVNPALAELNLRSNELGDVGVHCVLQGL---QTPSCKIQKLSLQNC 94

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 54.2 bits (128), Expect = 2e-08
 Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 3/101 (2%)

Query: 333 WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNT 392
                D        G G+    LR+L L   ++  +    L + L+   +L  LD+S+N 
Sbjct: 349 NNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNC 408

Query: 393 IEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL 433
           + D GI  L+    Q       L +L L +   S     +L
Sbjct: 409 LGDAGILQLVESVRQ---PGCLLEQLVLYDIYWSEEMEDRL 446

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 46.5 bits (108), Expect = 4e-06
 Identities = 23/104 (22%), Positives = 34/104 (32%), Gaps = 7/104 (6%)

Query: 283 SFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGP 342
                G  L  L L  C +  D      ++ L A+ SL  LDLS N +G      D    
Sbjct: 363 GLGQPGSVLRVLWLADCDVS-DSSCSSLAATLLANHSLRELDLSNNCLG------DAGIL 415

Query: 343 LFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEIL 386
                  +    L  L L      +     L +     P+L ++
Sbjct: 416 QLVESVRQPGCLLEQLVLYDIYWSEEMEDRLQALEKDKPSLRVI 459

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 43.4 bits (100), Expect = 5e-05
 Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 8/74 (10%)

Query: 382 NLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLR 441
           +++ LDI    + D     L+P   Q          + L++C L+      +   L    
Sbjct: 3   DIQSLDIQCEELSDARWAELLPLLQQ-------CQVVRLDDCGLTEARCKDISSALRVNP 55

Query: 442 RPPTSLSIADNNLG 455
                L++  N LG
Sbjct: 56  A-LAELNLRSNELG 68

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 42.3 bits (97), Expect = 8e-05
 Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 4/77 (5%)

Query: 379 HIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLS 438
               L +L ++D  + D    SL           + L EL L N  L   G+ QL++++ 
Sbjct: 367 PGSVLRVLWLADCDVSDSSCSSLA----ATLLANHSLRELDLSNNCLGDAGILQLVESVR 422

Query: 439 TLRRPPTSLSIADNNLG 455
                   L + D    
Sbjct: 423 QPGCLLEQLVLYDIYWS 439

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 42.2 bits (97), Expect = 8e-05
 Identities = 11/70 (15%), Positives = 28/70 (40%), Gaps = 4/70 (5%)

Query: 354 SLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCN 413
           S+   +L+ + +   D + + + L+   +++ + +S NTI  +  R L     +      
Sbjct: 4   SIEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWL----SENIASKK 59

Query: 414 PLVELYLENC 423
            L      + 
Sbjct: 60  DLEIAEFSDI 69

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 39.9 bits (91), Expect = 4e-04
 Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 1/48 (2%)

Query: 351 SLQSLRLLNLRGNNLCKADARDLGSALVH-IPNLEILDISDNTIEDDG 397
               L+ L L+ N +     R L + +   +P+L  L+++ N   ++ 
Sbjct: 271 ENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEED 318

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 38.3 bits (87), Expect = 0.001
 Identities = 12/44 (27%), Positives = 19/44 (43%)

Query: 350 KSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI 393
               S++ + L GN +    AR L   +    +LEI + SD   
Sbjct: 28  LEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFT 71

>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 = 41.5 bits (96), Expect = 1e-04
 Identities = 46/358 (12%), Positives = 99/358 (27%), Gaps = 47/358 (13%)

Query: 35  DLFDILLTCLPPLA-LQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKT 93
           +  +  LT + PL  L KL   +   +     +P     N      + N  T    L   
Sbjct: 72  NFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNL 131

Query: 94  RWSGFTDQIEPVDWQQRYWEAHVQGCLDEAAELVVLPSFRGLISDINISDTILNYIGYEQ 153
                 +                          V        ++ +   D   N +    
Sbjct: 132 TNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS 191

Query: 154 QMNHLACDYSKLSYHCQQFGHYARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHV 213
            +  L    S ++ + Q        +                 + L  L L   + ++  
Sbjct: 192 VLAKLTNLESLIATNNQISDITPLGIL----------------TNLDELSLNGNQLKDIG 235

Query: 214 QALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENC 273
                  + +   L  L+  + ++S          L   +   ++I N+S      +   
Sbjct: 236 T------LASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNIS-----PLAGL 284

Query: 274 PSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGW 333
            +   +EL        S  S      +L   F  +   S + + + L  L  + N +   
Sbjct: 285 TALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSD- 343

Query: 334 LSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDN 391
                    + SL    +L ++  L+   N +         + L ++  +  L ++D 
Sbjct: 344 ---------VSSLA---NLTNINWLSAGHNQISDL------TPLANLTRITQLGLNDQ 383

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	462
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.9
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.9
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.89
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.82
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.69
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.68
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.66
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.63
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.6
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.59
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.58
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	99.57
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.53
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.51
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.51
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	99.51
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	99.51
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.5
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.5
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.5
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.48
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.47
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.45
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.44
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	99.32
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.29
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.26
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.2
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.19
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.19
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.11
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.06
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.01
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.89
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.83
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.74
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.58
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.32
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.31
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.27
d2ovrb1	102	F-box/WD repeat-containing protein 7, FBXW7 {Human	84.15

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.90  E-value=2e-22  Score=192.91  Aligned_cols=256  Identities=17%  Similarity=0.142  Sum_probs=200.0

Q ss_pred             hhhhhhcCCCcCEEEeccCCC-------hHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccE
Q 012512          189 ETCQLLRESKLQSLVLRWIRF-------EEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIEN  261 (462)
Q Consensus       189 ~~~~l~~~~~L~~L~L~~~~~-------~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~  261 (462)
                      +...+...++|+.++++++..       ......++..+. .+++|++|+|++|.+++.+...+...+..    +++|++
T Consensus        51 l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~-~~~~L~~L~L~~n~i~~~~~~~l~~~l~~----~~~L~~  125 (344)
T d2ca6a1          51 LSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALL-KCPKLHTVRLSDNAFGPTAQEPLIDFLSK----HTPLEH  125 (344)
T ss_dssp             HHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHT-TCTTCCEEECCSCCCCTTTHHHHHHHHHH----CTTCCE
T ss_pred             HHHHHHhCCCCCEEECCCCcccccccccchHHHHHHHHHh-hCCCcccccccccccccccccchhhhhcc----cccchh
Confidence            344556778999999987642       223444444444 47899999999999999998888887776    688999


Q ss_pred             EecCCCCCCCCCCchhHHHHHH-----hhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          262 LSIDISSFIENCPSSVVVELVS-----FLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       262 L~l~~~~~~~~~~~~~~~~l~~-----~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      |++++|.+...+...+...+..     .....+.|+.+++++|.+++.+...++.++.. .+.|+.|+|++|.+++... 
T Consensus       126 L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~-~~~L~~L~L~~n~i~~~g~-  203 (344)
T d2ca6a1         126 LYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQS-HRLLHTVKMVQNGIRPEGI-  203 (344)
T ss_dssp             EECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHH-CTTCCEEECCSSCCCHHHH-
T ss_pred             eecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhh-hhhhccccccccccccccc-
Confidence            9999998866333222222211     12457799999999999999999999887755 4899999999999884211 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                        ...+...+.   .+++|+.|+|++|.+++.|+..+..++..+++|++|+|++|.|++.|+..++.++..  .....|+
T Consensus       204 --~~~l~~~l~---~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~--~~~~~L~  276 (344)
T d2ca6a1         204 --EHLLLEGLA---YCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSK--LENIGLQ  276 (344)
T ss_dssp             --HHHHHTTGG---GCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHT--CSSCCCC
T ss_pred             --ccchhhhhc---chhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhh--ccCCCCC
Confidence              111223333   558899999999999999999999999999999999999999999999999875522  2347899


Q ss_pred             EEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          417 ELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       417 ~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      +|++++|+|+..|+..+..++..-.+.|++|++++|+|+++.
T Consensus       277 ~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~~~  318 (344)
T d2ca6a1         277 TLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEED  318 (344)
T ss_dssp             EEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTS
T ss_pred             EEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCCcc
Confidence            999999999999999999999742467999999999997754

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.90  E-value=8.2e-23  Score=195.58  Aligned_cols=252  Identities=21%  Similarity=0.231  Sum_probs=203.2

Q ss_pred             HhhhhhhcCCCcCEEEeccCCChH-HHHHHHHHHHhcCCCccEEEccCCCCC------hhHHHHHHHHHhcccccCCCcc
Q 012512          188 EETCQLLRESKLQSLVLRWIRFEE-HVQALCKLLIQNSETLASLEFLHCKLS------PSFVEGICRSLCSKRKRIHKIE  260 (462)
Q Consensus       188 ~~~~~l~~~~~L~~L~L~~~~~~~-~~~~l~~~l~~~~~~L~~L~L~~~~l~------~~~~~~l~~~l~~~~~~~~~L~  260 (462)
                      .+...+.....+++|+|++|.+.. ++..++.. ....++|+.++++++...      ..+...++..+..    +++|+
T Consensus        22 ~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~-l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~----~~~L~   96 (344)
T d2ca6a1          22 SVFAVLLEDDSVKEIVLSGNTIGTEAARWLSEN-IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLK----CPKLH   96 (344)
T ss_dssp             TTSHHHHHCSCCCEEECTTSEECHHHHHHHHHT-TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTT----CTTCC
T ss_pred             HHHHHHhhCCCCCEEECcCCcCCHHHHHHHHHH-HHhCCCCCEEECCCCcccccccccchHHHHHHHHHhh----CCCcc
Confidence            345667778999999999998644 45555444 345789999999987543      2344455665554    78899


Q ss_pred             EEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHh--------hCCCCccEEEecCCCCCC
Q 012512          261 NLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLL--------EASSSLSILDLSGNSIGG  332 (462)
Q Consensus       261 ~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~--------~~~~~L~~L~Ls~n~l~~  332 (462)
                      +|++++|.+...+.    ..+...+..+++|++|++++|.+++.+...++.++.        ...+.|+.+++++|.+++
T Consensus        97 ~L~L~~n~i~~~~~----~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~  172 (344)
T d2ca6a1          97 TVRLSDNAFGPTAQ----EPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLEN  172 (344)
T ss_dssp             EEECCSCCCCTTTH----HHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTG
T ss_pred             cccccccccccccc----cchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccc
Confidence            99999999988544    367788888999999999999999888887776653        346789999999999883


Q ss_pred             cccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHH-HHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCC
Q 012512          333 WLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARD-LGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER  411 (462)
Q Consensus       333 ~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~  411 (462)
                          .+...+...+.   .+.+|++|+|++|+|+++|+.. +..++..+++|+.|++++|.+++.|+..+..    .+..
T Consensus       173 ----~~~~~l~~~l~---~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~----~l~~  241 (344)
T d2ca6a1         173 ----GSMKEWAKTFQ---SHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAI----ALKS  241 (344)
T ss_dssp             ----GGHHHHHHHHH---HCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHH----HGGG
T ss_pred             ----cccccccchhh---hhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccc----cccc
Confidence                55556666776   4478999999999999998765 5667899999999999999999999888874    5667


Q ss_pred             CCCccEEEccCCCCChhhHHHHHHHHhcC-CCCCcEEEccCCCCCCccc
Q 012512          412 CNPLVELYLENCELSGRGVSQLLDTLSTL-RRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~~~~~~l~~~l~~l-~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +++|++|++++|.|++.|+..+++++... +.+|++||+++|+|++++.
T Consensus       242 ~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~  290 (344)
T d2ca6a1         242 WPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAV  290 (344)
T ss_dssp             CTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHH
T ss_pred             cccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHH
Confidence            79999999999999999999999999753 3569999999999987653

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=3.9e-22  Score=197.58  Aligned_cols=103  Identities=27%  Similarity=0.341  Sum_probs=89.5

Q ss_pred             CCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHH
Q 012512          353 QSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQ  432 (462)
Q Consensus       353 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~  432 (462)
                      .+|+.+++++|.+++.++..+...+..+++|++|+|++|.|+++|+..++..   .....+.|++|+|++|+|++.|+.+
T Consensus       312 ~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~---l~~~~~~L~~L~Ls~n~i~~~~~~~  388 (460)
T d1z7xw1         312 CQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQG---LGQPGSVLRVLWLADCDVSDSSCSS  388 (460)
T ss_dssp             CCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHH---HTSTTCCCCEEECTTSCCCHHHHHH
T ss_pred             cccccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhh---hhcccCCCCEEECCCCCCChHHHHH
Confidence            6789999999999999998898888899999999999999999998888753   2334678999999999999999999


Q ss_pred             HHHHHhcCCCCCcEEEccCCCCCCccc
Q 012512          433 LLDTLSTLRRPPTSLSIADNNLGRFCA  459 (462)
Q Consensus       433 l~~~l~~l~~~L~~L~Ls~N~l~~~~~  459 (462)
                      +++.+.. +++|++||+++|+|+++++
T Consensus       389 l~~~l~~-~~~L~~L~Ls~N~i~~~g~  414 (460)
T d1z7xw1         389 LAATLLA-NHSLRELDLSNNCLGDAGI  414 (460)
T ss_dssp             HHHHHHH-CCCCCEEECCSSSCCHHHH
T ss_pred             HHHHHhc-CCCCCEEECCCCcCCHHHH
Confidence            9999988 6779999999999988764

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=3.6e-19  Score=175.91  Aligned_cols=243  Identities=22%  Similarity=0.204  Sum_probs=147.1

Q ss_pred             CCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      .....+++..+..... .......+ ...+.++.+++++|.+.+.............   ...++.+++++|.+..    
T Consensus       198 ~~~~~l~~~~~~~~~~~~~~~~~~l-~~~~~~~~l~~~~n~~~~~~~~~~~~~~~~~---~~~l~~l~l~~n~i~~----  269 (460)
T d1z7xw1         198 CQLEALKLESCGVTSDNCRDLCGIV-ASKASLRELALGSNKLGDVGMAELCPGLLHP---SSRLRTLWIWECGITA----  269 (460)
T ss_dssp             CCCCEEECTTSCCBTTHHHHHHHHH-HHCTTCCEEECCSSBCHHHHHHHHHHHHTST---TCCCCEEECTTSCCCH----
T ss_pred             ccccccccccccccchhhhcccccc-cccccccccchhhccccccccchhhcccccc---cccccccccccccccc----
Confidence            3445566655543222 22222222 2356667777776666555444333332222   4567777777776654    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                      .........+..++.++.+++++|.+++.+...++..+....+.|+.+++++|.+++    .+...+...+.   ...+|
T Consensus       270 ~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l~~~~l~~----~~~~~l~~~~~---~~~~L  342 (460)
T d1z7xw1         270 KGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTA----ACCSHFSSVLA---QNRFL  342 (460)
T ss_dssp             HHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBG----GGHHHHHHHHH---HCSSC
T ss_pred             cccccccccccccccccccccccccccccccchhhccccccccccccccccccchhh----hhhhhcccccc---cccch
Confidence            112234445555667777777777777777777766665555667777777777663    33344444444   33567


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhc-CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHH
Q 012512          356 RLLNLRGNNLCKADARDLGSALVH-IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~-~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      ++|+|++|+|+++|+..++.++.+ ++.|++|+|++|.|++.|+.++..    .+..+++|++|++++|+|++.|+..+.
T Consensus       343 ~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~----~l~~~~~L~~L~Ls~N~i~~~g~~~l~  418 (460)
T d1z7xw1         343 LELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAA----TLLANHSLRELDLSNNCLGDAGILQLV  418 (460)
T ss_dssp             CEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH----HHHHCCCCCEEECCSSSCCHHHHHHHH
T ss_pred             hhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHH----HHhcCCCCCEEECCCCcCCHHHHHHHH
Confidence            777777777777777777776653 556777777777777777666653    344456777777777777777777777


Q ss_pred             HHHhcCCCCCcEEEccCCCCCCcc
Q 012512          435 DTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      +++......|+.|++++|.+.+++
T Consensus       419 ~~l~~~~~~L~~l~l~~~~~~~~~  442 (460)
T d1z7xw1         419 ESVRQPGCLLEQLVLYDIYWSEEM  442 (460)
T ss_dssp             HHHTSTTCCCCEEECTTCCCCHHH
T ss_pred             HHHHhCCCccCEEECCCCCCCHHH
Confidence            777653335777777777776543

>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=99.75  E-value=9.1e-18  Score=155.40  Aligned_cols=212  Identities=18%  Similarity=0.226  Sum_probs=156.1

Q ss_pred             cCCCcCEEEeccCCChHH-HHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCC-CCCCC
Q 012512          195 RESKLQSLVLRWIRFEEH-VQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDIS-SFIEN  272 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~-~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~-~~~~~  272 (462)
                      ...+|++|+++++.+... +..    +...+++|++|+|++|.+++.....+..        +++|++|++++| .+++ 
T Consensus        44 ~~~~L~~LdLs~~~i~~~~l~~----l~~~c~~L~~L~L~~~~l~~~~~~~l~~--------~~~L~~L~Ls~c~~itd-  110 (284)
T d2astb2          44 SPFRVQHMDLSNSVIEVSTLHG----ILSQCSKLQNLSLEGLRLSDPIVNTLAK--------NSNLVRLNLSGCSGFSE-  110 (284)
T ss_dssp             CCBCCCEEECTTCEECHHHHHH----HHTTBCCCSEEECTTCBCCHHHHHHHTT--------CTTCSEEECTTCBSCCH-
T ss_pred             cCCCCCEEECCCCccCHHHHHH----HHHhCCCcccccccccCCCcHHHHHHhc--------CCCCcCccccccccccc-
Confidence            345799999998876543 333    3667899999999999999887776643        789999999996 4554 


Q ss_pred             CCchhHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCC--CCCcccccCcccHHHhhhCC
Q 012512          273 CPSSVVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNS--IGGWLSKYDRSGPLFSLGAG  349 (462)
Q Consensus       273 ~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~--l~~~~~~~~~~~l~~~l~~~  349 (462)
                            ..+......+++|++|++++| .+++.+......   ...+.|++|+++++.  +++       +.+.....  
T Consensus       111 ------~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~---~~~~~L~~L~l~~~~~~i~~-------~~l~~l~~--  172 (284)
T d2astb2         111 ------FALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVA---HVSETITQLNLSGYRKNLQK-------SDLSTLVR--  172 (284)
T ss_dssp             ------HHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHH---HSCTTCCEEECCSCGGGSCH-------HHHHHHHH--
T ss_pred             ------cccchhhHHHHhccccccccccccccccchhhhc---ccccccchhhhccccccccc-------cccccccc--
Confidence                  345566677899999999997 677766655433   345789999999863  443       22333334  


Q ss_pred             CCCCCccEEEccCC-CCCcchHHHHHHHhhcCCCCCEEeCCCC-CCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          350 KSLQSLRLLNLRGN-NLCKADARDLGSALVHIPNLEILDISDN-TIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       350 ~~l~~L~~L~L~~n-~l~~~~~~~l~~~l~~~~~L~~L~Ls~N-~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                       ++++|++|++++| .++++++    ..+.++++|++|+++++ .|+++|+..+        ..+++|+.|++++| +++
T Consensus       173 -~~~~L~~L~L~~~~~itd~~~----~~l~~~~~L~~L~L~~C~~i~~~~l~~L--------~~~~~L~~L~l~~~-~~d  238 (284)
T d2astb2         173 -RCPNLVHLDLSDSVMLKNDCF----QEFFQLNYLQHLSLSRCYDIIPETLLEL--------GEIPTLKTLQVFGI-VPD  238 (284)
T ss_dssp             -HCTTCSEEECTTCTTCCGGGG----GGGGGCTTCCEEECTTCTTCCGGGGGGG--------GGCTTCCEEECTTS-SCT
T ss_pred             -ccccccccccccccCCCchhh----hhhcccCcCCEEECCCCCCCChHHHHHH--------hcCCCCCEEeeeCC-CCH
Confidence             5689999999997 5888654    44678999999999995 5998775444        45689999999999 888


Q ss_pred             hhHHHHHHHHhcCCCCCcEEEccCCCCCCcc
Q 012512          428 RGVSQLLDTLSTLRRPPTSLSIADNNLGRFC  458 (462)
Q Consensus       428 ~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~~  458 (462)
                      .++..+.+.+.+    |   .+..+++++..
T Consensus       239 ~~l~~l~~~lp~----L---~i~~~~ls~~~  262 (284)
T d2astb2         239 GTLQLLKEALPH----L---QINCSHFTTIA  262 (284)
T ss_dssp             TCHHHHHHHSTT----S---EESCCCSCCTT
T ss_pred             HHHHHHHHhCcc----c---cccCccCCCCC
Confidence            888777765544    3   45667776543

>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=99.69  E-value=2.9e-19  Score=168.22  Aligned_cols=205  Identities=17%  Similarity=0.124  Sum_probs=121.6

Q ss_pred             cceeeeccccch---HhhhhhhcCCCcCEEEecc-CCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhc
Q 012512          176 ARCLRLQNALCV---EETCQLLRESKLQSLVLRW-IRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCS  251 (462)
Q Consensus       176 ~~~l~l~~~~~~---~~~~~l~~~~~L~~L~L~~-~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~  251 (462)
                      +..+++.++...   .++..+.++++|++|+|++ |.+...++..    +.++++|++|+|++|.+....+..+..    
T Consensus        52 v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~----i~~L~~L~~L~Ls~N~l~~~~~~~~~~----  123 (313)
T d1ogqa_          52 VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA----IAKLTQLHYLYITHTNVSGAIPDFLSQ----  123 (313)
T ss_dssp             EEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGG----GGGCTTCSEEEEEEECCEEECCGGGGG----
T ss_pred             EEEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccc----cccccccchhhhccccccccccccccc----
Confidence            344455554433   3567788888999999986 5544322211    356888999999988876543333222    


Q ss_pred             ccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCC-ccEEEecCCCC
Q 012512          252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSS-LSILDLSGNSI  330 (462)
Q Consensus       252 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~-L~~L~Ls~n~l  330 (462)
                          +.+|+.++++.|.+..        .++..+..++.|+++++++|.+.+..+..+.     .+.. ++.+++++|++
T Consensus       124 ----~~~L~~l~l~~N~~~~--------~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~-----~l~~l~~~l~~~~n~l  186 (313)
T d1ogqa_         124 ----IKTLVTLDFSYNALSG--------TLPPSISSLPNLVGITFDGNRISGAIPDSYG-----SFSKLFTSMTISRNRL  186 (313)
T ss_dssp             ----CTTCCEEECCSSEEES--------CCCGGGGGCTTCCEEECCSSCCEEECCGGGG-----CCCTTCCEEECCSSEE
T ss_pred             ----hhhhcccccccccccc--------cCchhhccCcccceeeccccccccccccccc-----cccccccccccccccc
Confidence                6778888888887766        4556677888888899988888765555432     2334 47888888887


Q ss_pred             CCcccccCcccHHHhhhC--------------------CCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCC
Q 012512          331 GGWLSKYDRSGPLFSLGA--------------------GKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISD  390 (462)
Q Consensus       331 ~~~~~~~~~~~l~~~l~~--------------------~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~  390 (462)
                      ++..+        ..+..                    ...+.+++.+++++|.++.     .++.+..+++|+.|++++
T Consensus       187 ~~~~~--------~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~-----~~~~~~~~~~L~~L~Ls~  253 (313)
T d1ogqa_         187 TGKIP--------PTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAF-----DLGKVGLSKNLNGLDLRN  253 (313)
T ss_dssp             EEECC--------GGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECC-----BGGGCCCCTTCCEEECCS
T ss_pred             ccccc--------cccccccccccccccccccccccccccccccccccccccccccc-----cccccccccccccccCcc
Confidence            75433        11221                    1123445555555555543     123344455555555555


Q ss_pred             CCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          391 NTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       391 N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      |++++.     +|   ..+..+++|++|+|++|+|+
T Consensus       254 N~l~g~-----iP---~~l~~L~~L~~L~Ls~N~l~  281 (313)
T d1ogqa_         254 NRIYGT-----LP---QGLTQLKFLHSLNVSFNNLC  281 (313)
T ss_dssp             SCCEEC-----CC---GGGGGCTTCCEEECCSSEEE
T ss_pred             Ceeccc-----CC---hHHhCCCCCCEEECcCCccc
Confidence            555432     33   33444555555555555554

>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=99.68  E-value=2.9e-16  Score=145.09  Aligned_cols=190  Identities=23%  Similarity=0.285  Sum_probs=147.0

Q ss_pred             CCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCC
Q 012512          224 SETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLD  302 (462)
Q Consensus       224 ~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~  302 (462)
                      ..+|++|++++|.+++.....+...       +++|++|+++++.+.+        .....+..+++|++|++++| .++
T Consensus        45 ~~~L~~LdLs~~~i~~~~l~~l~~~-------c~~L~~L~L~~~~l~~--------~~~~~l~~~~~L~~L~Ls~c~~it  109 (284)
T d2astb2          45 PFRVQHMDLSNSVIEVSTLHGILSQ-------CSKLQNLSLEGLRLSD--------PIVNTLAKNSNLVRLNLSGCSGFS  109 (284)
T ss_dssp             CBCCCEEECTTCEECHHHHHHHHTT-------BCCCSEEECTTCBCCH--------HHHHHHTTCTTCSEEECTTCBSCC
T ss_pred             CCCCCEEECCCCccCHHHHHHHHHh-------CCCcccccccccCCCc--------HHHHHHhcCCCCcCcccccccccc
Confidence            4689999999999988777665442       7899999999998876        67777888999999999996 799


Q ss_pred             hhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCCCCCCccEEEccCC--CCCcchHHHHHHHhhc
Q 012512          303 RDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGN--NLCKADARDLGSALVH  379 (462)
Q Consensus       303 ~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n--~l~~~~~~~l~~~l~~  379 (462)
                      +.+...+++.    +++|++|++++|. +++       +.+...+..  .++.|+.|++++|  .+++.++..   ...+
T Consensus       110 d~~l~~l~~~----~~~L~~L~ls~c~~~~~-------~~~~~~~~~--~~~~L~~L~l~~~~~~i~~~~l~~---l~~~  173 (284)
T d2astb2         110 EFALQTLLSS----CSRLDELNLSWCFDFTE-------KHVQVAVAH--VSETITQLNLSGYRKNLQKSDLST---LVRR  173 (284)
T ss_dssp             HHHHHHHHHH----CTTCCEEECCCCTTCCH-------HHHHHHHHH--SCTTCCEEECCSCGGGSCHHHHHH---HHHH
T ss_pred             ccccchhhHH----HHhcccccccccccccc-------ccchhhhcc--cccccchhhhcccccccccccccc---cccc
Confidence            8888887653    5899999999975 553       123333443  2378999999987  588876544   4567


Q ss_pred             CCCCCEEeCCCCC-CCchhHHhHHHHHHhhcCCCCCccEEEccCC-CCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          380 IPNLEILDISDNT-IEDDGIRSLIPYFVQASERCNPLVELYLENC-ELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       380 ~~~L~~L~Ls~N~-l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n-~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +++|++|++++|. +++.++..+        ..+++|++|++++| .+++.+...    +.. .++|++|+++++ +++.
T Consensus       174 ~~~L~~L~L~~~~~itd~~~~~l--------~~~~~L~~L~L~~C~~i~~~~l~~----L~~-~~~L~~L~l~~~-~~d~  239 (284)
T d2astb2         174 CPNLVHLDLSDSVMLKNDCFQEF--------FQLNYLQHLSLSRCYDIIPETLLE----LGE-IPTLKTLQVFGI-VPDG  239 (284)
T ss_dssp             CTTCSEEECTTCTTCCGGGGGGG--------GGCTTCCEEECTTCTTCCGGGGGG----GGG-CTTCCEEECTTS-SCTT
T ss_pred             cccccccccccccCCCchhhhhh--------cccCcCCEEECCCCCCCChHHHHH----Hhc-CCCCCEEeeeCC-CCHH
Confidence            8999999999875 888765444        45689999999997 688876544    445 456999999987 6654


Q ss_pred             c
Q 012512          458 C  458 (462)
Q Consensus       458 ~  458 (462)
                      +
T Consensus       240 ~  240 (284)
T d2astb2         240 T  240 (284)
T ss_dssp             C
T ss_pred             H
Confidence            3

>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=99.66  E-value=1.4e-17  Score=152.75  Aligned_cols=179  Identities=18%  Similarity=0.113  Sum_probs=115.3

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCch
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSS  276 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~  276 (462)
                      +++++|+|++|.+.......    +.++++|++|+|++|.|+....          ...+++|++|++++|++..     
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~----f~~l~~L~~L~L~~N~l~~l~~----------~~~l~~L~~L~Ls~N~l~~-----   91 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLAT----LMPYTRLTQLNLDRAELTKLQV----------DGTLPVLGTLDLSHNQLQS-----   91 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGG----GTTCTTCCEEECTTSCCCEEEC----------CSCCTTCCEEECCSSCCSS-----
T ss_pred             cCCCEEECcCCcCCCcCHHH----hhcccccccccccccccccccc----------ccccccccccccccccccc-----
Confidence            46788888888765432221    3457788888888887763211          1126778888888887765     


Q ss_pred             hHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCcc
Q 012512          277 VVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLR  356 (462)
Q Consensus       277 ~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~  356 (462)
                          ....+..+++|+.|++++|.+.......     ...+.++++|++++|.++...+        .   .+..+..++
T Consensus        92 ----~~~~~~~l~~L~~L~l~~~~~~~~~~~~-----~~~l~~l~~L~l~~n~l~~l~~--------~---~~~~l~~l~  151 (266)
T d1p9ag_          92 ----LPLLGQTLPALTVLDVSFNRLTSLPLGA-----LRGLGELQELYLKGNELKTLPP--------G---LLTPTPKLE  151 (266)
T ss_dssp             ----CCCCTTTCTTCCEEECCSSCCCCCCSST-----TTTCTTCCEEECTTSCCCCCCT--------T---TTTTCTTCC
T ss_pred             ----cccccccccccccccccccccceeeccc-----cccccccccccccccccceecc--------c---cccccccch
Confidence                2334556777888888877766532222     2345777888888887765322        1   222456778


Q ss_pred             EEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          357 LLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       357 ~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      .|++++|+++..    .+..+..+++|++|+|++|.|+.      +|   ..+..+++|+.|+|++|++.-
T Consensus       152 ~l~l~~N~l~~~----~~~~~~~l~~L~~L~Ls~N~L~~------lp---~~~~~~~~L~~L~L~~Np~~C  209 (266)
T d1p9ag_         152 KLSLANNNLTEL----PAGLLNGLENLDTLLLQENSLYT------IP---KGFFGSHLLPFAFLHGNPWLC  209 (266)
T ss_dssp             EEECTTSCCSCC----CTTTTTTCTTCCEEECCSSCCCC------CC---TTTTTTCCCSEEECCSCCBCC
T ss_pred             hccccccccccc----CccccccccccceeecccCCCcc------cC---hhHCCCCCCCEEEecCCCCCC
Confidence            888888877752    23346677788888888888775      55   445556778888888887653

>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=99.63  E-value=5.6e-17  Score=150.14  Aligned_cols=206  Identities=20%  Similarity=0.189  Sum_probs=119.5

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCC-CCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDI-SSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~-~~~~~~~~~  275 (462)
                      +.+++|+|++|.+.......    +.++++|++|++++|.+.......+..        ...++++.... +.+..    
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~----f~~l~~L~~L~ls~n~l~~i~~~~~~~--------~~~~~~l~~~~~~~~~~----   95 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAAS----FRACRNLTILWLHSNVLARIDAAAFTG--------LALLEQLDLSDNAQLRS----   95 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTT----TTTCTTCCEEECCSSCCCEECTTTTTT--------CTTCCEEECCSCTTCCC----
T ss_pred             CCCCEEECcCCcCCCCCHHH----hhccccccccccccccccccccccccc--------ccccccccccccccccc----
Confidence            34677777777664432221    345677777777777665433222211        34555655543 33333    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                          .-...+.++++|++|++++|.+.......     .....+|+.+++++|.+++..+        ..+   +.+.+|
T Consensus        96 ----l~~~~~~~l~~L~~L~l~~n~~~~~~~~~-----~~~~~~L~~l~l~~N~l~~i~~--------~~f---~~~~~L  155 (284)
T d1ozna_          96 ----VDPATFHGLGRLHTLHLDRCGLQELGPGL-----FRGLAALQYLYLQDNALQALPD--------DTF---RDLGNL  155 (284)
T ss_dssp             ----CCTTTTTTCTTCCEEECTTSCCCCCCTTT-----TTTCTTCCEEECCSSCCCCCCT--------TTT---TTCTTC
T ss_pred             ----ccchhhcccccCCEEecCCcccccccccc-----cchhcccchhhhccccccccCh--------hHh---ccccch
Confidence                11334556677777777777665422221     2345667777777777765322        222   244667


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHH
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLD  435 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~  435 (462)
                      +.|++++|+++.    ..+.++..+++|+.+++++|.+++-     .|   ..+..+++|+.|++++|+++..    ...
T Consensus       156 ~~L~l~~N~l~~----l~~~~f~~l~~L~~l~l~~N~l~~i-----~~---~~f~~l~~L~~L~l~~N~i~~~----~~~  219 (284)
T d1ozna_         156 THLFLHGNRISS----VPERAFRGLHSLDRLLLHQNRVAHV-----HP---HAFRDLGRLMTLYLFANNLSAL----PTE  219 (284)
T ss_dssp             CEEECCSSCCCE----ECTTTTTTCTTCCEEECCSSCCCEE-----CT---TTTTTCTTCCEEECCSSCCSCC----CHH
T ss_pred             hhcccccCcccc----cchhhhccccccchhhhhhcccccc-----Ch---hHhhhhhhcccccccccccccc----ccc
Confidence            777777777765    1234566677777777777777651     22   4566667777777777777664    234


Q ss_pred             HHhcCCCCCcEEEccCCCCC
Q 012512          436 TLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       436 ~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      .+.. ..+|++|++++|++.
T Consensus       220 ~~~~-~~~L~~L~l~~N~l~  238 (284)
T d1ozna_         220 ALAP-LRALQYLRLNDNPWV  238 (284)
T ss_dssp             HHTT-CTTCCEEECCSSCEE
T ss_pred             cccc-ccccCEEEecCCCCC
Confidence            4555 345777777777665

>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=99.60  E-value=1.4e-16  Score=145.83  Aligned_cols=178  Identities=20%  Similarity=0.182  Sum_probs=110.6

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRD  304 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~  304 (462)
                      +++++|+|++|.|+......+..        +++|++|++++|.++...          .+..+++|++|+|++|++...
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~--------l~~L~~L~L~~N~l~~l~----------~~~~l~~L~~L~Ls~N~l~~~   92 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMP--------YTRLTQLNLDRAELTKLQ----------VDGTLPVLGTLDLSHNQLQSL   92 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTT--------CTTCCEEECTTSCCCEEE----------CCSCCTTCCEEECCSSCCSSC
T ss_pred             cCCCEEECcCCcCCCcCHHHhhc--------cccccccccccccccccc----------ccccccccccccccccccccc
Confidence            46777777777776433333322        667777777777776511          234567777777777777652


Q ss_pred             hHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCC
Q 012512          305 FGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLE  384 (462)
Q Consensus       305 ~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  384 (462)
                      .. .     ...+++|+.|++++|.+....+           ..+..+.++++|++++|.++.-    -+..+..+++|+
T Consensus        93 ~~-~-----~~~l~~L~~L~l~~~~~~~~~~-----------~~~~~l~~l~~L~l~~n~l~~l----~~~~~~~l~~l~  151 (266)
T d1p9ag_          93 PL-L-----GQTLPALTVLDVSFNRLTSLPL-----------GALRGLGELQELYLKGNELKTL----PPGLLTPTPKLE  151 (266)
T ss_dssp             CC-C-----TTTCTTCCEEECCSSCCCCCCS-----------STTTTCTTCCEEECTTSCCCCC----CTTTTTTCTTCC
T ss_pred             cc-c-----cccccccccccccccccceeec-----------ccccccccccccccccccccee----ccccccccccch
Confidence            11 1     2345777777777777664222           1222456777777777777651    123455667777


Q ss_pred             EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCC
Q 012512          385 ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       385 ~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      .+++++|.|+.      ++.  ..+..+++|++|+|++|+|+.     +++.+.. .++|+.|+|++|++.
T Consensus       152 ~l~l~~N~l~~------~~~--~~~~~l~~L~~L~Ls~N~L~~-----lp~~~~~-~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         152 KLSLANNNLTE------LPA--GLLNGLENLDTLLLQENSLYT-----IPKGFFG-SHLLPFAFLHGNPWL  208 (266)
T ss_dssp             EEECTTSCCSC------CCT--TTTTTCTTCCEEECCSSCCCC-----CCTTTTT-TCCCSEEECCSCCBC
T ss_pred             hcccccccccc------cCc--cccccccccceeecccCCCcc-----cChhHCC-CCCCCEEEecCCCCC
Confidence            77777777765      321  445666777777777777775     5555555 345777777777653

>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=99.59  E-value=4.1e-18  Score=160.23  Aligned_cols=205  Identities=18%  Similarity=0.204  Sum_probs=134.5

Q ss_pred             ccceeeecc-ccch-HhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcc
Q 012512          175 YARCLRLQN-ALCV-EETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSK  252 (462)
Q Consensus       175 ~~~~l~l~~-~~~~-~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~  252 (462)
                      .++.+++.+ +... .+|..+.++++|++|+|++|.+.......    ...+.+|+.+++++|.+....+..+..     
T Consensus        77 ~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~----~~~~~~L~~l~l~~N~~~~~~p~~l~~-----  147 (313)
T d1ogqa_          77 YLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDF----LSQIKTLVTLDFSYNALSGTLPPSISS-----  147 (313)
T ss_dssp             TCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGG----GGGCTTCCEEECCSSEEESCCCGGGGG-----
T ss_pred             cccccccccccccccccccccccccccchhhhcccccccccccc----ccchhhhcccccccccccccCchhhcc-----
Confidence            445566654 2332 46677888899999999988865543222    345778899998888665443333322     


Q ss_pred             cccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCC-CEEecCCCCCChhhHHHHHH------------------HH
Q 012512          253 RKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSL-CSLKLRHCHLDRDFGRMVFS------------------SL  313 (462)
Q Consensus       253 ~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L-~~L~Ls~n~l~~~~~~~l~~------------------~l  313 (462)
                         ++.++.+++++|.+..        .++..+..+..+ +.+++++|++.+..+..+..                  ..
T Consensus       148 ---l~~L~~l~l~~n~l~~--------~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~  216 (313)
T d1ogqa_         148 ---LPNLVGITFDGNRISG--------AIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVL  216 (313)
T ss_dssp             ---CTTCCEEECCSSCCEE--------ECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGG
T ss_pred             ---Ccccceeecccccccc--------ccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               6788888888888765        344555555544 67777777665433322210                  01


Q ss_pred             hhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          314 LEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       314 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      ......++.+++++|.+.+.            +..+..+++|+.|+|++|++++    .+|..+.++++|++|+|++|+|
T Consensus       217 ~~~~~~l~~l~~~~~~l~~~------------~~~~~~~~~L~~L~Ls~N~l~g----~iP~~l~~L~~L~~L~Ls~N~l  280 (313)
T d1ogqa_         217 FGSDKNTQKIHLAKNSLAFD------------LGKVGLSKNLNGLDLRNNRIYG----TLPQGLTQLKFLHSLNVSFNNL  280 (313)
T ss_dssp             CCTTSCCSEEECCSSEECCB------------GGGCCCCTTCCEEECCSSCCEE----CCCGGGGGCTTCCEEECCSSEE
T ss_pred             cccccccccccccccccccc------------ccccccccccccccCccCeecc----cCChHHhCCCCCCEEECcCCcc
Confidence            12345666667776666542            2223356899999999999996    4888999999999999999998


Q ss_pred             CchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          394 EDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       394 ~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      +..     +|.    +..+++|+.+++++|+
T Consensus       281 ~g~-----iP~----~~~L~~L~~l~l~~N~  302 (313)
T d1ogqa_         281 CGE-----IPQ----GGNLQRFDVSAYANNK  302 (313)
T ss_dssp             EEE-----CCC----STTGGGSCGGGTCSSS
T ss_pred             ccc-----CCC----cccCCCCCHHHhCCCc
Confidence            843     542    3444566666666665

>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=99.58  E-value=4.4e-16  Score=145.50  Aligned_cols=233  Identities=18%  Similarity=0.175  Sum_probs=145.7

Q ss_pred             ccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhccc
Q 012512          175 YARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKR  253 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~  253 (462)
                      .++.+++.++.+.+++. .+.++++|++|++++|.+.......    +.++++|++|++++|+++.....          
T Consensus        32 ~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~----f~~l~~L~~L~l~~n~l~~l~~~----------   97 (305)
T d1xkua_          32 DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGA----FAPLVKLERLYLSKNQLKELPEK----------   97 (305)
T ss_dssp             TCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTT----TTTCTTCCEEECCSSCCSBCCSS----------
T ss_pred             CCCEEECcCCcCCCcChhHhhccccccccccccccccccchhh----hhCCCccCEecccCCccCcCccc----------
Confidence            45666666666665554 3456677777777777654432211    34566777777777766522110          


Q ss_pred             ccCCCccEEecCCCCCCCCCCc------------------hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhh
Q 012512          254 KRIHKIENLSIDISSFIENCPS------------------SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLE  315 (462)
Q Consensus       254 ~~~~~L~~L~l~~~~~~~~~~~------------------~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~  315 (462)
                       ....+..|.+.+|.+......                  .........+..+++|+.+++++|.+... +.       .
T Consensus        98 -~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l-~~-------~  168 (305)
T d1xkua_          98 -MPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTI-PQ-------G  168 (305)
T ss_dssp             -CCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSC-CS-------S
T ss_pred             -hhhhhhhhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCcccc-Cc-------c
Confidence             023344444444443321100                  00011223456677888888888877652 11       1


Q ss_pred             CCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          316 ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       316 ~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      ..++|++|++++|..+...+        ..+.   ++..++.|++++|.+++.    .+..+.++++|++|+|++|.|+.
T Consensus       169 ~~~~L~~L~l~~n~~~~~~~--------~~~~---~~~~l~~L~~s~n~l~~~----~~~~~~~l~~L~~L~L~~N~L~~  233 (305)
T d1xkua_         169 LPPSLTELHLDGNKITKVDA--------ASLK---GLNNLAKLGLSFNSISAV----DNGSLANTPHLRELHLNNNKLVK  233 (305)
T ss_dssp             CCTTCSEEECTTSCCCEECT--------GGGT---TCTTCCEEECCSSCCCEE----CTTTGGGSTTCCEEECCSSCCSS
T ss_pred             cCCccCEEECCCCcCCCCCh--------hHhh---cccccccccccccccccc----ccccccccccceeeecccccccc
Confidence            24678888888888775433        3333   567899999999999872    24567888999999999999886


Q ss_pred             hhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHH--HHHHhcCCCCCcEEEccCCCCC
Q 012512          396 DGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL--LDTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       396 ~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l--~~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                            +|   ..+..+++|+.|++++|+|+..+...+  ...... ..+|+.|++++|++.
T Consensus       234 ------lp---~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~-~~~L~~L~L~~N~~~  285 (305)
T d1xkua_         234 ------VP---GGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTK-KASYSGVSLFSNPVQ  285 (305)
T ss_dssp             ------CC---TTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTT-SCCCSEEECCSSSSC
T ss_pred             ------cc---cccccccCCCEEECCCCccCccChhhccCcchhcc-cCCCCEEECCCCcCc
Confidence                  55   567788999999999999887322111  112223 456999999999986

>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=99.57  E-value=9e-15  Score=123.54  Aligned_cols=133  Identities=12%  Similarity=0.157  Sum_probs=79.3

Q ss_pred             HHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEE
Q 012512          280 ELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLL  358 (462)
Q Consensus       280 ~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L  358 (462)
                      .+.....+.+.|++|+|+++ .+++.+...++.++..+ ++|++|+|++|.++    +.+...++..+..   .++|++|
T Consensus         6 ~l~~l~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n-~~L~~L~Ls~n~l~----~~~~~~la~~L~~---n~~L~~L   77 (167)
T d1pgva_           6 CINRLREDDTDLKEVNINNMKRVSKERIRSLIEAACNS-KHIEKFSLANTAIS----DSEARGLIELIET---SPSLRVL   77 (167)
T ss_dssp             HHHHHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTC-SCCCEEECTTSCCB----HHHHTTHHHHHHH---CSSCCEE
T ss_pred             HHHHHHhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhC-Cccceeeccccccc----hhHHHHHhhhhhh---cccccce
Confidence            45555556678888888864 58887888777776443 56666666666665    2344445555542   2456666


Q ss_pred             EccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCC---CCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          359 NLRGNNLCKADARDLGSALVHIPNLEILDISDNT---IEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       359 ~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~---l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      +|++|.|+++|+..+..++..+++|++|++++|.   ++++|+..++.    .+..+++|++|+++.+.
T Consensus        78 ~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~----~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_          78 NVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMM----AIEENESLLRVGISFAS  142 (167)
T ss_dssp             ECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHH----HHHHCSSCCEEECCCCC
T ss_pred             eeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHH----HHHhCCCccEeeCcCCC
Confidence            6666666666666666666666666666666553   44455555542    33444556666665543

>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=99.53  E-value=3.4e-14  Score=136.61  Aligned_cols=148  Identities=24%  Similarity=0.329  Sum_probs=68.3

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSK  336 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~  336 (462)
                      .+|++|++++|.+..         + ..+..+++|+.|++++|.+++...       ...+++|++|+++++.+++..+ 
T Consensus       219 ~~L~~L~l~~n~l~~---------~-~~l~~l~~L~~L~l~~n~l~~~~~-------~~~~~~L~~L~l~~~~l~~~~~-  280 (384)
T d2omza2         219 TNLDELSLNGNQLKD---------I-GTLASLTNLTDLDLANNQISNLAP-------LSGLTKLTELKLGANQISNISP-  280 (384)
T ss_dssp             TTCCEEECCSSCCCC---------C-GGGGGCTTCSEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCCCCGG-
T ss_pred             CCCCEEECCCCCCCC---------c-chhhcccccchhccccCccCCCCc-------ccccccCCEeeccCcccCCCCc-
Confidence            445555555555443         1 123445566666666666554221       1234566666666666553211 


Q ss_pred             cCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCcc
Q 012512          337 YDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLV  416 (462)
Q Consensus       337 ~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~  416 (462)
                               +.   .+..++.+.++.|.+++     + ..+..+++++.|++++|.+++      ++    .+..+++|+
T Consensus       281 ---------~~---~~~~l~~l~~~~n~l~~-----~-~~~~~~~~l~~L~ls~n~l~~------l~----~l~~l~~L~  332 (384)
T d2omza2         281 ---------LA---GLTALTNLELNENQLED-----I-SPISNLKNLTYLTLYFNNISD------IS----PVSSLTKLQ  332 (384)
T ss_dssp             ---------GT---TCTTCSEEECCSSCCSC-----C-GGGGGCTTCSEEECCSSCCSC------CG----GGGGCTTCC
T ss_pred             ---------cc---ccccccccccccccccc-----c-cccchhcccCeEECCCCCCCC------Cc----ccccCCCCC
Confidence                     11   22333333333333332     1 124445555555555555554      21    133345555


Q ss_pred             EEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          417 ELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       417 ~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                      +|++++|+|++     +. .+.. .++|++|++++|+|++-
T Consensus       333 ~L~L~~n~l~~-----l~-~l~~-l~~L~~L~l~~N~l~~l  366 (384)
T d2omza2         333 RLFFANNKVSD-----VS-SLAN-LTNINWLSAGHNQISDL  366 (384)
T ss_dssp             EEECCSSCCCC-----CG-GGGG-CTTCCEEECCSSCCCBC
T ss_pred             EEECCCCCCCC-----Ch-hHcC-CCCCCEEECCCCcCCCC
Confidence            55555555554     11 2344 23455555555555543

>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=99.51  E-value=2.5e-14  Score=127.44  Aligned_cols=188  Identities=20%  Similarity=0.249  Sum_probs=140.0

Q ss_pred             cCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCC
Q 012512          195 RESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCP  274 (462)
Q Consensus       195 ~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~  274 (462)
                      .+.+|++|++.+|.+... ..     ...+++|++|++++|.+++..+  +        ..+.+++++++++|.++..  
T Consensus        39 ~l~~L~~L~l~~~~i~~l-~~-----l~~l~~L~~L~ls~n~i~~~~~--l--------~~l~~l~~l~~~~n~~~~i--  100 (227)
T d1h6ua2          39 DLDGITTLSAFGTGVTTI-EG-----VQYLNNLIGLELKDNQITDLAP--L--------KNLTKITELELSGNPLKNV--  100 (227)
T ss_dssp             HHHTCCEEECTTSCCCCC-TT-----GGGCTTCCEEECCSSCCCCCGG--G--------TTCCSCCEEECCSCCCSCC--
T ss_pred             HcCCcCEEECCCCCCCcc-hh-----HhcCCCCcEeecCCceeecccc--c--------ccccccccccccccccccc--
Confidence            346689999998876542 22     3568999999999998875322  1        1278899999999988762  


Q ss_pred             chhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCC
Q 012512          275 SSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQS  354 (462)
Q Consensus       275 ~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~  354 (462)
                              ..+..++.|++++++++...+...       ....+.++.+.++++.+....+          +.   ++.+
T Consensus       101 --------~~l~~l~~L~~l~l~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~----------~~---~~~~  152 (227)
T d1h6ua2         101 --------SAIAGLQSIKTLDLTSTQITDVTP-------LAGLSNLQVLYLDLNQITNISP----------LA---GLTN  152 (227)
T ss_dssp             --------GGGTTCTTCCEEECTTSCCCCCGG-------GTTCTTCCEEECCSSCCCCCGG----------GG---GCTT
T ss_pred             --------ccccccccccccccccccccccch-------hccccchhhhhchhhhhchhhh----------hc---cccc
Confidence                    235678999999999998765322       2345789999999988875221          23   4478


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLL  434 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~  434 (462)
                      |++|++++|.+++.      ..+.++++|++|++++|.+++      ++    .+..+++|++|++++|++++.     .
T Consensus       153 L~~L~l~~n~~~~~------~~l~~l~~L~~L~Ls~n~l~~------l~----~l~~l~~L~~L~Ls~N~lt~i-----~  211 (227)
T d1h6ua2         153 LQYLSIGNAQVSDL------TPLANLSKLTTLKADDNKISD------IS----PLASLPNLIEVHLKNNQISDV-----S  211 (227)
T ss_dssp             CCEEECCSSCCCCC------GGGTTCTTCCEEECCSSCCCC------CG----GGGGCTTCCEEECTTSCCCBC-----G
T ss_pred             cccccccccccccc------hhhcccccceecccCCCccCC------Ch----hhcCCCCCCEEECcCCcCCCC-----c
Confidence            99999999998863      237889999999999999987      53    356678999999999999983     2


Q ss_pred             HHHhcCCCCCcEEEccC
Q 012512          435 DTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~  451 (462)
                       .+.. .++|++|++++
T Consensus       212 -~l~~-l~~L~~L~lsn  226 (227)
T d1h6ua2         212 -PLAN-TSNLFIVTLTN  226 (227)
T ss_dssp             -GGTT-CTTCCEEEEEE
T ss_pred             -cccc-CCCCCEEEeeC
Confidence             3666 45699999973

>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=99.51  E-value=3.5e-15  Score=139.26  Aligned_cols=212  Identities=19%  Similarity=0.130  Sum_probs=136.5

Q ss_pred             ccceeeeccccchHhh-hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHH----
Q 012512          175 YARCLRLQNALCVEET-CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSL----  249 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~-~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l----  249 (462)
                      .++.+.+.++....+. ..+.++++|++|++++|.+.....       .....+..|++.+|.+.......+....    
T Consensus        56 ~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~-------~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~  128 (305)
T d1xkua_          56 NLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPE-------KMPKTLQELRVHENEITKVRKSVFNGLNQMIV  128 (305)
T ss_dssp             TCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCS-------SCCTTCCEEECCSSCCCBBCHHHHTTCTTCCE
T ss_pred             cccccccccccccccchhhhhCCCccCEecccCCccCcCcc-------chhhhhhhhhccccchhhhhhhhhhccccccc
Confidence            3444555555444432 334456666777776665443221       1234555666655554432222111000    


Q ss_pred             --------------hcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhh
Q 012512          250 --------------CSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLE  315 (462)
Q Consensus       250 --------------~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~  315 (462)
                                    ......+.+|+.+++++|.+.....           ...++|++|++++|.+....+..     +.
T Consensus       129 l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~-----------~~~~~L~~L~l~~n~~~~~~~~~-----~~  192 (305)
T d1xkua_         129 VELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQ-----------GLPPSLTELHLDGNKITKVDAAS-----LK  192 (305)
T ss_dssp             EECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCS-----------SCCTTCSEEECTTSCCCEECTGG-----GT
T ss_pred             cccccccccccCCCccccccccccCccccccCCccccCc-----------ccCCccCEEECCCCcCCCCChhH-----hh
Confidence                          0011225778999999998876321           13579999999999988765543     35


Q ss_pred             CCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          316 ASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       316 ~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      .++.++.|++++|.+++..+        ..+.   ++++|++|+|++|+|+.     ++.++..+++|+.|++++|+|+.
T Consensus       193 ~~~~l~~L~~s~n~l~~~~~--------~~~~---~l~~L~~L~L~~N~L~~-----lp~~l~~l~~L~~L~Ls~N~i~~  256 (305)
T d1xkua_         193 GLNNLAKLGLSFNSISAVDN--------GSLA---NTPHLRELHLNNNKLVK-----VPGGLADHKYIQVVYLHNNNISA  256 (305)
T ss_dssp             TCTTCCEEECCSSCCCEECT--------TTGG---GSTTCCEEECCSSCCSS-----CCTTTTTCSSCCEEECCSSCCCC
T ss_pred             cccccccccccccccccccc--------cccc---ccccceeeecccccccc-----cccccccccCCCEEECCCCccCc
Confidence            57899999999999986433        3333   56899999999999985     77889999999999999999986


Q ss_pred             hhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          396 DGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       396 ~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      -+-..+.+.  .......+|+.|+|++|+++.
T Consensus       257 i~~~~f~~~--~~~~~~~~L~~L~L~~N~~~~  286 (305)
T d1xkua_         257 IGSNDFCPP--GYNTKKASYSGVSLFSNPVQY  286 (305)
T ss_dssp             CCTTSSSCS--SCCTTSCCCSEEECCSSSSCG
T ss_pred             cChhhccCc--chhcccCCCCEEECCCCcCcc
Confidence            221111110  234456889999999999875

>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=99.51  E-value=1.1e-13  Score=116.69  Aligned_cols=137  Identities=13%  Similarity=0.215  Sum_probs=114.2

Q ss_pred             HHHHHHHHhhCCCCccEEEecCC-CCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCC
Q 012512          306 GRMVFSSLLEASSSLSILDLSGN-SIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLE  384 (462)
Q Consensus       306 ~~~l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  384 (462)
                      +....+.+..+.++|++|+|+++ .++    +.+...+...+.   ..++|++|+|++|.+++.++..++.++..+++|+
T Consensus         3 v~~~l~~l~~n~~~L~~L~L~~~~~i~----~~~~~~l~~~L~---~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~   75 (167)
T d1pgva_           3 VESCINRLREDDTDLKEVNINNMKRVS----KERIRSLIEAAC---NSKHIEKFSLANTAISDSEARGLIELIETSPSLR   75 (167)
T ss_dssp             HHHHHHHHHTTCSSCCEEECTTCCSSC----HHHHHHHHHHHT---TCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCC
T ss_pred             HHHHHHHHHhCCCCCcEEEeCCCCCCC----HHHHHHHHHHHh---hCCccceeeccccccchhHHHHHhhhhhhccccc
Confidence            34445556677799999999985 466    344445666666   4578999999999999999999999999999999


Q ss_pred             EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC---CChhhHHHHHHHHhcCCCCCcEEEccCCCC
Q 012512          385 ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE---LSGRGVSQLLDTLSTLRRPPTSLSIADNNL  454 (462)
Q Consensus       385 ~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~---l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l  454 (462)
                      +|+|++|.|+++|+..++    ..+..+++|++|++++|.   +++.++.++++++.. +++|+.|+++++..
T Consensus        76 ~L~L~~n~i~~~g~~~l~----~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~-n~sL~~l~l~~~~~  143 (167)
T d1pgva_          76 VLNVESNFLTPELLARLL----RSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEE-NESLLRVGISFASM  143 (167)
T ss_dssp             EEECCSSBCCHHHHHHHH----HHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHH-CSSCCEEECCCCCH
T ss_pred             ceeeehhhcchHHHHHHH----HHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHh-CCCccEeeCcCCCc
Confidence            999999999999999988    557788999999999885   667888999999999 78899999988754

>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=99.51  E-value=1.9e-13  Score=115.21  Aligned_cols=134  Identities=13%  Similarity=0.083  Sum_probs=75.5

Q ss_pred             HHHHHhhcCCCCCCEEecCC-CCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccE
Q 012512          279 VELVSFLSSGRSLCSLKLRH-CHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRL  357 (462)
Q Consensus       279 ~~l~~~l~~l~~L~~L~Ls~-n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~  357 (462)
                      +.+.....+.+.|++|+|++ +.+++.++..+++++..+ ++|++|++++|.++    +.+...+...+.   ...+++.
T Consensus         7 ~~l~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n-~~L~~L~Ls~n~l~----~~~~~~L~~~l~---~~~~l~~   78 (166)
T d1io0a_           7 ETLKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTN-TYVKKFSIVGTRSN----DPVAFALAEMLK---VNNTLKS   78 (166)
T ss_dssp             HHHHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTC-CSCCEEECTTSCCC----HHHHHHHHHHHH---HCSSCCE
T ss_pred             HHHHHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcC-CccCeeeccCCccc----HHHHHHHHHHHh---hcccchh
Confidence            34555666678888888887 568888888887776443 55666666666555    233333444444   2245555


Q ss_pred             EEccCCCCCcchHHHHHHHhhcCCCCCEEeC--CCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCC
Q 012512          358 LNLRGNNLCKADARDLGSALVHIPNLEILDI--SDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCE  424 (462)
Q Consensus       358 L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L--s~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~  424 (462)
                      +++++|.++++|+..+..++..+++|+.++|  ++|.++++|..+++..    +..+++|++|++..+.
T Consensus        79 l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~----L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          79 LNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANM----LEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             EECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHH----HHHCSSCCEEECCCSS
T ss_pred             hhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHH----HHhCCCcCEEeCcCCC
Confidence            5555555555555555555555555554333  3445555555555532    2334555555555443

>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=99.50  E-value=3.8e-14  Score=136.21  Aligned_cols=193  Identities=20%  Similarity=0.239  Sum_probs=150.4

Q ss_pred             hhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCC
Q 012512          191 CQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFI  270 (462)
Q Consensus       191 ~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~  270 (462)
                      .....+++++.+++++|.+.....      ...+++|++|++++|.+++..  .    +..    +.+|+.|++++|.+.
T Consensus       191 ~~~~~l~~~~~l~l~~n~i~~~~~------~~~~~~L~~L~l~~n~l~~~~--~----l~~----l~~L~~L~l~~n~l~  254 (384)
T d2omza2         191 SVLAKLTNLESLIATNNQISDITP------LGILTNLDELSLNGNQLKDIG--T----LAS----LTNLTDLDLANNQIS  254 (384)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCCGG------GGGCTTCCEEECCSSCCCCCG--G----GGG----CTTCSEEECCSSCCC
T ss_pred             cccccccccceeeccCCccCCCCc------ccccCCCCEEECCCCCCCCcc--h----hhc----ccccchhccccCccC
Confidence            445677889999999988665332      245789999999999987632  1    111    788999999999987


Q ss_pred             CCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCC
Q 012512          271 ENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGK  350 (462)
Q Consensus       271 ~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~  350 (462)
                      .         +. .+..+++|++|++++|++.....       ......++.++++.|.+++.          ..+.   
T Consensus       255 ~---------~~-~~~~~~~L~~L~l~~~~l~~~~~-------~~~~~~l~~l~~~~n~l~~~----------~~~~---  304 (384)
T d2omza2         255 N---------LA-PLSGLTKLTELKLGANQISNISP-------LAGLTALTNLELNENQLEDI----------SPIS---  304 (384)
T ss_dssp             C---------CG-GGTTCTTCSEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCSCC----------GGGG---
T ss_pred             C---------CC-cccccccCCEeeccCcccCCCCc-------cccccccccccccccccccc----------cccc---
Confidence            6         21 36778999999999999876322       24568899999999998852          1233   


Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV  430 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~  430 (462)
                      .+..++.|++++|++++     ++ .+..+++|++|++++|.|++      ++    .+..+++|++|++++|+|++.  
T Consensus       305 ~~~~l~~L~ls~n~l~~-----l~-~l~~l~~L~~L~L~~n~l~~------l~----~l~~l~~L~~L~l~~N~l~~l--  366 (384)
T d2omza2         305 NLKNLTYLTLYFNNISD-----IS-PVSSLTKLQRLFFANNKVSD------VS----SLANLTNINWLSAGHNQISDL--  366 (384)
T ss_dssp             GCTTCSEEECCSSCCSC-----CG-GGGGCTTCCEEECCSSCCCC------CG----GGGGCTTCCEEECCSSCCCBC--
T ss_pred             hhcccCeEECCCCCCCC-----Cc-ccccCCCCCEEECCCCCCCC------Ch----hHcCCCCCCEEECCCCcCCCC--
Confidence            45889999999999997     33 37889999999999999987      53    356779999999999999983  


Q ss_pred             HHHHHHHhcCCCCCcEEEccCC
Q 012512          431 SQLLDTLSTLRRPPTSLSIADN  452 (462)
Q Consensus       431 ~~l~~~l~~l~~~L~~L~Ls~N  452 (462)
                         . .+..+ ++|++|+|++|
T Consensus       367 ---~-~l~~l-~~L~~L~L~~N  383 (384)
T d2omza2         367 ---T-PLANL-TRITQLGLNDQ  383 (384)
T ss_dssp             ---G-GGTTC-TTCSEEECCCE
T ss_pred             ---h-hhccC-CCCCEeeCCCC
Confidence               2 26664 56999999998

>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=99.50  E-value=4.1e-15  Score=137.39  Aligned_cols=206  Identities=17%  Similarity=0.088  Sum_probs=154.3

Q ss_pred             cccceeeeccccchHhhh-hhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccC-CCCChhHHHHHHHHHhc
Q 012512          174 HYARCLRLQNALCVEETC-QLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLH-CKLSPSFVEGICRSLCS  251 (462)
Q Consensus       174 ~~~~~l~l~~~~~~~~~~-~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~-~~l~~~~~~~l~~~l~~  251 (462)
                      ..++.|.++++.+.+++. .+.++++|++|++++|.+.......    ......+.++.... +.+.......+..    
T Consensus        32 ~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~----~~~~~~~~~l~~~~~~~~~~l~~~~~~~----  103 (284)
T d1ozna_          32 AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAA----FTGLALLEQLDLSDNAQLRSVDPATFHG----  103 (284)
T ss_dssp             TTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTT----TTTCTTCCEEECCSCTTCCCCCTTTTTT----
T ss_pred             CCCCEEECcCCcCCCCCHHHhhcccccccccccccccccccccc----ccccccccccccccccccccccchhhcc----
Confidence            456788898888877665 4668899999999999865443222    34567888887764 4555433333222    


Q ss_pred             ccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCC
Q 012512          252 KRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIG  331 (462)
Q Consensus       252 ~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~  331 (462)
                          +.+|++|++++|.+..        .....+....+|+.+++++|.++......     +...++|++|++++|.++
T Consensus       104 ----l~~L~~L~l~~n~~~~--------~~~~~~~~~~~L~~l~l~~N~l~~i~~~~-----f~~~~~L~~L~l~~N~l~  166 (284)
T d1ozna_         104 ----LGRLHTLHLDRCGLQE--------LGPGLFRGLAALQYLYLQDNALQALPDDT-----FRDLGNLTHLFLHGNRIS  166 (284)
T ss_dssp             ----CTTCCEEECTTSCCCC--------CCTTTTTTCTTCCEEECCSSCCCCCCTTT-----TTTCTTCCEEECCSSCCC
T ss_pred             ----cccCCEEecCCccccc--------ccccccchhcccchhhhccccccccChhH-----hccccchhhcccccCccc
Confidence                7889999999998866        22345566789999999999998744332     345688999999999998


Q ss_pred             CcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCC
Q 012512          332 GWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASER  411 (462)
Q Consensus       332 ~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~  411 (462)
                      ...+           ..+.++++|+.+++++|++++    ..+..+..+++|++|++++|.+...     .+   ..+..
T Consensus       167 ~l~~-----------~~f~~l~~L~~l~l~~N~l~~----i~~~~f~~l~~L~~L~l~~N~i~~~-----~~---~~~~~  223 (284)
T d1ozna_         167 SVPE-----------RAFRGLHSLDRLLLHQNRVAH----VHPHAFRDLGRLMTLYLFANNLSAL-----PT---EALAP  223 (284)
T ss_dssp             EECT-----------TTTTTCTTCCEEECCSSCCCE----ECTTTTTTCTTCCEEECCSSCCSCC-----CH---HHHTT
T ss_pred             ccch-----------hhhccccccchhhhhhccccc----cChhHhhhhhhcccccccccccccc-----cc---ccccc
Confidence            5333           233377899999999999997    2467789999999999999999873     22   55677


Q ss_pred             CCCccEEEccCCCCCh
Q 012512          412 CNPLVELYLENCELSG  427 (462)
Q Consensus       412 ~~~L~~L~L~~n~l~~  427 (462)
                      +++|+.|++++|++..
T Consensus       224 ~~~L~~L~l~~N~l~C  239 (284)
T d1ozna_         224 LRALQYLRLNDNPWVC  239 (284)
T ss_dssp             CTTCCEEECCSSCEEC
T ss_pred             ccccCEEEecCCCCCC
Confidence            8999999999999874

>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=99.50  E-value=3.7e-14  Score=124.65  Aligned_cols=143  Identities=24%  Similarity=0.290  Sum_probs=83.4

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|.+++         +. .+..+++|++|++++|++++-.  .     ...+++|+.|++++|.+...  
T Consensus        67 l~~L~~L~L~~n~i~~---------l~-~~~~l~~L~~L~l~~n~i~~l~--~-----l~~l~~L~~L~l~~~~~~~~--  127 (210)
T d1h6ta2          67 LPNVTKLFLNGNKLTD---------IK-PLANLKNLGWLFLDENKVKDLS--S-----LKDLKKLKSLSLEHNGISDI--  127 (210)
T ss_dssp             CTTCCEEECCSSCCCC---------CG-GGTTCTTCCEEECCSSCCCCGG--G-----GTTCTTCCEEECTTSCCCCC--
T ss_pred             CCCCCEEeCCCccccC---------cc-ccccCccccccccccccccccc--c-----cccccccccccccccccccc--
Confidence            4556666666665554         11 2345666777777777666521  1     23356677777777765531  


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              ..+.   +++.++.+++++|.+++.      ..+..+++|+++++++|.+++      ++    .+..+++|
T Consensus       128 --------~~l~---~l~~l~~l~~~~n~l~~~------~~~~~l~~L~~l~l~~n~l~~------i~----~l~~l~~L  180 (210)
T d1h6ta2         128 --------NGLV---HLPQLESLYLGNNKITDI------TVLSRLTKLDTLSLEDNQISD------IV----PLAGLTKL  180 (210)
T ss_dssp             --------GGGG---GCTTCCEEECCSSCCCCC------GGGGGCTTCSEEECCSSCCCC------CG----GGTTCTTC
T ss_pred             --------cccc---cccccccccccccccccc------ccccccccccccccccccccc------cc----cccCCCCC
Confidence                    1122   445677777777777652      234566777777777777765      32    24556777


Q ss_pred             cEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccC
Q 012512          416 VELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       416 ~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~  451 (462)
                      ++|++++|+|++     +. .+..+ ++|++|+|++
T Consensus       181 ~~L~Ls~N~i~~-----l~-~l~~l-~~L~~L~Ls~  209 (210)
T d1h6ta2         181 QNLYLSKNHISD-----LR-ALAGL-KNLDVLELFS  209 (210)
T ss_dssp             CEEECCSSCCCB-----CG-GGTTC-TTCSEEEEEE
T ss_pred             CEEECCCCCCCC-----Ch-hhcCC-CCCCEEEccC
Confidence            777777777765     32 35553 4477777753

>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=99.48  E-value=6.8e-14  Score=121.81  Aligned_cols=126  Identities=20%  Similarity=0.290  Sum_probs=66.7

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      +++|++|++++|+++.         +. .++.+++|++|++++|.+.....       ...++.|+.|++++|.+...  
T Consensus        61 l~nL~~L~Ls~N~l~~---------~~-~l~~l~~L~~L~l~~n~~~~~~~-------l~~l~~L~~L~l~~~~~~~~--  121 (199)
T d2omxa2          61 LNNLTQINFSNNQLTD---------IT-PLKNLTKLVDILMNNNQIADITP-------LANLTNLTGLTLFNNQITDI--  121 (199)
T ss_dssp             CTTCCEEECCSSCCCC---------CG-GGTTCTTCCEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCCCC--
T ss_pred             CCCcCcCccccccccC---------cc-cccCCcccccccccccccccccc-------cccccccccccccccccccc--
Confidence            4455555555555544         11 14455566666666665544211       13345666666666655431  


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCc
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPL  415 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L  415 (462)
                              ..+.   ++++|+.|++++|++..     + +.+..+++|+.|++++|.+++      +    ..+.++++|
T Consensus       122 --------~~~~---~l~~L~~L~l~~n~l~~-----~-~~l~~~~~L~~L~l~~n~l~~------l----~~l~~l~~L  174 (199)
T d2omxa2         122 --------DPLK---NLTNLNRLELSSNTISD-----I-SALSGLTSLQQLNFSSNQVTD------L----KPLANLTTL  174 (199)
T ss_dssp             --------GGGT---TCTTCSEEECCSSCCCC-----C-GGGTTCTTCSEEECCSSCCCC------C----GGGTTCTTC
T ss_pred             --------cccc---hhhhhHHhhhhhhhhcc-----c-ccccccccccccccccccccC------C----ccccCCCCC
Confidence                    1122   34566666666666653     2 235556666666666666655      3    224455666


Q ss_pred             cEEEccCCCCCh
Q 012512          416 VELYLENCELSG  427 (462)
Q Consensus       416 ~~L~L~~n~l~~  427 (462)
                      ++|++++|++++
T Consensus       175 ~~L~ls~N~i~~  186 (199)
T d2omxa2         175 ERLDISSNKVSD  186 (199)
T ss_dssp             CEEECCSSCCCC
T ss_pred             CEEECCCCCCCC
Confidence            666666666655

>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=99.47  E-value=8.4e-14  Score=122.29  Aligned_cols=165  Identities=22%  Similarity=0.191  Sum_probs=126.9

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      +..|++|+++++.+.....      ...+++|++|++++|.+++...  +.        .+.+|+.|++++|++..    
T Consensus        45 L~~L~~L~l~~~~i~~l~~------l~~l~~L~~L~L~~n~i~~l~~--~~--------~l~~L~~L~l~~n~i~~----  104 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQG------IQYLPNVTKLFLNGNKLTDIKP--LA--------NLKNLGWLFLDENKVKD----  104 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTT------GGGCTTCCEEECCSSCCCCCGG--GT--------TCTTCCEEECCSSCCCC----
T ss_pred             hcCccEEECcCCCCCCchh------HhhCCCCCEEeCCCccccCccc--cc--------cCccccccccccccccc----
Confidence            3568999999998654321      3568999999999999875332  11        27889999999999876    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                           +. .+..+++|+.|++++|.+....  .     ...++.++.+++++|.+++.          ..+.   .+++|
T Consensus       105 -----l~-~l~~l~~L~~L~l~~~~~~~~~--~-----l~~l~~l~~l~~~~n~l~~~----------~~~~---~l~~L  158 (210)
T d1h6ta2         105 -----LS-SLKDLKKLKSLSLEHNGISDIN--G-----LVHLPQLESLYLGNNKITDI----------TVLS---RLTKL  158 (210)
T ss_dssp             -----GG-GGTTCTTCCEEECTTSCCCCCG--G-----GGGCTTCCEEECCSSCCCCC----------GGGG---GCTTC
T ss_pred             -----cc-cccccccccccccccccccccc--c-----cccccccccccccccccccc----------cccc---ccccc
Confidence                 32 4677899999999999886522  1     24468999999999998852          1123   45789


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccC
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLEN  422 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~  422 (462)
                      +++++++|++++     ++ .+.++++|++|++++|.|++      ++    .+..+++|+.|+|++
T Consensus       159 ~~l~l~~n~l~~-----i~-~l~~l~~L~~L~Ls~N~i~~------l~----~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         159 DTLSLEDNQISD-----IV-PLAGLTKLQNLYLSKNHISD------LR----ALAGLKNLDVLELFS  209 (210)
T ss_dssp             SEEECCSSCCCC-----CG-GGTTCTTCCEEECCSSCCCB------CG----GGTTCTTCSEEEEEE
T ss_pred             cccccccccccc-----cc-cccCCCCCCEEECCCCCCCC------Ch----hhcCCCCCCEEEccC
Confidence            999999999986     33 38889999999999999987      53    467779999999875

>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=99.45  E-value=3.1e-13  Score=120.17  Aligned_cols=185  Identities=18%  Similarity=0.206  Sum_probs=140.0

Q ss_pred             ccceeeeccccchHhhhhhhcCCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccc
Q 012512          175 YARCLRLQNALCVEETCQLLRESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRK  254 (462)
Q Consensus       175 ~~~~l~l~~~~~~~~~~~l~~~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~  254 (462)
                      .++.+.+.++.+..+ ..+.++++|++|++++|.+.....      ...+++++++++++|.+++..  .+    .    
T Consensus        42 ~L~~L~l~~~~i~~l-~~l~~l~~L~~L~ls~n~i~~~~~------l~~l~~l~~l~~~~n~~~~i~--~l----~----  104 (227)
T d1h6ua2          42 GITTLSAFGTGVTTI-EGVQYLNNLIGLELKDNQITDLAP------LKNLTKITELELSGNPLKNVS--AI----A----  104 (227)
T ss_dssp             TCCEEECTTSCCCCC-TTGGGCTTCCEEECCSSCCCCCGG------GTTCCSCCEEECCSCCCSCCG--GG----T----
T ss_pred             CcCEEECCCCCCCcc-hhHhcCCCCcEeecCCceeecccc------ccccccccccccccccccccc--cc----c----
Confidence            344555555555443 457788999999999998765332      356899999999999887432  12    1    


Q ss_pred             cCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcc
Q 012512          255 RIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWL  334 (462)
Q Consensus       255 ~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~  334 (462)
                      .+.+|+.++++++.+...          ..+...+.+..+.++++.+.....       ...+++|++|++++|.+++..
T Consensus       105 ~l~~L~~l~l~~~~~~~~----------~~~~~~~~~~~l~~~~~~~~~~~~-------~~~~~~L~~L~l~~n~~~~~~  167 (227)
T d1h6ua2         105 GLQSIKTLDLTSTQITDV----------TPLAGLSNLQVLYLDLNQITNISP-------LAGLTNLQYLSIGNAQVSDLT  167 (227)
T ss_dssp             TCTTCCEEECTTSCCCCC----------GGGTTCTTCCEEECCSSCCCCCGG-------GGGCTTCCEEECCSSCCCCCG
T ss_pred             cccccccccccccccccc----------chhccccchhhhhchhhhhchhhh-------hccccccccccccccccccch
Confidence            278999999999987652          224567899999999998876432       234688999999999987521


Q ss_pred             cccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCC
Q 012512          335 SKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNP  414 (462)
Q Consensus       335 ~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~  414 (462)
                                .+.   ++++|+.|+|++|++++     ++ .++++++|++|++++|+|++      ++    .+.++++
T Consensus       168 ----------~l~---~l~~L~~L~Ls~n~l~~-----l~-~l~~l~~L~~L~Ls~N~lt~------i~----~l~~l~~  218 (227)
T d1h6ua2         168 ----------PLA---NLSKLTTLKADDNKISD-----IS-PLASLPNLIEVHLKNNQISD------VS----PLANTSN  218 (227)
T ss_dssp             ----------GGT---TCTTCCEEECCSSCCCC-----CG-GGGGCTTCCEEECTTSCCCB------CG----GGTTCTT
T ss_pred             ----------hhc---ccccceecccCCCccCC-----Ch-hhcCCCCCCEEECcCCcCCC------Cc----ccccCCC
Confidence                      233   66899999999999987     33 38899999999999999997      53    3677899


Q ss_pred             ccEEEccC
Q 012512          415 LVELYLEN  422 (462)
Q Consensus       415 L~~L~L~~  422 (462)
                      |+.|++++
T Consensus       219 L~~L~lsn  226 (227)
T d1h6ua2         219 LFIVTLTN  226 (227)
T ss_dssp             CCEEEEEE
T ss_pred             CCEEEeeC
Confidence            99999974

>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=99.44  E-value=1.7e-13  Score=119.18  Aligned_cols=148  Identities=22%  Similarity=0.324  Sum_probs=81.7

Q ss_pred             CCCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCc
Q 012512          196 ESKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPS  275 (462)
Q Consensus       196 ~~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~  275 (462)
                      +.++++|+++++.+... ..     ...+++|++|++++|.+++..+  +.        .+++|++|++++|.+..    
T Consensus        39 l~~l~~L~l~~~~i~~l-~~-----l~~l~nL~~L~Ls~N~l~~~~~--l~--------~l~~L~~L~l~~n~~~~----   98 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSI-DG-----VEYLNNLTQINFSNNQLTDITP--LK--------NLTKLVDILMNNNQIAD----   98 (199)
T ss_dssp             HTTCCEEECTTSCCCCC-TT-----GGGCTTCCEEECCSSCCCCCGG--GT--------TCTTCCEEECCSSCCCC----
T ss_pred             hcCCCEEECCCCCCCCc-cc-----cccCCCcCcCccccccccCccc--cc--------CCccccccccccccccc----
Confidence            35566666666654431 11     2346666666666666654221  11        15666666666666544    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCc
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSL  355 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L  355 (462)
                           +. .+.+++.|+.|++++|.+.....       ...+++|+.|++++|.+...          ..+.   .+.+|
T Consensus        99 -----~~-~l~~l~~L~~L~l~~~~~~~~~~-------~~~l~~L~~L~l~~n~l~~~----------~~l~---~~~~L  152 (199)
T d2omxa2          99 -----IT-PLANLTNLTGLTLFNNQITDIDP-------LKNLTNLNRLELSSNTISDI----------SALS---GLTSL  152 (199)
T ss_dssp             -----CG-GGTTCTTCSEEECCSSCCCCCGG-------GTTCTTCSEEECCSSCCCCC----------GGGT---TCTTC
T ss_pred             -----cc-ccccccccccccccccccccccc-------cchhhhhHHhhhhhhhhccc----------cccc---ccccc
Confidence                 11 24556666666666666554221       23356666666666666531          1122   44566


Q ss_pred             cEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          356 RLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       356 ~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                      +.|++++|++++     ++ .++++++|++|++++|+|++
T Consensus       153 ~~L~l~~n~l~~-----l~-~l~~l~~L~~L~ls~N~i~~  186 (199)
T d2omxa2         153 QQLNFSSNQVTD-----LK-PLANLTTLERLDISSNKVSD  186 (199)
T ss_dssp             SEEECCSSCCCC-----CG-GGTTCTTCCEEECCSSCCCC
T ss_pred             cccccccccccC-----Cc-cccCCCCCCEEECCCCCCCC
Confidence            666666666665     22 35666666666666666665

>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=99.32  E-value=1.9e-11  Score=102.60  Aligned_cols=134  Identities=13%  Similarity=0.103  Sum_probs=96.6

Q ss_pred             HHHHHhcCCCccEEEccC-CCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEe
Q 012512          217 CKLLIQNSETLASLEFLH-CKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLK  295 (462)
Q Consensus       217 ~~~l~~~~~~L~~L~L~~-~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~  295 (462)
                      ...+..+.++|++|+|++ +.+++.+...++.+                                    +..+++|++|+
T Consensus         9 l~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~a------------------------------------l~~n~~L~~L~   52 (166)
T d1io0a_           9 LKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEA------------------------------------LKTNTYVKKFS   52 (166)
T ss_dssp             HHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHH------------------------------------HTTCCSCCEEE
T ss_pred             HHHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHH------------------------------------HhcCCccCeee
Confidence            344455667777777776 45776666655554                                    34456777777


Q ss_pred             cCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEc--cCCCCCcchHHHH
Q 012512          296 LRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNL--RGNNLCKADARDL  373 (462)
Q Consensus       296 Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L--~~n~l~~~~~~~l  373 (462)
                      +++|.+++.+...++..+..+ +.++.+++++|.+++    .+...+...+.   ..++|+.++|  ++|.+++.|+.++
T Consensus        53 Ls~n~l~~~~~~~L~~~l~~~-~~l~~l~l~~~~~~~----~g~~~l~~~l~---~~~~L~~l~L~l~~n~i~~~~~~~L  124 (166)
T d1io0a_          53 IVGTRSNDPVAFALAEMLKVN-NTLKSLNVESNFISG----SGILALVEALQ---SNTSLIELRIDNQSQPLGNNVEMEI  124 (166)
T ss_dssp             CTTSCCCHHHHHHHHHHHHHC-SSCCEEECCSSCCCH----HHHHHHHHGGG---GCSSCCEEECCCCSSCCCHHHHHHH
T ss_pred             ccCCcccHHHHHHHHHHHhhc-ccchhhhhccccccc----hhHHHHHHHHH---hCccccEEeeccCCCcCcHHHHHHH
Confidence            777777777777777776554 678888888777763    44445555555   3467876554  5779999999999


Q ss_pred             HHHhhcCCCCCEEeCCCCCCC
Q 012512          374 GSALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       374 ~~~l~~~~~L~~L~Ls~N~l~  394 (462)
                      +.++..+++|++|+++.+...
T Consensus       125 a~~L~~n~~L~~L~l~~~~~~  145 (166)
T d1io0a_         125 ANMLEKNTTLLKFGYHFTQQG  145 (166)
T ss_dssp             HHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHhCCCcCEEeCcCCCCc
Confidence            999999999999999887654

>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=99.29  E-value=1.1e-12  Score=104.56  Aligned_cols=85  Identities=26%  Similarity=0.348  Sum_probs=39.8

Q ss_pred             CCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCch
Q 012512          317 SSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDD  396 (462)
Q Consensus       317 ~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~  396 (462)
                      +.+|++|++++|.++.         ++..+.   .+++|++|++++|.|++     + +.+..+++|++|++++|.|++ 
T Consensus        19 l~~L~~L~ls~N~l~~---------lp~~~~---~l~~L~~L~l~~N~i~~-----l-~~~~~l~~L~~L~l~~N~i~~-   79 (124)
T d1dcea3          19 LLLVTHLDLSHNRLRA---------LPPALA---ALRCLEVLQASDNALEN-----V-DGVANLPRLQELLLCNNRLQQ-   79 (124)
T ss_dssp             GTTCCEEECCSSCCCC---------CCGGGG---GCTTCCEEECCSSCCCC-----C-GGGTTCSSCCEEECCSSCCCS-
T ss_pred             CCCCCEEECCCCccCc---------chhhhh---hhhcccccccccccccc-----c-CccccccccCeEECCCCccCC-
Confidence            4455555555555543         112223   33455555555555553     2 234555555555555555543 


Q ss_pred             hHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          397 GIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       397 g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                           ++.+ ..+..+++|+.|++++|+++
T Consensus        80 -----~~~~-~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          80 -----SAAI-QPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             -----SSTT-GGGGGCTTCCEEECTTSGGG
T ss_pred             -----CCCc-hhhcCCCCCCEEECCCCcCC
Confidence                 2111 22334455555555555544

>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=99.26  E-value=1.6e-12  Score=108.69  Aligned_cols=129  Identities=17%  Similarity=0.207  Sum_probs=77.3

Q ss_pred             CCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCC
Q 012512          287 SGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLC  366 (462)
Q Consensus       287 ~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~  366 (462)
                      +...+++|+|++|+|+.- . .+    ...+++|++|+|++|.++.             +..+..+++|++|++++|+++
T Consensus        16 n~~~lr~L~L~~n~I~~i-~-~~----~~~l~~L~~L~Ls~N~i~~-------------l~~~~~l~~L~~L~ls~N~i~   76 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVI-E-NL----GATLDQFDAIDFSDNEIRK-------------LDGFPLLRRLKTLLVNNNRIC   76 (162)
T ss_dssp             CTTSCEEEECTTSCCCSC-C-CG----GGGTTCCSEEECCSSCCCE-------------ECCCCCCSSCCEEECCSSCCC
T ss_pred             CcCcCcEEECCCCCCCcc-C-cc----ccccccCCEEECCCCCCCc-------------cCCcccCcchhhhhccccccc
Confidence            345677777777777652 1 11    2335677777777777763             122335677788888888777


Q ss_pred             cchHHHHHH-HhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCc
Q 012512          367 KADARDLGS-ALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPT  445 (462)
Q Consensus       367 ~~~~~~l~~-~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~  445 (462)
                      .     +++ .+..+++|++|++++|.|++      ++.+ ..+..+++|+.|++++|+++..... -...+.. .++|+
T Consensus        77 ~-----l~~~~~~~l~~L~~L~L~~N~i~~------~~~l-~~l~~l~~L~~L~l~~N~i~~~~~~-r~~~i~~-lp~L~  142 (162)
T d1a9na_          77 R-----IGEGLDQALPDLTELILTNNSLVE------LGDL-DPLASLKSLTYLCILRNPVTNKKHY-RLYVIYK-VPQVR  142 (162)
T ss_dssp             E-----ECSCHHHHCTTCCEEECCSCCCCC------GGGG-GGGGGCTTCCEEECCSSGGGGSTTH-HHHHHHH-CTTCS
T ss_pred             C-----CCccccccccccccceeccccccc------cccc-cccccccccchhhcCCCccccccch-HHHHHHH-CCCcC
Confidence            5     322 24567778888888887776      3221 3355667788888888877653211 0123444 24477


Q ss_pred             EEE
Q 012512          446 SLS  448 (462)
Q Consensus       446 ~L~  448 (462)
                      +||
T Consensus       143 ~LD  145 (162)
T d1a9na_         143 VLD  145 (162)
T ss_dssp             EET
T ss_pred             eeC
Confidence            776

>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=99.22  E-value=3.3e-12  Score=101.63  Aligned_cols=104  Identities=23%  Similarity=0.270  Sum_probs=57.4

Q ss_pred             cEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCc
Q 012512          260 ENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDR  339 (462)
Q Consensus       260 ~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~  339 (462)
                      +.|++++|.++.         +. .+..++.|++|++++|.|.. .+..+     ..+++|++|++++|.+++.      
T Consensus         1 R~L~Ls~n~l~~---------l~-~l~~l~~L~~L~ls~N~l~~-lp~~~-----~~l~~L~~L~l~~N~i~~l------   58 (124)
T d1dcea3           1 RVLHLAHKDLTV---------LC-HLEQLLLVTHLDLSHNRLRA-LPPAL-----AALRCLEVLQASDNALENV------   58 (124)
T ss_dssp             SEEECTTSCCSS---------CC-CGGGGTTCCEEECCSSCCCC-CCGGG-----GGCTTCCEEECCSSCCCCC------
T ss_pred             CEEEcCCCCCCC---------Cc-ccccCCCCCEEECCCCccCc-chhhh-----hhhhccccccccccccccc------
Confidence            356666666655         11 24555666666666666654 22222     2356666666666666641      


Q ss_pred             ccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCc
Q 012512          340 SGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIED  395 (462)
Q Consensus       340 ~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~  395 (462)
                          ..+.   .+++|++|++++|+|++-.   -...+..+++|+.|++++|++++
T Consensus        59 ----~~~~---~l~~L~~L~l~~N~i~~~~---~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          59 ----DGVA---NLPRLQELLLCNNRLQQSA---AIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             ----GGGT---TCSSCCEEECCSSCCCSSS---TTGGGGGCTTCCEEECTTSGGGG
T ss_pred             ----Cccc---cccccCeEECCCCccCCCC---CchhhcCCCCCCEEECCCCcCCc
Confidence                1122   4466666666666666421   01245566666666666666653

>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=99.20  E-value=2.9e-12  Score=110.53  Aligned_cols=88  Identities=23%  Similarity=0.260  Sum_probs=38.4

Q ss_pred             cCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCC
Q 012512          286 SSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNL  365 (462)
Q Consensus       286 ~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l  365 (462)
                      ..+++|++|+|++|.+.......     +..+++|++|+|++|+++...+           ..+.++++|++|+|++|+|
T Consensus        51 ~~l~~L~~L~L~~N~i~~~~~~~-----~~~~~~L~~L~Ls~N~l~~l~~-----------~~F~~l~~L~~L~L~~N~l  114 (192)
T d1w8aa_          51 GRLPHLVKLELKRNQLTGIEPNA-----FEGASHIQELQLGENKIKEISN-----------KMFLGLHQLKTLNLYDNQI  114 (192)
T ss_dssp             GGCTTCCEEECCSSCCCCBCTTT-----TTTCTTCCEEECCSCCCCEECS-----------SSSTTCTTCCEEECCSSCC
T ss_pred             CCCceEeeeeccccccccccccc-----cccccccceeeeccccccccCH-----------HHHhCCCcccccccCCccc
Confidence            34455555555555544322221     1233455555555555543222           1122344555555555555


Q ss_pred             CcchHHHHHHHhhcCCCCCEEeCCCCCC
Q 012512          366 CKADARDLGSALVHIPNLEILDISDNTI  393 (462)
Q Consensus       366 ~~~~~~~l~~~l~~~~~L~~L~Ls~N~l  393 (462)
                      +.    .-+.+|..+++|++|+|++|++
T Consensus       115 ~~----i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_         115 SC----VMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CE----ECTTSSTTCTTCCEEECTTCCB
T ss_pred             cc----cCHHHhcCCccccccccccccc
Confidence            53    1122344455555555555544

>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=99.19  E-value=2.7e-12  Score=110.77  Aligned_cols=132  Identities=18%  Similarity=0.141  Sum_probs=100.4

Q ss_pred             CccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccccc
Q 012512          258 KIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKY  337 (462)
Q Consensus       258 ~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~  337 (462)
                      ..+.++.+++.++.         ++..+  -+++++|+|++|.|+.......    +..+++|++|+|++|.+....+  
T Consensus         9 ~~~~v~Cs~~~L~~---------iP~~l--p~~l~~L~Ls~N~i~~~~~~~~----f~~l~~L~~L~L~~N~i~~~~~--   71 (192)
T d1w8aa_           9 EGTTVDCTGRGLKE---------IPRDI--PLHTTELLLNDNELGRISSDGL----FGRLPHLVKLELKRNQLTGIEP--   71 (192)
T ss_dssp             ETTEEECTTSCCSS---------CCSCC--CTTCSEEECCSCCCCSBCCSCS----GGGCTTCCEEECCSSCCCCBCT--
T ss_pred             cCCEEEEeCCCcCc---------cCCCC--CCCCCEEEeCCCCCcccccccc----cCCCceEeeeeccccccccccc--
Confidence            45788899888876         22222  1589999999999975332222    3457899999999999986444  


Q ss_pred             CcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccE
Q 012512          338 DRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVE  417 (462)
Q Consensus       338 ~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~  417 (462)
                            .   .+..+++|++|+|++|+|+.    .-+.+|.++++|++|+|++|.|+.      ++.  ..+..+++|++
T Consensus        72 ------~---~~~~~~~L~~L~Ls~N~l~~----l~~~~F~~l~~L~~L~L~~N~l~~------i~~--~~f~~l~~L~~  130 (192)
T d1w8aa_          72 ------N---AFEGASHIQELQLGENKIKE----ISNKMFLGLHQLKTLNLYDNQISC------VMP--GSFEHLNSLTS  130 (192)
T ss_dssp             ------T---TTTTCTTCCEEECCSCCCCE----ECSSSSTTCTTCCEEECCSSCCCE------ECT--TSSTTCTTCCE
T ss_pred             ------c---ccccccccceeeeccccccc----cCHHHHhCCCcccccccCCccccc------cCH--HHhcCCccccc
Confidence                  3   33366899999999999996    123468899999999999999987      443  66788899999


Q ss_pred             EEccCCCCCh
Q 012512          418 LYLENCELSG  427 (462)
Q Consensus       418 L~L~~n~l~~  427 (462)
                      |+|++|.+..
T Consensus       131 l~L~~N~~~~  140 (192)
T d1w8aa_         131 LNLASNPFNC  140 (192)
T ss_dssp             EECTTCCBCC
T ss_pred             cccccccccc
Confidence            9999999865

>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=99.19  E-value=6e-12  Score=105.18  Aligned_cols=134  Identities=14%  Similarity=0.033  Sum_probs=84.6

Q ss_pred             CCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          256 IHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       256 ~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      ..++++|++++|.++.         +...+..+++|++|+|++|.|..-.  .     +..+++|++|++++|.++...+
T Consensus        17 ~~~lr~L~L~~n~I~~---------i~~~~~~l~~L~~L~Ls~N~i~~l~--~-----~~~l~~L~~L~ls~N~i~~l~~   80 (162)
T d1a9na_          17 AVRDRELDLRGYKIPV---------IENLGATLDQFDAIDFSDNEIRKLD--G-----FPLLRRLKTLLVNNNRICRIGE   80 (162)
T ss_dssp             TTSCEEEECTTSCCCS---------CCCGGGGTTCCSEEECCSSCCCEEC--C-----CCCCSSCCEEECCSSCCCEECS
T ss_pred             cCcCcEEECCCCCCCc---------cCccccccccCCEEECCCCCCCccC--C-----cccCcchhhhhcccccccCCCc
Confidence            4456777777777765         2223345678888888888887521  1     2456788888888888874222


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchh-HHhHHHHHHhhcCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDG-IRSLIPYFVQASERCNP  414 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g-~~~l~~~l~~~l~~~~~  414 (462)
                              ..+.   .+++|+.|++++|+|++-.  . ...+..+++|++|++++|++++.. .+.      ..+..+++
T Consensus        81 --------~~~~---~l~~L~~L~L~~N~i~~~~--~-l~~l~~l~~L~~L~l~~N~i~~~~~~r~------~~i~~lp~  140 (162)
T d1a9na_          81 --------GLDQ---ALPDLTELILTNNSLVELG--D-LDPLASLKSLTYLCILRNPVTNKKHYRL------YVIYKVPQ  140 (162)
T ss_dssp             --------CHHH---HCTTCCEEECCSCCCCCGG--G-GGGGGGCTTCCEEECCSSGGGGSTTHHH------HHHHHCTT
T ss_pred             --------cccc---cccccccceeccccccccc--c-ccccccccccchhhcCCCccccccchHH------HHHHHCCC
Confidence                    1122   3467888888888887521  0 135677888888888888876521 110      12445578


Q ss_pred             ccEEEccCCCCCh
Q 012512          415 LVELYLENCELSG  427 (462)
Q Consensus       415 L~~L~L~~n~l~~  427 (462)
                      |+.||  +..++.
T Consensus       141 L~~LD--~~~i~~  151 (162)
T d1a9na_         141 VRVLD--FQKVKL  151 (162)
T ss_dssp             CSEET--TEECCH
T ss_pred             cCeeC--CCCCCH
Confidence            88776  445555

>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=99.11  E-value=2.4e-13  Score=122.10  Aligned_cols=203  Identities=11%  Similarity=0.053  Sum_probs=128.3

Q ss_pred             CCcCEEEeccCCChHHHHHHHHHHHhcCCCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCC-CCCCCCCCc
Q 012512          197 SKLQSLVLRWIRFEEHVQALCKLLIQNSETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDI-SSFIENCPS  275 (462)
Q Consensus       197 ~~L~~L~L~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~-~~~~~~~~~  275 (462)
                      +++++|++++|.+.......    +.++++|++|++++|.+......       ..+..+..++++.+.. +.+..    
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~----f~~l~~L~~L~ls~n~~~~~i~~-------~~f~~l~~l~~l~~~~~n~l~~----   93 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGA----FSGFGDLEKIEISQNDVLEVIEA-------DVFSNLPKLHEIRIEKANNLLY----   93 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTT----TTTCTTCCEEEEESCTTCCEECS-------SSEESCTTCCEEEEECCTTCCE----
T ss_pred             CCCCEEECcCCcCCccChhH----hhccchhhhhhhccccccceeec-------cccccccccccccccccccccc----
Confidence            46899999999875433221    35689999999999977532111       0111267788888754 45544    


Q ss_pred             hhHHHHHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCC-CC
Q 012512          276 SVVVELVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSL-QS  354 (462)
Q Consensus       276 ~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l-~~  354 (462)
                          .....+..+++|++|++++|.+........    ...+..+..+..+++.+....+        ..+.   ++ ..
T Consensus        94 ----~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~----~~~l~~l~~~~~~n~~l~~i~~--------~~~~---~~~~~  154 (242)
T d1xwdc1          94 ----INPEAFQNLPNLQYLLISNTGIKHLPDVHK----IHSLQKVLLDIQDNINIHTIER--------NSFV---GLSFE  154 (242)
T ss_dssp             ----ECTTSEECCTTCCEEEEESCCCCSCCCCTT----TCBSSCEEEEEESCTTCCEECT--------TSST---TSBSS
T ss_pred             ----cccccccccccccccccchhhhcccccccc----cccccccccccccccccccccc--------cccc---ccccc
Confidence                234556788999999999998875332211    2334556666667777664211        1122   22 47


Q ss_pred             ccEEEccCCCCCcchHHHHHHHhhcCCCCCEE-eCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHH
Q 012512          355 LRLLNLRGNNLCKADARDLGSALVHIPNLEIL-DISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQL  433 (462)
Q Consensus       355 L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L-~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l  433 (462)
                      ++.|++++|+++.     ++.......++.++ ++++|.|+.      ++.  ..+.++++|+.|++++|+|+...    
T Consensus       155 l~~L~l~~n~l~~-----i~~~~~~~~~l~~~~~l~~n~l~~------l~~--~~f~~l~~L~~L~Ls~N~l~~l~----  217 (242)
T d1xwdc1         155 SVILWLNKNGIQE-----IHNCAFNGTQLDELNLSDNNNLEE------LPN--DVFHGASGPVILDISRTRIHSLP----  217 (242)
T ss_dssp             CEEEECCSSCCCE-----ECTTTTTTCCEEEEECTTCTTCCC------CCT--TTTTTSCCCSEEECTTSCCCCCC----
T ss_pred             ceeeecccccccc-----cccccccchhhhcccccccccccc------ccH--HHhcCCCCCCEEECCCCcCCccC----
Confidence            8899999999986     44444455666666 467788876      442  45778899999999999988631    


Q ss_pred             HHHHhcCCCCCcEEEccC
Q 012512          434 LDTLSTLRRPPTSLSIAD  451 (462)
Q Consensus       434 ~~~l~~l~~~L~~L~Ls~  451 (462)
                      ...+..+ +.|+.+++.+
T Consensus       218 ~~~~~~l-~~L~~l~~~~  234 (242)
T d1xwdc1         218 SYGLENL-KKLRARSTYN  234 (242)
T ss_dssp             SSSCTTC-CEEESSSEES
T ss_pred             HHHHcCC-cccccCcCCC
Confidence            1234442 3355555543

>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=5.3e-12  Score=109.29  Aligned_cols=140  Identities=19%  Similarity=0.178  Sum_probs=87.0

Q ss_pred             HHHhhcCCCCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEc
Q 012512          281 LVSFLSSGRSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNL  360 (462)
Q Consensus       281 l~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L  360 (462)
                      +...+..+++|++|+|++|.|.+-  ..+.     .+++|++|++++|.++...+      +.   .   .+.+|+.|++
T Consensus        40 l~~sl~~L~~L~~L~Ls~n~I~~i--~~l~-----~l~~L~~L~Ls~N~i~~i~~------~~---~---~~~~L~~L~l  100 (198)
T d1m9la_          40 MDATLSTLKACKHLALSTNNIEKI--SSLS-----GMENLRILSLGRNLIKKIEN------LD---A---VADTLEELWI  100 (198)
T ss_dssp             CHHHHHHTTTCCEEECSEEEESCC--CCHH-----HHTTCCEEECCEEEECSCSS------HH---H---HHHHCCEEEC
T ss_pred             hhhHHhcccccceeECcccCCCCc--cccc-----CCccccChhhcccccccccc------cc---c---cccccccccc
Confidence            445566678888888888877652  1221     24778888888888764211      11   1   1146888888


Q ss_pred             cCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhH------HHHH
Q 012512          361 RGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGV------SQLL  434 (462)
Q Consensus       361 ~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~------~~l~  434 (462)
                      ++|+|++     + +.+..+++|+.|++++|.|++      ++.+ ..+..+++|+.|++++|++.....      ..-.
T Consensus       101 ~~N~i~~-----l-~~~~~l~~L~~L~L~~N~i~~------~~~~-~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~  167 (198)
T d1m9la_         101 SYNQIAS-----L-SGIEKLVNLRVLYMSNNKITN------WGEI-DKLAALDKLEDLLLAGNPLYNDYKENNATSEYRI  167 (198)
T ss_dssp             SEEECCC-----H-HHHHHHHHSSEEEESEEECCC------HHHH-HHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHH
T ss_pred             ccccccc-----c-ccccccccccccccccchhcc------cccc-ccccCCCccceeecCCCccccCcccccchhhHHH
Confidence            8888885     3 346667788888888888876      3322 345667888888888887544211      0111


Q ss_pred             HHHhcCCCCCcEEEccCCCCC
Q 012512          435 DTLSTLRRPPTSLSIADNNLG  455 (462)
Q Consensus       435 ~~l~~l~~~L~~L~Ls~N~l~  455 (462)
                      ..+..+ ++|+.||  +..++
T Consensus       168 ~vi~~l-p~L~~LD--~~~I~  185 (198)
T d1m9la_         168 EVVKRL-PNLKKLD--GMPVD  185 (198)
T ss_dssp             HHHHHC-SSCCEES--SGGGT
T ss_pred             HHHHHC-CCcCEeC--CccCC
Confidence            234453 4588876  44444

>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=99.01  E-value=4e-10  Score=105.99  Aligned_cols=56  Identities=25%  Similarity=0.318  Sum_probs=44.4

Q ss_pred             CCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEEEccCCCCCC
Q 012512          380 IPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       380 ~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      +++|++|++++|.|+.      +|   .   ..++|+.|++++|+|+.     +++    ..++|++|++++|+|+.
T Consensus       283 ~~~L~~L~Ls~N~l~~------lp---~---~~~~L~~L~L~~N~L~~-----l~~----~~~~L~~L~L~~N~L~~  338 (353)
T d1jl5a_         283 PPSLEELNVSNNKLIE------LP---A---LPPRLERLIASFNHLAE-----VPE----LPQNLKQLHVEYNPLRE  338 (353)
T ss_dssp             CTTCCEEECCSSCCSC------CC---C---CCTTCCEEECCSSCCSC-----CCC----CCTTCCEEECCSSCCSS
T ss_pred             CCCCCEEECCCCccCc------cc---c---ccCCCCEEECCCCcCCc-----ccc----ccCCCCEEECcCCcCCC
Confidence            4689999999999886      54   2   24789999999999987     332    24569999999999974

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.89  E-value=9e-11  Score=104.79  Aligned_cols=182  Identities=19%  Similarity=0.201  Sum_probs=124.4

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHH-HHhhcCCCCCCEEecCC-CCCC
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVEL-VSFLSSGRSLCSLKLRH-CHLD  302 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l-~~~l~~l~~L~~L~Ls~-n~l~  302 (462)
                      +++++|++++|.++......+.        .+++|++|++++|.+..        .+ ...+..++.++++.+.. |.+.
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~f~--------~l~~L~~L~ls~n~~~~--------~i~~~~f~~l~~l~~l~~~~~n~l~   92 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGAFS--------GFGDLEKIEISQNDVLE--------VIEADVFSNLPKLHEIRIEKANNLL   92 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTTTT--------TCTTCCEEEEESCTTCC--------EECSSSEESCTTCCEEEEECCTTCC
T ss_pred             CCCCEEECcCCcCCccChhHhh--------ccchhhhhhhccccccc--------eeecccccccccccccccccccccc
Confidence            4899999999999743332332        27899999999998765        11 23456788999998764 5666


Q ss_pred             hhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCC-
Q 012512          303 RDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIP-  381 (462)
Q Consensus       303 ~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~-  381 (462)
                      ...+..     +..+++|++|++++|.+....+          ......+..+..+...++.++.-.    ...+..++ 
T Consensus        93 ~~~~~~-----~~~l~~L~~l~l~~~~l~~~~~----------~~~~~~l~~l~~~~~~n~~l~~i~----~~~~~~~~~  153 (242)
T d1xwdc1          93 YINPEA-----FQNLPNLQYLLISNTGIKHLPD----------VHKIHSLQKVLLDIQDNINIHTIE----RNSFVGLSF  153 (242)
T ss_dssp             EECTTS-----EECCTTCCEEEEESCCCCSCCC----------CTTTCBSSCEEEEEESCTTCCEEC----TTSSTTSBS
T ss_pred             cccccc-----ccccccccccccchhhhccccc----------cccccccccccccccccccccccc----ccccccccc
Confidence            644443     3567899999999999874211          122234467777778888887521    22344443 


Q ss_pred             CCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEE-EccCCCCChhhHHHHH-HHHhcCCCCCcEEEccCCCCCC
Q 012512          382 NLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVEL-YLENCELSGRGVSQLL-DTLSTLRRPPTSLSIADNNLGR  456 (462)
Q Consensus       382 ~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L-~L~~n~l~~~~~~~l~-~~l~~l~~~L~~L~Ls~N~l~~  456 (462)
                      .++.|++++|.++.      ++   .......++.++ .+++|+++.     ++ ..+.. .++|++|++++|+|+.
T Consensus       154 ~l~~L~l~~n~l~~------i~---~~~~~~~~l~~~~~l~~n~l~~-----l~~~~f~~-l~~L~~L~Ls~N~l~~  215 (242)
T d1xwdc1         154 ESVILWLNKNGIQE------IH---NCAFNGTQLDELNLSDNNNLEE-----LPNDVFHG-ASGPVILDISRTRIHS  215 (242)
T ss_dssp             SCEEEECCSSCCCE------EC---TTTTTTCCEEEEECTTCTTCCC-----CCTTTTTT-SCCCSEEECTTSCCCC
T ss_pred             cceeeecccccccc------cc---cccccchhhhcccccccccccc-----ccHHHhcC-CCCCCEEECCCCcCCc
Confidence            78899999999986      43   222334565555 568888887     32 23555 4669999999999984

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.83  E-value=4.7e-11  Score=103.14  Aligned_cols=130  Identities=26%  Similarity=0.280  Sum_probs=91.3

Q ss_pred             CCCEEecCCC--CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCc
Q 012512          290 SLCSLKLRHC--HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK  367 (462)
Q Consensus       290 ~L~~L~Ls~n--~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~  367 (462)
                      .++.+++++.  .+.. ....+     ..+++|++|+|++|.|+..          ..+.   ++++|+.|+|++|.|++
T Consensus        24 ~~~~~~l~~~~~~i~~-l~~sl-----~~L~~L~~L~Ls~n~I~~i----------~~l~---~l~~L~~L~Ls~N~i~~   84 (198)
T d1m9la_          24 EAEKVELHGMIPPIEK-MDATL-----STLKACKHLALSTNNIEKI----------SSLS---GMENLRILSLGRNLIKK   84 (198)
T ss_dssp             TCSCEECCBCCTTCCC-CHHHH-----HHTTTCCEEECSEEEESCC----------CCHH---HHTTCCEEECCEEEECS
T ss_pred             ccceeeeecccCchhh-hhhHH-----hcccccceeECcccCCCCc----------cccc---CCccccChhhccccccc
Confidence            4556666654  2332 22333     2368999999999998851          1233   45789999999999986


Q ss_pred             chHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChhhHHHHHHHHhcCCCCCcEE
Q 012512          368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGRGVSQLLDTLSTLRRPPTSL  447 (462)
Q Consensus       368 ~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~L~~L  447 (462)
                           ++.....+++|+.|++++|.|++      ++.    +..+++|+.|++++|+|+..+.   ...+..+ ++|++|
T Consensus        85 -----i~~~~~~~~~L~~L~l~~N~i~~------l~~----~~~l~~L~~L~L~~N~i~~~~~---~~~l~~l-~~L~~L  145 (198)
T d1m9la_          85 -----IENLDAVADTLEELWISYNQIAS------LSG----IEKLVNLRVLYMSNNKITNWGE---IDKLAAL-DKLEDL  145 (198)
T ss_dssp             -----CSSHHHHHHHCCEEECSEEECCC------HHH----HHHHHHSSEEEESEEECCCHHH---HHHHTTT-TTCSEE
T ss_pred             -----ccccccccccccccccccccccc------ccc----ccccccccccccccchhccccc---cccccCC-Ccccee
Confidence                 33333344579999999999997      432    3344789999999999988421   2456664 559999


Q ss_pred             EccCCCCCCc
Q 012512          448 SIADNNLGRF  457 (462)
Q Consensus       448 ~Ls~N~l~~~  457 (462)
                      ++++|++...
T Consensus       146 ~L~~N~l~~~  155 (198)
T d1m9la_         146 LLAGNPLYND  155 (198)
T ss_dssp             EECSSHHHHH
T ss_pred             ecCCCccccC
Confidence            9999987543

>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=98.74  E-value=3.7e-09  Score=87.16  Aligned_cols=108  Identities=19%  Similarity=0.182  Sum_probs=70.8

Q ss_pred             CCCCEEecCCCCCChhhHHHHHHHHhhCCCCccEEEecCCC-CCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCc
Q 012512          289 RSLCSLKLRHCHLDRDFGRMVFSSLLEASSSLSILDLSGNS-IGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCK  367 (462)
Q Consensus       289 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~  367 (462)
                      ...+.++.+++.+. ..+..+     ...++|++|++++|+ ++...+           ..+.++++|+.|+|++|+|+.
T Consensus         8 ~~~~~l~c~~~~~~-~~p~~l-----~~l~~l~~L~l~~n~~l~~i~~-----------~~f~~l~~L~~L~Ls~N~l~~   70 (156)
T d2ifga3           8 HGSSGLRCTRDGAL-DSLHHL-----PGAENLTELYIENQQHLQHLEL-----------RDLRGLGELRNLTIVKSGLRF   70 (156)
T ss_dssp             SSSSCEECCSSCCC-TTTTTS-----CSCSCCSEEECCSCSSCCEECG-----------GGSCSCCCCSEEECCSSCCCE
T ss_pred             CCCCeEEecCCCCc-cCcccc-----cCccccCeeecCCCccccccCc-----------hhhccccccCcceeeccccCC
Confidence            35566777766553 444432     445778888887664 664222           223366788888888888886


Q ss_pred             chHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCC
Q 012512          368 ADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELS  426 (462)
Q Consensus       368 ~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~  426 (462)
                      -    -+.+|..+++|++|+|++|.|+.      ++.  ..+.. .+|+.|+|++|++.
T Consensus        71 i----~~~~f~~l~~L~~L~Ls~N~l~~------l~~--~~~~~-~~l~~L~L~~Np~~  116 (156)
T d2ifga3          71 V----APDAFHFTPRLSRLNLSFNALES------LSW--KTVQG-LSLQELVLSGNPLH  116 (156)
T ss_dssp             E----CTTGGGSCSCCCEEECCSSCCSC------CCS--TTTCS-CCCCEEECCSSCCC
T ss_pred             c----ccccccccccccceeccCCCCcc------cCh--hhhcc-ccccccccCCCccc
Confidence            1    24567888888888888888875      442  33333 46888888888875

>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=98.58  E-value=2.3e-08  Score=82.27  Aligned_cols=108  Identities=21%  Similarity=0.144  Sum_probs=78.7

Q ss_pred             CCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCC-CCChhhHHHHHHHHhhCCCCccEEEecCCCCCCccc
Q 012512          257 HKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHC-HLDRDFGRMVFSSLLEASSSLSILDLSGNSIGGWLS  335 (462)
Q Consensus       257 ~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n-~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~  335 (462)
                      ...+.++.+++.+.+         .+..+..+++|++|++++| .++......     +..+++|+.|+|++|+|+...+
T Consensus         8 ~~~~~l~c~~~~~~~---------~p~~l~~l~~l~~L~l~~n~~l~~i~~~~-----f~~l~~L~~L~Ls~N~l~~i~~   73 (156)
T d2ifga3           8 HGSSGLRCTRDGALD---------SLHHLPGAENLTELYIENQQHLQHLELRD-----LRGLGELRNLTIVKSGLRFVAP   73 (156)
T ss_dssp             SSSSCEECCSSCCCT---------TTTTSCSCSCCSEEECCSCSSCCEECGGG-----SCSCCCCSEEECCSSCCCEECT
T ss_pred             CCCCeEEecCCCCcc---------CcccccCccccCeeecCCCccccccCchh-----hccccccCcceeeccccCCccc
Confidence            445667777776665         3445667789999999766 477644433     3567899999999999886433


Q ss_pred             ccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCC
Q 012512          336 KYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIE  394 (462)
Q Consensus       336 ~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~  394 (462)
                              .++.   ++++|++|+|++|+|+.     ++.......+|+.|+|++|++.
T Consensus        74 --------~~f~---~l~~L~~L~Ls~N~l~~-----l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          74 --------DAFH---FTPRLSRLNLSFNALES-----LSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             --------TGGG---SCSCCCEEECCSSCCSC-----CCSTTTCSCCCCEEECCSSCCC
T ss_pred             --------cccc---ccccccceeccCCCCcc-----cChhhhccccccccccCCCccc
Confidence                    3344   56899999999999985     6665555668999999999985

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.32  E-value=3.9e-07  Score=84.84  Aligned_cols=139  Identities=23%  Similarity=0.239  Sum_probs=92.0

Q ss_pred             CCccEEEccCCCCChhHHHHHHHHHhcccccCCCccEEecCCCCCCCCCCchhHHHHHHhhcCCCCCCEEecCCCCCChh
Q 012512          225 ETLASLEFLHCKLSPSFVEGICRSLCSKRKRIHKIENLSIDISSFIENCPSSVVVELVSFLSSGRSLCSLKLRHCHLDRD  304 (462)
Q Consensus       225 ~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~l~~~l~~l~~L~~L~Ls~n~l~~~  304 (462)
                      .++++|+|+++.++         .+...   .++|++|++++|.++...         .   ...+|+.|++++|.++.-
T Consensus        38 ~~l~~LdLs~~~L~---------~lp~~---~~~L~~L~Ls~N~l~~lp---------~---~~~~L~~L~l~~n~l~~l   93 (353)
T d1jl5a_          38 RQAHELELNNLGLS---------SLPEL---PPHLESLVASCNSLTELP---------E---LPQSLKSLLVDNNNLKAL   93 (353)
T ss_dssp             HTCSEEECTTSCCS---------CCCSC---CTTCSEEECCSSCCSSCC---------C---CCTTCCEEECCSSCCSCC
T ss_pred             cCCCEEEeCCCCCC---------CCCCC---CCCCCEEECCCCCCcccc---------c---chhhhhhhhhhhcccchh
Confidence            36888999988876         12221   467888888888887622         1   235788888888877641


Q ss_pred             hHHHHHHHHhhCCCCccEEEecCCCCCCcccccCcccHHHhhhCCCCCCCccEEEccCCCCCcchHHHHHHHhhcCCCCC
Q 012512          305 FGRMVFSSLLEASSSLSILDLSGNSIGGWLSKYDRSGPLFSLGAGKSLQSLRLLNLRGNNLCKADARDLGSALVHIPNLE  384 (462)
Q Consensus       305 ~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~~~~~l~~~l~~~~~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~  384 (462)
                      .         .-.+.|++|++++|.+...             .....++.|+.|++++|.++..     +   .....+.
T Consensus        94 ~---------~lp~~L~~L~L~~n~l~~l-------------p~~~~l~~L~~L~l~~~~~~~~-----~---~~~~~l~  143 (353)
T d1jl5a_          94 S---------DLPPLLEYLGVSNNQLEKL-------------PELQNSSFLKIIDVDNNSLKKL-----P---DLPPSLE  143 (353)
T ss_dssp             C---------SCCTTCCEEECCSSCCSSC-------------CCCTTCTTCCEEECCSSCCSCC-----C---CCCTTCC
T ss_pred             h---------hhccccccccccccccccc-------------cchhhhccceeecccccccccc-----c---ccccccc
Confidence            1         1124688888888887641             1122557888888888877652     1   2245677


Q ss_pred             EEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCCh
Q 012512          385 ILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSG  427 (462)
Q Consensus       385 ~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~  427 (462)
                      .+++..+...+      .    ..+..++.++.+.+++|.+..
T Consensus       144 ~l~~~~~~~~~------~----~~l~~l~~l~~L~l~~n~~~~  176 (353)
T d1jl5a_         144 FIAAGNNQLEE------L----PELQNLPFLTAIYADNNSLKK  176 (353)
T ss_dssp             EEECCSSCCSS------C----CCCTTCTTCCEEECCSSCCSS
T ss_pred             chhhccccccc------c----ccccccccceecccccccccc
Confidence            77777776554      2    345566788888888887665

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=4.2e-07  Score=74.98  Aligned_cols=16  Identities=31%  Similarity=0.275  Sum_probs=9.2

Q ss_pred             CCCccEEEecCCCCCC
Q 012512          317 SSSLSILDLSGNSIGG  332 (462)
Q Consensus       317 ~~~L~~L~Ls~n~l~~  332 (462)
                      +++|++|+|++|+|++
T Consensus        64 ~~~L~~L~Ls~N~i~~   79 (162)
T d1koha1          64 IPELLSLNLSNNRLYR   79 (162)
T ss_dssp             CTTCCCCCCCSSCCCC
T ss_pred             CCCCCEeeCCCccccC
Confidence            4556666666666553

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=4.7e-08  Score=80.89  Aligned_cols=94  Identities=26%  Similarity=0.304  Sum_probs=65.3

Q ss_pred             CCCCccEEEccCCCCCcchHHHHHHHhhcCCCCCEEeCCCCCCCchhHHhHHHHHHhhcCCCCCccEEEccCCCCChh--
Q 012512          351 SLQSLRLLNLRGNNLCKADARDLGSALVHIPNLEILDISDNTIEDDGIRSLIPYFVQASERCNPLVELYLENCELSGR--  428 (462)
Q Consensus       351 ~l~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~N~l~~~g~~~l~~~l~~~l~~~~~L~~L~L~~n~l~~~--  428 (462)
                      .+++|++|+|++|+|++-.  .+...+..+++|+.|++++|.|++      ++.+ ..+. ...|+.|++++|+++..  
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~--~~~~~~~~l~~L~~L~Ls~N~i~~------l~~l-~~l~-~~~L~~L~L~~Npl~~~~~  132 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLD--DMSSIVQKAPNLKILNLSGNELKS------EREL-DKIK-GLKLEELWLDGNSLSDTFR  132 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCS--GGGTHHHHSTTCCCCCCTTSCCCC------GGGH-HHHT-TCCCSSCCCTTSTTSSSSS
T ss_pred             hCCCCCEeeCCCccccCCc--hhHHHHhhCCcccccccccCcccc------chhh-hhhh-ccccceeecCCCCcCcCcc
Confidence            4588999999999998632  244567789999999999999998      4332 2233 35799999999998752  


Q ss_pred             -hHHHHHHHHhcCCCCCcEEEccCCCCCCc
Q 012512          429 -GVSQLLDTLSTLRRPPTSLSIADNNLGRF  457 (462)
Q Consensus       429 -~~~~l~~~l~~l~~~L~~L~Ls~N~l~~~  457 (462)
                       ........+.. -++|+.||  ++++...
T Consensus       133 ~~~~y~~~i~~~-~P~L~~LD--g~~v~p~  159 (162)
T d1koha1         133 DQSTYISAIRER-FPKLLRLD--GHELPPP  159 (162)
T ss_dssp             SHHHHHHHHHTT-STTCCEET--TEECCCC
T ss_pred             cchhHHHHHHHH-CCCCCEEC--cCCCcCC
Confidence             12233444555 45699887  6666443

>d2ovrb1 a.158.1.1 (B:2263-2364) F-box/WD repeat-containing protein 7, FBXW7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: F-box domain
superfamily: F-box domain
family: F-box domain
domain: F-box/WD repeat-containing protein 7, FBXW7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.15  E-value=0.78  Score=32.58  Aligned_cols=71  Identities=18%  Similarity=0.213  Sum_probs=44.9

Q ss_pred             CcchhccCchHHHHHHHhcCChhhhhhhhhhCCCCCCCCCCCCCccccccccccccCCchHHHHHHHhchhcCCCC----
Q 012512           25 VIPYVYELPADLFDILLTCLPPLALQKLQTKMPFRDGDDCGSPDYCFENGRKRGRYGNFNTVWKKLFKTRWSGFTD----  100 (462)
Q Consensus        25 ~~~~l~~lp~~l~~~l~~~l~~~~l~~~~~~~pf~~~~~~~~~~~~~~~~~~~~r~~~~~~~w~~~~~~~~~~~~~----  100 (462)
                      ...-+..||.|+...|+..|++.-+-++.              .+ .++|+.-+.+   +..|+..+...|.....    
T Consensus        15 ~~D~i~~LP~Eil~~Ils~Ld~~dL~~~~--------------~v-cr~w~~l~~~---~~lW~~~~~r~~~~~~~~~~~   76 (102)
T d2ovrb1          15 QRDFISLLPKELALYVLSFLEPKDLLQAA--------------QT-CRYWRILAED---NLLWREKCKEEGIDEPLHIKR   76 (102)
T ss_dssp             CCSTTTSSCHHHHHHHHTTSCHHHHHHHT--------------TS-CHHHHHHHTC---SHHHHHHHTTTTCCSCCCCCC
T ss_pred             ccCChhhCCHHHHHHHHHcCCHHHHHHHH--------------HH-HHHHHHHHCC---HHHHHHHHHHcCCCCchHHHh
Confidence            44557889999999999999987665554              11 4444443332   35899888765533211    


Q ss_pred             ------CCCCCchHHHHHH
Q 012512          101 ------QIEPVDWQQRYWE  113 (462)
Q Consensus       101 ------~~~~~~~~~~~~~  113 (462)
                            ......|++.|..
T Consensus        77 ~~~~~~~~~~~~WK~~Y~~   95 (102)
T d2ovrb1          77 RKVIKPGFIHSPWKSAYIR   95 (102)
T ss_dssp             --CCSSCCCCCHHHHHHHH
T ss_pred             hhcccCCCCCcCHHHHHHH
Confidence                  1124568888753